Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008293.1 Hibiscus syriacus cultivar Beakdansim tig00110957_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: 338481
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
File 2 of 3
Found at i:189303 original size:23 final size:23
Alignment explanation
Indices: 189245--189313 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
189235 CATTATTATA
* *
189245 TGGCACTACAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
** *
189268 CAGCAC-TCTGGTGTAATTCTACG
1 TGGCACTTC-GGTGCAATTCTACG
*
189291 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTCTACG
189314 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.91
24 2 0.06
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:189975 original size:45 final size:47
Alignment explanation
Indices: 189906--190003 Score: 128
Period size: 45 Copynumber: 2.1 Consensus size: 47
189896 TACAATTCAC
*
189906 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTGTTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* * * *
189952 AAAAATAAA-CCTCACCGCGTGATATCTAGTTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
189999 AAAAA
1 AAAAA
190004 CGACAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 26 0.58
46 8 0.18
47 11 0.24
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:192058 original size:19 final size:20
Alignment explanation
Indices: 192021--192059 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
192011 CGCTCCTCAT
*
192021 CTCTCAACTCTATCTCACGC
1 CTCTCAACTCTATCCCACGC
*
192041 CTCTCCACT-TATCCCACGC
1 CTCTCAACTCTATCCCACGC
192060 AACTGTAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.49, G:0.05, T:0.28
Consensus pattern (20 bp):
CTCTCAACTCTATCCCACGC
Found at i:192086 original size:15 final size:16
Alignment explanation
Indices: 192066--192095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
192056 ACGCAACTGT
192066 AGACCA-AAAAAAAGC
1 AGACCAGAAAAAAAGC
192081 AGACCAGAAAAAAAG
1 AGACCAGAAAAAAAG
192096 GAACCGACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (16 bp):
AGACCAGAAAAAAAGC
Found at i:193118 original size:2 final size:2
Alignment explanation
Indices: 193111--193157 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
193101 ACCAATAATT
193111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
193153 TA TA T
1 TA TA T
193158 GTCTAAACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:195900 original size:13 final size:13
Alignment explanation
Indices: 195882--195910 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
195872 TTTATTTAAA
195882 ATTAAAGAAAAAT
1 ATTAAAGAAAAAT
195895 ATTAAAGAAAAAT
1 ATTAAAGAAAAAT
195908 ATT
1 ATT
195911 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
ATTAAAGAAAAAT
Found at i:205167 original size:20 final size:19
Alignment explanation
Indices: 205134--205181 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
205124 GAAATTAGAG
*
205134 TTTTGAAAGT-TTTGGGATTT
1 TTTTGAAA-TATTTGGG-TCT
205154 TTTTGAAATATTTGGGTCT
1 TTTTGAAATATTTGGGTCT
205173 TTTT-AAATA
1 TTTTGAAATA
205182 GAGAAAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 7 0.27
20 14 0.54
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.54
Consensus pattern (19 bp):
TTTTGAAATATTTGGGTCT
Found at i:205324 original size:20 final size:20
Alignment explanation
Indices: 205301--205352 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
205291 AACGCGATCC
205301 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
205321 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
205341 CCAAAATCGCAA
1 CCAGAATCGCAA
205353 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:205482 original size:20 final size:20
Alignment explanation
Indices: 205408--205600 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
205398 GATTTTCCAT
* ** *
205408 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
205428 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
205448 AATCGCAACGCGTATTCGTA
1 AATCGCAACGCGTATCCGTA
*
205468 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
205488 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
205508 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
205528 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
205548 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
205569 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
205589 AATCGCAACGCG
1 AATCGCAACGCG
205601 ATATTTAAAG
Statistics
Matches: 143, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:205491 original size:60 final size:60
Alignment explanation
Indices: 205408--205600 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
205398 GATTTTCCAT
* ** * * *
205408 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATTCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
205468 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
205528 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
205589 AATCGCAACGCG
1 AATCGCAACGCG
205601 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
60 79 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:206019 original size:33 final size:33
Alignment explanation
Indices: 205980--206050 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
205970 TTCACTTAGA
*
205980 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
206013 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
206046 TTTCA
1 TTTCA
206051 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:206190 original size:14 final size:14
Alignment explanation
Indices: 206171--206225 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
206161 AGAATGACTG
206171 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
206185 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
206204 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
206218 TCGCAACG
1 TCGCAACG
206226 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:206208 original size:33 final size:33
Alignment explanation
Indices: 206171--206241 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
206161 AGAATGACTG
**
206171 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
206204 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
206237 TCGCA
1 TCGCA
206242 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:206259 original size:19 final size:19
Alignment explanation
Indices: 206237--206334 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
206227 GAAACCAAAA
*
206237 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
206256 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
206270 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
206289 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
206303 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
206322 TCGCGTTGCGATT
1 TCGCGTTGCGATT
206335 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:206278 original size:14 final size:14
Alignment explanation
Indices: 206259--206348 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
206249 TTTCATTTCG
206259 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
206273 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
206292 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
206306 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
206323 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
206339 CGTTGCGATT
1 CGTTGCGATT
206349 TCATTTCAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:206284 original size:33 final size:33
Alignment explanation
Indices: 206242--206355 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
206232 CAAAATCGCA
206242 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
206275 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
206308 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
206341 TTGCGA-TTTCATTTC
1 TTGCGATTTTCATTTC
206356 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 7 0.09
33 70 0.91
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:208363 original size:93 final size:93
Alignment explanation
Indices: 208050--208428 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
208040 TAGATTGCTT
*
208050 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
208115 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
208142 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
208206 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
208234 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
208299 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
208327 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
208392 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
208420 AGTAAATTT
1 AGTAAATTT
208429 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
91 12 0.04
92 140 0.49
93 132 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:208386 original size:185 final size:185
Alignment explanation
Indices: 208050--208430 Score: 737
Period size: 185 Copynumber: 2.1 Consensus size: 185
208040 TAGATTGCTT
208050 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
208115 TTTGTCTTTGTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTTGTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
208180 TGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
208234 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
208299 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTG-TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
208364 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
208420 AGTAAATTTAT
1 AGTAAATTTAT
208431 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 74 0.38
