Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008521.1 Hibiscus syriacus cultivar Beakdansim tig00111388_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: 1601068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:9138 original size:20 final size:19
Alignment explanation
Indices: 9095--9157 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
9085 AATTATATTA
*
9095 TTTTAAA-TTTTTTATAAT
1 TTTTAAAGTATTTTATAAT
*
9113 CCTTTAAA-TATTTTAGATAAT
1 -TTTTAAAGTATTTT--ATAAT
9134 TTTTAAAGGTATTTTATAAT
1 TTTTAAA-GTATTTTATAAT
9154 TTTT
1 TTTT
9158 TATTGCTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.30
20 15 0.41
21 5 0.14
22 6 0.16
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTAAAGTATTTTATAAT
Found at i:9159 original size:21 final size:19
Alignment explanation
Indices: 9077--9159 Score: 62
Period size: 21 Copynumber: 4.1 Consensus size: 19
9067 TTATTTAAAA
9077 TAAATATTAATTAT-ATTATTT
1 TAAATATT--TTATAATT-TTT
* **
9098 TAAATTTTTTATAATCCTT
1 TAAATATTTTATAATTTTT
9117 TAAATATTTTAGATAA-TTTT
1 TAAATATTTT--ATAATTTTT
9137 TAAAGGTATTTTATAATTTTT
1 TAAA--TATTTTATAATTTTT
9158 TA
1 TA
9160 TTGCTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
19 15 0.30
20 12 0.24
21 17 0.34
22 6 0.12
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TAAATATTTTATAATTTTT
Found at i:15997 original size:15 final size:15
Alignment explanation
Indices: 15961--16002 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15951 CCCGGCTTTT
* *
15961 GGCTTCTTCTCAGCT
1 GGCTTCTTCTCGGCC
15976 GGC--CTTCTCGGCC
1 GGCTTCTTCTCGGCC
15989 GGCTTCTTCTCGGC
1 GGCTTCTTCTCGGC
16003 TTTGGGTGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.02, C:0.38, G:0.26, T:0.33
Consensus pattern (15 bp):
GGCTTCTTCTCGGCC
Found at i:16487 original size:21 final size:21
Alignment explanation
Indices: 16438--16493 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
16428 GGTATCATTC
*
16438 AATTGAATGATTTAATTTATTTT
1 AATTGAA--ATTTAATATATTTT
**
16461 CTTTGAAATTTAATATATTTT
1 AATTGAAATTTAATATATTTT
*
16482 AATTGATATTTA
1 AATTGAAATTTA
16494 TTCTCCACCA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 22 0.81
23 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (21 bp):
AATTGAAATTTAATATATTTT
Found at i:16751 original size:19 final size:18
Alignment explanation
Indices: 16720--16764 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
16710 CAATTTCTCT
**
16720 TTTTTA-TTTTATTACTA
1 TTTTTATTTTTATTAAAA
16737 TTTTTATTTTATATTAAAA
1 TTTTTATTTT-TATTAAAA
16756 TTTTTATTT
1 TTTTTATTT
16765 CTAATTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTTTTATTAAAA
Found at i:16857 original size:21 final size:20
Alignment explanation
Indices: 16832--16876 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
16822 TCACCTTAAC
* *
16832 ATTTATATTATTTTTAAAATT
1 ATTTATATTAATCTT-AAATT
*
16853 ATTTATTTTAATCTTAAATT
1 ATTTATATTAATCTTAAATT
16873 ATTT
1 ATTT
16877 TAAATTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATATTAATCTTAAATT
Found at i:17065 original size:16 final size:16
Alignment explanation
Indices: 17023--17057 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17013 GATTTTTCTA
* *
17023 AAAAATAATATAAATT
1 AAAAATAAAATAAAAT
17039 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
17055 AAA
1 AAA
17058 TATTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:17406 original size:27 final size:28
Alignment explanation
Indices: 17343--17407 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
17333 TTAACTTAAT
17343 TTAAAAATA--TTTTATTACTATTATTA
1 TTAAAAATATTTTTTATTACTATTATTA
**
17369 TTAAAAATATTTTTTATTTTTATT-TTA
1 TTAAAAATATTTTTTATTACTATTATTA
*
17396 TTAAATATATTT
1 TTAAAAATATTT
17408 AAAAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.26
27 14 0.41
28 11 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTAAAAATATTTTTTATTACTATTATTA
Found at i:17870 original size:11 final size:11
Alignment explanation
Indices: 17854--17886 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
17844 CCACAAGTGC
17854 CCAGTCAACAT
1 CCAGTCAACAT
*
17865 CCAGTCAACGT
1 CCAGTCAACAT
17876 CCAGTCAACAT
1 CCAGTCAACAT
17887 GCTTCTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.18
Consensus pattern (11 bp):
CCAGTCAACAT
Found at i:21874 original size:35 final size:35
Alignment explanation
Indices: 21797--21874 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
21787 ATTTTCAATG
* * * * *
21797 TTCGAACAGTGCATAAAAATGCAGTGCAGATTTGG
1 TTCGAAAAGTGCAGAAAAATACAGTGCAGATTAGA
21832 TTCGAAAAGTGCAGAAAAATACAGTGCAG-TGTAGA
1 TTCGAAAAGTGCAGAAAAATACAGTGCAGAT-TAGA
*
21867 TTTGAAAA
1 TTCGAAAA
21875 TAGTGAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (35 bp):
TTCGAAAAGTGCAGAAAAATACAGTGCAGATTAGA
Found at i:27373 original size:21 final size:22
Alignment explanation
Indices: 27348--27396 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
27338 GAGGTATCGA
27348 TTCCC-TC-AAGGAGGGAATCAG
1 TTCCCATCAAAGG-GGGAATCAG
*
27369 TTCCCATTCAAAGGGGGAATCGG
1 TTCCCA-TCAAAGGGGGAATCAG
27392 TTCCC
1 TTCCC
27397 CTTCAAGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (22 bp):
TTCCCATCAAAGGGGGAATCAG
Found at i:27407 original size:22 final size:22
Alignment explanation
Indices: 27353--27418 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
27343 ATCGATTCCC
*
27353 TCAAGGAGGGAATCAGTTCCCAT
1 TCAAGG-GGGAATCGGTTCCCAT
*
27376 TCAAAGGGGGAATCGGTTCCCCT
1 TC-AAGGGGGAATCGGTTCCCAT
* *
27399 TCAAGGGGGTATCGATTCCC
1 TCAAGGGGGAATCGGTTCCC
27419 TCTATACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 16 0.42
23 18 0.47
24 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (22 bp):
TCAAGGGGGAATCGGTTCCCAT
Found at i:31263 original size:22 final size:21
Alignment explanation
Indices: 31221--31260 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31211 GAGTTTATTT
*
31221 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
31242 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
31261 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:39286 original size:43 final size:43
Alignment explanation
Indices: 39224--39310 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
39214 ACATGTCTGT
* * *
39224 GCATAGGTACAAGGATCGATTGGTTACAAAAGGGTTTACACAA
1 GCATAAGTACAAGGATCGATTGATTACAAAAGGGTTCACACAA
* * **
39267 GCATAAGTACAAGGCTCGATTTATTGTAAAAGGGTTCACACAA
1 GCATAAGTACAAGGATCGATTGATTACAAAAGGGTTCACACAA
39310 G
1 G
39311 TTCCTGGACT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (43 bp):
GCATAAGTACAAGGATCGATTGATTACAAAAGGGTTCACACAA
Found at i:41712 original size:41 final size:41
Alignment explanation
Indices: 41666--41746 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
41656 ACCACCTTAA
*
41666 ATTTAATTACGATTCAAATTAAGTAATAATATATAAAAACT
1 ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAACT
*
41707 ATTTAATTACGATTCGAATTAAGTAACAATATATAAAAAC
1 ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAAC
41747 ATAAAAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.35
Consensus pattern (41 bp):
ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAACT
Found at i:47714 original size:183 final size:183
Alignment explanation
Indices: 47048--47695 Score: 980
Period size: 182 Copynumber: 3.6 Consensus size: 183
47038 TTATTAAAGT
* * *
47048 ATCGATACCTTCAACATATCTGGTAGTGCTTTACCGGTTTTGTCATAATGAAACCGA-TTTGTCA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATAATGAAACCGATTTTGTCA
* * * * * *
47112 TAATTTTACATGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCAATACTTTATAAGCA
66 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
47177 CTATTATTGCTTTTCTTTTAAATTTCAAAAGTATCGATATTTATTTGAATGGA
131 CTATTATTGCTTTTCTTTTAAATTTCAAAAGTATCGATATTTATTTGAATGAA
* * * *
47230 ATCAATACCTTTAACATATCCGGTAGCGCTTTATCGGTTTTGTCATAATGAAACCGGTTTTTTCA
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATAATGAAACCGATTTTGTCA
*
47295 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTTTAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
47360 -TATTATTGCTTTTCTTTTAAATTTCAAAAGTATCGATACTTATTTGAATGAA
131 CTATTATTGCTTTTCTTTTAAATTTCAAAAGTATCGATATTTATTTGAATGAA
* *
47412 ATCGATACCTTCAACATATCCGGTAGCACTTTA-CTGGTTTTGTCATAATGAAACCGGTTTTGTC
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTATC-GGTTTTGTCATAATGAAACCGATTTTGTC
* *
47476 ATATTTTTACCTGTTACATTGTTACGTATTGATACATGTTTATAAAGTATCGATACTTTATAGGC
65 ATATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGC
*
47541 GCTATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATATTTATTTGAATGAA
130 GCTATTATTGCTTTTCTTTTAAATTTCAAAAGTATCGATATTTATTTGAATGAA
* ** * *
47595 ATCGATACCTTTAATTTATCCGGTAGCGCTTTATCGGTTTTGTCATATTG-AACTCAATTTTGTC
1 ATCGATACCTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATAATGAAAC-CGATTTTGTC
* * * *
47659 ATATTTTTAGCTGATATATTTTTATGTATCGATACAT
65 ATATTTTTACCTGTTATATTGTTACGTATCGATACAT
47696 ATTTGAATGG
Statistics
Matches: 423, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
181 1 0.00
182 225 0.53
183 196 0.46
184 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (183 bp):
ATCGATACCTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATAATGAAACCGATTTTGTCA
TATTTTTACCTGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
CTATTATTGCTTTTCTTTTAAATTTCAAAAGTATCGATATTTATTTGAATGAA
Found at i:61583 original size:64 final size:66
Alignment explanation
Indices: 61478--61640 Score: 206
Period size: 65 Copynumber: 2.5 Consensus size: 66
61468 CGGTGCACCA
* * *
61478 AGTGTGCATCGATGCATGAAATTCATTCAATG-TTTGAAAAATAGCCTG-GTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCGATGCATG
61541 G
66 G
** * **
61542 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCGATGCATG
61606 G
66 G
* * *
61607 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
61641 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (66 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCGATGCATG
G
