Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008368.1 Hibiscus syriacus cultivar Beakdansim tig00111122_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: 134069
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:6147 original size:18 final size:18
Alignment explanation
Indices: 6090--6150 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
6080 GCGAGAGTTG
*
6090 TTGCATTCTTCCCGTTAGC
1 TTGC-TTCTCCCCGTTAGC
*
6109 TTACTTCTCCCCGTTAGC
1 TTGCTTCTCCCCGTTAGC
6127 TTGCTTCTCCCCGTTAGC
1 TTGCTTCTCCCCGTTAGC
6145 TTGCTT
1 TTGCTT
6151 TGGAACTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 36 0.92
19 3 0.08
ACGTcount: A:0.08, C:0.34, G:0.15, T:0.43
Consensus pattern (18 bp):
TTGCTTCTCCCCGTTAGC
Found at i:7856 original size:31 final size:31
Alignment explanation
Indices: 7818--7876 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
7808 AAACTTTATG
* * *
7818 CATTAGGGGATAGTTTCAGTTATGCATCCAA
1 CATTAGGGGATAATATCAATTATGCATCCAA
7849 CATTAGGGGATAATATCAATTATGCATC
1 CATTAGGGGATAATATCAATTATGCATC
7877 TAGAACTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (31 bp):
CATTAGGGGATAATATCAATTATGCATCCAA
Found at i:10467 original size:15 final size:15
Alignment explanation
Indices: 10447--10477 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10437 CAACAGATAA
10447 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
10462 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
10477 A
1 A
10478 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:17896 original size:19 final size:19
Alignment explanation
Indices: 17869--17915 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
17859 AAAATTAGAG
* *
17869 CAAAGATCAGAGATCATAA
1 CAAATATCAGAGATCAGAA
* *
17888 CAAATATCATATATCAGAA
1 CAAATATCAGAGATCAGAA
17907 CAAATATCA
1 CAAATATCA
17916 AAGTCTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.17, G:0.09, T:0.21
Consensus pattern (19 bp):
CAAATATCAGAGATCAGAA
Found at i:23710 original size:12 final size:12
Alignment explanation
Indices: 23689--23720 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
23679 GGAGGAGGAG
23689 GAGGAGGAAAGAA
1 GAGGA-GAAAGAA
23702 GAGGAGAAAGAA
1 GAGGAGAAAGAA
23714 GAGGAGA
1 GAGGAGA
23721 GGGAGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (12 bp):
GAGGAGAAAGAA
Found at i:24876 original size:2 final size:2
Alignment explanation
Indices: 24869--24919 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
24859 TAAAGCTCTC
24869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24911 AT AT AT AT A
1 AT AT AT AT A
24920 AAGTTTGTGT
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:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27884 original size:18 final size:18
Alignment explanation
Indices: 27858--27893 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27848 TCGAAAGGAC
*
27858 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
27876 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
27894 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:30762 original size:19 final size:17
Alignment explanation
Indices: 30710--30749 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
30700 TTCTAAAAAA
30710 ATAATAATATTTTAATT
1 ATAATAATATTTTAATT
30727 ATAATAATATTTTAATT
1 ATAATAATATTTTAATT
30744 A-AATAA
1 ATAATAA
30750 CTTATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATAATATTTTAATT
Found at i:31537 original size:45 final size:45
Alignment explanation
Indices: 31487--31592 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 45
31477 GGCAAGACCT
* * *
31487 GGGTCACACAACATC-AGCATCTCCCAAAAACCTCAGGCGAGGTCC
1 GGGTCACACAACATCGA-CACCACCCAAAAACCTCAAGCGAGGTCC
* * *
31532 GGGTCACACAACATCGACACCACCCAAATACCTTAAGCTAGGTCC
1 GGGTCACACAACATCGACACCACCCAAAAACCTCAAGCGAGGTCC
* *
31577 GAGTGACACAACATCG
1 GGGTCACACAACATCG
31593 GTACCTTGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.33, C:0.34, G:0.19, T:0.14
Consensus pattern (45 bp):
GGGTCACACAACATCGACACCACCCAAAAACCTCAAGCGAGGTCC
Found at i:33744 original size:31 final size:31
Alignment explanation
Indices: 33706--33917 Score: 354
Period size: 31 Copynumber: 6.8 Consensus size: 31
33696 CGAGGGTTAC
33706 CTATGTTCTTCGGGACATATGGACTGATTAT
1 CTATGTTCTTCGGGACATATGGACTGATTAT
33737 CTATGTTCTTCGGGACATATGGACTGATTAT
1 CTATGTTCTTCGGGACATATGGACTGATTAT
*
33768 CTATGTTCTTCGGGATATATGGACTGATTAT
1 CTATGTTCTTCGGGACATATGGACTGATTAT
*
33799 CTATGTTCTTCGGGACATATGGACTGATTAC
1 CTATGTTCTTCGGGACATATGGACTGATTAT
33830 CTATGTTCTTCGGGACATATGGACTGATTA-
1 CTATGTTCTTCGGGACATATGGACTGATTAT
* *
33860 CTTATGTTCTTTGGGACATATGGACTGATTAC
1 C-TATGTTCTTCGGGACATATGGACTGATTAT
* *
33892 CTATGTTCTTCGGAATATATGGACTG
1 CTATGTTCTTCGGGACATATGGACTG
33918 GTCATTCGGG
Statistics
Matches: 172, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
30 1 0.01
31 170 0.99
32 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (31 bp):
CTATGTTCTTCGGGACATATGGACTGATTAT
Found at i:38295 original size:31 final size:31
Alignment explanation
Indices: 38257--38379 Score: 201
Period size: 31 Copynumber: 4.0 Consensus size: 31
38247 GAGTCGAGGG
*
38257 TTACCTATGTTATTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
38288 TTACCTATGTTCTTCGGGACATATGGACTAA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
38319 TTACCTATGTTCTTTGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
38350 TTACTTATGTTCTTCGGAACATATGGACTG
1 TTACCTATGTTCTTCGGGACATATGGACTG
38380 GTCTTTCAGG
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 85 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:44924 original size:14 final size:13
Alignment explanation
Indices: 44897--44954 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
44887 CCGAGTGTTA
44897 TATTA-ATATATAT
1 TATTATATAT-TAT
44910 TATTATATATGTAT
1 TATTATATAT-TAT
44924 TA--ATATATTAT
1 TATTATATATTAT
44935 TATTATATTATTTAT
1 TATTATA-TA-TTAT
44950 TATTA
1 TATTA
44955 CAAATAGAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 5 0.13
12 6 0.15
13 8 0.21
14 11 0.28
15 9 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATATATTAT
Found at i:44932 original size:22 final size:22
Alignment explanation
Indices: 44894--44954 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
44884 CGTCCGAGTG
*
44894 TTATATTAAT-ATATATTATTA
1 TTATATTATTAATATATTATTA
44915 -TATATGTATTAATATATTATTA
1 TTATAT-TATTAATATATTATTA
*
44937 TTATATTATTTAT-TATTA
1 TTATATTATTAATATATTA
44955 CAAATAGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.14
21 8 0.23
22 17 0.49
23 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATATTATTAATATATTATTA
Found at i:45473 original size:25 final size:25
Alignment explanation
Indices: 45444--45497 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
45434 GCAACAGAAT
* *
45444 AAGAGAAAGGAGAGTAAGAGACAAC
1 AAGAGAAAGGAGAGCAAGAAACAAC
*
45469 AAGAGAAAGGAGAGCAAGAAACAGC
1 AAGAGAAAGGAGAGCAAGAAACAAC
45494 AAGA
1 AAGA
45498 ACGACGTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.31, T:0.02
Consensus pattern (25 bp):
AAGAGAAAGGAGAGCAAGAAACAAC
Found at i:52652 original size:22 final size:22
Alignment explanation
Indices: 52627--52678 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
52617 TACATTTTGT
* *
52627 AAAGATTATAGATTCTCTTTTC
1 AAAGATGATAGATTATCTTTTC
52649 AAAGATGATAGATTATCTTTTC
1 AAAGATGATAGATTATCTTTTC
52671 AAAGATGA
1 AAAGATGA
52679 AGGCTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (22 bp):
AAAGATGATAGATTATCTTTTC
Found at i:53248 original size:21 final size:21
Alignment explanation
Indices: 53224--53443 Score: 258
Period size: 21 Copynumber: 10.7 Consensus size: 21
53214 CGAAGAAAAT
*
53224 TAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
53245 TAAAGCCTTCGGGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
*
53265 TAAAGCCTTCGGCTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
*
53286 TAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
53307 TAAAGCCTTCGGGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
* *
53327 TAAAGCCTTTGAGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
*
53347 TAAAGCCTTCAGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
*
53368 TAAAGCCTTCGCGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
**
53389 TAAAGCCTTTAGGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
*
53409 TAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
53430 TAAAGCCTTCGGGT
1 TAAAGCCTTCGGGT
53444 CATTAGTATT
Statistics
Matches: 171, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.02
20 65 0.38
21 100 0.58
22 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.39
Consensus pattern (21 bp):
TAAAGCCTTCGGGTAGTTTTG
Found at i:53321 original size:62 final size:60
Alignment explanation
Indices: 53224--53447 Score: 303
Period size: 62 Copynumber: 3.6 Consensus size: 60
53214 CGAAGAAAAT
53224 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTCGGCTAGTTTTG
