Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007769.1 Hibiscus syriacus cultivar Beakdansim tig00110045_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: 634091
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 3
Found at i:208865 original size:20 final size:21
Alignment explanation
Indices: 208814--208865 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
208804 TATTATCTGA
208814 TAATCTTACA-TGCACACTAG
1 TAATCTTACATTGCACACTAG
* *
208834 TAATCTTACATTTC-CACTGG
1 TAATCTTACATTGCACACTAG
208854 TAATCTTACATT
1 TAATCTTACATT
208866 CCGTTAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (21 bp):
TAATCTTACATTGCACACTAG
Found at i:210608 original size:2 final size:2
Alignment explanation
Indices: 210601--210640 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
210591 ATTTAGTTTA
210601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
210641 GCGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:212372 original size:19 final size:19
Alignment explanation
Indices: 212348--212412 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
212338 AAAAACATTA
212348 CGATGCGGGCGTTACGCTG
1 CGATGCGGGCGTTACGCTG
212367 CGATGCGGGCGTTACGCTG
1 CGATGCGGGCGTTACGCTG
212386 CGATGCGGGCGTTACGCTG
1 CGATGCGGGCGTTACGCTG
*
212405 CGTTGCGG
1 CGATGCGG
212413 CCGCAATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.09, C:0.26, G:0.43, T:0.22
Consensus pattern (19 bp):
CGATGCGGGCGTTACGCTG
Found at i:213466 original size:78 final size:78
Alignment explanation
Indices: 213376--213531 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
213366 GCCATTGGGT
213376 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
1 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
*
213441 GAGGTAATAATTA
66 GAGATAATAATTA
213454 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
1 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
213519 GAGATAATAATTA
66 GAGATAATAATTA
213532 ACGTTTAAAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (78 bp):
GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
GAGATAATAATTA
Found at i:214502 original size:23 final size:22
Alignment explanation
Indices: 214471--214518 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
214461 AGGTTGAACG
214471 GTTTATTAAATAGCTATATAAAT
1 GTTTATT-AATAGCTATATAAAT
*
214494 GTTTGTTAATAGCTATATAAAT
1 GTTTATTAATAGCTATATAAAT
214516 GTT
1 GTT
214519 GGTATTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (22 bp):
GTTTATTAATAGCTATATAAAT
Found at i:217795 original size:31 final size:31
Alignment explanation
Indices: 217757--217819 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
217747 TCCAAGAGTT
* *
217757 TGGGAGTTCTTAATGAGAATGACATATTGAA
1 TGGGAGTTCATAATGAGAAGGACATATTGAA
*
217788 TGGGAGTTCATAGTGAGAAGGACATATTGAA
1 TGGGAGTTCATAATGAGAAGGACATATTGAA
217819 T
1 T
217820 TCACCGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (31 bp):
TGGGAGTTCATAATGAGAAGGACATATTGAA
Found at i:225119 original size:30 final size:30
Alignment explanation
Indices: 225083--225147 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
225073 AGTTATTTTA
*
225083 AGAATGTGTTTGAAACTCGGTTTTCCCTAT
1 AGAATGTGTTTGAAACTCGGGTTTCCCTAT
*
225113 AGAATGTGTTTGAAACTCGGGTTTCCTTAT
1 AGAATGTGTTTGAAACTCGGGTTTCCCTAT
225143 AGAAT
1 AGAAT
225148 CCGACTGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (30 bp):
AGAATGTGTTTGAAACTCGGGTTTCCCTAT
Found at i:225282 original size:105 final size:105
Alignment explanation
Indices: 225110--225307 Score: 249
Period size: 105 Copynumber: 1.9 Consensus size: 105
225100 CGGTTTTCCC
* * *
225110 TATAGAATGTGTTTGAAACTCGGGTTTCCTTATAGAATCCGACTGCAACCCAGATGGGATTTCAG
1 TATAGAATGTGTTTGAAACTCGAGTTTCCTGATAGAATCCGACTGCAACCCAGATGGAATTTCAG
*
225175 AATGGTGTTGAACCTCATG-TTCTTGAACCACAGACATCCT
66 AATGGTGTTGAACCCCATGATT-TTGAACCACAGACATCCT
* * * * * * *
225215 TATAGAATGAT-TTTGAACCTCGATTTTCCTGATAGAATCTGGCTGCACCCCAGTTTGAATCTT-
1 TATAGAATG-TGTTTGAAACTCGAGTTTCCTGATAGAATCCGACTGCAACCCAGATGGAAT-TTC
225278 AGAATGGTGTTGAACCCCATGATTTTGAAC
64 AGAATGGTGTTGAACCCCATGATTTTGAAC
225308 ATCAATGTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
105 74 0.94
106 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (105 bp):
TATAGAATGTGTTTGAAACTCGAGTTTCCTGATAGAATCCGACTGCAACCCAGATGGAATTTCAG
AATGGTGTTGAACCCCATGATTTTGAACCACAGACATCCT
Found at i:225578 original size:159 final size:159
Alignment explanation
Indices: 225363--227252 Score: 3296
Period size: 159 Copynumber: 11.9 Consensus size: 159
225353 AGAAATTGAT
* * * * *
225363 CGACTTCGAGAATTGGACTGAAACCCAGGTTGATTGTCAGTTCGGCATTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
225428 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGTTTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
* *
225493 GTCTTATGGACTTGGTTCGCCTTATAGAT
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* *
225522 CGACTTGGAGAATTTGACTGAAACCCAGGTTGATTGTCGGTTCGACTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* * *
225587 CACAGATGAATTGTTGGGATGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
* *
225652 GTCTTATGGACTTGGTTCGCCTTATAGAT
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
225681 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGACTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
225746 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
*
225811 GTCTTATGGACTCGGTTTGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
225840 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
225905 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATCTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
225970 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
225999 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTCCGGCTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* *
226064 CCCTGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATCTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
226129 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* *
226158 CGACATGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGAA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
226223 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
226288 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* *
226317 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGCCGGTTCGACTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* * *
226382 CCCTGATGAATTGTCAGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATCTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
226447 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* *
226476 CGACATGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGAA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
226541 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
226606 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* *
226635 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGCCGGTTCGACTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* * *
226700 CCCTGATGAATTGTCAGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATCTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
*
226765 GTCTTATGGACTCAGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
226794 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGACTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
226859 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGATCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
226924 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* * *
226953 CGACTTGGAGAATATGATTGAAACCCAGGTAGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* *
227018 CCTAGATGAATTGTCGGGACGGTGCTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
227083 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
* * * *
227112 CGACTTGGAGAATTTGACTGAAATCC-GGATTGATTGTCGGTTCGGCTTTGAGAATATCTTACGG
1 CGACTTGGAGAATTTGACTGAAACCCAGG-TTGACTGTCGGTTCGGCTTTGAGAATATCGTATGG
* * *
227176 ACCTAGATGAATTGTCGGAACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGAA
65 ACCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTA
**
227241 TATCTTATGGAC
130 CGTCTTATGGAC
227253 CCAGTTCCTC
Statistics
Matches: 1657, Mismatches: 73, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
158 2 0.00
159 1655 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (159 bp):
CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
GTCTTATGGACTCGGTTCGCCTTATAGAC
Found at i:227771 original size:37 final size:37
Alignment explanation
Indices: 227727--227831 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
227717 CCTTTTCATC
227727 CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
* * * * * *
227764 TTGCTAGGATTCAAATTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
** *
227801 CTACTATTATTTAAACTCCTAAATATATGAT
1 CTACTAGGATTTAAACTCCTAAAAATATGAT
227832 CTACAAACAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
Found at i:228265 original size:15 final size:14
Alignment explanation
Indices: 228245--228290 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
228235 TATATGTATA
228245 TATTTAATTATATTT
1 TATTTAATT-TATTT
228260 TATTT-ATTTA-TT
1 TATTTAATTTATTT
228272 TATTATAATTT-TTT
1 TATT-TAATTTATTT
228286 TATTT
1 TATTT
228291 TTCTCTGCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 13 0.46
15 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTAATTTATTT
Found at i:228287 original size:22 final size:23
Alignment explanation
Indices: 228245--228290 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
228235 TATATGTATA
228245 TATTTAATTATATTTTATTTATT
1 TATTTAATTATATTTTATTTATT
228268 TATTT-ATTATAATTTT-TTTATT
1 TATTTAATTAT-ATTTTATTTATT
228290 T
1 T
228291 TTCTCTGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTAATTATATTTTATTTATT
Found at i:228346 original size:25 final size:23
Alignment explanation
Indices: 228300--228346 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
228290 TTTCTCTGCG
