Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_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: 849978
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:295950 original size:41 final size:41
Alignment explanation
Indices: 295904--296104 Score: 271
Period size: 41 Copynumber: 4.9 Consensus size: 41
295894 ATTCGCGCTG
*
295904 CATTTCACGTTGCGATAGTCTACAGTGTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTC
* * * *
295945 CATTTCGCGTTGCGATAGT-TGAAAATCG-CATTGCGATTATC
1 CATTTCGCGTTGCGATAGTCT-ACAGT-GTCGTTGCGATTTTC
* *
295986 CATTTCGCGTTGCGATAGTGTACAGTGTCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTC
* * * *
296027 CATCTCGCATTGCGATAGTGTACAGTGTCGTTGCAATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTC
296068 CATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGAT
1 CATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGAT
296105 AGTCTACAGT
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.01
41 136 0.97
42 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTC
Found at i:295957 original size:20 final size:20
Alignment explanation
Indices: 295932--296001 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
295922 TCTACAGTGT
295932 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
295952 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
* *
295973 CATTGCGATTATCCATTTCG
1 CGTTGCGATTTTCCATTTCG
295993 CGTTGCGAT
1 CGTTGCGAT
296002 AGTGTACAGT
Statistics
Matches: 36, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:296021 original size:21 final size:21
Alignment explanation
Indices: 295995--296060 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
295985 CCATTTCGCG
295995 TTGCGATAGTGTACAGTGTCA
1 TTGCGATAGTGTACAGTGTCA
* * *
296016 TTGCGAT--TTTCCA-TCTCGCA
1 TTGCGATAGTGTACAGTGT--CA
*
296036 TTGCGATAGTGTACAGTGTCG
1 TTGCGATAGTGTACAGTGTCA
296057 TTGC
1 TTGC
296061 AATTTTCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
18 2 0.06
19 4 0.12
20 9 0.27
21 12 0.36
22 4 0.12
23 2 0.06
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TTGCGATAGTGTACAGTGTCA
Found at i:296101 original size:21 final size:21
Alignment explanation
Indices: 296075--296114 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
296065 TTCCATTTCG
296075 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
296096 CGTTGCGATAGTCTACAGT
1 CGTTGCGATAGTCTACAGT
296115 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:296726 original size:6 final size:6
Alignment explanation
Indices: 296710--296747 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
296700 TCTCGTCTCG
296710 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
296748 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:296923 original size:19 final size:20
Alignment explanation
Indices: 296876--296923 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
296866 ACTGTAGACT
*
296876 ATCGCAACGCGAAATGGAAA
1 ATCGCAATGCGAAATGGAAA
*
296896 ATCGCAATGCGAGATGGAAA
1 ATCGCAATGCGAAATGGAAA
296916 AT-GCAATG
1 ATCGCAATG
296924 ACACTGTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.15
Consensus pattern (20 bp):
ATCGCAATGCGAAATGGAAA
Found at i:296929 original size:60 final size:61
Alignment explanation
Indices: 296849--296962 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 61
296839 GCAACGAATT
*
296849 TGGAAAATCACAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAATGCGAGA
1 TGGAAAATCACAACGACACTGTACACTATCGCAACGCGAAATGGAAAATCGCAATGCGAGA
* * *
296910 TGGAAAAT-GCAATGACACTGTACACTATCGCAACGTGAAATGGAAAATCGCAA
1 TGGAAAATCACAACGACACTGTACACTATCGCAACGCGAAATGGAAAATCGCAA
296963 CGACACTGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 41 0.84
61 8 0.16
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (61 bp):
TGGAAAATCACAACGACACTGTACACTATCGCAACGCGAAATGGAAAATCGCAATGCGAGA
Found at i:296980 original size:41 final size:41
Alignment explanation
Indices: 296896--297028 Score: 198
Period size: 40 Copynumber: 3.3 Consensus size: 41
296886 GAAATGGAAA
* * * *
296896 ATCGCAATGCGAGATGGAAAAT-GCAATGACACTGTACACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
*
296936 ATCGCAACGTGAAATGGAAAATCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
296977 ATCGCAACGCGAAAT-GAAAATCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
*
297017 ATCGCAATGCGA
1 ATCGCAACGCGA
297029 TTTTCAACTA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
40 55 0.65
41 30 0.35
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
Found at i:296982 original size:21 final size:21
Alignment explanation
Indices: 296956--297023 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
296946 GAAATGGAAA
296956 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* *
296977 ATCGCAACG-CGAAATG-A-A-A
1 ATCGCAACGAC--ACTGTAGACT
296996 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
297017 ATCGCAA
1 ATCGCAA
297024 TGCGATTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 4 0.11
21 17 0.46
22 3 0.08
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:298350 original size:22 final size:22
Alignment explanation
Indices: 298308--298350 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
298298 TTGGGCACCC
*
298308 AAAAACAATATTTTATTTTAAT
1 AAAAACAATATTTTATATTAAT
*
298330 AAAAATAATAATTTTA-ATTAA
1 AAAAACAAT-ATTTTATATTAA
298351 AACGAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAACAATATTTTATATTAAT
Found at i:301676 original size:54 final size:54
Alignment explanation
Indices: 301591--301859 Score: 297
Period size: 54 Copynumber: 5.1 Consensus size: 54
301581 CTATGTGTAC
* * *
301591 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * ** *
301645 TATCGGCACTCAGTGTGCAACCTATGGAATTCATAATAAGTTTATAAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
** * * *
301699 TATCGGCACTCGGTGTGCAACCCACGGAATTCATAATAAGTTT-TGAATGATCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* *
301752 TATCGGCACTAAGTGTGCAACCCACATAATTTATAATAAGTTTATGAACGACC-
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
301805 -A----CA--AAGTATACAACCCAC-GAAATTCATAATGAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCG
301852 TATCGGCA
1 TATCGGCA
301860 TCACGTGTGC
Statistics
Matches: 181, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
46 37 0.20
48 3 0.02
52 3 0.02
53 45 0.25
54 93 0.51
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:301802 original size:107 final size:108
Alignment explanation
Indices: 301591--301859 Score: 288
Period size: 107 Copynumber: 2.6 Consensus size: 108
301581 CTATGTGTAC
*
301591 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCGTATCGGCACTC
1 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCGTATCGGCACTA
* **
301656 AGTGTGCAACCTATGGAATTCATAATAAGTTTATAAACGACCG
66 AGTGTGCAACCCACAGAATTCATAATAAGTTTATAAACGACCG
** * ** ** *
301699 TATCGGCACTCGGTGTGCAACCCACGGAATTCATAATAAGTTT-TGAATGATCGTATCGGCACTA
1 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCGTATCGGCACTA
* * *
301763 AGTGTGCAACCCACATAATTTATAATAAGTTTATGAACGACC-
66 AGTGTGCAACCCACAGAATTCATAATAAGTTTATAAACGACCG
* * * *
301805 -A----CA--AAGTA-TACAACCCACGAAATTCATAATGAGTTTATGAACGACCGTATCGGCA
1 TATCGGCACTAAG-AGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCGTATCGGCA
301860 TCACGTGTGC
Statistics
Matches: 136, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
99 26 0.19
100 16 0.12
101 2 0.01
105 1 0.01
107 53 0.39
108 38 0.28
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (108 bp):
TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCGTATCGGCACTA
AGTGTGCAACCCACAGAATTCATAATAAGTTTATAAACGACCG
Found at i:301888 original size:153 final size:158
Alignment explanation
Indices: 301591--301888 Score: 358
Period size: 153 Copynumber: 1.9 Consensus size: 158
301581 CTATGTGTAC
**
301591 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAACAACCGTATCGGCACTC
1 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATG-A-AACCGTATC-GCACAA
* * * * * *
301656 AGTGTGCAACCTATGGAATTCATAATAAGTTTATAAACGACCGTATCGGCACTCGGTGTGCAACC
63 AGTATACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTCCGTGTGCAACC
**
301721 CACGGAATTCATAATAAGTTTTGAATGATCG
128 CAAAGAATTCATAATAAGTTTTGAATGATCG
* * *
301752 TATCGGCACTAAGTGTGCAACCCACATAATTTATAATAAGTTTATG-AA-CG-A-C-CACAAAGT
1 TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAAACCGTATCGCACAAAGT
* * *
301812 ATACAACCCACGAAATTCATAATGAGTTTATGAACGACCGTATCGGCA-TCACGTGTGCACCCCA
66 ATACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTC-CGTGTGCAACCCA
301876 AAGAACTT-ATAAT
130 AAGAA-TTCATAAT
301889 GATTTGAAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
152 2 0.02
153 66 0.55
154 2 0.02
155 1 0.01
156 1 0.01
157 2 0.02
158 2 0.02
161 43 0.36
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (158 bp):
TATCGGCACTAAGAGTGCAACCCACAAAATTCATAATAAGTTTATGAAACCGTATCGCACAAAGT
ATACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTCCGTGTGCAACCCAA
AGAATTCATAATAAGTTTTGAATGATCG
Found at i:305484 original size:24 final size:24
Alignment explanation
Indices: 305452--305504 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
305442 AGTATAAAGT
305452 ATTTGTTGACTAAAAAAGAACTGA
1 ATTTGTTGACTAAAAAAGAACTGA
305476 ATTTGTTGACTAAAAAAGAACTGA
1 ATTTGTTGACTAAAAAAGAACTGA
305500 ATTTG
1 ATTTG
305505 AGGTAGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (24 bp):
ATTTGTTGACTAAAAAAGAACTGA
Found at i:308492 original size:54 final size:54
Alignment explanation
Indices: 308409--308623 Score: 227
Period size: 54 Copynumber: 4.0 Consensus size: 54
308399 CTATGTGTAC
* * *
308409 TATCGGTACTAAGTGTGCAACCCACGGAATTCAAAATAACTTTATGAACGACCA
1 TATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAACGACCA
* * * *
308463 TATCGGTAATTAGTGTGCAACCCATGGAATTCATAATAAGC-TTATGAACGCCCA
1 TATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAA-CTTTATGAACGACCA
* * * * * * * *
308517 TATTGACAATCAGTGTGCAACCCAAGGAATTCATAATAAGTTTGTGAACGATCG
1 TATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAACGACCA
* * * * *
308571 TATC-GCACTAAGTGTGCAACCCACGGAATTCATTAGAAGTTTATGAACAACCA
1 TATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAACGACCA
308624 CTAGGTGTAC
Statistics
Matches: 133, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
53 39 0.29
54 93 0.70
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (54 bp):
TATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAACGACCA
Found at i:308647 original size:46 final size:46
Alignment explanation
Indices: 308576--308664 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
308566 GATCGTATCG
* * *
308576 CACTAAGTGTGCAACCCACGGAATTCATTA-GAAGTTTATGAACAAC
1 CACTAAGTGTACAACCCACGAAATTCATAATG-AGTTTATGAACAAC
*
308622 CACTAGGTGTACAACCCACGAAATTCATAATGAGTTTATGAAC
1 CACTAAGTGTACAACCCACGAAATTCATAATGAGTTTATGAAC
308665 GACCGTATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (46 bp):
CACTAAGTGTACAACCCACGAAATTCATAATGAGTTTATGAACAAC
Found at i:315222 original size:54 final size:54
Alignment explanation
Indices: 315137--315289 Score: 243
Period size: 54 Copynumber: 2.8 Consensus size: 54
315127 TTATGTGTAC
* * *
315137 TATCGACACTAAGTGTACAACCCACGAAATTCATAATAAGTTTATAAACGACCG
1 TATCGGCACTCAGTGTGCAACCCACGAAATTCATAATAAGTTTATAAACGACCG
* *
315191 TATCGGCACTCAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTCAGTGTGCAACCCACGAAATTCATAATAAGTTTATAAACGACCG
* *