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTT-GG-TAGTTTTG
*
53286 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTTG-AGTCATTTG
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTGGTAGT--TTTG
* * *
53347 TAAAGCCTTCAGGTAGTTTTGTAAAGCCTTCGCGT-AGTTTTGTAAAGCCTT--TAGGTCATTTG
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCA--TTTGTAAAGCCTTGGTA-GT--TTTG
53409 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATT
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATT
53448 AGTATTCCTC
Statistics
Matches: 148, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
59 3 0.02
60 1 0.01
61 40 0.27
62 103 0.70
63 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (60 bp):
TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTGGTAGTTTTG
Found at i:53447 original size:41 final size:41
Alignment explanation
Indices: 53224--53443 Score: 245
Period size: 41 Copynumber: 5.3 Consensus size: 41
53214 CGAAGAAAAT
*
53224 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCA--TTTG
1 TAAAGCCTTCGGGTAG-TTTGTAAAGCCTTCGGGT-AGTTTTG
* *
53265 TAAAGCCTTCGGCTAGTTTTGTAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGTAG-TTTGTAAAGCCTTCGGGTAGTTTTG
* *
53307 TAAAGCCTTCGGGTCA-TTTGTAAAGCCTTTGAGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTGTAAAGCCTTCGGGT-AGTTTTG
* *
53347 TAAAGCCTTCAGGTAGTTTTGTAAAGCCTTCGCGTAGTTTTG
1 TAAAGCCTTCGGGTAG-TTTGTAAAGCCTTCGGGTAGTTTTG
** *
53389 TAAAGCCTTTAGGTCA-TTTGTAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGT-AGTTTGTAAAGCCTTCGGGTAGTTTTG
53430 TAAAGCCTTCGGGT
1 TAAAGCCTTCGGGT
53444 CATTAGTATT
Statistics
Matches: 155, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 19 0.12
41 98 0.63
42 35 0.23
43 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.39
Consensus pattern (41 bp):
TAAAGCCTTCGGGTAGTTTGTAAAGCCTTCGGGTAGTTTTG
Found at i:53826 original size:96 final size:96
Alignment explanation
Indices: 53710--53888 Score: 286
Period size: 96 Copynumber: 1.9 Consensus size: 96
53700 GAAGTGAGAA
* * *
53710 CAAGATCCAAATTCTCTCTCCACAGAAGAGTAGTGGAACGTATTTTTCAGCAAAGTATGAAACCT
1 CAAGATCAAAATTCGCTCTCCACAGAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATGAAACCT
*
53775 TCATGGAAGAATAGTGAAACAAGAGCATAAG
66 TCACGGAAGAATAGTGAAACAAGAGCATAAG
* * *
53806 CAAGATCAAAATTCGCTCTCCACGGAAGAGTAGTGGAATGGATTTTTCAGCAAAGTATTAAACCT
1 CAAGATCAAAATTCGCTCTCCACAGAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATGAAACCT
*
53871 TCACGGAAGAGTAGTGAA
66 TCACGGAAGAATAGTGAA
53889 CCAATTTCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (96 bp):
CAAGATCAAAATTCGCTCTCCACAGAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATGAAACCT
TCACGGAAGAATAGTGAAACAAGAGCATAAG
Found at i:54217 original size:8 final size:8
Alignment explanation
Indices: 54195--54252 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
54185 CGTCCGAGTG
54195 TTATATTAA
1 TTATATT-A
54204 TATATATTA
1 T-TATATTA
54213 TTATA-TA
1 TTATATTA
*
54220 -TGTATTA
1 TTATATTA
*
54227 ATATATTA
1 TTATATTA
54235 TTATATTA
1 TTATATTA
54243 TT-TATTA
1 TTATATTA
54250 TTA
1 TTA
54253 CAATGGAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
6 3 0.07
7 11 0.26
8 19 0.45
9 3 0.07
10 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:54233 original size:22 final size:23
Alignment explanation
Indices: 54205--54249 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
54195 TTATATTAAT
54205 ATATATTATTATA-TATGTATTA
1 ATATATTATTATATTATGTATTA
*
54227 ATATATTATTATATTATTTATTA
1 ATATATTATTATATTATGTATTA
54250 TTACAATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
ATATATTATTATATTATGTATTA
Found at i:54252 original size:10 final size:10
Alignment explanation
Indices: 54196--54250 Score: 65
Period size: 10 Copynumber: 5.1 Consensus size: 10
54186 GTCCGAGTGT
*
54196 TATATTAATA
1 TATATTATTA
54206 TATATTATTA
1 TATATTATTA
54216 TATATGTATTAA
1 TATAT-TATT-A
54228 TATATTATTA
1 TATATTATTA
54238 TATTATTTATTA
1 TA-TA-TTATTA
54250 T
1 T
54251 TACAATGGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 17 0.43
11 10 0.25
12 13 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TATATTATTA
Found at i:54777 original size:25 final size:25
Alignment explanation
Indices: 54744--54794 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
54734 ACAGAATAAA
* *
54744 AGAAAGGAGAGCAAGAGACAACAAG
1 AGAAAGGAGAACAAGAAACAACAAG
*
54769 AGAAAGGAGAACAAGAAACAGCAAG
1 AGAAAGGAGAACAAGAAACAACAAG
54794 A
1 A
54795 ACGACGAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.59, C:0.12, G:0.29, T:0.00
Consensus pattern (25 bp):
AGAAAGGAGAACAAGAAACAACAAG
Found at i:61000 original size:19 final size:19
Alignment explanation
Indices: 60953--61000 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
60943 AATGGTTTTC
60953 TTTTGAAAACAAAAGTTGAT
1 TTTTGAAAACAAAAG-TGAT
**
60973 TTTAAAAAACAAAA-TGAAT
1 TTTTGAAAACAAAAGTG-AT
60992 TTTTGAAAA
1 TTTTGAAAA
61001 AAGATTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.09
19 9 0.39
20 12 0.52
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.33
Consensus pattern (19 bp):
TTTTGAAAACAAAAGTGAT
Found at i:62568 original size:21 final size:21
Alignment explanation
Indices: 62535--62578 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
62525 TTTATTAAAT
62535 CTTACAAAGGTAGTACCGATA
1 CTTACAAAGGTAGTACCGATA
62556 CTTATCAAA-GTAGTACCGATA
1 CTTA-CAAAGGTAGTACCGATA
62577 CT
1 CT
62579 ACCTGTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
CTTACAAAGGTAGTACCGATA
Found at i:63729 original size:28 final size:28
Alignment explanation
Indices: 63665--63780 Score: 110
Period size: 29 Copynumber: 3.9 Consensus size: 28
63655 AACTTATTAG
**
63665 ATATATTTTATTCTT-TTCATAAGCTAAAA
1 ATATATTTTATTCTTATT--TAATTTAAAA
63694 ATATATTTTATTCTTATTTAATTTAAAA
1 ATATATTTTATTCTTATTTAATTTAAAA
*
63722 ATATATTTTAATT-TTATTTTAAATTAAAAA
1 ATATATTTT-ATTCTTA-TTT-AATTTAAAA
*
63752 ATATATAATTTATTCTTATATTAACTTAA
1 ATATAT--TTTATTCTTAT-TTAATTTAA
63781 GTATTTATAT
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
28 20 0.27
29 21 0.28
30 16 0.22
31 9 0.12
32 8 0.11
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (28 bp):
ATATATTTTATTCTTATTTAATTTAAAA
Found at i:63909 original size:30 final size:29
Alignment explanation
Indices: 63827--64123 Score: 273
Period size: 29 Copynumber: 10.3 Consensus size: 29
63817 AGAAATATAT
* *
63827 AATATATTTTTTAGTTAAGATAAAAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
*
63856 AATATATTTTT-AGTT-A-A-AA-TA-AA
1 AATATATTTTTAAGTTAAGATAAGAATAA
*
63879 AATATATTTTTAATTTAAGATAAGAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
* * * *
63908 AAGATATGTTTAAGTTAAAATAAGAATTA
1 AATATATTTTTAAGTTAAGATAAGAATAA
* * * * * *
63937 ATTATATTTAATAATTTAAGGTAATAATAT
1 AATATATTT-TTAAGTTAAGATAAGAATAA
* * * *
63967 AATATATTTTATAATTTAAGTTAAGCATAT
1 AATATATTTT-TAAGTTAAGATAAGAATAA
* ** *
63997 AATTTATGTAATAAGTTAAGATAGGAATAA
1 AATATAT-TTTTAAGTTAAGATAAGAATAA
64027 AATATATTTTTAAGTTAAGATAAAGAATAA
1 AATATATTTTTAAGTTAAGAT-AAGAATAA
*
64057 AATATATTTTTAAGTTAAAATAAGAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
* * * *
64086 AATATATTTTTAGGTCAAGAAAATAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
64115 AATATATTT
1 AATATATTT
64124 AATAAATCAA
Statistics
Matches: 217, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
23 13 0.06
24 4 0.02
25 3 0.01
26 2 0.01
27 3 0.01
28 5 0.02
29 96 0.44
30 90 0.41
31 1 0.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.40
Consensus pattern (29 bp):
AATATATTTTTAAGTTAAGATAAGAATAA
Found at i:63955 original size:35 final size:32
Alignment explanation
Indices: 63916--63990 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 32
63906 AAAAGATATG
63916 TTTAAGTTAAAATAAGAATTAATTATATTTAATAA
1 TTTAAGTTAAAATAA-AA-TAA-TATATTTAATAA
* * *
63951 TTTAAGGT--AATAATATAATATATTTTATAA
1 TTTAAGTTAAAATAAAATAATATATTTAATAA
63981 TTTAAGTTAA
1 TTTAAGTTAA
63991 GCATATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
30 18 0.53
31 3 0.09
32 1 0.03
33 5 0.15
35 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (32 bp):
TTTAAGTTAAAATAAAATAATATATTTAATAA
Found at i:64084 original size:59 final size:59
Alignment explanation
Indices: 63877--64124 Score: 241
Period size: 59 Copynumber: 4.2 Consensus size: 59
63867 AGTTAAAATA
* * * * *
63877 AAAATATATTTTTAATTTAAGATAAGAATAAAAGATATGTTTAAGTTAAAAT-AAGAAT
1 AAAATATATTTATAAGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAAT
* * * * * * * * *
63935 TAATTATATTTAATAATTTAAGGTAATAATATAATATATTTTATAATTTAAG-TTAAGCAT
1 AAAATATATTT-ATAAGTTAAGATAAGAATAAAATATATTTT-TAAGTTAAGATAAAGAAT
* * * *
63995 ATAATTTATGTAATAAGTTAAGATAGGAATAAAATATATTTTTAAGTTAAGATAAAGAAT
1 AAAATATAT-TTATAAGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAAT
* * * * *
64055 AAAATATATTTTTAAGTTAAAATAAGAATAAAATATATTTTTAGGTCAAGA-AAATAAT
