Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_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: 2380696
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:2061617 original size:34 final size:29
Alignment explanation
Indices: 2061549--2061620 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
2061539 CATATTATGA
*
2061549 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
2061578 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
2061607 TGCATGACATGAAT
1 TACATGACATGAAT
2061621 ATGCAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:2061680 original size:30 final size:30
Alignment explanation
Indices: 2061635--2061704 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
2061625 AGAAAAAGTT
* * * *
2061635 ATATGAGCTCTGTGATAAAGGTATGTAACTG
1 ATATGA-CTATGTGATAAAGGTATGGAAATA
2061666 ATATGACTATGTGATAAAGGTATGGAAATA
1 ATATGACTATGTGATAAAGGTATGGAAATA
2061696 ATATGACTA
1 ATATGACTA
2061705 CGCGATATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
ATATGACTATGTGATAAAGGTATGGAAATA
Found at i:2062059 original size:149 final size:149
Alignment explanation
Indices: 2061789--2062092 Score: 608
Period size: 149 Copynumber: 2.0 Consensus size: 149
2061779 GGGTAGAGGG
2061789 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
2061854 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
2061919 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
2061938 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
2062003 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
2062068 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
2062087 TCTACG
1 TCTACG
2062093 GGGCACTTCG
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 155 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:2062115 original size:23 final size:23
Alignment explanation
Indices: 2062071--2062115 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2062061 ATTATTATAT
*
2062071 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
2062094 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2062116 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:2068246 original size:66 final size:67
Alignment explanation
Indices: 2068167--2068319 Score: 209
Period size: 67 Copynumber: 2.3 Consensus size: 67
2068157 ACCCATTCAA
*
2068167 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
2068231 GG
66 GG
* * * * *
2068233 GGGGAACCTATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
2068298 GGGTG
66 --G-G
*
2068303 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2068320 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 21 0.28
67 37 0.49
69 1 0.01
70 16 0.21
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.18
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GG
Found at i:2068355 original size:13 final size:14
Alignment explanation
Indices: 2068322--2068357 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2068312 ATTCCCCCAT
2068322 GAGAA-AAA-AAAA
1 GAGAAGAAAGAAAA
2068334 GAGAAGAAAGAAAA
1 GAGAAGAAAGAAAA
2068348 GA-AAGAAAGA
1 GAGAAGAAAGA
2068358 CTAAGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 11 0.50
14 6 0.27
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
GAGAAGAAAGAAAA
Found at i:2068692 original size:34 final size:29
Alignment explanation
Indices: 2068624--2068695 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
2068614 CATATTATGA
*
2068624 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
2068653 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
2068682 TGCATGACATGAAT
1 TACATGACATGAAT
2068696 ATGCAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:2068755 original size:30 final size:30
Alignment explanation
Indices: 2068710--2068779 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
2068700 AGAAAAAGTT
* * *
2068710 ATATGAGCTCTGTGATAAAGGTATGTAACTG
1 ATATGA-CTATGTGATAAAGGTATGTAAATA
2068741 ATATGACTATGTGATAAAGGTATGTAAATA
1 ATATGACTATGTGATAAAGGTATGTAAATA
2068771 ATATGACTA
1 ATATGACTA
2068780 CGCGATATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (30 bp):
ATATGACTATGTGATAAAGGTATGTAAATA
Found at i:2069134 original size:149 final size:149
Alignment explanation
Indices: 2068864--2069167 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
2068854 GGGTAGAGGG
*
2068864 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGCTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
2068929 ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
2068994 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
2069013 TCTACGCGGCTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGCTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
*
2069078 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
2069143 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
2069162 TCTACG
1 TCTACG
2069168 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGCTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:2069190 original size:23 final size:23
Alignment explanation
Indices: 2069146--2069190 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2069136 ATTATTATAT
*
2069146 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
2069169 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2069191 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:2073213 original size:9 final size:9
Alignment explanation
Indices: 2073191--2073294 Score: 67
Period size: 9 Copynumber: 11.6 Consensus size: 9
2073181 TGGAATAAAT
2073191 GAAAA-GAA
1 GAAAATGAA
2073199 -AAAATGAA
1 GAAAATGAA
2073207 GAAAATG-A
1 GAAAATGAA
2073215 -AAAATGAA
1 GAAAATGAA
* *
2073223 AAAAAAGAA
1 GAAAATGAA
2073232 -AAAATGAA
1 GAAAATGAA
*
2073240 GAAAATAAATGA
1 GAAAAT-GA--A
2073252 GAAAATGAAAA
1 GAAAATG--AA
2073263 GAAAATGAA
1 GAAAATGAA
*
2073272 AAAAATGAAA
1 GAAAATG-AA
*
2073282 AAAAATGAA
1 GAAAATGAA
2073291 -AAAA
1 GAAAA
2073295 GAAAAGAAGA
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
7 10 0.12
8 16 0.20
9 28 0.35
10 10 0.12
11 8 0.10
12 7 0.09
13 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (9 bp):
GAAAATGAA
Found at i:2073217 original size:16 final size:16
Alignment explanation
Indices: 2073198--2073262 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
2073188 AATGAAAAGA
2073198 AAAAATGAAGAAAATG
1 AAAAATGAAGAAAATG
* *
2073214 AAAAATGAAAAAAAAG
1 AAAAATGAAGAAAATG
2073230 AAAAAATGAAGAAAAT-
1 -AAAAATGAAGAAAATG
2073246 --AAATG-AGAAAATG
1 AAAAATGAAGAAAATG
2073259 AAAA
1 AAAA
2073263 GAAAATGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.17
13 5 0.12
15 2 0.05
16 14 0.34
17 13 0.32
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (16 bp):
AAAAATGAAGAAAATG
Found at i:2073256 original size:12 final size:13
Alignment explanation
Indices: 2073233--2073312 Score: 51
Period size: 12 Copynumber: 6.2 Consensus size: 13
2073223 AAAAAAGAAA
2073233 AAATGAAGAAAAT
1 AAATGAAGAAAAT
2073246 AAATG-AGAAAAT
1 AAATGAAGAAAAT
*
2073258 GAA--AAGAAAAT
1 AAATGAAGAAAAT
** *
2073269 GAAAAAAATGAAAAA
1 -AAATGAA-GAAAAT
*
2073284 AAATGAA-AAAAG
1 AAATGAAGAAAAT
*
2073296 AAAAGAAGAAATAT
1 AAATGAAGAAA-AT
2073310 AAA
1 AAA
2073313 AAGAAGAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
11 7 0.13
12 21 0.40
13 8 0.15
14 11 0.21
15 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (13 bp):
AAATGAAGAAAAT
Found at i:2073257 original size:38 final size:37
Alignment explanation
Indices: 2073191--2073302 Score: 137
Period size: 37 Copynumber: 3.1 Consensus size: 37
2073181 TGGAATAAAT
2073191 GAAAAGAAAAAATGAAG---AAAATGAAAAATGAAAA
1 GAAAAGAAAAAATGAAGAAAAAAATGAAAAATGAAAA
2073225 -AAAAGAAAAAATGAAGAAAATAAATGAGAAAATGAAAA
1 GAAAAGAAAAAATGAAGAAAA-AAATGA-AAAATGAAAA
*
2073263 GAAAATGAAAAAAATG-A-AAAAAAATGAAAAAAGAAAA
1 GAAAA-G-AAAAAATGAAGAAAAAAATGAAAAATGAAAA
2073300 GAA
1 GAA
2073303 GAAATATAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
33 16 0.23
36 1 0.01
37 18 0.26
38 16 0.23
39 8 0.12
40 2 0.03
41 8 0.12
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (37 bp):
GAAAAGAAAAAATGAAGAAAAAAATGAAAAATGAAAA
Found at i:2073314 original size:38 final size:36
Alignment explanation
Indices: 2073192--2073350 Score: 105
Period size: 37 Copynumber: 4.3 Consensus size: 36
2073182 GGAATAAATG
* * *
2073192 AAAAGAAAAAATG-AAGAAAATGAAAAATG-AAA-A
1 AAAATAAAAAATGAAAAAAAATGAAAAAAGAAAAGA
* *
2073225 AAAAGAAAAAATGAAGAAAATAAATGAGAAAATGAAAAG-
1 AAAATAAAAAATG-A-AAAA-AAATGA-AAAAAGAAAAGA
2073264 AAAATGAAAAAAATGAAAAAAAATGAAAAAAGAAAAGA
1 AAAAT--AAAAAATGAAAAAAAATGAAAAAAGAAAAGA
* * * *
2073302 AGAAATATAAAAA-GAAGAAAGA-GAAAAAAATAAAAAA
1 A-AAATA-AAAAATGAAAAAAAATG-AAAAAAGAAAAGA
2073339 AAAATGAAAAAA
1 AAAAT-AAAAAA
2073351 AAGGAGAAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 25
0.77 0.05 0.18
Matches are distributed among these distances:
33 13 0.12
36 13 0.12
37 37 0.35
38 18 0.17
39 15 0.14
40 1 0.01
41 8 0.08
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (36 bp):
AAAATAAAAAATGAAAAAAAATGAAAAAAGAAAAGA
Found at i:2073317 original size:75 final size:74
Alignment explanation
Indices: 2073198--2073351 Score: 163
Period size: 75 Copynumber: 2.1 Consensus size: 74
2073188 AATGAAAAGA
* * * * *
2073198 AAAAATGAAGAAAATGAAAAATGAAAAAAAAGAAAAAATGAAGAA-AATAAATG-AGAAAATGAA
1 AAAAATGAAAAAAATGAAAAAAGAAAAAAAAGAAAAAATAAAGAAGAA-AAA-GAAAAAAATAAA
*
2073261 AAGAAAATGAA
64 AAAAAAATGAA
* *
2073272 AAAAATGAAAAAAAATGAAAAAAG-AAAAGAAGAAATATAA-AAAGAAGAAAGAGAAAAAAATAA
1 AAAAATG-AAAAAAATGAAAAAAGAAAAAAAAGAAA-A-AATAAAGAAGAAAAAGAAAAAAATAA
2073335 AAAAAAAATGAA
63 AAAAAAAATGAA
2073347 AAAAA
1 AAAAA
2073352 AGGAGAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
74 18 0.27
75 45 0.67
76 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (74 bp):
AAAAATGAAAAAAATGAAAAAAGAAAAAAAAGAAAAAATAAAGAAGAAAAAGAAAAAAATAAAAA
AAAAATGAA
Found at i:2073328 original size:66 final size:61
Alignment explanation
Indices: 2073216--2073367 Score: 143
Period size: 66 Copynumber: 2.4 Consensus size: 61
2073206 AGAAAATGAA
* *
2073216 AAATGAAAAAAAAG---AAAAAATGAAGAAAATAAATGAGAAAATGAAAAGAAAATGAAAA
1 AAATGAAAAAAAAGAAAAAAAAAAGAAGAAAATAAAAGAGAAAATGAAAAGAAAATGAAAA
**
2073274 AAATGAAAAAAAATGAAAAAAGAAAAGAAGAAATATAAAAAGAAGAAAGA-GAAAA-AAATAAAA
1 AAATGAAAAAAAA-GAAAAAA-AAAAGAAGAAA-AT-AAAAG-AGAAA-ATGAAAAGAAA-ATGA
2073337 AAA
59 AAA
2073340 AAATGAAAAAAAAGGAGAAAAATAAAAG