Found at i:61612 original size:19 final size:19
Alignment explanation
Indices: 61588--61638 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
61578 GAAAATATTC
61588 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
61607 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
61626 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
61639 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:61680 original size:65 final size:65
Alignment explanation
Indices: 61482--61689 Score: 189
Period size: 65 Copynumber: 3.2 Consensus size: 65
61472 GCACCAAGTG
* * * * ** *
61482 TGCATCGATGCATGAAATTCATTCAATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
61545 G-
64 GA
* * *
61546 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
61609 A
65 A
* *
61610 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
61672 CTGA
62 CTGA
61676 TGCATCGGTGCATG
1 TGCATCGGTGCATG
61690 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 49 0.40
65 60 0.49
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:66230 original size:23 final size:23
Alignment explanation
Indices: 66204--66292 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
66194 TATGTGATCC
66204 TTCGGGACAATTCTACGTGGTCA
1 TTCGGGACAATTCTACGTGGTCA
* * * *
66227 TTCGAGACATTTGTACGTGGTCC
1 TTCGGGACAATTCTACGTGGTCA
*
66250 TTCGGGAC-ATATCTATGTGGTCA
1 TTCGGGACAAT-TCTACGTGGTCA
* *
66273 TTCGTGACATTTCTACGTGG
1 TTCGGGACAATTCTACGTGG
66293 CACTTCAATG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
22 1 0.02
23 50 0.96
24 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (23 bp):
TTCGGGACAATTCTACGTGGTCA
Found at i:66254 original size:46 final size:46
Alignment explanation
Indices: 66191--66292 Score: 143
Period size: 46 Copynumber: 2.2 Consensus size: 46
66181 GAGTCGAGGG
* *
66191 TTCTATGTGATCCTTCGGGACA-ATTCTACGTGGTCATTCGAGACAT
1 TTCTACGTGGTCCTTCGGGACATA-TCTACGTGGTCATTCGAGACAT
* * *
66237 TTGTACGTGGTCCTTCGGGACATATCTATGTGGTCATTCGTGACAT
1 TTCTACGTGGTCCTTCGGGACATATCTACGTGGTCATTCGAGACAT
66283 TTCTACGTGG
1 TTCTACGTGG
66293 CACTTCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (46 bp):
TTCTACGTGGTCCTTCGGGACATATCTACGTGGTCATTCGAGACAT
Found at i:68381 original size:29 final size:29
Alignment explanation
Indices: 68330--68415 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
68320 TTATATTCCA
*
68330 TATGTTCATGTA-CTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
68358 TATGATCATGTAGCTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
* *
68387 TGTGATCATATAGCTCATGTCATGTTCTC
1 TATGATCATGTAGCTCATGTCAT-TTCTC
68416 ATATCACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
28 11 0.21
29 37 0.70
30 5 0.09
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (29 bp):
TATGATCATGTAGCTCATGTCATTTCTCT
Found at i:75313 original size:29 final size:29
Alignment explanation
Indices: 75273--75346 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
75263 TGTTCATGTA
75273 CTCATGTCATTTCTCTTATGATCATATAG
1 CTCATGTCATTTCTCTTATGATCATATAG
* * *
75302 CTCATGTTATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTATGATCATATAG
75331 CTCATGTCATGTTCTC
1 CTCATGTCAT-TTCTC
75347 ATATCACATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 35 0.88
30 5 0.12
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (29 bp):
CTCATGTCATTTCTCTTATGATCATATAG
Found at i:75811 original size:19 final size:19
Alignment explanation
Indices: 75787--75837 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
75777 TATTAATGGG
75787 ATGCATCGATGCATGTCTT
1 ATGCATCGATGCATGTCTT
75806 ATGCATCGATGCATGTCTT
1 ATGCATCGATGCATGTCTT
75825 ATGCATCGATGCA
1 ATGCATCGATGCA
75838 CTAATTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (19 bp):
ATGCATCGATGCATGTCTT
Found at i:76772 original size:12 final size:13
Alignment explanation
Indices: 76755--76788 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
76745 TGTATATGTA
76755 ATTTAAGT-ATTT
1 ATTTAAGTGATTT
76767 ATTTAAGTGATTT
1 ATTTAAGTGATTT
*
76780 AATTAAGTG
1 ATTTAAGTG
76789 CATCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
ATTTAAGTGATTT
Found at i:80413 original size:20 final size:20
Alignment explanation
Indices: 80385--80422 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80375 AGTTTTGCAA
*
80385 TACTGAAATTTAAATAATTT
1 TACTAAAATTTAAATAATTT
*
80405 TACTAAAATTTAAGTAAT
1 TACTAAAATTTAAATAAT
80423 CCATACAACT
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:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TACTAAAATTTAAATAATTT
Found at i:80471 original size:22 final size:22
Alignment explanation
Indices: 80446--80631 Score: 248
Period size: 22 Copynumber: 8.5 Consensus size: 22
80436 ATAATAAATT
80446 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
80468 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
80490 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
80512 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
80534 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
* *
80556 TTTTAAAATAAATTAATCTATA
1 TTTTAAAATAAATCAATCCATA
** *
80578 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
**
80600 TTTTAAAATAAATCAATTAATA
1 TTTTAAAATAAATCAATCCATA
80622 TTTTAAAATA
1 TTTTAAAATA
80632 GATTTTAAAA
Statistics
Matches: 147, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
21 4 0.03
22 139 0.95
23 4 0.03
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:80659 original size:10 final size:12
Alignment explanation
Indices: 80621--80660 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
80611 ATCAATTAAT
80621 ATTTTAAAATAG
1 ATTTTAAAATAG
80633 ATTTTAAAATAG
1 ATTTTAAAATAG
80645 A-TTT-AAATA-
1 ATTTTAAAATAG
80654 ATTTTAA
1 ATTTTAA
80661 TTTCTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 4 0.15
12 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAG
Found at i:87541 original size:25 final size:23
Alignment explanation
Indices: 87496--87541 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
87486 ATATGCAAAG
* *
87496 GAAAAAAACGAAAATACAATAAA
1 GAAAAAAAAGAAAATAAAATAAA
87519 GAAAAAAGAAGAAAATATAAATA
1 GAAAAAA-AAGAAAATA-AAATA
87542 TAAATGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 8 0.42
25 4 0.21
ACGTcount: A:0.74, C:0.04, G:0.11, T:0.11
Consensus pattern (23 bp):
GAAAAAAAAGAAAATAAAATAAA
Found at i:87833 original size:23 final size:23
Alignment explanation
Indices: 87780--87823 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
87770 TACGTATATA
87780 ATAAA-AAATATAATATAATAGC
1 ATAAATAAATATAATATAATAGC
87802 ATAAATAAATA-AATAATAATAG
1 ATAAATAAATATAAT-ATAATAG
87824 TAAAAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (23 bp):
ATAAATAAATATAATATAATAGC
Found at i:87854 original size:21 final size:21
Alignment explanation
Indices: 87824--87868 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
87814 ATAATAATAG
*
87824 TAAAAGTAAAAGGGGAAATAAA
1 TAAAAGTAAAAAGGG-AATAAA
*
87846 TAAAA-TAAAAATGGAATAAA
1 TAAAAGTAAAAAGGGAATAAA
87866 TAA
1 TAA
87869 TTAATGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 7 0.33
22 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (21 bp):
TAAAAGTAAAAAGGGAATAAA
Found at i:87948 original size:2 final size:2
Alignment explanation
Indices: 87941--87972 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
87931 GGTAAAATGA
*
87941 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87973 GTAAATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:90095 original size:105 final size:105
Alignment explanation
Indices: 89926--90592 Score: 1207
Period size: 105 Copynumber: 6.4 Consensus size: 105
89916 GTATTGTTCA
* * *
89926 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATTGTGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAA
*
89987 CCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
90028 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
90093 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
90133 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
90198 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
90238 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTAAATTTGAGAAATGTTTGTTGATAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
90303 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
90343 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
90408 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
90448 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
90513 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
90553 TAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
90593 GGTAAAACCT
Statistics
Matches: 550, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
102 35 0.06
105 506 0.92
106 9 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:100846 original size:10 final size:10
Alignment explanation
Indices: 100821--100854 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
100811 AGCGTTAGTA
*
100821 AAATAGAAAT
1 AAATAAAAAT
*
100831 AGATAAAAAT
1 AAATAAAAAT
100841 AAATAAAAAT
1 AAATAAAAAT
100851 AAAT
1 AAAT
100855 GGTAAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:101927 original size:25 final size:25
Alignment explanation
Indices: 101863--101928 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
101853 GACTAAATAT
101863 AAAATAAAATATGCAAAGGAAAAAAAACG
1 AAAATAAAA-AT--AAA-GAAAAAAAACG
* *
101892 AAAATACAAATAAAGAAAAAGAA-G
1 AAAATAAAAATAAAGAAAAAAAACG
101916 AAAATATAAAATA
1 AAAATA-AAAATA
101929 TAAATGGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 3 0.09
28 2 0.06
29 8 0.24
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.12
Consensus pattern (25 bp):
AAAATAAAAATAAAGAAAAAAAACG
Found at i:101948 original size:20 final size:19
Alignment explanation
Indices: 101923--102005 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 19
101913 AAGAAAATAT
*
101923 AAAATATAAATGGATAAAAA
1 AAAATATAAAT-AATAAAAA
