Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006673.1 Hibiscus syriacus cultivar Beakdansim tig00016535_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: 62634
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Found at i:15 original size:2 final size:2
Alignment explanation
Indices: 9--35 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1 TGTGTAAA
9 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36 ATAATAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:173 original size:41 final size:42
Alignment explanation
Indices: 88--173 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 42
78 AAAAGAAAAT
*
88 AAATATAATATAATGATAATACAAATATAGAAATTAATAGAA
1 AAATATAATATAATGATAATACAAATATAGAAATTAAAAGAA
* * * *
130 AAATATATGTATAAT-ATTATA-AAATATAGAACTTAAAATAA
1 AAATATA-ATATAATGATAATACAAATATAGAAATTAAAAGAA
171 AAA
1 AAA
174 AAACCAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 20 0.53
42 12 0.32
43 6 0.16
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (42 bp):
AAATATAATATAATGATAATACAAATATAGAAATTAAAAGAA
Found at i:175 original size:43 final size:44
Alignment explanation
Indices: 78--175 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 44
68 TATCAATAAA
*
78 AAAAGAAAATAAATATAATATAATGATAATACAAATATAGAAATT
1 AAAATAAAA-AAATATAATATAATGATAATACAAATATAGAAATT
* * * *
123 --AATAGAAAAATATATGTATAAT-ATTATA-AAATATAGAACTT
1 AAAATAAAAAAATATA-ATATAATGATAATACAAATATAGAAATT
164 AAAATAAAAAAA
1 AAAATAAAAAAA
176 ACCAAATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
41 12 0.27
42 12 0.27
43 20 0.45
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (44 bp):
AAAATAAAAAAATATAATATAATGATAATACAAATATAGAAATT
Found at i:233 original size:2 final size:2
Alignment explanation
Indices: 226--255 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
216 TAAAAAGAAC
226 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
256 ACAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:291 original size:12 final size:13
Alignment explanation
Indices: 274--303 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
264 AATAATATAA
274 AATAATACAAG-T
1 AATAATACAAGAT
286 AATAATACAAGAT
1 AATAATACAAGAT
299 AATAA
1 AATAA
304 AAGAAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (13 bp):
AATAATACAAGAT
Found at i:366 original size:23 final size:22
Alignment explanation
Indices: 319--422 Score: 56
Period size: 22 Copynumber: 4.7 Consensus size: 22
309 AGAGAAAGTA
*
319 AAAATATAATAATAATAAATTAT
1 AAAATATAATAATAAT-AATAAT
342 AAAATATACATATATAAT-ATAAT
1 AAAATATA-ATA-ATAATAATAAT
* * *
365 -AAGTAGAATAA-AAGGAA-AAT
1 AAAATATAATAATAA-TAATAAT
*
385 ATAATAGTAA-AATAATAATAAT
1 AAAATA-TAATAATAATAATAAT
* *
407 ATAACAGTAATAATAA
1 AAAATA-TAATAATAA
423 AATGCAAAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
19 2 0.03
20 4 0.06
21 11 0.17
22 21 0.33
23 17 0.27
24 3 0.05
25 5 0.08
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AAAATATAATAATAATAATAAT
Found at i:396 original size:13 final size:13
Alignment explanation
Indices: 341--404 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
331 TAATAAATTA
341 TAAAATATACATA-
1 TAAAATATA-ATAG
*
354 TATAATATAATAAG
1 TAAAATATAAT-AG
*
368 TAGAATA-AA-AG
1 TAAAATATAATAG
*
379 GAAAATATAATAG
1 TAAAATATAATAG
392 TAAAATAATAATA
1 TAAAAT-ATAATA
405 ATATAACAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 7 0.17
12 4 0.10
13 18 0.44
14 12 0.29
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (13 bp):
TAAAATATAATAG
Found at i:1198 original size:20 final size:21
Alignment explanation
Indices: 1173--1231 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
1163 GCCTGCTGGA
1173 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
1193 AACCGGTTCTAACCGG-TTTC
1 AACCGGTTCTAACCGGTTTTC
* *
1213 GACCGGTTCAAACCGGTTT
1 AACCGGTTCTAACCGGTTT
1232 GACCGGTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:1236 original size:29 final size:29
Alignment explanation
Indices: 1193--1266 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
1183 ACCGGTTTTC
* *
1193 AACCGGTTCTAACCGGTTTCGACCGGTTCA
1 AACCGGTT-TGACCGGTTTCGACCGATTCA
*
1223 AACCGGTTTGACCGGTTTCGACCGATTCG
1 AACCGGTTTGACCGGTTTCGACCGATTCA
1252 AACCGG-TTGACCGGT
1 AACCGGTTTGACCGGT
1267 CTGACCCAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.22
29 24 0.59
30 8 0.20
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (29 bp):
AACCGGTTTGACCGGTTTCGACCGATTCA
Found at i:1237 original size:19 final size:20
Alignment explanation
Indices: 1182--1239 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1172 AAACCGGTTT
* *
1182 AACCGGTTTTCAACCGGTTCT
1 AACCGG-TTTCGACCGGTTCA
1203 AACCGGTTTCGACCGGTTCA
1 AACCGGTTTCGACCGGTTCA
1223 AACCGGTTT-GACCGGTT
1 AACCGGTTTCGACCGGTT
1240 TCGACCGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.23
20 21 0.60
21 6 0.17
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (20 bp):
AACCGGTTTCGACCGGTTCA
Found at i:1245 original size:10 final size:10
Alignment explanation
Indices: 1173--1259 Score: 67
Period size: 10 Copynumber: 8.8 Consensus size: 10