1 AAAATATATTTATAAGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAAT
64113 AAAATATATTTA
1 AAAATATATTTA
64125 ATAAATCAAT
Statistics
Matches: 151, Mismatches: 34, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
58 26 0.17
59 69 0.46
60 55 0.36
61 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (59 bp):
AAAATATATTTATAAGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAAT
Found at i:69220 original size:33 final size:32
Alignment explanation
Indices: 69140--69221 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
69130 AATATAATTT
*
69140 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATA-AACAAA-TTACAATAACTATTAAATGG
*
69174 TAAATAAAAAAATTACAATAACTGATATAAATGG
1 TAAATAAACAAATTACAATAACT-AT-TAAATGG
69208 T-AATAAACAAATTA
1 TAAATAAACAAATTA
69222 ACAAAAGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 10 0.23
33 19 0.44
34 14 0.33
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (32 bp):
TAAATAAACAAATTACAATAACTATTAAATGG
Found at i:69252 original size:22 final size:24
Alignment explanation
Indices: 69216--69261 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
69206 GGTAATAAAC
69216 AAATTAACAAAAGTCCAA-CAAAT
1 AAATTAACAAAAGTCCAACCAAAT
69239 AAATTAA-AAAAGTCCAACCAAAT
1 AAATTAACAAAAGTCCAACCAAAT
69262 TAGCAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.17
Consensus pattern (24 bp):
AAATTAACAAAAGTCCAACCAAAT
Found at i:69263 original size:19 final size:21
Alignment explanation
Indices: 69214--69268 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
69204 ATGGTAATAA
69214 ACAAATTAACAAAAGTCCAAC
1 ACAAATTAACAAAAGTCCAAC
*
69235 AAATAAATTAA-AAAAGTCCAAC
1 --ACAAATTAACAAAAGTCCAAC
*
69257 -CAAATTAGCAAA
1 ACAAATTAACAAA
69269 TAAAGTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 3 0.11
22 11 0.39
23 8 0.29
ACGTcount: A:0.60, C:0.18, G:0.05, T:0.16
Consensus pattern (21 bp):
ACAAATTAACAAAAGTCCAAC
Found at i:69727 original size:200 final size:197
Alignment explanation
Indices: 69366--69762 Score: 726
Period size: 197 Copynumber: 2.0 Consensus size: 197
69356 CGATGTATGT
69366 GATGCGAATGTGTTCCGCAGGGCGGTGGTTGTCTGTCTCGAGGAGGATTTCTTGTATAACTGGTT
1 GATGCGAATGTGTTCCGCAGGGCGGTGGTTGTCTGTCTCGAGGAGGATTTCTTGTATAACTGGTT
*
69431 CTGACTCCTCATTGTCATCATCATCACCATCATCGTCATCGTAAGAGCATATATTTTGTTGATGA
66 CTGACTCCTCACTGTCATCATCATCACCATCATCGTCATCGTAAGAGCATATATTTTGTTGATGA
69496 GGAACTGATGACGATGTAGCACCCTCATAGAATAAGGACC-TGGAGGTGTATGATCCTCCTACAT
131 GGAACTGATGACGATGTAGCACCCTCATAGAATAAGGACCTTGGAGGTGTATGATCCTCCTACAT
69560 CA
196 CA
69562 GATGCGAATGTGTTCCGCAGGGCGGTGGTTGTCTGTCTCGAGGAGGATTTCTTCGTATAACTGGT
1 GATGCGAATGTGTTCCGCAGGGCGGTGGTTGTCTGTCTCGAGGAGGATTTCTT-GTATAACTGGT
69627 TCTGACTCCTCACTGTCATCATCATCACCATCATCGTCATCGTAAGGAGCATATATATTTTGTTG
65 TCTGACTCCTCACTGTCATCATCATCACCATCATCGTCATCGTAA-GAGC--ATATATTTTGTTG
69692 ATGAGGAACTGATGACGATGTAGCA-CCTCCATAGAATAAGGACCTTGGAGGTGTATGATCCTCC
127 ATGAGGAACTGATGACGATGTAGCACCCT-CATAGAATAAGGACCTTGGAGGTGTATGATCCTCC
69756 TACATCA
191 TACATCA
69763 CGACCCACTC
Statistics
Matches: 194, Mismatches: 1, Indels: 7
0.96 0.00 0.03
Matches are distributed among these distances:
196 53 0.27
197 55 0.28
198 4 0.02
199 3 0.02
200 53 0.27
201 26 0.13
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (197 bp):
GATGCGAATGTGTTCCGCAGGGCGGTGGTTGTCTGTCTCGAGGAGGATTTCTTGTATAACTGGTT
CTGACTCCTCACTGTCATCATCATCACCATCATCGTCATCGTAAGAGCATATATTTTGTTGATGA
GGAACTGATGACGATGTAGCACCCTCATAGAATAAGGACCTTGGAGGTGTATGATCCTCCTACAT
CA
Found at i:71144 original size:29 final size:30
Alignment explanation
Indices: 71108--71178 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
71098 AAAAAAATTA
71108 ATTAAATAAAATATTAA-AAAAT-TTAAAT
1 ATTAAATAAAATATTAACAAAATATTAAAT
*
71136 AGTTAAATAAAATACTAACAAAATATTAAAT
1 A-TTAAATAAAATATTAACAAAATATTAAAT
71167 A-T-AATAAAATAT
1 ATTAAATAAAATAT
71179 ACCTTAACGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 10 0.26
29 16 0.42
30 5 0.13
31 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (30 bp):
ATTAAATAAAATATTAACAAAATATTAAAT
Found at i:71177 original size:17 final size:18
Alignment explanation
Indices: 71145--71178 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71135 TAGTTAAATA
71145 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
71163 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
71179 ACCTTAACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:73423 original size:23 final size:22
Alignment explanation
Indices: 73395--73446 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
73385 GACACTTTAC
73395 ATATAACCACTACCTATTACATT
1 ATATAACCA-TACCTATTACATT
*
73418 ATATAAACGATACCTATTACATT
1 ATAT-AACCATACCTATTACATT
73441 ATATAA
1 ATATAA
73447 GGGCTACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 21 0.78
24 4 0.15
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAACCATACCTATTACATT
Found at i:73936 original size:36 final size:38
Alignment explanation
Indices: 73861--73972 Score: 162
Period size: 36 Copynumber: 3.0 Consensus size: 38
73851 GTAGATTTTT
73861 TTTCCTTTTGCTTGGCATCATATGAGATTTGGATTTTGA
1 TTTCC-TTTGCTTGGCATCATATGAGATTTGGATTTTGA
73900 TTTCC-TTGCTTGGCATCATATGAGA-TTGGATTTTGA
1 TTTCCTTTGCTTGGCATCATATGAGATTTGGATTTTGA
*
73936 TTTCCTTTTGCTTGG---CATATGAGCTTTGGATTTTGA
1 TTTCC-TTTGCTTGGCATCATATGAGATTTGGATTTTGA
73972 T
1 T
73973 GAGCATCGGA
Statistics
Matches: 69, Mismatches: 1, Indels: 9
0.87 0.01 0.11
Matches are distributed among these distances:
35 8 0.12
36 28 0.41
37 20 0.29
38 8 0.12
39 5 0.07
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.48
Consensus pattern (38 bp):
TTTCCTTTGCTTGGCATCATATGAGATTTGGATTTTGA
Found at i:74249 original size:18 final size:18
Alignment explanation
Indices: 74226--74262 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74216 CGAAATATAT
74226 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
74244 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
74262 A
1 A
74263 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:74539 original size:25 final size:25
Alignment explanation
Indices: 74511--74561 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
74501 TTAATCCAAA
*
74511 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
74536 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
74561 T
1 T
74562 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:80180 original size:3 final size:3
Alignment explanation
Indices: 80172--80246 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
80162 ACTTGTTTGG
* * * **
80172 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
80220 AGC TTC ATC GTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
80247 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:82876 original size:196 final size:198
Alignment explanation
Indices: 81687--83750 Score: 2589
Period size: 195 Copynumber: 10.9 Consensus size: 198
81677 TATTTAAATT
81687 AGTATCGACACAAACTATATTAGTGTCGACACA-T-TTT-GACATATTCTCTCATAAAA-CGG--
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
81746 T-A-TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
81809 A-CGACACTTTTTATATATGGATCGACAC-TTATGGGTGCACC-TGCTTTCCATT-ATTCTGGGA
131 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
81870 AAAA
195 AAAA
81874 AGTA-CGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-T-TCTCATAAAAACCGGT
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGT
81936 ATAATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGTTCGATGA-TTTGG
65 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
81998 GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTCCATTCATTCTGGGA
130 GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
82062 AAAA
195 AAAA
*
82066 AGTATCGACACAAACTATATTAGTGTCGACAC-TTATTTAGAC--ATTCTCTCATAAAA-CGATA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
82127 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
82191 ATCGACACTTTTTATATATGGATCGACAC-TTATAGGGTGTACCTTG-TTTCCATTCATTCTGGG
131 ATCGACAC-TTTTATATATGGATCGACACTTTAT-GGGTGCACCTTGTTTTCCATTCATTCTGGG
82254 AAAAA
194 AAAAA
82259 AGTATCGACACAAAACTATATTAGTGTCGACACA-TA-TTAGACATATTCTCTCATAAAA-CGGT
1 AGTATCGACAC-AAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
82321 ATAA-TGTACCGGTTAGATTGAAAAAATTACATATTACA-TATACTTTTGGG-TCGATGA-TTTG
65 ATAATTGTACCGGTTAGATTG-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
82382 GGATCGACAC-TTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGG
129 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG
82445 AAAAA
194 AAAAA
82450 AGTATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
82512 TAATTGTA-CGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
82575 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-
131 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
82639 AAAA
195 AAAA
82643 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