* * *
101943 AAAATACACATAATAAAAT
1 AAAATATAAATAATAAAAA
*
101962 AAAATATAAAGCAATGAAAAA
1 AAAATATAAA-TAAT-AAAAA
* *
101983 GAAA-A-AAA-AAGAAAAA
1 AAAATATAAATAATAAAAA
101999 AAAATAT
1 AAAATAT
102006 GCGTAATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
16 8 0.17
17 3 0.06
19 17 0.35
20 13 0.27
21 7 0.15
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAATATAAATAATAAAAA
Found at i:101997 original size:9 final size:10
Alignment explanation
Indices: 101978--102002 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
101968 TAAAGCAATG
101978 AAAAAGAAAA
1 AAAAAGAAAA
101988 AAAAAGAAAA
1 AAAAAGAAAA
101998 AAAAA
1 AAAAA
102003 TATGCGTAAT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:102186 original size:17 final size:19
Alignment explanation
Indices: 102166--102218 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
102156 TACATATACG
*
102166 TATATAATAATAAAAAATA
1 TATATAATAATAAATAATA
102185 TAATATAATAGCATAAATAA-A
1 T-ATATAATA--ATAAATAATA
*
102206 TAAATAATAATAA
1 TATATAATAATAA
102219 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 15 0.52
21 2 0.07
22 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TATATAATAATAAATAATA
Found at i:102190 original size:20 final size:20
Alignment explanation
Indices: 102167--102220 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
102157 ACATATACGT
102167 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
102187 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
102209 ATAATAATAATA
1 AT-ATAATAATA
102221 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:126418 original size:40 final size:40
Alignment explanation
Indices: 126290--126403 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
126280 AAAAATATTG
* *
126290 TCATCATAAATCACCAACTAAGACTAGTAACAAACAATTA
1 TCATCACAAATCACCAACTAAGACTAGTGACAAACAATTA
* * *
126330 TCGA-CACAAATGACTAACTAAGGCTAGTGACAAACAATTA
1 TC-ATCACAAATCACCAACTAAGACTAGTGACAAACAATTA
*
126370 TCATCACAAATCACCAACTAAGATTAGTGACAAA
1 TCATCACAAATCACCAACTAAGACTAGTGACAAA
126404 ATGTTTTCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 61 0.97
41 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.21
Consensus pattern (40 bp):
TCATCACAAATCACCAACTAAGACTAGTGACAAACAATTA
Found at i:129636 original size:42 final size:42
Alignment explanation
Indices: 129566--129811 Score: 442
Period size: 42 Copynumber: 5.9 Consensus size: 42
129556 GATTTACATA
129566 TTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
*
129606 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
*
129648 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
*
129690 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
*
129732 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
129774 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
129812 CAAAATCGCA
Statistics
Matches: 200, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 12 0.06
41 2 0.01
42 186 0.93
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (42 bp):
TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
Found at i:130516 original size:6 final size:6
Alignment explanation
Indices: 130426--130515 Score: 141
Period size: 6 Copynumber: 15.5 Consensus size: 6
130416 TCTCGTCTCG
*
130426 GGTCG- GGTCG- GGTCG- GGTCGG GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
*
130471 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTAGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
130516 AATACGTGTC
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
5 15 0.18
6 67 0.82
ACGTcount: A:0.01, C:0.16, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:130711 original size:63 final size:61
Alignment explanation
Indices: 130612--130744 Score: 230
Period size: 63 Copynumber: 2.1 Consensus size: 61
130602 ATTTTGGACT
*
130612 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTTGAATAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA-TTTGAA-AA
*
130675 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGAAAA
130736 ATCGCAACG
1 ATCGCAACG
130745 CGAACTTCGA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 11 0.16
62 5 0.07
63 52 0.76
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (61 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGAAAA
Found at i:130749 original size:40 final size:40
Alignment explanation
Indices: 130675--130805 Score: 226
Period size: 40 Copynumber: 3.2 Consensus size: 40
130665 TTTTGAATAA
130675 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
130717 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
130757 ATCGCAACGAATTTGGAAAATCGCAACACGAACTTTGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
130797 ATCGCAACG
1 ATCGCAACG
130806 CGAACTTGGA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 70 0.80
41 1 0.01
42 16 0.18
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (40 bp):
ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:130815 original size:82 final size:84
Alignment explanation
Indices: 130633--130830 Score: 255
Period size: 82 Copynumber: 2.4 Consensus size: 84
130623 TTTGGAATAA
* *
130633 ATCGCAACGCGAACTTGGACTATCGCAA-CGAATTTTGAATAAATCGCAACGAATTTGGAATAAA
1 ATCGCAACGCGAACTTGGACTATCGCAAGCGAACTTCGAAT-AATCGCAACGAATTTGGAATAAA
*
130697 TCGCAACGCGAACTTCGACT
65 TCGCAACACGAACTTCGACT
* ** *
130717 ATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTCGACT-ATCGCAACGAATTTGG-A-AAA
1 ATCGCAACGCGAACTTGGACTATCGCAA-GCGAACTTCGAATAATCGCAACGAATTTGGAATAAA
*
130777 TCGCAACACGAACTTTGACT
65 TCGCAACACGAACTTCGACT
130797 ATCGCAACGCGAACTTGGACTATCGCAATGCGAA
1 ATCGCAACGCGAACTTGGACTATCGCAA-GCGAA
130831 TATGTAAATC
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
80 28 0.29
81 1 0.01
82 53 0.54
84 16 0.16
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (84 bp):
ATCGCAACGCGAACTTGGACTATCGCAAGCGAACTTCGAATAATCGCAACGAATTTGGAATAAAT
CGCAACACGAACTTCGACT
Found at i:130830 original size:21 final size:19
Alignment explanation
Indices: 130605--130824 Score: 152
Period size: 21 Copynumber: 10.7 Consensus size: 19
130595 CGTTGCGATT
*
130605 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
130624 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
130647 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* * *
130666 TTTGAATAAATCGCAACGAAT
1 TTGGACT--ATCGCAACGAAC
*
130687 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
130710 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
**
130729 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
* *
130750 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
**
130769 TTGGAAAATCGCAACACGAAC
1 TTGGACTATCGC-A-ACGAAC
*
130790 TTTGACTATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
130811 TTGGACTATCGCAA
1 TTGGACTATCGCAA
130825 TGCGAATATG
Statistics
Matches: 160, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
19 44 0.28
20 2 0.01
21 95 0.59
23 19 0.12
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:130870 original size:21 final size:21
Alignment explanation
Indices: 130844--130891 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
130834 GTAAATCGCA
130844 TTGCGATAGTCCAAGTGCGCG
1 TTGCGATAGTCCAAGTGCGCG
** *
130865 TTGCGATAGTTGAAGTTCGCG
1 TTGCGATAGTCCAAGTGCGCG
130886 TTGCGA
1 TTGCGA
130892 ATCTGGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTGCGCG
Found at i:131043 original size:3 final size:3
Alignment explanation
Indices: 131035--131130 Score: 77
Period size: 3 Copynumber: 30.7 Consensus size: 3
131025 GGTTATTTTC
* * *
131035 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-G TAGA CACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T
* * * *
131081 AAT TTT TCAAT TTT TAT TAT TAT TAT ACAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T--AT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
131129 TA
1 TA
131131 AATAAATATT
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
2 1 0.01
3 68 0.91
4 4 0.05
5 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:132904 original size:23 final size:23
Alignment explanation
Indices: 132872--132915 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
132862 CCTTCTCTAA
*
132872 TATTTCTAAATAAATAAATATCT
1 TATTTATAAATAAATAAATATCT
* *
132895 TATTTATAAATATATATATAT
1 TATTTATAAATAAATAAATAT
132916 ATATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:132911 original size:2 final size:2
Alignment explanation
Indices: 132899--132950 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
132889 ATATCTTATT
*
132899 TA TA AA 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
132941 TA TA -A TA TA T
1 TA TA TA TA TA T
132951 TTCTTAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:133499 original size:14 final size:13
Alignment explanation
Indices: 133459--133517 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 13
133449 TTTCTTTCAA
133459 AATTTTTATTACTTAT
1 AATTTTTATTA--T-T
*
133475 AATATTTATTA-T
1 AATTTTTATTATT
133487 -ATTTTTATTATT
1 AATTTTTATTATT
133499 AATGTTTTATT-TT
1 AAT-TTTTATTATT
133512 AATTTT
1 AATTTT
133518 AGATATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 9 0.24
12 5 0.13
13 7 0.18
14 7 0.18
16 10 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (13 bp):
AATTTTTATTATT
Found at i:137540 original size:7 final size:7
Alignment explanation
Indices: 137528--137652 Score: 232
Period size: 7 Copynumber: 17.7 Consensus size: 7
137518 TACTCATCAA
137528 AAAAAGG
1 AAAAAGG
137535 AAAAAGG
1 AAAAAGG
137542 AAAAAGG
1 AAAAAGG
137549 AAAAAGG
1 AAAAAGG
137556 AAAAAGG
1 AAAAAGG
137563 AAAAAGG
1 AAAAAGG
137570 AAAAAGG
1 AAAAAGG
137577 AAAAAGG
1 AAAAAGG
137584 AAAAAGG
1 AAAAAGG
137591 AAAAAGG
1 AAAAAGG
137598 AAAAAGG
1 AAAAAGG
137605 AAAAAGG
1 AAAAAGG
137612 AAAAAGG
1 AAAAAGG
*
137619 AAAAGGG
1 AAAAAGG
137626 AAAAAGG
1 AAAAAGG
137633 AAAAAGG
1 AAAAAGG
137640 AAAAAAGG
1 -AAAAAGG
137648 AAAAA
1 AAAAA
137653 TTGAATCAAG