1163 GCCTGCTGGA
1173 AACCGGTTT-
1 AACCGGTTTC
1182 AACCGGTTTTC
1 AACCGG-TTTC
1193 AACCGG-TTC
1 AACCGGTTTC
1202 TAACCGGTTTC
1 -AACCGGTTTC
*
1213 GACCGG-TTC
1 AACCGGTTTC
1222 AAACCGGTTT-
1 -AACCGGTTTC
*
1232 GACCGGTTTC
1 AACCGGTTTC
* *
1242 GACC-GATTC
1 AACCGGTTTC
1251 GAACCGGTT
1 -AACCGGTT
1260 GACCGGTCTG
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
9 24 0.38
10 26 0.41
11 13 0.21
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.29
Consensus pattern (10 bp):
AACCGGTTTC
Found at i:7816 original size:306 final size:306
Alignment explanation
Indices: 7263--7883 Score: 1208
Period size: 306 Copynumber: 2.0 Consensus size: 306
7253 GAGGACACAG
7263 TCAGATTAATCCGTGACCGTCTGAAGGAGGCATTTAATAGGTAGAAATCTTATGCAGATCAAAGG
1 TCAGATTAATCCGTGACCGTCTGAAGGAGGCATTTAATAGGTAGAAATCTTATGCAGATCAAAGG
7328 AGGAAGGATATACAGTTTGAGGTTGGAGATCAGGTCTTTTGAAAGTTTCACCCTGGAAGAAAGTA
66 AGGAAGGATATACAGTTTGAGGTTGGAGATCAGGTCTTTTGAAAGTTTCACCCTGGAAGAAAGTA
7393 TTGAGATTCGGGCGTAAGGGTAAATTGAGTCCAAGATTTATTGGACCATTTCGTATCTTGAAGAG
131 TTGAGATTCGGGCGTAAGGGTAAATTGAGTCCAAGATTTATTGGACCATTTCGTATCTTGAAGAG
*
7458 GGTAGGACCTGTTGCATATAAGCTTGAGTTGCCTTCTGAGCTAATTCGTATTCATGATGTCTTTC
196 GGTAGGACCTGTTGCATATAAGATTGAGTTGCCTTCTGAGCTAATTCGTATTCATGATGTCTTTC
7523 ATGTATCAATGTTGAGGAGATACCATCCAGATCCAGGTCACATTAT
261 ATGTATCAATGTTGAGGAGATACCATCCAGATCCAGGTCACATTAT
7569 TCAGATTAATCCGTGACCGTCTGAAGGAGGCATTTAATAGGTAGAAA-CTTATGCAGATCAAAGG
1 TCAGATTAATCCGTGACCGTCTGAAGGAGGCATTTAATAGGTAGAAATCTTATGCAGATCAAAGG
7633 AGGAAGGATATACAGTTTGAGGTTGGAGATCAGGTCTTTTTGAAAGTTTCACCCTGGAAGAAAGT
66 AGGAAGGATATACAGTTTGAGGTTGGAGATCAGGTC-TTTTGAAAGTTTCACCCTGGAAGAAAGT
7698 ATTGAGATTCGGGCGTAAGGGTAAATTGAGTCCAAGATTTATTGGACCATTTCGTATCTTGAAGA
130 ATTGAGATTCGGGCGTAAGGGTAAATTGAGTCCAAGATTTATTGGACCATTTCGTATCTTGAAGA
7763 GGGTAGGACCTGTTGCATATAAGATTGAGTTGCCTTCTGAGCTAATTCGTATTCATGATGTCTTT
195 GGGTAGGACCTGTTGCATATAAGATTGAGTTGCCTTCTGAGCTAATTCGTATTCATGATGTCTTT
7828 CATGTATCAATGTTGAGGAGATACCATCCAGATCCAGGTCACATTAT
260 CATGTATCAATGTTGAGGAGATACCATCCAGATCCAGGTCACATTAT
*
7875 TCAGGTTAA
1 TCAGATTAA
7884 AGAAGTAGAC
Statistics
Matches: 312, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
305 53 0.17
306 259 0.83
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (306 bp):
TCAGATTAATCCGTGACCGTCTGAAGGAGGCATTTAATAGGTAGAAATCTTATGCAGATCAAAGG
AGGAAGGATATACAGTTTGAGGTTGGAGATCAGGTCTTTTGAAAGTTTCACCCTGGAAGAAAGTA
TTGAGATTCGGGCGTAAGGGTAAATTGAGTCCAAGATTTATTGGACCATTTCGTATCTTGAAGAG
GGTAGGACCTGTTGCATATAAGATTGAGTTGCCTTCTGAGCTAATTCGTATTCATGATGTCTTTC
ATGTATCAATGTTGAGGAGATACCATCCAGATCCAGGTCACATTAT
Found at i:8829 original size:19 final size:19
Alignment explanation
Indices: 8805--8863 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
8795 TGACCGATTC
**
8805 GAACCGGTTTGATTGGTCT
1 GAACCGGTTTGACCGGTCT
8824 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGTCT
8843 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGTCT
8862 GA
1 GA
8864 CCCGACCCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.29
Consensus pattern (19 bp):
GAACCGGTTTGACCGGTCT
Found at i:8850 original size:10 final size:10
Alignment explanation
Indices: 8819--8863 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
8809 CGGTTTGATT
8819 GGTCTGAACC
1 GGTCTGAACC
*
8829 GGTTTG-ACC
1 GGTCTGAACC
8838 GGTCTGAACC
1 GGTCTGAACC
*
8848 GGTTTG-ACC
1 GGTCTGAACC
8857 GGTCTGA
1 GGTCTGA
8864 CCCGACCCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (10 bp):
GGTCTGAACC
Found at i:10566 original size:2 final size:2
Alignment explanation
Indices: 10559--10584 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10549 TACAAGTATG
10559 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
10585 ACTAATCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11063 original size:35 final size:36
Alignment explanation
Indices: 11023--11125 Score: 136
Period size: 37 Copynumber: 2.9 Consensus size: 36
11013 GTGCTTGTGG
* *
11023 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAA-CT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAATCT
* * *
11058 CTCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAA-TCT
*
11095 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
11126 GACGAAAAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 28 0.49
37 29 0.51
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAATCT
Found at i:11109 original size:37 final size:35
Alignment explanation
Indices: 11023--11122 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 35
11013 GTGCTTGTGG
* * * *
11023 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACT
*
11058 CTCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAA--CT
*
11095 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAG
11123 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 28 0.50
37 28 0.50
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (35 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACT
Found at i:12166 original size:106 final size:106
Alignment explanation
Indices: 11848--13832 Score: 2776