185 79 0.41
186 40 0.21
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:208512 original size:19 final size:19
Alignment explanation
Indices: 208472--208600 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
208462 TAGTTTACTT
* *
208472 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
208492 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
208511 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
208530 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
208544 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
208563 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
208577 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
208596 TCGCA
1 TCGCA
208601 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:208551 original size:33 final size:32
Alignment explanation
Indices: 208508--208600 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
208498 CGCGAAACCA
**
208508 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
208540 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
208573 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
208601 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:208598 original size:52 final size:52
Alignment explanation
Indices: 208472--208600 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
208462 TAGTTTACTT
**
208472 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
208524 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
208577 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
208601 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:208618 original size:19 final size:19
Alignment explanation
Indices: 208596--208730 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
208586 GAAACCAAAA
*
208596 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
208615 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
208631 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
208648 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
208664 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
208681 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
208700 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
208720 TCGTGTTGCGA
1 TCGCGTTGCGA
208731 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:208637 original size:14 final size:14
Alignment explanation
Indices: 208618--208674 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
208608 TTTCATTTCG
208618 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
208632 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
208649 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
208665 CGTTGCGATT
1 CGTTGCGATT
208675 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:208643 original size:33 final size:33
Alignment explanation
Indices: 208601--208693 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
208591 CAAAATCGCA
*
208601 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
208634 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
208667 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
208694 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:210669 original size:14 final size:14
Alignment explanation
Indices: 210650--210685 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
210640 ATTGTTTAAT
210650 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
210664 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
210678 TGATTTGT
1 TGATTTGT
210686 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:210808 original size:19 final size:19
Alignment explanation
Indices: 210792--210893 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
210782 AAAAATGACT
210792 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
210811 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
210830 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
210844 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
210863 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
210883 ATCGCAATGCG
1 ATCGCAATGCG
210894 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:210946 original size:19 final size:19
Alignment explanation
Indices: 210922--211228 Score: 376
Period size: 19 Copynumber: 17.4 Consensus size: 19
210912 GATTATCTCG
210922 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
210941 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
210960 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
210974 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
210993 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
211012 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
211031 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
211050 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
211064 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
211083 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
211102 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
211116 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
211135 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
211154 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
211168 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
211188 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
211202 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
211221 TTGCGATT
1 TTGCGATT
211229 GTATTTTCCG
Statistics
Matches: 252, Mismatches: 10, Indels: 52
0.80 0.03 0.17
Matches are distributed among these distances:
14 35 0.14
16 31 0.12
17 27 0.11
18 3 0.01
19 144 0.57
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:210997 original size:71 final size:71
Alignment explanation
Indices: 210922--211161 Score: 373
Period size: 71 Copynumber: 3.4 Consensus size: 71
210912 GATTATCTCG
210922 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
210987 TTCGCA
66 TTCGCA
*
210993 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
211056 TTC-TGTCG--
61 TTCATTTCGCA
*
211064 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
211129 TTCGCA
66 TTCGCA
211135 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
211162 CTCTCGTTGC
Statistics
Matches: 154, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
66 6 0.04
68 7 0.05
69 6 0.04
71 115 0.75
73 6 0.04
74 8 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:211072 original size:142 final size:137
Alignment explanation
Indices: 210884--211228 Score: 516
Period size: 142 Copynumber: 2.5 Consensus size: 137
210874 GAAATGAAAA
*
210884 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTT-TAATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGAT
*
210948 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
63 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
*
211013 TGCGATTTTCATT
128 TGCGA--TTC-TC
211026 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGATT
211091 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
64 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
211156 GCGATTCTC
129 GCGATTCTC
* * *
211165 TCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGAT
1 TCGCATTGCGATTTTAATTT-CGCATTGCGATTTTC--GTTGCGATTTTCATTTCGCATTGCGAT
211228 T
63 T
211229 GTATTTTCCG
Statistics
Matches: 191, Mismatches: 8, Indels: 12
0.91 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 15 0.08
138 38 0.20
139 4 0.02
140 3 0.02
142 126 0.66
143 3 0.02
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (137 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTTTCGTTGCGATTTTCATTTCGCATTGCGATTTT
CATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTC
Found at i:211167 original size:52 final size:52
Alignment explanation
Indices: 210922--211200 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
210912 GATTATCTCG
*
210922 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
210974 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
211031 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
211083 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
211135 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
211188 TTGCGATTTTCAT
1 TTGCGATTTTCAT
211201 GTTGGGATTT
Statistics
Matches: 217, Mismatches: 4, Indels: 11
0.94 0.02 0.05
Matches are distributed among these distances:
52 161 0.74
53 17 0.08
54 7 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:213522 original size:12 final size:12
Alignment explanation
Indices: 213505--213529 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
213495 TCTTCGGGGA
213505 CTTTTTCTTCTT
1 CTTTTTCTTCTT
213517 CTTTTTCTTCTT
1 CTTTTTCTTCTT
213529 C
1 C
213530 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:213736 original size:24 final size:24
Alignment explanation
Indices: 213702--213748 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
213692 CTGAAACATC
213702 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
213726 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
213749 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:214458 original size:20 final size:20
Alignment explanation
Indices: 214430--214838 Score: 477
Period size: 20 Copynumber: 20.4 Consensus size: 20
214420 AAATTTCAGT
* * * *
214430 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
214450 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
214470 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
214490 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
214510 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
214530 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
214550 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