*
228300 TTATATTATATTATTTCCTATTA
1 TTATATTATATTATTTACTATTA
*
228323 TTATATATATATATATTTATTATT
1 TTATAT-TATAT-TATTTACTATT
228347 TTTTATCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATATTATATTATTTACTATTA
Found at i:228453 original size:19 final size:17
Alignment explanation
Indices: 228417--228465 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
228407 ATATTCTTAC
228417 TTTATT-TTATTTTATA
1 TTTATTATTATTTTATA
228433 TTTATTATTATTATTACTA
1 TTTATTATTATT-TTA-TA
*
228452 TTTAGTATT-TTTTA
1 TTTATTATTATTTTA
228466 GTTAATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 5 0.17
19 10 0.34
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTATTATTATTTTATA
Found at i:233210 original size:22 final size:21
Alignment explanation
Indices: 233185--233226 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
233175 TCAAGAACAA
233185 AAAAGAAA-AGAAGTAAAAAAGC
1 AAAAGAAACA-AAG-AAAAAAGC
*
233207 AAAATAAACAAAGAAAAAAG
1 AAAAGAAACAAAGAAAAAAG
233227 AGAAACAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 10 0.56
23 1 0.06
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAGAAACAAAGAAAAAAGC
Found at i:233628 original size:167 final size:168
Alignment explanation
Indices: 233304--233630 Score: 495
Period size: 167 Copynumber: 1.9 Consensus size: 168
233294 ATGGTGCATG
233304 AAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCTCGAATCACTGAATCACTTCACTCGAA
1 AAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCTC--A-CACTGAATCACTTCACTCGAA
*
233369 GATCATAGAGCATCAAGAGAGAGAAACATTTTGAGCAGGATTGAAGACATCATAATGAATTGATC
63 GATCATAGAGCATCAAGAGAGAG-AACATTTTGAGCAGGATTGAAGACATCAGAATGAATTGATC
233434 ATTGGTTCAACACCCTGAAACACTTGTTTGAAATGACACATC
127 ATTGGTTCAACACCCTGAAACACTTGTTTGAAATGACACATC
233476 AAGCTTCAAACTATGAGATTGATCAAGCACAATCA-T-TC-C-C-GAATCACTTCACTCGAAGAT
1 AAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCTCACACTGAATCACTTCACTCGAAGAT
* *
233536 CATAGAGTATCAAGAGAGAG-ACATTTTGAGCAGGACATGATTGAAGGCATCAGAATGAATTGAT
66 CATAGAGCATCAAGAGAGAGAACATTTTGAGCA-G----GATTGAAGACATCAGAATGAATTGAT
*
233600 CCTTGGTTCAACACCCTGAAACACTTGTTTG
126 CATTGGTTCAACACCCTGAAACACTTGTTTG
233631 GGCCTATTTA
Statistics
Matches: 146, Mismatches: 4, Indels: 15
0.88 0.02 0.09
Matches are distributed among these distances:
162 12 0.08
163 1 0.01
164 39 0.27
165 1 0.01
166 1 0.01
167 54 0.37
170 2 0.01
171 1 0.01
172 35 0.24
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (168 bp):
AAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCTCACACTGAATCACTTCACTCGAAGAT
CATAGAGCATCAAGAGAGAGAACATTTTGAGCAGGATTGAAGACATCAGAATGAATTGATCATTG
GTTCAACACCCTGAAACACTTGTTTGAAATGACACATC
Found at i:234122 original size:22 final size:22
Alignment explanation
Indices: 234025--234123 Score: 162
Period size: 22 Copynumber: 4.5 Consensus size: 22
234015 GCTACCCCAT
*
234025 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
234047 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
234069 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
234091 CAAACATTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
234113 CAAACCTTTGA
1 CAAACCTTTGA
234124 CCAAACATAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 72 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.20
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:235084 original size:106 final size:106
Alignment explanation
Indices: 234927--236619 Score: 2531
Period size: 106 Copynumber: 16.0 Consensus size: 106
234917 ATATCGTGCC
* * * * *
234927 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
234992 AATTTCAAAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
235033 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCAGGTTGTCAATAAATAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
235098 AATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
235139 ACTCCAGACAACGCAAGTTCAACTTCCCAACGAAGGGACCGCTGGTTGTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
235204 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
235245 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
235310 AATTTCAGAGCCAATTTCAAATTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
235351 ACTCAAGACAACGCAGGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
235416 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
235457 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
235522 AATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
235563 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
235628 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
235669 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
235734 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
235775 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
235840 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
235881 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
235946 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
235987 ACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
236052 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
236093 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* ** *
236158 AATTTTAGAGCCAATTTCAACTTCACAATGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
236199 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
236264 AATTTCAGAGCCAATTTTAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
236305 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
236370 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *** * *
236411 AC-CCAAGACAACACAAGCTCAATTTCACAACGAAGGGGTGGCTGATTGTCAAC-AA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
*
236471 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
236511 ACTCGAGACAGCACAAGTTCAACTTCACAACGAA-GGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * * *
236575 TGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
236616 ACTC
1 ACTC
236620 AGAACAATTC
Statistics
Matches: 1454, Mismatches: 124, Indels: 19
0.91 0.08 0.01
Matches are distributed among these distances:
99 15 0.01
100 65 0.04
101 4 0.00
102 3 0.00
103 3 0.00
104 3 0.00
105 39 0.03
106 1322 0.91
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:238086 original size:19 final size:17
Alignment explanation
Indices: 238050--238099 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
238040 ATATTCTTAC
238050 TTTATT-TTATTTTATA
1 TTTATTATTATTTTATA
238066 TTTATTATTATTATTACTA
1 TTTATTATTATT-TTA-TA
* *
238085 TTTAGTATTTTTTTA
1 TTTATTATTATTTTA
238100 GTTAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.21
17 5 0.17
18 6 0.21
19 12 0.41
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTATA
Found at i:242582 original size:23 final size:23
Alignment explanation
Indices: 242551--242601 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
242541 TACATTTTTA
* *
242551 ATATCATAATAAAATAATAAATT
1 ATATTATAATAAAATAAGAAATT
* *
242574 ATATTATAATAATATAAGATATT
1 ATATTATAATAAAATAAGAAATT
242597 ATATT
1 ATATT
242602 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATTATAATAAAATAAGAAATT
Found at i:242719 original size:30 final size:27
Alignment explanation
Indices: 242664--242726 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 27
242654 ATTTCATAGA
242664 AATAATATTATTAAATTATTAATAATG
1 AATAATATTATTAAATTATTAATAATG
*
242691 AATAATA-TATTTAA-TATTAAT-AT-
1 AATAATATTATTAAATTATTAATAATG
242714 AATAATATT-TTAA
1 AATAATATTATTAA
242727 TAAAGATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 10 0.30
24 3 0.09
25 7 0.21
26 6 0.18
27 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATAATATTATTAAATTATTAATAATG
Found at i:242743 original size:23 final size:23
Alignment explanation
Indices: 242724--242768 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
242714 AATAATATTT
242724 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
242747 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
242769 ATATAACACT
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:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:247164 original size:20 final size:20
Alignment explanation
Indices: 247139--247181 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
247129 TCTAAGAGCC
*
247139 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
247159 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
247179 CAT
1 CAT
247182 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:249317 original size:18 final size:18
Alignment explanation
Indices: 249294--249357 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
249284 TGAAACTGAT
249294 TTTTTTGGTTCGGTTTGG
1 TTTTTTGGTTCGGTTTGG
* * *
249312 TTTTTT--TAACAGTTTAG
1 TTTTTTGGT-TCGGTTTGG
*
249329 TTTCTTTGGTTCGGTTCGG
1 TTT-TTTGGTTCGGTTTGG
*
249348 TTTATTGGTT
1 TTTTTTGGTT
249358 TTTCAATGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
16 1 0.03
17 9 0.26
18 15 0.44
19 8 0.24
20 1 0.03
ACGTcount: A:0.08, C:0.08, G:0.25, T:0.59
Consensus pattern (18 bp):
TTTTTTGGTTCGGTTTGG
Found at i:251384 original size:16 final size:16
Alignment explanation
Indices: 251360--251391 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
251350 TATAGCCAAC
*
251360 CAAATTTTACTATTCA
1 CAAAATTTACTATTCA
251376 CAAAATTTACTATTCA
1 CAAAATTTACTATTCA
251392 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (16 bp):
CAAAATTTACTATTCA
Found at i:252374 original size:3 final size:3
Alignment explanation
Indices: 252368--252455 Score: 176
Period size: 3 Copynumber: 29.3 Consensus size: 3
252358 AACCTTCTTC
252368 TTA TTA TTA TTA TTA TTA 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
252416 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
252456 ATATGGCTTG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:253324 original size:27 final size:27
Alignment explanation
Indices: 253288--253356 Score: 68
Period size: 31 Copynumber: 2.4 Consensus size: 27
253278 ACTGATTTTT
*
253288 TTAAACTTAAAA-TAGTTTTTATAATAC