Period size: 106 Copynumber: 18.9 Consensus size: 106
11838 AGCATTGTTC
* * * ** * * *
11848 TGAGTCCAATATCC-TCTC-GTGAATTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * * * *
11911 ACCAACCGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
11952 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * * * *
12011 ATCAGCCG-CTCCTTCGTCGTGAAGTTGAGCTTGTGTTGCCT
66 ACCAGCGGTC-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
12052 TGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
12117 AACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
12158 TGAGTCCAATAT-CTTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAC
1 TGAGTCCAATATCCTT-CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAC
*
12222 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** * * * *
12264 GGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTCTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
12329 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
12370 TGAGTCCAATATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTAACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
12435 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
12476 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATCGGCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
12541 ACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
12582 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTATTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
12647 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * *
12688 TAAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* *
12753 ACCAGCTGTCCCTTCGTCGTGAAGTTGAACTTCCGTTGTC-
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
12793 T---TCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG----TTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* *
12851 ACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
12892 GGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
12957 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
12998 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
13063 ACCA-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-T
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
13102 TGGAGTCTAATAACATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTCGTTTATTGAC
1 T-GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAC
* *
13167 AACCAGCGGTCCCTTCGTTGTGAAGTTGAACTGGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
13209 GGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
13274 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** * *
13315 GGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * *
13380 ACTAGCGGTCCCTTCATTGTGAAGTTGAACTTGCGTT-TCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** * *
13420 TTAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATATTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
13485 ACCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
13526 GGAGTCCAATATCCTTTG-TCGTGAAGTT-AAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGAC
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAC
* *
13589 AACCAGCGGTCCCTTCATTGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
13631 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTATTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
13696 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
13737 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAACTT-TTTATTGAC
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTTGTTTATTGAC
13801 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
13833 CCACTCTCGA
Statistics
Matches: 1692, Mismatches: 161, Indels: 54
0.89 0.08 0.03
Matches are distributed among these distances:
98 42 0.02
99 1 0.00
100 79 0.05
101 3 0.00
102 96 0.06
104 18 0.01
105 291 0.17
106 1153 0.68
107 9 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:14567 original size:22 final size:22
Alignment explanation
Indices: 14541--14617 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
14531 TTGTGTTTGG
14541 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
14563 TCAAAGGTTTGACATGTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
14585 TCATAGGTTTGGCATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
*
14607 TCAACGGTTTG
1 TCAAAGGTTTG
14618 ATGGGGTAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:15235 original size:22 final size:22
Alignment explanation
Indices: 15209--15251 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
15199 TGCATGTGCT
15209 TTTTTGTCTCTTT-TTCTTTTTGA
1 TTTTTGT-TCTTTCTT-TTTTTGA
15232 TTTTTGTTCTTTCTTTTTTT
1 TTTTTGTTCTTTCTTTTTTT
15252 CTTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTTTGTTCTTTCTTTTTTTGA
Found at i:15258 original size:11 final size:11
Alignment explanation
Indices: 15232--15270 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
15222 TTCTTTTTGA
15232 TTTTTGTTCTTTC
1 TTTTT-TTC-TTC
15245 TTTTTTTCTTC
1 TTTTTTTCTTC
*
15256 TTTTTTGCTTC
1 TTTTTTTCTTC
15267 TTTT
1 TTTT