1 AAATGAAAAAAAA-GA-AAAAA-AAAAG
2073368 GGGGTTCAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
58 13 0.17
59 1 0.01
62 3 0.04
63 10 0.13
64 2 0.03
65 7 0.09
66 30 0.39
67 11 0.14
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (61 bp):
AAATGAAAAAAAAGAAAAAAAAAAGAAGAAAATAAAAGAGAAAATGAAAAGAAAATGAAAA
Found at i:2073363 original size:30 final size:29
Alignment explanation
Indices: 2073253--2073366 Score: 101
Period size: 29 Copynumber: 3.9 Consensus size: 29
2073243 AATAAATGAG
*
2073253 AAAATGAAAAGAAAATGAAAAAAAT-GAAAA
1 AAAATGAAAA-AAAA-GAAAAAAATAAAAAA
* * *
2073283 AAAATG--AAAAAAGAAAAGAAGAAATATA
1 AAAATGAAAAAAAAGAAAAAAATAAA-AAA
* *
2073311 AAAA-GAAGAAAGAGAAAAAAATAAAAAA
1 AAAATGAAAAAAAAGAAAAAAATAAAAAA
*
2073339 AAAATGAAAAAAAAGGAGAAAAATAAAA
1 AAAATGAAAAAAAA-GAAAAAAATAAAA
2073367 GGGGGTTCAA
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
26 7 0.11
27 6 0.09
28 14 0.21
29 21 0.32
30 18 0.27
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (29 bp):
AAAATGAAAAAAAAGAAAAAAATAAAAAA
Found at i:2073448 original size:45 final size:44
Alignment explanation
Indices: 2073364--2073448 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 44
2073354 GAGAAAAATA
* * *
2073364 AAAGGGGGTTCAAGATGAAAACCCAGAAAAGGCGCCTTGAAACC
1 AAAGGAGGTTCAAGATGAAAACCCACAAAAGGCGACTTGAAACC
* *
2073408 AAAGGAGGTCTCAAGTTGAAAACTCAC-AAAGAGCGACTTGA
1 AAAGGAGGT-TCAAGATGAAAACCCACAAAAG-GCGACTTGA
2073449 GTTTTGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 12 0.35
45 22 0.65
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (44 bp):
AAAGGAGGTTCAAGATGAAAACCCACAAAAGGCGACTTGAAACC
Found at i:2074685 original size:37 final size:37
Alignment explanation
Indices: 2074635--2074748 Score: 210
Period size: 37 Copynumber: 3.1 Consensus size: 37
2074625 GCCTTCGAAA
*
2074635 CAAGTCAAACTTAAGCCTTCACGGAAGAGTAGTGAAG
1 CAAGTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
*
2074672 CAAGTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAA
1 CAAGTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
2074709 CAAGTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
1 CAAGTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
2074746 CAA
1 CAA
2074749 ACTTATTTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (37 bp):
CAAGTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
Found at i:2074898 original size:55 final size:54
Alignment explanation
Indices: 2074765--2075204 Score: 438
Period size: 55 Copynumber: 8.1 Consensus size: 54
2074755 TTTATGAAGA
* *
2074765 TCGAGTCCTATACTCTCTGAAGGAATAGGGAG-AGAACACGTTTGTTGAAGA----
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAG-ACACGTTT-TTGAAGATTGT
* *
2074816 TCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACACGTTTTATGAAGATTGT
1 TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCAGACACGTTTT-TGAAGATTGT
** *
2074871 TCGAGT-TCTATACTCCCTGAACTAATAGGGAGC-GAACCCGTTTGTTGAAGATTGT
1 TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCAG-ACACGTTT-TTGAAGATTGT
* * *
2074926 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCTGACACGTTTGTTGAAGA----
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* * *
2074977 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGC-GAACCCGTTTATTGAAGATTAT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAG-ACACGTTT-TTGAAGATTGT
*
2075032 TCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* * * ***
2075087 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACATTTGCCAAAGATTGT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* * * * *
2075142 TCGAGTCTTATACTCCTTAAAAGAATAGGGAGCAGACCCGTTATTTGAAGATTTT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTT-TTTGAAGATTGT
*
2075197 TCAAGTCT
1 TCGAGTCT
2075205 CGCTTATCCT
Statistics
Matches: 334, Mismatches: 37, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.01
51 89 0.27
52 2 0.01
54 1 0.00
55 236 0.71
56 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (54 bp):
TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTTTGAAGATTGT
Found at i:2074981 original size:106 final size:105
Alignment explanation
Indices: 2074754--2075193 Score: 453
Period size: 106 Copynumber: 4.1 Consensus size: 105
2074744 AGCAAACTTA
* * *
2074754 TTTTATGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGAGAACACGTTTGTTGAAGA---
1 TTTT-TGAAGATCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGAACACGTTTGTTGAAGATTG
* *
2074816 -TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACACG
65 TTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACG
** *
2074856 TTTTATGAAGATTGTTCGAGT-TCTATACTCCCTGAACTAATAGGGAGCGAACCCGTTTGTTGAA
1 TTTT-TGAAGA----TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCGAACACGTTTGTTGAA
*
2074920 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCTGACACG
60 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACG
* * * *
2074966 TTTGTTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGAACCCGTTTATTGAAGATTA
1 TTT-TTGAAGATCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGAACACGTTTGTTGAAGATTG
* * *
2075031 TTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACG
65 TTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACG
* * * ***
2075072 TTTGTTGAAGATTGTTTGAGTCTTATACTCCCTGAATGAATAGGGAGC-AGACACATTTGCCAAA
1 TTT-TTGAAGA----TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGA-ACACGTTTGTTGAA
* * * *
2075136 GATTGTTCGAGTCTTATACTC-CTTAAAAGAATAGGGAGCAGACCCG
60 GATTGTTCGAGTCCTATACTCTC-TGAAGGAATAGGGAGCAGACACG
2075182 TTATTTGAAGAT
1 TT-TTTGAAGAT
2075194 TTTTCAAGTC
Statistics
Matches: 289, Mismatches: 31, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
102 11 0.04
106 140 0.48
107 1 0.00
109 2 0.01
110 133 0.46
111 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (105 bp):
TTTTTGAAGATCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGAACACGTTTGTTGAAGATTGT
TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACG
Found at i:2075037 original size:161 final size:161
Alignment explanation
Indices: 2074765--2075130 Score: 537
Period size: 161 Copynumber: 2.3 Consensus size: 161
2074755 TTTATGAAGA
2074765 TCGAGTCCTATACTCTCTGAAGGAATAGGGAG-AGAACACGTTTGTTGAAGATCGAGTTCTATAC
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAG-ACACGTTTGTTGAAGATCGAGTTCTATAC
*
2074829 TCTCTGAAGGAATAGAGAGCAGACACGTTTTATGAAGATTGTTCGAGT-TCTATACTCCCTGAAC
65 TCTCTGAAGGAATAGAGAGCAGACACGTTTTATGAAGATTATTCGAGTCT-TATACTCCCTGAAC
* *
2074893 TAATAGGGAGC-GAACCCGTTTGTTGAAGATTGT
129 GAATAGGGAGCAG-ACACGTTTGTTGAAGATTGT
*
2074926 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCTGACACGTTTGTTGAAGATCGAG-TCTTATAC
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATCGAGTTC-TATAC
* *
2074990 TCTCTGAAGGAATAGGGAGC-GAACCCG-TTTATTGAAGATTATTCGAGTCTTATACTCCCTGAA
65 TCTCTGAAGGAATAGAGAGCAG-ACACGTTTTA-TGAAGATTATTCGAGTCTTATACTCCCTGAA
2075053 CGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
128 CGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * *
2075087 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACATTTG
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTG
2075131 CCAAAGATTG
Statistics
Matches: 187, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
160 7 0.04
161 177 0.95
162 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (161 bp):
TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATCGAGTTCTATACT
CTCTGAAGGAATAGAGAGCAGACACGTTTTATGAAGATTATTCGAGTCTTATACTCCCTGAACGA
ATAGGGAGCAGACACGTTTGTTGAAGATTGT
Found at i:2079412 original size:2 final size:2
Alignment explanation
Indices: 2079405--2079450 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2079395 AAAATGAATA
2079405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2079447 AT AT
1 AT AT
2079451 TTGTGTTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2079727 original size:31 final size:31
Alignment explanation
Indices: 2079672--2079732 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
2079662 ACAAGTAAAG
* * *
2079672 CATTTGTCTCTTTGCTTTGGTGAAGAGAAAC
1 CATTTGTCCCTTCGCTTAGGTGAAGAGAAAC
* *
2079703 CATTTGTCCCTTCGCTTAGTTGAAGTGAAA
1 CATTTGTCCCTTCGCTTAGGTGAAGAGAAA
2079733 GCTGAAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (31 bp):
CATTTGTCCCTTCGCTTAGGTGAAGAGAAAC
Found at i:2085072 original size:35 final size:35
Alignment explanation
Indices: 2085013--2085124 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
2085003 AAAACATTCC
* *
2085013 TCAATTTCATTATAAATCCC-AAATTTCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCTAAATTTCAAAATAAT
*
2085048 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
* *
2085083 TCAATTACATTCTAAACCCTAAA-TTCTAAAATACT
1 TCAATTTCATTCTAAACCCTAAATTTC-AAAATAAT
2085118 TCAATTT
1 TCAATTT
2085125 AAGGAGAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.07
35 63 0.93
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
Found at i:2086190 original size:35 final size:34
Alignment explanation
Indices: 2086141--2086253 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
2086131 TAAAAAGACA
* *
2086141 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
2086176 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
* *
2086211 AAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
2086246 GAAATTGA
1 GAAATTGA
2086254 GAATTGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.01
35 65 0.94
36 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:2087624 original size:11 final size:9
Alignment explanation
Indices: 2087598--2087623 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2087588 TTATCAATTG
2087598 AAAATATAA
1 AAAATATAA
2087607 AAAATATAA
1 AAAATATAA
2087616 AAAATATA
1 AAAATATA
2087624 TTAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATATAA
Found at i:2088937 original size:60 final size:60
Alignment explanation
Indices: 2088818--2088942 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 60
2088808 GTTGGGTGAA
* * *
2088818 CATTTTATAACTTTTAATAGTCTAGGGACTCAACAAAACAATGCCCTATAGTCGGGGGAC
1 CATTTTATAACTTTTAATAATCAAGGGACTCAACAAAACAATGCCCTATAGTCGAGGGAC
* * * *
2088878 TATTTTATAACTTTTAATAATCAAGGGACTCAACAAAGCATAT-TCCTATAGTCTAGGGAC
1 CATTTTATAACTTTTAATAATCAAGGGACTCAACAAAACA-ATGCCCTATAGTCGAGGGAC
2088938 CATTT
1 CATTT
2088943 ATGTACTTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAATCAAGGGACTCAACAAAACAATGCCCTATAGTCGAGGGAC