1 TTAAATTTAAAATTAG-TTTTATAATAC
253315 TTAAATTTAAATAATTTTAGTTTTATAATAC
1 TTAAATTT-AA-AA--TTAGTTTTATAATAC
*
253346 TGAAATTTAAA
1 TTAAATTTAAA
253357 TAATCCATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 7 0.20
28 2 0.06
29 3 0.09
30 2 0.06
31 18 0.51
32 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (27 bp):
TTAAATTTAAAATTAGTTTTATAATAC
Found at i:253409 original size:22 final size:22
Alignment explanation
Indices: 253384--253659 Score: 464
Period size: 22 Copynumber: 12.6 Consensus size: 22
253374 ATGATAAATT
253384 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
253406 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
253428 TTTTAAAATAAATCAATCTATT
1 TTTTAAAATAAATCAATCCATA
253450 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
253472 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
253494 TTTTAAAATAAAGCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
253516 TTTTAAAATAAATCAATCTAT-
1 TTTTAAAATAAATCAATCCATA
253537 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
253559 TTTTAAAATAAATTAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
253581 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
253603 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
253625 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
253647 TTTTAAAATAAAT
1 TTTTAAAATAAAT
253660 TTTAAAATAA
Statistics
Matches: 240, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
21 20 0.08
22 220 0.92
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:253663 original size:12 final size:12
Alignment explanation
Indices: 253646--253685 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
253636 ATCAATCTAT
253646 ATTTTAAAATAA
1 ATTTTAAAATAA
253658 ATTTTAAAATAA
1 ATTTTAAAATAA
253670 A-TTT-AAAT-A
1 ATTTTAAAATAA
253679 ATTTTAA
1 ATTTTAA
253686 TTTATTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.08
10 7 0.27
11 4 0.15
12 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:254414 original size:30 final size:30
Alignment explanation
Indices: 254368--254448 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
254358 TATTTAAAAT
* *
254368 ATGCAATTATTATTTAATA-GTA-TATGAC
1 ATGCAATTACTATTTAATATGTACTATCAC
*
254396 ATGCAATGTAACTATTTAATATTTACTATCAC
1 ATGCAAT-T-ACTATTTAATATGTACTATCAC
*
254428 ATGCAATTATTATTTAATATG
1 ATGCAATTACTATTTAATATG
254449 CAACCACTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 7 0.16
29 1 0.02
30 21 0.48
31 3 0.07
32 12 0.27
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (30 bp):
ATGCAATTACTATTTAATATGTACTATCAC
Found at i:256444 original size:21 final size:21
Alignment explanation
Indices: 256327--256444 Score: 71
Period size: 21 Copynumber: 5.7 Consensus size: 21
256317 ACGCGAAATA
**
256327 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
256347 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
256367 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
256388 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
256409 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
*
256430 AGAATCGCAACGCGA
1 AAAATCGCAACGCGA
256445 ACACATAAAT
Statistics
Matches: 71, Mismatches: 23, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
19 1 0.01
20 24 0.34
21 44 0.62
22 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:256473 original size:20 final size:20
Alignment explanation
Indices: 256432--256640 Score: 226
Period size: 20 Copynumber: 10.4 Consensus size: 20
256422 GATTTTCCAG
* *
256432 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
256452 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
256472 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
256492 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
256512 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
256532 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
256552 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
256572 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
256592 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
256612 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
256632 AATCACAAC
1 AATCGCAAC
256641 ACTGAAATTT
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 158 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:257360 original size:24 final size:24
Alignment explanation
Indices: 257333--257379 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
257323 AAATTTGGTC
257333 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
257357 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
257380 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:257571 original size:12 final size:12
Alignment explanation
Indices: 257554--257578 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
257544 ATATAATCCT
257554 GAAGAAGAAAAA
1 GAAGAAGAAAAA
257566 GAAGAAGAAAAA
1 GAAGAAGAAAAA
257578 G
1 G
257579 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:259946 original size:19 final size:19
Alignment explanation
Indices: 259877--260228 Score: 439
Period size: 19 Copynumber: 19.7 Consensus size: 19
259867 GCAACGAGAG
259877 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
259896 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
259910 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
259930 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
259949 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
259968 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
259987 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
260001 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
260021 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
260040 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
260054 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
260073 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
260092 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
260106 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
260125 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
260144 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
260158 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
260178 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
260197 AATCGCATTGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
260216 AATCGCATTGCGA
1 AATCGCAATGCGA
260229 TTCTCTCGTT
Statistics
Matches: 294, Mismatches: 11, Indels: 56
0.81 0.03 0.16
Matches are distributed among these distances:
14 52 0.18
15 4 0.01
16 8 0.03
17 10 0.03
18 2 0.01
19 175 0.60
20 43 0.15
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:260015 original size:124 final size:126
Alignment explanation
Indices: 259863--260228 Score: 486
Period size: 124 Copynumber: 2.9 Consensus size: 126
259853 CGGAAATTAC
*
259863 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACAATGAAAATCGCAATGCGGAAAT
259927 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAA
66 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAGAATCG-A
259987 AATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--C-
1 AATCGCAACGAGAGAATCGCAATGCG-AAATGAAAATCGCAA--C--AATGAAAATCGCAATGCG
* * *
260049 G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG
61 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAGAATCG
*
260111 C
126 A
* * * *
260112 AATGCGAAATGA-A-AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAA
1 AAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACAATGAAAATCGCAATGCGGAAA
* *
260174 TGAAAATCGCAATGCGAAATGAAAATCGCATTGCGAAATGAAAATCGCATTGCGA
65 TGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
260229 TTCTCTCGTT
Statistics
Matches: 213, Mismatches: 14, Indels: 30
0.83 0.05 0.12
Matches are distributed among these distances:
118 10 0.05
119 1 0.00
120 1 0.00
121 2 0.01
123 16 0.08
124 138 0.65
125 22 0.10
126 7 0.03
127 2 0.01
128 1 0.00
130 13 0.06
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (126 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACAATGAAAATCGCAATGCGGAAAT
GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAGAATCGA
Found at i:260092 original size:52 final size:52
Alignment explanation
Indices: 259905--260203 Score: 517
Period size: 52 Copynumber: 5.6 Consensus size: 52
259895 AAATCCCAAC
*
259905 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
259963 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG-AA
260016 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
260068 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
260120 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAA
260173 ATGAAAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCA
260204 TTGCGAAATG
Statistics
Matches: 238, Mismatches: 1, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
52 117 0.49
53 87 0.37
55 2 0.01
57 16 0.07
58 16 0.07
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:260261 original size:53 final size:52
Alignment explanation
Indices: 260199--260314 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 52
260189 GAAATGAAAA
260199 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
260251 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
260304 TCGCATTGCGA
1 TCGCATTGCGA
260315 TTTTCATTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 11 0.19
53 46 0.81
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:260331 original size:52 final size:53
Alignment explanation
Indices: 260218--260334 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
260208 GAAATGAAAA
260218 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
260271 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
260323 TCGCATTGCGAT
1 TCGCATTGCGAT
260335 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:260342 original size:19 final size:19
Alignment explanation
Indices: 260237--260334 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
260227 GATTCTCTCG