15271 CTTTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 17 0.68
12 3 0.12
13 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:15275 original size:15 final size:14
Alignment explanation
Indices: 15232--15276 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
15222 TTCTTTTTGA
15232 TTTTTGTTC-TTTC
1 TTTTTGTTCTTTTC
*
15245 TTTTT-TTCTTCT-
1 TTTTTGTTCTTTTC
15257 TTTTTGCTTCTTTTC
1 TTTTTG-TTCTTTTC
15272 TTTTT
1 TTTTT
15277 TGTTTTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.31
13 7 0.27
14 6 0.23
15 5 0.19
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (14 bp):
TTTTTGTTCTTTTC
Found at i:19966 original size:26 final size:27
Alignment explanation
Indices: 19924--19974 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
19914 ACAAAGTACG
19924 AATAATATATATATAAATAAATAAAAA
1 AATAATATATATATAAATAAATAAAAA
*
19951 AATAA-ATATATATAAATTAATAAA
1 AATAATATATATATAAATAAATAAA
19975 TTAAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
AATAATATATATATAAATAAATAAAAA
Found at i:20037 original size:2 final size:2
Alignment explanation
Indices: 20032--20066 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20022 AGATAATACA
20032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20067 CAATACTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20293 original size:11 final size:11
Alignment explanation
Indices: 20265--20330 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
20255 CAATAATATC
*
20265 AATAAAAAAAG
1 AATAAAAAAAT
20276 AA-AATAAAAAT
1 AATAA-AAAAAT
* **
20287 AATATAATGAT
1 AATAAAAAAAT
20298 AATAAAAAAAT
1 AATAAAAAAAT
*
20309 -ATAGAAAAAT
1 AATAAAAAAAT
*
20319 AATAGAAAAAT
1 AATAAAAAAAT
20330 A
1 A
20331 TATGTATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 11 0.25
11 32 0.73
12 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:20479 original size:12 final size:11
Alignment explanation
Indices: 20451--20491 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
20441 TAACAAAATA
* *
20451 AATAATATAAA
1 AATAATACAAG
20462 AATAATACAAG
1 AATAATACAAG
20473 TAATAATACAAG
1 -AATAATACAAG
20485 AATAATA
1 AATAATA
20492 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:20596 original size:12 final size:12
Alignment explanation
Indices: 20574--20618 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
20564 GAATAAAAGG
20574 AAAATATAATAGT
1 AAAA-ATAATAGT
*
20587 AAAAATAATAAT
1 AAAAATAATAGT
*
20599 AAATATAATAGT
1 AAAAATAATAGT
*
20611 AATAATAA
1 AAAAATAA
20619 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:21215 original size:37 final size:37
Alignment explanation
Indices: 21174--21278 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
21164 GTTCTTGTGG
* *
21174 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
* * * *
21211 ATCCTATTTTTAGGAGTTTGAATCTTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
*
21248 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAG
21279 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
Found at i:26330 original size:40 final size:39
Alignment explanation
Indices: 26286--26369 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 39
26276 AGTTGACAAG
*
26286 TTGGTTGGTAGCCAACTTGTACACATTTGAAAATTT-ATCT
1 TTGGTAGGTAGCCAACTTGTACACA--TGAAAATTTCATCT
* * *
26326 TTGGTAGGTGGCCAACTTGTGCACATGAGAATTTCATCT
1 TTGGTAGGTAGCCAACTTGTACACATGAAAATTTCATCT
26365 TTGGT
1 TTGGT
26370 CCCTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 8 0.21
39 9 0.23
40 22 0.56
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (39 bp):
TTGGTAGGTAGCCAACTTGTACACATGAAAATTTCATCT
Found at i:27777 original size:6 final size:6
Alignment explanation
Indices: 27768--29377 Score: 2885
Period size: 6 Copynumber: 272.8 Consensus size: 6
27758 GTGTACATAA
27768 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
27816 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
27864 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
27910 GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
27956 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28004 GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATA-
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28049 -TATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28096 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28142 GTATAT GTATAT GTATAT GT-TAT GTATA- -TATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28187 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28235 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28283 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28331 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28379 G--TAT GTATAT GTATAT GTATAT GTATA- -TATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28423 GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28469 GTATAT GTATAT GTATAT GTATAT GTATGTAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTA--TAT GTATAT GTATAT GTATAT
28519 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28565 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA--TAT
