Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 315 of 322
Found at i:104432563 original size:20 final size:20
Alignment explanation
Indices: 104432538--104432587 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
104432528 TAGAGAATTG
*
104432538 GTATCGATACCACAGCTCAA
1 GTATCGATACCACAGCCCAA
***
104432558 GTATCGATACCTTGGCCCAA
1 GTATCGATACCACAGCCCAA
104432578 GTATCGATAC
1 GTATCGATAC
104432588 TTGGGGTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (20 bp):
GTATCGATACCACAGCCCAA
Found at i:104432598 original size:19 final size:20
Alignment explanation
Indices: 104432555--104432591 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
104432545 TACCACAGCT
104432555 CAAGTATCGATACCTTGGCC
1 CAAGTATCGATACCTTGGCC
104432575 CAAGTATCGATA-CTTGG
1 CAAGTATCGATACCTTGG
104432592 GGTAAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
CAAGTATCGATACCTTGGCC
Found at i:104436061 original size:292 final size:292
Alignment explanation
Indices: 104435532--104436078 Score: 862
Period size: 292 Copynumber: 1.9 Consensus size: 292
104435522 AAGCAACCTA
* * * * *
104435532 TCTCCGAAAAGTAGAAGTGAACACAAAATGTATGGGCAAGTGATGCGTCCCCTTCACAATAAAAT
1 TCTCCGAAAAGTAGAAGTGAACACAAAAGGTATGGGCAACTGACGCGCCCCCTTCACAACAAAAT
* * *
104435597 TCATGGCCTTCACCAAGTTGGTTGTCATATGCCCATATCGGCCCCCTTCATGTTCATTGTATAAA
66 TCACGGCCTTCACCAAGTTGGTTGTCATATGCCCATATCAGCCCCCTTCATGTTCATTGCATAAA
* * *
104435662 TGGCCCTAAGATTCAAGTGGGATTTTAACTAGCCATTGCCTATATAAGTCATTTTTCACTCGTAA
131 TGGCCCTAAGATTCAAATGGGATTTTAACTAGCCATTGCCCAAATAAGTCATTTTTCACTCGTAA
* *
104435727 CTTCTCCAACCTTTGATGGAATTGAGATCTTTGGAGCTCATACCCTATGGAAAAAATTTTGGTTC
196 CTTCTCCAACCGTTGACGGAATTGAGATCTTTGGAGCTCATACCCTATGGAAAAAATTTTGGTTC
104435792 ATGCCCAGTTAAGTCATTTTTCACTCGTAACT
261 ATGCCCAGTTAAGTCATTTTTCACTCGTAACT
* *
104435824 TCTCTGAAAAGTAGAAGTGAACACAAAAGGTATGGGCAACTGACGCGCCCCCTTCATAACAAAAT
1 TCTCCGAAAAGTAGAAGTGAACACAAAAGGTATGGGCAACTGACGCGCCCCCTTCACAACAAAAT
* * * * *
104435889 TCACGGCCTTCACTAGGTTGGTTGTCATATGCCCTTATCAGCCCCTTTCATGTTTATTGCATAAA
66 TCACGGCCTTCACCAAGTTGGTTGTCATATGCCCATATCAGCCCCCTTCATGTTCATTGCATAAA
* *
104435954 TGGCCCTAAGATTCAAATGGGATTTTAA-TGAGCCATTGCCCAAATAATTCATTTTTCACTTGTA
131 TGGCCCTAAGATTCAAATGGGATTTTAACT-AGCCATTGCCCAAATAAGTCATTTTTCACTCGTA
* *
104436018 ACTTCTCCAACCGTTGACGGAATTGCGATCTTTGGAGCTCATACCCTATGGAACAAATTTT
195 ACTTCTCCAACCGTTGACGGAATTGAGATCTTTGGAGCTCATACCCTATGGAAAAAATTTT
104436079 AGTTATTACC
Statistics
Matches: 230, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
291 1 0.00
292 229 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (292 bp):
TCTCCGAAAAGTAGAAGTGAACACAAAAGGTATGGGCAACTGACGCGCCCCCTTCACAACAAAAT
TCACGGCCTTCACCAAGTTGGTTGTCATATGCCCATATCAGCCCCCTTCATGTTCATTGCATAAA
TGGCCCTAAGATTCAAATGGGATTTTAACTAGCCATTGCCCAAATAAGTCATTTTTCACTCGTAA
CTTCTCCAACCGTTGACGGAATTGAGATCTTTGGAGCTCATACCCTATGGAAAAAATTTTGGTTC
ATGCCCAGTTAAGTCATTTTTCACTCGTAACT
Found at i:104441351 original size:44 final size:44
Alignment explanation
Indices: 104441283--104441373 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
104441273 CACTCTGTTT
* * *
104441283 TTAGTTTCCCACTTAAAATCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATTAATATAGGATATTTTAATA
*
104441327 TTAGTTTCCCACTTAAAATTTGATTAATATAGGATATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATTAATATAGGATATTTTAATA
104441371 TTA
1 TTA
104441374 TTTAACCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAAATCTGATTAATATAGGATATTTTAATA
Found at i:104444015 original size:46 final size:46
Alignment explanation
Indices: 104443963--104444135 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
104443953 TGGTTGAGCA
* *
104443963 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
104444009 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
104444056 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
104444102 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104444136 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:104444119 original size:93 final size:93
Alignment explanation
Indices: 104443960--104444130 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
104443950 GGATGGTTGA
* *
104443960 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAGT
104444025 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
104444053 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCTC-GAACTCGTTGAG
104444117 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
104444131 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:104444396 original size:19 final size:20
Alignment explanation