260237 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
260257 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
260276 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
260290 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
260309 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
260328 TTGCGAT
1 TTGCGAT
260335 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:260460 original size:14 final size:14
Alignment explanation
Indices: 260441--260477 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
260431 CATCAATTAC
260441 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
260455 ACAAATCATCTTTT
1 ACAAATCAACTTTT
260469 ACAAATCAA
1 ACAAATCAA
260478 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:262440 original size:19 final size:19
Alignment explanation
Indices: 262398--262571 Score: 143
Period size: 19 Copynumber: 9.6 Consensus size: 19
262388 TAGTTTACTT
* *
262398 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
262418 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
262437 TCGCAAACGAGAAACCAAAA
1 TCGC-AACGCGAAATGAAAA
**
262457 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
262476 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
262495 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
262509 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
262528 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
262542 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
262561 TTGCAATGCGA
1 TCGCAACGCGA
262572 TTTTGGTTTC
Statistics
Matches: 127, Mismatches: 16, Indels: 23
0.77 0.10 0.14
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 66 0.52
20 27 0.21
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:262442 original size:39 final size:39
Alignment explanation
Indices: 262398--262502 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 39
262388 TAGTTTACTT
* ** *
262398 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAA
1 TCGCAACACGAAACTCAAAATCGCAACGCGAAACCAAAA
262437 TCGCAA-ACGAGAAAC-CAAAATCGCAACGCGAAACCAAAA
1 TCGCAACAC--GAAACTCAAAATCGCAACGCGAAACCAAAA
* *
262476 TCGCAACGCGAAA-TGAAAATCGCAACG
1 TCGCAACACGAAACTCAAAATCGCAACG
262503 ACAGAATCGC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
38 18 0.32
39 32 0.57
40 6 0.11
ACGTcount: A:0.47, C:0.26, G:0.18, T:0.10
Consensus pattern (39 bp):
TCGCAACACGAAACTCAAAATCGCAACGCGAAACCAAAA
Found at i:262512 original size:14 final size:14
Alignment explanation
Indices: 262493--262549 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
262483 GCGAAATGAA
*
262493 AATCGCAACGACAG
1 AATCGCAACGAAAG
262507 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
262524 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
262540 AATCGCAACG
1 AATCGCAACG
262550 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:262520 original size:33 final size:33
Alignment explanation
Indices: 262474--262566 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
262464 GCGAAACCAA
262474 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
262507 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
262540 AATCGCAACGCGAAATGAAAATTGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
262567 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:262589 original size:19 final size:18
Alignment explanation
Indices: 262567--262658 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
262557 AAAATTGCAA
262567 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
262586 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
262600 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
262619 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
262633 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
262652 TGCGATT
1 TGCGATT
262659 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:262602 original size:14 final size:14
Alignment explanation
Indices: 262583--262641 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
262573 TTTGGTTTCG
262583 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
262597 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
262614 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
262630 CGTTGCGATTTT
1 CGTTGCGATTTT
262642 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:262609 original size:33 final size:33
Alignment explanation
Indices: 262567--262690 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
262557 AAAATTGCAA
*
262567 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
262600 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
262633 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
262666 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
262691 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:262668 original size:14 final size:14
Alignment explanation
Indices: 262616--262672 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
262606 TTTGGTTTCG
*
262616 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
262630 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
262649 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
262663 CGTTGCGATT
1 CGTTGCGATT
262673 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:263102 original size:93 final size:93
Alignment explanation
Indices: 262788--263102 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
262778 TCAGGGTATT
262788 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
262853 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
262881 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
262945 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
262973 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
263038 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
263066 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
263103 AAGCAATCTA
Statistics
Matches: 220, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.42
93 128 0.58
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:264838 original size:21 final size:21
Alignment explanation
Indices: 264784--264848 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
264774 TCTTTTGGTT
264784 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
* ***
264805 -TAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
*
264825 GAAATGAAAATCGCAATGAGA
1 GAAATGAAAATCGCAACGAGA
264846 GAA
1 GAA
264849 TCGCAACGCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.48, C:0.14, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:264862 original size:33 final size:33
Alignment explanation
Indices: 264825--264908 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
264815 CGCAACGAGA
264825 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
*
264858 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
264891 GAAATGAAAATCGCAATG
1 GAAATGAAAATCGCAATG
264909 CGATTTTGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAATGAGAGAATCGCAACGC
Found at i:264871 original size:19 final size:19
Alignment explanation
Indices: 264784--264911 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
264774 TCTTTTGGTT
*
264784 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*** *
264803 GATAATGACTGTCGCAACGAGA
1 GA-AATGAAAATCGCAAC--GC
*
264825 GAAATGAAAATCGCAA--T
1 GAAATGAAAATCGCAACGC
*
264842 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
264858 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
264875 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
264891 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
264910 GA
1 GA
264912 TTTTGGTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 3 0.04
17 3 0.04
18 2 0.02
19 26 0.31
20 12 0.14
21 11 0.13
22 4 0.05
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:264885 original size:14 final size:14
Alignment explanation
Indices: 264833--264889 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
264823 GAGAAATGAA
*
264833 AATCGCAATGAGAG
1 AATCGCAACGAGAG
*
264847 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
264866 AATCGCAACGAGAG
1 AATCGCAACGAGAG
264880 AATCGCAACG
1 AATCGCAACG
264890 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:264942 original size:14 final size:14
Alignment explanation
Indices: 264923--264979 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
264913 TTTGGTTTCG
264923 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
264937 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
264954 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
264970 CGTTGCGATT
1 CGTTGCGATT
264980 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:264955 original size:33 final size:33
Alignment explanation
Indices: 264907--264986 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
264897 AAAATCGCAA
** *
264907 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
264940 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
264973 TGCGATTTTCATTT
1 TGCGATTTTCATTT
264987 TTCTCGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:264992 original size:21 final size:21
Alignment explanation
Indices: 264967--265040 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
264957 ATTGCGATTC
264967 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
*
264988 TCTCGTTGCAGATATTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
265009 TCACGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTT
265030 TCTCGTTGCGA
1 TCTCGTTGCGA
265041 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 7 0.15
21 32 0.70
22 7 0.15
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.49
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:265162 original size:33 final size:33
Alignment explanation
Indices: 265120--265190 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
265110 AATACTAACT
265120 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
265153 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
265186 TGAAA
1 TGAAA