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
7 108 0.94
8 7 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:144060 original size:17 final size:17
Alignment explanation
Indices: 144038--144076 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
144028 TCTTTCATAT
144038 TGGATAACCTTGGTTAC
1 TGGATAACCTTGGTTAC
144055 TGGATAACCTTGGTTAC
1 TGGATAACCTTGGTTAC
*
144072 AGGAT
1 TGGAT
144077 TACCAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (17 bp):
TGGATAACCTTGGTTAC
Found at i:146790 original size:57 final size:57
Alignment explanation
Indices: 146726--146833 Score: 198
Period size: 57 Copynumber: 1.9 Consensus size: 57
146716 TATATTGCCA
*
146726 TTTCCCGTTGTTACTGGGGTTATCATTTACAATCAGGATGAACTGAGTTTTACGCCC
1 TTTCCCGTTGTTACTGGGGTTATCATTAACAATCAGGATGAACTGAGTTTTACGCCC
*
146783 TTTCCCGTTGTTACTGGGGTTATCATTAACAGTCAGGATGAACTGAGTTTT
1 TTTCCCGTTGTTACTGGGGTTATCATTAACAATCAGGATGAACTGAGTTTT
146834 CATCTATGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (57 bp):
TTTCCCGTTGTTACTGGGGTTATCATTAACAATCAGGATGAACTGAGTTTTACGCCC
Found at i:147239 original size:54 final size:54
Alignment explanation
Indices: 147175--147328 Score: 164
Period size: 54 Copynumber: 2.9 Consensus size: 54
147165 AAATATGTGT
* * * * *
147175 AAAAACCACAAAAAATAATGAATGTGTTGTCAAATGCTTTATGAACATCTGGCC
1 AAAAGCCACAAGAAATGATGAATGTGTTGTCAAATGCTTTACGAACATCCGGCC
* * * * * *
147229 AAAAGCCACAAGAAAGGATGCATGTGTTATCAAAAGCTTTACGAAAATCCGGGC
1 AAAAGCCACAAGAAATGATGAATGTGTTGTCAAATGCTTTACGAACATCCGGCC
* * * * *
147283 AGAAGCCACGAGAAATGATGAATGTATTGTCACATGTTTTACGAAC
1 AAAAGCCACAAGAAATGATGAATGTGTTGTCAAATGCTTTACGAAC
147329 CAGTGATTAT
Statistics
Matches: 79, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 79 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (54 bp):
AAAAGCCACAAGAAATGATGAATGTGTTGTCAAATGCTTTACGAACATCCGGCC
Found at i:147723 original size:20 final size:21
Alignment explanation
Indices: 147689--147739 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
147679 TCTACATTCT
147689 TCAAAGATGATAGATTCTCTC
1 TCAAAGATGATAGATTCTCTC
* *
147710 TCAAAGAT-ATAGATTCTTTT
1 TCAAAGATGATAGATTCTCTC
147730 TCAAAGATGA
1 TCAAAGATGA
147740 AAGCTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TCAAAGATGATAGATTCTCTC
Found at i:148508 original size:45 final size:45
Alignment explanation
Indices: 148376--148798 Score: 623
Period size: 45 Copynumber: 9.6 Consensus size: 45
148366 ACTATTCCCA
*
148376 CATCTGTAAGCTCTTCAGTGC---ATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
148418 CATCTGTAAGCCC-TCAGTGCATGAT-ATTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
148461 CATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACGTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
148506 CATCTATAAGCCATTCA--G--TGATGTTTTC-AAACCTTCGGTT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
148546 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
148591 CATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
148636 CATTTGTAAGCCCTTCAATGCATGATGTTTTCAAAACTTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
148681 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
148726 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
148772 CATCTGTAAGCCCTTCAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
148799 ATAAGACCTC
Statistics
Matches: 341, Mismatches: 29, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
40 24 0.07
41 16 0.05
42 13 0.04
43 30 0.09
44 24 0.07
45 196 0.57
46 38 0.11
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:148733 original size:135 final size:135
Alignment explanation
Indices: 148376--148798 Score: 632
Period size: 130 Copynumber: 3.2 Consensus size: 135
148366 ACTATTCCCA
* *
148376 CATCTGTAAGCTCTTCAGTGC---ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCC-TCAGTG
1 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
* *
148437 CATGAT-ATTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACGTT
66 CATGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTT
148501 CGGGT
131 CGGGT
* * * *
148506 CATCTATAAGCCATTC-A-G--TGATGTTTTC-AAACCTTCGGTTCATCTGTAAGCCCTTTAGTG
1 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
**
148566 CATGATGTTTTCAAAACCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTT
66 CATGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTT
148631 CGGGT
131 CGGGT
* *
148636 CATTTGTAAGCCCTTCAATGCATGATGTTTTCAAAACTTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
148701 CATGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCT
66 CATGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTC-AAAACCT
148766 TCGGGT
130 TCGGGT
* *
148772 CATCTGTAAGCCCTTCAGTGCAAGATG
1 CATCTGTAAGCCCTTCAATGCATGATG
148799 ATAAGACCTC
Statistics
Matches: 261, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
128 25 0.10
129 19 0.07
130 85 0.33
131 1 0.00
132 1 0.00
134 10 0.04
135 83 0.32
136 37 0.14
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (135 bp):
CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
CATGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTT
CGGGT
Found at i:148978 original size:3 final size:3
Alignment explanation
Indices: 148970--149003 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
148960 TAGTTTGCTT
*
148970 TTA TTA TTA TTA TTA TTA TTTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
149004 AATAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:148998 original size:13 final size:13
Alignment explanation
Indices: 148970--149007 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
148960 TAGTTTGCTT
*
148970 TTATTA-TTATTA
1 TTATTATTTAATA
148982 TTATTATTTAATA
1 TTATTATTTAATA
*
148995 TTATTATTAAATA
1 TTATTATTTAATA
149008 AATATTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATTTAATA
Found at i:150833 original size:2 final size:2
Alignment explanation
Indices: 150826--150863 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
150816 ATAAAAATAA
*
150826 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
150864 TTTCTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:151426 original size:2 final size:2
Alignment explanation
Indices: 151421--151473 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
151411 ACACACGCGC
151421 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
151463 TA TA TA TA TA T
1 TA TA TA TA TA T
151474 GCTGCTCGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:155038 original size:3 final size:3
Alignment explanation
Indices: 155030--155058 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
155020 GTGTAAGTTA
155030 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
155059 AATTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:155557 original size:134 final size:135
Alignment explanation
Indices: 155278--155623 Score: 507
Period size: 134 Copynumber: 2.6 Consensus size: 135
155268 GTGACAAGGT
* * * * * * *
155278 TCCTACATGATGAGGAAATCTGGTCGAGGGATTACACTGCTCATACATGATGAAGAGTTCTTGGC
1 TCCTACGTGATGAAGAGATATGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGC
* * *
155343 CATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGAC
66 CATCTTTAGGAATGGAGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGAC
*
155408 ACGGC
131 ACAGC
* * *
155413 TCCTACGTGATGAAGAGGTATGGTCGGGGGATGACATTGCTCATACGTGATGAAGAGTTCTTTGC
1 TCCTACGTGATGAAGAGATATGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGC
*
155478 CATCTTTAGGAATGGAGATAGCAC-GTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGAC
66 CATCTTTAGGAATGGAGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGAC
155542 ACAGC
131 ACAGC
* * * *
155547 TCCTACGTGATGAAGAGATCTGGTCGGTGGATGACACGGCTCATACGTGATGAAGAGTTC-TGGT
1 TCCTACGTGATGAAGAGATATGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGC
155611 CATCTTTAGGAAT
66 CATCTTTAGGAAT
155624 AATGGTTTCA
Statistics
Matches: 189, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
133 15 0.08
134 99 0.52
135 75 0.40
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (135 bp):
TCCTACGTGATGAAGAGATATGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGC
CATCTTTAGGAATGGAGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGAC
ACAGC
Found at i:155570 original size:43 final size:42
Alignment explanation
Indices: 155504--155615 Score: 113
Period size: 40 Copynumber: 2.7 Consensus size: 42
155494 GATAGCACGT
* *
155504 TCCTACGTGATGAGGACGA-CTGGTTATCTATGGTTGACACAGC
1 TCCTACGTGATGAAGA-GATCTGG-TATCTATGGATGACACAGC
** *
155547 TCCTACGTGATGAAGAGATCTGG--TCGGTGGATGACACGGC
1 TCCTACGTGATGAAGAGATCTGGTATCTATGGATGACACAGC
* *
155587 TCATACGTGATGAAGAGTTCTGGTCATCT
1 TCCTACGTGATGAAGAGATCTGGT-ATCT
155616 TTAGGAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 34 0.60
42 2 0.04
43 21 0.37
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
TCCTACGTGATGAAGAGATCTGGTATCTATGGATGACACAGC
Found at i:155746 original size:94 final size:99
Alignment explanation
Indices: 155637--155817 Score: 232
Period size: 98 Copynumber: 1.9 Consensus size: 99
155627 GGTTTCAAAA
* *
155637 GAAACCGACTCAAAGAT-GATGT-TTCAAA-AGAAACAGACTCAAATATGTTT-T-TGTT-AAGA
1 GAAACCGACTCAAAGATGGATGTATTCAAAGAGAAACAAACTCAAAGAT-TTTGTAT-TTCAAGA
*
155696 GAAACTGTCTCAAGAGAGACAAAATTCATTTCAATG
64 AAAACTGTCTCAAGAGAGACAAAATTCATTTCAATG
* * * *
155732 GAAA-CGACTCAAAGATGGTTTTATTTAAAGAGAAACAAACTCAAAGATTTTGTATTTCTAGAAA
1 GAAACCGACTCAAAGATGGATGTATTCAAAGAGAAACAAACTCAAAGATTTTGTATTTCAAGAAA
155796 AACTGTCTCAAGAGAGACAAAA
66 AACTGTCTCAAGAGAGACAAAA
155818 ATTGTTTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
94 12 0.16
95 7 0.10
96 8 0.11
97 19 0.26
98 27 0.37
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (99 bp):
GAAACCGACTCAAAGATGGATGTATTCAAAGAGAAACAAACTCAAAGATTTTGTATTTCAAGAAA
AACTGTCTCAAGAGAGACAAAATTCATTTCAATG
Found at i:156181 original size:105 final size:105
Alignment explanation
Indices: 155964--156265 Score: 410