82708 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
82773 ATCGACAC-TTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
82836 AAA
196 AAA
82839 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
82904 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTT---
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
82965 -T-G--------------GGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
83014 AAA
196 AAA
83017 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
** *** * * ** * **** * * * * *
83082 TAACCGGTTACATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTA-TATAT-GGATCGA-CA
66 TAA-TTG-TACCGGTTAGATT-GAAAAATTACATAT-TACA--TTATACT-TTTGGGTTCGATGA
* * ** * * **** * * **
83144 CTTTATGGG-GC-AC-CTTGT-T-T-TCCAT---CA--TTCT-GG-GAAAAAAG-TATCGACACA
124 -TTT-TGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCA
** * **
83195 AACT---ATATT
187 TTCTGGGAAAAA
* * * * * * ** ** *
83204 AGTGTCGACAC--A-T-TA-T--T-TAGACATATTCTCTCATA-A-AACCGGT-ATAATTGTACC
1 AGTATCGACACAAACTATATTAGTGTCGACACATTAT-TTAGACATATTCTCTCATAA---AACC
83258 GGT-T-A--G-A----TT-GA----AAAATTACATATTACATTATAC-TTTGGGTTCGATGATTT
62 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
83308 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
127 TGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
83373 GGGAAAAA
191 GGGAAAAA
*
83381 AGTA-CGACACAAACTATATTAGTGTCGACACATTATTAAGACATA-T-TCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
83443 TAATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTAGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
83507 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
83572 AAAA
195 AAAA
83576 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-T-TCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
83638 TAATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
83702 ATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 ATCGACAC--TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
83751 GGCCATATTG
Statistics
Matches: 1657, Mismatches: 100, Indels: 231
0.83 0.05 0.12
Matches are distributed among these distances:
159 6 0.00
160 14 0.01
161 3 0.00
162 4 0.00
163 8 0.00
164 1 0.00
165 1 0.00
166 3 0.00
168 1 0.00
169 4 0.00
171 3 0.00
172 2 0.00
173 4 0.00
174 8 0.00
175 1 0.00
176 6 0.00
177 9 0.01
178 123 0.07
179 13 0.01
180 20 0.01
181 14 0.01
182 6 0.00
183 15 0.01
184 23 0.01
185 4 0.00
186 29 0.02
187 23 0.01
188 28 0.02
189 37 0.02
190 106 0.06
191 174 0.11
192 96 0.06
193 170 0.10
194 92 0.06
195 289 0.17
196 252 0.15
197 23 0.01
198 42 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (198 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
AAA
Found at i:83897 original size:18 final size:18
Alignment explanation
Indices: 83871--83917 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
83861 TTATATTCAC
83871 ATACAAAAATATAAATCGT
1 ATAC-AAAATATAAATCGT
*
83890 ATACAAAATATAAATCTT
1 ATACAAAATATAAATCGT
83908 ATACAAAATA
1 ATACAAAATA
83918 ACTCGACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (18 bp):
ATACAAAATATAAATCGT
Found at i:85505 original size:15 final size:14
Alignment explanation
Indices: 85460--85507 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
85450 CATCGACTTC
*
85460 CTTCCTCCTCATTT
1 CTTCCTCCTCTTTT
85474 CTTCCAT-CTCTTCTT
1 CTTCC-TCCTCTT-TT
85489 CTTCCTCCCTCTTTT
1 CTTCCT-CCTCTTTT
85504 CTTC
1 CTTC
85508 TTCATATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (14 bp):
CTTCCTCCTCTTTT
Found at i:85731 original size:33 final size:33
Alignment explanation
Indices: 85694--85759 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
85684 CATCTTAATA
*
85694 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
85727 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
85760 CCATCTATTT
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:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:85833 original size:21 final size:21
Alignment explanation
Indices: 85793--85857 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
85783 CCCCTTATTC
* *
85793 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
85814 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
85835 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
85856 CT
1 CT
85858 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:88106 original size:17 final size:18
Alignment explanation
Indices: 88084--88126 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
88074 ATATATCCGG
88084 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
88101 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
88121 TATCAT
1 TATCAT
88127 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:88116 original size:20 final size:20
Alignment explanation
Indices: 88089--88135 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
88079 TCCGGTATCA
88089 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
88108 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
88129 TTTTACC
1 TTTTACC
88136 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:88281 original size:20 final size:21
Alignment explanation
Indices: 88255--88301 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
88245 CACTTTTAAA
88255 TTTACCGG-TTTTATCAT-TT
1 TTTACCGGTTTTTATCATATT
88274 TGTTACCGGTTTTTATCATATT
1 T-TTACCGGTTTTTATCATATT
88296 TTTACC
1 TTTACC
88302 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 14 0.56
22 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTACCGGTTTTTATCATATT
Found at i:89720 original size:14 final size:14
Alignment explanation
Indices: 89693--89765 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
89683 TTTAAATAGT
89693 TATT-ATAT-TTTA
1 TATTAATATATTTA
89705 TATTAATATATTTA
1 TATTAATATATTTA
* * *
89719 TATAAATATTTTTT
1 TATTAATATATTTA
89733 TATTAAAATAATATTTA
1 TATT--AAT-ATATTTA
89750 TA-TAATTATTATTTA
1 TATTAA-TA-TATTTA
89765 T
1 T
89766 TTAGAATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.08
13 4 0.08
14 21 0.44
15 8 0.17
16 4 0.08
17 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTAATATATTTA
Found at i:93147 original size:29 final size:31
Alignment explanation
Indices: 93099--93182 Score: 118
Period size: 29 Copynumber: 2.8 Consensus size: 31
93089 TTCTTAATCT
93099 CAAAAGGAAAATGAGGCAAGAGAAGAT-A-A
1 CAAAAGGAAAATGAGGCAAGAGAAGATGATA
* *
93128 CAGAAGGAAAATGAGACAAGAGAAGATGATA
1 CAAAAGGAAAATGAGGCAAGAGAAGATGATA
* *
93159 GAAAAAGAAAATGAGGCAAGAGAA
1 CAAAAGGAAAATGAGGCAAGAGAA
93183 TGGAGGAGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 25 0.53
30 1 0.02
31 21 0.45
ACGTcount: A:0.58, C:0.06, G:0.29, T:0.07
Consensus pattern (31 bp):
CAAAAGGAAAATGAGGCAAGAGAAGATGATA
Found at i:97473 original size:20 final size:20
Alignment explanation
Indices: 97448--97540 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
97438 TTTTCCCAAT
97448 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
97468 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
97488 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
97509 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
97530 TCGCAATGCGA
1 TCGCAATGCGA
97541 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:97490 original size:41 final size:41
Alignment explanation
Indices: 97445--97540 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
97435 CGATTTTCCC
97445 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
97486 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
97527 AAATCGCAATGCGA
1 AATTCGCAATGCGA
97541 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:97494 original size:21 final size:20
Alignment explanation
Indices: 97448--97540 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
97438 TTTTCCCAAT
*
97448 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
97468 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
97488 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
97509 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
97530 TCGCAATGCGA
1 TCGCAATGCGA
97541 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:97553 original size:41 final size:41
Alignment explanation
Indices: 97508--97643 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
97498 GAATAAGTAA
*
97508 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGATATT-GGAAAATCGCAACGCGATACTGACT
* * ** * *
97549 ATCGCAATGCGATAATAAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGATATTGGAAAATCGCAACGCGATACTGACT
* * ***
97590 TTCGCAACGCGATACT-GACTTTCGCAACGCGATACTGACT
1 ATCGCAACGCGATATTGGAAAATCGCAACGCGATACTGACT
*
97630 TTCGCAACGCGATA
1 ATCGCAACGCGATA
97644 ATACATAATC
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
40 32 0.41
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGATATTGGAAAATCGCAACGCGATACTGACT
Found at i:97554 original size:20 final size:20
Alignment explanation