Found at i:2111079 original size:11 final size:11
Alignment explanation
Indices: 2111063--2111087 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2111053 AGGAAATGTG
2111063 GGTTAATATAC
1 GGTTAATATAC
2111074 GGTTAATATAC
1 GGTTAATATAC
2111085 GGT
1 GGT
2111088 AGTACCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:2112102 original size:182 final size:177
Alignment explanation
Indices: 2111669--2112125 Score: 575
Period size: 176 Copynumber: 2.6 Consensus size: 177
2111659 TAAAAATGTG
* *
2111669 TCGATCCAAAACG-TATAACAGGTAAAACTATG-ACAAACCGGTAT-AGAAATGATAAAACCGGT
1 TCGATCC-AAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCA-AAATGATAAAACCGGT
* * * * *
2111731 AAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAGGATCGACACTTCGTGAATTAA
64 AAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAGGATCGACACTTCGTGAATTAA
* * * *
2111796 AAGAGAATCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAGTA
129 AAGAGAAACAATTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAATA
* * ** *
2111845 TCGATCCAAA--ATGATACCAGGTAAAAATATGATAAAATTGGTATCAAAACGATAAAACCGGTA
1 TCGATCCAAACGAT-ATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATAAAACCGGTA
* * *
2111908 AAAGGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
65 AAACGATACCGGATATATTAAAAGTGTCGATACTTTAATAT-AGGATCGACACTTCGTGAA-TTA
** *
2111972 AAAGAGAAACAATTTTAGCGCCTATAATGTGTCGATACTTTTAAAAAAAAATA
128 AAAGAGAAACAATTTTAAAGCCTATAAAGTGTCGATACTTTT---AAAAAATA
2112025 TCGATCCACAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATAAAACCGGTA
1 TCGATCCA-AACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATAAAACCGGTA
* *
2112090 AAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACGATACCGGATATATTAAAAGTGTCGATACTTT
2112126 CGTAAATACG
Statistics
Matches: 240, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
174 1 0.00
175 23 0.10
176 79 0.33
177 40 0.17
180 15 0.06
181 2 0.01
182 78 0.32
183 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (177 bp):
TCGATCCAAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATAAAACCGGTAA
AACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAGGATCGACACTTCGTGAATTAAAA
GAGAAACAATTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAATA
Found at i:2114318 original size:21 final size:21
Alignment explanation
Indices: 2114294--2114337 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2114284 AAGACAATCA
2114294 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2114315 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2114336 AG
1 AG
2114338 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2114412 original size:32 final size:32
Alignment explanation
Indices: 2114371--2114431 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
2114361 AAATAGATGG
*
2114371 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
2114403 AGTGGTGAAAGAAGTTGGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
2114432 GTGATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:2116234 original size:19 final size:19
Alignment explanation
Indices: 2116210--2116246 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2116200 AATGCAGGGT
2116210 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2116229 TAATTTTGTATACGATTT
1 TAATTTTGTATAAGATTT
2116247 TTTTGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2116706 original size:198 final size:198
Alignment explanation
Indices: 2116368--2117320 Score: 1663
Period size: 193 Copynumber: 4.9 Consensus size: 198
2116358 CAATATGGCC
**
2116368 AACAGGGTGCAACCATAAAGTGTCGAAGCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAAAC
2116432 CCAAAAGTA-AATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2116496 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
2116561 TGGAA
194 TGGAA
*
2116566 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA-ATCGAAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAACATCGAAACC
* *
2116630 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
2116695 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTT-TTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
2116759 GAA
196 GAA
2116762 AACAGGGTGCAACCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAA-A-CG-AACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAACATCGAAACC
2116822 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
2116887 AATATGTCTAAATAATATGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
2116952 GGAA
195 GGAA
*
2116956 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAAAC
2117021 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2117086 -AATATGTCT--A-AATGTGTCGACACTTTTTAG-TT-TGTCGATATTTTTGGTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
2117145 GGAA
195 GGAA
2117149 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAACATCG-AACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAACATCGAAACC
2117213 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
2117278 -A-ATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
2117321 CTAATTTAAA
Statistics
Matches: 725, Mismatches: 14, Indels: 35
0.94 0.02 0.05
Matches are distributed among these distances:
190 6 0.01
191 68 0.09
192 101 0.14
193 127 0.18
194 75 0.10
195 15 0.02
196 77 0.11
197 45 0.06
198 118 0.16
199 26 0.04
200 67 0.09
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAACATCGAAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:2118805 original size:6 final size:6
Alignment explanation
Indices: 2118794--2118884 Score: 74
Period size: 6 Copynumber: 14.7 Consensus size: 6
2118784 CAAGCGGTCA
* * * * *
2118794 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * *
2118842 CTGACG ATGAAG ATGATGACG ATGATG ATGATG ATGAAG ATGA
1 ATGAAG ATGAAG ATGA--A-G ATGAAG ATGAAG ATGAAG ATGA
2118885 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
6 62 0.91
8 1 0.01
9 5 0.07
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:2118838 original size:9 final size:9
Alignment explanation
Indices: 2118811--2118887 Score: 73
Period size: 9 Copynumber: 8.6 Consensus size: 9
2118801 TGAAGCTGAC
2118811 GATGAAGAT
1 GATGAAGAT
* *
2118820 GACGATGAT
1 GATGAAGAT
*
2118829 GATGACGAT
1 GATGAAGAT
* ** *
2118838 GAAGCTGAC
1 GATGAAGAT
2118847 GATGAAGAT
1 GATGAAGAT
*
2118856 GATGACGAT
1 GATGAAGAT
*
2118865 GATGATGAT
1 GATGAAGAT
2118874 GATGAAGAT
1 GATGAAGAT
2118883 GATGA
1 GATGA
2118888 TCCAAACAAG
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (9 bp):
GATGAAGAT
Found at i:2118888 original size:12 final size:12
Alignment explanation
Indices: 2118794--2118884 Score: 101
Period size: 12 Copynumber: 7.3 Consensus size: 12
2118784 CAAGCGGTCA
*
2118794 ATGAAGATGAAG
1 ATGACGATGAAG
*
2118806 CTGACGATGAAG
1 ATGACGATGAAG
*
2118818 ATGACGATGATG
1 ATGACGATGAAG
2118830 ATGACGATGAAG
1 ATGACGATGAAG
*
2118842 CTGACGATGAAGATG
1 ATGACGATG-A-A-G
*
2118857 ATGACGATGATG
1 ATGACGATGAAG
*
2118869 ATGATGATGAAG
1 ATGACGATGAAG
2118881 ATGA
1 ATGA
2118885 TGATCCAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
12 54 0.82
13 1 0.02
14 2 0.03
15 9 0.14
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:2118888 original size:18 final size:18
Alignment explanation
Indices: 2118794--2118888 Score: 100
Period size: 18 Copynumber: 5.1 Consensus size: 18
2118784 CAAGCGGTCA
* *
2118794 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGATG
*
2118812 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGATG
* * *
2118830 ATGACGATGAAGCTGACG
1 ATGAAGATGAAGATGATG
2118848 ATGAAGATGATGACGATGATG
1 ATGAAGATGA--A-GATGATG
*
2118869 ATGATGATGAAGATGATG
1 ATGAAGATGAAGATGATG
2118887 AT
1 AT
2118889 CCAAACAAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
18 47 0.75
19 1 0.02
20 1 0.02
21 14 0.22
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGATGATG
Found at i:2120112 original size:16 final size:16
Alignment explanation
Indices: 2120080--2120113 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2120070 TATCCACAAC
* *
2120080 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
2120096 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
2120112 AA
1 AA
2120114 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:2120528 original size:23 final size:22
Alignment explanation
Indices: 2120471--2120547 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
2120461 ATAGGTAAAA
2120471 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
2120494 ATATATGTAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCGCTT
* *
2120516 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGCGCTT
2120539 ATAT-TGTAA
1 ATATATGTAA
2120548 AGTATCTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.10
22 20 0.42
23 23 0.48
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:2121247 original size:180 final size:180
Alignment explanation
Indices: 2120914--2121396 Score: 852
Period size: 180 Copynumber: 2.7 Consensus size: 180
2120904 GCAATGCTAT
* *
2120914 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
2120979 GTGTCGGTAC-TTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
*
2121042 ATTTACACATCGGAACCCAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTA-ACATCGGAACCCAATTATAATGTAATAGATAATTTTATAATATAAC
2121094 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
2121159 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
*
2121224 TTT-ACATCGGAACCCAGATTATAATGTAATAGATAGTTTTATAATATAAC
131 TTTAACATCGGAACCCA-ATTATAATGTAATAGATAATTTTATAATATAAC
2121274 CGGTAT-AA-ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCT-ATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
2121336 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTC
2121397 AGTAATTTTA
Statistics
Matches: 295, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
177 66 0.22
178 49 0.17
179 15 0.05
180 110 0.37
181 51 0.17
182 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (180 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
TTTAACATCGGAACCCAATTATAATGTAATAGATAATTTTATAATATAAC
Found at i:2123881 original size:24 final size:25
Alignment explanation
Indices: 2123836--2123891 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
2123826 TATCATTAAA
2123836 TTAGGTATGTACAATAACTACATAT
1 TTAGGTATGTACAATAACTACATAT
2123861 TTAGGTATGTAC-ATAACTACATAT
1 TTAGGTATGTACAATAACTACATAT