265191 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:265597 original size:20 final size:20
Alignment explanation
Indices: 265572--265764 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
265562 CTTTAAAAAT
265572 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
265592 CGCGTTGTGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
265612 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
265633 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
265653 TGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
265673 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
265693 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
265713 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
265733 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
265753 CGCGTTGCGATT
1 CGCGTTGCGATT
265765 CTGGAAAATC
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
20 131 0.89
21 17 0.11
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:266781 original size:20 final size:21
Alignment explanation
Indices: 266758--266797 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
266748 TGCCATTTTT
266758 AAAAAATAAAATTTT-CATTA
1 AAAAAATAAAATTTTACATTA
* *
266778 AAAAGATATAATTTTACATT
1 AAAAAATAAAATTTTACATT
266798 TATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAAAATAAAATTTTACATTA
Found at i:268952 original size:7 final size:7
Alignment explanation
Indices: 268940--268966 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
268930 AGGATTAGGC
268940 TGCTGCT
1 TGCTGCT
268947 TGCTGCT
1 TGCTGCT
268954 TGCTGCT
1 TGCTGCT
268961 TGCTGC
1 TGCTGC
268967 CTTCTTCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.30, T:0.41
Consensus pattern (7 bp):
TGCTGCT
Found at i:277481 original size:82 final size:82
Alignment explanation
Indices: 277338--277503 Score: 260
Period size: 82 Copynumber: 2.0 Consensus size: 82
277328 CGAAAGCGAT
* * * *
277338 GACGACAACACTGTGGGTGCTAGATGAAGCGAAACAACGGGAGGAGAACGATGGTGTTGGCGGTG
1 GACGACAACACTGTGAGTGCCAGATGAAGCGAAACAACGGGAGGAGAACGATAGTGCTGGCGGTG
* *
277403 TCTCTCCTCAGTGATCG
66 TCGCTCCCCAGTGATCG
* *
277420 GACGACAACACTGTGAGTGCCAGATGAAGTGAAACAGCGGGAGGAGAACGATAGTGCTGGCGGTG
1 GACGACAACACTGTGAGTGCCAGATGAAGCGAAACAACGGGAGGAGAACGATAGTGCTGGCGGTG
277485 TCGCTCCCCAGTGATCG
66 TCGCTCCCCAGTGATCG
277502 GA
1 GA
277504 TGGCAAAGGA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.27, C:0.20, G:0.36, T:0.17
Consensus pattern (82 bp):
GACGACAACACTGTGAGTGCCAGATGAAGCGAAACAACGGGAGGAGAACGATAGTGCTGGCGGTG
TCGCTCCCCAGTGATCG
Found at i:290077 original size:32 final size:32
Alignment explanation
Indices: 290036--290101 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
290026 CCAAAGTTCA
290036 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
1 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
290068 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
1 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
290100 TC
1 TC
290102 GATAATCACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (32 bp):
TCTTTGTTTTCTAGTCAACTTATGTACTACAC
Found at i:304221 original size:17 final size:18
Alignment explanation
Indices: 304178--304218 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
304168 AAATTATATT
304178 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
304195 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
304213 ATTAAA
1 AGTAAA
304219 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:307433 original size:24 final size:24
Alignment explanation
Indices: 307373--307454 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
307363 AAAAAAATAT
* *
307373 TAATATAATAAATAACAAAGAAAAA
1 TAATA-AATAAGTAAAAAAGAAAAA
* * *
307398 -CATAAGTTAGTAAAAAAGAAAAA
1 TAATAAATAAGTAAAAAAGAAAAA
* *
307421 TAATAAATAAGTAATAAA-ATAAA
1 TAATAAATAAGTAAAAAAGAAAAA
307444 TAAATAAATAA
1 T-AATAAATAA
307455 AAAGACCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 20 0.44
24 25 0.56
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (24 bp):
TAATAAATAAGTAAAAAAGAAAAA
Found at i:307441 original size:16 final size:17
Alignment explanation
Indices: 307422--307456 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
307412 AAAGAAAAAT
*
307422 AATAAATAAGT-AATAA
1 AATAAATAAATAAATAA
307438 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
307455 AA
1 AA
307457 AGACCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:307675 original size:21 final size:22
Alignment explanation
Indices: 307638--307682 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
307628 TCCCAATTTC
307638 CACCACTGCTCCCTCCACTAGG
1 CACCACTGCTCCCTCCACTAGG
307660 CACCACTGCT-CCTCCACTAGG
1 CACCACTGCTCCCTCCACTAGG
307681 CA
1 CA
307683 GATCTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.20, C:0.49, G:0.13, T:0.18
Consensus pattern (22 bp):
CACCACTGCTCCCTCCACTAGG
Found at i:308809 original size:83 final size:82
Alignment explanation
Indices: 308665--308935 Score: 382
Period size: 83 Copynumber: 3.2 Consensus size: 82
308655 CTGAATGAAA
* * *
308665 TCGAACTCGTCAGGTCTTTAGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATG
1 TCGAACTCG-AAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG-AAATGATG
308730 TGCCTTGGAGCTGAGCGTAG
63 TGCCTTGGAGCTGAGCGTAG
* * * * *
308750 TCGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG-AAATGATGTG
* *
308815 CCTTTGAGCTGAGCGTGG
65 CCTTGGAGCTGAGCGTAG
*
308833 TCGAACTCGAAGGTTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCAATG-AATGATGT
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGC--TGAAATGATGT
308897 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
308916 TCGAACTCGAAGGTCTTTGT
1 TCGAACTCGAAGGTCTTTGT
308936 GTTTCAAGAG
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
83 145 0.88
84 8 0.05
85 11 0.07
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGAAATGATGTGC
CTTGGAGCTGAGCGTAG
Found at i:308983 original size:28 final size:28
Alignment explanation
Indices: 308937--308994 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
308927 GGTCTTTGTG
*
308937 TTTCAAGAGAAATATTTTCAAAGGTTTT
1 TTTCAAGAGAAAGATTTTCAAAGGTTTT
308965 TTTCAAGAGAAACGA-TTTCAAAGGTTTT
1 TTTCAAGAGAAA-GATTTTCAAAGGTTTT
308993 TT
1 TT
308995 GTTTCAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (28 bp):
TTTCAAGAGAAAGATTTTCAAAGGTTTT
Found at i:309003 original size:28 final size:30
Alignment explanation
Indices: 308972--309030 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
308962 TTTTTTCAAG
*
308972 AGAAACGATTTCAAAGG-TTTTT-TGTTTC
1 AGAAACGACTTCAAAGGATTTTTGTGTTTC
309000 AGAAACGACTTCAAAGGATTTTTGTGTTTC
1 AGAAACGACTTCAAAGGATTTTTGTGTTTC
309030 A
1 A
309031 AGAGAAACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 16 0.57
29 5 0.18
30 7 0.25
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (30 bp):
AGAAACGACTTCAAAGGATTTTTGTGTTTC
Found at i:309606 original size:106 final size:105
Alignment explanation
Indices: 309487--310774 Score: 1940
Period size: 106 Copynumber: 12.4 Consensus size: 105
309477 GTATTGTTCC
* * *
309487 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTGTTGACAA
*
309552 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
309593 GAGTCCAATATCCTTCGCTT-TGAAGTTGAAATTGACTATGAAATTGGGAATTTGTTTATTGACA
1 GAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTGTTGACA
*
309657 ACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
309699 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTGTTGACAA
309764 CCAGCGGT--C--C--C------TTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
309793 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAAGTTATTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA-TTGTTTGTTGACA
*
309857 ACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
309899 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AATTGTTTGTTGACAA
*
309964 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
310005 GAGTCCAATATCCTTCGCTT-TGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTGTTGACA
* *
310069 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
310111 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AATTGTTTGTTGACAA
310176 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
310217 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTGTTGACAAC
310282 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
310322 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AATTGTTTGTTGACAA
310387 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
310428 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGGAGAAATGTTTGGTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAATTGTTTGTTGACAA
310492 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
310533 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTGTTGACAAC
310597 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
310637 GAGTCCAATATCTTTCG-T-T----TTGAAATTGGCTCTG-AATTGGAGAAATGTTTGGTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAATTGTTTGTTGACAA
310695 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
310736 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
310775 CGAGCAAAAT
Statistics
Matches: 1094, Mismatches: 59, Indels: 59
0.90 0.05 0.05
Matches are distributed among these distances:
93 1 0.00
94 85 0.08
96 1 0.00
98 20 0.02
99 75 0.07
100 3 0.00
101 1 0.00
102 2 0.00
103 1 0.00
104 76 0.07
105 219 0.20
106 601 0.55
107 9 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:310379 original size:211 final size:211
Alignment explanation
Indices: 309775--310774 Score: 1655
Period size: 211 Copynumber: 4.8 Consensus size: 211
309765 CAGCGGTCCC
*
309775 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTG-
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
* * *
309839 GAAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTC
66 GAAA--TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
309904 CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAACCAGC
129 CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGC
309969 GGTCCCTTCGTCGTGAAG
194 GGTCCCTTCGTCGTGAAG
*
309987 TTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTT-TGAAGTTGAAATTGGCTCTGAAATTG
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAAATTG
* * * * *
310051 GGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTTGAGTC
65 AGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
310116 CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGC
129 CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGC
310181 GGTCCCTTCGTCGTGAAG
194 GGTCCCTTCGTCGTGAAG
310199 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
310264 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
310329 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGCGG
131 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGCGG
310394 TCCCTTCGTCGTGAAG
196 TCCCTTCGTCGTGAAG
*
310410 TTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGG
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-G
*
310474 AGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
65 AGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * * *
310539 AATATCCTTCGTTGTGAAGTTGAAATTGGCTC-TGAATTGAGAAA-TGTTTGTTGACAACCAGCG
130 AATATCCTTCGTTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGCG
310602 GTCCCTTCGTCGTGAAG
195 GTCCCTTCGTCGTGAAG
*
310619 TTGAACTTGCGTTGTCTGGAGTCCAATATCTTTCG-T-T----TTGAAATTGGCTCTG-AATTGG
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-G
*
310677 AGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
65 AGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
310742 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
130 AATATCCTTCGTTGTGAAGTTGAAATTGACTCT
310775 CGAGCAAAAT
Statistics
Matches: 758, Mismatches: 24, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
203 118 0.16
207 1 0.00
208 1 0.00
209 69 0.09
210 14 0.02
211 293 0.39
212 257 0.34
213 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (211 bp):
TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGACTCTTAAATTGGGAAATTGTTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAG
Found at i:314494 original size:17 final size:17
Alignment explanation
Indices: 314470--314519 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
314460 CATAAGTTAG
314470 TAAA-AAAG-AAAAATAA
1 TAAATAAAGTAAAAA-AA
*
314486 TAAATAAAGTAATAAAA
1 TAAATAAAGTAAAAAAA
314503 TAAATAAA-TAAATAAAA
1 TAAATAAAGTAAA-AAAA
314520 AAGACCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 7 0.24
17 18 0.62
18 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
TAAATAAAGTAAAAAAA
Found at i:314731 original size:22 final size:22
Alignment explanation
Indices: 314706--314751 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
314696 TCCCAATTTC
314706 CACCACTGCTCCCTCCACTAGG
1 CACCACTGCTCCCTCCACTAGG
314728 CACCACTGCTCCCTCCACTAGG
1 CACCACTGCTCCCTCCACTAGG
314750 CA
1 CA
314752 GATCTTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.50, G:0.13, T:0.17
Consensus pattern (22 bp):
CACCACTGCTCCCTCCACTAGG
Found at i:318767 original size:43 final size:43
Alignment explanation
Indices: 318720--318803 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
318710 GGCACATCGC
318720 AATATTAATTGATCTGAAAATTA-TTGGTGTAGATAAACGCAGT
1 AATATTAATTGATCTGAAAATTACTT-GTGTAGATAAACGCAGT
*
318763 AATATTAATTGATCTGGAAATTACTTGTGTAGATAAACGCA
1 AATATTAATTGATCTGAAAATTACTTGTGTAGATAAACGCA
318804 TAAGACTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 37 0.95
44 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (43 bp):
AATATTAATTGATCTGAAAATTACTTGTGTAGATAAACGCAGT
Found at i:319499 original size:2 final size:2
Alignment explanation
Indices: 319492--319523 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
319482 TCACTGCCCG
319492 TC TC 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 TC TC
319524 CTTTAGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:322771 original size:30 final size:30
Alignment explanation
Indices: 322695--322772 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
322685 CGACCGCAGG
* * *
322695 GACAAACCTAGGAAAACCACTGACACCCGG
1 GACAAGCCTAGGAAAAGCACTGACACCCGA
* * *
322725 GACAAGCCTCGGAAAAGTACTGATACCCGA
1 GACAAGCCTAGGAAAAGCACTGACACCCGA
*
322755 GACAAGCCAAGGAAAAGC
1 GACAAGCCTAGGAAAAGC
322773 GTTGATAGGC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.41, C:0.28, G:0.23, T:0.08
Consensus pattern (30 bp):
GACAAGCCTAGGAAAAGCACTGACACCCGA
Found at i:353218 original size:25 final size:25
Alignment explanation
Indices: 353189--353248 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
353179 TGTAAACCAA
353189 AACAGCAAACATGAAATATCAACCC
1 AACAGCAAACATGAAATATCAACCC
353214 AACAGCAAACATGAAATATCAACCC
1 AACAGCAAACATGAAATATCAACCC
353239 AACAGCAAAC
1 AACAGCAAAC
353249 TTACAAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.53, C:0.28, G:0.08, T:0.10
Consensus pattern (25 bp):
AACAGCAAACATGAAATATCAACCC
Found at i:355356 original size:2 final size:2
Alignment explanation
Indices: 355349--355376 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
355339 GGACAAAGCC
355349 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
355377 TTCTGAAAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:358155 original size:17 final size:17
Alignment explanation
Indices: 358128--358166 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
358118 AATTTACAAT
358128 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
358144 TAATTATAAATAATATC
1 TAATTATAAATAATATC
358161 TAATTA
1 TAATTA
358167 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:358242 original size:11 final size:11
Alignment explanation
Indices: 358226--358250 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
358216 AATATTGATT
358226 TGGGTTTTAAA
1 TGGGTTTTAAA
358237 TGGGTTTTAAA
1 TGGGTTTTAAA
358248 TGG
1 TGG
358251 ATTGGGTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (11 bp):
TGGGTTTTAAA
Found at i:362409 original size:16 final size:16
Alignment explanation
Indices: 362388--362448 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
362378 TAATAAATAA
362388 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
362404 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
362420 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
362436 ACGAACATAAACG
1 ACGAACATAAACG
362449 TTGGAGACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:370370 original size:10 final size:10
Alignment explanation
Indices: 370355--370388 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
370345 CATCTTAATT
370355 CCATCCGTTA
1 CCATCCGTTA
370365 CCATCCGTTA
1 CCATCCGTTA
370375 CCATCCGTTA
1 CCATCCGTTA
370385 CCAT
1 CCAT
370389 GGCCGCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.21, C:0.41, G:0.09, T:0.29
Consensus pattern (10 bp):
CCATCCGTTA
Found at i:371102 original size:18 final size:19
Alignment explanation
Indices: 371079--371115 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
371069 CCAGTAATCC
371079 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
371097 TATTCCTACTGGTAATCTT
1 TATTCC-ACTGGTAATCTT
371116 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:371121 original size:20 final size:20
Alignment explanation
Indices: 371085--371122 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
371075 ATCCTATTCC
**
371085 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTACATTCCTA
371105 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
371123 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCTA
Found at i:373867 original size:39 final size:39
Alignment explanation
Indices: 373813--373902 Score: 171
Period size: 39 Copynumber: 2.3 Consensus size: 39
373803 GTAATAAATG
*
373813 CTGGGGGGGAAAAAGAGAAAGTGAAATTAAAACCTGGGT
1 CTGGGAGGGAAAAAGAGAAAGTGAAATTAAAACCTGGGT
373852 CTGGGAGGGAAAAAGAGAAAGTGAAATTAAAACCTGGGT
1 CTGGGAGGGAAAAAGAGAAAGTGAAATTAAAACCTGGGT
373891 CTGGGAGGGAAA
1 CTGGGAGGGAAA
373903 TCTGAGGTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.41, C:0.08, G:0.37, T:0.14
Consensus pattern (39 bp):
CTGGGAGGGAAAAAGAGAAAGTGAAATTAAAACCTGGGT
Found at i:374384 original size:23 final size:23
Alignment explanation
Indices: 374358--374401 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
374348 TATTAAAAAA
*
374358 ATATGTAAAATTAAATTATTTAT
1 ATATGTAAAATTAAATGATTTAT
*
374381 ATATTTAAAATTAAATGATTT
1 ATATGTAAAATTAAATGATTT
374402 GTGAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATGTAAAATTAAATGATTTAT
Found at i:374415 original size:25 final size:24
Alignment explanation
Indices: 374357--374416 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
374347 TTATTAAAAA
* *
374357 AATATGTAAAATTAAATTATTTAT
1 AATATATAAAATTAAATGATTTAT
* *
374381 -ATATTTAAAATTAAATGATTTGT
1 AATATATAAAATTAAATGATTTAT
374404 GAATATATAAAAT
1 -AATATATAAAAT
374417 AAAAAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 20 0.67
25 10 0.33
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
AATATATAAAATTAAATGATTTAT
Found at i:374968 original size:51 final size:50
Alignment explanation
Indices: 374845--374981 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 50
374835 AGTTCATACT
* * *
374845 ATAAAAAATGTAGCACTTAACACATAC-TACACCGGTGTAAGTGAATAAA
1 ATAAAAAATGTATCACTTAACACATACTTACACCGGTGTAAATAAATAAA
* *
374894 ATAAAAAAAG--T--CTTAACATATACTTACACCGGTGTAAATAAATAAA
1 ATAAAAAATGTATCACTTAACACATACTTACACCGGTGTAAATAAATAAA
* *
374940 ATAAAAAAGTGTATCACTTAACACATACTTACAACAGTGTAA
1 ATAAAAAA-TGTATCACTTAACACATACTTACACCGGTGTAA
374982 GTATATACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
45 11 0.15
46 28 0.38
47 1 0.01
49 10 0.14
51 23 0.32
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (50 bp):
ATAAAAAATGTATCACTTAACACATACTTACACCGGTGTAAATAAATAAA
Found at i:390796 original size:15 final size:15
Alignment explanation
Indices: 390778--390810 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
390768 AAATTCTAAA