Indices: 97529--97643 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
97519 AATTGGGAAA
*
97529 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
97549 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
97570 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
97590 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
97610 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
97630 TTCGCAACGCGATA
1 ATCGCAACGCGATA
97644 ATACATAATC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 67 0.83
21 14 0.17
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:97631 original size:40 final size:41
Alignment explanation
Indices: 97526--97663 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
97516 GCGAATTGGG
* * *
97526 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
97567 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
*** *
97607 ACTTTCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
97648 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
97664 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 33 0.42
41 45 0.58
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:97859 original size:22 final size:22
Alignment explanation
Indices: 97831--97874 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
97821 CACTCTCTCA
97831 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
97853 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
97875 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:98161 original size:20 final size:20
Alignment explanation
Indices: 98136--98173 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98126 CGATTCTCTC
98136 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
98156 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
98174 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:99505 original size:18 final size:18
Alignment explanation
Indices: 99484--99528 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
99474 TCCACTTCGG
*
99484 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
99502 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
99520 GAGCCATCA
1 GAGCCATCA
99529 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:100053 original size:19 final size:20
Alignment explanation
Indices: 99999--100065 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
99989 TAGTTTACTT
* *
99999 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
100019 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
100039 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
100058 TCGCAACG
1 TCGCAACG
100066 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:100073 original size:14 final size:14
Alignment explanation
Indices: 100054--100111 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
100044 ATGCGAAATG
100054 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
100068 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
100084 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
100100 AAAATCGCAACG
1 AAAATCGCAACG
100112 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:100096 original size:32 final size:33
Alignment explanation
Indices: 100038--100128 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
100028 GGAAATGGCT
*
100038 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
100071 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
100103 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
100129 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:100122 original size:19 final size:19
Alignment explanation
Indices: 99999--100133 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
99989 TAGTTTACTT
* **
99999 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
100019 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
100039 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
100058 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
100072 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
100090 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
100104 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
100123 TCGCAATGCGA
1 TCGCAACGCGA
100134 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:100203 original size:19 final size:19
Alignment explanation
Indices: 100140--100246 Score: 100
Period size: 19 Copynumber: 5.9 Consensus size: 19
100130 GCGATTTGTG
100140 TTTCGCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
100158 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
100174 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
100191 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
100210 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATTTTCA
100230 TTTCGCGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
100247 AAGTTTCGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
14 8 0.11
15 3 0.04
16 2 0.03
17 2 0.03
18 16 0.22
19 25 0.34
20 17 0.23
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:100223 original size:20 final size:19
Alignment explanation
Indices: 100189--100243 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
100179 TTGCGATTTT
*
100189 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
100208 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
100228 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
100244 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:102127 original size:14 final size:14
Alignment explanation
Indices: 102108--102143 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
102098 ATTGTTTAAT
102108 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
102122 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
102136 TGATTTGT
1 TGATTTGT
102144 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:102269 original size:14 final size:15
Alignment explanation
Indices: 102250--102321 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 15
102240 CGAAATGGCT
102250 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
102264 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
102282 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
102301 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
102315 ATCGCAA
1 ATCGCAA
102322 TGCAATTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 18 0.37
15 1 0.02
16 4 0.08
17 2 0.04
18 13 0.27
19 9 0.18
20 1 0.02
21 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.12
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:102314 original size:19 final size:19
Alignment explanation
Indices: 102260--102307 Score: 89
Period size: 18 Copynumber: 2.6 Consensus size: 19
102250 ATCGCAACGA
102260 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
102279 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
102297 GAAAATCGCAA
1 GAAAATCGCAA
102308 CGAGAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:102402 original size:20 final size:20
Alignment explanation
Indices: 102352--102402 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
102342 GCGATATTCT
* *
102352 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
102372 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
102392 CGTTGCGATAG
1 CGTTGCGATAG
102403 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:102800 original size:14 final size:15
Alignment explanation
Indices: 102765--102802 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
102755 TTGATTGTTA
102765 ATTGATTTGTAAAAG
1 ATTGATTTGTAAAAG
*
102780 ATT-ATTTGTAAATG
1 ATTGATTTGTAAAAG
102794 -TTGATTTGT
1 ATTGATTTGT
102803 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 16 0.76
15 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (15 bp):
ATTGATTTGTAAAAG
Found at i:104096 original size:24 final size:24
Alignment explanation
Indices: 104040--104098 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
104030 AGTCAGTATT
* *
104040 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
104064 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
104088 CGAATTTTGAT
1 CGAAATTTGAT
104099 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:104290 original size:12 final size:12
Alignment explanation
Indices: 104273--104297 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104263 ATATAATCCT
104273 GAAGAAGAAAAA
1 GAAGAAGAAAAA
104285 GAAGAAGAAAAA
1 GAAGAAGAAAAA
104297 G
1 G
104298 TCCCTGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:106598 original size:19 final size:19
Alignment explanation
Indices: 106576--106673 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
106566 CGGAAATACT
106576 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
106595 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
106609 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
106628 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