315245 TATCGGTACTCAGTGTGCAACCCACGAAAATCATAATAAGTTTAT
1 TATCGGCACTCAGTGTGCAACCCACGAAATTCATAATAAGTTTAT
315290 CGGCACTAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (54 bp):
TATCGGCACTCAGTGTGCAACCCACGAAATTCATAATAAGTTTATAAACGACCG
Found at i:315309 original size:42 final size:42
Alignment explanation
Indices: 315245--315331 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
315235 TGAACGACCG
* *
315245 TATCGGTACTCAGTGTGCAACCCACGAAAATCATAATAAGTT
1 TATCGGCACTAAGTGTGCAACCCACGAAAATCATAATAAGTT
* * * *
315287 TATCGGCACTAAGTGTGTAACCCACGGAATTCATAATGAGTT
1 TATCGGCACTAAGTGTGCAACCCACGAAAATCATAATAAGTT
315329 TAT
1 TAT
315332 GAACGACTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (42 bp):
TATCGGCACTAAGTGTGCAACCCACGAAAATCATAATAAGTT
Found at i:315360 original size:96 final size:96
Alignment explanation
Indices: 315191--315385 Score: 266
Period size: 96 Copynumber: 2.0 Consensus size: 96
315181 TAAACGACCG
* * * *
315191 TATCGGCACTCAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCGTATCGGTACTC
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
*
315256 AGTGTGCAACCCAC-GAAAATCATAATAAGTT
66 AGTATGCAACCCACAG-AAATCATAATAAGTT
* * * **
315287 TATCGGCACTAAGTGTGTAACCCACGGAATTCATAATGAGTTTATGAACGACTGTATTTGCACTA
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* *
315352 AGTATGCAACCCACAGAATTCATAATGAGTT
66 AGTATGCAACCCACAGAAATCATAATAAGTT
315383 TAT
1 TAT
315386 GAATGAACGT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 85 0.99
97 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (96 bp):
TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
AGTATGCAACCCACAGAAATCATAATAAGTT
Found at i:315404 original size:54 final size:54
Alignment explanation
Indices: 315287--315431 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 54
315277 ATAATAAGTT
* * *
315287 TATCGGCACTAAGTGTGTAACCCACGGAATTCATAATGAGTTTATGAACGACTG
1 TATCAGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAACGACTG
** * *
315341 TATTTGCACTAAGTATGCAACCCACAGAATTCATAATGAGTTTATGAATGAAC-G
1 TATCAGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAACG-ACTG
* * *
315395 TATCAGCACTACGTGTGCACCCCAAAGAACTT-ATAAT
1 TATCAGCACTAAGTGTGCAACCCACAGAA-TTCATAAT
315432 AATTTTAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 73 0.95
55 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (54 bp):
TATCAGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAACGACTG
Found at i:315411 original size:150 final size:150
Alignment explanation
Indices: 315137--315418 Score: 379
Period size: 150 Copynumber: 1.9 Consensus size: 150
315127 TTATGTGTAC
*
315137 TATCGACACTAAGTGTACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTC
1 TATCGACACTAAGTGTACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTA
* * * *
315202 AGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCGTATCGGTACTCAGTGTGCAACC
66 AGTATGCAACCCACGTAATTCATAATAAGTTTATGAACGAACGTATCAGCACTCAGTGTGCAACC
315267 CACGAAAATCATAATAAGTT
131 CACGAAAATCATAATAAGTT
* ** * * * * **
315287 TATCGGCACTAAGTGTGTAACCCACGGAATTCATAATGAGTTTATGAACGACTGTATTTGCACTA
1 TATCGACACTAAGTGTACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTA
* * *
315352 AGTATGCAACCCACAG-AATTCATAATGAGTTTATGAATGAACGTATCAGCACT-ACGTGTGCAC
66 AGTATGCAACCCAC-GTAATTCATAATAAGTTTATGAACGAACGTATCAGCACTCA-GTGTGCAA
315415 CCCA
129 CCCA
315419 AAGAACTTAT
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 1 0.01
150 111 0.98
151 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (150 bp):
TATCGACACTAAGTGTACAACCCACGAAATTCATAATAAGTTTATAAACGACCGTATCGGCACTA
AGTATGCAACCCACGTAATTCATAATAAGTTTATGAACGAACGTATCAGCACTCAGTGTGCAACC
CACGAAAATCATAATAAGTT
Found at i:315975 original size:90 final size:90
Alignment explanation
Indices: 315822--315989 Score: 291
Period size: 90 Copynumber: 1.9 Consensus size: 90
315812 CCTAACACAC
* *
315822 CCTTTTATAGCCAAGTTACCCTAATCATATTGGGGGTTTTATTATTTCAAATTAAATAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAAATAAATCTAT
315887 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATTAGAATTTAATAAT
* * *
315912 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTTAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAAATAAATCTAT
315977 ATTTAATTAATTA
66 ATTTAATTAATTA
315990 AAAATAAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAAATAAATCTAT
ATTTAATTAATTAGAATTTAATAAT
Found at i:316000 original size:20 final size:20
Alignment explanation
Indices: 315961--316000 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
315951 TATTATTTTA
** *
315961 AATTAATTAAATCTATATTT
1 AATTAATTAAAAATAAATTT
315981 AATTAATTAAAAATAAATTT
1 AATTAATTAAAAATAAATTT
316001 TGGGATTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTAATTAAAAATAAATTT
Found at i:322669 original size:90 final size:90
Alignment explanation
Indices: 322513--322690 Score: 286
Period size: 90 Copynumber: 2.0 Consensus size: 90
322503 CCTAACACAC
322513 CCTTTTATAGCCAAGTTACCCTAATCATATTACGGTTATTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTACGGTTATTATTATTTCAAATTAATTAAATATAT
* *
322578 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* * * *
322603 CCTTTTATATCCAAGTTACCCTAATCATGTTAGGGATT-TTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTACGG-TTATTATTATTTCAAATTAATTAAATATA
322667 TATTTAATTAATTGAAATTAAATA
65 TATTTAATTAATTGAAATTAAATA
322691 TTCGTGATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 79 0.98
91 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTACGGTTATTATTATTTCAAATTAATTAAATATAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:331350 original size:15 final size:16
Alignment explanation
Indices: 331330--331366 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
331320 ACGGGAGAAG
331330 TTTTTTAA-ATAAT-AT
1 TTTTTTAATA-AATAAT
331345 TTTTTTAATAAATAAT
1 TTTTTTAATAAATAAT
331361 TTTTTT
1 TTTTTT
331367 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAATAAATAAT
Found at i:331358 original size:18 final size:17
Alignment explanation
Indices: 331335--331374 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
331325 AGAAGTTTTT
331335 TAAATAATATTTTTTTAA
1 TAAATAAT-TTTTTTTAA
331353 TAAATAATTTTTTTTAA
1 TAAATAATTTTTTTTAA
*
331370 AAAAT
1 TAAAT
331375 TTTAAGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAATTTTTTTTAA
Found at i:331370 original size:14 final size:14
Alignment explanation
Indices: 331330--331377 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
331320 ACGGGAGAAG
331330 TTTTTTAAATAATATT
1 TTTTTTAAAT-A-ATT
331346 TTTTTAATAAATAATT
1 TTTTT--TAAATAATT
*
331362 TTTTTTAAAAAATT
1 TTTTTTAAATAATT
331376 TT
1 TT
331378 AAGATTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 10 0.34
16 13 0.45
17 1 0.03
18 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTTAAATAATT
Found at i:331795 original size:15 final size:15
Alignment explanation
Indices: 331775--331864 Score: 74
Period size: 15 Copynumber: 5.8 Consensus size: 15
331765 CATTTTACTT
331775 AAATTATTATTATTA
1 AAATTATTATTATTA
331790 AAATTATTATTATTA
1 AAATTATTATTATTA
** *
331805 TTATTATTAATATTA
1 AAATTATTATTATTA
**
331820 TTATTATTATTATATA
1 AAATTATTATTAT-TA
**
331836 TTATTA-TATTATTA
1 AAATTATTATTATTA
331850 TTAAATATATTATTA
1 --AAAT-TATTATTA
331865 CAAGGCCCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
14 2 0.03
15 45 0.70
16 10 0.16
17 2 0.03
18 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATTATTATTATTA
Found at i:331863 original size:18 final size:19
Alignment explanation
Indices: 331777--331864 Score: 106
Period size: 21 Copynumber: 4.4 Consensus size: 19
331767 TTTTACTTAA
331777 ATTATTATTATTAAAATTATT
1 ATTATTATTATT-AAA-TATT
331798 ATTATTATTATTATTAATATT
1 ATTATTATTATTA--AATATT
*
331819 ATTATTATTATTATATATT
1 ATTATTATTATTAAATATT
331838 ATTATATTATTATTAAATA-T
1 A-T-TATTATTATTAAATATT
331858 ATTATTA
1 ATTATTA
331865 CAAGGCCCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.08
19 7 0.11
20 4 0.07
21 43 0.70
22 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTATTATTAAATATT
Found at i:331864 original size:3 final size:3
Alignment explanation
Indices: 331777--331852 Score: 109
Period size: 3 Copynumber: 25.3 Consensus size: 3
331767 TTTTACTTAA
** *
331777 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
331825 ATT ATT ATAT ATT ATT A-T ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT A
331853 AATATATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 60 0.92
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:335163 original size:155 final size:155
Alignment explanation
Indices: 334930--335240 Score: 581
Period size: 156 Copynumber: 2.0 Consensus size: 155
334920 GGGACTTCTG
334930 ATCCTAATCAATTGGAGAAGTACAGACAATCATCATCCGTATTCACAAGTATCTGGAGATACCAA
1 ATCCTAATCAATTGGAGAAGTACAGACAATCATCATCCGTATTCACAAGTATCTGGAGATACCAA
334995 AGAAATGATGACAA-TGTAAAAGCTTTCAGAGAAGAGAAGAAATCATGTAACCTGAAATCATCGA
66 AGAAATGATGACAATTGTAAAAGCTTTCAGAGAAGAGAAGAAATCATGTAACCTGAAATCATCGA
*
335059 AG-TTAGTATGCTCCCGATATCTAA
131 AGTTTAGTATGCTCCCAATATCTAA
335083 ATCCTAATCAATTGGAGAAGTTACAGACAATCATCATCCGTATTCACAAGTTATCTGGAGATACC
1 ATCCTAATCAATTGGAGAAG-TACAGACAATCATCATCCGTATTCACAAG-TATCTGGAGATACC
335148 AAAGAAATGATGACAATTGTAAAAGCTTTCAGAGAAGAGAAGAAATCATGTAACCTGAAATCATC
64 AAAGAAATGATGACAATTGTAAAAGCTTTCAGAGAAGAGAAGAAATCATGTAACCTGAAATCATC
335213 GAAGTTTAGTATGCTCCCAATATCTAA
129 GAAGTTTAGTATGCTCCCAATATCTAA
335240 A
1 A
335241 ACTCAGGTTC
Statistics
Matches: 153, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
153 20 0.13
154 29 0.19
155 30 0.20
156 52 0.34
157 22 0.14
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (155 bp):
ATCCTAATCAATTGGAGAAGTACAGACAATCATCATCCGTATTCACAAGTATCTGGAGATACCAA
AGAAATGATGACAATTGTAAAAGCTTTCAGAGAAGAGAAGAAATCATGTAACCTGAAATCATCGA
AGTTTAGTATGCTCCCAATATCTAA
Found at i:341206 original size:113 final size:114
Alignment explanation
Indices: 340999--341210 Score: 363
Period size: 113 Copynumber: 1.9 Consensus size: 114
340989 TCGTAGTAGG
*
340999 AATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAA
1 AATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATAA
* *
341064 ACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCATAGCATA
66 ACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCATAGCATA
*
341113 AATAAGGAGATCCAATAGCATCTT-TGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGA
1 AATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATAA
* *
341177 ACCCTAAAACCAATCATTGGAATTAAAAGATGAA
66 ACCCCAAAACCAATCATTAGAATTAAAAGATGAA
341211 CTGCATGATC
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 68 0.74
114 24 0.26
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (114 bp):
AATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATAA
ACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCATAGCATA
Found at i:343629 original size:22 final size:23
Alignment explanation
Indices: 343578--343633 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
343568 ATCTACACTC
* *
343578 TTCAAAGATGATAGATTCCCTTT
1 TTCAAAGATGACAAATTCCCTTT
* *
343601 TTAAAAGATGACAAATTCTC-TT
1 TTCAAAGATGACAAATTCCCTTT
343623 TTCAAAGATGA
1 TTCAAAGATGA
343634 AGCTTTATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (23 bp):
TTCAAAGATGACAAATTCCCTTT
Found at i:344602 original size:75 final size:76
Alignment explanation
Indices: 344300--345108 Score: 1316