Indices: 104444359--104444396 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
104444349 ATAAGGTGGT
104444359 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
104444379 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
104444397 TGATGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:104451659 original size:46 final size:45
Alignment explanation
Indices: 104451609--104451781 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
104451599 TGGTTGAGCA
104451609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
104451655 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
104451700 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
104451748 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104451782 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:104451767 original size:93 final size:93
Alignment explanation
Indices: 104451608--104451776 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
104451598 ATGGTTGAGC
* *
104451608 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
104451673 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTCCGAGTTCGTGAGATGTAACTAGGT
* * *
104451701 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
104451766 AGTCCGAGTTC
66 AGTCCGAGTTC
104451777 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGT
Found at i:104452042 original size:19 final size:20
Alignment explanation
Indices: 104452005--104452042 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
104451995 ATAAGGTGGT
104452005 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
104452025 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
104452043 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:104463237 original size:29 final size:29
Alignment explanation
Indices: 104463205--104463263 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
104463195 AAAAAATATT
* *
104463205 TTTTAAAATATATATTAAAA-ATTAAAAAA
1 TTTTAAAA-ATAAAATAAAATATTAAAAAA
*
104463234 TTTTAAAAATAAAATAAAATTTTAAAAAA
1 TTTTAAAAATAAAATAAAATATTAAAAAA
104463263 T
1 T
104463264 ATATTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
TTTTAAAAATAAAATAAAATATTAAAAAA
Found at i:104465241 original size:42 final size:42
Alignment explanation
Indices: 104465190--104465352 Score: 202
Period size: 42 Copynumber: 3.9 Consensus size: 42
104465180 GTTTACAAAC
* *
104465190 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
104465232 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * * ****
104465274 AAAAATGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
104465315 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
104465353 TTATACAAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 33 0.31
42 73 0.69
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:104471221 original size:18 final size:17
Alignment explanation
Indices: 104471198--104471630 Score: 321
Period size: 18 Copynumber: 24.4 Consensus size: 17
104471188 AATTACAATG
104471198 GTAAGTT-ATGTAAGTTAT
1 GTAAGTTAATGT-A-TTAT
104471216 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
*
104471234 GTAAGTTAAATGTAAGT-T
1 GTAAGTT-AATGT-ATTAT
104471252 GTAAGTTATTATGTATTAT
1 GTAAGTTA--ATGTATTAT
*
104471271 GTAAGTTGTAA-GT-TAAAT
1 GTAAG-T-TAATGTAT-TAT
* *
104471289 GT-A-TT-GTGTAAGT-T
1 GTAAGTTAATGT-ATTAT
104471303 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471321 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471339 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471357 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471375 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471393 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471411 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471429 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471447 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471465 GTAAGTTGTAA-GTTATTAT
1 GTAAG-T-TAATG-TATTAT
*
104471484 GT-A-TT-ATGTAAGTAAT
1 GTAAGTTAATGT-A-TTAT
104471500 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471518 GTAAGTTGTAA-GTTATTAT
1 GTAAG-T-TAATG-TATTAT
*
104471537 GT-A-TT-ATGTAAGTAAT
1 GTAAGTTAATGT-A-TTAT
104471553 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471571 GTAAGTTGTAA-GTTATTAT
1 GTAAG-T-TAATG-TATTAT
*
104471590 GT-A-TT-ATGTAAGTAAT
1 GTAAGTTAATGT-A-TTAT
104471606 GTAAGTTAAATGTATTAT
1 GTAAGTT-AATGTATTAT
104471624 GTAAGTT
1 GTAAGTT
104471631 GTAAGTTATT
Statistics
Matches: 354, Mismatches: 14, Indels: 94
0.77 0.03 0.20
Matches are distributed among these distances:
14 12 0.03
15 11 0.03
16 20 0.06
17 8 0.02
18 231 0.65
19 50 0.14