106642 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
106661 ATCGCAACGCGAA
1 ATCGCAATGCGAA
106674 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:106618 original size:33 final size:33
Alignment explanation
Indices: 106576--106669 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
106566 CGGAAATACT
106576 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
106609 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
106642 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
106670 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:106743 original size:19 final size:18
Alignment explanation
Indices: 106673--106744 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
106663 CGCAACGCGA
*
106673 ATTTAATTTCGCGTTGCG
1 ATTTCATTTCGCGTTGCG
106691 ATTTCATTTTCGCGTTGCG
1 ATTTCA-TTTCGCGTTGCG
*
106710 A-TTC---TCTCGTTGCG
1 ATTTCATTTCGCGTTGCG
*
106724 ATTTTCATTTCGCATTGCG
1 A-TTTCATTTCGCGTTGCG
106743 AT
1 AT
106745 AGTACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.23
16 3 0.07
18 9 0.20
19 22 0.50
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (18 bp):
ATTTCATTTCGCGTTGCG
Found at i:106870 original size:14 final size:15
Alignment explanation
Indices: 106851--106887 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
106841 CATCAATTAA
106851 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
106865 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
106879 ACAAATCAA
1 ACAAATCAA
106888 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:108299 original size:21 final size:21
Alignment explanation
Indices: 108233--108299 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
108223 GTGAATCGGG
*
108233 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
108253 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
108275 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
108296 CTCT
1 CTCT
108300 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:108318 original size:42 final size:41
Alignment explanation
Indices: 108233--108355 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
108223 GTGAATCGGG
* * * * *
108233 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
108275 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
108317 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
108356 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:110389 original size:20 final size:19
Alignment explanation
Indices: 110344--110484 Score: 86
Period size: 19 Copynumber: 7.8 Consensus size: 19
110334 TCTTTTGGTT
110344 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
110363 GATAATGAGAATTGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
110384 GAAATGACTATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
110403 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
110417 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
110436 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
110450 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
110469 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
110485 TGCGATTTTG
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
14 18 0.19
16 4 0.04
17 4 0.04
19 39 0.42
20 26 0.28
21 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:110426 original size:33 final size:33
Alignment explanation
Indices: 110369--110467 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
110359 ACGAGATAAT
* *
110369 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
110403 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
110436 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
110468 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 46 0.78
34 13 0.22
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:110461 original size:19 final size:19
Alignment explanation
Indices: 110439--110489 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
110429 GCGACGAGAG
110439 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
110458 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
110477 AATCGCAATGCGA
1 AATCGCAACGCGA
110490 TTTTGGTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:110518 original size:19 final size:19
Alignment explanation
Indices: 110485--110551 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
110475 AAAATCGCAA
**
110485 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
110504 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
** *
110523 TGCGATAGTTATTTCCGCTT
1 TGCGATTTTTATTT-CGCGT
110543 TGCGATTTT
1 TGCGATTTT
110552 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:111162 original size:20 final size:20
Alignment explanation
Indices: 111069--111162 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
111059 CGCTAAGTAA
*
111069 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
111089 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
111109 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
111130 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
111150 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
111163 TTTCCTAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:111181 original size:41 final size:41
Alignment explanation
Indices: 111088--111183 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
111078 CGAAAGTCAG
* * * * *
111088 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTAA
* *
111129 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCTAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CTAA
111171 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
111184 TTACTTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 43 0.93
42 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTAA
Found at i:111195 original size:20 final size:21
Alignment explanation
Indices: 111151--111202 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
111141 ATAGTCAGTA
*
111151 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTACTAAT
* *
111172 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACTAAT
111192 TCGCATTGCGA
1 TCGCATTGCGA
111203 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACTAAT
Found at i:112318 original size:22 final size:20
Alignment explanation
Indices: 112286--112327 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
112276 ATATAAAAAA
112286 TTATTTTTTATTAAATATTTT
1 TTATTTTTTATTAAAT-TTTT
*
112307 TTATATTTTTATTTAATTTTT
1 TTAT-TTTTTATTAAATTTTT
112328 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTTTTATTAAATTTTT
Found at i:114497 original size:16 final size:16
Alignment explanation
Indices: 114476--114555 Score: 115
Period size: 16 Copynumber: 5.0 Consensus size: 16
114466 ATAAACGAAT
114476 ATAAACGAACACAAAC
1 ATAAACGAACACAAAC
*
114492 ATAAACGATCACAAAC
1 ATAAACGAACACAAAC
*
114508 ATAAACGAACACGAAC
1 ATAAACGAACACAAAC
* *
114524 ATAAATGAACACGAAC
1 ATAAACGAACACAAAC
*
114540 ATAAACGAACATAAAC
1 ATAAACGAACACAAAC
114556 GTTGGAGACC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.59, C:0.23, G:0.09, T:0.10
Consensus pattern (16 bp):
ATAAACGAACACAAAC
Found at i:115646 original size:24 final size:24
Alignment explanation
Indices: 115619--115680 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
115609 ATAAATGAAT
115619 GAACATAAATGAACATAACCGAAC
1 GAACATAAATGAACATAACCGAAC
*
115643 GAACATAAACGAACATAACCGAAC
1 GAACATAAATGAACATAACCGAAC
* *
115667 AAACGTAAATGAAC
1 GAACATAAATGAAC
115681 GAACGAGACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.21, G:0.13, T:0.11
Consensus pattern (24 bp):
GAACATAAATGAACATAACCGAAC
Found at i:116068 original size:18 final size:19
Alignment explanation
Indices: 116029--116075 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
116019 ATTTTTCAAG
**
116029 TAAAA-ATAATAAATTTTA
1 TAAAATATAATAAATAATA
116047 TAAAATATAATAAATAAT-
1 TAAAATATAATAAATAATA
*
116065 TAAAATTTAAT
1 TAAAATATAAT
116076 TGTGTTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATATAATAAATAATA
Found at i:116860 original size:21 final size:23
Alignment explanation
Indices: 116820--116861 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
116810 AATTTTAAGT
*
116820 TTAAATATATCTTTATATTTTTC
1 TTAAATATATCTTAATATTTTTC
116843 TTAAATA-ATC-TAATATTTT
1 TTAAATATATCTTAATATTTT
116862 AACTCATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAAATATATCTTAATATTTTTC
Found at i:117391 original size:39 final size:40
Alignment explanation
Indices: 117306--117391 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
117296 TGCACTCCTG
* *
117306 GAATCTTCTCTATTTGCCTGAAGACGTCATGCACTCGTTA
1 GAATCTTCTCTATTTACCTGAAGACGTCATGCAATCGTTA
*
117346 G-GTCTTCT-TCATTTACCTGAAGACG-CGATGCAATCG-TA
1 GAATCTTCTCT-ATTTACCTGAAGACGTC-ATGCAATCGTTA
117384 GAATCTTC
1 GAATCTTC
117392 ATATTTAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
38 5 0.13
39 33 0.85
40 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (40 bp):