214570 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
214590 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
214610 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
214630 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
214650 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
214670 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
214690 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
214710 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
214730 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
214750 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
214770 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
214790 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
214810 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
214830 GTTGCGATT
1 GTTGCGATT
214839 ATGTAAAATC
Statistics
Matches: 343, Mismatches: 36, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.02
20 331 0.97
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:214919 original size:20 final size:20
Alignment explanation
Indices: 214894--214945 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
214884 AAGAATCGCG
*
214894 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
214914 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
214934 TTGCGATTCTGG
1 TTGCGATTCTGG
214946 GGATCGCGTT
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:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:216716 original size:16 final size:16
Alignment explanation
Indices: 216691--216780 Score: 54
Period size: 16 Copynumber: 5.1 Consensus size: 16
216681 ATGCATACAT
*
216691 TATAAGTATATACTTA
1 TATAAATATATACTTA
*
216707 TATAAATATATAATATA
1 TATAAATATATACT-TA
216724 TATAACTATGCACTATACTTA
1 TATAA--AT--A-TATACTTA
*
216745 TAAGTATATATATACTTA
1 T-A-TAAATATATACTTA
* * *
216763 TACATATGTATACTTA
1 TATAAATATATACTTA
216779 TA
1 TA
216781 CCTATATATA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
16 26 0.43
17 8 0.13
18 9 0.15
19 3 0.05
21 6 0.10
22 6 0.10
23 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (16 bp):
TATAAATATATACTTA
Found at i:216760 original size:18 final size:17
Alignment explanation
Indices: 216697--216792 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 17
216687 ACATTATAAG
*
216697 TATATACTTATATAAATA
1 TATATACTTATA-ATATA
*
216715 TATAATA-TATATAACTATG
1 TAT-ATACT-TATAA-TATA
*
216734 CACTATACTTATAAGTATA
1 TA-TATACTTATAA-TATA
*
216753 TATATACTTAT-ACATA
1 TATATACTTATAATATA
* *
216769 TGTATACTTATACCTATA
1 TATATACTTATA-ATATA
216787 TATATA
1 TATATA
216793 TAATATCACA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
16 13 0.22
17 1 0.02
18 22 0.37
19 22 0.37
20 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (17 bp):
TATATACTTATAATATA
Found at i:216781 original size:16 final size:16
Alignment explanation
Indices: 216750--216790 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
216740 ACTTATAAGT
216750 ATATATATACTTATAC
1 ATATATATACTTATAC
*
216766 ATATGTATACTTATAC
1 ATATATATACTTATAC
*
216782 CTATATATA
1 ATATATATA
216791 TATAATATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATATATACTTATAC
Found at i:216827 original size:2 final size:2
Alignment explanation
Indices: 216822--216934 Score: 88
Period size: 2 Copynumber: 56.0 Consensus size: 2
216812 ACATACATAC
* *
216822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
216864 AT AT AA AT AT AT AT A- AGT GT AT AGT AT A- AT AT AT AC A- AGT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT A-T
* * * *
216904 GT GT GGT GT 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
216935 CATTAAATAT
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
1 3 0.03
2 86 0.92
3 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (2 bp):
AT
Found at i:222876 original size:16 final size:16
Alignment explanation
Indices: 222857--222887 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
222847 GGTTGAGTAA
*
222857 ATTACAGATCAGGTTT
1 ATTACAAATCAGGTTT
222873 ATTACAAATCAGGTT
1 ATTACAAATCAGGTT
222888 AATAACAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (16 bp):
ATTACAAATCAGGTTT
Found at i:223518 original size:26 final size:26
Alignment explanation
Indices: 223464--223520 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
223454 TACAGGAAGA
223464 TAAAAATATATAATTAATAAAAATATT
1 TAAAAATATATAATT-ATAAAAATATT
223491 TAAAATATATCATAATT-TAAAAAT-TT
1 TAAAA-ATAT-ATAATTATAAAAATATT
223517 TAAA
1 TAAA
223521 GAGATAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 6 0.21
27 12 0.43
28 4 0.14
29 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TAAAAATATATAATTATAAAAATATT
Found at i:228761 original size:16 final size:17
Alignment explanation
Indices: 228729--228762 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
228719 TTCATTAGTT
*
228729 AATAATTTTTATCTAAA
1 AATAATTTTAATCTAAA
228746 AATAATTTTAAT-TAAA
1 AATAATTTTAATCTAAA
228762 A
1 A
228763 TTAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTTTAATCTAAA
Found at i:228777 original size:15 final size:16
Alignment explanation
Indices: 228759--228793 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
228749 AATTTTAATT
228759 AAAATTAAAATA-TTA
1 AAAATTAAAATATTTA
*
228774 AAAATTATAATATTTA
1 AAAATTAAAATATTTA
228790 AAAA
1 AAAA
228794 AATTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAAAATATTTA
Found at i:228808 original size:18 final size:18
Alignment explanation
Indices: 228759--228808 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
228749 AATTTTAATT
228759 AAAATTAAAATA-TT--A
1 AAAATTAAAATAGTTAAA
* *
228774 AAAATTATAATATTTAAA
1 AAAATTAAAATAGTTAAA
*
228792 AAAATTAAAATGGTTAA
1 AAAATTAAAATAGTTAA
228809 TCAAAGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
18 15 0.54
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (18 bp):
AAAATTAAAATAGTTAAA
Found at i:229643 original size:16 final size:16
Alignment explanation
Indices: 229610--229642 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
229600 TTATTAAGTT
*
229610 AATTTTATTGTTATAA
1 AATTATATTGTTATAA
229626 AATTATATT-TTATAA
1 AATTATATTGTTATAA
229641 AA
1 AA
229643 AATTGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATTATATTGTTATAA
Found at i:229778 original size:24 final size:24
Alignment explanation
Indices: 229751--229803 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
229741 AGTATATAAT
* *
229751 TAATAGTACACCATATTAAAACAA
1 TAATAATACACCACATTAAAACAA
* * *
229775 TAATAATACATCACATTGAAATAA
1 TAATAATACACCACATTAAAACAA
229799 TAATA
1 TAATA
229804 TTGTCAAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.13, G:0.04, T:0.28
Consensus pattern (24 bp):
TAATAATACACCACATTAAAACAA
Found at i:229978 original size:46 final size:45
Alignment explanation
Indices: 229874--229982 Score: 148
Period size: 46 Copynumber: 2.4 Consensus size: 45
229864 TAATACAAAG
* *
229874 ATATTGTCTAAGTCATAATTAGTACTACAACACATTAAACCGACA
1 ATATTGTCTAAGTCATAATTAGTACTACAACACATTAAAACGAAA
* *
229919 GTATTGT-TGAAGTCTATAATTAGTACTACAACACATTAAAACTAAA
1 ATATTGTCT-AAGTC-ATAATTAGTACTACAACACATTAAAACGAAA
*
229965 ATATTATCTAAGTCATAA
1 ATATTGTCTAAGTCATAA
229983 ATAATAGGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
44 1 0.02
45 15 0.27
46 38 0.69
47 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (45 bp):
ATATTGTCTAAGTCATAATTAGTACTACAACACATTAAAACGAAA
Found at i:230930 original size:29 final size:29
Alignment explanation
Indices: 230869--230932 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
230859 GAAGAGAGGG
*
230869 AAAA-AAAAGTTAGACATCAAACTGAAAC
1 AAAATAAAAGTTAGACACCAAACTGAAAC
* * * *
230897 GAAATAAACGTTAGGCACCAAACTGGAAC
1 AAAATAAAAGTTAGACACCAAACTGAAAC
230926 AAAATAA
1 AAAATAA
230933 TTTCTTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (29 bp):
AAAATAAAAGTTAGACACCAAACTGAAAC
Found at i:231075 original size:25 final size:25
Alignment explanation
Indices: 231047--231105 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
231037 TTTGAGTCAC
231047 GGAATGAAACGTTATGCACAAAATT
1 GGAATGAAACGTTATGCACAAAATT
* *
231072 GGAATGAAACGTTATGTACCAAATT
1 GGAATGAAACGTTATGCACAAAATT
231097 GGAATGAAA
1 GGAATGAAA
231106 TAAATGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (25 bp):
GGAATGAAACGTTATGCACAAAATT
Found at i:232354 original size:22 final size:22
Alignment explanation
Indices: 232329--232371 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
232319 CTTAAAATTA
232329 ATAATTTCAACATCCAACAAAT
1 ATAATTTCAACATCCAACAAAT
**
232351 ATAATTTCAATGTCCAACAAA
1 ATAATTTCAACATCCAACAAA
232372 CTTAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (22 bp):
ATAATTTCAACATCCAACAAAT
Found at i:232418 original size:34 final size:32
Alignment explanation
Indices: 232348--232418 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
232338 ACATCCAACA
**
232348 AATATAATTTCAATGTCCAACAAACTTAAAAC
1 AATATAATTTCAATGTCCAACAAACAAAAAAC
*
232380 AATATCAATTTCAATGTCTAACAAACAAAAAAAC
1 AATAT-AATTTCAATGTCCAACAAAC-AAAAAAC
232414 AATAT
1 AATAT
232419 TCAACATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 5 0.15
33 19 0.56
34 10 0.29
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.27
Consensus pattern (32 bp):
AATATAATTTCAATGTCCAACAAACAAAAAAC
Found at i:232637 original size:22 final size:21
Alignment explanation
Indices: 232612--232664 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
232602 CAAGGTCGTA
*
232612 ACAAGCGTAAACACTTGTTATC
1 ACAAGAGTAAA-ACTTGTTATC
*
232634 ACAAGAGT-AAATTTGTTATC
1 ACAAGAGTAAAACTTGTTATC
232654 ACAAGAGTAAA
1 ACAAGAGTAAA