2123885 TTAGGTA
1 TTAGGTA
2123892 ATACATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 19 0.61
25 12 0.39
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (25 bp):
TTAGGTATGTACAATAACTACATAT
Found at i:2124214 original size:21 final size:22
Alignment explanation
Indices: 2124168--2124214 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
2124158 TAAATACATA
2124168 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* *
2124190 -CTTTTATAAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
2124210 ACTTT
1 ACTTT
2124215 CAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:2124263 original size:23 final size:24
Alignment explanation
Indices: 2124237--2124286 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
2124227 TAAAAATGAG
2124237 TAGGTAGCGCTTATAT-AATGTAA
1 TAGGTAGCGCTTATATAAATGTAA
* *
2124260 TAGGTATCGTTTATATAAATGTAA
1 TAGGTAGCGCTTATATAAATGTAA
2124284 TAG
1 TAG
2124287 TGTGGGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (24 bp):
TAGGTAGCGCTTATATAAATGTAA
Found at i:2124735 original size:45 final size:44
Alignment explanation
Indices: 2124645--2124735 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
2124635 TAGTAAAAAT
* *
2124645 ATGTAATAGGTAGCGCGATATAATGTAATATGTATCGTTTATATA
1 ATGTAATAGGTA-CGCGATATAATGTAATATCTATCCTTTATATA
* * *
2124690 ATGTAATAGGTA-GTGATATATTGTAAAGTATCTATCCTTTTTATA
1 ATGTAATAGGTACGCGATATAATGT-AA-TATCTATCCTTTATATA
2124735 A
1 A
2124736 AGTGTCTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 10 0.26
44 2 0.05
45 27 0.69
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.41
Consensus pattern (44 bp):
ATGTAATAGGTACGCGATATAATGTAATATCTATCCTTTATATA
Found at i:2124738 original size:20 final size:20
Alignment explanation
Indices: 2124713--2124751 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2124703 TGATATATTG
*
2124713 TAAAGTATCTATCCTTTTTA
1 TAAAGTATCTATACTTTTTA
*
2124733 TAAAGTGTCTATACTTTTT
1 TAAAGTATCTATACTTTTT
2124752 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TAAAGTATCTATACTTTTTA
Found at i:2125049 original size:418 final size:425
Alignment explanation
Indices: 2124035--2125707 Score: 2644
Period size: 412 Copynumber: 4.0 Consensus size: 425
2124025 GTTAATGTTG
* * *
2124035 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA--TTTTGTGTAAA
1 TTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
*
2124098 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT--AAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
2124161 A-TACATAACTTTTAAAAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAAT
131 ATTACATAAC--TTAAAAGAAGTATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATAAT
*
2124224 AGGTAAAA-ATGA-G---TAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAATGTAA
194 AGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT-AATGTAA
*
2124284 TA-GT-GTGGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACTGT
258 TAGGTAGT-GCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACTGT
2124347 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG--ATTAATTTAGTAATATAGGCG
322 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATATAGGCG
*
2124410 TCTAATGATTTATTTTTTACGTTACG--ATATATTATTG
387 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
2124447 TTAAATT-AAATTCTAAATAATATTTTAT-AAATATCAAAACAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
2124510 TGAAATTATTAAATTAATATTGTAGGT-GAAAACATG-AACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
2124573 ATTACATAACTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA-
131 ATTACATAACTTAAAAGAAGTATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATAATAG
* * *
2124637 GTAAAA-AT-ATGTAATAGGTAGCGC-GATATAATGTAATATGTATCGTTTATATAATGTAATAG
196 GTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
*
2124699 GTAGTG-ATATATTGTAAAGTATCTATCCTTTTTAT-AAAGTGTCTATACTTTTTTCACTGTGGA
261 GTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC-TTTTTCACTGTGGA
2124762 AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
325 AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA-TATAGGCGTC
*
2124827 TAATGATTTATTTTGTACGTTACGAT-TATA-TATTA
389 TAATGATTTATTTTTTACGTTACGATATATATTATTA
2124862 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
2124927 ATG-AATTAATTAAATTAATA-TGTAGGTGGAAAACATGAAAC-CTATTAAAAAAAACTGAAACA
65 ATGAAATT-ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACA
2124989 T-AATTACATAACTTTAAAAGAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATAT-
128 TAAATTACATAAC-TTAAAAGAAGTATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATA
2125051 ATAGGTAAAAATATGATGTAATAGGTAG-GCTTATA-AA--TAATAGGTAGCG--T-T-TAA--T
192 ATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGT
*
2125106 AATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
256 AATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC-TTTTTCACT
*
2125171 GTAGAAAACATTAATTTAAGGTTAT-TTTTGAGTGAG-TTTAAGATATTAATTTAGTAATATA-G
320 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATATAGG
2125233 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
385 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
2125274 TTAAATTAAAAAATTCTAAATAATATTTTATAAAATATTAAAACAATC-AATAATTTTTTGTGC-
1 TTAAATT--AAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
*
2125337 AATGAAATTATTAAATTAATATTGTAGGTGAAAAACAT-AAACACTATTAAAAAAATTGAAACAT
64 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
2125401 AAATTACATAACTT-AAAGAA-TATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATAAT
129 AAATTACATAACTTAAAAGAAGTATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATAAT
2125464 AGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA-GTAGCGTTTATATAATGTAAT
194 AGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAAT
2125528 AGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACTGTGG
259 AGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACTGTGG
2125593 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
324 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA-TATAGGCGT
*
2125658 CTAATGATTTATTTTTTACGTTATGATATATATTATTA
388 CTAATGATTTATTTTTTACGTTACGATATATATTATTA
2125696 TTAAATTTAAAA
1 TTAAA-TTAAAA
2125708 CAATAAACAT
Statistics
Matches: 1181, Mismatches: 23, Indels: 105
0.90 0.02 0.08
Matches are distributed among these distances:
409 9 0.01
410 118 0.10
411 127 0.11
412 282 0.24
413 120 0.10
414 80 0.07
415 46 0.04
416 6 0.01
417 38 0.03
418 149 0.13
419 107 0.09
420 27 0.02
421 24 0.02
422 46 0.04
423 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (425 bp):
TTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTAAAAGAAGTATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATAATAG
GTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
GTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACTGTGGAA
AACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATATAGGCGTCTA
ATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:2125093 original size:19 final size:19
Alignment explanation
Indices: 2125069--2125122 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2125059 AAATATGATG
2125069 TAATAGGTAGGCTTATAAA
1 TAATAGGTAGGCTTATAAA
2125088 TAATAGGTA-GCGTT-T-AA
1 TAATAGGTAGGC-TTATAAA
2125105 TAATAGGTAGTGCTTATA
1 TAATAGGTAG-GCTTATA
2125123 TTGTAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 11 0.37
18 5 0.17
19 14 0.47
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (19 bp):
TAATAGGTAGGCTTATAAA
Found at i:2125497 original size:23 final size:23
Alignment explanation
Indices: 2125471--2125542 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2125461 AATAGGTAAA
*
2125471 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2125494 ATATAATGTAATA-GTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2125516 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2125539 ATAT
1 ATAT
2125543 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 21 0.48
23 23 0.52
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2126376 original size:13 final size:13
Alignment explanation
Indices: 2126358--2126382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2126348 TATGTATTTT
2126358 AAAATTATAAAAA
1 AAAATTATAAAAA
2126371 AAAATTATAAAA
1 AAAATTATAAAA
2126383 TTATAATTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTATAAAAA
Found at i:2130425 original size:21 final size:21
Alignment explanation
Indices: 2130376--2130439 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
2130366 CATATGAAAT
*
2130376 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
2130397 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
*
2130419 TTGTCCCGAAGGACTTATGAA
1 TTGTCCCGAAGGACCTATGAA
2130440 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:2131422 original size:65 final size:66
Alignment explanation
Indices: 2131353--2131479 Score: 161
Period size: 65 Copynumber: 1.9 Consensus size: 66
2131343 GATACCCTGT
* * * *
2131353 TGACATTCTGAAATTTTCATC-TT-CAGGGGGGTATCGATACCCCCT-ATAGGGTATCGATACCA
1 TGACATTCTGAAATTTT--TCGTTAAAAGGGAGTATCGATACCCCCTCATAGGGTACCGATACCA
2131415 TAC
64 TAC
* *
2131418 TGACATTCTGTAATTTTTCGTTAAAAGGGAGTATCGATACCCCTTCATAGGGTACCGATACC
1 TGACATTCTGAAATTTTTCGTTAAAAGGGAGTATCGATACCCCCTCATAGGGTACCGATACC
2131480 TTCTGCCCAG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
63 2 0.04
64 2 0.04
65 34 0.64
66 15 0.28
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (66 bp):
TGACATTCTGAAATTTTTCGTTAAAAGGGAGTATCGATACCCCCTCATAGGGTACCGATACCATA
C
Found at i:2132727 original size:16 final size:16
Alignment explanation
Indices: 2132687--2132721 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2132677 CACACAACCC
*
2132687 TTTAATTTCCTTTTTA
1 TTTAATTTCCTTATTA
2132703 TTTAATTTCCTTATTA
1 TTTAATTTCCTTATTA
2132719 TTT
1 TTT
2132722 TTTTTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATTTCCTTATTA
Found at i:2135913 original size:22 final size:22
Alignment explanation
Indices: 2135879--2135929 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2135869 CTGAGTGGCA
*
2135879 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATATGTCCCGAAGGACC
*
2135902 TGTGAATATGTCCCGAAGGACC
1 TATGAATATGTCCCGAAGGACC
2135924 TATGAA
1 TATGAA
2135930 ACCCTTGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (22 bp):
TATGAATATGTCCCGAAGGACC
Found at i:2136829 original size:20 final size:20