28615 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28663 GT-TAT G--TAT GTATAT GTATAT GTATA- -TATAT GTATAT GTATGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA--TAT
28708 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28756 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
28804 GTATAT GTATAT GTATAT GTATAT GTATGT -TATGTAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTA--TAT GTATAT GTATAT
28853 G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28897 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
28945 GTATAT GTATAT GGATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
28993 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29041 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29089 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29135 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29183 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29231 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29277 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29325 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
29373 GTATA
1 GTATA
29378 GTTCTAGAGT
Statistics
Matches: 1558, Mismatches: 4, Indels: 84
0.95 0.00 0.05
Matches are distributed among these distances:
4 64 0.04
5 11 0.01
6 1461 0.94
7 2 0.00
8 20 0.01
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:28613 original size:4 final size:4
Alignment explanation
Indices: 27769--29377 Score: 740
Period size: 4 Copynumber: 403.0 Consensus size: 4
27759 TGTACATAAG
* * * * * * * *
27769 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
27817 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
27865 TATA TGTA TATG TATA TGTA TATG TATG TATA TGTA TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
27913 TATG TATA TGTA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
27961 TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28009 TGTA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28057 TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28105 TATG TATA TGTA TATG TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28153 TGTA TATG T-TA TGTA TATA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28200 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28248 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28296 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28344 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * *
28392 TATG TATA TGTA TATA TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * *
28440 TGTA TATG TATA TGTA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28488 TATA TGTA TGTA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * *
28536 TGTA TATG TATA TGTA TATG TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28584 TATA TGTA TATG TATA TGTA TATG TATG TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * *
28632 TGTA TATG TATA TGTA TATG TATA TGTA TATG T-TA TGTA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28679 TATA TGTA TATA TATG TATA TGTA TGTA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28727 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28775 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * *
28823 TATA TGTA TGT- TATG TATG TATA TGTA TATG TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28870 TATA TGTA TATG TATA TGTA TGTA TATG TATA TGTA TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * *
28918 TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG GATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
28966 TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
29014 TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
29062 TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
29110 TATG TATA TGTA TATG TATA TGTA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
29158 TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
29206 TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * *
29254 TGTA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
29302 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
29350 TATA TGTA TATG TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA
29378 GTTCTAGAGT
Statistics
Matches: 1099, Mismatches: 503, Indels: 6
0.68 0.31 0.00
Matches are distributed among these distances:
3 6 0.01
4 1093 0.99
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:39579 original size:46 final size:46
Alignment explanation
Indices: 39507--39869 Score: 495
Period size: 46 Copynumber: 8.0 Consensus size: 46
39497 TAAATCGAAT
* * *
39507 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAATGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
39553 GCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
39599 CAATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
39645 TCATAATTAAAATGCATGAAATGATGCGTTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
39691 CCATAACTAAAATGCATGAAATGATGCATTTAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