Period size: 105 Copynumber: 2.9 Consensus size: 105
155954 CAGCTTTAAA
* * * * ** * *
155964 AATCTCAAGTTATATTAATTTTGTTTTAAGTAAAACAACTTTGAAATTTGTAT-T-ATGAGGGAA
1 AATCTCAAGTAAGATTAATTTTGTTTTAAGTGAAACAAATTCAAAATTTGTATCTCA-AAGGAAA
* * *
156027 AATGTCTCAAGTGAGACGAAATTTGTTTCGAAATAAACAAC
65 AATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
* *
156068 AATCTCAAGTAAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAA
1 AATCTCAAGTAAGATTAATTTTGTTTTAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAA
* *
156133 ATGTCTCAAGCGAGACGAAATTTATTTTGAAAGAAACAAT
66 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
* * *
156173 AGTCTCAAGTGAGATTAATTTTGTTTTAAGTGAAACAAATTCAAAATTTGTATCACAAAGGAAAA
1 AATCTCAAGTAAGATTAATTTTGTTTTAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAA
*
156238 ATGTCTCAAGCGAGACGAAGTTTGTTTT
66 ATGTCTCAAGCGAGACGAAATTTGTTTT
156266 AAGATAAATT
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
104 45 0.26
105 128 0.74
106 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (105 bp):
AATCTCAAGTAAGATTAATTTTGTTTTAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAA
ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
Found at i:156279 original size:36 final size:35
Alignment explanation
Indices: 156233--156441 Score: 237
Period size: 35 Copynumber: 5.9 Consensus size: 35
156223 TATCACAAAG
* *
156233 GAAAAATGTCTCAAGCGAGACGAAGTTTGTTTTAA
1 GAAAATTGTCTCAAGCGAGACAAAGTTTGTTTTAA
* * *
156268 GATAAATTGTCTTAAGTGAGACAAAATTTGTTTTTCAA
1 GA-AAATTGTCTCAAGCGAGACAAAGTTTG-TTTT-AA
*
156306 G-AAA-TGTCTCAAGCGAGACAAAATTTTGTTTTAA
1 GAAAATTGTCTCAAGCGAGAC-AAAGTTTGTTTTAA
* * *
156340 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGA
1 GAAAATTGTCTCAAGCGAGACAAAGTTTGTTTTAA
* *
156375 G-AAATTGTCTCAAGCGAGATAAAGTTTGTTTT-T
1 GAAAATTGTCTCAAGCGAGACAAAGTTTGTTTTAA
156408 GAGAAATTGTCTCAAGCGAGACAAAGTTTTGTTT
1 GA-AAATTGTCTCAAGCGAGACAAAG-TTTGTTT
156442 CGAGAGAAAC
Statistics
Matches: 150, Mismatches: 15, Indels: 17
0.82 0.08 0.09
Matches are distributed among these distances:
33 1 0.01
34 31 0.21
35 57 0.38
36 54 0.36
37 4 0.03
38 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (35 bp):
GAAAATTGTCTCAAGCGAGACAAAGTTTGTTTTAA
Found at i:156424 original size:105 final size:106
Alignment explanation
Indices: 156233--156441 Score: 296
Period size: 105 Copynumber: 2.0 Consensus size: 106
156223 TATCACAAAG
* * * * *
156233 GAAAAATGTCTCAAGCGAGACGAAGTTTGTTTTAAGATAAATTGTCTTAAGTGAGACAAAATTTG
1 GAAAAATGTCTCAAGCGAGACAAAATTTGTTTT-AGAGAAATTGTCTCAAGCGAGACAAAATTTG
156298 TTTTTCAAGAAATGTCTCAAGCGAGACAAAATTTTGTTTTAA
65 TTTTTCAAGAAATGTCTCAAGCGAGACAAAATTTTGTTTTAA
* * *
156340 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTT-GAGAAATTGTCTCAAGCGAGATAAAGTTTGT
1 GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTAGAGAAATTGTCTCAAGCGAGACAAAATTTGT
* *
156404 TTTT-GAGAAATTGTCTCAAGCGAGACAAAGTTTTGTTT
66 TTTTCAAGAAA-TGTCTCAAGCGAGACAAAATTTTGTTT
156442 CGAGAGAAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
104 5 0.05
105 56 0.62
107 30 0.33
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (106 bp):
GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTAGAGAAATTGTCTCAAGCGAGACAAAATTTGT
TTTTCAAGAAATGTCTCAAGCGAGACAAAATTTTGTTTTAA
Found at i:156770 original size:4 final size:4
Alignment explanation
Indices: 156753--156835 Score: 118
Period size: 4 Copynumber: 21.2 Consensus size: 4
156743 TTTCATGTGT
* *
156753 TATG TATA TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
156801 TATG --TG TATG TATG TATG TATG TAT- TGATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T-ATG TATG T
156836 TTTTCTTAGT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 1 0.01
4 67 0.94
5 1 0.01
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:158011 original size:7 final size:7
Alignment explanation
Indices: 157999--158085 Score: 54
Period size: 7 Copynumber: 12.0 Consensus size: 7
157989 ATGCTCCTTG
157999 TTTTCTT
1 TTTTCTT
*
158006 TTTTCTC
1 TTTTCTT
*
158013 TTTGCTT
1 TTTTCTT
158020 TTTT-TT
1 TTTTCTT
158026 TTCTT-TT
1 TT-TTCTT
158033 TTTTCTT
1 TTTTCTT
158040 TTTT-TT
1 TTTTCTT
*
158046 TCTTTGATT
1 T-TTT-CTT
*
158055 TTCTCTTTGT
1 TT-T-TCT-T
158065 TTTTCTT
1 TTTTCTT
158072 TTTTCTT
1 TTTTCTT
*
158079 TTCTCTT
1 TTTTCTT
158086 CGCTTTGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
6 9 0.14
7 43 0.66
8 3 0.05
9 6 0.09
10 4 0.06
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:158027 original size:25 final size:24
Alignment explanation
Indices: 157999--158085 Score: 90
Period size: 25 Copynumber: 3.7 Consensus size: 24
157989 ATGCTCCTTG
157999 TTTTCTTTTTTCTCTTTGCTTTTTT
1 TTTTCTTTTTTCTCTTTG-TTTTTT
*
158024 TTTTCTTTTTTTTCTTT-TTTTTT
1 TTTTCTTTTTTCTCTTTGTTTTTT
* **
158047 CTTT-GATTTTCTCTTTGTTTTTCT
1 TTTTCTTTTTTCTCTTTGTTTTT-T
*
158071 TTTT-TCTTTTCTCTT
1 TTTTCTTTTTTCTCTT
158086 CGCTTTGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 9 0.17
23 14 0.27
24 13 0.25
25 16 0.31
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.80
Consensus pattern (24 bp):
TTTTCTTTTTTCTCTTTGTTTTTT
Found at i:158033 original size:12 final size:13
Alignment explanation
Indices: 157999--158082 Score: 59
Period size: 13 Copynumber: 6.5 Consensus size: 13
157989 ATGCTCCTTG
157999 TTTTCTTTTTTCTC
1 TTTTCTTTTTT-TC
*
158013 TTTGC-TTTTTT-
1 TTTTCTTTTTTTC
158024 TTTTCTTTTTTTTC
1 TTTTC-TTTTTTTC
* *
158038 TTTTTTTTTCTTTGA
1 TTTTCTTTT-TTT-C
* *
158053 TTTTCTCTTTGT-
1 TTTTCTTTTTTTC
158065 TTTTC-TTTTTTC
1 TTTTCTTTTTTTC
158077 TTTTCT
1 TTTTCT
158083 CTTCGCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
11 8 0.15
12 11 0.20
13 15 0.28
14 13 0.24
15 7 0.13
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:158034 original size:10 final size:10
Alignment explanation
Indices: 158019--158075 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
158009 TCTCTTTGCT
158019 TTTTTTTTTC
1 TTTTTTTTTC
158029 -TTTTTTTTC
1 TTTTTTTTTC
158038 TTTTTTTTTC
1 TTTTTTTTTC
*
158048 TTTGATTTTCTC
1 TTT--TTTTTTC
*
158060 TTTGTTTTTC
1 TTTTTTTTTC
158070 TTTTTT
1 TTTTTT
158076 CTTTTCTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.22
10 22 0.55
12 9 0.22
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:158050 original size:35 final size:39
Alignment explanation
Indices: 157999--158096 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 39
157989 ATGCTCCTTG
*
157999 TTTTC-TTTTTTCTCTTTGCTTTT-T-TTT-TTCTT-TT
1 TTTTCTTTTTTTCTCTTTGATTTTCTCTTTGTTCTTCTT
* *
158033 TTTTCTTTTTTTTTCTTTGATTTTCTCTTTGTTTTTCTT
1 TTTTCTTTTTTTCTCTTTGATTTTCTCTTTGTTCTTCTT
*
158072 TTTTCTTTTCTCTTCGCTTTGATTT
1 TTTTCTTTT-T-TTCTCTTTGATTT
158097 GACATTCACA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
34 5 0.10
35 16 0.31
36 1 0.02
37 3 0.06
38 4 0.08
39 11 0.21
40 1 0.02
41 11 0.21
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.78
Consensus pattern (39 bp):
TTTTCTTTTTTTCTCTTTGATTTTCTCTTTGTTCTTCTT
Found at i:158056 original size:29 final size:29
Alignment explanation
Indices: 158024--158079 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
158014 TTGCTTTTTT
* *
158024 TTTTCT-TTTTTTTCTTTTTTTTTCTTTGA
1 TTTTCTCTTTGTTT-TTCTTTTTTCTTTGA
158053 TTTTCTCTTTGTTTTTCTTTTTTCTTT
1 TTTTCTCTTTGTTTTTCTTTTTTCTTT
158080 TCTCTTCGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (29 bp):
TTTTCTCTTTGTTTTTCTTTTTTCTTTGA
Found at i:158091 original size:12 final size:12
Alignment explanation
Indices: 158006--158091 Score: 52
Period size: 12 Copynumber: 7.2 Consensus size: 12
157996 TTGTTTTCTT
158006 TTTTCTCTTTGC
1 TTTTCTCTTTGC
* *
158018 TTTT-TTTTTTC
1 TTTTCTCTTTGC
*
158029 TTTTTTTTCTTT--
1 --TTTTCTCTTTGC
* *
158041 TTTTTTCTTTGA
1 TTTTCTCTTTGC
*
158053 TTTTCTCTTTGT
1 TTTTCTCTTTGC
* *
158065 TTTTCTTTTTTC
1 TTTTCTCTTTGC
*
158077 TTTTCTCTTCGC
1 TTTTCTCTTTGC
158089 TTT
1 TTT
158092 GATTTGACAT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
10 10 0.17
11 5 0.09
12 35 0.60
13 4 0.07
14 4 0.07
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTCTCTTTGC
Found at i:158786 original size:46 final size:45
Alignment explanation
Indices: 158694--158787 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
158684 GTAAATGCAG
* * * *
158694 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
* *
158739 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
158785 TGT
1 TGT
158788 CAAAATTTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
Found at i:163376 original size:31 final size:31
Alignment explanation
Indices: 163341--163403 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
163331 TTCTTTTTGG
163341 TTCTGAAAACTCCCTCTATCTCCTTTTTTTT
1 TTCTGAAAACTCCCTCTATCTCCTTTTTTTT
163372 TTCTGAAAACTCCCTCTATCTCCTTTTTTTT
1 TTCTGAAAACTCCCTCTATCTCCTTTTTTTT
163403 T
1 T
163404 CTTTTTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.52
Consensus pattern (31 bp):
TTCTGAAAACTCCCTCTATCTCCTTTTTTTT
Found at i:163996 original size:3 final size:3
Alignment explanation
Indices: 163988--164013 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
163978 GTGTAAGTTA
163988 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
164014 AATTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:165049 original size:58 final size:59
Alignment explanation
Indices: 164939--165049 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 59
164929 TCATAGTTTT
* * *
164939 GGGATGAAATTAAAATTTTCAAAAGTTTTAGGAATAATTTAGAATCATAGTCAGGCTTA
1 GGGATAAAATTAAAATTTTCAAAAGTTTTAGGAATAATTTAAAATCAGAGTCAGGCTTA
* *
164998 GGGATAAAATT-AAATATTT-AAAAG-TTTAGGGACTAATTTAAAATGAGAGTCA
1 GGGATAAAATTAAAAT-TTTCAAAAGTTTTA-GGAATAATTTAAAATCAGAGTCA
165050 TATTGAGGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 4 0.09
58 28 0.62
59 13 0.29
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (59 bp):
GGGATAAAATTAAAATTTTCAAAAGTTTTAGGAATAATTTAAAATCAGAGTCAGGCTTA