GAATCTTCTCTATTTACCTGAAGACGTCATGCAATCGTTA
Found at i:121094 original size:2 final size:2
Alignment explanation
Indices: 121087--121145 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
121077 TGACAACTTT
121087 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
121129 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
121146 TCTACACTAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:121301 original size:6 final size:7
Alignment explanation
Indices: 121270--121309 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
121260 TTTTAAACCC
121270 TAAATCA
1 TAAATCA
*
121277 TAAAATCT
1 T-AAATCA
121285 TAAATCA
1 TAAATCA
121292 TAAA-CA
1 TAAATCA
121298 TAAATCA
1 TAAATCA
121305 TAAAT
1 TAAAT
121310 TTTAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAATCA
Found at i:121301 original size:21 final size:21
Alignment explanation
Indices: 121270--121331 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
121260 TTTTAAACCC
*
121270 TAAATCATAAAATCTTAAATCA
1 TAAACCAT-AAATCTTAAATCA
* **
121292 TAAA-CATAAATCATAAATTT
1 TAAACCATAAATCTTAAATCA
*
121312 TAAACCCTAAATCTTAAATC
1 TAAACCATAAATCTTAAATC
121332 TTAAGCCCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 14 0.42
21 15 0.45
22 4 0.12
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAACCATAAATCTTAAATCA
Found at i:121303 original size:13 final size:14
Alignment explanation
Indices: 121270--121309 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
121260 TTTTAAACCC
*
121270 TAAATCATAAAATCT
1 TAAATCAT-AAATCA
121285 TAAATCATAAA-CA
1 TAAATCATAAATCA
121298 TAAATCATAAAT
1 TAAATCATAAAT
121310 TTTAAACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATCATAAATCA
Found at i:121329 original size:7 final size:7
Alignment explanation
Indices: 121279--121335 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
121269 CTAAATCATA
121279 AAATCTT
1 AAATCTT
*
121286 AAATCAT
1 AAATCTT
*
121293 AAA-CAT
1 AAATCTT
*
121299 AAATCAT
1 AAATCTT
*
121306 AAATTTT
1 AAATCTT
* *
121313 AAACCCT
1 AAATCTT
121320 AAATCTT
1 AAATCTT
121327 AAATCTT
1 AAATCTT
121334 AA
1 AA
121336 GCCCTAATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (7 bp):
AAATCTT
Found at i:121329 original size:28 final size:28
Alignment explanation
Indices: 121270--121331 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
121260 TTTTAAACCC
*
121270 TAAATCATAAAATCTTAAATCATAAACA
1 TAAATCATAAAATCTTAAACCATAAACA
* * *
121298 TAAATCAT-AAATTTTAAACCCTAAATCT
1 TAAATCATAAAATCTTAAACCATAAA-CA
121326 TAAATC
1 TAAATC
121332 TTAAGCCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAATCATAAAATCTTAAACCATAAACA
Found at i:121335 original size:21 final size:21
Alignment explanation
Indices: 121279--121342 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
121269 CTAAATCATA
* *
121279 AAATCTTAAATCATAAA-CAT
1 AAATCTTAAATCTTAAACCCT
* *
121299 AAATCATAAATTTTAAACCCT
1 AAATCTTAAATCTTAAACCCT
*
121320 AAATCTTAAATCTTAAGCCCT
1 AAATCTTAAATCTTAAACCCT
121341 AA
1 AA
121343 TTCTAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATCTTAAATCTTAAACCCT
Found at i:123443 original size:26 final size:28
Alignment explanation
Indices: 123383--123444 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
123373 GAGTATTGCT
*
123383 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
123414 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
123440 GAGCT
1 GAGCT
123445 TAAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:126083 original size:34 final size:34
Alignment explanation
Indices: 126014--126083 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
126004 ATTGTTTAAT
* **** *
126014 GAGATAACATATTAGAATTTTATTTTTTTTTAAA
1 GAGATAACATATTAGAATTTTATGTAAAATCAAA
126048 GAGATAACATATTAGAATTTTATGTAAAATCAAA
1 GAGATAACATATTAGAATTTTATGTAAAATCAAA
126082 GA
1 GA
126084 TTCAAGATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (34 bp):
GAGATAACATATTAGAATTTTATGTAAAATCAAA
Found at i:127362 original size:17 final size:17
Alignment explanation
Indices: 127340--127372 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
127330 GATCATCAAA
127340 TTCAGCTCTATCTTTTT
1 TTCAGCTCTATCTTTTT
127357 TTCAGCTCTATCTTTT
1 TTCAGCTCTATCTTTT
127373 AACCACGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.58
Consensus pattern (17 bp):
TTCAGCTCTATCTTTTT
Found at i:130791 original size:16 final size:18
Alignment explanation
Indices: 130759--130793 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
130749 ATATAAAAAC
130759 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
130777 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
130793 A
1 A
130794 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:130920 original size:2 final size:2
Alignment explanation
Indices: 130907--130952 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
130897 AAAATAGGAA
*
130907 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130948 AT AT A
1 AT AT A
130953 ATAACTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131014 original size:32 final size:32
Alignment explanation
Indices: 130943--131027 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
130933 ATATATATAT
130943 TATATATATAATAACTAATAAAAAACATATACA
1 TATATA-ATAATAACTAATAAAAAACATATACA
* *
130976 TATATAATAA-AATTAATAGAAAATA-ATATGCA
1 TATATAATAATAACTAATA-AAAA-ACATATACA
* *
131008 TATATAACAAGAA-TAATAAA
1 TATATAATAATAACTAATAAA
131028 GTAGGAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 9 0.20
32 28 0.61
33 9 0.20
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (32 bp):
TATATAATAATAACTAATAAAAAACATATACA
Found at i:132396 original size:99 final size:100
Alignment explanation
Indices: 131992--133153 Score: 1543
Period size: 99 Copynumber: 11.3 Consensus size: 100
131982 CATTGTTCCA
* * * *
131992 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAA---TGAAA-T-TTTGTTGACAAG
* * *
132057 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
60 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
132098 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGG
132163 TCCCTTCGTCGTGAAGTTGAACTTGCGTT-TCTGG
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
132197 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAGTTGTTGTTGACAAACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT--GAAT-GAAATT-TTGTTGACAAGCA
*
132262 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
62 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
132301 AGTCCAATAT-CTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGCTGACAAGCAGCGG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGG
132365 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
132400 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGG
132465 T-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
132499 AGTCCAATATCC-TCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-TTGTTGACAAGC
*
132563 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
61 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** *
132603 AGTCCAATATCCTTCACTGTGAAGTTG-AATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGG
132667 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
132702 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-TTGTTGACAAGC
*
132767 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
61 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
132807 AGTCC-ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
132871 AGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGG
61 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
132910 AATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATGGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AAT---G-AAA-T-TTTGTTGACAA
*
132975 CCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
59 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
133016 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAAAGTTGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AA-TGAAA--T-TTTGTTGACAAGC
* * * *
133081 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTT-TCTCG
61 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
133120 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
133154 CGCGGATGGC
Statistics
Matches: 968, Mismatches: 54, Indels: 67
0.89 0.05 0.06
Matches are distributed among these distances:
98 26 0.03
99 220 0.23
100 115 0.12
101 16 0.02
102 12 0.01
103 117 0.12
104 210 0.22
105 119 0.12
106 109 0.11
107 24 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (100 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:132406 original size:203 final size:205
Alignment explanation
Indices: 131992--133153 Score: 1592
Period size: 203 Copynumber: 5.7 Consensus size: 205
131982 CATTGTTCCA
* * **
131992 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGG-A-TTGGAAATTG-TTGTTGACAAC
* * *