Period size: 75 Copynumber: 10.9 Consensus size: 76
344290 CTATTTCCCA
*
344300 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344365 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
344376 CATATGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCAGGATC-TTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344438 AGCCTTAGGGT
66 AGCCTTAGGGT
344449 CATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGATCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344511 AGCCTTAGGGT
66 AGCCTTAGGGT
344522 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344587 AG-CTTAGGGT
66 AGCCTTAGGGT
*
344597 TATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTC-GGATCTTTTTGA--TTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344657 AGCCTTAGGGT
66 AGCCTTAGGGT
344668 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344732 AGCCTTAGGGT
66 AGCCTTAGGGT
*
344743 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344807 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
344818 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
344882 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
344893 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGATCTTTTTGATGTTTTCA
344957 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* *
344969 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGATCTTTTTGATGTTTTCA
*
345033 AAGTC-T-GGGT
65 AAGCCTTAGGGT
* *
345043 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGATCTTTTTGATGTTTTCA
345107 AA
65 AA
345109 ACCCTTCAAT
Statistics
Matches: 708, Mismatches: 11, Indels: 30
0.95 0.01 0.04
Matches are distributed among these distances:
70 4 0.01
71 43 0.06
72 36 0.05
73 109 0.15
74 104 0.15
75 269 0.38
76 143 0.20
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:344725 original size:221 final size:223
Alignment explanation
Indices: 344300--345099 Score: 1314
Period size: 221 Copynumber: 3.6 Consensus size: 223
344290 CTATTTCCCA
*
344300 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
* * *
344365 AGCCTTAGGGTCATATGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCAGGATC-TTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT
344428 GATGTTTCAAAGCCTTAGGGTCATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-
130 GAT-TTT-AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
*
344491 GGATCTTTTTGATGTTTTCAAGCCTTAGGGT
193 GGATCTTTTTGATGTTTTAAAGCCTTAGGGT
344522 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
* * *
344587 AG-CTTAGGGTTATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGATCTTTTTG
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTTG
344650 ATTTTAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
131 ATTTTAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
344715 TCTTTTTGATGTTTTAAAGCCTTAGGGT
196 TCTTTTTGATGTTTTAAAGCCTTAGGGT
*
344743 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
*
344807 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCC-TTCGGAGCTTTTT
*
344872 GATGTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTC
130 GA--TTTTAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTC
*
344937 GGGAGCTTTTTGATGTTTTAAAGCCTTAGGGT
192 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
* *
344969 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGATCTTTTTGATGTTTTCA
*
345033 AAGTC-T-GGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGAGCTTTT
345096 TGAT
129 TGAT
345100 GTTTTCAAAA
Statistics
Matches: 550, Mismatches: 16, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
219 23 0.04
220 44 0.08
221 184 0.33
222 73 0.13
223 14 0.03
225 98 0.18
226 82 0.15
227 32 0.06
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (223 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTTG
ATTTTAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
TCTTTTTGATGTTTTAAAGCCTTAGGGT
Found at i:345316 original size:11 final size:11
Alignment explanation
Indices: 345282--345360 Score: 79
Period size: 11 Copynumber: 6.7 Consensus size: 11
345272 CTTTTACTTA
345282 ATTATTATTATT
1 ATTATTA-TATT
**
345294 AAAATT-TATT
1 ATTATTATATT
345304 ATTATTATATT
1 ATTATTATATT
345315 ATTATTATAATATT
1 ATTA-T-T-ATATT
345329 ATTATTATATT
1 ATTATTATATT
345340 ATATATATATATT
1 AT-TAT-TATATT
345353 ATTATTAT
1 ATTATTAT
345361 TAAATATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
10 8 0.14
11 18 0.32
12 12 0.21
13 10 0.18
14 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATTATATT
Found at i:345331 original size:38 final size:38
Alignment explanation
Indices: 345303--345374 Score: 66
Period size: 36 Copynumber: 2.0 Consensus size: 38
345293 TAAAATTTAT
* *
345303 TATTAT-TATAT-TATTATTATAATATTATTATTA-TA
1 TATTATATATATATATTATTATTATAATATTATTATTA
345338 TTA-TATATATATATTATTATTATTA-AATA-TATTATTA
1 -TATTATATATATA-TATTATTATTATAATATTATTATTA
345375 CAAGGCCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
35 3 0.10
36 12 0.40
37 5 0.17
38 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (38 bp):
TATTATATATATATATTATTATTATAATATTATTATTA
Found at i:345374 original size:3 final size:3
Alignment explanation
Indices: 345282--345362 Score: 80
Period size: 3 Copynumber: 27.3 Consensus size: 3
345272 CTTTTACTTA
** *
345282 ATT ATT ATT ATT AAA ATTT ATT ATT ATT A-T ATT ATT ATT A-T AAT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
345326 ATT ATT ATT A-T ATT A-T ATAT ATAT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT A
345363 AATATATTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
2 8 0.12
3 51 0.76
4 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:348538 original size:21 final size:21
Alignment explanation
Indices: 348504--348549 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
348494 ATAACTGGAA
348504 AACC-GGTTTAACCGGTTTTG
1 AACCGGGTTTAACCGGTTTTG
*
348524 AACCGGGTTTGACCGGTTTTG
1 AACCGGGTTTAACCGGTTTTG
348545 -ACCGG
1 AACCGG
348550 TTCCAACCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.30
Consensus pattern (21 bp):
AACCGGGTTTAACCGGTTTTG
Found at i:348544 original size:10 final size:10
Alignment explanation
Indices: 348505--348551 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
348495 TAACTGGAAA
*
348505 ACCGG-TTTA
1 ACCGGTTTTG
348514 ACCGGTTTTG
1 ACCGGTTTTG
*
348524 AACCGGGTTTG
1 -ACCGGTTTTG
348535 ACCGGTTTTG
1 ACCGGTTTTG
348545 ACCGGTT
1 ACCGGTT
348552 CCAACCGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 5 0.15
10 19 0.58
11 9 0.27
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:348604 original size:17 final size:17
Alignment explanation
Indices: 348582--348619 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
348572 GAACCGGTCC
348582 GACCCGA-CCAGACCGTT
1 GACCCGATCC-GACCGTT
348599 GACCCGATCCGACCGTT
1 GACCCGATCCGACCGTT
348616 GACC
1 GACC
348620 GTTAACCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.21, C:0.42, G:0.24, T:0.13
Consensus pattern (17 bp):
GACCCGATCCGACCGTT
Found at i:348689 original size:29 final size:28
Alignment explanation
Indices: 348627--348797 Score: 121
Period size: 29 Copynumber: 6.0 Consensus size: 28
348617 ACCGTTAACC
* **
348627 GGTGATATTCTAGG-AATTAATTCGATTTT
1 GGTGTTATTCT-GGTAATTAATTCGA-AAT
*
348656 GGTGTTATTCTGGAAATTAATTCGAAAT
1 GGTGTTATTCTGGTAATTAATTCGAAAT
* **
348684 GAGTGTTATTTTGGTAATTTTTTCGAAAAT
1 G-GTGTTATTCTGGTAATTAATTCG-AAAT
* * *
348714 GGTGATATTCTAGTAATTAATTTGAAAT
1 GGTGTTATTCTGGTAATTAATTCGAAAT
* * * * *
348742 GAT-TCTATTTTGGGAATTAATTCAAAAA
1 GGTGT-TATTCTGGTAATTAATTCGAAAT
* *
348770 GTGTGTTATTTTGGTAATTAATTTGAAA
1 G-GTGTTATTCTGGTAATTAATTCGAAA
348798 AGGGTGGTAT
Statistics
Matches: 111, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
28 28 0.25
29 77 0.69
30 6 0.05
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (28 bp):
GGTGTTATTCTGGTAATTAATTCGAAAT
Found at i:348789 original size:57 final size:58
Alignment explanation
Indices: 348655--348797 Score: 166
Period size: 57 Copynumber: 2.5 Consensus size: 58
348645 AATTCGATTT
* * * ** *
348655 TGGTGTTATTCTGGAAATTAATTCGAAATGAGTGTTATTTTGGTAATTTTTTCGAAAA
1 TGGTGTTATTCTGGTAATTAATTTGAAATGAGTGTTATTTTGGGAATTAATTCAAAAA
* *
348713 TGGTGATATTCTAGTAATTAATTTGAAATGA-T-TCTATTTTGGGAATTAATTCAAAAA
1 TGGTGTTATTCTGGTAATTAATTTGAAATGAGTGT-TATTTTGGGAATTAATTCAAAAA
*
348770 -GTGTGTTATTTTGGTAATTAATTTGAAA
1 TG-GTGTTATTCTGGTAATTAATTTGAAA
348798 AGGGTGGTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
56 2 0.03
57 43 0.60
58 27 0.38
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (58 bp):
TGGTGTTATTCTGGTAATTAATTTGAAATGAGTGTTATTTTGGGAATTAATTCAAAAA
Found at i:348798 original size:29 final size:29
Alignment explanation
Indices: 348657--348838 Score: 113
Period size: 29 Copynumber: 6.3 Consensus size: 29
348647 TTCGATTTTG
* * * * *
348657 GTGTTATTCTGGAAATTAATTCGAAATGA
1 GTGTTATTTTGGTAATTAATTTGAAAAGT
*
348686 GTGTTATTTTGGTAATT-TTTTCGAAAA-T
1 GTGTTATTTTGGTAATTAATTT-GAAAAGT
* * *
348714 GGTGATATTCTAGTAATTAATTTG-AAA-T
1 -GTGTTATTTTGGTAATTAATTTGAAAAGT
* **
348742 GAT-TCTATTTTGGGAATTAATTCAAAAAGT
1 G-TGT-TATTTTGGTAATTAATTTGAAAAGT
*
348772 GTGTTATTTTGGTAATTAATTTGAAAAGG
1 GTGTTATTTTGGTAATTAATTTGAAAAGT
* * * * * *
348801 GTGGTATTATGGTTATTATTTTAAAAAGG
1 GTGTTATTTTGGTAATTAATTTGAAAAGT
*
348830 GTGCTATTT
1 GTGTTATTT
348839 ATATAAAATA
Statistics
Matches: 118, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
27 1 0.01
28 21 0.18
29 90 0.76
30 6 0.05
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (29 bp):
GTGTTATTTTGGTAATTAATTTGAAAAGT
Found at i:349905 original size:117 final size:117
Alignment explanation
Indices: 349695--349982 Score: 366
Period size: 117 Copynumber: 2.5 Consensus size: 117
349685 GTATTTCAGG
* * * * *
349695 CTCCTTTGTTGTGTGCTCAGGATAAGT-TCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGGA
1 CTCCTTTGCTGTGTGCTTAGGGTAAGTCT-TTACTGGTGTGCAGGTGGGTGTATGGTTATGAGGA
** * **
349759 ACCTACACATTGTAGTGAGTGGAGTGACTGGATGGGGAAGTTATTACTGCAGA
65 ACCTACACATTGTAGTGAGTAAAGCGACTGGATGAAGAAGTTATTACTGCAGA
* *
349812 CTCCTTTGCTGTGTGCTTAGGGTAAGTCTTTACTGGTGTGCATGTGGGTATATGGTTATGAGGAA
1 CTCCTTTGCTGTGTGCTTAGGGTAAGTCTTTACTGGTGTGCAGGTGGGTGTATGGTTATGAGGAA
* * *
349877 CCTACGCATTGTAGTGA-TAAAAGCGACTGGATGAAGACGTTATTACTGCAGG
66 CCTACACATTGTAGTGAGT-AAAGCGACTGGATGAAGAAGTTATTACTGCAGA
** *
349929 CTCCTCAGCT-TCGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
1 CTCCTTTGCTGT-GTGCTTAGGGTAAGTCTTTACTGGTGTGCAGGTGGGTGTATG
349983 TTTCGGGAAA
Statistics
Matches: 148, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
116 2 0.01
117 145 0.98
118 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.33
Consensus pattern (117 bp):
CTCCTTTGCTGTGTGCTTAGGGTAAGTCTTTACTGGTGTGCAGGTGGGTGTATGGTTATGAGGAA
CCTACACATTGTAGTGAGTAAAGCGACTGGATGAAGAAGTTATTACTGCAGA
Found at i:352739 original size:21 final size:21
Alignment explanation
Indices: 352713--352757 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
352703 GATTTCTGGG
* *
352713 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
352734 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
352755 CAA
1 CAA
352758 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:353470 original size:31 final size:31
Alignment explanation
Indices: 353432--353584 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
353422 GGGTCGAGGG
353432 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