Found at i:175420 original size:19 final size:21
Alignment explanation
Indices: 175392--175432 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
175382 GTTGAGATTC
175392 AAAAGAAAAAA-GAA-AATGA
1 AAAAGAAAAAAGGAAGAATGA
*
175411 AAAAGTAAAAAGGAAGAATGA
1 AAAAGAAAAAAGGAAGAATGA
175432 A
1 A
175433 CATGTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (21 bp):
AAAAGAAAAAAGGAAGAATGA
Found at i:175943 original size:2 final size:2
Alignment explanation
Indices: 175931--175972 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
175921 ATGGTTAAAC
175931 TA TA T- 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
175972 T
1 T
175973 GTCATTTTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:179023 original size:41 final size:39
Alignment explanation
Indices: 178961--179147 Score: 147
Period size: 36 Copynumber: 4.9 Consensus size: 39
178951 TATATAAATG
* * * *
178961 TTTTCAAAAAC-ATATAATATATAAATTTTTAAGATGTTT
1 TTTTTAAAAACTATATATTATATAAATTTTTAAAATG-GT
* *
179000 TTTTTAAAAAACTATATATTATATATATTTTCAAAATGGT
1 TTTTT-AAAAACTATATATTATATAAATTTTTAAAATGGT
* * *
179040 TTTTTAAAAATTATATATTATATAAATGTTTTCATAA-CG-
1 TTTTTAAAAACTATATATTATATAAAT-TTTT-AAAATGGT
* * * *
179079 -TTTTCAAAAGTATATATTATATATA-TTTTAAAA-CG-
1 TTTTTAAAAACTATATATTATATAAATTTTTAAAATGGT
* *
179114 TTTTCAAAAACTATATATTATAT-AATTTTCAAAA
1 TTTTTAAAAACTATATATTATATAAATTTTTAAAA
179148 AATATATTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 15
0.78 0.13 0.10
Matches are distributed among these distances:
35 6 0.05
36 30 0.25
38 22 0.18
39 24 0.20
40 16 0.13
41 24 0.20
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (39 bp):
TTTTTAAAAACTATATATTATATAAATTTTTAAAATGGT
Found at i:179132 original size:27 final size:25
Alignment explanation
Indices: 179097--179199 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 25
179087 AGTATATATT
*
179097 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
179123 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* *
179148 A-ATATATTTTCAAAATGGTTTTTAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAA
179175 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
179200 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
23 8 0.13
24 3 0.05
25 10 0.16
26 1 0.02
27 21 0.34
28 7 0.11
29 11 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:179136 original size:36 final size:37
Alignment explanation
Indices: 179001--179351 Score: 198
Period size: 36 Copynumber: 9.0 Consensus size: 37
178991 AAGATGTTTT
* **
179001 TTTTAAAAAACTATATATTATATATATTTTCAAAATGG
1 TTTTCAAAAACTATATATTATATATATTTT-AAAAACG
* * * * *
179039 TTTTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 -TTTTCAAAAACTATATATTATAT--ATATTTTAAAAACG
*
179079 TTTTC-AAAAGTATATATTATATATATTTT-AAAACG
1 TTTTCAAAAACTATATATTATATATATTTTAAAAACG
179114 TTTTCAAAAACTATATATTATATA-ATTTTCAAAAAATATATTTTCAAAATGG
1 TTTTCAAAAACTATATATTATATATATTTT----AAA-A-A----C------G
* * * * * *
179166 TTTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 TTTTCAAAAACTATATATTATATATATTTTA--AAAACG
*
179205 TTTTC-AAAAGTATATATTATATATATTTTAAAAACG
1 TTTTCAAAAACTATATATTATATATATTTTAAAAACG
**
179241 TTTTCAAAAACTATATATTATATA-ATTTTCAAAAATA
1 TTTTCAAAAACTATATATTATATATATTTT-AAAAACG
* * *
179278 TTTT-AAAAACTATATAATATACATATTTTCAAAAAATG
1 TTTTCAAAAACTATATATTATATATATTTT--AAAAACG
179316 TTTT---AAACTATATATTATATATGTATTTTCAAAAAC
1 TTTTCAAAAACTATATATTATATA--TATTTT-AAAAAC
179352 AATTTTGCAA
Statistics
Matches: 249, Mismatches: 34, Indels: 60
0.73 0.10 0.17
Matches are distributed among these distances:
35 15 0.06
36 70 0.28
37 36 0.14
38 53 0.21
39 30 0.12
40 5 0.02
41 7 0.03
42 1 0.00
45 1 0.00
46 1 0.00
49 1 0.00
50 1 0.00
51 1 0.00
52 23 0.09
53 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTCAAAAACTATATATTATATATATTTTAAAAACG
Found at i:179158 original size:15 final size:16
Alignment explanation
Indices: 179133--179162 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
179123 ACTATATATT
179133 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
179149 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
179163 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:179190 original size:126 final size:128
Alignment explanation
Indices: 179022--179275 Score: 494
Period size: 126 Copynumber: 2.0 Consensus size: 128
179012 TATATATTAT
179022 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
179087 AGTATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
179149 ATATATTTTCAAAATGG-TTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
179213 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
179276 TATTTTAAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 68 0.54
127 58 0.46
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (128 bp):
ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:179320 original size:38 final size:37
Alignment explanation
Indices: 179149--179379 Score: 177
Period size: 36 Copynumber: 6.2 Consensus size: 37
179139 TTTTCAAAAA
*
179149 ATATATTTTC-AAAATGGTTTTTAAAAATTATATATTATAT
1 ATATATTTTCAAAAAT-G-TTTTAAAAACTATATA--ATAT
* * * * * * *
179189 AAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATAATAT
* *
179225 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAATGTTTT-AAAAACTATATAATAT
*
179262 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATAATAT
*
179298 ACATATTTTCAAAAAATGTTTT--AAACTATATATTATAT
1 ATATATTTTC-AAAAATGTTTTAAAAACTATATA--ATAT
* ** ** *
179336 ATGTATTTTCAAAAACAATTTTGCAAACTGTATAATAT
1 ATATATTTTCAAAAA-TGTTTTAAAAACTATATAATAT
179374 ATATAT
1 ATATAT
179380 GTGTATATAT
Statistics
Matches: 158, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
36 51 0.32
37 37 0.23
38 49 0.31
39 1 0.01
40 20 0.13
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
ATATATTTTCAAAAATGTTTTAAAAACTATATAATAT
Found at i:180114 original size:84 final size:84
Alignment explanation
Indices: 179994--180610 Score: 677
Period size: 84 Copynumber: 7.4 Consensus size: 84
179984 AGGTCTTTAG
* * *
179994 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
180059 CTCGAAGGTCTTTTGGTCA
66 CTCGAAGGTCTTTTGGTCA
* * * * * * * *
180078 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
**
180143 ACTCGGGGGTC-TTTGG---
65 ACTCGAAGGTCTTTTGGTCA
* * *
180159 CAGATAGCCCTTCTTGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
180224 CTCGAAGGTCTTTTGGTCA
66 CTCGAAGGTCTTTTGGTCA
* * * * * * * *
180243 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
**
180308 ACTCGGGGGTC-TTTGG---
65 ACTCGAAGGTCTTTTGGTCA
* *
180324 CAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
180389 CTCGAAGGTCTTTTGGTCA
66 CTCGAAGGTCTTTTGGTCA
* * * * * * * *
180408 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT-ATTATGCCCTTGAAGCTGAGTGTAATCG
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGA-TGTG-CCTTGGAGCTGAGCGTAGTCG
*
180472 AACT-TAAGGGTC-TTTGG---
64 AACTCGAA-GGTCTTTTGGTCA
* * *
180489 CAGATAGCCCTTCTTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTC-TAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
180554 ACTCAAAGGTCTTTTGGTCA
65 ACTCGAAGGTCTTTTGGTCA
* * * *
180574 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATG
180611 TTATGTTTAA
Statistics
Matches: 432, Mismatches: 81, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
80 54 0.12
81 119 0.28
82 27 0.06
83 2 0.00
84 139 0.32
85 91 0.21
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTTGGTCA
Found at i:180164 original size:165 final size:165
Alignment explanation
Indices: 179971--180610 Score: 1138
Period size: 165 Copynumber: 3.9 Consensus size: 165
179961 AAGTTGAATA
* *
179971 TAATCGAACTCGGAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
*
180036 CCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
180101 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* *
180136 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAACTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
180201 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
180266 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
*
180301 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
180366 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
* *
180431 TTATGCTGTAAAT-ATTATGCCCTTGAAGCTGAGTG
131 TTATGCTGTAAATGA-TGTGCCCTCGAAGCTGAGTG
*** *
180466 TAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTTCGACTTAAGCTATTCTGCAAATGATGT
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTC-TCGACTTAAGCTATGCTGCAAATGATGT
*
180531 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
65 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
180596 GTTATGCTGTAAATG
130 GTTATGCTGTAAATG
180611 TTATGTTTAA
Statistics
Matches: 458, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
164 1 0.00
165 353 0.77
166 104 0.23
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:183956 original size:18 final size:19
Alignment explanation
Indices: 183915--183959 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
183905 AGTTAATGTG
183915 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
183934 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
183952 AATGCAAA
1 AATGCAAA
183960 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:187032 original size:40 final size:40
Alignment explanation
Indices: 186964--187045 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
186954 TATATAAATG
* * *
186964 TTTTCAAAAACATATAATATATAAATTTTTAAGATGTTTTT
1 TTTTAAAAAACATATAATATATAAATTTTCAA-ATGGTTTT
*
187005 TTTTAAAAAAC-TAT-ATATTATATATTTTCAAATGGTTTT
1 TTTTAAAAAACATATAATA-TATAAATTTTCAAATGGTTTT
187044 TT
1 TT
187046 AAAAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 12 0.33
40 14 0.39
41 10 0.28
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (40 bp):
TTTTAAAAAACATATAATATATAAATTTTCAAATGGTTTT
Found at i:187056 original size:36 final size:34
Alignment explanation
Indices: 187004--187144 Score: 122