232665 TTTGAAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.61
21 4 0.14
22 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (21 bp):
ACAAGAGTAAAACTTGTTATC
Found at i:232680 original size:23 final size:20
Alignment explanation
Indices: 232626--232668 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
232616 GCGTAAACAC
232626 TTGTTATCACAAGAGTAAAT
1 TTGTTATCACAAGAGTAAAT
232646 TTGTTATCACAAGAGTAAAT
1 TTGTTATCACAAGAGTAAAT
232666 TTG
1 TTG
232669 AAGTTATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (20 bp):
TTGTTATCACAAGAGTAAAT
Found at i:233369 original size:58 final size:57
Alignment explanation
Indices: 233293--233456 Score: 161
Period size: 60 Copynumber: 2.8 Consensus size: 57
233283 AGTGAATAAT
* *
233293 CATGAAAGTATGTTGTCTTCAATTTTTTAATT-AAGAAAATGATGCACAATGAAGACGC
1 CATGCAAGTAT-TCGTCTTCAATTTTTTAATTCAA-AAAATGATGCACAATGAAGACGC
* * * * * * *
233351 CATGCAAGTATCTCGTCTTTATTTTTTTAATTCAAAAAATATAGTGAACAGTGTAGACTC
1 CATGCAAGTAT-TCGTCTTCAATTTTTTAATTCAAAAAAT-GA-TGCACAATGAAGACGC
*
233411 CATGCAAG-ATTCCGTCTTCAATTTTTTTAATTCAAAATATGATGCA
1 CATGCAAGTATT-CGTCTTCAA-TTTTTTAATTCAAAAAATGATGCA
233457 TGAACAGAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
58 36 0.42
59 13 0.15
60 37 0.43
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (57 bp):
CATGCAAGTATTCGTCTTCAATTTTTTAATTCAAAAAATGATGCACAATGAAGACGC
Found at i:234382 original size:33 final size:33
Alignment explanation
Indices: 234344--234410 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
234334 CAAAGAATTT
* * *
234344 AACTAAAGACGCTGGGTAATCCTATGGAGCAAA
1 AACTAAAGACACCGGGTAATCCCATGGAGCAAA
234377 AACTAAAGACACCGGGTAATCCCATGGAGCAAA
1 AACTAAAGACACCGGGTAATCCCATGGAGCAAA
234410 A
1 A
234411 TTTTAGCCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (33 bp):
AACTAAAGACACCGGGTAATCCCATGGAGCAAA
Found at i:244370 original size:25 final size:25
Alignment explanation
Indices: 244327--244374 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
244317 AATACTTTAA
244327 GTCATTACACTTTAGGGGCATTTTG
1 GTCATTACACTTTAGGGGCATTTTG
244352 GTCATTTACACTTTA-GGGCATTT
1 GTCA-TTACACTTTAGGGGCATTT
244375 CTATAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (25 bp):
GTCATTACACTTTAGGGGCATTTTG
Found at i:246253 original size:90 final size:88
Alignment explanation
Indices: 246089--246262 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 88
246079 CCTAACACAC
*
246089 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTAAAATTAATTAAATCTATA
*
246154 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATT-GAAATTAATAAT
*
246178 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTAAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTAAAATTAATTAAATCTAT
246243 ATTTAATTAATTGAAATTAA
65 ATTTAATTAATTGAAATTAA
246263 ATATTCGAGA
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTAAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAATAAT
Found at i:252418 original size:23 final size:23
Alignment explanation
Indices: 252392--252459 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
252382 CCACAGCTCA
252392 TATAATTGCACCGAAGTGCCATG
1 TATAATTGCACCGAAGTGCCATG
* **
252415 TATAATTGCACCGGAGTGCCGCG
1 TATAATTGCACCGAAGTGCCATG
* *
252438 TAGAATTGCACCGTAGTGCCAT
1 TATAATTGCACCGAAGTGCCAT
252460 ATAATAATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCATG
Found at i:252645 original size:103 final size:103
Alignment explanation
Indices: 252474--252691 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
252464 TAATGTCCAT
* * *
252474 AAGGACCACATATCATTCCTTTAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
252539 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
252577 AAGGACCACATATCATTCCTTAAGAATCATATATATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
252642 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
252680 AATGACCACATA
1 AAGGACCACATA
252692 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:253515 original size:45 final size:45
Alignment explanation
Indices: 253444--253550 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
253434 ATGCACTACT
* * ** *
253444 GATGCATCGGTGCA-TAAAATGTATTCGATGTTTGTTTATTACTGG
1 GATGCATCGATGCACT-AAATGCATTCGATGTTTCCTTATTAATGG
*
253489 GATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGG
1 GATGCATCGATGCACTAAATGCATTCGATGTTTCCTTATTAATGG
253534 GATGCATCGATGCACTA
1 GATGCATCGATGCACTA
253551 CTTATGCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (45 bp):
GATGCATCGATGCACTAAATGCATTCGATGTTTCCTTATTAATGG
Found at i:253558 original size:64 final size:64
Alignment explanation
Indices: 253490--253627 Score: 181
Period size: 64 Copynumber: 2.2 Consensus size: 64
253480 TATTACTGGG
* * * * *
253490 ATGCATCGATGCACTAATTGCATTCGATGT-TTCCTTATT-AATGGGATGCATCGATGCACTACT
1 ATGCATCGATGCACAAATTGCATTCGATGTATTCATT-TTAAAAGAG-TGCATCGATGCACTACC
*
253553 T
64 A
*
253554 ATGCATCGATGCACAAATTGCATTCGATGTATTTATTTTAAAAGAGTGCATCGATGCACTACCA
1 ATGCATCGATGCACAAATTGCATTCGATGTATTCATTTTAAAAGAGTGCATCGATGCACTACCA
253618 ATGCATCGAT
1 ATGCATCGAT
253628 ACACCTTCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 57 0.88
65 8 0.12
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACAAATTGCATTCGATGTATTCATTTTAAAAGAGTGCATCGATGCACTACCA
Found at i:258180 original size:23 final size:23
Alignment explanation
Indices: 258154--258220 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
258144 CCACAACTCA
258154 TATAATTGCACCGAAGTGCCACG
1 TATAATTGCACCGAAGTGCCACG
* * *
258177 TATAATTACACCGGAGTGCCGCG
1 TATAATTGCACCGAAGTGCCACG
* *
258200 TAGAATTGCACCGTAGTGCCA
1 TATAATTGCACCGAAGTGCCA
258221 TATAATAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.22
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCACG
Found at i:258407 original size:103 final size:103
Alignment explanation
Indices: 258236--258453 Score: 375
Period size: 103 Copynumber: 2.1 Consensus size: 103
258226 TAATGTCTAT
* * *
258236 AAGGACCACATATCATTCATTTAAAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCACTTAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
258301 GACTTCACACATGTTCCAAATAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
258339 AAGGACCACATATCATTC-CTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCACTTAA-AATCATATACATATACCAAGGATCAAGTATGTGTCTCACC
258403 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
258442 AAGGACCACATA
1 AAGGACCACATA
258454 AACCCTCGAC
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 4 0.04
103 105 0.96
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCACTTAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:259299 original size:64 final size:64
Alignment explanation
Indices: 259191--259411 Score: 223
Period size: 64 Copynumber: 3.5 Consensus size: 64
259181 TAATGAAGGT
* * * * * * ** * *
259191 ATGCATCGATGCACTACTGATGCATTGGTGCATAAAATGTATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTTTCCTTATTAATAGG
* * *
259255 ATGCATCGATGCA-TGCCTTATGCATCGATTCACTAATTGCATTCGATGTTTCCTTATTAATAGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACAAATTGCATTCGATGTTTCCTTATTAATAGG
* ** *
259319 ATGCATCGATGCACTACTTATGCATTGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT-TTCCTTATTAATAGG
**
259382 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
259412 ACACCTTCAA
Statistics
Matches: 130, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 4 0.03
64 121 0.93
65 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTTTCCTTATTAATAGG
Found at i:260866 original size:21 final size:22
Alignment explanation
Indices: 260825--260868 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
260815 AATATAAGAG
* *
260825 GGGAATCGATTCCCCTGCTACA
1 GGGAATCGATTACCCTACTACA
260847 GGGAATCGA-TACCCTACTACA
1 GGGAATCGATTACCCTACTACA
260868 G
1 G
260869 TACTGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (22 bp):
GGGAATCGATTACCCTACTACA
Found at i:261373 original size:17 final size:17
Alignment explanation
Indices: 261316--261373 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
261306 ACACCTATAC
261316 TTTTATCA-TGAA-CATA
1 TTTTATCACT-AATCATA
*
261332 -TTTATCAGTAATCATA
1 TTTTATCACTAATCATA
261348 TTATTATCACTAATTCAT-
1 TT-TTATCACTAA-TCATA
261366 TTTTATCA
1 TTTTATCA
261374 TATAAGCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 9 0.25
16 5 0.14
17 7 0.19
18 11 0.31
19 4 0.11
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTTATCACTAATCATA
Found at i:266996 original size:425 final size:425
Alignment explanation
Indices: 266206--267050 Score: 1422
Period size: 425 Copynumber: 2.0 Consensus size: 425
266196 TTCTTAAACA
*
266206 AAAACCAATCCACTTAACTTAAAATCTAAAAGATCATGAATACGCACATCAATACAAACAATCAA
1 AAAACCAATCCACTTAACTTAAAATCTAAAAGATCATGAATACACACATCAATACAAACAATCAA
* *
266271 AAGTATGCACATGTTATTACGGTTTAAAGACGAATGCAAGCAAACAAGCACAACTAAGGGATCAA
66 AAGTATGCACATGTTATTACGGTTTAAAGACGAATGCAAGCAAACAAGCACAACCAAGGGAACAA
266336 AAATTAAATTAAGTTAAATCCATAAATTCCAATGCAAAGATAATAATTAATCAACTAACGACTTG
131 AAATTAAATTAAGTTAAATCCATAAATTCCAATGCAAAGATAATAATTAATCAACTAACGACTTG
* * *
266401 GCTCTCTAATGTCCCTAGCATAGTCGCCAAGTTATCGCAACGTCTCAAAAATCGAGAAATTAATT
196 GCTCTCTAATGTCCCTAGCAGAGTCACCAAGTTATCGCAACGTCCCAAAAATCGAGAAATTAATT
*
266466 TTAGGGGTTCGTTTCAACTAAAATTAGGTTTTAAAATAAAAATATGGTTCGGAAGAGTCACCACC
261 TTAGGGGTTCGTTTCAACTAAAATTAGGGTTTAAAATAAAAATATGGTTCGGAAGAGTCACCACC
* * * *
266531 ACTCTTTGTTTAGGGTGTGATTGGATCACCCAAAAATGTTGTCATTTTAATTAAATTAAATTTTA
326 AATATTTGTTTAGGGTGTAATTGGATCACCAAAAAATGTTGTCATTTTAATTAAATTAAATTTTA
* * *
266596 AAATTTATTAAAATAATGTTTTGGTTTACTAATCC
391 AAAATGATTAAAATAATGTTTTGGCTTACTAATCC
* * * *
266631 AAAACCAATCCACTTAACTTAAAATCTGAAAGATCATGAATACACACATCAGTACGAACAATCAC