353463 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
353494 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
353525 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
353556 TTACCTAGGTTCTTC-GGATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
353585 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
30 12 0.10
31 108 0.90
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:357385 original size:21 final size:21
Alignment explanation
Indices: 357359--357403 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
357349 GATTTCTGGG
* *
357359 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
357380 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
357401 CAA
1 CAA
357404 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:357473 original size:23 final size:22
Alignment explanation
Indices: 357429--357473 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
357419 AATGCCAGAG
*
357429 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
357451 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
357474 AAATGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:358120 original size:31 final size:31
Alignment explanation
Indices: 358076--358136 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
358066 GGGTCGAGGG
* *
358076 TTACCTATATTCTTCGGGA-CATATGGACTGT
1 TTACCTAGATTCTTCGGAATC-TATGGACTGT
*
358107 TTACCTAGGTTCTTCGGAATCTATGGACTG
1 TTACCTAGATTCTTCGGAATCTATGGACTG
358137 GTCCTTCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (31 bp):
TTACCTAGATTCTTCGGAATCTATGGACTGT
Found at i:362893 original size:22 final size:22
Alignment explanation
Indices: 362868--362958 Score: 119
Period size: 22 Copynumber: 4.0 Consensus size: 22
362858 CTGAACCGGT
* *
362868 CCGACCCGACCCTACCGTTGAC
1 CCGACCCCACCCGACCGTTGAC
362890 CCGACCCCACCCGACCGTTGAC
1 CCGACCCCACCCGACCGTTGAC
*
362912 CCAACCCCACCCGACCGTTGAC
1 CCGACCCCACCCGACCGTTGAC
* *
362934 CCGACCCGACCGTTGACCGTTGAC
1 CCGACCCCACC--CGACCGTTGAC
362958 C
1 C
362959 GTTGATATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 50 0.82
24 11 0.18
ACGTcount: A:0.19, C:0.51, G:0.19, T:0.12
Consensus pattern (22 bp):
CCGACCCCACCCGACCGTTGAC
Found at i:362912 original size:17 final size:17
Alignment explanation
Indices: 362892--362951 Score: 66
Period size: 17 Copynumber: 3.2 Consensus size: 17
362882 CCGTTGACCC
362892 GACCCCACCCGACCGTT
1 GACCCCACCCGACCGTT
362909 GACCCAACCCCACCCGACCGTT
1 G-----ACCCCACCCGACCGTT
*
362931 GACCCGACCCGACCGTT
1 GACCCCACCCGACCGTT
362948 GACC
1 GACC
362952 GTTGACCGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
17 20 0.54
22 17 0.46
ACGTcount: A:0.20, C:0.52, G:0.18, T:0.10
Consensus pattern (17 bp):
GACCCCACCCGACCGTT
Found at i:363025 original size:29 final size:29
Alignment explanation
Indices: 362964--363138 Score: 142
Period size: 29 Copynumber: 6.1 Consensus size: 29
362954 TGACCGTTGA
* ** **
362964 TATTCTGGGAATTAATTCGATTTTAGTGC
1 TATTTTGGGAATTAATTCGAAATGGGTGC
* *
362993 TATTCTGGGAATTAATTCGAAATGGGTGT
1 TATTTTGGGAATTAATTCGAAATGGGTGC
* ** * *
363022 TATTTTGGTAATTTTTTTCAAAAT--GTGA
1 TATTTTGGGAA-TTAATTCGAAATGGGTGC
* *
363050 TATTATGGGAATTAATTCGAAAT--ATGC
1 TATTTTGGGAATTAATTCGAAATGGGTGC
* *
363077 TATTTTGGGAATTAATTCAAAAAGGGTGC
1 TATTTTGGGAATTAATTCGAAATGGGTGC
* * *
363106 TATTTTGGTAATTAATTTGAAAAGGGTGC
1 TATTTTGGGAATTAATTCGAAATGGGTGC
363135 TATT
1 TATT
363139 ATGGTTATTC
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 31 0.26
28 12 0.10
29 66 0.56
30 9 0.08
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (29 bp):
TATTTTGGGAATTAATTCGAAATGGGTGC
Found at i:363104 original size:84 final size:86
Alignment explanation
Indices: 362961--363118 Score: 239
Period size: 84 Copynumber: 1.9 Consensus size: 86
362951 CGTTGACCGT
* ** * * *
362961 TGATATTCTGGGAATTAATTCGATTTTAGTGCTATTCTGGGAATTAATTCGAAATGGGTGTTATT
1 TGATATTATGGGAATTAATTCGATAATAGTGCTATTCTGGGAATTAATTCAAAAAGGGTGCTATT
363026 TTGGTAATTTTTTTCAAAATG
66 TTGGTAATTTTTTTCAAAATG
*
363047 TGATATTATGGGAATTAATTCGA-AATA-TGCTATTTTGGGAATTAATTCAAAAAGGGTGCTATT
1 TGATATTATGGGAATTAATTCGATAATAGTGCTATTCTGGGAATTAATTCAAAAAGGGTGCTATT
363110 TTGGTAATT
66 TTGGTAATT
363119 AATTTGAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 41 0.63
85 2 0.03
86 22 0.34
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (86 bp):
TGATATTATGGGAATTAATTCGATAATAGTGCTATTCTGGGAATTAATTCAAAAAGGGTGCTATT
TTGGTAATTTTTTTCAAAATG
Found at i:363157 original size:29 final size:29
Alignment explanation
Indices: 363074--363160 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
363064 ATTCGAAATA
* * *
363074 TGCTATTTTGGGAATTAATTCAAAAAGGG
1 TGCTATTATGGTAATTAATTTAAAAAGGG
* *
363103 TGCTATTTTGGTAATTAATTTGAAAAGGG
1 TGCTATTATGGTAATTAATTTAAAAAGGG
* **
363132 TGCTATTATGGTTATTCTTTTAAAAAGGG
1 TGCTATTATGGTAATTAATTTAAAAAGGG
363161 GTGTTATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (29 bp):
TGCTATTATGGTAATTAATTTAAAAAGGG
Found at i:364302 original size:117 final size:116
Alignment explanation
Indices: 364036--364314 Score: 307
Period size: 117 Copynumber: 2.4 Consensus size: 116
364026 TGTGCTCAGG
***
364036 GTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGAAACCTACACATTGTAGTGAGTCT
1 GTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGAAACCTACACATTGTAGTGAGAAG
** ** ** * *
364101 TTACTGGTGCTTTGGGTAAGTTATTACTGCAGACTCCTTTGCTGTGTGCTTAGG
66 CGACTGGTG---TAAGTAAGTTATTACTGCAGACTCCTCAGCTGTATGCTTAGA
*
364155 GTAAGTCTTTACTGGTGTGCAGGTGGGTGTATGGTTCTGAGG-AACCTACACATTGTAGTGATGA
1 GTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTG-GGAAACCTACACATTGTAGTGA-G-
* *
364219 AAGCGACTGGATG-AAG-ACGTTATTACTGCAGGCTCCTCAGCT-TCATGCTTAGA
63 AAGCGACTGG-TGTAAGTAAGTTATTACTGCAGACTCCTCAGCTGT-ATGCTTAGA
* *
364272 GTAAGTCCTTACTGGTGTGCAGGTGAGTGTATGTTTC-GGGAAA
1 GTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGAAA
364315 ATACATAAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
115 2 0.01
116 4 0.03
117 63 0.46
118 1 0.01
119 57 0.42
120 3 0.02
121 5 0.04
122 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (116 bp):
GTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGAAACCTACACATTGTAGTGAGAAG
CGACTGGTGTAAGTAAGTTATTACTGCAGACTCCTCAGCTGTATGCTTAGA
Found at i:364641 original size:17 final size:18
Alignment explanation
Indices: 364619--364653 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
364609 TGTATTATTA
364619 ATATTT-TGTTCTATACT
1 ATATTTATGTTCTATACT
364636 ATATTTAATGTTCTATAC
1 ATATTT-ATGTTCTATAC
364654 GTTATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (18 bp):
ATATTTATGTTCTATACT
Found at i:365728 original size:19 final size:19
Alignment explanation
Indices: 365704--365761 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
365694 GATAAAAGAT
365704 ATATCATATAGGATGAGAA
1 ATATCATATAGGATGAGAA
* * * *
365723 ATATCAAATAAGATAAAAGAT
1 ATATCATATAGGAT--GAGAA
365744 ATATCATATAGGATGAGA
1 ATATCATATAGGATGAGA
365762 CAAATCAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 15 0.50
21 15 0.50
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (19 bp):
ATATCATATAGGATGAGAA
Found at i:365737 original size:40 final size:40
Alignment explanation
Indices: 365693--365777 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
365683 GACACTCAAC
365693 AGATAAAAGATATATCATATAGGATGAGA-AATATCAAATA
1 AGATAAAAGATATATCATATAGGATGAGACAA-ATCAAATA
365733 AGATAAAAGATATATCATATAGGATGAGACAAATCAAATA
1 AGATAAAAGATATATCATATAGGATGAGACAAATCAAATA
365773 AGATA
1 AGATA
365778 TACAACGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (40 bp):
AGATAAAAGATATATCATATAGGATGAGACAAATCAAATA
Found at i:365748 original size:21 final size:21
Alignment explanation
Indices: 365693--365749 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
365683 GACACTCAAC
*
365693 AGATAAAAGATATATCATATA
1 AGATAAAAGATATATCAAATA
* * *
365714 GGAT--GAGAAATATCAAATA
1 AGATAAAAGATATATCAAATA
365733 AGATAAAAGATATATCA
1 AGATAAAAGATATATCA
365750 TATAGGATGA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.25
Consensus pattern (21 bp):
AGATAAAAGATATATCAAATA
Found at i:366504 original size:2 final size:2
Alignment explanation
Indices: 366497--366526 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
366487 TTCGAAGAAC
366497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
366527 GTAATCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:369226 original size:2 final size:2
Alignment explanation
Indices: 369219--369254 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
369209 TAATTAAATA
369219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
369255 TTAATTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:372190 original size:25 final size:23
Alignment explanation
Indices: 372146--372191 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
372136 TTAATTAAAA
**
372146 AAATAAAAATTATTTTAAATTTG
1 AAATAAAAATTATTAAAAATTTG
372169 AAATATAAAATTATTCAAAAATT
1 AAATA-AAAATTATT-AAAAATT
372192 CAAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 9 0.47
25 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATAAAAATTATTAAAAATTTG
Found at i:372275 original size:21 final size:21
Alignment explanation
Indices: 372229--372280 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
372219 TAAAAATTAA
*
372229 ATTATTAAAAAAATTAAATAT
1 ATTATTAAAAAAACTAAATAT
* *
372250 TTTATTAAAAATACTAAA-ACT
1 ATTATTAAAAAAACTAAATA-T
372271 ATTA-TAAAAA
1 ATTATTAAAAA
372281 GTTTACATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTATTAAAAAAACTAAATAT
Found at i:372471 original size:25 final size:25
Alignment explanation
Indices: 372443--372501 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
372433 TGGATTGATT
372443 GAGATTTACAAAATTTAAATTAGTC
1 GAGATTTACAAAATTTAAATTAGTC
* * **
372468 GAGACTTACAAATTTTGTATTAGTC
1 GAGATTTACAAAATTTAAATTAGTC
*
372493 GAAATTTAC
1 GAGATTTAC
372502 TATATATTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (25 bp):
GAGATTTACAAAATTTAAATTAGTC
Found at i:372721 original size:31 final size:31
Alignment explanation
Indices: 372672--372747 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
372662 AAGAATACTT
* *
372672 TGTATAAGTTTTG-ATAATATA-TATGTTACA
1 TGTATATGTTATGTATAATATACTATG-TACA
*
372702 TGTATATGTTATGTATAATATACTTTGTACA
1 TGTATATGTTATGTATAATATACTATGTACA
* *
372733 AGTATATGGTATGTA
1 TGTATATGTTATGTA
372748 ATTCTCAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 11 0.28
31 25 0.64
32 3 0.08
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (31 bp):
TGTATATGTTATGTATAATATACTATGTACA
Found at i:373804 original size:15 final size:15
Alignment explanation
Indices: 373753--373804 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
373743 TACTAATGTT
373753 ATCGATTTATAACAA
1 ATCGATTTATAACAA
* * *
373768 ATC-AGTCATTAACATT
1 ATCGATTTA-TAACA-A
373784 ATCGATTTATAACAA
1 ATCGATTTATAACAA
373799 ATCGAT
1 ATCGAT
373805 CACTCATCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 3 0.11
15 14 0.50
16 8 0.29
17 3 0.11
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (15 bp):
ATCGATTTATAACAA
Found at i:375521 original size:12 final size:12
Alignment explanation
Indices: 375507--375761 Score: 170
Period size: 13 Copynumber: 20.5 Consensus size: 12
375497 AGGTTTTATA
*
375507 TTTAATTTTAGAT
1 TTTAATATTA-AT
375520 TTTAGATATTAAT
1 TTTA-ATATTAAT
375533 TTTAATATTAATTT
1 TTTAATATTAA--T