Period size: 35 Copynumber: 3.9 Consensus size: 34
186994 AAGATGTTTT
*
187004 TTTTTAAAAAACTATATATTATATATTTTCAAATGG
1 TTTTT-AAAAACTATATATTATATATTTTCAAA-CG
* * *
187040 TTTTTTAAAAATTATATTATATAAATGTTTTCATAACG
1 -TTTTTAAAAACTATA-TAT-TATATATTTTCA-AACG
* * * *
187078 -TTTTCAAAAGTATATTTATATATATTTTAAAACG
1 TTTTTAAAAACTATATAT-TATATATTTTCAAACG
*
187112 TTTTCAAAAACTATATATTATATAATTTTCAAA
1 TTTTTAAAAACTATATATTATAT-ATTTTCAAA
187145 AAATATATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
34 9 0.11
35 33 0.39
36 21 0.25
37 8 0.10
38 11 0.13
39 2 0.02
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (34 bp):
TTTTTAAAAACTATATATTATATATTTTCAAACG
Found at i:187126 original size:27 final size:25
Alignment explanation
Indices: 187095--187197 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 25
187085 AAGTATATTT
*
187095 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
187121 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* *
187146 A-ATATATTTTCAAAATGGTTTTTAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAA
187173 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
187198 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
23 8 0.13
24 3 0.05
25 10 0.16
26 1 0.02
27 21 0.34
28 7 0.11
29 11 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:187156 original size:15 final size:16
Alignment explanation
Indices: 187131--187160 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
187121 ACTATATATT
187131 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
187147 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
187161 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:187157 original size:123 final size:125
Alignment explanation
Indices: 187024--187271 Score: 441
Period size: 125 Copynumber: 2.0 Consensus size: 125
187014 ACTATATATT
187024 ATATATTTTC-AAATGGTTTTTTAAAAA-T-TATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGG-TTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
*
187086 AGTATAT-TTATATATATTTTAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
65 AGTATATATTATATAT-TTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
187147 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
187212 GTATATATTATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 GTATATATTATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
187272 TATTTTAAAA
Statistics
Matches: 120, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
123 20 0.17
124 7 0.06
125 85 0.71
126 8 0.07
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (125 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
GTATATATTATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:187259 original size:35 final size:34
Alignment explanation
Indices: 187147--187330 Score: 147
Period size: 35 Copynumber: 5.2 Consensus size: 34
187137 TTTTCAAAAA
** *
187147 ATATATTTTCAAAATGGTTTTTAAAAATTATATATT
1 ATATATTTT-AAAAACG-TTTTAAAAACTATATATT
* * * *
187183 ATATAAATGTTTTCATAACGTTTTCAAAAGTATATATT
1 ATAT--A--TTTTAAAAACGTTTTAAAAACTATATATT
187221 ATATATTTTAAAAACGTTTTCAAAAACTATATATT
1 ATATATTTTAAAAACGTTTT-AAAAACTATATATT
** *
187256 ATATAATTTTCAAAAATATTTTAAAAACTATATAAT
1 ATAT-ATTTT-AAAAACGTTTTAAAAACTATATATT
* * *
187292 ACATATTTCAAAAAATGTTTT--AAACTATATATT
1 ATATATTT-TAAAAACGTTTTAAAAACTATATATT
187325 ATATAT
1 ATATAT
187331 GTATTTTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
33 16 0.13
34 13 0.11
35 30 0.25
36 26 0.21
37 9 0.07
38 21 0.17
39 3 0.02
40 4 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (34 bp):
ATATATTTTAAAAACGTTTTAAAAACTATATATT
Found at i:187357 original size:40 final size:36
Alignment explanation
Indices: 187203--187370 Score: 118
Period size: 36 Copynumber: 4.6 Consensus size: 36
187193 TTTCATAACG
* **
187203 TTTTCAAAAGTATATA-T-TATATATTTT-AAAAACG
1 TTTT-AAAACTATATATTATATATATTTTCAAAAAAA
*
187237 TTTTCAAAAACTATATATTATATA-ATTTTCAAAAATA
1 TTTT--AAAACTATATATTATATATATTTTCAAAAAAA
*
187274 TTTTAAAAACTATATA--ATACATA-TTTC-AAAAAA
1 TTTT-AAAACTATATATTATATATATTTTCAAAAAAA
*
187307 TGTTTTAAACTATATATTATATATGTATTTTCAAAAACAA
1 T-TTTAAAACTATATATTATATA--TATTTTCAAAAA-AA
* * *
187347 TTTTGCAAACTGTATAATATATAT
1 TTTT-AAAACTATATATTATATAT
187371 GTGTATATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 24
0.76 0.08 0.17
Matches are distributed among these distances:
33 16 0.15
34 15 0.14
35 15 0.14
36 18 0.17
37 15 0.14
38 5 0.05
39 7 0.06
40 18 0.17
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (36 bp):
TTTTAAAACTATATATTATATATATTTTCAAAAAAA
Found at i:187717 original size:81 final size:81
Alignment explanation
Indices: 187582--187740 Score: 257
Period size: 81 Copynumber: 2.0 Consensus size: 81
187572 TTATAAACAA
* * *
187582 ATATTATAGTGTAATCACTTTAAAACTATGAAAATAACAAATTTAAAATTTTAGGATTGAGTTAT
1 ATATTATAATGTAATCACTTTAAAACTATCAAAATAACAAATTTAAAATTTTAGGATGGAGTTAT
187647 TTCTCTAGGGATGAAT
66 TTCTCTAGGGATGAAT
* *
187663 ATATTATAATGTAGTCACTTTAAAACTATCAGAATAACAAA-TTAAAATTTTTAGGATGGAGTTA
1 ATATTATAATGTAATCACTTTAAAACTATCAAAATAACAAATTTAAAA-TTTTAGGATGGAGTTA
187727 TTTCTCTAGGGATG
65 TTTCTCTAGGGATG
187741 GATGTAGGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 6 0.08
81 66 0.92
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (81 bp):
ATATTATAATGTAATCACTTTAAAACTATCAAAATAACAAATTTAAAATTTTAGGATGGAGTTAT
TTCTCTAGGGATGAAT
Found at i:189895 original size:15 final size:14
Alignment explanation
Indices: 189875--189913 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
189865 ATCTCATTAT
189875 ATTTCTCTTCTCTTC
1 ATTTCTCTTC-CTTC
189890 ATTTCTTCTTCCTTC
1 ATTTC-TCTTCCTTC
189905 ATCTTCTCT
1 AT-TTCTCT
189914 AAGTATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTCTCTTCCTTC
Found at i:193982 original size:156 final size:158
Alignment explanation
Indices: 193765--194067 Score: 520
Period size: 156 Copynumber: 1.9 Consensus size: 158
193755 CAGATAACAT
*
193765 ATAATTAGAGGAGTTTGTTTAATAGTTTCTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGA
1 ATAATTAGAGGAGTTTATTTAATAGTTTCTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGA
* * *
193830 CAATCAAACAGATCAATCATTAAAATACGCGGCGGACGCTTATTGGCTGATCAGTATGCCTGTGA
66 CAATCAAACAGATCAACCATTAAAAGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGA
193895 CGTCCTACCCAGTATATTTAATAGATAA
131 CGTCCTACCCAGTATATTTAATAGATAA
*
193923 ATAATTAGAGGAGTTTATTTAATAG-TT-TTTTTTTCAAAACCAAAACAACCCTAGAACCAATGA
1 ATAATTAGAGGAGTTTATTTAATAGTTTCTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGA
* *
193986 CAATCAAACAGATCAACCATTAAAGGACGCGGCGAACGGTTATTGGCTGATCAGTATGCCTGTGA
66 CAATCAAACAGATCAACCATTAAAAGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGA
*
194051 CGTCCTGCCCAGTATAT
131 CGTCCTACCCAGTATAT
194068 AGTTCTTTTG
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
156 111 0.81
157 2 0.01
158 24 0.18
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (158 bp):
ATAATTAGAGGAGTTTATTTAATAGTTTCTTTTTTTCAAAACAAAAACAACCCTAGAACCAATGA
CAATCAAACAGATCAACCATTAAAAGACGCGGCGAACGCTTATTGGCTGATCAGTATGCCTGTGA
CGTCCTACCCAGTATATTTAATAGATAA
Found at i:196706 original size:26 final size:26
Alignment explanation
Indices: 196656--196706 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
196646 GACATCCATC
*
196656 AAAATGCACTACTAATAACATATATT
1 AAAATGCACTACTAATAACAAATATT
196682 AAAATGCA-TCACTAATATA-AAATAT
1 AAAATGCACT-ACTAATA-ACAAATAT
196707 GATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.05
26 20 0.91
27 1 0.05
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATGCACTACTAATAACAAATATT
Found at i:200622 original size:2 final size:2
Alignment explanation
Indices: 200615--200689 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
200605 CTTTTAACTT
200615 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
200657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
200690 AATTGCTTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:200775 original size:22 final size:22
Alignment explanation
Indices: 200728--200775 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
200718 AAAAATTATT
* *
200728 TTTTATTAAATATTTTTGATAT
1 TTTTATTAAATATTTTTAATAA
*
200750 TTTTATTTAAT-TTTTTAAATAA
1 TTTTATTAAATATTTTT-AATAA
200772 TTTT
1 TTTT
200776 CACATCGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTAAATATTTTTAATAA
Found at i:201153 original size:28 final size:31
Alignment explanation
Indices: 201103--201162 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 31
201093 TCTCTATGTA
*
201103 AAAATTAAATGTTAATTTTGTAAATATTTTT
1 AAAATTAAATGTTAATTATGTAAATATTTTT
201134 AAAA-TAAAT-TTAA-TATGTAAATATTTTT
1 AAAATTAAATGTTAATTATGTAAATATTTTT
201162 A
1 A
201163 TTAGGGTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.54
29 4 0.14
30 5 0.18
31 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
AAAATTAAATGTTAATTATGTAAATATTTTT
Found at i:202649 original size:665 final size:667
Alignment explanation
Indices: 201419--202651 Score: 2332
Period size: 665 Copynumber: 1.9 Consensus size: 667
201409 TGATGATAAG
201419 AAATATTTTATAATTTAAAAAATTTATTATCTTTTAAAATTAATTGTTTAAAAATATAAAAAAAT
1 AAATATTTTATAATTTAAAAAATTTATTATCTTTTAAAATTAATTGTTTAAAAATATAAAAAAAT
*
201484 TTAAAATAATTTTTTTATTACAATTGTGGGATCAAACGAATTATTATTCATTAATTATTATTTTT
66 TTAAAATAATATTTTTATTACAATTGTGGGATCAAACGAATTATTATTCATTAATTATTATTTTT
*
201549 TAACAACAGTTAATAATGTTTATTCATTTTTAATAAAATTAGAATTGCGGGATCAAATAAACTTT
131 TAACAACAGTTAATAATGTTTATTCATTTTTAATAAAATTAGAATTGCGAGATCAAATAAACTTT
*
201614 TAATTATAACTGCGGGATCAAATGAATTATTATTCATTCATTATTAAAAATGAATAAACATTATT
196 TAATTATAACTGCGAGATCAAATGAATTATTATTCATTCATTATTAAAAATGAATAAACATTATT
201679 AACTGTTGTTAAAAAATAATAAATAATAATTCATTTGATCCCGTAATTATAATTAAAAGTTTATT
261 AACTGTTGTTAAAAAATAATAAATAATAATTCATTTGATCCCGTAATTATAATTAAAAGTTTATT
* *
201744 TTAATATTTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAATTTTTTAAAAATATATGA
