Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015082.1 Kokia drynarioides strain JFW-HI SEQ_130126, 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: 435845
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Warning! 986 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3223 original size:248 final size:247
Alignment explanation
Indices: 2767--3266 Score: 923
Period size: 248 Copynumber: 2.0 Consensus size: 247
2757 TCATAAAATT
2767 ATTTACCGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
1 ATTTACCGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
* *
2832 TCGTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGGTGTTTAGGGGCCCAAATT
66 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGGTGTTTAGCGGCCCAAATT
*
2897 GCTTTTTGAGTTGTCTTGTTTTATTGCATCTTCCTTAGCATAAATGTGTACCTCTTCTTTTAATT
131 GCTTTTTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTC-TCTTTTAATT
2962 ATTACAATTTTAGAAAATTTAAGGCGTAGATTTTTATCTTATTTATTAGTTAC
195 ATTACAATTTTAGAAAATTTAAGGCGTAGATTTTTATCTTATTTATTAGTTAC
3015 ATTTACCGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
1 ATTTACCGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
3080 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGGTGTTTTAGCGGCCCAAAT
66 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGGTG-TTTAGCGGCCCAAAT
3145 TGCTTTTTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTC-CTTTTAA-T
130 TGCTTTTTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTCTCTTTTAATT
3208 ATTACAATTTTTTAGAAAATTTAAGGCGTAGATTTTTATCTTATTTATTAGTTAC
195 ATTACAA--TTTTAGAAAATTTAAGGCGTAGATTTTTATCTTATTTATTAGTTAC
3263 ATTT
1 ATTT
3267 TTTTGTTTTG
Statistics
Matches: 246, Mismatches: 3, Indels: 6
0.96 0.01 0.02
Matches are distributed among these distances:
246 8 0.03
247 7 0.03
248 163 0.66
249 68 0.28
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (247 bp):
ATTTACCGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGGTGTTTAGCGGCCCAAATT
GCTTTTTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTCTCTTTTAATTA
TTACAATTTTAGAAAATTTAAGGCGTAGATTTTTATCTTATTTATTAGTTAC
Found at i:4208 original size:64 final size:64
Alignment explanation
Indices: 4135--4263 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
4125 AACACTATAC
4135 CAGTGGATTTACCTTTTTTGTTCTGGTATTGGTACGTGTATATCGGTGTGTTTACGCATACCAT
1 CAGTGGATTTACCTTTTTTGTTCTGGTATTGGTACGTGTATATCGGTGTGTTTACGCATACCAT
4199 CAGTGGATTTACCTTTTTTGTTCTGGTATTGGTACGTGTATATCGGTGTGTTTACGCATACCAT
1 CAGTGGATTTACCTTTTTTGTTCTGGTATTGGTACGTGTATATCGGTGTGTTTACGCATACCAT
4263 C
1 C
4264 TTTTATATCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.43
Consensus pattern (64 bp):
CAGTGGATTTACCTTTTTTGTTCTGGTATTGGTACGTGTATATCGGTGTGTTTACGCATACCAT
Found at i:27066 original size:32 final size:33
Alignment explanation
Indices: 27017--27093 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 33
27007 GCAGATAGAA
**
27017 TGTT-CAGTAAATTAAGAT-AAAGCATAAGCAT
1 TGTTGCAGTAAAAAAAGATAAAAGCATAAGCAT
27048 TGTTGCAGTAAAAAAAGATAAAAAGCATAAGCAT
1 TGTTGCAGTAAAAAAAGAT-AAAAGCATAAGCAT
*
27082 CGTTGCAGTAAA
1 TGTTGCAGTAAA
27094 TTTCTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 4 0.10
32 12 0.30
34 24 0.60
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (33 bp):
TGTTGCAGTAAAAAAAGATAAAAGCATAAGCAT
Found at i:27656 original size:33 final size:33
Alignment explanation
Indices: 27614--27682 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
27604 CTCCAAATGG
27614 TTAGCTATATCTTAAACATTAAGTCTGAAAATT
1 TTAGCTATATCTTAAACATTAAGTCTGAAAATT
27647 TTAGCTATATCTTAAACATTAAGTCTGAAAATT
1 TTAGCTATATCTTAAACATTAAGTCTGAAAATT
27680 TTA
1 TTA
27683 AGTACCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.41
Consensus pattern (33 bp):
TTAGCTATATCTTAAACATTAAGTCTGAAAATT
Found at i:34450 original size:16 final size:16
Alignment explanation
Indices: 34411--34462 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
34401 TGTGGATGTT
34411 AAAATTTT-AATAAAA
1 AAAATTTTAAATAAAA
34426 ATTAAATTTTAAATAAAA
1 A--AAATTTTAAATAAAA
*
34444 AAAATTTTATATAAAA
1 AAAATTTTAAATAAAA
34460 AAA
1 AAA
34463 TATCGGTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 1 0.03
16 17 0.52
17 7 0.21
18 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTTTAAATAAAA
Found at i:35050 original size:22 final size:22
Alignment explanation
Indices: 35025--35066 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35015 CATGACCAAT
35025 TTGATAAAATATATAATTATTG
1 TTGATAAAATATATAATTATTG
* *
35047 TTGATTAAATATATTATTAT
1 TTGATAAAATATATAATTAT
35067 AGTAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
TTGATAAAATATATAATTATTG
Found at i:39050 original size:30 final size:31
Alignment explanation
Indices: 38992--39058 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
38982 TGACGGAAAA
38992 GGACTGTTTTGTCACATTTTCAAAAGTTGAG
1 GGACTGTTTTGTCACATTTTCAAAAGTTGAG
39023 GGACTGTTTTGTCACATTTTC-AAAGTTGAG
1 GGACTGTTTTGTCACATTTTCAAAAGTTGAG
39053 GGACTG
1 GGACTG
39059 AAATGTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 15 0.42
31 21 0.58
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.37
Consensus pattern (31 bp):
GGACTGTTTTGTCACATTTTCAAAAGTTGAG
Found at i:39846 original size:2 final size:2
Alignment explanation
Indices: 39839--39866 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39829 CATTCAACCA
39839 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
39867 CAACTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:51294 original size:16 final size:18
Alignment explanation
Indices: 51262--51294 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
51252 GACAGAAAGC
51262 TTAATCATTGAAAGAAAA
1 TTAATCATTGAAAGAAAA
51280 TTAA-CATTG-AAGAAA
1 TTAATCATTGAAAGAAA
51295 GGAGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (18 bp):
TTAATCATTGAAAGAAAA
Found at i:59573 original size:19 final size:19
Alignment explanation
Indices: 59549--59588 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
59539 TCGTAAGTAT
59549 CTCAAAATCCACTGAACTA
1 CTCAAAATCCACTGAACTA
59568 CTCAAAATCCACTGAACTA
1 CTCAAAATCCACTGAACTA
59587 CT
1 CT
59589 TTTCAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.23
Consensus pattern (19 bp):
CTCAAAATCCACTGAACTA
Found at i:63245 original size:48 final size:48
Alignment explanation
Indices: 63187--63282 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
63177 TATAATTTAT
63187 TTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAATAA
1 TTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAATAA
* *
63235 TTGGATTTTACTTTTATTTTATTTTATCACTGTATTTTATTTTAATAA
1 TTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAATAA
63283 AAATTCTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.60
Consensus pattern (48 bp):
TTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAATAA
Found at i:82922 original size:33 final size:33
Alignment explanation
Indices: 82877--82943 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
82867 AATAAAAAAG
82877 AGAGTAGAATATTTACAGTCCAAAACAACGTTA
1 AGAGTAGAATATTTACAGTCCAAAACAACGTTA
* *
82910 AGAGTAGCATATTTACAGTCCAAAACAATGTTA
1 AGAGTAGAATATTTACAGTCCAAAACAACGTTA
82943 A
1 A
82944 AATAAAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (33 bp):
AGAGTAGAATATTTACAGTCCAAAACAACGTTA
Found at i:96424 original size:25 final size:25
Alignment explanation
Indices: 96374--96423 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
96364 AATGGCCAAA
*
96374 TATATATTAGTATTTGTTAATTTTT
1 TATATATTAATATTTGTTAATTTTT
96399 TATATATTAATATTT-TTAATTTTT
1 TATATATTAATATTTGTTAATTTTT
96423 T
1 T
96424 TGTATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (25 bp):
TATATATTAATATTTGTTAATTTTT
Found at i:96769 original size:21 final size:21
Alignment explanation
Indices: 96726--96772 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
96716 TGGAATAATA
* *
96726 TTAATAATTTTATATTAATAT
1 TTAAAAATTTTATATTAACAT
96747 TTAAAAATTTTATTATT-ACAT
1 TTAAAAATTTTA-TATTAACAT
96768 TTAAA
1 TTAAA
96773 TAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAAATTTTATATTAACAT
Found at i:103692 original size:23 final size:23
Alignment explanation
Indices: 103666--103710 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
103656 AAGTTTTTTT
103666 AAATTTATTTTCAAT-TTTTTAGG
1 AAATTT-TTTTCAATGTTTTTAGG
*
103689 AAATTTTTTTTAATGTTTTTAG
1 AAATTTTTTTCAATGTTTTTAG
103711 TGTATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (23 bp):
AAATTTTTTTCAATGTTTTTAGG
Found at i:109172 original size:27 final size:27
Alignment explanation
Indices: 109132--109187 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
109122 ATCGCTGTGT
109132 TTAGGCATACCATCTTTTATACGAGTA
1 TTAGGCATACCATCTTTTATACGAGTA
* *
109159 TTAGGCATATCATCTTTTATATGAGTA
1 TTAGGCATACCATCTTTTATACGAGTA
109186 TT
1 TT
109188 TTTCAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (27 bp):
TTAGGCATACCATCTTTTATACGAGTA
Found at i:112531 original size:22 final size:22
Alignment explanation
Indices: 112510--112550 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