390778 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
390793 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
390808 TAT
1 TAT
390811 ATATGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:392257 original size:17 final size:17
Alignment explanation
Indices: 392235--392271 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
392225 TCCTGGATCA
*
392235 CAAGCAGGATCTAGATG
1 CAAGCAGAATCTAGATG
392252 CAAGCAGAATCTAGATG
1 CAAGCAGAATCTAGATG
392269 CAA
1 CAA
392272 ACTTTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (17 bp):
CAAGCAGAATCTAGATG
Found at i:392538 original size:28 final size:28
Alignment explanation
Indices: 392506--392565 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
392496 TAAAAGTAAT
392506 GAAATAGATATAAATCGGAGGATTTTCA
1 GAAATAGATATAAATCGGAGGATTTTCA
*
392534 GAAATGGATATAAATCGGAGGATTTTCA
1 GAAATAGATATAAATCGGAGGATTTTCA
392562 GAAA
1 GAAA
392566 CGGTAAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (28 bp):
GAAATAGATATAAATCGGAGGATTTTCA
Found at i:393917 original size:31 final size:31
Alignment explanation
Indices: 393879--393938 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
393869 GACAGTTCTA
* *
393879 GATGCATAATTGATACTATCCCCTAATGCTG
1 GATGCATAACTGAAACTATCCCCTAATGCTG
393910 GATGCATAACTGAAACTATCCCCTAATGC
1 GATGCATAACTGAAACTATCCCCTAATGC
393939 ATAAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (31 bp):
GATGCATAACTGAAACTATCCCCTAATGCTG
Found at i:395435 original size:21 final size:20
Alignment explanation
Indices: 395389--395465 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
395379 TCTCTGACTC
* *
395389 AAAGGATAGATCCCTTAGCA
1 AAAGGATCGATCCCTTTGCA
*
395409 AAAGGATCGATCCCTTTGGCC
1 AAAGGATCGATCCCTTT-GCA
* *
395430 AAAGGATCGATCCCCTTGAA
1 AAAGGATCGATCCCTTTGCA
*
395450 AAAGGATTGATCCCTT
1 AAAGGATCGATCCCTT
395466 GGATAACAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 30 0.62
21 18 0.38
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
AAAGGATCGATCCCTTTGCA
Found at i:395453 original size:41 final size:41
Alignment explanation
Indices: 395388--395465 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
395378 TTCTCTGACT
*
395388 CAAAGGATAGATCCCTTAGCAAAAGGATCGATCCCTTTGGC
1 CAAAGGATAGATCCCTTAGAAAAAGGATCGATCCCTTTGGC
* *
395429 CAAAGGATCGATCCCCTT-GAAAAAGGATTGATCCCTT
1 CAAAGGATAGAT-CCCTTAGAAAAAGGATCGATCCCTT
395466 GGATAACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (41 bp):
CAAAGGATAGATCCCTTAGAAAAAGGATCGATCCCTTTGGC
Found at i:395767 original size:34 final size:34
Alignment explanation
Indices: 395729--395794 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
395719 AAGCATTCAA
395729 ACACAAAAGAAAAGTTTTTCAATCCTAATTTTAT
1 ACACAAAAGAAAAGTTTTTCAATCCTAATTTTAT
*
395763 ACACAAGAGAAAAGTTTTTCAATCCTAATTTT
1 ACACAAAAGAAAAGTTTTTCAATCCTAATTTT
395795 CTTTCTCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (34 bp):
ACACAAAAGAAAAGTTTTTCAATCCTAATTTTAT
Found at i:403447 original size:23 final size:23
Alignment explanation
Indices: 403420--403464 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
403410 TGTTCACAAA
* *
403420 CATATAGACGAACACTAAACGAC
1 CATATACAAGAACACTAAACGAC
*
403443 CATATTCAAGAACACTAAACGA
1 CATATACAAGAACACTAAACGA
403465 ACACCTTCAA
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:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (23 bp):
CATATACAAGAACACTAAACGAC
Found at i:403473 original size:23 final size:23
Alignment explanation
Indices: 403429--403474 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
403419 ACATATAGAC
* *
403429 GAACACTAAACGACCATATTCAA
1 GAACACTAAACGAACACATTCAA
*
403452 GAACACTAAACGAACACCTTCAA
1 GAACACTAAACGAACACATTCAA
403475 AAATAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.28, G:0.09, T:0.15
Consensus pattern (23 bp):
GAACACTAAACGAACACATTCAA
Found at i:421664 original size:18 final size:18
Alignment explanation
Indices: 421641--421688 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
421631 CTTTTAGCAT
*
421641 TTGCTTTGTTGCAGCTTC
1 TTGCTTCGTTGCAGCTTC
421659 TTGCTTCGTTGCAGCTTC
1 TTGCTTCGTTGCAGCTTC
421677 TTGCTTCGTTGC
1 TTGCTTCGTTGC
421689 TGCTGCTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.04, C:0.25, G:0.23, T:0.48
Consensus pattern (18 bp):
TTGCTTCGTTGCAGCTTC
Found at i:424419 original size:198 final size:195
Alignment explanation
Indices: 424029--424387 Score: 521
Period size: 196 Copynumber: 1.8 Consensus size: 195
424019 GACATAAAAT
** *
424029 AATAAAAAAAATTATTTTTATTCAATAAAATTATTAACTTAATTGAAAAAAATTATATATAGAGG
1 AATAAAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAAAAAAATTATATATAGAGG
* *
424094 GATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTCGGGTTGGTCTGAT
66 GATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGG--TGAT
* * ***
424159 TTTTTTCACCCTAAACCCGAACCCGACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCC
129 ATTTTTCACCCTAAACCCGAACCCGACCCGACCCGAACCGAACAAAATAAAGACCCACCCGACCC
424224 GA
194 GA
*
424226 AATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTG-AAAAAATATATATATAG-
1 AATAA-AAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAAAAAAAT-TATATATAGA
*
424289 GGG-TATTATTGTAATTATTTCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGG-G-T
64 GGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGTGAT
* *
424351 ATTTTTCACCCTAAACCCGAACTCGACTCGACCCGAA
129 ATTTTTCACCCTAAACCCGAACCCGACCCGACCCGAA
424388 TATCACACTT
Statistics
Matches: 149, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
192 34 0.23
193 1 0.01
196 54 0.36
197 15 0.10
198 45 0.30
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (195 bp):
AATAAAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAAAAAAATTATATATAGAGG
GATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGTGATAT
TTTTCACCCTAAACCCGAACCCGACCCGACCCGAACCGAACAAAATAAAGACCCACCCGACCCGA
Found at i:424818 original size:35 final size:35
Alignment explanation
Indices: 424761--424829 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
424751 TTTTTGGTCC
*
424761 ACCCGACCTGACCCAAAAACAAGAGTCTCCACCCGAG
1 ACCCGACCCGACCCAAAAACAAGAGT-T-CACCCGAG
424798 ACCCGACCCGA-CC-AAAACAAGAGTTCACCCGA
1 ACCCGACCCGACCCAAAAACAAGAGTTCACCCGA
424830 CTCAAACCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 7 0.23
34 1 0.03
35 11 0.35
36 2 0.06
37 10 0.32
ACGTcount: A:0.36, C:0.41, G:0.16, T:0.07
Consensus pattern (35 bp):
ACCCGACCCGACCCAAAAACAAGAGTTCACCCGAG
Found at i:424873 original size:30 final size:30
Alignment explanation
Indices: 424831--424901 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 30
424821 TTCACCCGAC
424831 TCAAACCCGACCCGATATATAACTTAGAAAT
1 TCAAA-CCGACCCGATATATAACTTAGAAAT
424862 TCAAACCGACCCGATATATAACTTAGAAAT
1 TCAAACCGACCCGATATATAACTTAGAAAT
424892 TCAAACCGAC
1 TCAAACCGAC
424902 TCGAAATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 35 0.88
31 5 0.12
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (30 bp):
TCAAACCGACCCGATATATAACTTAGAAAT
Found at i:425715 original size:16 final size:16
Alignment explanation
Indices: 425694--425731 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
425684 AATAAATTCA
425694 AATTCCCTAAATCTCT
1 AATTCCCTAAATCTCT
425710 AATTCCCTAAATCTCT
1 AATTCCCTAAATCTCT
425726 AATTCC
1 AATTCC
425732 ACCCAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTCCCTAAATCTCT
Found at i:431313 original size:2 final size:2
Alignment explanation
Indices: 431308--431334 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
431298 ATATATGAAT
431308 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
431335 CATTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:435092 original size:16 final size:16
Alignment explanation
Indices: 435071--435101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
435061 AAAAAAACAT
*
435071 TTTTCTTTTATTTTCG
1 TTTTCTTTAATTTTCG
435087 TTTTCTTTAATTTTC
1 TTTTCTTTAATTTTC
435102 TTTCAAACCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTCTTTAATTTTCG
Found at i:438295 original size:38 final size:38
Alignment explanation
Indices: 438244--438366 Score: 205
Period size: 38 Copynumber: 3.3 Consensus size: 38
438234 AACCCGAACT
438244 CGACCCGACCTGACCCAAATATCACACTTAAAAAAACC
1 CGACCCGACCTGACCCAAATATCACACTTAAAAAAACC
*
438282 CGACCCGACCTGACCCAAATATCACATTTAAAAAAACC
1 CGACCCGACCTGACCCAAATATCACACTTAAAAAAACC
*
438320 CGACCCGA-CTCGACCCGAATATCACACTT-AAAAAACC
1 CGACCCGACCT-GACCCAAATATCACACTTAAAAAAACC
438357 CGACCCGACC
1 CGACCCGACC
438367 CGAACAAAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
37 18 0.22
38 62 0.77
ACGTcount: A:0.39, C:0.38, G:0.10, T:0.13
Consensus pattern (38 bp):
CGACCCGACCTGACCCAAATATCACACTTAAAAAAACC
Found at i:438626 original size:37 final size:38
Alignment explanation
Indices: 438541--438634 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
438531 CCTAAACCCG
438541 AACCCGACCCGACCCGAACCGAATATCACACTTAAAAA
1 AACCCGACCCGACCCGAACCGAATATCACACTTAAAAA
* *
438579 AACCCGACCCGACTC-AACCCGAATATCACA-TTTAAAA
1 AACCCGACCCGACCCGAA-CCGAATATCACACTTAAAAA
*
438616 AACCCAACCCGACCCGAAC
1 AACCCGACCCGACCCGAAC
438635 AAAATAAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
37 22 0.44
38 28 0.56
ACGTcount: A:0.40, C:0.39, G:0.10, T:0.11
Consensus pattern (38 bp):
AACCCGACCCGACCCGAACCGAATATCACACTTAAAAA
Found at i:438817 original size:264 final size:259
Alignment explanation
Indices: 438278--438852 Score: 922
Period size: 263 Copynumber: 2.2 Consensus size: 259
438268 CACTTAAAAA
* * * *
438278 AACCCGACCCGACCTGACCCAAATATCACATTTAAAAAAACCCGACCCGACTCGACCCGAATATC
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCAACCCGAATATC
*
438343 ACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGATATATGA
66 ACACTTAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGATATATGA
* *
438408 ATTAGAAATCCGACCAGACCTGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTA
131 ATTAGAAATCCGACCAGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTA
438473 ATCCGACCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAAC
196 AT----CCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAAC
438538 CCG
257 CCG
*
438541 AACCCGACCCGACCCGAACCGAATATCACACTTAAAAAAACCCGACCCGACTCAACCCGAATATC
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCAACCCGAATATC
* * *
438606 ACATTTAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTTATCCGACCTGACCCGAATATATG
66 ACACTTAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCG-ATATATG
*
438671 AATTAGAAATCCGACCCAACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAATAGT
130 AATTAGAAATCCGA-CC-A---GACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGT
438736 GACTTAAT-CCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAA
190 GACTTAATCCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAA
438800 ACCCG
255 ACCCG
*
438805 AACCCGACCCGACTCGACCCGAATATCACACTT--AAAAACCCGACCCGA
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGA
438853 ACAAAATAAA
Statistics
Matches: 292, Mismatches: 14, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
262 15 0.05
263 113 0.39
264 113 0.39
265 2 0.01
266 1 0.00
269 48 0.16
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (259 bp):
AACCCGACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCAACCCGAATATC
ACACTTAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGATATATGA
ATTAGAAATCCGACCAGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTA
ATCCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCG
Found at i:438874 original size:220 final size:222
Alignment explanation
Indices: 438579--439036 Score: 749
Period size: 220 Copynumber: 2.1 Consensus size: 222
438569 CACTTAAAAA
*
438579 AACCCGACCCGACTCAACCCGAATATCACATTTAAAAAACCCAACCCGACCCGAACAAAATAAAG
1 AACCCGACCCGACTCAACCCGAATATCACACTT--AAAA--CAACCCGACCCGAACAAAATAAAG
* * * *
438644 TTTTATCCGACCTGACCCGAATATATGAATTAGAAATCCGACCCAACCCGACCCGAAATAATAAA
62 TTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCAACCCGACCCAAAATAATAAA
*
438709 AAAATATTTTTATTTAATAAAAATAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCG
127 AAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCG
438774 GGTCGGTCCGGTTTTTTTCACCCTAAACCCG
192 GGTCGGTCCGGTTTTTTTCACCCTAAACCCG
*
438805 AACCCGACCCGACTCGACCCGAATATCACACTT-AAA-AACCCGACCCGAACAAAATAAAGTTTC
1 AACCCGACCCGACTCAACCCGAATATCACACTTAAAACAACCCGACCCGAACAAAATAAAGTTTC
* *
438868 ATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCAAAATAATAAAAAAT
66 ATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCAACCCGACCCAAAATAATAAAAAAA
* *
438933 TATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATGTTTTCGGGTC
131 TATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTC
* *
438998 TGTCCGGTTTTTTTCACCCTATACCCG
196 GGTCCGGTTTTTTTCACCCTAAACCCG
439025 AACCCGACCCGA
1 AACCCGACCCGA
439037 ATATCACACT
Statistics
Matches: 219, Mismatches: 13, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
220 185 0.84
223 3 0.01
226 31 0.14
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (222 bp):
AACCCGACCCGACTCAACCCGAATATCACACTTAAAACAACCCGACCCGAACAAAATAAAGTTTC
ATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCAACCCGACCCAAAATAATAAAAAAA
TATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTC
GGTCCGGTTTTTTTCACCCTAAACCCG
Found at i:444443 original size:25 final size:25
Alignment explanation
Indices: 444413--444468 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
444403 TAGGTTACTT
*
444413 TTAACCCTCAAATATATTTGTCATA
1 TTAACCCACAAATATATTTGTCATA
*
444438 TTAACCCACAAATATATTTGTCCTA
1 TTAACCCACAAATATATTTGTCATA
444463 TTAACC
1 TTAACC
444469 TAAACGTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.38
Consensus pattern (25 bp):
TTAACCCACAAATATATTTGTCATA
Found at i:447310 original size:23 final size:22
Alignment explanation
Indices: 447284--447346 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 22
447274 GTTATCTAAG
447284 ATATAATATTTATTATAT-TTTCT
1 ATAT-ATATTTATTATATCTTT-T
447307 ATATATAATTTATT-TATCTTTT
1 ATATAT-ATTTATTATATCTTTT
447329 ATATTTATATTTAATTAT
1 ATA--TATATTT-ATTAT
447347 GCATATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
22 9 0.26
23 18 0.53
24 6 0.18
25 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATATTTATTATATCTTTT
Found at i:447328 original size:24 final size:22
Alignment explanation
Indices: 447284--447346 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
447274 GTTATCTAAG
447284 ATATA-ATATTTATTATATTTT
1 ATATATATATTTATTATATTTT
* *
447305 CTATATATAATTTATTTATCTTTT
1 ATATATAT-ATTTA-TTATATTTT
*
447329 ATATTTATATTTAATTAT
1 ATATATATATTT-ATTAT
447347 GCATATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 2 0.06
23 13 0.38
24 15 0.44
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATATATTTATTATATTTT
Found at i:450936 original size:2 final size:2
Alignment explanation
Indices: 450929--450983 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
450919 TACATTCTTT
450929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
450971 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
450984 GACCTAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:453933 original size:152 final size:152
Alignment explanation
Indices: 453657--453967 Score: 604
Period size: 152 Copynumber: 2.0 Consensus size: 152
453647 TCTAAAAGAA
453657 AATCAAAAGACAACAGGACAGGTGAGTGTTGGACCGAGTATGTGTTCAACTCCGCTATGTTCATT
1 AATCAAAAGACAACAGGACAGGTGAGTGTTGGACCGAGTATGTGTTCAACTCCGCTATGTTCATT
453722 TTCTCAAACGTATTTTTTCTAAATTTTTCATATATTTGGAAGATGATACCAACCAGTATAACATA
66 TTCTCAAACGTATTTTTTCTAAATTTTTCATATATTTGGAAGATGATACCAACCAGTATAACATA
453787 GGACAAACACCATTTACAAACT
131 GGACAAACACCATTTACAAACT
*
453809 AATCAAAAGACAACAGGGCAGGTGAGTGTTGGACCGAGTATGTGTTCAACTCCGCTATGTTCATT
1 AATCAAAAGACAACAGGACAGGTGAGTGTTGGACCGAGTATGTGTTCAACTCCGCTATGTTCATT
453874 TTCTCAAACGTATTTTTTCTAAATTTTTCATATATTTGGAAGATGATACCAACCAGTATAACATA
66 TTCTCAAACGTATTTTTTCTAAATTTTTCATATATTTGGAAGATGATACCAACCAGTATAACATA
453939 GGACAAACACCATTTACAAACT
131 GGACAAACACCATTTACAAACT
*
453961 AACCAAA
1 AATCAAA
453968 TCATCTACAT
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 157 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (152 bp):
AATCAAAAGACAACAGGACAGGTGAGTGTTGGACCGAGTATGTGTTCAACTCCGCTATGTTCATT
TTCTCAAACGTATTTTTTCTAAATTTTTCATATATTTGGAAGATGATACCAACCAGTATAACATA
GGACAAACACCATTTACAAACT
Found at i:456733 original size:27 final size:27
Alignment explanation
Indices: 456703--456765 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
456693 CTTGGGAAAA
*
456703 TTCTATCTCCACTTGTTGTTGGGGTGG
1 TTCTATCTCCACTTGTTGTTGGGATGG
** *
456730 TTCTAGT-TTGATTTGTTGTTGGGATGG
1 TTCTA-TCTCCACTTGTTGTTGGGATGG
*
456757 TTATATCTC
1 TTCTATCTC
456766 TTGTAATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
26 1 0.04
27 26 0.93
28 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.27, T:0.49
Consensus pattern (27 bp):
TTCTATCTCCACTTGTTGTTGGGATGG
Found at i:456868 original size:29 final size:29
Alignment explanation
Indices: 456791--456880 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
456781 ATCAACTAAC
*
456791 ATAACAAGACATTCAACCAAGCACCCAAA
1 ATAACAAGACATTCAATCAAGCACCCAAA
456820 ATAACAAGACATTCAATCAAGCACCCAAA
1 ATAACAAGACATTCAATCAAGCACCCAAA
* ** *
456849 ATAACAAGATATTCTTTCAAGCA-ACAAA
1 ATAACAAGACATTCAATCAAGCACCCAAA
456877 ATAA
1 ATAA
456881 AATGTATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 8 0.14
29 48 0.86
ACGTcount: A:0.52, C:0.24, G:0.07, T:0.17
Consensus pattern (29 bp):
ATAACAAGACATTCAATCAAGCACCCAAA
Found at i:459493 original size:151 final size:151
Alignment explanation
Indices: 459219--459520 Score: 586
Period size: 151 Copynumber: 2.0 Consensus size: 151
459209 ATTTTCTGAG
459219 TCAGAAAATGTAGATACATCAGTGGATGACTCAACAACATAATCCTCATCTTCTGAGTCAGACTA
1 TCAGAAAATGTAGATACATCAGTGGATGACTCAACAACATAATCCTCATCTTCTGAGTCAGACTA
*
459284 ACCTCAGGTTCTACTCTACCTTCATAATGTACTTCTTCCTCACAATAAAGATGAACCTAATGGTC
66 ACCTCAGGTTCTACTCTACCTTCATAATGTACTTCTTCCTCACAATAAAGATAAACCTAATGGTC
459349 CCTAGGTAAAGTATTAACCAT
131 CCTAGGTAAAGTATTAACCAT
459370 TCAGAAAATGTAGATACATCAGTGGATGACTCAACAACATAATCCTCATCTTCTGAGTCAGACTA
1 TCAGAAAATGTAGATACATCAGTGGATGACTCAACAACATAATCCTCATCTTCTGAGTCAGACTA
*
459435 ACCTCAGGTTCTACTCTACCTTCATAATGTACTTGTTCCTCACAATAAAGATAAACCTAATGGTC
66 ACCTCAGGTTCTACTCTACCTTCATAATGTACTTCTTCCTCACAATAAAGATAAACCTAATGGTC
459500 CCTAGGTAAAGTATTAACCAT
131 CCTAGGTAAAGTATTAACCAT
459521 CTCCATGATA
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 149 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (151 bp):
TCAGAAAATGTAGATACATCAGTGGATGACTCAACAACATAATCCTCATCTTCTGAGTCAGACTA
ACCTCAGGTTCTACTCTACCTTCATAATGTACTTCTTCCTCACAATAAAGATAAACCTAATGGTC
CCTAGGTAAAGTATTAACCAT
Found at i:463734 original size:17 final size:18
Alignment explanation
Indices: 463714--463747 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
463704 CAAATTACAC
463714 CGATTTT-AAAATATATT
1 CGATTTTCAAAATATATT
*
463731 CGATTTTCCAAATATAT
1 CGATTTTCAAAATATAT
463748 AAATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (18 bp):
CGATTTTCAAAATATATT
Found at i:465667 original size:23 final size:22
Alignment explanation
Indices: 465641--465683 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
465631 TATAAAAAAT
465641 TATTTTTTATTAAATATTTTTGG
1 TATTTTTTATTAAAT-TTTTTGG
*
465664 TATTTTTTATTTAATTTTTT
1 TATTTTTTATTAAATTTTTT
465684 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTGG
Found at i:467123 original size:23 final size:22
Alignment explanation
Indices: 467088--467153 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 22
467078 TCATAATATT
467088 TTTTATATATTAACTTAAAAGATA
1 TTTT-TATATTAACTTAAAA-ATA
*
467112 TTTTTATATTAACTTATTAAATA
1 TTTTTATATTAACTTA-AAAATA
467135 TATTTTATTATTAACTTAA
1 T-TTTTA-TATTAACTTAA
467154 TTTAGAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 16 0.43
24 11 0.30
25 10 0.27
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTTATATTAACTTAAAAATA
Done.