1 AAAACCAATCCACTTAACTTAAAATCTAAAAGATCATGAATACACACATCAATACAAACAATCAA
* *
266696 AAGTATGCATATGTTATTGCGGTTTAAAGACGAATGCAAGCAAACAAGCACAACCAAGGGAACAA
66 AAGTATGCACATGTTATTACGGTTTAAAGACGAATGCAAGCAAACAAGCACAACCAAGGGAACAA
266761 AAATTAAATTAAGTTAAATCCATAAATTCCAATGCAAAGATAATAATTAATCAACTAACGACTTG
131 AAATTAAATTAAGTTAAATCCATAAATTCCAATGCAAAGATAATAATTAATCAACTAACGACTTG
* * *
266826 GCTCTCTAATGTTCCTAGCAGAGTCATCAAGTTATCGCAACGTCCCGAAAATCGAGAAATTAATT
196 GCTCTCTAATGTCCCTAGCAGAGTCACCAAGTTATCGCAACGTCCCAAAAATCGAGAAATTAATT
* * * * *
266891 TTAGGGGTTCGTTTCGACTAAAATTGGGGTTTAAAATAAAACTGTGGTTC-GAGAGAGTCACCGC
261 TTAGGGGTTCGTTTCAACTAAAATTAGGGTTTAAAATAAAAATATGGTTCGGA-AGAGTCACCAC
266955 CAATATTTGTTTAGGGTGTAATTGGATCACCAAAAAATGTTGTCATTTTAATTAAATTAAATTTT
325 CAATATTTGTTTAGGGTGTAATTGGATCACCAAAAAATGTTGTCATTTTAATTAAATTAAATTTT
267020 AAAAATGATTAAAATAATGTTTTGGCTTACT
390 AAAAATGATTAAAATAATGTTTTGGCTTACT
267051 TTTCCAGAAA
Statistics
Matches: 391, Mismatches: 28, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
424 2 0.01
425 389 0.99
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (425 bp):
AAAACCAATCCACTTAACTTAAAATCTAAAAGATCATGAATACACACATCAATACAAACAATCAA
AAGTATGCACATGTTATTACGGTTTAAAGACGAATGCAAGCAAACAAGCACAACCAAGGGAACAA
AAATTAAATTAAGTTAAATCCATAAATTCCAATGCAAAGATAATAATTAATCAACTAACGACTTG
GCTCTCTAATGTCCCTAGCAGAGTCACCAAGTTATCGCAACGTCCCAAAAATCGAGAAATTAATT
TTAGGGGTTCGTTTCAACTAAAATTAGGGTTTAAAATAAAAATATGGTTCGGAAGAGTCACCACC
AATATTTGTTTAGGGTGTAATTGGATCACCAAAAAATGTTGTCATTTTAATTAAATTAAATTTTA
AAAATGATTAAAATAATGTTTTGGCTTACTAATCC
Found at i:273635 original size:26 final size:26
Alignment explanation
Indices: 273605--273657 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
273595 CGTACTTCCG
273605 TTGCATGATGACTTTTAATGGCAGGT
1 TTGCATGATGACTTTTAATGGCAGGT
273631 TTGCATGATGACTTTTAATGGCAGGT
1 TTGCATGATGACTTTTAATGGCAGGT
273657 T
1 T
273658 ACGGGTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (26 bp):
TTGCATGATGACTTTTAATGGCAGGT
Found at i:280076 original size:227 final size:226
Alignment explanation
Indices: 279677--280123 Score: 790
Period size: 227 Copynumber: 2.0 Consensus size: 226
279667 GTAAATTATC
* * *
279677 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
279742 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
279807 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
279871 AAACATAAATTACATAACTTTCAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAGTATA
*
279903 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
279968 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
280032 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
280097 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
280124 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
226 40 0.19
227 144 0.68
228 27 0.13
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAGTATA
Found at i:280211 original size:20 final size:19
Alignment explanation
Indices: 280188--280233 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
280178 CGATATACCA
280188 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
280208 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
280228 GGTAAA
1 GGTAAA
280234 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:280378 original size:20 final size:19
Alignment explanation
Indices: 280355--280401 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
280345 CGATATAACA
*
280355 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
280375 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
280395 GGTAAAA
1 GGTAAAA
280402 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:284588 original size:19 final size:19
Alignment explanation
Indices: 284564--284612 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
284554 AATGTCGAGT
284564 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
284583 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
284602 TATTTTTGTAT
1 TAATTTTGTAT
284613 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:285427 original size:199 final size:199
Alignment explanation
Indices: 284947--286080 Score: 2110
Period size: 199 Copynumber: 5.7 Consensus size: 199
284937 GTGCACCCAT
* *
284947 AAAGTGTCGATCCCACAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285012 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
* * *
285077 GTGTCGATATTTTTTTTTCCAGAATGAAT-TAAAACAAGGTGCACCCATAAAGTGTCGATCCATA
131 GTGTCGATA-TTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATA
285141 TATAAA
195 TAT-AA
*
285147 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
285212 CGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
* * **
285277 GTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
285342 ATAA
196 ATAA
285346 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285411 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
285476 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
285541 ATAA
196 ATAA
285545 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
285610 TGGTACAATTATACCGG-TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
*
285674 GTGTCGATATTTTTTTCCCAGAATTTATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
285739 ATAA
196 ATAA
*
285743 AAAGTGTCGATCCCAAAATCATCGAACCAAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285808 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
285873 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
285938 ATAA
196 ATAA
285942 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
286007 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
286072 GTGTCGATA
131 GTGTCGATA
286081 CTAATTTAAA
Statistics
Matches: 917, Mismatches: 15, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
198 195 0.21
199 548 0.60
200 174 0.19
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (199 bp):
AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
ATAA
Found at i:285797 original size:397 final size:398
Alignment explanation
Indices: 284947--286080 Score: 2110
Period size: 397 Copynumber: 2.8 Consensus size: 398
284937 GTGCACCCAT
* *
284947 AAAGTGTCGATCCCACAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285012 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
* * *
285077 GTGTCGATATTTTTTTTTCCAGAATGAAT-TAAAACAAGGTGCACCCATAAAGTGTCGATCCATA
131 GTGTCGATA-TTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATA
*
285141 TATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAA
195 TAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAA
*
285206 TCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATA
259 TCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATA
* *
285271 TAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGAT
324 TAGTTTGTGTCGATATTTTTTTCCCAGAATGAATGAAAAACAAGGTGCACCCATAAAGTGTCGAT
285336 CCATATATAA
389 CCATATATAA
285346 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285411 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
285476 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
285541 ATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATC
196 ATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATC
*
285606 TAACTGGTACAATTATACCGG-TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATA
261 TAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATA
** *
285670 GTTTGTGTCGATATTTTTTTCCCAGAATTTATGGAAAACAAGGTGCACCCATAAAGTGTCGATCC
326 GTTTGTGTCGATATTTTTTTCCCAGAATGAATGAAAAACAAGGTGCACCCATAAAGTGTCGATCC
285735 ATATATAA
391 ATATATAA
*
285743 AAAGTGTCGATCCCAAAATCATCGAACCAAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285808 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
285873 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
285938 ATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATC
196 ATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATC
286003 TAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATA
261 TAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATA
286068 GTTTGTGTCGATA
326 GTTTGTGTCGATA
286081 CTAATTTAAA
Statistics
Matches: 718, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
397 389 0.54
398 155 0.22
399 174 0.24
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (398 bp):
AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
GTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
ATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATC
TAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATA
GTTTGTGTCGATATTTTTTTCCCAGAATGAATGAAAAACAAGGTGCACCCATAAAGTGTCGATCC
ATATATAA
Found at i:286011 original size:596 final size:598
Alignment explanation
Indices: 284947--286080 Score: 2112
Period size: 596 Copynumber: 1.9 Consensus size: 598
284937 GTGCACCCAT
* *
284947 AAAGTGTCGATCCCACAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
285012 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
* *
285077 GTGTCGATATTTTTTTTTCCAGAATGAATTAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTTCCCAGAATGAATGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
* *
285142 ATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAAT
196 ATAAAAAAGTGTCGATCCCAAAATCATCGAACCAAAAAGTATAATGTAATATGTAATTTTTCAAT
285207 CTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAT
261 CTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAT
* *
285272 AGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATC
326 AGTTTGTGTCGATATTTTTTTCCCAGAATGAATGAAAAACAAGGTGCACCCATAAAGTGTCGATC
285337 CATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTT
391 CATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTT
285402 CAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTA
456 CAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTA
285467 ATATAGTTTGTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTC
521 ATATAGTTTGTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTC
285532 GATCCATATATAA
586 GATCCATATATAA
285545 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
285610 TGGTACAATTATACCGG-TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
**
285674 GTGTCGATA-TTTTTTTCCCAGAATTTATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATA
131 GTGTCGATATTTTTTTTCCCAGAATGAAT-GAAAACAAGGTGCACCCATAAAGTGTCGATCCATA
285738 TAT-AAAAAGTGTCGATCCCAAAATCATCGAACCAAAAAGTATAATGTAATATGTAATTTTTCAA
195 TATAAAAAAGTGTCGATCCCAAAATCATCGAACCAAAAAGTATAATGTAATATGTAATTTTTCAA
*
285802 TCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATA
260 TCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATA
* *
285867 TAGTTTGTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTCGAT
325 TAGTTTGTGTCGATATTTTTTTCCCAGAATGAATGAAAAACAAGGTGCACCCATAAAGTGTCGAT
285932 CCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTT
390 CCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTT
285997 TCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
455 TCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT
286062 AATATAGTTTGTGTCGATA
520 AATATAGTTTGTGTCGATA
286081 CTAATTTAAA
Statistics
Matches: 521, Mismatches: 14, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
596 349 0.67
597 93 0.18
598 79 0.15
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (598 bp):
AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
GTGTCGATATTTTTTTTCCCAGAATGAATGAAAACAAGGTGCACCCATAAAGTGTCGATCCATAT
ATAAAAAAGTGTCGATCCCAAAATCATCGAACCAAAAAGTATAATGTAATATGTAATTTTTCAAT
CTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAATAT
AGTTTGTGTCGATATTTTTTTCCCAGAATGAATGAAAAACAAGGTGCACCCATAAAGTGTCGATC
CATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTT
CAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTA
ATATAGTTTGTGTCGATATTTTTTTCCCAGAATTAATGGAAAACAAGGTGCACCCATAAAGTGTC
GATCCATATATAA
Found at i:287557 original size:18 final size:18
Alignment explanation
Indices: 287536--287603 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
287526 AGCGGTCGCA
287536 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
287554 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
287575 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
287596 GAAGATGA
1 GAAGATGA
287604 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:287560 original size:6 final size:6
Alignment explanation
Indices: 287536--287633 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
287526 AGCGGTCGCA
* * * * * *
287536 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
287584 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
287632 GA
1 GA
287634 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:287571 original size:3 final size:3
Alignment explanation
Indices: 287551--287637 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
287541 TGAAGCTGAC
* * * * * ** *
287551 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
287599 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
287638 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:287586 original size:42 final size:42
Alignment explanation
Indices: 287539--287629 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
287529 GGTCGCAGAA
*
287539 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
287581 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
287623 GATGAAG
1 GATGAAG
287630 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:287637 original size:18 final size:18
Alignment explanation
Indices: 287536--287633 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
287526 AGCGGTCGCA
* *
287536 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
287554 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
287572 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
287590 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
287608 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
287626 GAAGATGA
1 GAAGATGA
287634 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:289417 original size:184 final size:184
Alignment explanation
Indices: 289108--289443 Score: 573
Period size: 184 Copynumber: 1.8 Consensus size: 184
289098 CTTTCAACAT
* *
289108 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* *
289173 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
289238 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * * *
289292 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
289357 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
289422 AATGTGTCGATACCATTTAAAA
131 AATGTGTCGATACCATTTAAAA
289444 GTGTCGGTAA
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 141 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:292057 original size:23 final size:23
Alignment explanation
Indices: 292026--292089 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
292016 ATAGGTAAAC
*
292026 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
292049 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
292072 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
292090 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:292096 original size:23 final size:23
Alignment explanation
Indices: 292026--292098 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
292016 ATAGGTAAAC
* **
292026 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
292049 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
292072 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
292095 ATAT
1 ATAT
292099 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:292486 original size:23 final size:23
Alignment explanation
Indices: 292455--292518 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
292445 ATAGGTAAAC
*
292455 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
292478 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
292501 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
292519 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:292525 original size:23 final size:23
Alignment explanation
Indices: 292455--292527 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
292445 ATAGGTAAAC
* **
292455 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
292478 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
292501 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
292524 ATAT
1 ATAT
292528 TATAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:292552 original size:20 final size:21
Alignment explanation
Indices: 292527--292569 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
292517 AGTGGTTATA
* *
292527 TTAT-AAAGTGTCTATCCTTT
1 TTATAAAAGTGTCCATACTTT
292547 TTATAAAAGTGTCCATACTTT
1 TTATAAAAGTGTCCATACTTT
292568 TT
1 TT
292570 TCACTGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (21 bp):
TTATAAAAGTGTCCATACTTT
Found at i:292845 original size:431 final size:431
Alignment explanation
Indices: 291927--294485 Score: 5011
Period size: 431 Copynumber: 5.9 Consensus size: 431
291917 AATTCGCAGT
*
291927 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
291992 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
292057 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
292122 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
292186 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
292251 ATTAAATT-AAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
292315 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
292356 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
292421 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
292486 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTATAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
292551 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
292616 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
292681 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
292746 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
292787 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
292852 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
292917 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
292981 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
293045 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
293110 ATTAAATTAAAAATTCTAAATAATATTTTAT-AAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
293174 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
293215 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
293280 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
293345 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
293410 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
293475 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
293540 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
293605 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
293646 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
293711 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
293776 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
293841 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
293906 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
293971 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
294036 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
294077 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