375547 TTTAA-A-TAA-
1 TTTAATATTAAT
*
375556 ATTAAGTATTAATT
1 TTTAA-TATTAA-T
375570 TTTAATATTATAT
1 TTTAATATTA-AT
*
375583 TATAGATATTAAT
1 TTTA-ATATTAAT
375596 TTTAATATTAATTT
1 TTTAATATTAA--T
*
375610 TTTAA-A-TAAA
1 TTTAATATTAAT
*
375620 TTAAATATTAATT
1 TTTAATATTAA-T
375633 TTTAATATTATAT
1 TTTAATATTA-AT
*
375646 TATAGATATTAAT
1 TTTA-ATATTAAT
375659 TTTAATATTAATT
1 TTTAATATTAA-T
*
375672 TTTAA-A-TAAA
1 TTTAATATTAAT
*
375682 TTAAATATTAATT
1 TTTAATATTAA-T
375695 TCTTAATATTATAT
1 T-TTAATATTA-AT
*
375709 TATAGATATTAAT
1 TTTA-ATATTAAT
375722 TTTAATATT-AT
1 TTTAATATTAAT
*
375733 CTTAATATT-A-
1 TTTAATATTAAT
*
375743 TTTATATATTTAT
1 TTTA-ATATTAAT
375756 TTTAAT
1 TTTAAT
375762 TATTTTGATT
Statistics
Matches: 196, Mismatches: 19, Indels: 55
0.73 0.07 0.20
Matches are distributed among these distances:
9 4 0.02
10 11 0.06
11 22 0.11
12 45 0.23
13 62 0.32
14 51 0.26
15 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTAATATTAAT
Found at i:375606 original size:63 final size:63
Alignment explanation
Indices: 375507--375731 Score: 398
Period size: 63 Copynumber: 3.6 Consensus size: 63
375497 AGGTTTTATA
* * * *
375507 TTTAATTTTAGATTTTAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAGTATTAATT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
375570 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
375633 TTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAATT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
375695 TCTTAATATTATATTATAGATATTAATTTTAATATTA
1 T-TTAATATTATATTATAGATATTAATTTTAATATTA
375732 TCTTAATATT
Statistics
Matches: 157, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
62 26 0.17
63 131 0.83
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (63 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
Found at i:375611 original size:39 final size:37
Alignment explanation
Indices: 375509--375731 Score: 135
Period size: 37 Copynumber: 5.9 Consensus size: 37
375499 GTTTTATATT
* *
375509 TAATTTTAGATTTTAGATATTAA-TTTTAATATTAATTTTT
1 TAATATTA-ATTTTA-ATATTAATTTTTAATATTAA--TTA
*
375549 TAA-A-TAA-ATTAAGTATTAATTTTTAATATTATATTA
1 TAATATTAATTTTAA-TATTAATTTTTAATATTA-ATTA
*
375585 TAGATATTAATTTTAATATTAATTTTTTAA-ATAAATTA
1 TA-ATATTAATTTTAATATTAA-TTTTTAATATTAATTA
* *
375623 -AATATTAATTTTTAATATT-ATATTATAGATATTAATTT
1 TAATATTAA-TTTTAATATTAAT-TTTTA-ATATTAATTA
* * *
375661 TAATATTAATTTTTAA-A-TAA-ATTAAATATTAATTTCT
1 TAATATTAA-TTTTAATATTAATTTTTAATATTAA-TT-A
*
375698 TAATATTATATTATAGATATTAA-TTTTAATATTA
1 TAATATTA-ATTTTA-ATATTAATTTTTAATATTA
375732 TCTTAATATT
Statistics
Matches: 149, Mismatches: 14, Indels: 40
0.73 0.07 0.20
Matches are distributed among these distances:
35 9 0.06
36 29 0.19
37 39 0.26
38 18 0.12
39 28 0.19
40 26 0.17
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (37 bp):
TAATATTAATTTTAATATTAATTTTTAATATTAATTA
Found at i:375764 original size:32 final size:34
Alignment explanation
Indices: 375564--375764 Score: 141
Period size: 32 Copynumber: 6.2 Consensus size: 34
375554 AAATTAAGTA
375564 TTAATT-T-TTAATATTATATTATAGATATTAATT
1 TTAATTATCTTAATATTATATTATA-ATATTAATT
* * * *
375597 TTAA-TA--TTAATTTTTTA-AATAA-ATTAAATA
1 TTAATTATCTTAATATTATATTATAATATT-AATT
375627 TTAATT-T-TTAATATTATATTATAGATATTAATT
1 TTAATTATCTTAATATTATATTATA-ATATTAATT
* * *
375660 TTAA-TA--TTAAT-TTTTA-AATAA-ATTAAATA
1 TTAATTATCTTAATATTATATTATAATATT-AATT
375689 TTAATT-TCTTAATATTATATTATAGATATTAATT
1 TTAATTATCTTAATATTATATTATA-ATATTAATT
*
375723 TTAATATTATCTTAATATTAT-TTAT-ATATTTATT
1 TT-A-ATTATCTTAATATTATATTATAATATTAATT
375757 TTAATTAT
1 TTAATTAT
375765 TTTGATTTAA
Statistics
Matches: 134, Mismatches: 15, Indels: 39
0.71 0.08 0.21
Matches are distributed among these distances:
28 3 0.02
29 11 0.08
30 12 0.09
31 22 0.16
32 28 0.21
33 16 0.12
34 19 0.14
35 4 0.03
36 7 0.05
37 12 0.09
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (34 bp):
TTAATTATCTTAATATTATATTATAATATTAATT
Found at i:376236 original size:31 final size:31
Alignment explanation
Indices: 376199--376257 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
376189 AGTTATATGG
*
376199 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
376230 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
376258 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGTAAAACTAAA
Found at i:376774 original size:29 final size:27
Alignment explanation
Indices: 376742--376840 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 27
376732 TAATATTTTT
*
376742 TTTATTCTTTCTTTTTTCATTGTCTTTGA
1 TTTATT-TTTTTTTTTTCATT-TCTTTGA
** *
376771 TTTATTTTTTTTCATTC-TATC-TT-A
1 TTTATTTTTTTTTTTTCATTTCTTTGA
376795 TTTATTTTATTTTTTTTC-TTTCTTTGA
1 TTTATTTT-TTTTTTTTCATTTCTTTGA
376822 TTTATTCTTTTTTATTTTC
1 TTTATT-TTTTTT-TTTTC
376841 TTATTTTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
24 9 0.16
25 12 0.21
26 4 0.07
27 12 0.21
28 15 0.26
29 6 0.10
ACGTcount: A:0.12, C:0.11, G:0.03, T:0.74
Consensus pattern (27 bp):
TTTATTTTTTTTTTTTCATTTCTTTGA
Found at i:376799 original size:4 final size:4
Alignment explanation
Indices: 376770--376988 Score: 79
Period size: 4 Copynumber: 54.0 Consensus size: 4
376760 ATTGTCTTTG
* * *
376770 ATTT ATTT -TTT -TTC ATTCT ATCTT ATTT ATTTT ATTTT TTTT CTTT
1 ATTT ATTT ATTT ATTT ATT-T AT-TT ATTT A-TTT A-TTT ATTT ATTT
* * *
376816 CTTT GATTT A-TT CTTT -TTT ATTT -TCTT ATTT -TTCA ATTT ATTT ATTT
1 ATTT -ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATT-T ATTT ATTT ATTT
*
376863 ATTT ATTT AATTT -TTCT -TTT CTTT ACTTT GATTTT ATTT A-TT -TTT
1 ATTT ATTT -ATTT ATT-T ATTT ATTT A-TTT -A-TTT ATTT ATTT ATTT
* * *
376908 ATTT TTTT ATTT ATTT ATGTT -TTT CTTTT GAATT A-TT ATTTT ATTT
1 ATTT ATTT ATTT ATTT AT-TT ATTT -ATTT -ATTT ATTT A-TTT ATTT
* *
376954 ATTT -TTT CTTT GATTT ATTT A-AT ATTT ATTT ATTT
1 ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT
376989 TTTGTCTAAC
Statistics
Matches: 171, Mismatches: 18, Indels: 52
0.71 0.07 0.22
Matches are distributed among these distances:
3 30 0.18
4 96 0.56
5 40 0.23
6 5 0.03
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:376917 original size:53 final size:50
Alignment explanation
Indices: 376792--376976 Score: 144
Period size: 53 Copynumber: 3.6 Consensus size: 50
376782 TCATTCTATC
* * * ** *
376792 TTATTTATTTTATTTTTTTTCTTTCTTTGATTTATTCTTTTTTATT-TTCTT
1 TTATTTATTTTA-TTTTTTTATTTATTTAATTT-TTCTTTTGAATTATTATT
* * **
376843 ATT-TTTCAATTTATTTATTTATTTATTTAATTTTTCTTTT-CTTTACTTTGATT
1 -TTATTT-ATTTTATTTTTTTATTTATTTAATTTTTCTTTTGAATTA--TT-ATT
*
376896 TTATTTATTTTTATTTTTTTATTTATTTATGTTTTTCTTTTGAATTATTATT
1 TTATTTA-TTTTATTTTTTTATTTATTTA-ATTTTTCTTTTGAATTATTATT
* *
376948 TTATTTATTTT-TTCTTTGATTTATTTAAT
1 TTATTTATTTTATTTTTTTATTTATTTAAT
376977 ATTTATTTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
49 3 0.03
50 21 0.19
51 23 0.21
52 22 0.20
53 26 0.24
54 10 0.09
55 3 0.03
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (50 bp):
TTATTTATTTTATTTTTTTATTTATTTAATTTTTCTTTTGAATTATTATT
Found at i:380708 original size:98 final size:95
Alignment explanation
Indices: 380447--380709 Score: 348
Period size: 95 Copynumber: 2.7 Consensus size: 95
380437 AGATTATAGT
* * * *
380447 ATTATATATATACAATAAAGTTTTAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
1 ATTATA-ATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
380512 TGGATAAAATTCAACTAGCCTGATAAAGGTG
65 TGGATAAAATTCAACTAGCCTGATAAAGGTG
* * *
380543 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAACTGGTTAAACGCCCCGGCTTTAT
1 ATTATAATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
* *
380608 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAAATTCAACTAGCCTGATAAAGGTG
* * * **
380638 ATTATAATACCTA-TATAATGATATTAAGTTGTCCCTCTAGAGCAATTGGTTAAAAGCCTTGGCT
1 ATTATAATA--TACAATAA--AGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
380702 TTATGGAT
62 TTATGGAT
380710 TCAGCTAGCC
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
95 91 0.61
96 10 0.07
97 2 0.01
98 45 0.30
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
GGATAAAATTCAACTAGCCTGATAAAGGTG
Found at i:381983 original size:84 final size:84
Alignment explanation
Indices: 381842--383305 Score: 1683
Period size: 84 Copynumber: 17.5 Consensus size: 84
381832 GAAACTATTG
* * * * *
381842 GCAGCATAACTCAAGGCGATAA-AGTATATCTGCCACCAAAAGACCTTCGAGTTCGACTACGTTC
1 GCAGCATAACTCAAGGCTAGAAGGGT-TATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
*
381906 AGCTCCAAGGCATATCATTT
65 AGCTCCAAGGCACATCATTT
* **
381926 GCAGCATAACTCAAAGCTAGAAGGGTTATCTGATAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
381991 GCTCCAAGGAACATTATTT
66 GCTCCAAGGCACATCATTT
* * * * * *
382010 GCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
382075 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* *
382094 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCTACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
382159 GCTTCGAGGGCACATCATTT
66 GC-TCCAAGGCACATCATTT
* ** * * * *
382179 ACAATATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAA-ACCTTCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
382243 GCT-CAAGGCACTTCATTT
66 GCTCCAAGGCACATCATTT
* * * * * *
382261 -CTAGCATAGCTTAAGGCAAGAAGGGTTATCTG-C--CAAAA-ACCTTTGAGTTCGATTACGCTA
1 GC-AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
382321 AGCTCCAAGGCACATCATTT
65 AGCTCCAAGGCACATCATTT
* * *
382341 GCATCATAACTCAAGGCTAGAAGGGTTA-CTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
382405 GCTCCAGGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * * * *
382424 GCATCATAGCTCAAGGCTAGAAGGGCTATTTGCCACCAAAAGACCTTTGAGTTTGACTACGTTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
382489 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
382508 GTAGCATAACTTAAGGCTAGAAGAGTTATCTGCCAACTAAAGACCTTCGGGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
382573 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * * *
382592 ACAGCATAACTCAAAGCTATAAGGGTTATCTGCCAACCAAAGGCCTTCGAGTTTGACTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
382657 ACTCCAAGGCACATTATTT
66 GCTCCAAGGCACATCATTT
* * * * * * *
382676 GTAACATAGCTAAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
382741 GCTCAAAGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* * *
382760 GTAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
382825 GCTCCAAGGTACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
382844 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAAAAAGACCTTCGCGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
382909 GCTCAAAGGCACAAT-ATTT
66 GCTCCAAGGCAC-ATCATTT
* * * * * *
382928 GCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGACTGCGTTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * *
382993 ACTCAAAGGCACATCATCT
66 GCTCCAAGGCACATCATTT
* * * ** * * * *
383012 ACAACATAAACTCAAGGATAGAAGGGTTATCTGCCATTAAAAGACCTTCAAGTTCGATTACACTT
1 GCAGCAT-AACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
* *
383077 AGCTCAAAGGCACACCATTT
65 AGCTCCAAGGCACATCATTT
* * * * *
383097 GCAGCATAGCTCAAGG-TGAGAA-GGCTATCTGCCACCAAAAGACCTTCGAGTTCAACTATGCTC
1 GCAGCATAACTCAAGGCT-AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
383160 AGCTCCAAGGCACATCATTT
65 AGCTCCAAGGCACATCATTT
* * * * * *
383180 GCAGTATAACTCAAGGCTAGAAAGGTTATCTGCCAACAACAGACCCTCGAGTTTGACTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