20 20 0.06
21 2 0.01
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (17 bp):
GTAAGTTAATGTATTAT
Found at i:104471342 original size:36 final size:36
Alignment explanation
Indices: 104471212--104471630 Score: 416
Period size: 36 Copynumber: 11.8 Consensus size: 36
104471202 GTTATGTAAG
104471212 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAA
1 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGT-A
* * *
104471249 GT-TGTAAGTTATTATGTATTATGTAAGTTGTAA-GT-
1 TTATGTAAGTTA-AATGTATTATGTAAGTT-AAATGTA
* * *
104471284 TAAATGT-A-TT--GTGTAAGT-TGTAAGTTAAATGTA
1 T-TATGTAAGTTAAATGT-ATTATGTAAGTTAAATGTA
104471317 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
1 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
104471353 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
1 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
104471389 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
1 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
104471425 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
1 TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
*
104471461 TTATGTAAGTTGTAA-GTTATTATGT-A-TT--ATGTAA
1 TTATGTAAGTT-AAATG-TATTATGTAAGTTAAATGT-A
* *
104471495 GTAATGTAAGTTAAATGTATTATGTAAGTTGTAA-GTTA
1 -TTATGTAAGTTAAATGTATTATGTAAGTT-AAATG-TA
*
104471533 TTATGT-A-TT--ATGTAAGTAATGTAAGTTAAATGTA
1 TTATGTAAGTTAAATGT-A-TTATGTAAGTTAAATGTA
*
104471567 TTATGTAAGTTGTAA-GTTATTATGT-A-TT--ATGTAA
1 TTATGTAAGTT-AAATG-TATTATGTAAGTTAAATGT-A
*
104471601 GTAATGTAAGTTAAATGTATTATGTAAGTT
1 -TTATGTAAGTTAAATGTATTATGTAAGTT
104471631 GTAAGTTATT
Statistics
Matches: 325, Mismatches: 20, Indels: 75
0.77 0.05 0.18
Matches are distributed among these distances:
31 2 0.01
32 17 0.05
33 16 0.05
34 35 0.11
35 46 0.14
36 157 0.48
37 42 0.13
38 6 0.02
39 4 0.01
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (36 bp):
TTATGTAAGTTAAATGTATTATGTAAGTTAAATGTA
Found at i:104471525 original size:53 final size:53
Alignment explanation
Indices: 104471337--104471652 Score: 450
Period size: 53 Copynumber: 5.9 Consensus size: 53
104471327 TAAATGTATT
* *
104471337 ATGTAAGTTAAATGTATTATGTAAG-T-TAAATGTATTATGTAAGTTAAATGT-A-TT
1 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGT-TATTATGT-A-TT--ATGTAAGTA
* *
104471391 ATGTAAGTTAAATGTATTATGTAAG-T-TAAATGTATTATGTAAGTTAAATGT-A-TT
1 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGT-TATTATGT-A-TT--ATGTAAGTA
104471445 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
1 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
104471498 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
1 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
104471551 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
1 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
104471604 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
1 ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
104471653 GATAATTTAT
Statistics
Matches: 256, Mismatches: 2, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
51 4 0.02
52 1 0.00
53 158 0.62
54 80 0.31
55 9 0.04
56 4 0.02
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (53 bp):
ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTA
Found at i:104471619 original size:11 final size:9
Alignment explanation
Indices: 104471489--104471611 Score: 50
Period size: 9 Copynumber: 13.9 Consensus size: 9
104471479 ATTATGTATT
104471489 ATGTAAGTA
1 ATGTAAGTA
104471498 ATGTAAGTTAA
1 ATGTAAG-T-A
*
104471509 ATGT-A-TT
1 ATGTAAGTA
104471516 ATGTAAGT-
1 ATGTAAGTA
*
104471524 -TGTAAGTT
1 ATGTAAGTA
*
104471532 AT-TATGTA
1 ATGTAAGTA
104471540 TTATGTAAGTA
1 --ATGTAAGTA
104471551 ATGTAAGTTAA
1 ATGTAAG-T-A
*
104471562 ATGT-A-TT
1 ATGTAAGTA
104471569 ATGTAAGT-
1 ATGTAAGTA
*
104471577 -TGTAAGTT
1 ATGTAAGTA
*
104471585 AT-TATGTA
1 ATGTAAGTA
104471593 TTATGTAAGTA
1 --ATGTAAGTA
104471604 ATGTAAGT
1 ATGTAAGT
104471612 TAAATGTATT
Statistics
Matches: 88, Mismatches: 8, Indels: 36
0.67 0.06 0.27
Matches are distributed among these distances:
7 22 0.25
8 12 0.14
9 26 0.30
10 8 0.09
11 20 0.23
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (9 bp):
ATGTAAGTA
Found at i:104472968 original size:11 final size:11
Alignment explanation
Indices: 104472952--104472991 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
104472942 GATGATAATA
104472952 CATTAGTTACC
1 CATTAGTTACC
104472963 CATTAGTTACC
1 CATTAGTTACC
*
104472974 CACTAGTTACC
1 CATTAGTTACC
104472985 CA-TAGTT
1 CATTAGTT
104472992 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:104474299 original size:84 final size:84