Alignment explanation
Indices: 2136806--2136857 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2136796 CCCTAACTGA
2136806 GGTATAGATACCCTGTCTAT
1 GGTATAGATACCCTGTCTAT
2136826 GGTATAGATACCCTGTCTAT
1 GGTATAGATACCCTGTCTAT
2136846 GGTATAGATACC
1 GGTATAGATACC
2136858 GGGTATCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GGTATAGATACCCTGTCTAT
Found at i:2139328 original size:20 final size:20
Alignment explanation
Indices: 2139305--2139400 Score: 81
Period size: 20 Copynumber: 4.7 Consensus size: 20
2139295 CAACGCGAAC
*
2139305 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACACAGTT
*
2139325 TCCAAATTCGCAACTCAGTT
1 TCCAAATTCGCAACACAGTT
* *
2139345 TCTGC-AA-TCGCAACGCGATTT
1 TC--CAAATTCGCAACAC-AGTT
*
2139366 TCCAAATTCGCAACACGGAATT
1 TCCAAATTCGCAACAC--AGTT
2139388 T-CAAATTCGCAAC
1 TCCAAATTCGCAAC
2139401 TCGATTTCTG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.02
20 30 0.47
21 27 0.42
22 6 0.09
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.27
Consensus pattern (20 bp):
TCCAAATTCGCAACACAGTT
Found at i:2139409 original size:62 final size:60
Alignment explanation
Indices: 2139289--2139450 Score: 168
Period size: 61 Copynumber: 2.6 Consensus size: 60
2139279 ATGACCAACA
* *
2139289 AATTCGCAACGCGAACTCCAATTTCGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTG
1 AATTCGCAACGCGAACTCCAAATTCGCAACACAATTTCCAAATTCGCAACTCAGTTTCTG
**
2139349 CAA-TCGCAACGCGATTTTCCAAATTCGCAACACGGAATTT-CAAATTCGCAACTC-GATTTCTG
1 -AATTCGCAACGCGA-ACTCCAAATTCGCAACAC--AATTTCCAAATTCGCAACTCAG-TTTCTG
* * ***
2139411 AATTCGCAACGTGAATTCCTTTTTCGCAACACAAGTTTCC
1 AATTCGCAACGCGAACTCCAAATTCGCAACACAA-TTTCC
2139451 TTTTTGCAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
59 2 0.02
60 14 0.16
61 35 0.41
62 30 0.35
63 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (60 bp):
AATTCGCAACGCGAACTCCAAATTCGCAACACAATTTCCAAATTCGCAACTCAGTTTCTG
Found at i:2139538 original size:20 final size:20
Alignment explanation
Indices: 2139474--2139541 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
2139464 ATTTTCTAAA
**
2139474 TCGCAACACGAATTTTGTTT
1 TCGCAACACGAATTTTAATT
* * *
2139494 TCGTAACTCG-ATTTTAAAAT
1 TCGCAACACGAATTTT-AATT
2139514 TCGCAACACGAATTTTAATT
1 TCGCAACACGAATTTTAATT
2139534 TCGCAACA
1 TCGCAACA
2139542 GCTTTTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 5 0.13
20 28 0.74
21 5 0.13
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
TCGCAACACGAATTTTAATT
Found at i:2142612 original size:23 final size:23
Alignment explanation
Indices: 2142594--2142646 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
2142584 CTCGTATAAA
2142594 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
2142617 TGCATCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
2142640 TGCACCG
1 TGCACCG
2142647 TGTGCCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2143050 original size:18 final size:18
Alignment explanation
Indices: 2143027--2143061 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2143017 CAGTTCAGGA
2143027 TTTCGAGTTCGAG-CGAGT
1 TTTCGAG-TCGAGTCGAGT
2143045 TTTCGAGTCGAGTCGAG
1 TTTCGAGTCGAGTCGAG
2143062 CTCCATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
TTTCGAGTCGAGTCGAGT
Found at i:2143408 original size:31 final size:30
Alignment explanation
Indices: 2143363--2143422 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
2143353 TATTGTATAG
2143363 ACATATAATTTCCAT-ACCTTTATCACATAA
1 ACATATAATTTCCATCA-CTTTATCACATAA
*
2143393 ACATATCATGTTCCATCACTTTATCACATA
1 ACATATAAT-TTCCATCACTTTATCACATA
2143423 GCTTATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
ACATATAATTTCCATCACTTTATCACATAA
Found at i:2149871 original size:23 final size:23
Alignment explanation
Indices: 2149830--2149874 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2149820 CTCGTATAAA
*
2149830 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTACCACGTAGAAT
*
2149853 TGCACCGAAGTACCGCGTAGAA
1 TGCACCGAAGTACCACGTAGAA
2149875 AATTTCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTACCACGTAGAAT
Found at i:2150147 original size:30 final size:31
Alignment explanation
Indices: 2150113--2150172 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2150103 TATTGTATAG
*
2150113 ACATATAAT-TTTCAT-ACCTTTATCACATAA
1 ACATATAATGTTCCATCA-CTTTATCACATAA
*
2150143 ACATATCATGTTCCATCACTTTATCACATA
1 ACATATAATGTTCCATCACTTTATCACATA
2150173 GCTTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 17 0.65
32 1 0.04
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (31 bp):
ACATATAATGTTCCATCACTTTATCACATAA
Found at i:2152515 original size:20 final size:20
Alignment explanation
Indices: 2152492--2152537 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2152482 TTTTCGCGTT
*
2152492 GCGAAAGTCAAATTCGAAAC
1 GCGAAAGTAAAATTCGAAAC
*
2152512 GCGAAAGTAAAATTCGCAAC
1 GCGAAAGTAAAATTCGAAAC
2152532 GCGAAA
1 GCGAAA
2152538 ATCGCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (20 bp):
GCGAAAGTAAAATTCGAAAC
Found at i:2154023 original size:21 final size:21
Alignment explanation
Indices: 2153999--2154073 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
2153989 GTGAATCGGG
* **
2153999 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATAAGAGGGGC
* *
2154020 CTCTTGAATGATAAGAGGTGC
1 CTCTTGAACGATAAGAGGGGC
**
2154041 CTCTTGAACGATAAGAGGATC
1 CTCTTGAACGATAAGAGGGGC
2154062 CTCTTGAACGAT
1 CTCTTGAACGAT
2154074 GACAGGTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGATAAGAGGGGC
Found at i:2154443 original size:21 final size:21
Alignment explanation
Indices: 2154365--2154444 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 21
2154355 CGTAGAGCGG
* **
2154365 CTACCTCATCACGTAAAGTAA
1 CTACCTCACCACGTAAAACAA
*
2154386 ATACCTCACCACGTAAAAC-A
1 CTACCTCACCACGTAAAACAA
* ** *
2154406 CCATTGTCATCGA-GTAAAACAA
1 CTA-CCTCA-CCACGTAAAACAA
2154428 CTACCTCACCACGTAAA
1 CTACCTCACCACGTAAA
2154445 GATCGTACCT
Statistics
Matches: 42, Mismatches: 13, Indels: 8
0.67 0.21 0.13
Matches are distributed among these distances:
20 4 0.10
21 33 0.79
22 5 0.12
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (21 bp):
CTACCTCACCACGTAAAACAA
Found at i:2154501 original size:21 final size:21
Alignment explanation
Indices: 2154477--2154527 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2154467 CAACATTGTT
*
2154477 ATCACGTAAAGTACTGACCTC
1 ATCACGTAAAGCACTGACCTC
* *
2154498 ATCATGCAAAGCACTGACCTC
1 ATCACGTAAAGCACTGACCTC
2154519 ATCACGTAA
1 ATCACGTAA
2154528 CTCTCCTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (21 bp):
ATCACGTAAAGCACTGACCTC
Found at i:2154701 original size:42 final size:42
Alignment explanation
Indices: 2154642--2154740 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
2154632 GTGATGGAAT
* ** * * *
2154642 AGGTGATGGCTCTCGGTGTGGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAACTATAGAATCGGATCGATC
*
2154684 AGGTGATGACTCTCGGTGTCGAACTATAGAATCGGATCGATC
1 AGGTGATGGCTCTCGGTGTCGAACTATAGAATCGGATCGATC
*
2154726 AGGTTATGGCTCTCG
1 AGGTGATGGCTCTCG
2154741 AAGTGGGGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAACTATAGAATCGGATCGATC
Found at i:2156630 original size:20 final size:20
Alignment explanation
Indices: 2156605--2156643 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2156595 TCGCGTTGTA
2156605 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
2156625 ATTTTCGTGTTGCGAATTT
1 ATTTTCGTGTTGCGAATTT
2156644 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:2156650 original size:20 final size:20
Alignment explanation
Indices: 2156607--2156650 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2156597 GCGTTGTAAT
* *
2156607 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
2156627 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
2156647 TTTC
1 TTTC
2156651 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:2157175 original size:20 final size:20
Alignment explanation
Indices: 2157152--2157201 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2157142 TGACTTCTGT
*
2157152 GTTGTGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
* *
2157172 GTTGCGATTTACATATTCGC
1 GTTGCGAATTACAAATTCGC
2157192 GTTGCGAATT
1 GTTGCGAATT
2157202 TGGAAAATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:2160961 original size:2 final size:2
Alignment explanation
Indices: 2160956--2160986 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2160946 ACACACACAC
2160956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2160987 ATGTTAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2165270 original size:180 final size:181
Alignment explanation
Indices: 2164746--2165344 Score: 793
Period size: 180 Copynumber: 3.3 Consensus size: 181
2164736 AGGTAAAAAT
* * ** *
2164746 ATGACAAAACC-GTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTTTAAGTTTGTGTCG
1 ATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT-A-TAAGTATCG
* * *
2164810 ACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAAAAAT
64 ACACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTATAAAAAT
* *
2164875 GTATCGATCCATAGCGATATAACAGGTAAAAATATGACAAAATCGGTCTCGAA
129 GTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCGAA
* * * * * * **
2164928 ATGACAAAAACAGTAAAGCGATACCGAATATATTGAAAGTGTCAATACTTTAACATGGGTATCGA
1 ATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGTATCGA
* * * *
2164993 CACTTTG-G---TTAAAAGAAAAACATTTTTAACGCTTATAAAGTGTCGATACTTTATAAAAATA
65 CACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTATAAAAATG
* * *
2165054 TATCGATCCATAACAATACAACAGGT-AAAATATGACAAAACCGGACTCGAA
130 TATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCGAA
* *
2165105 AAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGCCGATACTTTGATATAAGTAT-GA
1 ATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGTATCGA
* **
2165169 CACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAATGTTAATACTTTATAAAAATG
65 CACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTATAAAAATG
* *
2165234 TATCAATCCATAACGATATAACA-GTAAAAATATGACAAAACCGGTCTAGAA
130 TATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCGAA
* *
2165285 ATGACAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTAGATACTTTA-ATAAGTAT
1 ATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGTAT
2165345 GCGTAATAAA
Statistics
Matches: 361, Mismatches: 49, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