112500 TCTAAATTTA
*
112510 AATTTATA-CTAATTATTTTTT
1 AATTTATATCTAACTATTTTTT
*
112531 ATTTTATATCTAACTATTTT
1 AATTTATATCTAACTATTTT
112551 AATGCATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTTATATCTAACTATTTTTT
Found at i:113207 original size:19 final size:19
Alignment explanation
Indices: 113183--113233 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
113173 TTAAATTATT
*
113183 CTAAAATTTTATTAACAA-C
1 CTAAAATTTTA-AAACAACC
*
113202 CTAAAATTCTAAAACAACC
1 CTAAAATTTTAAAACAACC
113221 CTAAAACTTTTAA
1 CTAAAA-TTTTAA
113234 GATTCTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 17 0.63
20 5 0.19
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (19 bp):
CTAAAATTTTAAAACAACC
Found at i:114586 original size:32 final size:32
Alignment explanation
Indices: 114540--114605 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
114530 TTATCATGTG
*
114540 ATGGGGACAACTATGCAATCTTAAACAATAAT
1 ATGGAGACAACTATGCAATCTTAAACAATAAT
* *
114572 ATGGAGACAACTATGTAATCTTAAACAGTAAT
1 ATGGAGACAACTATGCAATCTTAAACAATAAT
114604 AT
1 AT
114606 TACTAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (32 bp):
ATGGAGACAACTATGCAATCTTAAACAATAAT
Found at i:116311 original size:24 final size:25
Alignment explanation
Indices: 116272--116326 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
116262 TTATGTTTGG
* *
116272 ATATTTAATTTAATATTATCTTAAA
1 ATATTTAATTTAATATAATATTAAA
*
116297 ATATTT-ATTTAATATAATATTTAA
1 ATATTTAATTTAATATAATATTAAA
116321 ATATTT
1 ATATTT
116327 GATTAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTAATTTAATATAATATTAAA
Found at i:116507 original size:30 final size:30
Alignment explanation
Indices: 116473--116531 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
116463 ATTTTTTATA
* * *
116473 GTAAAAGATACTTATCCTCTTAGGTTTAAT
1 GTAAAAGACACTTATCCCCATAGGTTTAAT
*
116503 GTAAAATACACTTATCCCCATAGGTTTAA
1 GTAAAAGACACTTATCCCCATAGGTTTAA
116532 AAATGCTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (30 bp):
GTAAAAGACACTTATCCCCATAGGTTTAAT
Found at i:146628 original size:31 final size:31
Alignment explanation
Indices: 146593--146658 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
146583 TAATTGTACC
146593 AAATCAAAATTCATATATCAAATTACACATT
1 AAATCAAAATTCATATATCAAATTACACATT
* *
146624 AAATCAAAATTTATATATCAAATTACAGATT
1 AAATCAAAATTCATATATCAAATTACACATT
146655 AAAT
1 AAAT
146659 ACTCTCGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (31 bp):
AAATCAAAATTCATATATCAAATTACACATT
Found at i:150917 original size:44 final size:44
Alignment explanation
Indices: 150868--150955 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
150858 CGCAGAAATA
150868 TTAAAGTGGAACTTAATTGAGTGGAGATGAGATCGCTAGTGATG
1 TTAAAGTGGAACTTAATTGAGTGGAGATGAGATCGCTAGTGATG
150912 TTAAAGTGGAACTTAATTGAGTGGAGATGAGATCGCTAGTGATG
1 TTAAAGTGGAACTTAATTGAGTGGAGATGAGATCGCTAGTGATG
150956 ACGTGAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.30
Consensus pattern (44 bp):
TTAAAGTGGAACTTAATTGAGTGGAGATGAGATCGCTAGTGATG
Found at i:154197 original size:2 final size:2
Alignment explanation
Indices: 154190--154225 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
154180 AAAGGGTGTA
* *
154190 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
154226 GGATTCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:167754 original size:15 final size:15
Alignment explanation
Indices: 167734--167767 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
167724 ATAGATTGAG
167734 TTCGAGTAGGAATTT
1 TTCGAGTAGGAATTT
167749 TTCGAGTAGGAATTT
1 TTCGAGTAGGAATTT
167764 TTCG
1 TTCG
167768 CCTAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (15 bp):
TTCGAGTAGGAATTT
Found at i:168351 original size:6 final size:6
Alignment explanation
Indices: 168340--168376 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
168330 TTTTTTTCGA
* *
168340 ATTTTT ATTTTT ATTTTT ATTTAT ATATTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
168377 AATCCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:169254 original size:57 final size:57
Alignment explanation
Indices: 169172--169282 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
169162 TTATTGTGGG
* * *
169172 CATGGGTTCAACTCCTTTGAGCTTCAAGTCCTTCAATTAGGCTGAAATCTTCTTTAA
1 CATGGGCTCAACTCATTTGAGCTTCAAGTCCTTAAATTAGGCTGAAATCTTCTTTAA
* * * *
169229 CATGGGCTCTACTCATTTGGGCTTCAAGTTCTTAAATTGGGCTGAAATCTTCTT
1 CATGGGCTCAACTCATTTGAGCTTCAAGTCCTTAAATTAGGCTGAAATCTTCTT
169283 CATTAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (57 bp):
CATGGGCTCAACTCATTTGAGCTTCAAGTCCTTAAATTAGGCTGAAATCTTCTTTAA
Found at i:172664 original size:23 final size:23
Alignment explanation
Indices: 172595--172818 Score: 169
Period size: 23 Copynumber: 9.9 Consensus size: 23
172585 GAGAGTACCG
* *
172595 AAGTACTAAACAGAGAGCACA-T
1 AAGTGCTAAACAGAGAGCACACA
* *
172617 AAGTGCTGGGTAATAGAGAGCACACA
1 AAGTGCT---AAACAGAGAGCACACA
*
172643 AAGTGCTAAACAGAGAGTACACA
1 AAGTGCTAAACAGAGAGCACACA
*
172666 AA--G-T--ACTGA-A-CACACA
1 AAGTGCTAAACAGAGAGCACACA
**
172682 AAGTGCTAATTAGAGAGCACACA
1 AAGTGCTAAACAGAGAGCACACA
*
172705 AAGTGCTAATAACAGAGAGCACGA-G
1 AAGTGCT-A-AACAGAGAGCAC-ACA
**
172730 ACTTGCTAAACAGAGAGCACACA
1 AAGTGCTAAACAGAGAGCACACA
* * *
172753 CAGTGCTAAACGGAGGGCACACA
1 AAGTGCTAAACAGAGAGCACACA
* *
172776 CAGTGCTAAACAGAGGGCACACA
1 AAGTGCTAAACAGAGAGCACACA
* *
172799 CAGTGCTAATCAGAGAGCAC
1 AAGTGCTAAACAGAGAGCAC
172819 GCTAGTGTTC
Statistics
Matches: 161, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
16 7 0.04
17 1 0.01
18 5 0.03
19 1 0.01
20 1 0.01
21 3 0.02
22 8 0.05
23 98 0.61
24 2 0.01
25 27 0.17
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (23 bp):
AAGTGCTAAACAGAGAGCACACA
Found at i:183764 original size:21 final size:21
Alignment explanation
Indices: 183731--183785 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
183721 ATGTCATAAT
183731 TTAAAAA-ATTAAAATA-ATCA
1 TTAAAAATATTAAAATATAT-A
183751 -TAAAAATTATTAAAATATATA
1 TTAAAAA-TATTAAAATATATA
183772 TTAAAAATATTAAA
1 TTAAAAATATTAAA
183786 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.19
21 17 0.55
22 8 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAAATATTAAAATATATA
Found at i:183795 original size:9 final size:10
Alignment explanation
Indices: 183751--183801 Score: 56
Period size: 9 Copynumber: 5.3 Consensus size: 10
183741 AAAATAATCA
183751 TAAAAATTAT
1 TAAAAATTAT
183761 TAAAATATATAT
1 TAAAA-AT-TAT
183773 TAAAAA-TAT
1 TAAAAATTAT
183782 T--AAATT-T
1 TAAAAATTAT
183789 TAAAAATTAT
1 TAAAAATTAT
183799 TAA
1 TAA
183802 TTATTACTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 5 0.14
8 1 0.03
9 9 0.26
10 9 0.26
11 3 0.09
12 8 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:185140 original size:6 final size:6
Alignment explanation
Indices: 185131--185167 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
185121 AAAATTAATT
185131 AAAAA- AAAAAC AAAAAC AAAAAC AAAAAC AATAAAC A
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA-AAAC A
185168 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:186053 original size:14 final size:13
Alignment explanation
Indices: 186036--186076 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
186026 ATTATCCACA
186036 ATATTATATCATTT
1 ATATTATAT-ATTT
186050 ATATGTATATATTT
1 ATAT-TATATATTT
186064 ATATTAT-TATTT
1 ATATTATATATTT
186076 A
1 A
186077 AGACCTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.23
13 3 0.12
14 12 0.46
15 5 0.19
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:209105 original size:2 final size:2
Alignment explanation
Indices: 209098--209137 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
209088 TAACAATTAC
*
209098 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
209138 AAATTTAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:209693 original size:6 final size:6
Alignment explanation
Indices: 209684--209709 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
209674 TTTGAAATAA
209684 ATTAAT ATTAAT ATTAAT ATTAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT AT
209710 GATATACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTAAT
Found at i:236591 original size:20 final size:21
Alignment explanation
Indices: 236553--236592 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
236543 GAATGTGTTT
*
236553 AGAAGTCAAGATTTGTTGAAA
1 AGAAGGCAAGATTTGTTGAAA
*
236574 AGAAGGCAA-ATTTTTTGAA
1 AGAAGGCAAGATTTGTTGAA
236593 GGATTTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (21 bp):
AGAAGGCAAGATTTGTTGAAA
Found at i:236733 original size:20 final size:20
Alignment explanation
Indices: 236691--236745 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
236681 AAACCCGATG
***
236691 GTATCAATATTTTTATCCGA
1 GTATCAATATTTTTATAAAA
236711 GTATCAATATTTTTATAAAA
1 GTATCAATATTTTTATAAAA
* *
236731 GTATCGATAATTTTA
1 GTATCAATATTTTTA
236746 AACTAGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (20 bp):
GTATCAATATTTTTATAAAA
Found at i:239757 original size:6 final size:6