39737 CCATAACTAAAATGCATAAAAGGATGCATTAAGGCATGAAAGAATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * * *
39783 CCATAATTAAAATGCATGAAATGATACACTAAGGCATGAAATGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
39829 -C---ACT--AAGGCATGAAAGGATGCATTAAGGCATGAAAAGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
39869 C
1 C
39870 ATTAAGGCAT
Statistics
Matches: 285, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
40 31 0.11
42 2 0.01
45 1 0.00
46 251 0.88
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (46 bp):
CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:39759 original size:138 final size:137
Alignment explanation
Indices: 39503--40113 Score: 667
Period size: 138 Copynumber: 4.3 Consensus size: 137
39493 GCTCTAAATC
* *
39503 GAAT-CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAATGATGGCATAATTAAAATG
1 GAATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGAT-GCATAACTAAAATG
* *
39567 CATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAATTAAAATGCATGAAAGGATGCATTAAG
65 CATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAATGCATAAAAGGATGCATTAAG
39632 GCATGAAA
130 GCATGAAA
* * * *
39640 GGATGTCATAATTAAAATGCATGAAATGATGCGTTAAGGCATGAAAGGATGCCATAACTAAAATG
1 GAATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATG-CATAACTAAAATG
* * *
39705 CATGAAATGATGCATTTAGGCATGAAAGGATGCCATAACTAAAATGCATAAAAGGATGCATTAAG
65 CATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAATGCATAAAAGGATGCATTAAG
39770 GCATGAAA
130 GCATGAAA
* * *
39778 GAATGCCATAATTAAAATGCATGAAATGATACACTAAGGCATGAAATGATGC---ACT--AAGGC
1 GAATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATGCATAACTAAAATGC
* * *
39838 ATGAAAGGATGCATTAAGGCATGAAAAGATGCATTAAGGCATGAAAGGATACCATAACTAAAATG
66 ATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAA--C-T-AAA--AT-GC---A-T-AAA--
39903 CATGAAATGATGCATTAAGGCATGAAA
117 -A-G----GATGCATTAAGGCATGAAA
* * * *
39930 GGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAATG
1 GAATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATG-CATAACTAAAATG
* * * * *
39995 CATGAAACGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATACATGAAAGGATGCATTAGG
65 CATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAATGCATAAAAGGATGCATTAAG
*
40060 GAATGAAA
130 GCATGAAA
* * * ** * *
40068 GGATGCCATGATTAAAATGTATGAACGGATGTATTAATGCATGAAA
1 GAATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAA
40114 AGAGACCCTA
Statistics
Matches: 402, Mismatches: 44, Indels: 55
0.80 0.09 0.11
Matches are distributed among these distances:
132 36 0.09
134 4 0.01
135 1 0.00
136 3 0.01
137 5 0.01
138 226 0.56
139 1 0.00
142 2 0.00
143 2 0.00
144 3 0.01
146 2 0.00
147 2 0.00
148 2 0.00
151 1 0.00
152 67 0.17
153 1 0.00
154 3 0.01
155 1 0.00
156 3 0.01
158 37 0.09
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (137 bp):
GAATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATGCATAACTAAAATGC
ATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAATGCATAAAAGGATGCATTAAGG
CATGAAA
Found at i:39905 original size:26 final size:24
Alignment explanation
Indices: 39876--40051 Score: 97
Period size: 26 Copynumber: 7.5 Consensus size: 24
39866 ATGCATTAAG
39876 GCATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGAT-CCATAA-TAAAAT
* * *
39902 GCATGAAATGATGCAT--T--AAG
1 GCATGAAAGGATCCATAATAAAAT
39922 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGAT-CCATAA-TAAAAT
* *
39948 GCATGAAAGGATGCAT--T--AAG
1 GCATGAAAGGATCCATAATAAAAT
* *
39968 GCATGAAACGATGTCATAATTAAAAT
1 GCATGAAAGGAT-CCATAA-TAAAAT
* * *
39994 GCATGAAACGATGCAT--T--AAG
1 GCATGAAAGGATCCATAATAAAAT
40014 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGAT-CCATAA-TAAAAT
*
40040 ACATGAAAGGAT
1 GCATGAAAGGAT
40052 GCATTAGGGA
Statistics
Matches: 115, Mismatches: 17, Indels: 36
0.68 0.10 0.21
Matches are distributed among these distances:
20 39 0.34
21 9 0.08
22 3 0.03
24 3 0.03
25 9 0.08
26 52 0.45
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (24 bp):
GCATGAAAGGATCCATAATAAAAT
Found at i:39923 original size:46 final size:46
Alignment explanation
Indices: 39816--40113 Score: 374
Period size: 46 Copynumber: 6.6 Consensus size: 46
39806 ATACACTAAG
* * *
39816 GCATGAAATGATGCACTAAGGCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
39856 GCATGAAAAGATGCATTAAGGCATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
39902 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * *
39948 GCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
39994 GCATGAAACGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * * * *
40040 ACATGAAAGGATGCATTAGGGAATGAAAGGATGCCATGATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * * *
40086 GTATGAACGGATGTATTAATGCATGAAA
1 GCATGAAAGGATGCATTAAGGCATGAAA
40114 AGAGACCCTA
Statistics
Matches: 225, Mismatches: 27, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
40 30 0.13
41 3 0.01
44 1 0.00
46 191 0.85
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
Found at i:40052 original size:26 final size:25
Alignment explanation
Indices: 39507--40053 Score: 207