** *
383245 GCTTAAATGCACATCATTTT
66 GCTCCAAGGCACATCA-TTT
* * * **
383265 ACAGCATAGCTCAAGGCAAGAAGGGTTATCTGTTAACAAAA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAA
383306 TTGTCGAGTT
Statistics
Matches: 1163, Mismatches: 200, Indels: 33
0.83 0.14 0.02
Matches are distributed among these distances:
79 29 0.02
80 37 0.03
81 3 0.00
82 41 0.04
83 135 0.12
84 759 0.65
85 159 0.14
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTT
Found at i:384757 original size:24 final size:23
Alignment explanation
Indices: 384730--384810 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 23
384720 TTATTCTTTC
384730 TTTTTTCGCTTCTTTGATTTATTT
1 TTTTTTC-CTTCTTTGATTTATTT
*
384754 TTTTCATTCTATTC-TT-ATTTATTT
1 TTTT--TTC-CTTCTTTGATTTATTT
*
384778 TATTTTTCCTTTCTTTGATTTTTTCT
1 T-TTTTTCC-TTCTTTGATTTATT-T
384804 TTTTTTC
1 TTTTTTC
384811 TTTTCTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
23 6 0.13
24 15 0.33
25 17 0.37
26 8 0.17
ACGTcount: A:0.10, C:0.14, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTTTCCTTCTTTGATTTATTT
Found at i:384813 original size:24 final size:24
Alignment explanation
Indices: 384730--384813 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
384720 TTATTCTTTC
*
384730 TTTTTTCGCTTCTTTGATTTATTTT
1 TTTTTTC-TTTCTTTGATTTATTTT
*
384755 TTTCATTCTATTC-TT-ATTTATTTT
1 TTT-TTTCT-TTCTTTGATTTATTTT
*
384779 ATTTTTCCTTTCTTTGATTT-TTTCT
1 -TTTTTTCTTTCTTTGATTTATTT-T
384804 TTTTTTCTTT
1 TTTTTTCTTT
384814 TCTTATTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
23 3 0.06
24 26 0.54
25 13 0.27
26 6 0.12
ACGTcount: A:0.10, C:0.13, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTTCTTTGATTTATTTT
Found at i:384899 original size:36 final size:39
Alignment explanation
Indices: 384826--384924 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 39
384816 TTATTTTTCA
* * * * *
384826 ATTTATTTAAT-TTT-TCTTTTTTTTCTTTTTTCTTTTG
1 ATTTATTTAATATTTATATATTTTTTATTTATTCCTTTG
384863 ATTTA-TT-AT-TTTATATATTTTTTATTTATTCCTTTG
1 ATTTATTTAATATTTATATATTTTTTATTTATTCCTTTG
*
384899 ATTTATTTAATATTTATTTATTTTTT
1 ATTTATTTAATATTTATATATTTTTT
384925 TGTCTAACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
35 5 0.10
36 25 0.48
37 7 0.13
38 2 0.04
39 13 0.25
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (39 bp):
ATTTATTTAATATTTATATATTTTTTATTTATTCCTTTG
Found at i:385429 original size:3 final size:3
Alignment explanation
Indices: 385421--385608 Score: 279
Period size: 3 Copynumber: 61.7 Consensus size: 3
385411 TTTATCCATT
*
385421 TTA TTA TTA TTA TTA TTAA TT- TTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
385466 TTA TTA TCA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
385514 GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
385563 TTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TT
385609 TAATAAATAA
Statistics
Matches: 168, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
2 2 0.01
3 155 0.92
4 11 0.07
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:387753 original size:13 final size:15
Alignment explanation
Indices: 387722--387758 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
387712 ATATATGTTT
387722 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
387737 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
387750 TA-TTTATTT
1 TATTTTATTT
387759 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:398327 original size:1 final size:1
Alignment explanation
Indices: 398313--398382 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
398303 GCTTGAAGAG
* * * * * ** * * *
398313 AAAAAAGAAGAAAAAAGAAAAAAAAAATAGAAAATGAAAAAGAAAAAAAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
398378 AAAAA
1 AAAAA
398383 GGGGGTCAAG
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (1 bp):
A
Found at i:398346 original size:29 final size:29
Alignment explanation
Indices: 398314--398383 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
398304 CTTGAAGAGA
* *
398314 AAAAAGAAGAAA-AAAGAAAAAAAAAATAG
1 AAAAAGAA-AAAGAAAAAAAAAAAAAAAAG
*
398343 AAAATGAAAAAGAAAAAAAAAAAAAAAAG
1 AAAAAGAAAAAGAAAAAAAAAAAAAAAAG
398372 AAAAAGAAAAAG
1 AAAAAGAAAAAG
398384 GGGGTCAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (29 bp):
AAAAAGAAAAAGAAAAAAAAAAAAAAAAG
Found at i:398362 original size:35 final size:35
Alignment explanation
Indices: 398314--398381 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
398304 CTTGAAGAGA
* *
398314 AAAAAGAAGAAAAAAGAAAAAAA-AAATAGAAAATG
1 AAAAAGAA-AAAAAAAAAAAAAAGAAAAAGAAAATG
398349 AAAAAGAAAAAAAAAAAAAAAAGAAAAAGAAAA
1 AAAAAGAAAAAAAAAAAAAAAAGAAAAAGAAAA
398382 AGGGGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 13 0.43
35 17 0.57
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (35 bp):
AAAAAGAAAAAAAAAAAAAAAAGAAAAAGAAAATG
Found at i:398383 original size:6 final size:6
Alignment explanation
Indices: 398324--398383 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
398314 AAAAAGAAGA
* * *
398324 AAAAAG AAAAAA AAAATAG AAAATG AAAAAG AAAAA- AAAAAA AAAAAG
1 AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
398372 AAAAAG AAAAAG
1 AAAAAG AAAAAG
398384 GGGGTCAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 5 0.11
6 37 0.79
7 5 0.11
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:399402 original size:52 final size:52
Alignment explanation
Indices: 399324--400452 Score: 2154
Period size: 52 Copynumber: 21.7 Consensus size: 52
399314 TATGTGTTCA
399324 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
399376 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGATAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399428 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
399480 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGATAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
399532 ATAGCATCTTCTGGAAGTGTTCTCTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399584 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399636 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399688 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399740 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399792 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
399844 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGATAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399896 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
399948 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400000 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400052 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400104 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400156 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400208 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400260 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
400312 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
400364 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GTT-GATCATAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
*
400415 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
400453 CGAAAAAGTG
Statistics
Matches: 1060, Mismatches: 16, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
50 2 0.00
51 45 0.04
52 1013 0.96
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:401454 original size:113 final size:113
Alignment explanation
Indices: 401012--401684 Score: 1049
Period size: 113 Copynumber: 5.9 Consensus size: 113
401002 GATTCAAATT
* *
401012 CATCATTTGATGGATCATCATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
401077 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
*
401125 CATCATTTGATGGATCATTCTTTTCCAGAAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 CATCATTTGATGGATCA-TCATTTCCAG-AG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* ** * *
401190 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATT
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* ** *
401241 CATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
401306 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* *
401355 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
401420 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* *
401468 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* ** * *
401533 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* ** *
401581 CATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
*
401646 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
401685 GTTTGATATC
Statistics
Matches: 514, Mismatches: 41, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
113 237 0.46
114 175 0.34
115 7 0.01
116 95 0.18
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
Found at i:401474 original size:227 final size:226
Alignment explanation
Indices: 401007--401684 Score: 1059
Period size: 227 Copynumber: 3.0 Consensus size: 226
400997 GCAAAGATTC
* *
401007 AAATTCATCATTTGATGGATCATCATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
401072 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATG
401137 GATCATTCTTTTCCAGAAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
131 GATCA-TCTTTTCCAG-AG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* ***
401202 TCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
193 TCATAATGAGAAGAACTTGTTCAACCTTTTACCT
* * ** *
401236 AAATTCATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAA
1 AAATCCATCATTTGATGGATCATCATTACCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAA
*
401301 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGGT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGAT
401366 GGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
130 GGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
*
401431 ATAATGAGAAGAATTTGTTCAACCTTTTACCT
195 ATAATGAGAAGAACTTGTTCAACCTTTTACCT
* * * *
401463 GAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* ** * *
401528 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATG
* * ** *
401593 GATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
131 GATCATCTTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
*
401658 ATAATGAGAAGAGCTTGTTCAACCTTT
195 ATAATGAGAAGAACTTGTTCAACCTTT
401685 GTTTGATATC
Statistics
Matches: 415, Mismatches: 32, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
226 102 0.25
227 172 0.41
228 2 0.00
229 48 0.12
230 91 0.22
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (226 bp):
AAATCCATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATG
GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTACCT
Found at i:401635 original size:340 final size:343
Alignment explanation
Indices: 401012--401684 Score: 1253
Period size: 340 Copynumber: 2.0 Consensus size: 343
401002 GATTCAAATT
*
401012 CATCATTTGATGGATCATCATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
401077 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGATCA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCA
401142 TTCTTTTCCAGAAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
131 TTCTTTTCCAGAAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
401207 ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAA
196 ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAA
401272 AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