Alignment explanation
Indices: 239733--239783 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
239723 ACAATTCGTA
* *
239733 TCACTT TCAATT CCACTT TCACTT TCACTT TCACTT TCACTT TCACTT
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT
239781 TCA
1 TCA
239784 ATTTTGATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:241536 original size:122 final size:122
Alignment explanation
Indices: 241319--241564 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
241309 TTGCCTCCAA
*
241319 AAATATCTTCCACCAAATTACTCTTTTTCCCTTCCTTAATCAATCTAATTATCATGATGACTCAT
1 AAATATCTTCCACCAAATTACTCTTTTGCCCTTCCTTAATCAATCTAATTATCATGATGACTCAT
241384 AATTTAATTTGGATAAATTACTATTTAGTCCTTCCTATTTTCTCTCAATTTCTAATT
66 AATTTAATTTGGATAAATTACTATTTAGTCCTTCCTATTTTCTCTCAATTTCTAATT
241441 AAATATCTTCCACCAAATTACTCTTTTGCCCTTCCTTAATCAATCTAATTATCATGATGACTCAT
1 AAATATCTTCCACCAAATTACTCTTTTGCCCTTCCTTAATCAATCTAATTATCATGATGACTCAT
241506 AATTTAATTTGGATAAATTACTATTTAGTCCTTCCTATTTTCTCTCAATTTCTAATT
66 AATTTAATTTGGATAAATTACTATTTAGTCCTTCCTATTTTCTCTCAATTTCTAATT
241563 AA
1 AA
241565 TCCTTAATTT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.44
Consensus pattern (122 bp):
AAATATCTTCCACCAAATTACTCTTTTGCCCTTCCTTAATCAATCTAATTATCATGATGACTCAT
AATTTAATTTGGATAAATTACTATTTAGTCCTTCCTATTTTCTCTCAATTTCTAATT
Found at i:243745 original size:12 final size:12
Alignment explanation
Indices: 243705--243745 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
243695 AAAGTTTTAA
*
243705 TATAATTATTTT
1 TATATTTATTTT
*
243717 TATATTAATTTT
1 TATATTTATTTT
243729 T-TATTTATTTT
1 TATATTTATTTT
243740 TATATT
1 TATATT
243746 AAATTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATATTTATTTT
Found at i:243754 original size:33 final size:32
Alignment explanation
Indices: 243716--243798 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 32
243706 ATAATTATTT
* * *
243716 TTATATTAATTTTTTATTTATTTTTATATTAAA
1 TTATATTAAATATTT-TTTAGTTTTATATTAAA
243749 TTATATTAAAATATTTTTTAGTTTTATATTAAA
1 TTATATT-AAATATTTTTTAGTTTTATATTAAA
243782 TTATATTAAAATATTTT
1 TTATATT-AAATATTTT
243799 ATTTTAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 40 0.87
34 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
TTATATTAAATATTTTTTAGTTTTATATTAAA
Found at i:243787 original size:25 final size:24
Alignment explanation
Indices: 243749--243815 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
243739 TTATATTAAA
*
243749 TTATATTAAA--ATATTTTTTAGTT
1 TTATATTAAATTATATTTTATA-TT
**
243772 TTATATTAAATTATATTAAAATATT
1 TTATATTAAATTATATT-TTATATT
*
243797 TTATTTTAAATTATATTTT
1 TTATATTAAATTATATTTT
243816 GAAATAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 10 0.29
25 23 0.66
26 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (24 bp):
TTATATTAAATTATATTTTATATT
Found at i:243805 original size:15 final size:15
Alignment explanation
Indices: 243782--243844 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
243772 TTATATTAAA
243782 TTATATTAAAATATT
1 TTATATTAAAATATT
*
243797 TTATTTTAAATTATATT
1 TTATATTAAA--ATATT
*
243814 TTGA-AATAAAATATT
1 TT-ATATTAAAATATT
243829 TTATATTAAAATATT
1 TTATATTAAAATATT
243844 T
1 T
243845 CAAATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 27 0.68
17 11 0.28
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:244469 original size:43 final size:43
Alignment explanation
Indices: 244372--244737 Score: 341
Period size: 43 Copynumber: 8.3 Consensus size: 43
244362 TTATGAGGAA
* *
244372 AAACGCCGCTATAGAACATGGTCTTTAGC-AGCGC-TTTCCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGA-CGCTTTTCCCAC
*
244414 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
* * *
244457 AAATGCTGCTAAAGACCCACTAAAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
1 AAA-----C----G--CCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
* *
244511 AAATGCCGCTAAAGAACATGGTCTTTAGCGACG-TTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
* * *
244553 AAATGCCGCTAAAGAACATGGTCTTTAAC-AGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGA-CGCTTTTCCCAC
* *
244596 AAACACCGCTAAAGAACATGGTCTTTAGCGACTC-TTTCCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCC-CAC
* * *
244639 AAACGCCGCTAAAGAACATGATCTTTAGTGACACTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
* * **
244682 AAACGCCGTTATAA-ATA-ATGTTCTTTAGCGACATTTTTCCCAC
1 AAACGCCGCTA-AAGA-ACATGGTCTTTAGCGACGCTTTTCCCAC
* *
244725 AAACACCGTTAAA
1 AAACGCCGCTAAA
244738 ATTAACAAAT
Statistics
Matches: 275, Mismatches: 29, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.00
42 75 0.27
43 150 0.55
44 9 0.03
45 1 0.00
48 1 0.00
52 1 0.00
54 37 0.13
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCCCAC
Found at i:244509 original size:54 final size:54
Alignment explanation
Indices: 244422--244525 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
244412 ATAAACGCCG
*
244422 CTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAATGCTGCTAAAGACCCA
1 CTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAATGCCGCTAAAGACCCA
* * *
244476 CTAAAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAATGCCGCTAAAGA
1 CTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAATGCCGCTAAAGA
244526 ACATGGTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (54 bp):
CTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAATGCCGCTAAAGACCCA
Found at i:244619 original size:85 final size:86
Alignment explanation
Indices: 244476--244665 Score: 285
Period size: 85 Copynumber: 2.2 Consensus size: 86
244466 TAAAGACCCA
*** **
244476 CTAAAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAATGCCGCTAAAGAACATGGTCTTTAGCG
1 CTAAAGAACATGGTCTTTAACAGCGCTTTTCCCACAAACACCGCTAAAGAACATGGTCTTTAGCG
*
244541 ACGT-TTT-CTCACAAATGCCG
66 AC-TCTTTCCTCACAAACGCCG
*
244561 CTAAAGAACATGGTCTTTAACAGTGCTTTTCCCACAAACACCGCTAAAGAACATGGTCTTTAGCG
1 CTAAAGAACATGGTCTTTAACAGCGCTTTTCCCACAAACACCGCTAAAGAACATGGTCTTTAGCG
244626 ACTCTTTCCTCACAAACGCCG
66 ACTCTTTCCTCACAAACGCCG
*
244647 CTAAAGAACATGATCTTTA
1 CTAAAGAACATGGTCTTTA
244666 GTGACACTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
84 1 0.01
85 64 0.67
86 30 0.32
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (86 bp):
CTAAAGAACATGGTCTTTAACAGCGCTTTTCCCACAAACACCGCTAAAGAACATGGTCTTTAGCG
ACTCTTTCCTCACAAACGCCG
Found at i:244752 original size:43 final size:43
Alignment explanation
Indices: 244659--244753 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
244649 AAAGAACATG
* * **
244659 ATCTTTAGTGACACTTTTCCCACAAACGCCGTTATAAATAATG
1 ATCTTTAGCGACACTTTTCCCACAAACACCGTTATAAATAAAA
* *
244702 TTCTTTAGCGACATTTTTCCCACAAACACCGTTA-AAATTAACAA
1 ATCTTTAGCGACACTTTTCCCACAAACACCGTTATAAA-TAA-AA
244746 AT-TTTAGC
1 ATCTTTAGC
244754 AGCTCATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 3 0.07
43 39 0.91
44 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (43 bp):
ATCTTTAGCGACACTTTTCCCACAAACACCGTTATAAATAAAA
Found at i:254855 original size:18 final size:18
Alignment explanation
Indices: 254832--254869 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
254822 AAAAAAAAAG
254832 TTTGTTAACATCTTTTCT
1 TTTGTTAACATCTTTTCT
254850 TTTGTTAACATCTTTTCT
1 TTTGTTAACATCTTTTCT
254868 TT
1 TT
254870 ACAGGGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTGTTAACATCTTTTCT
Found at i:257653 original size:21 final size:21
Alignment explanation
Indices: 257630--257759 Score: 127
Period size: 21 Copynumber: 6.2 Consensus size: 21
257620 TCTCCCACGT
* *
257630 CATCCCCTGGTTACAGCCC-A
1 CATCTCCTGGCTACAGCCCTA
* *
257650 TCATCTCCTGGCTACAGTCCTT
1 -CATCTCCTGGCTACAGCCCTA
*
257672 CATCTCCTGGCTACAGTCCTA
1 CATCTCCTGGCTACAGCCCTA
* * *
257693 CCTCGCCTGGTTACAGCCCTA
1 CATCTCCTGGCTACAGCCCTA
*
257714 CATCTCCTGGCTACAGTCCTA
1 CATCTCCTGGCTACAGCCCTA
* * * *
257735 CCTCGCCTGGTTACAGCCCCA
1 CATCTCCTGGCTACAGCCCTA
257756 CATC
1 CATC
257760 ACCTACTTAC
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 89 1.00
ACGTcount: A:0.17, C:0.42, G:0.15, T:0.26
Consensus pattern (21 bp):
CATCTCCTGGCTACAGCCCTA
Found at i:257702 original size:42 final size:42
Alignment explanation
Indices: 257656--257795 Score: 174
Period size: 42 Copynumber: 3.3 Consensus size: 42
257646 CCCATCATCT
* * *
257656 CCTGGCTACAGTCCTTCATCTCCTGGCTACAGTCCTACCTCG
1 CCTGGTTACAGCCCTACATCTCCTGGCTACAGTCCTACCTCG
257698 CCTGGTTACAGCCCTACATCTCCTGGCTACAGTCCTACCTCG
1 CCTGGTTACAGCCCTACATCTCCTGGCTACAGTCCTACCTCG
* * * ** *
257740 CCTGGTTACAGCCCCACATCACCT-ACTTACAGTCCTAGTTCA
1 CCTGGTTACAGCCCTACATCTCCTGGC-TACAGTCCTACCTCG
*
257782 CCAGGTTACAGCCC
1 CCTGGTTACAGCCC
257796 AACAAGTCCA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.01
42 86 0.99
ACGTcount: A:0.19, C:0.40, G:0.16, T:0.26
Consensus pattern (42 bp):
CCTGGTTACAGCCCTACATCTCCTGGCTACAGTCCTACCTCG
Found at i:257770 original size:63 final size:64
Alignment explanation
Indices: 257640--257776 Score: 161
Period size: 63 Copynumber: 2.2 Consensus size: 64
257630 CATCCCCTGG
* * * * * * **
257640 TTACAGCCC-ATCATCTCCTGGCTACAGTCCTTCATCTCCTGGCTACAGTCCTACCTCGCCTGG