Period size: 20 Copynumber: 24.0 Consensus size: 25
39497 TAAATCGAAT
*
39507 CCATAATTAAAATGCATGAAATGATG
1 CCATAA-TAAAATGCATGAAAGGATG
* * *
39533 -CAT--T--AAGGCATGGAATGATG
1 CCATAATAAAATGCATGAAAGGATG
*
39553 GCATAATTAAAATGCATGAAAGGATG
1 CCATAA-TAAAATGCATGAAAGGATG
*
39579 -CAT--T--AAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
*
39599 CAATAATTAAAATGCATGAAAGGATG
1 CCATAA-TAAAATGCATGAAAGGATG
*
39625 -CAT--T--AAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
* *
39645 TCATAATTAAAATGCATGAAATGATG
1 CCATAA-TAAAATGCATGAAAGGATG
* *
39671 -CGT--T--AAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
*
39691 CCATAACTAAAATGCATGAAATGATG
1 CCATAA-TAAAATGCATGAAAGGATG
* *
39717 -CAT--T--TAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
*
39737 CCATAACTAAAATGCATAAAAGGATG
1 CCATAA-TAAAATGCATGAAAGGATG
* *
39763 -CAT--T--AAGGCATGAAAGAATG
1 CCATAATAAAATGCATGAAAGGATG
*
39783 CCATAATTAAAATGCATGAAATGAT-
1 CCATAA-TAAAATGCATGAAAGGATG
* * * *
39808 --ACACT--AAGGCATGAAATGATG
1 CCATAATAAAATGCATGAAAGGATG
* *
39829 -C--ACT--AAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
* *
39849 -CAT--T--AAGGCATGAAAAGATG
1 CCATAATAAAATGCATGAAAGGATG
* *
39869 -CAT--T--AAGGCATGAAAGGATA
1 CCATAATAAAATGCATGAAAGGATG
*
39889 CCATAACTAAAATGCATGAAATGATG
1 CCATAA-TAAAATGCATGAAAGGATG
*
39915 -CAT--T--AAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
39935 CCATAATTAAAATGCATGAAAGGATG
1 CCATAA-TAAAATGCATGAAAGGATG
* *
39961 -CAT--T--AAGGCATGAAACGATG
1 CCATAATAAAATGCATGAAAGGATG
* *
39981 TCATAATTAAAATGCATGAAACGATG
1 CCATAA-TAAAATGCATGAAAGGATG
*
40007 -CAT--T--AAGGCATGAAAGGATG
1 CCATAATAAAATGCATGAAAGGATG
*
40027 CCATAACTAAAATACATGAAAGGATG
1 CCATAA-TAAAATGCATGAAAGGATG
40053 C
1 C
40054 ATTAGGGAAT
Statistics
Matches: 407, Mismatches: 50, Indels: 128
0.70 0.09 0.22
Matches are distributed among these distances:
20 193 0.47
21 28 0.07
22 10 0.02
23 2 0.00
24 10 0.02
25 25 0.06
26 139 0.34
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (25 bp):
CCATAATAAAATGCATGAAAGGATG
Found at i:44915 original size:13 final size:13
Alignment explanation
Indices: 44897--44923 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44887 TTGATTAAAG
44897 AAATAGAGGAGAA
1 AAATAGAGGAGAA
44910 AAATAGAGGAGAA
1 AAATAGAGGAGAA
44923 A
1 A
44924 GTAAAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.30, T:0.07
Consensus pattern (13 bp):
AAATAGAGGAGAA
Found at i:58480 original size:20 final size:20
Alignment explanation
Indices: 58451--58832 Score: 147
Period size: 26 Copynumber: 16.7 Consensus size: 20
58441 TAATTAAAAT
58451 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
58471 GCATGGAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
58497 GAATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
58517 GCATGAAAGGATACCATAATTAAAAT
1 GCATGAAAGGAT-GC---ATT--AAG
*
58543 GCATGAAAGCATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
58563 GCATGAAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
58589 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
58609 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
58635 GCATGAAAAGATGAATTAAG
1 GCATGAAAGGATGCATTAAG
* *
58655 GCATGAAAAGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
* *
58681 GCATGAAAGGACGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
58707 GCATGAAATGG-TGCATTAAG
1 GCATGAAA-GGATGCATTAAG
*
58727 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
58753 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
58773 GCATGAAAGGATGCCACAATTAAAATG
1 GCATGAAAGGATG---C-ATT--AA-G
*
58800 G-ATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
58819 GCACGAAAGGATGC
1 GCATGAAAGGATGC
58833 CATAATTTAA
Statistics
Matches: 287, Mismatches: 29, Indels: 92
0.70 0.07 0.23
Matches are distributed among these distances:
19 4 0.01
20 108 0.38
21 9 0.03
22 17 0.06
23 2 0.01
24 17 0.06
25 9 0.03
26 117 0.41
27 4 0.01
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:58506 original size:46 final size:46
Alignment explanation
Indices: 58439--58691 Score: 425
Period size: 46 Copynumber: 5.5 Consensus size: 46
58429 AAACCGAATC
*
58439 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGGAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
* **
58485 CATAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATAC
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
*
58531 CATAATTAAAATGCATGAAAGCATGCATTAAGGCATGAAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
58577 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
* * * *
58623 CATAACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
58669 CATAATTAAAATGCATGAAAGGA
1 CATAATTAAAATGCATGAAAGGA
58692 CGTCATAATT
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 192 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (46 bp):
CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
Found at i:58687 original size:118 final size:118
Alignment explanation
Indices: 58563--58811 Score: 410
Period size: 118 Copynumber: 2.1 Consensus size: 118
58553 ATGCATTAAG