261 AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
401337 CAACCTTTTGCCTGAATC
326 CAACCTTTTGCCTGAATC
* * *
401355 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
401420 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCA
401485 -TCTTTTCCAG-AG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
131 TTCTTTTCCAGAAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
401547 ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAA
196 ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAA
*
401612 AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
261 AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
401677 CAACCTTT
326 CAACCTTT
401685 GTTTGATATC
Statistics
Matches: 322, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
340 187 0.58
341 2 0.01
342 10 0.03
343 123 0.38
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (343 bp):
CATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCA
TTCTTTTCCAGAAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAA
AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCCTGAATC
Found at i:401989 original size:3 final size:3
Alignment explanation
Indices: 401981--402155 Score: 237
Period size: 3 Copynumber: 57.7 Consensus size: 3
401971 TTTATCCATT
*
401981 TTA TTA TTA TTA TTA TTAA TT- TTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
402026 TTA TTA TCA TTA TTA ATA ATA TTA TTA TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
402074 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
402120 TTA TTA ATA TTA TATA TTA TTA -TA TATA TTA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TT
402156 TTAATAAATA
Statistics
Matches: 154, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
2 4 0.03
3 138 0.90
4 12 0.08
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:410771 original size:3 final size:3
Alignment explanation
Indices: 410765--410798 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
410755 TTACTACTTG
*
410765 TAA TAA TCA TATA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
410799 ACTTAGAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:414365 original size:20 final size:18
Alignment explanation
Indices: 414327--414364 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
414317 CATTTTTTTT
*
414327 TCATTTTTTTCTTCTCTC
1 TCATTTTTTCCTTCTCTC
414345 TCATTTTTTCCTTCTCTC
1 TCATTTTTTCCTTCTCTC
414363 TC
1 TC
414365 TAAAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (18 bp):
TCATTTTTTCCTTCTCTC
Found at i:415836 original size:134 final size:134
Alignment explanation
Indices: 415487--415930 Score: 638
Period size: 134 Copynumber: 3.3 Consensus size: 134
415477 TAAATCAAGG
* * *
415487 TTGATTTGCTTCACTGCTATTCAGGAAGATCAAATCTGAAAGAAGAAGAATCTACTCCACTACTC
1 TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
* * * * * *
415552 TTTAGGTGAGATCAGACTCGAGAAATCTTCGATCCACTTTGTTGCTCTTCAAGAAAGATTGAATC
66 TTTAGGGGAGATCAGACTCGAGAAATCTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC
*
415617 GAAC
131 GAAT
* * * * *
415621 TTGATTTACTTCGCTGCTCATCA-GAAGACCAAATATGAAAGAAGAAGAATCTGTTCCACTACTC
1 TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
* * * * *
415685 TTTAGGGGAGATTAGACTCAAGAAATCTTTGATCCACTTCGCTGCTTTTCAGGGAAGAGTGAATT
66 TTTAGGGGAGATCAGACTCGAGAAATCTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC
415750 GAAT
131 GAAT
* * *
415754 TTGATTTGTTTCGCTGCTCTTCAGGAAAACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
1 TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
*
415819 TTTAGGGGATATCAGACTCGAGAAATCTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC
66 TTTAGGGGAGATCAGACTCGAGAAATCTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC
415884 GAAT
131 GAAT
* * *
415888 TTGATTTGCTTCACTACTCTTCAGGAATACCAAATCTAAAAGA
1 TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGA
415931 TTAACTCCAC
Statistics
Matches: 272, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
133 114 0.42
134 158 0.58
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (134 bp):
TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
TTTAGGGGAGATCAGACTCGAGAAATCTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC
GAAT
Found at i:415995 original size:45 final size:45
Alignment explanation
Indices: 415946--416049 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
415936 TCCACGTCGC
* * * *
415946 GAGAAAGTCAAGAAGGATAATACTAAAATATTGACTCCTCTTCAA
1 GAGAAAGTCAAGAAAGATAACACTAAAATATGGACTCCTCTGCAA
*
415991 GAGAAAGTCAAGAAAGATAACACTAAAATATGGACTCCTCTGCAC
1 GAGAAAGTCAAGAAAGATAACACTAAAATATGGACTCCTCTGCAA
416036 GAGAAAGTCAAGAA
1 GAGAAAGTCAAGAA
416050 TAACAAAGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.19
Consensus pattern (45 bp):
GAGAAAGTCAAGAAAGATAACACTAAAATATGGACTCCTCTGCAA
Found at i:416082 original size:26 final size:26
Alignment explanation
Indices: 416046--416097 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
416036 GAGAAAGTCA
*
416046 AGAATAACAAAGACTGACTTCTCTTC
1 AGAATAACAAAGACTGACTCCTCTTC
* *
416072 AGAATAACAAATATTGACTCCTCTTC
1 AGAATAACAAAGACTGACTCCTCTTC
416098 GCAAGAGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (26 bp):
AGAATAACAAAGACTGACTCCTCTTC
Found at i:416117 original size:64 final size:64
Alignment explanation
Indices: 416016--416136 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
416006 GATAACACTA
*
416016 AAATATGGACTCCTCTGCACGAGAAAGTCAAGAATAACAAAGACTGACTTCTCTTCAGAATAAC
1 AAATATGGACTCCTCTGCACAAGAAAGTCAAGAATAACAAAGACTGACTTCTCTTCAGAATAAC
* * * * * * *
416080 AAATATTGACTCCTCTTCGCAAGAGAGTCAAGGATAACAAAGATTGATTTCTCTTCA
1 AAATATGGACTCCTCTGCACAAGAAAGTCAAGAATAACAAAGACTGACTTCTCTTCA
416137 CGAGGAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (64 bp):
AAATATGGACTCCTCTGCACAAGAAAGTCAAGAATAACAAAGACTGACTTCTCTTCAGAATAAC
Found at i:416126 original size:38 final size:38
Alignment explanation
Indices: 416072--416620 Score: 623
Period size: 38 Copynumber: 14.4 Consensus size: 38
416062 ACTTCTCTTC
* * *
416072 AGAATAACAAATATTGACTCCTCTTCGCAA-GAGAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGA-AGTCA
* * *
416110 AGGATAACAAAGATTGATTTCTCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* **
416148 AGAATAACAAAGATTGACTTTTCTTCATTAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * *
416186 AGAATAACAAAGACTGACTTCTCTTCAAAAGGTAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * * *
416224 AGAATAACAAAGACTAACTTCTCTTCACGAGGAACTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * * ** *
416262 AGAATAACAAAGATTGTCCTCTTTTCATGAGGAAGTTA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* *
416300 GGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* ** * *
416338 AGAATAAAAAAGATTGACTTCTCTGAACGAGGAAATCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* *
416376 AGAATAACAAAGATTGGCTTCTCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * ** *
416414 AGAATAATAAAAATTGACTTCTCTTCATGAGGAAGTTA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * **
416452 AGAATAACATAGATTAACTTCTCTTCATGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * * * *
416490 AGAATAAAAAATATTAACTTATCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
*
416528 AGAATAACAAAGATTGACTTCTCTTTACAAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
* * * *
416566 AGAATAAAAAATATTGACTTCTCTTCGCGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
*
416604 AGAATAACAACGATTGA
1 AGAATAACAAAGATTGA
416621 AAATTAACTC
Statistics
Matches: 436, Mismatches: 74, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
38 434 1.00
39 2 0.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (38 bp):
AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCA
Found at i:416198 original size:76 final size:76
Alignment explanation
Indices: 416072--416620 Score: 688
Period size: 76 Copynumber: 7.2 Consensus size: 76
416062 ACTTCTCTTC
* * * * * * *
416072 AGAATAACAAATATTGACTCCTCTTCGC-AAGAGAGTCAAGGATAACAAAGATTGATTTCTCTTC
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAAAAAAGATTGACTTCTCTTC
416136 ACGAGGAAGTCA
65 ACGAGGAAGTCA
* ** * *
416148 AGAATAACAAAGATTGACTTTTCTTCATTAGGAAGTCAAGAATAACAAAGACTGACTTCTCTTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCA
** *
416213 AAAGGTAGTCA
66 CGAGGAAGTCA
* * * * * * *
416224 AGAATAACAAAGACTAACTTCTCTTCACGAGGAACTCAAGAATAACAAAGATTGTCCTCTTTTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCA
* *
416289 TGAGGAAGTTA
66 CGAGGAAGTCA
* **
416300 GGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTGAA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCA
*
416365 CGAGGAAATCA
66 CGAGGAAGTCA
*
416376 AGAATAACAAAGATTGGCTTCTCTTCACGAGGAAGTCAAGAATAATAAAA-ATTGACTTCTCTTC
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA-AAAAGATTGACTTCTCTTC
* *
416440 ATGAGGAAGTTA
65 ACGAGGAAGTCA
* * * * * *
416452 AGAATAACATAGATTAACTTCTCTTCATGAGGAAGTCAAGAATAAAAAATATTAACTTATCTTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCA
416517 CGAGGAAGTCA
66 CGAGGAAGTCA
* * * *
416528 AGAATAACAAAGATTGACTTCTCTTTACAAGGAAGTCAAGAATAAAAAATATTGACTTCTCTTCG
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCA
416593 CGAGGAAGTCA
66 CGAGGAAGTCA
*
416604 AGAATAACAACGATTGA
1 AGAATAACAAAGATTGA
416621 AAATTAACTC
Statistics
Matches: 407, Mismatches: 63, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
75 4 0.01
76 396 0.97
77 7 0.02
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (76 bp):
AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCA
CGAGGAAGTCA
Found at i:416272 original size:114 final size:114
Alignment explanation
Indices: 416072--416620 Score: 688
Period size: 114 Copynumber: 4.8 Consensus size: 114
416062 ACTTCTCTTC
* * * * *
416072 AGAATAACAAATATTGACTCCTCTTCGCAA-GAGAGTCAAGGATAACAAAGATTGATTTCTCTTC
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGA-AGTCAAGAATAACAAAGATTGACTTCTCTTC
**
416136 ACGAGGAAGTCAAGAATAACAAAGATTGACTTTTCTTCATTAGGAAGTCA
65 ACGAGGAAGTCAAGAATAACAAAGATTGACTTTTCTTCACGAGGAAGTCA
* * * * *
416186 AGAATAACAAAGACTGACTTCTCTTCAAAAGGTAGTCAAGAATAACAAAGACTAACTTCTCTTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCA
* * * * *
416251 CGAGGAACTCAAGAATAACAAAGATTGTCCTCTT-TTCATGAGGAAGTTA
66 CGAGGAAGTCAAGAATAACAAAGATTG-ACTTTTCTTCACGAGGAAGTCA
* * * **
416300 GGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTGAA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCA
* * *
416365 CGAGGAAATCAAGAATAACAAAGATTGGCTTCTCTTCACGAGGAAGTCA
66 CGAGGAAGTCAAGAATAACAAAGATTGACTTTTCTTCACGAGGAAGTCA
* * ** * * *
416414 AGAATAATAAAAATTGACTTCTCTTCATGAGGAAGTTAAGAATAACATAGATTAACTTCTCTTCA
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCA
* * * * *
416479 TGAGGAAGTCAAGAATAAAAAATATTAACTTATCTTCACGAGGAAGTCA
66 CGAGGAAGTCAAGAATAACAAAGATTGACTTTTCTTCACGAGGAAGTCA
* * * *
416528 AGAATAACAAAGATTGACTTCTCTTTACAAGGAAGTCAAGAATAAAAAATATTGACTTCTCTTCG
1 AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCA
*
416593 CGAGGAAGTCAAGAATAACAACGATTGA
66 CGAGGAAGTCAAGAATAACAAAGATTGA
416621 AAATTAACTC
Statistics
Matches: 368, Mismatches: 64, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
113 3 0.01
114 360 0.98
115 5 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (114 bp):
AGAATAACAAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCA
CGAGGAAGTCAAGAATAACAAAGATTGACTTTTCTTCACGAGGAAGTCA
Found at i:418081 original size:17 final size:18