294142 AAAAGTATGAACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
294207 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
294272 AAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
* *
294337 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
* *
294402 ATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
294467 AATGAAATTATTAAATCAA
391 AATGAAATTATTAAATCAA
294486 ATAATTCAAA
Statistics
Matches: 2116, Mismatches: 9, Indels: 8
0.99 0.00 0.00
Matches are distributed among these distances:
428 262 0.12
429 373 0.18
430 289 0.14
431 1192 0.56
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:292917 original size:23 final size:23
Alignment explanation
Indices: 292886--292949 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
292876 ATAGGTAAAC
*
292886 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
292909 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
292932 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
292950 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:292956 original size:23 final size:23
Alignment explanation
Indices: 292886--292958 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
292876 ATAGGTAAAC
* **
292886 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
292909 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
292932 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
292955 ATAT
1 ATAT
292959 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:293345 original size:23 final size:23
Alignment explanation
Indices: 293314--293377 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
293304 ATAGGTAAAC
*
293314 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
293337 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
293360 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
293378 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:293384 original size:23 final size:23
Alignment explanation
Indices: 293314--293386 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
293304 ATAGGTAAAC
* **
293314 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
293337 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
293360 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
293383 ATAT
1 ATAT
293387 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:293776 original size:23 final size:23
Alignment explanation
Indices: 293745--293808 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
293735 ATAGGTAAAC
*
293745 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
293768 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
293791 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
293809 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:293815 original size:23 final size:23
Alignment explanation
Indices: 293745--293817 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
293735 ATAGGTAAAC
* **
293745 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
293768 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
293791 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
293814 ATAT
1 ATAT
293818 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:294158 original size:22 final size:22
Alignment explanation
Indices: 294113--294158 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
294103 ATTACATAAG
*
294113 TTTTAAAAAAAGTATCGATCCT
1 TTTTAAAAAAAGTATCGAACCT
*
294135 TTTTATAAAAAGTAT-GAACACT
1 TTTTAAAAAAAGTATCGAAC-CT
294157 TT
1 TT
294159 CAATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (22 bp):
TTTTAAAAAAAGTATCGAACCT
Found at i:294207 original size:23 final size:23
Alignment explanation
Indices: 294176--294239 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
294166 ATAGGTAAAC
*
294176 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
294199 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
294222 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
294240 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:294246 original size:23 final size:23
Alignment explanation
Indices: 294176--294248 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
294166 ATAGGTAAAC
* **
294176 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
294199 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
294222 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
294245 ATAT
1 ATAT
294249 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:294337 original size:862 final size:861
Alignment explanation
Indices: 291927--294485 Score: 5016
Period size: 859 Copynumber: 3.0 Consensus size: 861
291917 AATTCGCAGT
*
291927 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
291992 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
292057 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
292122 AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
292187 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
292252 TTAAATT-AAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
292316 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
292381 AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
456 AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
292446 TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
521 TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
292511 ATAGGTAGTGGTTATATTATAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
586 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
292576 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
651 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
292641 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
716 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
292706 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
781 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
292771 AGGTGGAAAACATGAA
846 AGGTGGAAAACATGAA
292787 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
292852 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
292917 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
292981 AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
293046 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
293111 TTAAATTAAAAATTCTAAATAATATTTTAT-AAATATAAAAACAATCAAATAATTTTTTGTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
293175 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
293240 AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
456 AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
293305 TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
521 TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
293370 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
586 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
293435 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
651 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
293500 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
716 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
293565 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
781 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
293630 AGGTGGAAAACATGAA
846 AGGTGGAAAACATGAA
293646 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
293711 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
293776 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
293841 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
293906 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
293971 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
294036 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
*
294101 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATA
455 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
294166 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
520 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
*
294231 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACT
585 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
294296 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
650 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
* * *
294361 GCGTATAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATT
715 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
*
294426 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAA
780 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAA
294486 ATAATTCAAA
Statistics
Matches: 1687, Mismatches: 8, Indels: 6
0.99 0.00 0.00
Matches are distributed among these distances:
859 835 0.49
860 229 0.14
861 146 0.09
862 477 0.28
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (861 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
AGGTGGAAAACATGAA
Found at i:294551 original size:25 final size:25
Alignment explanation
Indices: 294517--294567 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
294507 ACAACAAATC
*
294517 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
294542 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
294567 A
1 A
294568 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:294837 original size:18 final size:18
Alignment explanation
Indices: 294816--294852 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
294806 GTAATTGGAG
294816 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
294834 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
294852 T
1 T
294853 ATATTTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:295153 original size:39 final size:39
Alignment explanation
Indices: 295110--295196 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
295100 TCCGATGCTC
*