132057 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
63 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
**
132121 GTTGAAATTGAATCTGAAT-GAAA-TTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
127 GTTGAAATTGGCTCTGAATGGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
132184 CTTGCGTT-TCTGG
192 CTTGCGTTGTCTGG
* * * *
132197 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAGTTGTTGTTGACAAACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GGATTGGAAATTGTTGTTGACAACCA
* *
132262 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT-CTTCGCTGTGAAGTT
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
*
132326 GAAATTGGCTCTGAAT-GAAA-TTTTGCTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
130 GAAATTGGCTCTGAATGGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
132389 GCGTTGTCTGG
195 GCGTTGTCTGG
* * *
132400 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAT-GAAATT-TTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAACCAG
132462 CGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC-TCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
132525 AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AAATTGGCTCTGA-A-TGGAAAGTT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
132590 TTGCATTGTCTGG
193 TTGCGTTGTCTGG
** * *
132603 AGTCCAATATCCTTCACTGTGAAGTTG-AATTGGCTCT-GAAT-GAAATT-TTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAACCAG
*
132664 CGCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
132729 AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AAATTGGCTCTGA-A-TGGAAAGTT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
132794 TTGCATTGTCTGG
193 TTGCGTTGTCTGG
*
132807 AGTCC-ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATT-GGAAATTGTTGTTGACAACC
* *
132871 AGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAATCCAATATCCTTCGCTGTGAAGT
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* * *
132935 TGAAATTGGCTCTGAAATGGGGAAAATTGTTTATTGACAACCAGCGGT-CCTTCGTCGTGAAGTT
129 TGAAATTGGCTCTG-AAT--GG-AAAGT-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
132999 GAACTTGCGTTGTCTGG
189 GAACTTGCGTTGTCTGG
* *
133016 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATT-GAAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATTGGAAA-TTG-TTGTTGACAAC
* * * * * *
133080 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTT-TCTCGAGTGCCACGATATCCTCCGTCGTG
63 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT-CCA--ATATCCTTCGTTGTG
*
133144 GAGTTGAAAT
125 AAGTTGAAAT
133154 CGCGGATGGC
Statistics
Matches: 876, Mismatches: 52, Indels: 50
0.90 0.05 0.05
Matches are distributed among these distances:
198 68 0.08
199 19 0.02
200 5 0.01
201 7 0.01
202 119 0.14
203 236 0.27
204 113 0.13
205 36 0.04
206 5 0.01
207 1 0.00
208 64 0.07
209 74 0.08
210 93 0.11
211 15 0.02
213 21 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTCTGAATGGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGG
Found at i:132608 original size:302 final size:306
Alignment explanation
Indices: 131992--133153 Score: 1699
Period size: 302 Copynumber: 3.8 Consensus size: 306
131982 CATTGTTCCA
* *
131992 AGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAA---TGAAATTGTTTGTTGACAA
* * *
132056 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGA
61 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
**
132120 AGTTGAAATTGAATCTGAA-TGAAA-TTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
125 AGTTGAAATTGGCTCTGAATTGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
* * *
132183 ACTTGCGTTTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAGTT
190 ACTTGCGTTTCTGGAGTCCAATATC-CTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAGTT
132248 GTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
254 GTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* *
132301 AGTCCAATAT-CTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAA-T-TTTGCTGACAAGCAGC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAATTGTTTGTTGACAACCAGC
*
132363 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
132428 AATTGGCTCTGAA-TGAAA-TTTTGTTGACAAGCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGC
131 AATTGGCTCTGAATTGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
132490 GTTGTCTGGAGTCCAATATCCTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGT
196 GTT-TCTGGAGTCCAATATCCTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGG-AAGTTGTTGT
*
132555 TGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
259 TGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* *
132603 AGTCCAATATCCTTCACTGTGAAGTTG-AATTGGCTCTGAATGAAA-T-TTTGTTGACAAGCAGC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAATTGTTTGTTGACAACCAGC
*
132665 GCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
132730 AATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
131 AATTGGCTCTGA-ATT-GAAAGTT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
132795 TGCATTGTCTGGAGTCC-ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG
193 TGCGTT-TCTGGAGTCCAATATCC-TCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAGTTG
* *
132859 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGG
255 TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* *
132910 AATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATGGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-AAT---G-AAATTGTTTGTTGACAA
132975 CCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
61 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * * *
133039 GTTGAAATTAGCTCTGAAATTGAAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
126 GTTGAAATTGGCTCTG-AATTGAAAG-T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
* * * *
133104 GAACTTGTGTTTCTCGAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
188 GAACTTGCGTTTCTGGAGT-CCA--ATATCCT-CGTTGTGAAGTTGAAAT
133154 CGCGGATGGC
Statistics
Matches: 789, Mismatches: 35, Indels: 50
0.90 0.04 0.06
Matches are distributed among these distances:
301 60 0.08
302 300 0.38
303 17 0.02
304 5 0.01
305 4 0.01
306 2 0.00
307 69 0.09
308 141 0.18
309 16 0.02
312 1 0.00
313 15 0.02
314 119 0.15
315 18 0.02
316 1 0.00
317 21 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (306 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAATTGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
AATTGGCTCTGAATTGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTTCTGGAGTCCAATATCCTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAGTTGTTGTTG
ACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:133834 original size:68 final size:66
Alignment explanation
Indices: 133734--133902 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
133724 GGAAACGATC
* *
133734 TCAAAGATATCTGTG-TTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAAT
1 TCAAAGAT-T-TGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAAT
133798 AAAT
63 AAAT
** * * *
133802 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGA-TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAA
133867 AT
65 AT
*
133869 TCAAAGATTT-TGTTTCAAGGGAAACTGTCTCAAG
1 TCAAAGATTTGTGTTTCAAGAGAAACTGTCTCAAG
133903 ATAGACGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
65 22 0.25
66 3 0.03
67 27 0.31
68 35 0.40
69 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (66 bp):
TCAAAGATTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAA
T
Found at i:133867 original size:67 final size:66
Alignment explanation
Indices: 133734--133928 Score: 216
Period size: 65 Copynumber: 2.9 Consensus size: 66
133724 GGAAACGATC
* * *
133734 TCAAAGATATCTGTG-TTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAAT
1 TCAAAGAT-T-TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAAT
133798 AAAT
63 AAAT
** * *
133802 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGA-TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
133867 AT
65 AT
* ** * *
133869 TCAAAGATTT-TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TCAAAGATTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
133929 CTGTCTCAAG
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
65 38 0.35
66 7 0.06
67 27 0.25
68 35 0.32
69 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (66 bp):
TCAAAGATTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAA
T
Found at i:133929 original size:36 final size:36
Alignment explanation
Indices: 133878--133974 Score: 126
Period size: 36 Copynumber: 2.7 Consensus size: 36
133868 TTCAAAGATT
* *
133878 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAAC
133914 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* *
133950 TTAGTTCCAAAAG-AACTGTCTCAAG
1 TT-GTTTCAAGAGAAACTGTCTCAAG
133975 GAAATGGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 4 0.07
36 43 0.78
37 8 0.15
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
Done.