58563 GCATGAAAGGATGTCATAATTAAAATGCATGAAA-GGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGATGTCATAATTAAAATGCATGAAATGG-TGCATTAAGGCATGAAAGGATGTCATA
* *
58627 ACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGTCATAATTAAAAT
65 ACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
*
58681 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGATGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
* * *
58746 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAATTAAAAT
66 CTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
* *
58799 GGATGAAATGATG
1 GCATGAAAGGATG
58812 CATTAAGGCA
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
118 119 0.98
119 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (118 bp):
GCATGAAAGGATGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
CTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
Found at i:58702 original size:164 final size:162
Alignment explanation
Indices: 58517--58879 Score: 528
Period size: 164 Copynumber: 2.2 Consensus size: 162
58507 ATGCATTAAG
*
58517 GCATGAAAGGATACCATAATTAAAATGCATGAAAGCATGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGA-ATCATAATTAAAATGCATGAAAG-ATGCATTAAGGCATGAAAGGATGTCATAA
* * *
58582 TTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAAAGAT
64 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAAAAGAT
* *
58647 GAATTAAGGCATGAAAAGATGTCATAATTAAAAT
129 GAATTAAGGCACGAAAAGATGCCATAATTAAAAT
* *
58681 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGA-ATCATAATTAAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATGTCATAA
* * *
58746 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAATTAAAATGGATGAAATGAT
64 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAAAAGAT
* * *
58811 GCATTAAGGCACGAAAGGATGCCATAATTTAAAT
129 GAATTAAGGCACGAAAAGATGCCATAATTAAAAT
* * *
58845 GCATGAAAGGATTCCATAACTAAAATGCGTGAAAG
1 GCATGAAAGGAAT-CATAATTAAAATGCATGAAAG
58880 GATGTCATAA
Statistics
Matches: 179, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
163 2 0.01
164 176 0.98
165 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (162 bp):
GCATGAAAGGAATCATAATTAAAATGCATGAAAGATGCATTAAGGCATGAAAGGATGTCATAACT
AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAAAAGATGA
ATTAAGGCACGAAAAGATGCCATAATTAAAAT
Found at i:58731 original size:46 final size:46
Alignment explanation
Indices: 58681--58852 Score: 247
Period size: 46 Copynumber: 3.7 Consensus size: 46
58671 TAATTAAAAT
* *
58681 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGGTGCATTAAG
* *
58727 GCATGAAAGGATGTCATAACTAAAATGCATGAAA-GGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGG-TGCATTAAG
* * *
58773 GCATGAAAGGATGCCACAATTAAAATGGATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGGTGCATTAAG
* *
58819 GCACGAAAGGATGCCATAATTTAAATGCATGAAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAA
58853 GGATTCCATA
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.02
46 110 0.97
47 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAATGGTGCATTAAG
Found at i:58849 original size:118 final size:115
Alignment explanation
Indices: 58563--58883 Score: 330
Period size: 118 Copynumber: 2.7 Consensus size: 115
58553 ATGCATTAAG
* * *
58563 GCATGAAAGGATGTCATAATTAAAATGCATGAAA-GGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGACGTC--AATT-AAAGGCACGAAATGG-TGCATTAAGGCATGAAAGGATGTCATA
* * *
58627 ACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGTCATAATTAAAAT
62 ACTAAAATGCATGAAAGGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
* *
58681 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGACGTC--AATT-AAAGGCACGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
* *
58746 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAATTAAAAT
63 CTAAAATGCATGAAAGGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
* * * *
58799 GGATGAAATGATG-C-ATT-AAGGCACGAAA-GGATGCCATAATTTAAATGCATGAAAGGAT-TC
1 GCATGAAAGGACGTCAATTAAAGGCACGAAATGG-TG-C---A-TT-AAGGCATGAAAGGATGT-
*
58859 CATAACTAAAATGCGTGAAAGGATG
58 CATAACTAAAATGCATGAAAGGATG
58884 TCATAATTAA
Statistics
Matches: 181, Mismatches: 13, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
111 2 0.01
112 11 0.06
113 1 0.01
114 3 0.02
116 1 0.01
117 4 0.02
118 157 0.87
119 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (115 bp):
GCATGAAAGGACGTCAATTAAAGGCACGAAATGGTGCATTAAGGCATGAAAGGATGTCATAACTA
AAATGCATGAAAGGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
Found at i:62077 original size:2 final size:2
Alignment explanation
Indices: 62066--62152 Score: 68
Period size: 2 Copynumber: 48.5 Consensus size: 2
62056 AATAAAAAAT
* *
62066 TA TA TT TA TA TA T- TA -A TA TA -A AA TA TA TA -A T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
62102 TA TA TA -A T- TA -A TA TA AA TA TA -A TA TA TA TA TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62140 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
62153 CAGGGCGGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
1 10 0.15
2 58 0.85
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.