1 TTACAGCCCTATCATCTCCTGGCTACAGTCCTACATCGCCTGGCTACAGCCCCACATCACCTAC
* *
257703 TTACAGCCCTA-CATCTCCTGGCTACAGTCCTACCTCGCCTGGTTACAGCCCCACATCACCTAC
1 TTACAGCCCTATCATCTCCTGGCTACAGTCCTACATCGCCTGGCTACAGCCCCACATCACCTAC
*
257766 TTACAGTCCTA
1 TTACAGCCCTA
257777 GTTCACCAGG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
63 61 0.98
64 1 0.02
ACGTcount: A:0.19, C:0.40, G:0.14, T:0.27
Consensus pattern (64 bp):
TTACAGCCCTATCATCTCCTGGCTACAGTCCTACATCGCCTGGCTACAGCCCCACATCACCTAC
Found at i:257863 original size:21 final size:21
Alignment explanation
Indices: 257842--257972 Score: 111
Period size: 21 Copynumber: 6.2 Consensus size: 21
257832 TTCTCCAACC
* *
257842 TCACCAAGTTATAGCCCTACC
1 TCACCAAGTTACAGCCCTACT
* * *
257863 TCTCCAAGCTACAGCCCTACA
1 TCACCAAGTTACAGCCCTACT
* *
257884 TCTCCAAGTTACAGTCCTACT
1 TCACCAAGTTACAGCCCTACT
* *
257905 TCACCAAGTTATAGTCCC-ACA
1 TCACCAAGTTACAG-CCCTACT
* * * * *
257926 TCTCCCAGTTATAGTCCAACT
1 TCACCAAGTTACAGCCCTACT
*
257947 TCACCAAGCTACAGCCCTACT
1 TCACCAAGTTACAGCCCTACT
257968 TCACC
1 TCACC
257973 GGCATATAGC
Statistics
Matches: 87, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
20 2 0.02
21 83 0.95
22 2 0.02
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.25
Consensus pattern (21 bp):
TCACCAAGTTACAGCCCTACT
Found at i:257892 original size:42 final size:42
Alignment explanation
Indices: 257845--257966 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
257835 TCCAACCTCA
* * *
257845 CCAAGTTATAGCCCTACCTCTCCAAGCTACAGCCCTACATCT
1 CCAAGTTATAGTCCTACTTCACCAAGCTACAGCCCTACATCT
* * *
257887 CCAAGTTACAGTCCTACTTCACCAAGTTATAGTCCC-ACATCT
1 CCAAGTTATAGTCCTACTTCACCAAGCTACAG-CCCTACATCT
* *
257929 CCCAGTTATAGTCCAACTTCACCAAGCTACAGCCCTAC
1 CCAAGTTATAGTCCTACTTCACCAAGCTACAGCCCTAC
257967 TTCACCGGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.04
42 61 0.91
43 3 0.04
ACGTcount: A:0.28, C:0.38, G:0.10, T:0.25
Consensus pattern (42 bp):
CCAAGTTATAGTCCTACTTCACCAAGCTACAGCCCTACATCT
Found at i:257909 original size:63 final size:63
Alignment explanation
Indices: 257842--257972 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 63
257832 TTCTCCAACC
* * * * *
257842 TCACCAAGTTATAG-CCCTACCTCTCCAAGCTACAGCCCTACATCTCCAAGTTACAGTCCTACT
1 TCACCAAGTTATAGTCCC-ACATCTCCAAGCTACAGCCCAACATCACCAAGCTACAGCCCTACT
* * * * *
257905 TCACCAAGTTATAGTCCCACATCTCCCAGTTATAGTCCAACTTCACCAAGCTACAGCCCTACT
1 TCACCAAGTTATAGTCCCACATCTCCAAGCTACAGCCCAACATCACCAAGCTACAGCCCTACT
257968 TCACC
1 TCACC
257973 GGCATATAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 54 0.95
64 3 0.05
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.25
Consensus pattern (63 bp):
TCACCAAGTTATAGTCCCACATCTCCAAGCTACAGCCCAACATCACCAAGCTACAGCCCTACT
Found at i:257983 original size:21 final size:21
Alignment explanation
Indices: 257941--258029 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
257931 CAGTTATAGT
*
257941 CCAACTTCACCAAGC-TACAGC
1 CCAACTTCACC-GGCATACAGC
* *
257962 CCTACTTCACCGGCATATAGC
1 CCAACTTCACCGGCATACAGC
*
257983 CCAACTTCACCTGCATACAGC
1 CCAACTTCACCGGCATACAGC
* * **
258004 CCCACTTCTCCATCATACAGC
1 CCAACTTCACCGGCATACAGC
258025 CCAAC
1 CCAAC
258030 ATCCCCATCA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 2 0.04
21 54 0.96
ACGTcount: A:0.28, C:0.44, G:0.09, T:0.19
Consensus pattern (21 bp):
CCAACTTCACCGGCATACAGC
Found at i:258026 original size:42 final size:42
Alignment explanation
Indices: 257941--258140 Score: 154
Period size: 42 Copynumber: 4.8 Consensus size: 42
257931 CAGTTATAGT
* * * ** *
257941 CCAACTTCACCAAGC-TACAGCCCTACTTCACCGGCATATAGC
1 CCAACTTCACC-TGCATACAGCCCCACTTCTCCATCATACAGC
257983 CCAACTTCACCTGCATACAGCCCCACTTCTCCATCATACAGC
1 CCAACTTCACCTGCATACAGCCCCACTTCTCCATCATACAGC
* * * * * * *
258025 CCAACATCCCCAT-CATACAGTCCAACATCTCCTTCTTACAGC
1 CCAACTTCACC-TGCATACAGCCCCACTTCTCCATCATACAGC
* * * * *
258067 CCTACCTCACCCT-CCTATAGCCCCACATCTCCATCATACAGC
1 CCAACTTCA-CCTGCATACAGCCCCACTTCTCCATCATACAGC
* * * *
258109 CCTACTTCCCCAGCATATAGCCCCACTTCTCC
1 CCAACTTCACCTGCATACAGCCCCACTTCTCC
258141 CGGGTACAGT
Statistics
Matches: 127, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
41 4 0.03
42 120 0.94
43 3 0.02
ACGTcount: A:0.26, C:0.46, G:0.07, T:0.22
Consensus pattern (42 bp):
CCAACTTCACCTGCATACAGCCCCACTTCTCCATCATACAGC
Found at i:258037 original size:21 final size:21
Alignment explanation
Indices: 257996--258131 Score: 103
Period size: 21 Copynumber: 6.5 Consensus size: 21
257986 ACTTCACCTG
* * *
257996 CATACAGCCCCACTTCTCCAT
1 CATACAGCCCAACATCCCCAT
258017 CATACAGCCCAACATCCCCAT
1 CATACAGCCCAACATCCCCAT
* * *
258038 CATACAGTCCAACATCTCCTT
1 CATACAGCCCAACATCCCCAT
* * *
258059 CTTACAGCCCTACCTCACCC-T
1 CATACAGCCCAACATC-CCCAT
* * * *
258080 CCTATAGCCCCACATCTCCAT
1 CATACAGCCCAACATCCCCAT
* * *
258101 CATACAGCCCTACTTCCCCAG
1 CATACAGCCCAACATCCCCAT
*
258122 CATATAGCCC
1 CATACAGCCC
258132 CACTTCTCCC
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
20 2 0.02
21 86 0.96
22 2 0.02
ACGTcount: A:0.26, C:0.46, G:0.06, T:0.22
Consensus pattern (21 bp):
CATACAGCCCAACATCCCCAT
Found at i:258136 original size:21 final size:21
Alignment explanation
Indices: 258082--258137 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
258072 CTCACCCTCC
* * *
258082 TATAGCCCCACATCTCCATCA
1 TATAGCCCCACTTCCCCAGCA
* *
258103 TACAGCCCTACTTCCCCAGCA
1 TATAGCCCCACTTCCCCAGCA
258124 TATAGCCCCACTTC
1 TATAGCCCCACTTC
258138 TCCCGGGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.45, G:0.07, T:0.23
Consensus pattern (21 bp):
TATAGCCCCACTTCCCCAGCA
Found at i:258149 original size:84 final size:84
Alignment explanation
Indices: 258001--258161 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 84
257991 ACCTGCATAC
* * * ** *
258001 AGCCCCACTTCTCCATCATACAGCCCAACATCCCCATCATACAGTCCAACATCTCCTTCTTACAG
1 AGCCCCACATCTCCATCATACAGCCCAACATCCCCAGCATACAGCCCAACATCTCCCGCGTACAG
*
258066 CCCTACCTCACCCTCCTAT
66 CCCGACCTCACCCTCCTAT
* * * * * *
258085 AGCCCCACATCTCCATCATACAGCCCTACTTCCCCAGCATATAGCCCCACTTCTCCCGGGTACAG
1 AGCCCCACATCTCCATCATACAGCCCAACATCCCCAGCATACAGCCCAACATCTCCCGCGTACAG
*
258150 TCCGACCTCACC
66 CCCGACCTCACC
258162 AAGTTACGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.24, C:0.47, G:0.08, T:0.22
Consensus pattern (84 bp):
AGCCCCACATCTCCATCATACAGCCCAACATCCCCAGCATACAGCCCAACATCTCCCGCGTACAG
CCCGACCTCACCCTCCTAT
Found at i:261158 original size:29 final size:30
Alignment explanation
Indices: 261109--261165 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
261099 GGGAGGGGGT
*
261109 TAAAATTTTTTGGAAGAAAATGAAAAGAAG
1 TAAAAGTTTTTGGAAGAAAATGAAAAGAAG
* *
261139 TAAAAGTTTTTGG-GGAAAATTAAAAGA
1 TAAAAGTTTTTGGAAGAAAATGAAAAGA
261166 TTTGAGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (30 bp):
TAAAAGTTTTTGGAAGAAAATGAAAAGAAG
Found at i:271852 original size:4 final size:4
Alignment explanation
Indices: 271843--271867 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
271833 TCGCAAAAAA
271843 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
271868 GCACGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:275826 original size:7 final size:7
Alignment explanation
Indices: 275814--275858 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
275804 CTCAGCATTC
275814 ACTTTCA
1 ACTTTCA
275821 ACTTTCA
1 ACTTTCA
275828 ACTTTCA
1 ACTTTCA
275835 ACTTTCA
1 ACTTTCA
*
275842 ACTCTCA
1 ACTTTCA
*
275849 ACTCTCA
1 ACTTTCA
275856 ACT
1 ACT
275859 AATCAACGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (7 bp):
ACTTTCA
Found at i:277918 original size:55 final size:56
Alignment explanation
Indices: 277827--277931 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 56
277817 CATATTCAAG
* *
277827 CTTGAACTCCGATAATTTTTTTCATAATAATTTGATAATTAAATGTAAAACTATTA
1 CTTGAACTCCGATAATATTTTTCATAATAATATGATAATTAAATGTAAAACTATTA
*
277883 CTTGAACTCTGATAA-ATTTTTCATAATAATATGATAATTAAATGTAAAA
1 CTTGAACTCCGATAATATTTTTCATAATAATATGATAATTAAATGTAAAA
277932 TTAATAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 32 0.70
56 14 0.30
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (56 bp):
CTTGAACTCCGATAATATTTTTCATAATAATATGATAATTAAATGTAAAACTATTA
Found at i:280551 original size:26 final size:26
Alignment explanation
Indices: 280500--280551 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
280490 AATCTTGGTC
* *
280500 TCTTTTACTTTCTTGTGTAAATTATT
1 TCTTTTACTCTCTTGTGTAAACTATT
* *
280526 TCTTTTGCTCTCTTGTGTCAACTATT
1 TCTTTTACTCTCTTGTGTAAACTATT
280552 ACATGCTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.58
Consensus pattern (26 bp):
TCTTTTACTCTCTTGTGTAAACTATT
Found at i:286688 original size:49 final size:49
Alignment explanation
Indices: 286635--286731 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
286625 AATTAGTCAA
286635 AAAAAACG-TTTTTTTTTTTTTTTAAATTGAGTGAATAGGTCGATTTTT
1 AAAAAACGTTTTTTTTTTTTTTTTAAATTGAGTGAATAGGTCGATTTTT
*
286683 NAAAAACGTTTTTTTTTTTTTTTTAAATTGAGTGAATAGGTCGATTTTT
1 AAAAAACGTTTTTTTTTTTTTTTTAAATTGAGTGAATAGGTCGATTTTT
286732 GTCATATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 7 0.15