Alignment explanation
Indices: 418059--418096 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
418049 AATAATTTTG
418059 AAAAAATTC-AAAATTTA
1 AAAAAATTCAAAAATTTA
418076 AAAAAATTCAAAAATTTA
1 AAAAAATTCAAAAATTTA
418094 AAA
1 AAA
418097 TAGTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATTCAAAAATTTA
Found at i:419754 original size:28 final size:28
Alignment explanation
Indices: 419698--419754 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
419688 CAAAACATTT
*
419698 TAGATGAATTAAGGGAAAACTGGTGCCA
1 TAGATGAATTAAGGGAAAACTAGTGCCA
* * *
419726 TAGATGAATTAGGGGACAACTAGTTCCA
1 TAGATGAATTAAGGGAAAACTAGTGCCA
419754 T
1 T
419755 CATATTTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (28 bp):
TAGATGAATTAAGGGAAAACTAGTGCCA
Found at i:426906 original size:13 final size:13
Alignment explanation
Indices: 426888--426935 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
426878 AATGACGCGC
426888 AATGAGCGTCATA
1 AATGAGCGTCATA
426901 AATGAGCGTCATA
1 AATGAGCGTCATA
426914 AAT-ACGCGTCATA
1 AATGA-GCGTCATA
*
426927 AATGTGCGT
1 AATGAGCGT
426936 ATAGATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 1 0.03
13 31 0.97
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (13 bp):
AATGAGCGTCATA
Found at i:430710 original size:21 final size:21
Alignment explanation
Indices: 430680--430724 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
430670 TTCTTCGTGA
*
430680 CTGCCGTATTACAGAAGGTTT
1 CTGCCATATTACAGAAGGTTT
430701 CTGCCATATTACAGAAGGTTT
1 CTGCCATATTACAGAAGGTTT
430722 CTG
1 CTG
430725 ACTACAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (21 bp):
CTGCCATATTACAGAAGGTTT
Found at i:431576 original size:14 final size:14
Alignment explanation
Indices: 431557--431583 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
431547 GATTTGTAGA
431557 ATATATATATAATG
1 ATATATATATAATG
431571 ATATATATATAAT
1 ATATATATATAAT
431584 ATAAACTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
ATATATATATAATG
Found at i:432928 original size:14 final size:15
Alignment explanation
Indices: 432909--432953 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
432899 TGATTTGTAA
432909 AAATAATAA-AATAT
1 AAATAATAATAATAT
432923 AAATAATAATAATA-
1 AAATAATAATAATAT
* *
432937 ATATTATAATAA-AT
1 AAATAATAATAATAT
432951 AAA
1 AAA
432954 ATCCGAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 21 0.81
15 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAATAATAATAT
Found at i:432932 original size:17 final size:17
Alignment explanation
Indices: 432906--432955 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
432896 CGTTGATTTG
432906 TAAA-AATAATAAAATA
1 TAAATAATAATAAAATA
432922 TAAATAATAATAATAATA
1 TAAATAATAATAA-AATA
*
432940 T-TATAATAAATAAAAT
1 TAAATAAT-AATAAAAT
432956 CCGAACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.13
17 16 0.53
18 10 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATAATAATAAAATA
Found at i:446186 original size:25 final size:23
Alignment explanation
Indices: 446157--446265 Score: 82
Period size: 25 Copynumber: 4.7 Consensus size: 23
446147 TTGAAAAAGA
446157 TTGATGAAGAAGTTTTAACAAATGT
1 TTGATGAAGAA-TTTTAA-AAATGT
* * * * *
446182 TTGATAAAAAAAATTGAAAAATAT
1 TTGAT-GAAGAATTTTAAAAATGT
*
446206 TTGATG--GAATTTTAAAAAAAGT
1 TTGATGAAGAATTTT-AAAAATGT
446228 TTGATGAATGAATTTTGAAAAATGT
1 TTGATGAA-GAATTTT-AAAAATGT
446253 TTGAT-AA-AATTTT
1 TTGATGAAGAATTTT
446266 TGAAAAATAC
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.06
22 18 0.27
24 12 0.18
25 28 0.42
26 4 0.06
ACGTcount: A:0.46, C:0.01, G:0.16, T:0.38
Consensus pattern (23 bp):
TTGATGAAGAATTTTAAAAATGT
Found at i:446230 original size:46 final size:47
Alignment explanation
Indices: 446142--446232 Score: 114
Period size: 46 Copynumber: 1.9 Consensus size: 47
446132 TTTTATTTTC
* * *
446142 AAAAGTTGAAAAAGATTGATGAAGAAGTTTTAACAAATGTTTGATAAA
1 AAAAATTGAAAAAGATTGATG-AGAAGTTTTAAAAAAAGTTTGATAAA
*
446190 AAAAATTGAAAAATATTTGATG-GAA-TTTTAAAAAAAGTTTGAT
1 AAAAATTGAAAAAGA-TTGATGAGAAGTTTTAAAAAAAGTTTGAT
446233 GAATGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 16 0.42
47 3 0.08
48 13 0.34
49 6 0.16
ACGTcount: A:0.51, C:0.01, G:0.16, T:0.32
Consensus pattern (47 bp):
AAAAATTGAAAAAGATTGATGAGAAGTTTTAAAAAAAGTTTGATAAA
Found at i:446256 original size:47 final size:48
Alignment explanation
Indices: 446195--446297 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
446185 ATAAAAAAAA
** *
446195 TTGAAAAATATTTGATGGAA-TTTT-AAAAAAAGTTTGATG-AATGAATT
1 TTGAAAAATATTTGATAAAATTTTTGAAAAAAACTTT-ATGTAAT-AATT
* *
446242 TTGAAAAATGTTTGATAAAATTTTTGAAAAATACTTTATGTAATAATT
1 TTGAAAAATATTTGATAAAATTTTTGAAAAAAACTTTATGTAATAATT
446290 TTGAAAAA
1 TTGAAAAA
446298 AATGGTACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
47 17 0.35
48 19 0.40
49 12 0.25
ACGTcount: A:0.46, C:0.01, G:0.14, T:0.40
Consensus pattern (48 bp):
TTGAAAAATATTTGATAAAATTTTTGAAAAAAACTTTATGTAATAATT
Found at i:446267 original size:12 final size:11
Alignment explanation
Indices: 446240--446273 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
446230 GATGAATGAA
446240 TTTTGAAAAAT
1 TTTTGAAAAAT
*
446251 GTTTGATAAAAT
1 TTTTGA-AAAAT
446263 TTTTGAAAAAT
1 TTTTGAAAAAT
446274 ACTTTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (11 bp):
TTTTGAAAAAT
Found at i:457388 original size:13 final size:13
Alignment explanation
Indices: 457370--457394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
457360 ATTTAAACAT
457370 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
457383 AGAAAGAAAAAA
1 AGAAAGAAAAAA
457395 GGTTTAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAA
Found at i:462157 original size:31 final size:31
Alignment explanation
Indices: 462120--462202 Score: 139
Period size: 31 Copynumber: 2.6 Consensus size: 31
462110 GGACTTGCAA
*
462120 AATAATAAAATAAATAAATGATATTATATAT
1 AATAATAAAATAAATAAATGAAATTATATAT
462151 AATAATAAAATAAATAAATGAAATTATATAT
1 AATAATAAAATAAATAAATGAAATTATATAT
462182 AATAATAAAAATAAAATAAAT
1 AATAAT-AAAAT-AAATAAAT
462203 AAAAAGTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 36 0.73
32 5 0.10
33 8 0.16
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.31
Consensus pattern (31 bp):
AATAATAAAATAAATAAATGAAATTATATAT
Found at i:471009 original size:3 final size:3
Alignment explanation
Indices: 471001--471081 Score: 112
Period size: 3 Copynumber: 26.7 Consensus size: 3
470991 GTAACCTAAA
*
471001 AAT AAT AAT AA- AATT AGT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
471047 AAT AAT ATAT AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
471082 AACCCAGACA
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
2 4 0.06
3 61 0.86
4 6 0.08
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:471477 original size:137 final size:134
Alignment explanation
Indices: 471267--471538 Score: 382
Period size: 137 Copynumber: 2.0 Consensus size: 134
471257 TAGGTAAATT
* * * ** **
471267 TGGAGATAACATGGTTCTACGTGATGAGGAAACCTGACTATCTAAGGATGTGCTTCTCCTACGTG
1 TGGAGATAACACGGTTCTACGCGATGAGGAAACCAGACTATCTAAGGATGCACGACTCCTACGTG
* * * *
471332 ATGTGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACATGGTTCCCACGTGATGAGG-CGTCTAGCCATCTTTAGG
471397 GATAA
130 GATAA
* ** *
471402 TGGAGATAACACGGTTCCTACGCGATGATGAAGTCAGACTATCTAAGGATGACACGACTCCTATG
1 TGGAGATAACACGGTT-CTACGCGATGAGGAAACCAGACTATCTAAGGATG-CACGACTCCTACG
471467 TGATGAGGAGATCTGGTCGGTGGATGACATGGTTCCCACGTGATGAGGCGTCTAGCCATCTTTAG
64 TGATGAGGAGATCTGGTCGGTGGATGACATGGTTCCCACGTGATGAGGCGTCTAGCCATCTTTAG
471532 GGATAA
129 GGATAA
471538 T
1 T
471539 TTGTTTCAAG
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
135 15 0.12
136 52 0.43
137 53 0.44
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (134 bp):
TGGAGATAACACGGTTCTACGCGATGAGGAAACCAGACTATCTAAGGATGCACGACTCCTACGTG
ATGAGGAGATCTGGTCGGTGGATGACATGGTTCCCACGTGATGAGGCGTCTAGCCATCTTTAGGG
ATAA
Found at i:471649 original size:67 final size:67
Alignment explanation
Indices: 471540--471865 Score: 408
Period size: 67 Copynumber: 4.9 Consensus size: 67
471530 AGGGATAATT
* * * * * *
471540 TGTTTCAAGAGAAACTATCTCAAGTGAGAAAAAATTTTTTTCAAGGGAAACAATCTTAATGTTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAATGTTTT
471605 TA
66 TA
* *
471607 TGTTTCAAGAGAATCTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAATGTTTT
471672 TA
66 TA
* * * *
471674 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGATAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAATGTTTT
471739 TA
66 TA
* * *
471741 TGTTTAAAGATAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAATG--T
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTC-AATGTTT
*
471804 TTG
65 TTA
* * ** *
471807 TGTCTT-AAG-GAAGACTGTCTCAAGTGAGACGAAATTTGTTTTGAGAAAAACAATCTCAA
1 TGT-TTCAAGAGAA-ACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAA
471866 GTGAAACAAA
Statistics
Matches: 232, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
65 4 0.02
66 47 0.20
67 178 0.77
68 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAATGTTTT
TA
Found at i:471731 original size:36 final size:36
Alignment explanation
Indices: 471607--471799 Score: 118
Period size: 36 Copynumber: 5.6 Consensus size: 36
471597 AATGTTTTTA
* ** *
471607 TGTTTCAAGAGAATCTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACT
* * *****
471643 TGTTTCAAGGGAAACAATCTC-A-A-TGTTTTTA--
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACT
**
471674 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACT
* ****
471710 TGTTTCAAGATAAACAATCTCAA-AG-G-TTTTA--
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACT
* * **
471741 TGTTTAAAGATAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACT
471777 TGTTTCAAGAGAAACAATCTCAA
1 TGTTTCAAGAGAAACAATCTCAA
471800 ATGTTTGTGT
Statistics
Matches: 110, Mismatches: 37, Indels: 20
0.66 0.22 0.12
Matches are distributed among these distances:
31 38 0.35
32 3 0.03
33 5 0.05
34 5 0.05
35 3 0.03
36 56 0.51
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACT
Found at i:471785 original size:21 final size:20
Alignment explanation
Indices: 471752--471793 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
471742 GTTTAAAGAT
*
471752 AAACTGTCTCAAGAGAGACA
1 AAACTGTCTCAAGAGAAACA
*
471772 AAACTTGTTTCAAGAGAAACA
1 AAAC-TGTCTCAAGAGAAACA
471793 A
1 A
471794 TCTCAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (20 bp):
AAACTGTCTCAAGAGAAACA
Found at i:475445 original size:23 final size:23
Alignment explanation
Indices: 475403--475487 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 23
475393 GGTTCTACGC
* **
475403 GGTCCTTCAGGACAAATCTATGT
1 GGTCCTTCGGGACATTTCTATGT
*
475426 GGTCCTTCGGGACATTTCTACGTACTAT
1 GGTCCTTCGGGACA-TT-T-C-TA-TGT
475454 GCGTCCTTCGGGACATTTCTATGT
1 G-GTCCTTCGGGACATTTCTATGT
475478 GG-CACTTCGG
1 GGTC-CTTCGG
475488 TGCATATTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
22 1 0.02
23 20 0.40
24 3 0.06
25 3 0.06
26 2 0.04
27 3 0.06
28 5 0.10
29 13 0.26
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTATGT
Found at i:481443 original size:13 final size:13
Alignment explanation
Indices: 481425--481449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
481415 TAATATAAAA
481425 TAATTAAAAATAT
1 TAATTAAAAATAT
481438 TAATTAAAAATA
1 TAATTAAAAATA
481450 GAAGTTAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATTAAAAATAT
Done.