176 9 0.02
177 75 0.21
178 77 0.21
179 3 0.01
180 136 0.38
181 1 0.00
182 24 0.07
183 36 0.10
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
ATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGTATCGAC
ACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTATAAAAATGT
ATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCGAA
Found at i:2167343 original size:22 final size:23
Alignment explanation
Indices: 2167293--2167347 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
2167283 AACGTTTTTG
*
2167293 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
2167315 TAGTTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
2167338 TTTTATTATA
1 TTTTATTATA
2167348 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 4 0.14
24 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:2167904 original size:66 final size:66
Alignment explanation
Indices: 2167779--2167904 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
2167769 GAAGTGGAAG
** * * *
2167779 AAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAATATGGTGACGGGT
1 AAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGACGGGT
2167844 A
66 A
* * * * * *
2167845 AAAAAATTGATGGAGTGGTGAAGGAGGTTGTGGAATTGAGGAGTGAACTTACGGGGGTGA
1 AAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGA
2167905 AGGGGGTGGT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 49 1.00
ACGTcount: A:0.33, C:0.03, G:0.40, T:0.24
Consensus pattern (66 bp):
AAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGACGGGT
A
Found at i:2168036 original size:18 final size:18
Alignment explanation
Indices: 2168009--2168046 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2167999 AAAAAATATA
2168009 AAGAAGAAAAGATGGAGG
1 AAGAAGAAAAGATGGAGG
*
2168027 AAGAATAAAAGATGGAGG
1 AAGAAGAAAAGATGGAGG
2168045 AA
1 AA
2168047 ATGAGGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.34, T:0.08
Consensus pattern (18 bp):
AAGAAGAAAAGATGGAGG
Found at i:2169593 original size:19 final size:19
Alignment explanation
Indices: 2169569--2169617 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2169559 AATGTAAGGT
2169569 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2169588 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
2169607 TAATTTTGTAT
1 TAATTTTGTAT
2169618 GCGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2169948 original size:15 final size:15
Alignment explanation
Indices: 2169928--2169960 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2169918 GTCCAGTATG
*
2169928 GTTCCCAAACGTAAA
1 GTTCCCAAACGAAAA
2169943 GTTCCCAAACGAAAA
1 GTTCCCAAACGAAAA
2169958 GTT
1 GTT
2169961 TCTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (15 bp):
GTTCCCAAACGAAAA
Found at i:2170350 original size:200 final size:199
Alignment explanation
Indices: 2169984--2170992 Score: 1227
Period size: 200 Copynumber: 5.0 Consensus size: 199
2169974 ATAAGCAGAT
* * *
2169984 GTGTCGATACATTTATAAAAAGTATCGGTCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
2170049 GGTAATTTTGTAATATAATCGGAATAAATATACCATTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGACTACATAATGT
** * * * * **
2170114 ATCGACACTTTTTAATTTGGTGTCGATACATTTTGTCCAGAATAAATGCCCAAAACGGTGAACGT
131 ATCGACACTTTGGAATTT-GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCC
2170179 ATAAA
195 ATAAA
* *
2170184 GTGTTGATACATTTATAAAAAATATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
2170249 TGTAAATTTACAATGTAACCGGTATAATTATACCAGTTTTATGAGATAATAGGACTACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGACTACATAATGT
* ** *
2170314 ATCAACACTTATGGAATTTGTGTTAATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACG
131 ATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-GGGTGCACC
2170379 CATAAA
194 CATAAA
* * * *
2170385 ATGTCAATACATTTATAAAAAGTATCGATCCCAGAGACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
2170450 GGTAATTTTGTAATGTAACCAGTATAAATATACCAGTTTTATGTGAGAATATG-TTACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGACTACATAATGT
** *
2170514 ATCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCA
131 ATCGACACTTTGGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAAGGGTGCA
*
2170579 CACATAAA
192 CCCATAAA
* *
2170587 GTGTTGATACATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * * *
2170652 TGTAATTTTTCAATGTAATCGCTATAAATATACCGGTTTTATGAGAGAATAGGTCTAGAAAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGACTACATAATGT
* * * * *
2170717 ATCGACACTTGTGGATTTTGTGTCAATATTTTTTATCCAGAAGGAATGCCCAAAAAGGGTGCACC
131 ATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGCACC
2170782 CATAAA
194 CATAAA
* * * * *
2170788 GTGTCGATACATTT-T-TAAAGTGTCGGTCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * * * *
2170851 GGTAAATTT-CAATGAAACTGGTATAAATATATCGGTTTTATGAGAGAATATGTA-TATAAAATT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATA-GGACTACATAATG
* *
2170914 TATCGACACTTGTGGAATTTGTGTCGATACTTTTTATCTAGAATGAATGCCCAAAAGGGTGCACC
130 TATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACC
2170979 CATAAA
194 CATAAA
2170985 GTGTCGAT
1 GTGTCGAT
2170993 CCCAAAAACA
Statistics
Matches: 702, Mismatches: 98, Indels: 21
0.86 0.12 0.03
Matches are distributed among these distances:
197 27 0.04
198 90 0.13
199 53 0.08
200 207 0.29
201 152 0.22
202 118 0.17
203 53 0.08
204 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGACTACATAATGT
ATCGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
TAAA
Found at i:2170739 original size:403 final size:404
Alignment explanation
Indices: 2169985--2170969 Score: 1374
Period size: 401 Copynumber: 2.5 Consensus size: 404
2169975 TAAGCAGATG
*
2169985 TGTCGATACATTTATAAAAAGTATCGGTCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCGGTCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * * * *
2170050 GTAATTTTGTAATATAATCGGAATAAATATACCATTTTTATGTGAGAATAGGTCTACATAATGTA
66 GTAATTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTATACATAATGTA
* * *
2170115 TCGACACTTTTTAATTTGGTGTCGATACATTTTGTCCAGAATAAATGCCC---AAAACGGTGAAC
131 TCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAAACGGTGAAC
** *
2170177 GTATAAAGTGTTGATACATTTATAAAAAATATCGATCCCAGAAACATCGAAACCCATAATTATAA
196 ACATAAAGTGTTGATACATTTATAAAAAATATCGATCCCAGAAACATCAAAACCCATAATTATAA
* * *
2170242 TGTAATATGTAAATTTACAATGTAACCGGTATAATTATACCAGTTTTATGAGATAATAGGACTAC
261 TGTAATATGTAAATTTACAATGTAACCGCTATAAATATACCAGTTTTATGAGAGAATAGGACTAC
* * * * *
2170307 ATAATGTATCAACACTTATGGAATTTGTGTTAATACTTTTTGTCCAGAATGAATGCCCAAAAGGG
326 AAAATGTATCAACACTTATGGAATTTGTGTCAATACTTTTTATCCAGAAGGAATGCCCAAAAAGG
*
2170372 GTGCACGCATAAAA
391 GTGCACCCATAAAA
* * * * *
2170386 TGTCAATACATTTATAAAAAGTATCGATCCCAGAGACATCAAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCGGTCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
*
2170451 GTAATTTTGTAATGTAACCAGTATAAATATACCAGTTTTATGTGAGAATATGT-TACATAATGTA
66 GTAATTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTATACATAATGTA
* *
2170515 TCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCAC
131 TCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAAACGGTGAAC
*
2170580 ACATAAAGTGTTGATACATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAATTATAA
196 ACATAAAGTGTTGATACATTTATAAAAAATATCGATCCCAGAAACATCAAAACCCATAATTATAA
* * * * * *
2170645 TGTAATATGTAATTTTTCAATGTAATCGCTATAAATATACCGGTTTTATGAGAGAATAGGTCTAG
261 TGTAATATGTAAATTTACAATGTAACCGCTATAAATATACCAGTTTTATGAGAGAATAGGACTAC
* * * *
2170710 AAAATGTATCGACACTTGTGGATTTTGTGTCAATATTTTTTATCCAGAAGGAATGCCCAAAAAGG
326 AAAATGTATCAACACTTATGGAATTTGTGTCAATACTTTTTATCCAGAAGGAATGCCCAAAAAGG
*
2170775 GTGCACCCATAAAG
391 GTGCACCCATAAAA
* * *
2170789 TGTCGATACATTT-T-TAAAGTGTCGGTCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCGGTCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * * * * * * * *
2170852 GTAAATTT-CAATGAAACTGGTATAAATATATCGGTTTTATGAGAGAATATGTATATAAAATTTA
66 GTAATTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTATACATAATGTA
** * *
2170916 TCGACACTTGTGGAA-TTTGTGTCGATACTTTTTATCTAGAATGAATGCCCAAAA
131 TCGACACTT-TTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
2170970 GGGTGCACCC
Statistics
Matches: 515, Mismatches: 64, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
400 95 0.18
401 209 0.41
402 4 0.01
403 207 0.40
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (404 bp):
TGTCGATACATTTATAAAAAGTATCGGTCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAATTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTATACATAATGTA
TCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAAAACGGTGAAC
ACATAAAGTGTTGATACATTTATAAAAAATATCGATCCCAGAAACATCAAAACCCATAATTATAA
TGTAATATGTAAATTTACAATGTAACCGCTATAAATATACCAGTTTTATGAGAGAATAGGACTAC
AAAATGTATCAACACTTATGGAATTTGTGTCAATACTTTTTATCCAGAAGGAATGCCCAAAAAGG
GTGCACCCATAAAA
Found at i:2178876 original size:177 final size:177
Alignment explanation
Indices: 2178548--2178892 Score: 471
Period size: 177 Copynumber: 1.9 Consensus size: 177
2178538 AGCTAAATAT
*
2178548 GTGTCGATATATTTTCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTTCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* *
2178613 GGTAAATTAACAATGTAACCAGTATAAATATACCGGTTAATTAGAAAACAGGTCAACATAATGTA
66 GGTAAATTAACAATGTAACCAGTATAAATATACCGGTTAATGAGAAAACAGGTCAACATAAAGTA
* *
2178678 TCGACACTTTTGGAATTTGTGTCGATACTTATTGTCCAGAATATAAA
131 TCGACACATTTGAAATTTGTGTCGATACTTATTGTCCAGAATATAAA
* * * *
2178725 GTGTCGATACATTTAT-TAAAAGTATCGA-TCCAATAACATTGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTT-TCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAAT
* * ** * * * * *
2178788 AGTTAAATTTACAATGTAACTGGTATAAATATACTGGTTTTATGAGAAAATATGTCAGCATAAAG
65 AGGTAAATTAACAATGTAACCAGTATAAATATACCGG-TTAATGAGAAAACAGGTCAACATAAAG
*
2178853 TATCGACACCATTT-AAATTTGTGTCGATACTTTTTGTCCA
129 TATCGACA-CATTTGAAATTTGTGTCGATACTTATTGTCCA
2178893 TAATGAATGT
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
176 63 0.43
177 78 0.53
178 5 0.03
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (177 bp):
GTGTCGATACATTTTCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATA
GGTAAATTAACAATGTAACCAGTATAAATATACCGGTTAATGAGAAAACAGGTCAACATAAAGTA
TCGACACATTTGAAATTTGTGTCGATACTTATTGTCCAGAATATAAA
Found at i:2179076 original size:200 final size:198
Alignment explanation
Indices: 2178720--2179194 Score: 600