49 40 0.85
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.53
Consensus pattern (49 bp):
AAAAAACGTTTTTTTTTTTTTTTTAAATTGAGTGAATAGGTCGATTTTT
Found at i:287922 original size:21 final size:21
Alignment explanation
Indices: 287881--287922 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
287871 AATTTTAGAT
*
287881 TTATATTGTTTCGAGTTTATG
1 TTATATTGTTTCGAATTTATG
*
287902 TTATTTTGTTT-GAATTATATG
1 TTATATTGTTTCGAATT-TATG
287923 AATTTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (21 bp):
TTATATTGTTTCGAATTTATG
Found at i:302177 original size:15 final size:16
Alignment explanation
Indices: 302157--302186 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
302147 AACTTTTTAT
302157 GATCAAA-TTAGATTA
1 GATCAAATTTAGATTA
302172 GATCAAATTTAGATT
1 GATCAAATTTAGATT
302187 GATTGGATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (16 bp):
GATCAAATTTAGATTA
Found at i:305150 original size:165 final size:167
Alignment explanation
Indices: 304878--305199 Score: 569
Period size: 165 Copynumber: 1.9 Consensus size: 167
304868 TTTTTGCTTT
304878 TAGTTCTCTCTTAGCGGTTCTAACTTAACTGTAAGGTACCCTTCGAATTCTCTGATGAATACAGG
1 TAGTTCTCTCTTAGCGGTTCTAACTTAACTGTAAGGTACCCTTCGAATTCTCTGATGAATACAGG
304943 GTATTTATGAAGTTTTGCTAATTGTCAAGAAATAATGCACTTTG-AGATACATTCACCGA-T-TA
66 GTATTTATGAAGTTTTGCTAATTGTCAAGAAATAATGCACTTTGCA-ATACATTCACCGATTATA
305005 TTATTGTCACATCAAAGTTCTAAGAATTCACTTTGAGA
130 TTATTGTCACATCAAAGTTCTAAGAATTCACTTTGAGA
305043 TAGTTCTCTCTTAGCGGTTCTAACTTAACTGTAAGGTACCCTTCGAATTCTCTGATGAATACAGG
1 TAGTTCTCTCTTAGCGGTTCTAACTTAACTGTAAGGTACCCTTCGAATTCTCTGATGAATACAGG
* *
305108 GTATTTATGAAGTTTTGCTAATTGTCAAGAAATAATGCACTTTGCAATGCGTTCACCGATTATAT
66 GTATTTATGAAGTTTTGCTAATTGTCAAGAAATAATGCACTTTGCAATACATTCACCGATTATAT
** *
305173 TATTGTCATGTCAAATTTCTAAGAATT
131 TATTGTCACATCAAAGTTCTAAGAATT
305200 GGATTTGGCC
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
165 120 0.81
166 2 0.01
167 27 0.18
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (167 bp):
TAGTTCTCTCTTAGCGGTTCTAACTTAACTGTAAGGTACCCTTCGAATTCTCTGATGAATACAGG
GTATTTATGAAGTTTTGCTAATTGTCAAGAAATAATGCACTTTGCAATACATTCACCGATTATAT
TATTGTCACATCAAAGTTCTAAGAATTCACTTTGAGA
Found at i:309105 original size:23 final size:25
Alignment explanation
Indices: 309050--309100 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
309040 TCGAGTCAAT
309050 TCGAATAAATAAGTGAGTTTCAGTGA
1 TCGAATAAATAAGTGAGTTTCAGT-A
309076 CTCGAATAAATAAGTGAGTTTCAGT
1 -TCGAATAAATAAGTGAGTTTCAGT
309101 TGAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (25 bp):
TCGAATAAATAAGTGAGTTTCAGTA
Found at i:309271 original size:20 final size:20
Alignment explanation
Indices: 309248--309286 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
309238 AATTTAAATA
*
309248 ATTTTATTCGATTTAATTTT
1 ATTTTACTCGATTTAATTTT
309268 ATTTTACTCGATTTAATTT
1 ATTTTACTCGATTTAATTT
309287 AAAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTTACTCGATTTAATTTT
Found at i:312868 original size:21 final size:21
Alignment explanation
Indices: 312842--312885 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
312832 GAGGATGAAA
312842 ATGAGAATAG-AAATGAAATTG
1 ATGAGAA-AGAAAATGAAATTG
*
312863 ATGAGAAAGAAAATGAGATTG
1 ATGAGAAAGAAAATGAAATTG
312884 AT
1 AT
312886 TATGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (21 bp):
ATGAGAAAGAAAATGAAATTG
Found at i:320673 original size:30 final size:30
Alignment explanation
Indices: 320639--320700 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
320629 TAATATTTAA
320639 ATTTTTTAAAATTAAAAATAT-ATAAAATTT
1 ATTTTTTAAAATTAAAAA-ATCATAAAATTT
*
320669 ATTTTTTAAAATTAAAAAATCATTAAATTT
1 ATTTTTTAAAATTAAAAAATCATAAAATTT
320699 AT
1 AT
320701 ATAAAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTTTTAAAATTAAAAAATCATAAAATTT
Found at i:320719 original size:19 final size:19
Alignment explanation
Indices: 320681--320724 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
320671 TTTTTAAAAT
* *
320681 TAAAAAATCATTAAATTTA
1 TAAAAAATCATAAAAATTA
320700 TATAAAAAT-ATAAAAATTA
1 TA-AAAAATCATAAAAATTA
320719 TAAAAA
1 TAAAAA
320725 TGTTGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 12 0.55
20 6 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAAATCATAAAAATTA
Found at i:321009 original size:13 final size:13
Alignment explanation
Indices: 320991--321018 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
320981 TAGATTCTCA
320991 TTTGAGAATTTTT
1 TTTGAGAATTTTT
321004 TTTGAGAATTTTT
1 TTTGAGAATTTTT
321017 TT
1 TT
321019 ATTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTTGAGAATTTTT
Found at i:323093 original size:15 final size:14
Alignment explanation
Indices: 323051--323085 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
323041 TTTAAACTCT
*
323051 AAAATAAATATAAA
1 AAAATAAACATAAA
323065 AAAATAAACATAAA
1 AAAATAAACATAAA
323079 ATAAATA
1 A-AAATA
323086 CAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAACATAAA
Found at i:323143 original size:29 final size:28
Alignment explanation
Indices: 323050--323151 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 28
323040 ATTTAAACTC
* * *
323050 TAAAATAAATATAAAAAAATAA-ACA--
1 TAAAATAAATACAAATAAATAATATATT
323075 TAAAATAAATACAAATAAATAATATATT
1 TAAAATAAATACAAATAAATAATATATT
* *
323103 TAAATATTAAATCCTAATAAA-AATATATTT
1 TAAA-A-TAAATACAAATAAATAATATA-TT
323133 TAAAATAAAATA-AAATAAA
1 TAAAAT-AAATACAAATAAA
323152 ACCAAATCTT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
25 20 0.32
26 2 0.03
28 11 0.17
29 12 0.19
30 18 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
TAAAATAAATACAAATAAATAATATATT
Found at i:326628 original size:13 final size:11
Alignment explanation
Indices: 326596--326638 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
326586 ACCATTTTTA
*
326596 AATAAAATAAT
1 AATAAAATATT
326607 AAT-AAATATCT
1 AATAAAATAT-T
326618 AAGTAAAATATT
1 AA-TAAAATATT
326630 AATAAAATA
1 AATAAAATA
326639 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:326992 original size:3 final size:3
Alignment explanation
Indices: 326984--327030 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
326974 TAAAACCTAC
326984 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
327031 GCACTCAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:352800 original size:59 final size:58
Alignment explanation
Indices: 352663--352808 Score: 159
Period size: 59 Copynumber: 2.5 Consensus size: 58
352653 TTAATATAAT
* * **
352663 ATTTGGTATCTGAACTTGACACTTTTTTTTAATTTGGTACCTAAACTTTTTTTTGTCCA
1 ATTTGGTA-CTGAACTTGACACTTTTTTTTAAGTTGATACCTAAACTTTTTTGGGTCCA
* * * **
352722 ATTTTGTACTCAAATTTGACACTTTTTTTTAAGTTGATATTTAAAC-TTTTTGGGATCCA
1 ATTTGGTACT-GAACTTGACACTTTTTTTTAAGTTGATACCTAAACTTTTTTGGG-TCCA
*
352781 ATTTGGTACCTGAACTTGACTCTTTTTT
1 ATTTGGTA-CTGAACTTGACACTTTTTT
352809 CAAGACCAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
58 8 0.11
59 61 0.86
60 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.50
Consensus pattern (58 bp):
ATTTGGTACTGAACTTGACACTTTTTTTTAAGTTGATACCTAAACTTTTTTGGGTCCA
Found at i:354776 original size:57 final size:58
Alignment explanation
Indices: 354674--354840 Score: 216
Period size: 61 Copynumber: 2.8 Consensus size: 58
354664 ATAACATTCG
* *
354674 GTACCTGAACTTGACA-TTTTTCCTGATTTGGTA-CTAAAACTTTTTTTACCC-ATTTT
1 GTACCTGAACTTGACATTTTTTCCTAATTTGGTACCT-AAACTTTTTTTACCCAATTTA
*
354730 GATACCTGAACTTGACATTTTTTCCTAATTCGGTACCTAAACTTTTTTTGGACCCAATTTA
1 G-TACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTT--ACCCAATTTA
*
354791 GTACATGAACTTGACATTTTTTTCCTAATTTGGTACCTAAGA-TTTTTTTA
1 GTACCTGAACTTGACA-TTTTTTCCTAATTTGGTACCTAA-ACTTTTTTTA
354841 AGATTCAATT
Statistics
Matches: 98, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
56 1 0.01
57 15 0.15
58 26 0.27
59 3 0.03
60 18 0.18
61 34 0.35
62 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (58 bp):
GTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTTACCCAATTTA
Found at i:355053 original size:31 final size:30
Alignment explanation
Indices: 355015--355143 Score: 109
Period size: 31 Copynumber: 4.2 Consensus size: 30
355005 GATTAGGTAT
355015 CAAATTAGGAAAAAGAGTCAAGTTCAAGTAC
1 CAAATTAGGAAAAAGA-TCAAGTTCAAGTAC
* **
355046 CAAATTAGGAAAAAGTGTCAAGTTTGAGTAC
1 CAAATTAGGAAAAAG-ATCAAGTTCAAGTAC
** * * *
355077 CAAATT-GGACCCAAAA-AAAAAGTTTAGGTGC
1 CAAATTAGGA---AAAAGATCAAGTTCAAGTAC
*
355108 CAAATTAGGAAAAAGTATCAAGTTCAGGTAC
1 CAAATTAGGAAAAAG-ATCAAGTTCAAGTAC
355139 CAAAT
1 CAAAT
355144 GTTATATTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
29 4 0.05
30 3 0.04
31 64 0.82
32 3 0.04
33 4 0.05
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (30 bp):
CAAATTAGGAAAAAGATCAAGTTCAAGTAC
Found at i:357992 original size:32 final size:30
Alignment explanation
Indices: 357953--358023 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 30
357943 ATTAAAATTA
*
357953 TTTAATAATTTTAATTTTTTTAAAAA-AATAAT
1 TTTAATAATTTT-A--TATTTAAAAATAATAAT
357985 TTTAATAATTTTATATTTAAAAATAATAAT
1 TTTAATAATTTTATATTTAAAAATAATAAT