326 TTAATATTTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAATTTTTCAAAAATATATAA
201809 AATTTATTATTTTTTAAATTATAAAATATTTCTTATTATTATCACCATCATCATCATTTTGTAAA
391 AATTTATTATTTTTTAAATTATAAAATATTTCTTATTATTATCACCATCATCATCATTTTGTAAA
*
201874 AGATATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAAATTACTTACCTTGAAAGTTT
456 AGATATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAAATTACTTACCTTCAAAGTTT
201939 TACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAAATTTGAAAAATTATAAAA
521 TACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAAATTTGAAAAATTATAAAA
202004 ACTTATTTTGAAATAAATTTCATATAATTTATTGTGTAATTTTTCAAACTTTTAATATTTTATAA
586 ACTTATTTTGAAATAAATTTCATATAATTTATTGTGTAATTTTTCAAACTTTTAATATTTTATAA
202069 CTAGTAATTTAAATTAT
651 CTAGTAATTTAAATTAT
* *
202086 AAATATTTTATAATTTTGAAAAATTTATTGTCTTTTAAAATTAATTGTTTAAAAATATAAAAAAA
1 AAATATTTTATAA-TTTAAAAAATTTATTATCTTTTAAAATTAATTGTTTAAAAATATAAAAAAA
202151 TTTAAAATAA-ATTTTTATTACAATTGTGGGATCAAACGAATTATTATTCATTAATTATTATTTT
65 TTTAAAATAATATTTTTATTACAATTGTGGGATCAAACGAATTATTATTCATTAATTATTATTTT
202215 TTAACAACAGTTAATAATGTTTATTCATTTTTAAT-AAATTAGAATTGCGAGATCAAATAAACTT
130 TTAACAACAGTTAATAATGTTTATTCATTTTTAATAAAATTAGAATTGCGAGATCAAATAAACTT
202279 TTAATTATAACTGCGAGATCAAATGAATTATTATTCATTCATTATTAAAAATGAATAAACATTAT
195 TTAATTATAACTGCGAGATCAAATGAATTATTATTCATTCATTATTAAAAATGAATAAACATTAT
202344 TAACTGTTGTTAAAAAATAATAAATAATAATTCATTTGAT-CCGTAATTATAATTAAAAGTTTAT
260 TAACTGTTGTTAAAAAATAATAAATAATAATTCATTTGATCCCGTAATTATAATTAAAAGTTTAT
202408 TTTAATATTTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAATTTTTCAAAAATATATA
325 TTTAATATTTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAATTTTTCAAAAATATATA
202473 AAATTTATTATTTTTTAAATTATAAAATATTTCTTATTATTATCACCATCATCATCATTTTGTAA
390 AAATTTATTATTTTTTAAATTATAAAATATTTCTTATTATTATCACCATCATCATCATTTTGTAA
202538 AAGATATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAAATTACTTACCTTCAAAGTT
455 AAGATATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAAATTACTTACCTTCAAAGTT
* *
202603 TTACTATACTATA-T-TATATATATTGTGTAATTTTATGCAAAAAAAAATT
520 TTACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAAATT
202652 GTCGAGTTAT
Statistics
Matches: 555, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
663 33 0.06
664 1 0.00
665 229 0.41
666 132 0.24
667 101 0.18
668 59 0.11
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.45
Consensus pattern (667 bp):
AAATATTTTATAATTTAAAAAATTTATTATCTTTTAAAATTAATTGTTTAAAAATATAAAAAAAT
TTAAAATAATATTTTTATTACAATTGTGGGATCAAACGAATTATTATTCATTAATTATTATTTTT
TAACAACAGTTAATAATGTTTATTCATTTTTAATAAAATTAGAATTGCGAGATCAAATAAACTTT
TAATTATAACTGCGAGATCAAATGAATTATTATTCATTCATTATTAAAAATGAATAAACATTATT
AACTGTTGTTAAAAAATAATAAATAATAATTCATTTGATCCCGTAATTATAATTAAAAGTTTATT
TTAATATTTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAATTTTTCAAAAATATATAA
AATTTATTATTTTTTAAATTATAAAATATTTCTTATTATTATCACCATCATCATCATTTTGTAAA
AGATATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAAATTACTTACCTTCAAAGTTT
TACTATACTATATTATATATATATTCTGTAATTTCATGCAAAAAAAAATTTGAAAAATTATAAAA
ACTTATTTTGAAATAAATTTCATATAATTTATTGTGTAATTTTTCAAACTTTTAATATTTTATAA
CTAGTAATTTAAATTAT
Found at i:205392 original size:16 final size:15
Alignment explanation
Indices: 205373--205403 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
205363 TAAGTTTTTT
205373 TTAATATTATTTTTAA
1 TTAATATT-TTTTTAA
205389 TTAATATTTTTTTAA
1 TTAATATTTTTTTAA
205404 AAATTATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTTTTTAA
Found at i:206914 original size:40 final size:40
Alignment explanation
Indices: 206858--206971 Score: 210
Period size: 40 Copynumber: 2.8 Consensus size: 40
206848 CAATATAGCT
*
206858 TAAGAAACTACACTGCTGTTATATTGTAACACAAGAATCA
1 TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
206898 TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
1 TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
206938 TAAGAAACTACGCTGCTGTTATATTGTAATCACA
1 TAAGAAACTACGCTGCTGTTATATTGTAA-CACA
206972 TGCGTCTGGT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
40 68 0.94
41 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (40 bp):
TAAGAAACTACGCTGCTGTTATATTGTAACACAAGAATCA
Found at i:207816 original size:17 final size:16
Alignment explanation
Indices: 207794--207859 Score: 66
Period size: 15 Copynumber: 4.2 Consensus size: 16
207784 TTCAGAAAAG
207794 AAAAATAATAAAATATA
1 AAAAATAATAAAATA-A
* *
207811 AAAAATATTAAAA-GA
1 AAAAATAATAAAATAA
*
207826 GAAAATAA-AAAATAA
1 AAAAATAATAAAATAA
*
207841 AACAA-AATAAAATAA
1 AAAAATAATAAAATAA
207856 AAAA
1 AAAA
207860 GAAGTGAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
14 6 0.15
15 21 0.54
17 12 0.31
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAATAATAAAATAA
Found at i:207831 original size:32 final size:31
Alignment explanation
Indices: 207789--207849 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
207779 TAAATTTCAG
*
207789 AAAAGAAAAATAATAAAATATAA-AAAATATT
1 AAAAGAAAAATAA-AAAATAAAACAAAATATT
207820 AAAAGAGAAAATAAAAAATAAAACAAAATA
1 AAAAGA-AAAATAAAAAATAAAACAAAATA
207850 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (31 bp):
AAAAGAAAAATAAAAAATAAAACAAAATATT
Found at i:207859 original size:7 final size:7
Alignment explanation
Indices: 207795--207859 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
207785 TCAGAAAAGA
207795 AAAATAAT
1 AAAA-AAT
*
207803 AAAATAT
1 AAAAAAT
207810 AAAAAAT
1 AAAAAAT
* *
207817 ATTAAAAG
1 A-AAAAAT
*
207825 AGAAAAT
1 AAAAAAT
207832 AAAAAAT
1 AAAAAAT
207839 AAAACAA-
1 AAAA-AAT
207846 AATAAAAT
1 AA-AAAAT
207854 AAAAAA
1 AAAAAA
207860 GAAGTGAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
7 31 0.67
8 15 0.33
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:208626 original size:73 final size:73
Alignment explanation
Indices: 208541--208706 Score: 208
Period size: 73 Copynumber: 2.3 Consensus size: 73
208531 ATACCTAAGT
* * * *
208541 CATAGGTACCGATACCCTTATGTTGATTTTGGCTTCAAGAAAAACATAATG-CCAAAAGGGTATC
1 CATAGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAGAATGTCC-AAAGGGTACC
208605 GATACCCCC
65 GATACCCCC
* * **
208614 CATAGGTACCGATACCCTTGTGTTAATTTTGGCTCCGAGAAAAACAGAATGTCCAATTGGTACCG
1 CATAGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAGAATGTCCAAAGGGTACCG
*
208679 ATACTCCC
66 ATACCCCC
* * *
208687 TAAAGGTACTGATACCCTTA
1 CATAGGTACCGATACCCTTA
208707 GTCATTTAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
73 77 0.97
74 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (73 bp):
CATAGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAGAATGTCCAAAGGGTACCG
ATACCCCC
Found at i:210642 original size:21 final size:20
Alignment explanation
Indices: 210605--210643 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
210595 TCGGATTATG
* *
210605 AAAAATTATTTTTAAAATAC
1 AAAAATGATTTTCAAAATAC
210625 AAAAATGATATTTCAAAAT
1 AAAAATGAT-TTTCAAAAT
210644 TGAAAAACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAATGATTTTCAAAATAC
Found at i:210649 original size:21 final size:20
Alignment explanation
Indices: 210603--210650 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
210593 CTTCGGATTA
* *
210603 TGAAAAATTATTTTTAAAAT
1 TGAAAAATGATTTTCAAAAT
**
210623 ACAAAAATGATATTTCAAAAT
1 TGAAAAATGAT-TTTCAAAAT
210644 TGAAAAA
1 TGAAAAA
210651 CGAAAATAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
TGAAAAATGATTTTCAAAAT
Found at i:216102 original size:54 final size:54
Alignment explanation
Indices: 216038--216156 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
216028 CTAAGTCATA
* * * *
216038 GGTACTGATACCCTAATGTTGATTTTGGTTCCAAGAAAAGCAGAATGTCAAACG
1 GGTACTGATACCCTAATGTTAATTTTGGCTCCAAGAAAAACAGAATGCCAAACG
** ** * *
216092 GGTACTGATACCCTTGTGTTAATTTTGGCTCTGAGAAAAACAGAATGCCCAATG
1 GGTACTGATACCCTAATGTTAATTTTGGCTCCAAGAAAAACAGAATGCCAAACG
*
216146 GGTACCGATAC
1 GGTACTGATAC
216157 TCCCTAAAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTACTGATACCCTAATGTTAATTTTGGCTCCAAGAAAAACAGAATGCCAAACG
Found at i:219625 original size:15 final size:15
Alignment explanation
Indices: 219605--219650 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
219595 AATTACTGGA
219605 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
219620 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
*
219635 -CTAGAAAATGAATT
1 ACTGGAAAATGAATT
219649 AC
1 AC
219651 ATTTCCGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:219648 original size:14 final size:15
Alignment explanation
Indices: 219609--219650 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
219599 ACTGGAACTG
*
219609 GAAAATGAATTACTG
1 GAAAATGAATTACTA
**
219624 GAATTTGAATT-CTA
1 GAAAATGAATTACTA
219638 GAAAATGAATTAC
1 GAAAATGAATTAC
219651 ATTTCCGGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (15 bp):
GAAAATGAATTACTA
Found at i:220005 original size:23 final size:23
Alignment explanation
Indices: 219961--220048 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
219951 AGTGTTATAT
*
219961 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAA
* * *
219984 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAAAATATTAATTAA
* ** *
220007 AATATTTTTTAAATATTTAAATAA
1 TATATTTTAAAAATA-TTAATTAA
*
220031 TATTATTATTAAATATAT
1 TA-TATT-TTAAAAATAT
220049 AAAAAATTTA
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
23 29 0.62
24 7 0.15
25 5 0.11
26 6 0.13
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:220051 original size:24 final size:24
Alignment explanation
Indices: 220005--220062 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
219995 TATCTTTATT
*
220005 AAAATATT-TT-TTAAATATTTAA
1 AAAATATTATTATTAAATATATAA
*
220027 ATAATATTATTATTAAATATATAA
1 AAAATATTATTATTAAATATATAA
220051 AAAAT-TTATTAT
1 AAAATATTATTAT
220063 ATATTATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.23
23 9 0.29
24 15 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATTATTATTAAATATATAA
Done.