Period size: 200 Copynumber: 2.4 Consensus size: 198
2178710 TGTCCAGAAT
* * *
2178720 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCAATAACATTGAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTATTAAAATTATCGATCCAAAAACATCGAAACCGATAATTATAATGT
* * * * * *
2178785 AATAGTTAAATTTACAATGTAACTGGTATAAATATACTGGTTTTATGAGAAAATATGTCAGCATA
66 AATAGGTAAATTTACAATGTAACTGATAGAAATATACCGGTTTTATGAGAAAATAGGTCAGAATA
* * * *
2178850 AAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGTCAAAC-AGGGTG
131 AAGTATCAACACCATTTAAATTTGTGTCGATA-TTTTTGTCCAGAATGAAGGACAAACGA-GGTG
2178914 CACAC
194 CACAC
* *
2178919 ATAAAGTATCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTATTAAAATTATCGAT-CCAAAAACATCGAAACCGATAATTATAATG
* *
2178984 TGATAGGTAAATTTACAATGTACCCT-ATAGAAATATACCGGTTTTATGAGAAAATAGGTCTA-A
65 TAATAGGTAAATTTACAATGTA-ACTGATAGAAATATACCGGTTTTATGAGAAAATAGGTC-AGA
* * ** * * * *
2179047 ATTATGTATCAACACTTTTTAACTTTGTGTTGATATTTTTTTCCAGAATGAAGGACCAACGAGGT
128 ATAAAGTATCAACACCATTTAAATTTGTGTCGATATTTTTGTCCAGAATGAAGGACAAACGAGGT
**
2179112 GCATGC
193 GCACAC
* *
2179118 ATAAAGTGTCGATACATTTA--AAATTATATCGATCCAAAAAAATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAT-TATCGATCCAAAAACATCGAAACCGATAATTATAATG
2179181 TAATAGGTAAATTT
65 TAATAGGTAAATTT
2179195 GTAATGTTAC
Statistics
Matches: 239, Mismatches: 32, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
197 45 0.19
198 7 0.03
199 78 0.33
200 106 0.44
201 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (198 bp):
ATAAAGTGTCGATACATTTATTAAAATTATCGATCCAAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTAACTGATAGAAATATACCGGTTTTATGAGAAAATAGGTCAGAATA
AAGTATCAACACCATTTAAATTTGTGTCGATATTTTTGTCCAGAATGAAGGACAAACGAGGTGCA
CAC
Found at i:2179575 original size:23 final size:22
Alignment explanation
Indices: 2179538--2179581 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2179528 AAATATAAAA
*
2179538 TTTTAAAATTGTAATAATATTT
1 TTTTAAAATTATAATAATATTT
*
2179560 TTTTATAAATTATAATTATATT
1 TTTTA-AAATTATAATAATATT
2179582 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAAAATTATAATAATATTT
Found at i:2182960 original size:60 final size:60
Alignment explanation
Indices: 2182896--2183043 Score: 185
Period size: 60 Copynumber: 2.5 Consensus size: 60
2182886 TCATAATATG
* *
2182896 TCCTCAAACTATGAT-CTCTATT-TAAAATTAGTTCCTAAACTTTTGAATATTCTAATTTCA
1 TCCTCAAACTATGATACTC-ATTCT-AAATTAGTTCCTAAACTTTTGAACATTCCAATTTCA
* * *
2182956 TCCTCAAACTATGATACTCATTCTAGATTAGTTCTTGAACTTTTGAACATTCCAATTTCA
1 TCCTCAAACTATGATACTCATTCTAAATTAGTTCCTAAACTTTTGAACATTCCAATTTCA
**
2183016 TCCTCAAACTACAATA-TGCATTCTAAAT
1 TCCTCAAACTATGATACT-CATTCTAAAT
2183044 AGGCCCCTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
59 1 0.01
60 72 0.94
61 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (60 bp):
TCCTCAAACTATGATACTCATTCTAAATTAGTTCCTAAACTTTTGAACATTCCAATTTCA
Found at i:2182964 original size:29 final size:29
Alignment explanation
Indices: 2182928--2183025 Score: 69
Period size: 29 Copynumber: 3.3 Consensus size: 29
2182918 TAAAATTAGT
2182928 TCCT-AAACTTTTGAATATTCTAATTTCA
1 TCCTCAAACTTTTGAATATTCTAATTTCA
*
2182956 TCCTCAAAC-TATGATACTCATTCTAGA-TT-A
1 TCCTCAAACTTTTGA-A-T-ATTCTA-ATTTCA
* ** * *
2182986 GTTCTTGAACTTTTGAACATTCCAATTTCA
1 -TCCTCAAACTTTTGAATATTCTAATTTCA
2183016 TCCTCAAACT
1 TCCTCAAACT
2183026 ACAATATGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 17
0.65 0.13 0.22
Matches are distributed among these distances:
28 9 0.18
29 19 0.37
30 3 0.06
31 15 0.29
32 5 0.10
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (29 bp):
TCCTCAAACTTTTGAATATTCTAATTTCA
Found at i:2183057 original size:60 final size:60
Alignment explanation
Indices: 2182929--2183059 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
2182919 AAAATTAGTT
* * ** * **
2182929 CCTAAACTTTTGAATATTCTAATTTCATCCTCAAACTATGATACTCATTCTAGATTAGTT
1 CCTAAACTTTTGAACATTCCAATTTCATCCTCAAACTACAATACTCATTCTAGAATAGCC
* *
2182989 CTTGAACTTTTGAACATTCCAATTTCATCCTCAAACTACAATA-TGCATTCTA-AATAGGCC
1 CCTAAACTTTTGAACATTCCAATTTCATCCTCAAACTACAATACT-CATTCTAGAATA-GCC
2183049 CCTAAACTTTT
1 CCTAAACTTTT
2183060 AAATCTTTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
59 4 0.07
60 54 0.93
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (60 bp):
CCTAAACTTTTGAACATTCCAATTTCATCCTCAAACTACAATACTCATTCTAGAATAGCC
Found at i:2184912 original size:6 final size:6
Alignment explanation
Indices: 2184901--2184928 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2184891 ACGCCGCCTC
2184901 CCACTT CCACTT CCACTT CCACTT CCAC
1 CCACTT CCACTT CCACTT CCACTT CCAC
2184929 CTTCATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.54, G:0.00, T:0.29
Consensus pattern (6 bp):
CCACTT
Found at i:2185921 original size:2 final size:2
Alignment explanation
Indices: 2185916--2185940 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2185906 ATGAATTTTG
2185916 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2185941 AAGGTAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2188638 original size:25 final size:25
Alignment explanation
Indices: 2188604--2188654 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2188594 TGTTTTTGTA
2188604 GGATTCATATTTTCCAACAAACAAC
1 GGATTCATATTTTCCAACAAACAAC
2188629 GGATTCATATTTTCCAACAAACAAC
1 GGATTCATATTTTCCAACAAACAAC
2188654 G
1 G
2188655 TTGTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (25 bp):
GGATTCATATTTTCCAACAAACAAC
Found at i:2190225 original size:2 final size:2
Alignment explanation
Indices: 2190214--2190242 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2190204 ATGTTAACTA
2190214 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2190243 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2190719 original size:28 final size:28
Alignment explanation
Indices: 2190675--2190730 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2190665 CCATCGTTGC
*
2190675 TTTCAAGCACTGGCTCGAC-AGTATAATG
1 TTTCAAGCACTGACTCGACGA-TATAATG
2190703 TTTCAAGCACCT-ACTCGACGATATAATG
1 TTTCAAGCA-CTGACTCGACGATATAATG
2190731 CAAATGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (28 bp):
TTTCAAGCACTGACTCGACGATATAATG
Found at i:2196966 original size:26 final size:26
Alignment explanation
Indices: 2196922--2196975 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2196912 GATTACTTAT
*
2196922 GCCCCTACATGCTGCCCTGGGCCATC
1 GCCCCTACATACTGCCCTGGGCCATC
* *
2196948 GCCCCTACATACTGTCCTGGGCCGTC
1 GCCCCTACATACTGCCCTGGGCCATC
2196974 GC
1 GC
2196976 TCATCTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.11, C:0.44, G:0.24, T:0.20
Consensus pattern (26 bp):
GCCCCTACATACTGCCCTGGGCCATC
Found at i:2206808 original size:19 final size:19
Alignment explanation
Indices: 2206781--2206817 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2206771 ATGACCAACA
*
2206781 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
2206800 AAATTGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
2206818 CAGTATTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:2206925 original size:41 final size:41
Alignment explanation
Indices: 2206843--2206937 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
2206833 GTTTACAGAT
* * * * *
2206843 TCGCAACGCGATTTTGACTATTGTATTGCGATTTTCTAAAA
1 TCGCAACGCGATTCTGACTATCGCATTGCGATATACTAAAA
*
2206884 TCGCAACGCGATTCTGACTATCGCGTTGCGATAATAC-AAAA
1 TCGCAACGCGATTCTGACTATCGCATTGCGAT-ATACTAAAA
* *
2206925 TCGTAATGCGATT
1 TCGCAACGCGATT
2206938 TTCAAAGCGC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCATTGCGATATACTAAAA
Found at i:2207107 original size:22 final size:22
Alignment explanation
Indices: 2207082--2207127 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2207072 CTACAGCAAC
2207082 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * *
2207104 ATCCGTCTCTATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
2207126 AT
1 AT
2207128 TCATCTATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.39, G:0.15, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2207535 original size:19 final size:19
Alignment explanation
Indices: 2207513--2207652 Score: 105
Period size: 20 Copynumber: 7.4 Consensus size: 19
2207503 AAATCGCAAC
2207513 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
2207532 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
*
2207551 GCGATTATC--TT---GTT
1 GCGATTTTCATTTCGCGTT
**
2207565 GCGATAGTCAAATTT-GCGTT
1 GCGATTTTC--ATTTCGCGTT
** *
2207585 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
*
2207605 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
*
2207625 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
2207645 GCGATTTT
1 GCGATTTT
2207653 AAGTTTCAGA
Statistics
Matches: 106, Mismatches: 6, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.09
17 2 0.02
18 3 0.03
19 28 0.26
20 63 0.59
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.48
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:2207605 original size:20 final size:20
Alignment explanation
Indices: 2207561--2207649 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
2207551 GCGATTATCT
*
2207561 TGTTGCGATAGTCAAATTT-G
1 TGTTGCGATAGTC-ATTTTCG
*
2207581 CGTTGCGATAGTCATTTTCG
1 TGTTGCGATAGTCATTTTCG
**
2207601 TGTTGCGATTTTCATTTTCG
1 TGTTGCGATAGTCATTTTCG
**
2207621 TGTTGCGATTTTCATTTTCG
1 TGTTGCGATAGTCATTTTCG
2207641 TGTTGCGAT
1 TGTTGCGAT
2207650 TTTAAGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.06
20 59 0.94
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.47
Consensus pattern (20 bp):
TGTTGCGATAGTCATTTTCG
Found at i:2207659 original size:20 final size:20
Alignment explanation
Indices: 2207582--2207652 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
2207572 TCAAATTTGC
**
2207582 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
2207602 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
2207622 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
2207642 GTTGCGATTTT
1 GTTGCGATTTT
2207653 AAGTTTCAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:2209247 original size:21 final size:21
Alignment explanation
Indices: 2209223--2209278 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2209213 TGGTGCATGG
* * *
2209223 CGTGATGAGGTATCTACTTTA
1 CGTGATGAGGTAGCGACTCTA
*
2209244 CGTGGTGAGGTAGCGACTCTA
1 CGTGATGAGGTAGCGACTCTA
2209265 CGTGA-GATGGTAGC