358015 TTTAA-AATT
1 TTTAATAATT
358024 ATTTATTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 13 0.35
30 11 0.30
31 1 0.03
32 12 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTAATAATTTTATATTTAAAAATAATAAT
Found at i:358018 original size:15 final size:15
Alignment explanation
Indices: 357970--358021 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
357960 ATTTTAATTT
357970 TTTTAAAAA-AATAA
1 TTTTAAAAATAATAA
* * *
357984 TTTTAATAAT-TTTA
1 TTTTAAAAATAATAA
357998 TATTTAAAAATAATAA
1 T-TTTAAAAATAATAA
358014 TTTTAAAA
1 TTTTAAAA
358022 TTATTTATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 11 0.38
15 15 0.52
16 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTTAAAAATAATAA
Found at i:359064 original size:83 final size:84
Alignment explanation
Indices: 358975--359138 Score: 213
Period size: 84 Copynumber: 2.0 Consensus size: 84
358965 GCCTTCCAAA
* * *
358975 AAATGAAAAAATTTCAATTCAATCATCTTATAAAT-AGAGAAATTATAAAGTAATATACAATAAA
1 AAATGAAAAAATTTCAATTCAATCATCTTATAAATAAAAAAAATGATAAAGTAATATACAATAAA
359039 ATTGCACTTTAACCCCTCG
66 ATTGCACTTTAACCCCTCG
* * * * * * *
359058 AAATGAAAGATTTTTAATTCAATCCTCTTATAAATAAAAAAAATGATAAATTAATATATAGTAAA
1 AAATGAAAAAATTTCAATTCAATCATCTTATAAATAAAAAAAATGATAAAGTAATATACAATAAA
* *
359123 ATTTCACTTTAGCCCC
66 ATTGCACTTTAACCCC
359139 CCTAACAATG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 31 0.46
84 37 0.54
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (84 bp):
AAATGAAAAAATTTCAATTCAATCATCTTATAAATAAAAAAAATGATAAAGTAATATACAATAAA
ATTGCACTTTAACCCCTCG
Found at i:366918 original size:16 final size:17
Alignment explanation
Indices: 366881--366922 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
366871 ATAATAAAAA
366881 TATAATTTTATTATTTG
1 TATAATTTTATTATTTG
*
366898 AATAATTTATATT-TTT-
1 TATAATTT-TATTATTTG
366914 TATAATTTT
1 TATAATTTT
366923 TAAAATATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 7 0.32
17 10 0.45
18 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TATAATTTTATTATTTG
Found at i:368060 original size:59 final size:58
Alignment explanation
Indices: 367903--368076 Score: 165
Period size: 58 Copynumber: 2.9 Consensus size: 58
367893 TAATAAATTT
* * * * * *
367903 AGGTACTAAATTGAATCTAAAAAAGTTTAGTACCAATTTAGGAAAAAAAAATACCAAGTTC
1 AGGTACCAAATTGAGTCTAAAAAAGTTAAGTACCAAATTAGG---AAAAAGTATCAAGTTC
* * * * *
367964 AAGTAACAAATTG-GTAC-AAAAAAGTTTATGTATCAAATTAGGAAAAAGTGTCAAGTTC
1 AGGTACCAAATTGAGT-CTAAAAAAG-TTAAGTACCAAATTAGGAAAAAGTATCAAGTTC
*
368022 GGGTACCAAATTGAGTCTAAAAAAGTTCAAGTACCAAATTAGG-AAAAGTATCAAG
1 AGGTACCAAATTGAGTCTAAAAAAGTT-AAGTACCAAATTAGGAAAAAGTATCAAG
368077 CTCAAATACT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
58 37 0.41
59 22 0.24
60 8 0.09
61 24 0.26
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (58 bp):
AGGTACCAAATTGAGTCTAAAAAAGTTAAGTACCAAATTAGGAAAAAGTATCAAGTTC
Found at i:369184 original size:57 final size:56
Alignment explanation
Indices: 369111--369227 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 56
369101 AATTGCATGC
*
369111 TTTCTTTATTATTATTCATATACACACAAGTGATTTCATAGTATCATACTATTTTTA
1 TTTCTTTATTACTATTCATATACACACAAGTGA-TTCATAGTATCATACTATTTTTA
369168 TTTCTTTATTACTATTCATATACACACAAGTGATTCATAGTATCATACTATTTTTA
1 TTTCTTTATTACTATTCATATACACACAAGTGATTCATAGTATCATACTATTTTTA
369224 TTTC
1 TTTC
369228 GATATCATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 27 0.46
57 32 0.54
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (56 bp):
TTTCTTTATTACTATTCATATACACACAAGTGATTCATAGTATCATACTATTTTTA
Found at i:369707 original size:5 final size:5
Alignment explanation
Indices: 369697--369721 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
369687 TTAGAGGTTA
369697 ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT
369722 TACACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:371491 original size:13 final size:13
Alignment explanation
Indices: 371475--371499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
371465 GACAACAATA
371475 GGAAAAAACAAAT
1 GGAAAAAACAAAT
371488 GGAAAAAACAAA
1 GGAAAAAACAAA
371500 GAAGCATGAT
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:0.72, C:0.08, G:0.16, T:0.04
Consensus pattern (13 bp):
GGAAAAAACAAAT
Found at i:372690 original size:38 final size:38
Alignment explanation
Indices: 372609--372692 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
372599 TATTTATTTT
* ** *
372609 ATTAATTTTTTAATTTAAATCCTTTCGTATTTTTTTAAA
1 ATTAATTTTTTAACTTAAATCCCATC-TATTTTTTAAAA
372648 ATTAATTTTTTAACTT-AATCCCAT-TATTTATTTAAAA
1 ATTAATTTTTTAACTTAAATCCCATCTATTT-TTTAAAA
372685 GATTAATT
1 -ATTAATT
372693 AAATCCTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
36 5 0.13
37 6 0.15
38 13 0.33
39 15 0.38
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (38 bp):
ATTAATTTTTTAACTTAAATCCCATCTATTTTTTAAAA
Found at i:372733 original size:19 final size:20
Alignment explanation
Indices: 372687--372736 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
372677 ATTTAAAAGA
**
372687 TTAATTAAATCCTTTTATGTT
1 TTAATT-AATCCCATTATGTT
372708 TTAAATTAATCCCATTAT-TT
1 TT-AATTAATCCCATTATGTT
372728 TTAATTAAT
1 TTAATTAAT
372737 TTAAACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
20 4 0.15
21 11 0.42
22 4 0.15
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATTAATCCCATTATGTT
Found at i:373765 original size:2 final size:2
Alignment explanation
Indices: 373758--373787 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
373748 AGCTTTTGGG
373758 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
373788 CATGGATTAT
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:376341 original size:26 final size:26
Alignment explanation
Indices: 376312--376361 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
376302 TCTTTCTCTT
*
376312 ATATTTTTATTATATTA-AATAATAAA
1 ATATTATTATT-TATTATAATAATAAA
376338 ATATTATTATTTATTATAATAATA
1 ATATTATTATTTATTATAATAATA
376362 TTATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTATTATTTATTATAATAATAAA
Found at i:376358 original size:18 final size:18
Alignment explanation
Indices: 376337--376371 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
376327 TAAATAATAA
* *
376337 AATATTATTATTTATTAT
1 AATAATATTATTAATTAT
376355 AATAATATTATTAATTA
1 AATAATATTATTAATTA
376372 ATATATCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATAATATTATTAATTAT
Found at i:376361 original size:21 final size:20
Alignment explanation
Indices: 376318--376376 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
376308 TCTTATATTT
376318 TTATTATATTAAATAATAAAATA
1 TTATTA-ATT-AAT-ATAAAATA
* *
376341 TTATTATTTATTATAATAATA
1 TTATTAATTAATATAA-AATA
376362 TTATTAATTAATATA
1 TTATTAATTAATATA
376377 TCTTTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.13
21 19 0.61
22 2 0.06
23 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTAATTAATATAAAATA
Found at i:378492 original size:26 final size:25
Alignment explanation
Indices: 378446--378505 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
378436 TATGATAACT
*
378446 ATATAAAAAATTTCAATATATAATAA
1 ATATATAAAATTTCAATATATAA-AA
* *
378472 ATATATAAAATTATTAA-ATATTAAA
1 ATATATAAAATT-TCAATATATAAAA
378497 ATAATATAA
1 AT-ATATAA
378506 TATAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.14
26 22 0.76
27 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATATAAAATTTCAATATATAAAA
Found at i:378507 original size:16 final size:17
Alignment explanation
Indices: 378465--378509 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
378455 ATTTCAATAT
378465 ATAATA-AATATATAAA
1 ATAATATAATATATAAA
*
378481 ATTAT-TAA-ATATTAAA
1 ATAATATAATATA-TAAA
378497 ATAATATAATATA
1 ATAATATAATATA
378510 AATATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 3 0.13
18 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATATAATATATAAA
Found at i:378515 original size:37 final size:35
Alignment explanation
Indices: 378463--378537 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 35
378453 AAATTTCAAT
378463 ATATAATAAATATATAAAATTATTAAATATTAAAATA
1 ATATAATAAATATATAAAATTATTAAA-ATTAAAA-A
* * *
378500 ATATAATATAA-ATATATATTTTTTAAAATTAAAAA
1 ATATAATA-AATATATAAAATTATTAAAATTAAAAA
378535 ATA
1 ATA
378538 ATATGGACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 4 0.12
36 7 0.21
37 21 0.62
38 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
ATATAATAAATATATAAAATTATTAAAATTAAAAA
Found at i:380414 original size:18 final size:20
Alignment explanation
Indices: 380382--380419 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
380372 GACACCATTC
380382 TAAACAACAAAACAA-AAAA
1 TAAACAACAAAACAATAAAA
*
380401 TAAA-AACAACACAATAAAA
1 TAAACAACAAAACAATAAAA
380420 GTCAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (20 bp):
TAAACAACAAAACAATAAAA
Found at i:380711 original size:58 final size:58
Alignment explanation
Indices: 380642--380760 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 58
380632 AGAGGAGTTA
* *
380642 TTTATGAGTGTTATTT-AGGAATAAAATTATATTTGGGTTTAAAAATATTTAAGTTTAG