295110 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
295149 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
295188 ATCAAAATC
1 ATCAAAATC
295197 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:295628 original size:23 final size:23
Alignment explanation
Indices: 295597--295660 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
295587 ATAGGTAAAC
*
295597 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
295620 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
295643 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
295661 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:295667 original size:23 final size:23
Alignment explanation
Indices: 295597--295669 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
295587 ATAGGTAAAC
* **
295597 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
295620 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
295643 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
295666 ATAT
1 ATAT
295670 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:297211 original size:64 final size:64
Alignment explanation
Indices: 297095--297251 Score: 160
Period size: 64 Copynumber: 2.4 Consensus size: 64
297085 TTGAAGGTGT
** * *
297095 ATCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAAAATAGAAACACCGAATGCA-ATTAGTG
1 ATCGATGCATAAGT-ATGCATCGATGCATCTCCTATAAAATAGAAACACCGAATGCATATTA-TG
297158 C
64 C
* * *
297159 ATCGATGCATAAGTCATGCATCGATGCATC-CCTATAATAATA-CAACATCGAATGCATTTTATG
1 ATCGATGCATAAGT-ATGCATCGATGCATCTCCTATAA-AATAGAAACACCGAATGCATATTATG
297222 C
64 C
* *
297223 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTA-TGCATCGATGCAT
297252 ACCTTCATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 70 0.89
65 8 0.10
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTATGCATCGATGCATCTCCTATAAAATAGAAACACCGAATGCATATTATGC
Found at i:297601 original size:18 final size:18
Alignment explanation
Indices: 297564--297601 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
297554 TGAAAATGGG
* *
297564 TGCATATGTTATATGTAT
1 TGCATATGTTACATGAAT
297582 TGCATATGTTACATGAAT
1 TGCATATGTTACATGAAT
297600 TG
1 TG
297602 AATGAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (18 bp):
TGCATATGTTACATGAAT
Found at i:298786 original size:18 final size:18
Alignment explanation
Indices: 298759--298814 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 18
298749 TTAAGGAGTA
298759 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
*
298777 GTCCTACGGGACATATACAGTG
1 GTCCTTCGGGAC--AT--AGTG
298799 GTCCTTCGGGACATAG
1 GTCCTTCGGGACATAG
298815 GACGAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 13 0.41
20 4 0.12
22 15 0.47
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTG
Found at i:302163 original size:64 final size:64
Alignment explanation
Indices: 302052--302208 Score: 160
Period size: 64 Copynumber: 2.4 Consensus size: 64
302042 TTGAAGGTGT
** * *
302052 ATCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAAAATAGAAACATCAAATGCA-ATTAGTG
1 ATCGATGCATAAGT-ATGCATCGATGCATCTCCTATAAAATAGAAACATCAAATGCATATTA-TG
302115 C
64 C
* * *
302116 ATCGATGCATAAGTCATGCATCGATGCATC-CCTATAATAATA-CAACATCGAATGCATTTTATG
1 ATCGATGCATAAGT-ATGCATCGATGCATCTCCTATAA-AATAGAAACATCAAATGCATATTATG
302179 C
64 C
* *
302180 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTA-TGCATCGATGCAT
302209 ACCTTCATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 70 0.89
65 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTATGCATCGATGCATCTCCTATAAAATAGAAACATCAAATGCATATTATGC
Found at i:302561 original size:18 final size:18
Alignment explanation
Indices: 302526--302561 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
302516 AAAATGGGTA
* *
302526 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
302544 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
302562 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:303760 original size:22 final size:18
Alignment explanation
Indices: 303718--303787 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
303708 TTAAGGAGTA
*
303718 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
303736 GTCCTACGGGACATATACAGTG
1 GTCCTACGGGAC--AT--AGTG
**
303758 GTCCTTTGGGACATAGTG
1 GTCCTACGGGACATAGTG
303776 GTCCTACGGGAC
1 GTCCTACGGGAC
303788 GAATACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 25 0.58
20 4 0.09
22 14 0.33
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
GTCCTACGGGACATAGTG
Found at i:307046 original size:21 final size:21
Alignment explanation
Indices: 307022--307061 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
307012 TTTATTTTAT
307022 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
307043 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
307062 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:307109 original size:33 final size:33
Alignment explanation
Indices: 307056--307154 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
307046 TTTGTTTCAA
307056 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
307088 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
307121 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
307154 T
1 T
307155 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:307183 original size:13 final size:13
Alignment explanation
Indices: 307140--307194 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
307130 TTGGAAGTAT
307140 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
307153 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
307167 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
307180 TTAAGTATTTGAA
1 TTAAGTATTTCAA
307193 TT
1 TT
307195 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:307416 original size:21 final size:21
Alignment explanation
Indices: 307390--307446 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
307380 TGGAGCGTGG
*
307390 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
307411 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
307432 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
307447 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:310223 original size:21 final size:22
Alignment explanation
Indices: 310198--310249 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
310188 ACACTTTACA
*
310198 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
310221 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
310244 ATATAA
1 ATATAA
310250 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:310234 original size:23 final size:23
Alignment explanation
Indices: 310208--310270 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
310198 ATATAACCAC
310208 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
310231 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
310254 TACCTATTACATCATAT
1 TACCTATTACATTATAT
310271 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:310725 original size:39 final size:39
Alignment explanation
Indices: 310671--310753 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
310661 TCAAGTTGTA
*
310671 GATTTTGATTTCCTTTTGCTTGGCATCATATGAAATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAAATTTG
**
310710 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAAATTTG
310749 GATTT
1 GATTT
310754 GATGAGCATC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAAATTTG
Found at i:311034 original size:18 final size:18
Alignment explanation
Indices: 311011--311047 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
311001 GCCGAAATAT
311011 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
311029 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
311047 A
1 A
311048 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:311322 original size:25 final size:25
Alignment explanation
Indices: 311294--311344 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
311284 TTAATCCAAA
*
311294 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
311319 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
311344 T
1 T
311345 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:311638 original size:21 final size:22
Alignment explanation
Indices: 311613--311664 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
311603 ACACTTTACA
*
311613 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
311636 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
311659 ATATAA
1 ATATAA
311665 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:311649 original size:23 final size:23
Alignment explanation
Indices: 311623--311685 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
311613 ATATAACCAC
311623 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
311646 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
311669 TACCTATTACATCATAT
1 TACCTATTACATTATAT
311686 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:312584 original size:18 final size:20
Alignment explanation
Indices: 312561--312598 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
312551 TCGATGTGTA
312561 AAATG-TCGACAC-TTTTTT
1 AAATGATCGACACATTTTTT
312579 AAATGTATCGACACATTTTT
1 AAATG-ATCGACACATTTTT
312599 CTTCCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AAATGATCGACACATTTTTT
Found at i:314195 original size:3 final size:3
Alignment explanation
Indices: 314187--314270 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
314177 ACTTGTTTGG
* * * ** *
314187 ATC ATC ATC TTC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
314235 TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
314271 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Done.