1 CGTGATGA-GGTAGC
2209279 ATCGTTGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (21 bp):
CGTGATGAGGTAGCGACTCTA
Found at i:2209608 original size:33 final size:34
Alignment explanation
Indices: 2209571--2209643 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 34
2209561 TTTGACTATT
*
2209571 GCAACGGGATAATCGCAATGCG-AAATAAAAATC
1 GCAACGGGAAAATCGCAATGCGAAAATAAAAATC
* *
2209604 GCAACGTGAAAATCGCAATGCGAAAATGAAAATC
1 GCAACGGGAAAATCGCAATGCGAAAATAAAAATC
2209638 GCAACG
1 GCAACG
2209644 CGAATTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 20 0.56
34 16 0.44
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (34 bp):
GCAACGGGAAAATCGCAATGCGAAAATAAAAATC
Found at i:2209633 original size:20 final size:20
Alignment explanation
Indices: 2209610--2209647 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2209600 AATCGCAACG
*
2209610 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
2209630 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
2209648 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:2209665 original size:19 final size:19
Alignment explanation
Indices: 2209643--2209808 Score: 85
Period size: 20 Copynumber: 8.7 Consensus size: 19
2209633 AAATCGCAAC
*
2209643 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
2209662 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
2209681 GCGATTTTTA-TTTCGCATT
1 GCGA-TTTTAGTTTCGCGTT
*
2209700 GCGA--TTA---TCCCGTT
1 GCGATTTTAGTTTCGCGTT
* * ** *
2209714 GCGATAGTCAAATTCCCGTT
1 GCGAT-TTTAGTTTCGCGTT
* *
2209734 GCGATAGTCA-TTTCCGCGTT
1 GCGAT-TTTAGTTT-CGCGTT
* * *
2209754 GCGATAGTTATTTTCACGTT
1 GCGAT-TTTAGTTTCGCGTT
*
2209774 GCGATTTTAAGTTTCGTGTT
1 GCGATTTT-AGTTTCGCGTT
2209794 GCGATTTTAAGTTTC
1 GCGATTTT-AGTTTC
2209809 AGAAACAATT
Statistics
Matches: 122, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.07
16 3 0.02
17 2 0.02
19 37 0.30
20 68 0.56
21 3 0.02
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:2210376 original size:42 final size:42
Alignment explanation
Indices: 2210295--2210410 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
2210285 CTGTCATCGT
* * *
2210295 TCAAGAGG-CCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGTCC-CTCCCACCGTTCAAGAGGCCCATATCATCCC
* * **
2210337 TCAAGA-GTCTCCTCTCACCGTTCAAGAGGCCCATGTCATCGT
1 TCAAGAGGTC-CCTCCCACCGTTCAAGAGGCCCATATCATCCC
* *
2210379 TGAAGAGGTCCCTCCCACCATTCAAGA-GCCCA
1 TCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCA
2210411 ATTCACACGG
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 6 0.10
42 51 0.84
43 4 0.07
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.22
Consensus pattern (42 bp):
TCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCATATCATCCC
Found at i:2210379 original size:21 final size:20
Alignment explanation
Indices: 2210284--2210391 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 20
2210274 GCCCGACTCA
2210284 CCTGTCATCGTTCAAGAGGC
1 CCTGTCATCGTTCAAGAGGC
*
2210304 CTCT-CCTATCGTTCAAGAGGCC
1 C-CTGTC-ATCGTTCAAGAGG-C
* ** *
2210326 CCTATCATCCCTCAAGAGTC
1 CCTGTCATCGTTCAAGAGGC
* *
2210346 TCCTCTCACCGTTCAAGAGGC
1 -CCTGTCATCGTTCAAGAGGC
*
2210367 CCATGTCATCGTTGAAGAGGTC
1 CC-TGTCATCGTTCAAGAGG-C
2210389 CCT
1 CCT
2210392 CCCACCATTC
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.07
21 57 0.84
22 6 0.09
ACGTcount: A:0.20, C:0.34, G:0.19, T:0.26
Consensus pattern (20 bp):
CCTGTCATCGTTCAAGAGGC
Found at i:2211797 original size:14 final size:14
Alignment explanation
Indices: 2211778--2211814 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2211768 GCTTGTTTAA
*
2211778 TTGATTTGTAAAGG
1 TTGATTTGTAAAAG
2211792 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2211806 TTGATTTGT
1 TTGATTTGT
2211815 TTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2212059 original size:20 final size:20
Alignment explanation
Indices: 2212030--2212146 Score: 162
Period size: 20 Copynumber: 5.8 Consensus size: 20
2212020 GCGATTTTCT
* *
2212030 CGTTGTGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
2212050 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
2212070 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2212090 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
2212110 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
2212130 TGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
2212147 GAATGTGTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2212340 original size:18 final size:18
Alignment explanation
Indices: 2212317--2212351 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2212307 AAGCCGGTTG
*
2212317 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2212335 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
2212352 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2214400 original size:14 final size:14
Alignment explanation
Indices: 2214381--2214417 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2214371 CTCCGTGGCA
2214381 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
2214395 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
2214409 TTCTTCTTC
1 TT-TTCTTC
2214418 TTTTTTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:2214632 original size:24 final size:24
Alignment explanation
Indices: 2214598--2214651 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2214588 CTGAAACATC
2214598 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2214622 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2214646 ATCAAA
1 ATCAAA
2214652 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2215497 original size:20 final size:20
Alignment explanation
Indices: 2215472--2215538 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
2215462 GAAATTCAGT
*
2215472 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
2215492 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* *
2215512 GTTGCGATAGTCAAAATTGC
1 GTTGCGATAGTCAGAATCGC
2215532 GTTGCGA
1 GTTGCGA
2215539 ATCTGGAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:2215595 original size:19 final size:19
Alignment explanation
Indices: 2215562--2215600 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2215552 TTTGCGATAC
** *
2215562 TAGAGATCGTGTTGCGATT
1 TAGAGATCGCATTGCAATT
2215581 TAGAGATCGCATTGCAATT
1 TAGAGATCGCATTGCAATT
2215600 T
1 T
2215601 TGTTGGTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (19 bp):
TAGAGATCGCATTGCAATT
Found at i:2221340 original size:28 final size:27
Alignment explanation
Indices: 2221301--2221369 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
2221291 TTTTATTTTC
* *
2221301 TTAAAATAAAAATTTTAACAATTTTTAAT
1 TTAAAA-AAAAATCTTAA-AATTTATAAT
2221330 TTAAAAAAAAATCTTAAAATTTATAAT
1 TTAAAAAAAAATCTTAAAATTTATAAT
*
2221357 TTAAAAGAAAATC
1 TTAAAAAAAAATC
2221370 AAAATTCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 21 0.57
28 10 0.27
29 6 0.16
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (27 bp):
TTAAAAAAAAATCTTAAAATTTATAAT
Found at i:2227339 original size:3 final size:3
Alignment explanation
Indices: 2227331--2227357 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2227321 TTGCGAATTG
2227331 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
2227358 GAAACAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2231118 original size:20 final size:20
Alignment explanation
Indices: 2231095--2231146 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2231085 AACGCGATCC
2231095 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2231115 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2231135 CCAAAATCGCAA
1 CCAGAATCGCAA
2231147 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2231163 original size:21 final size:20
Alignment explanation
Indices: 2231136--2231234 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
2231126 AATCAGTTTC
2231136 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
2231157 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2231178 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
2231198 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2231219 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2231235 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2231263 original size:20 final size:20
Alignment explanation
Indices: 2231201--2231394 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2231191 CGATTTTCCA
* ** *
2231201 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
2231221 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2231241 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2231261 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2231281 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2231301 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2231321 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2231341 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2231361 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2231382 AAATCGCAACGCG
1 AAATCGCAACGCG
2231395 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2231285 original size:60 final size:60
Alignment explanation
Indices: 2231201--2231394 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2231191 CGATTTTCCA
* ** * *
2231201 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
2231261 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
2231321 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
2231382 AAATCGCAACGCG
1 AAATCGCAACGCG
2231395 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:2231812 original size:33 final size:33
Alignment explanation
Indices: 2231773--2231843 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2231763 TTCACTTAGA
*
2231773 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2231806 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2231839 TTTCA
1 TTTCA
2231844 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2231983 original size:14 final size:14
Alignment explanation
Indices: 2231964--2232018 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2231954 AGAATGACTG
2231964 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
2231978 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
2231997 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2232011 TCGCAACG
1 TCGCAACG
2232019 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Done.