1 TTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTAAGTTTAG
* *
380700 TTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTGG
1 TTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTAAGTTTAG
380758 TTT
1 TTT
380761 GTTGATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
57 3 0.05
58 53 0.95
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (58 bp):
TTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTAAGTTTAG
Found at i:381020 original size:23 final size:23
Alignment explanation
Indices: 380977--381021 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
380967 AAAAAAATTC
**
380977 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
381000 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
381022 ATTCGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:382171 original size:27 final size:27
Alignment explanation
Indices: 382133--382187 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
382123 TGAAAAAGAA
*
382133 TGGTTGAATTTTGATCCACAATTTTTC
1 TGGTTGAATTTTGATCCACAAATTTTC
382160 TGGTTGAATTTTGATCCACAAATTTTC
1 TGGTTGAATTTTGATCCACAAATTTTC
382187 T
1 T
382188 ATCTTAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (27 bp):
TGGTTGAATTTTGATCCACAAATTTTC
Found at i:386902 original size:15 final size:15
Alignment explanation
Indices: 386882--386911 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
386872 GATAGTGGGC
386882 TAATATTATATATTA
1 TAATATTATATATTA
*
386897 TAATATTATTTATTA
1 TAATATTATATATTA
386912 ATTCGATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATTATATATTA
Found at i:392936 original size:28 final size:28
Alignment explanation
Indices: 392864--392940 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
392854 GACTTGATAG
* * * *
392864 ATACTTTAGACTTTGGCTCGGAGGAGCA
1 ATACTCTAGACTATGGCTCGAAAGAGCA
* *
392892 ATACTCT-GAATTCTGGCTCGAAAGAGCA
1 ATACTCTAG-ACTATGGCTCGAAAGAGCA
392920 ATACTCTAGACTATGGCTCGA
1 ATACTCTAGACTATGGCTCGA
392941 TATGAGCGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.03
28 38 0.95
29 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (28 bp):
ATACTCTAGACTATGGCTCGAAAGAGCA
Found at i:392954 original size:29 final size:26
Alignment explanation
Indices: 392906--392973 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
392896 TCTGAATTCT
* **
392906 GGCTCGAAAGAGCAATACTCTAGACTA
1 GGCTCGAATGAGCGTTACTCTA-ACTA
*
392933 TGGCTCGATATGAGCGTTACTCTATCTA
1 -GGCTCGA-ATGAGCGTTACTCTAACTA
392961 GGCTCGAATGAGC
1 GGCTCGAATGAGC
392974 TAAACTCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.17
27 7 0.20
28 10 0.29
29 12 0.34
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (26 bp):
GGCTCGAATGAGCGTTACTCTAACTA
Found at i:392980 original size:26 final size:26
Alignment explanation
Indices: 392906--393062 Score: 111
Period size: 26 Copynumber: 5.9 Consensus size: 26
392896 TCTGAATTCT
* *
392906 GGCTCGAAAGAGC-AATACTCTAGACTA
1 GGCTCGAATGAGCTAA-ACTCTA-TCTA
*
392933 TGGCTCGATATGAGCGT-TACTCTATCTA
1 -GGCTCGA-ATGAGC-TAAACTCTATCTA
* * *
392961 GGCTCGAATGAGCTAAACTCTGTTTG
1 GGCTCGAATGAGCTAAACTCTATCTA
* *
392987 GGCTCGAATGAGCTAAACTCTGTCTT
1 GGCTCGAATGAGCTAAACTCTATCTA
** * * *
393013 GGCTTAAAAGAGCTAAACTCTGTTCTG
1 GGCTCGAATGAGCTAAACTCT-ATCTA
* *
393040 GGCTTGAACGAGCTAAACTCTAT
1 GGCTCGAATGAGCTAAACTCTAT
393063 TTTAGGCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.01
26 56 0.52
27 29 0.27
28 10 0.09
29 11 0.10
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
GGCTCGAATGAGCTAAACTCTATCTA
Found at i:393052 original size:27 final size:27
Alignment explanation
Indices: 392961--393060 Score: 132
Period size: 26 Copynumber: 3.8 Consensus size: 27
392951 ACTCTATCTA
392961 GGCTCGAATGAGCTAAACTCTGTT-TG
1 GGCTCGAATGAGCTAAACTCTGTTCTG
*
392987 GGCTCGAATGAGCTAAACTCTG-TCTT
1 GGCTCGAATGAGCTAAACTCTGTTCTG
** *
393013 GGCTTAAAAGAGCTAAACTCTGTTCTG
1 GGCTCGAATGAGCTAAACTCTGTTCTG
* *
393040 GGCTTGAACGAGCTAAACTCT
1 GGCTCGAATGAGCTAAACTCT
393061 ATTTTAGGCC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.65
27 22 0.34
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (27 bp):
GGCTCGAATGAGCTAAACTCTGTTCTG
Found at i:399536 original size:29 final size:29
Alignment explanation
Indices: 399464--399536 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
399454 AGACTTGATG
* * *
399464 AATATTCTAGAC-ATTGGCTCAAAGGAGC
1 AATATTCTAGACTTTTGACTCAAAAGAGC
* *
399492 AATACTCT-GAATTTTGACTCAAAAGAGC
1 AATATTCTAGACTTTTGACTCAAAAGAGC
399520 AATATTCTAGACTTTTG
1 AATATTCTAGACTTTTG
399537 CTCGATATGA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.06
28 27 0.75
29 7 0.19
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (29 bp):
AATATTCTAGACTTTTGACTCAAAAGAGC
Found at i:399590 original size:26 final size:24
Alignment explanation
Indices: 399552--399688 Score: 67
Period size: 26 Copynumber: 5.2 Consensus size: 24
399542 TATGAGTGTT
399552 ACTCTTTTCGGGCTCACATAAGCTAA
1 ACTC-TTTCGGGCTCA-ATAAGCTAA
* * *
399578 ACTCTTTCGGGGCTTGAATGAGTTAA
1 ACTCTTTC-GGGC-TCAATAAGCTAA
* **
399604 ACTCTTTCTGGGCTTGAACGAGCTAA
1 ACTCTTTC-GGGC-TCAATAAGCTAA
* *
399630 ACTCTGTTTTGGGCTCGAATGAGCTAA
1 ACTC--TTTCGGGCTC-AATAAGCTAA
* * *
399657 ACTTTGTTTTGGGCTCGAATGAGCTAA
1 AC--TCTTTCGGGCTC-AATAAGCTAA
399684 ACTCT
1 ACTCT
399689 GTTCTGGGTT
Statistics
Matches: 93, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.06
26 43 0.46
27 40 0.43
28 3 0.03
29 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (24 bp):
ACTCTTTCGGGCTCAATAAGCTAA
Found at i:399653 original size:27 final size:27
Alignment explanation
Indices: 399572--399709 Score: 181
Period size: 27 Copynumber: 5.2 Consensus size: 27
399562 GGCTCACATA
* *
399572 AGCTAAACTCT-TTCGGGGCTTGAATG
1 AGCTAAACTCTGTTCTGGGCTCGAATG
* * *
399598 AGTTAAACTCT-TTCTGGGCTTGAACG
1 AGCTAAACTCTGTTCTGGGCTCGAATG
*
399624 AGCTAAACTCTGTTTTGGGCTCGAATG
1 AGCTAAACTCTGTTCTGGGCTCGAATG
* *
399651 AGCTAAACTTTGTTTTGGGCTCGAATG
1 AGCTAAACTCTGTTCTGGGCTCGAATG
*
399678 AGCTAAACTCTGTTCTGGGTTCGAATG
1 AGCTAAACTCTGTTCTGGGCTCGAATG
399705 AGCTA
1 AGCTA
399710 CATTTCTGTG
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 33 0.33
27 67 0.67
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCTAAACTCTGTTCTGGGCTCGAATG
Found at i:400094 original size:17 final size:17
Alignment explanation
Indices: 400071--400117 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
400061 GTTATTGTAT
400071 GAATATGTTTTG-GATG
1 GAATATGTTTTGAGATG
* *
400087 TTAATATGTATTGAGATG
1 -GAATATGTTTTGAGATG
400105 GAATATGTCTTTG
1 GAATATGT-TTTG
400118 TAGGATTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.45
Consensus pattern (17 bp):
GAATATGTTTTGAGATG
Found at i:403728 original size:14 final size:15
Alignment explanation
Indices: 403706--403739 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
403696 AATATTCAAC
403706 ACAAAGTCCAA-ATT
1 ACAAAGTCCAAGATT
*
403720 ACAATGTCCAAGATT
1 ACAAAGTCCAAGATT
403735 ACAAA
1 ACAAA
403740 ATAGCCCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (15 bp):
ACAAAGTCCAAGATT
Found at i:405317 original size:89 final size:86
Alignment explanation
Indices: 405224--405575 Score: 282
Period size: 89 Copynumber: 4.0 Consensus size: 86
405214 GTCTCTTAAC
* *
405224 TTTCCAAAAATCATATTTTGACCCCTAAACTTCTTTAAAATTACATTTTAACCCTAAACTTTTTA
1 TTTCC-AAAAT-ATATTTTGACCCCTAAACTT-TCTAAAATTACATTTTAACCCTAAACTTTTCA
*
405289 AAATTACATTTTAACCCCTTAACT
63 AAATTACATTTTAACCCCTAAACT
* * * *
405313 TTTCCAAAATTTCATTTTGATCACC-AAACTTTTTCAAAATTACATTTTGACCACTAAACTCTTT
1 TTTCCAAAATAT-ATTTTGA-CCCCTAAACTTTCT-AAAATTACATTTTAACC-CTAAACT-TTT
** *
405377 CAAAATTATGTTTTTA-CCCTAAACT
61 CAAAATTACATTTTAACCCCTAAACT
** * * * * *
405402 TTTCCAAAAT-TACATTGACCCTTAAACTTGTCTAAAATCATATTTTCACTCTCAAACTTTCTCA
1 TTTCCAAAATATATTTTGACCCCTAAACTT-TCTAAAATTACATTTTAACCCT-AAACTTT-TCA
* * * *
405466 AAATAACATTTTAACCTCAAAAAT
63 AAATTACATTTTAACCCCTAAACT
* * * * * *
405490 TTTCCAAAATTACATGTT-AACCTTAAACTTTCCTAAAATTATATTTTTACCCCCTAAACTTTTC
1 TTTCCAAAA-TATATTTTGACCCCTAAACTTT-CTAAAATTACA-TTTTA-ACCCTAAACTTTTC
*
405554 AAAATTATATTTTAA-CCCTAAA
62 AAAATTACATTTTAACCCCTAAA
405576 TTATTCAAAA
Statistics
Matches: 212, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
86 6 0.03
87 46 0.22
88 58 0.27
89 70 0.33
90 29 0.14
91 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (86 bp):
TTTCCAAAATATATTTTGACCCCTAAACTTTCTAAAATTACATTTTAACCCTAAACTTTTCAAAA
TTACATTTTAACCCCTAAACT
Found at i:405417 original size:59 final size:58
Alignment explanation
Indices: 405224--405575 Score: 295
Period size: 60 Copynumber: 6.0 Consensus size: 58
405214 GTCTCTTAAC
* * * *
405224 TTTCCAAAAATCATATTTTGACCCCTAAACTTCTTTAAAATTACATTTTAACCCTAAACT
1 TTTCC-AAAATTACATTTTGACCCCTAAACTT-TTCAAAATTATATTTTAACCCTAAACT
* * * *
405284 TTT-TAAAATTACATTTTAACCCCTTAACTTTTCCAAAATT-TCATTTTGATCACC-AAACT
1 TTTCCAAAATTACATTTTGACCCCTAAACTTTT-CAAAATTAT-ATTTT-AAC-CCTAAACT
* * * *
405343 TTTTCAAAATTACATTTTGACCACTAAACTCTTTCAAAATTATGTTTTTACCCTAAACT
1 TTTCCAAAATTACATTTTGACCCCTAAACT-TTTCAAAATTATATTTTAACCCTAAACT
* * * * *
405402 TTTCCAAAATTACA--TTGACCCTTAAACTTGTCTAAAATCATATTTTCACTCTCAAAC-
1 TTTCCAAAATTACATTTTGACCCCTAAACTTTTC-AAAATTATATTTTAACCCT-AAACT
* * * * * * * *
405459 TTTCTCAAAATAACATTTTAACCTCAAAAATTTTCCAAAATTACATGTTAACCTTAAAC-
1 TTTC-CAAAATTACATTTTGACCCCTAAACTTTT-CAAAATTATATTTTAACCCTAAACT
* *
405518 TTTCCTAAAATTATATTTTTACCCCCTAAACTTTTCAAAATTATATTTTAACCCTAAA
1 TTTCC-AAAATTACATTTTGA-CCCCTAAACTTTTCAAAATTATATTTTAACCCTAAA
405576 TTATTCAAAA
Statistics
Matches: 231, Mismatches: 45, Indels: 33
0.75 0.15 0.11
Matches are distributed among these distances:
56 3 0.01
57 33 0.14
58 49 0.21
59 69 0.30
60 72 0.31
61 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (58 bp):
TTTCCAAAATTACATTTTGACCCCTAAACTTTTCAAAATTATATTTTAACCCTAAACT
Found at i:405517 original size:117 final size:118
Alignment explanation
Indices: 405255--405535 Score: 281
Period size: 117 Copynumber: 2.4 Consensus size: 118
405245 CCCCTAAACT
* *
405255 TCTTT-AAAATTACATTTTAACCCTAAACTTTT-TAAAATTACATTTTAACCCCTTAACTTTTCC
1 TCTTTCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACA-TTTAACCCCTTAACTTGTCC
* * * * * * *
405318 AAAATTTCATTTTGATCACCAAACTTTTTCAAAATTACATTTTGACCACTAAAC
65 AAAATATCATTTTCATCACCAAACTTTCTCAAAATAACATTTTAACCACAAAAA
** * * *
405372 TCTTTCAAAATTATGTTTTTACCCTAAACTTTTCCAAAATTACA-TTGA-CCCTTAAACTTGTCT
1 TCTTTCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTAACCCCTT-AACTTGTCC
* *
405435 AAAATCAT-ATTTTCACTC-TCAAACTTTCTCAAAATAACATTTTAACCTCAAAAA
65 AAAAT-ATCATTTTCA-TCACCAAACTTTCTCAAAATAACATTTTAACCACAAAAA
* * *
405489 T-TTTCCAAAATTACATGTTAACCTTAAAC-TTTCCTAAAATTATATTT
1 TCTTT-CAAAATTACATTTTAACCCTAAACTTTTCC-AAAATTACATTT
405536 TTACCCCCTA
Statistics
Matches: 134, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
116 13 0.10
117 83 0.62
118 29 0.22
119 9 0.07
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (118 bp):
TCTTTCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTAACCCCTTAACTTGTCCA
AAATATCATTTTCATCACCAAACTTTCTCAAAATAACATTTTAACCACAAAAA
Found at i:405593 original size:28 final size:29
Alignment explanation
Indices: 405246--405599 Score: 223
Period size: 30 Copynumber: 12.1 Consensus size: 29
405236 ATATTTTGAC
*
405246 CCCTAAACTTCTTTAAAATTACATTTT-AA
1 CCCTAAACTT-TTCAAAATTACATTTTCAA
*
405275 CCCTAAACTTTTTAAAATTACATTTT-AA
1 CCCTAAACTTTTCAAAATTACATTTTCAA
* * * *
405303 CCCCTTAACTTTTCCAAAATTTCATTTTGAT
1 -CCCTAAACTTTT-CAAAATTACATTTTCAA
*
405334 CACC-AAACTTTTTCAAAATTACATTTT-GA
1 C-CCTAAAC-TTTTCAAAATTACATTTTCAA
** *
405363 CCACTAAACTCTTTCAAAATTATGTTTT-TA
1 CC-CTAAACT-TTTCAAAATTACATTTTCAA
*
405393 CCCTAAACTTTTCCAAAATTACA--TT-GA
1 CCCTAAACTTTT-CAAAATTACATTTTCAA
* * *
405420 CCCTTAAACTTGTCTAAAATCATATTTTC-A
1 CCC-TAAACTTTTC-AAAATTACATTTTCAA
* *
405450 CTCTCAAACTTTCTCAAAATAACATTTT-AA
1 CCCT-AAACTTT-TCAAAATTACATTTTCAA
* * *
405480 CCTCAAAAATTTTCCAAAATTACATGTT-AA
1 CC-CTAAACTTTT-CAAAATTACATTTTCAA
* * * * *
405510 CCTTAAACTTTCCTAAAATTATATTTTTACC
1 CCCTAAACTTTTC-AAAATTACATTTTCA-A
*
405541 CCCTAAACTTTTCAAAATTATATTTT-AA
1 CCCTAAACTTTTCAAAATTACATTTTCAA
405569 CCCTAAA-TTATTCAAAACTT-CATTTTCAA
1 CCCTAAACTT-TTCAAAA-TTACATTTTCAA
405598 CC
1 CC
405600 TCGTTTTTCC
Statistics
Matches: 263, Mismatches: 37, Indels: 50
0.75 0.11 0.14
Matches are distributed among these distances:
27 9 0.03
28 57 0.22
29 65 0.25
30 111 0.42
31 21 0.08
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
CCCTAAACTTTTCAAAATTACATTTTCAA
Found at i:413081 original size:49 final size:49
Alignment explanation
Indices: 413023--413193 Score: 288
Period size: 49 Copynumber: 3.5 Consensus size: 49
413013 ACCAAATCCT
* * * *
413023 TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAGTGATGCAGTCA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCA
413072 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCA
* *
413121 TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAATGAAGTGGTCA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCA
413170 TCTTCCTGATGAGATACAGAGAAG
1 TCTTCCTGATGAGATACAGAGAAG
413194 TAGACCAAAT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 115 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (49 bp):
TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCA
Found at i:413485 original size:210 final size:209
Alignment explanation
Indices: 413121--413529 Score: 561
Period size: 210 Copynumber: 1.9 Consensus size: 209
413111 GAAGCGGTCA
* *
413121 TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAATGAAGTGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCATCTTCCTGATGAGATA
* *
413186 CAGAGAAGTAGACCAAATCAATTTGAGCGAAGCTCAATACGAATGAGATTCCAAACCCCATCTTC
66 CAGAGAAGTAGACCAAATCAA-TTGAGCGAAACTCAATACGAATGAAATTCCAAACCCCATCTTC
* * ** * * *
413251 CTGATGAGATACTGAGATGTGGGTCAAAACAATAAAGAGATTGTTTTCCTGATGAGATATAGAGA
130 CTGATGAGATACTAAGAAGTGGGTCAAAACAATAAAGAGATCATCTTCCTAATGAGATACAGAGA
413316 AGTGAACCAAATCCG
195 AGTGAACCAAATCCG
* * *
413331 TCTTCCTGATGAGATACA-ATGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCTTGATGAGAT
1 TCTTCCTGATGAGATACAGA-GAAGCGGATTAAAACAAATGAAGCGGTCATCTTCCTGATGAGAT
* ** * * *
413395 ACAGAGAAGTAGACCAAATCGA-TGAAGCGAAACTCAATGTGAGTGAAACTTCGAACCCCCATCT
65 ACAGAGAAGTAGACCAAATCAATTG-AGCGAAACTCAATACGAATGAAA-TTCCAAACCCCATCT
* * *
413459 TCCTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAGA
128 TCCTGATGAGATACTAAGAAGTGGGTCAAAACAATAAAGAGATCATCTTCCTAATGAGATACAGA
413524 GAAGTG
193 GAAGTG
413530 GATTAAAACA
Statistics
Matches: 173, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
208 2 0.01
209 19 0.11
210 152 0.88
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (209 bp):
TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAATGAAGCGGTCATCTTCCTGATGAGATA
CAGAGAAGTAGACCAAATCAATTGAGCGAAACTCAATACGAATGAAATTCCAAACCCCATCTTCC
TGATGAGATACTAAGAAGTGGGTCAAAACAATAAAGAGATCATCTTCCTAATGAGATACAGAGAA
GTGAACCAAATCCG
Found at i:413510 original size:48 final size:49
Alignment explanation
Indices: 413454--413577 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
413444 TTCGAACCCC
* * *
413454 CATCTTCCTGATGAGATACTA-AGAAGTGGGTCAAAGC-AATAA-AGCGGT
1 CATCTTCCTAATGAGATAC-AGAGAAGTGGATCAAAACAAATAAGA-CGGT
*
413502 CATCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAAATAAGACGGT
1 CATCTTCCTAATGAGATACAGAGAAGTGGATCAAAACAAATAAGACGGT
** * *
413551 CATCTTTTTTATGAGATACATAGAAGT
1 CATCTTCCTAATGAGATACAGAGAAGT
413578 AGACCAAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
47 1 0.02
48 31 0.48
49 32 0.49
50 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (49 bp):
CATCTTCCTAATGAGATACAGAGAAGTGGATCAAAACAAATAAGACGGT
Found at i:413565 original size:49 final size:47
Alignment explanation
Indices: 413454--413577 Score: 133
Period size: 48 Copynumber: 2.6 Consensus size: 47
413444 TTCGAACCCC
* * *
413454 CATCTTCCTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGT
1 CATCTTCCTAATGAGATAC-AAGAAGTGGATCAAAACAATAAAGCGGT
*
413502 CATCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAA-ATAAGACGGT
1 CATCTTCCTAATGAGATACA-AGAAGTGGATCAAAACAATA-AAG-CGGT
** *
413551 CATCTTTTTTATGAGATACATAGAAGT
1 CATCTTCCTAATGAGATACA-AGAAGT
413578 AGACCAAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
47 2 0.03
48 36 0.55
49 27 0.42
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (47 bp):
CATCTTCCTAATGAGATACAAGAAGTGGATCAAAACAATAAAGCGGT
Found at i:413620 original size:173 final size:172
Alignment explanation
Indices: 413331--413747 Score: 561
Period size: 173 Copynumber: 2.4 Consensus size: 172
413321 ACCAAATCCG
* * *
413331 TCTTCCTGATGAGATACA-ATGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCTTGATGAGAT
1 TCTTCCTGATGAGATACAGA-GAAGTGGATTAAAACAAATGAAGCGGTCATCTTCTTGATGAGAT
* *
413395 ACAGAGAAGTAGACCAAATCGATGAAGCGAAACTCAATGTGAGTGAAACTTCGAACCCCCATCTT
65 ACAGAGAAGTAGACCAAATCGATGAAGCGAAACTCAATATGAGTAAAACTTCGAACCCCCATCTT
*
413460 CCTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGTCA
130 CCTGATGAGATACTAAGAAGTGGGT-AAAGAAATAAAGCGGTCA
* * *
413504 TCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAAAT-AAGACGGTCATCTTTTTTATGAGAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAAG-CGGTCATCTTCTTGATGAGAT
* * * *
413568 ACATAGAAGTAGACCAAATCGATGAAGCGAAGCTTAATATGAGTAAAACTTCGAACCCCTATCTT
65 ACAGAGAAGTAGACCAAATCGATGAAGCGAAACTCAATATGAGTAAAACTTCGAACCCCCATCTT
* *
413633 CCTGATGAGATACTGAGAAGTGGGTTAAGAAATAAAGCGGTCA
130 CCTGATGAGATACTAAGAAGTGGGTAAAGAAATAAAGCGGTCA
* * ** ** * * *
413676 TCTTCCTGATGAGATACTGAGAAGTGG-GTCGAAGTAATAAAGCGATCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAAGCGGTCATCTTCTTGATGAGATA
*
413740 TAGAGAAG
66 CAGAGAAG
413748 CAAACCAAGG
Statistics
Matches: 213, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
171 30 0.14
172 46 0.22
173 136 0.64
174 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (172 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAAGCGGTCATCTTCTTGATGAGATA
CAGAGAAGTAGACCAAATCGATGAAGCGAAACTCAATATGAGTAAAACTTCGAACCCCCATCTTC
CTGATGAGATACTAAGAAGTGGGTAAAGAAATAAAGCGGTCA
Done.