Alignment explanation
Indices: 104474192--104474560 Score: 659
Period size: 84 Copynumber: 4.4 Consensus size: 84
104474182 ATTAACACCG
*
104474192 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTTAG-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
104474257 TCGTGGTCTGGAATTGCATT
65 TCGTGGTCTGGAATTGCATT
104474277 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
1 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
104474342 CGTGGTCTGGAATTGCATT
66 CGTGGTCTGGAATTGCATT
*
104474361 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
104474426 CGTGGTCTGGAATTGCATT
66 CGTGGTCTGGAATTGCATT
*
104474445 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
104474510 CGTGGTCTGGAATTGCATT
66 CGTGGTCTGGAATTGCATT
* * *
104474529 ATTTGTGGCATTTTCT-TAAAAACGCCACTAAA
1 TTTTGTGGCGTTTT-TAGAAAAACGCCACTAAA
104474561 AGTTTAACTA
Statistics
Matches: 278, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
84 261 0.94
85 17 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (84 bp):
TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
CGTGGTCTGGAATTGCATT
Found at i:104474963 original size:12 final size:12
Alignment explanation
Indices: 104474946--104474971 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
104474936 TTAAAATAGC
104474946 ACGACCTCTTTT
1 ACGACCTCTTTT
104474958 ACGACCTCTTTT
1 ACGACCTCTTTT
104474970 AC
1 AC
104474972 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
ACGACCTCTTTT
Found at i:104475895 original size:114 final size:113
Alignment explanation
Indices: 104475581--104476628 Score: 1796
Period size: 113 Copynumber: 9.3 Consensus size: 113
104475571 AACACCTAGA
* * * *
104475581 TTAGCGGCGCTTTACAAAAAACGCCACTAA-TGCCCCCCCAAAGGACACAAAACGGCACCGTCTG
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
* * * * * ** *
104475645 GGAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
66 GGTGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCT
*
104475694 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTG
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
104475758 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
104475806 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCCAAAGGCCACAAAACGGCACCGTCT
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGT-CCCCCCCCAAAGGCCACAAAACGGCACCGTCT
104475871 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
65 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
104475920 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCCAAAGGCCACAAAACGGCACCGTCT
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGT-CCCCCCCCAAAGGCCACAAAACGGCACCGTCT
104475985 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
65 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
104476034 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCCAAAGGCCACAAAACGGCACCGTCT
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGT-CCCCCCCCAAAGGCCACAAAACGGCACCGTCT
*
104476099 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCGCACTCT
65 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
104476148 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGTACCGTCTG
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
* *
104476213 GGGGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCGCACTCT
66 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
104476261 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGTACCGTCTG
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
* *
104476326 GGGGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCGCACTCT
66 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
* * *
104476374 TTAGCGGCGCTTTACAATAAATGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGTACCGTCTG
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
104476439 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
104476487 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTG
1 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
104476551 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
* **
104476599 TTAGCGGCGCTTTTCCTTAAACGCCACTAA
1 TTAGCGGCGCTTTGCAATAAACGCCACTAA
104476629 TGCTCACTCT
Statistics
Matches: 909, Mismatches: 23, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
112 161 0.18
113 408 0.45
114 340 0.37
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (113 bp):
TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTG
GGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
Found at i:104476621 original size:40 final size:40
Alignment explanation
Indices: 104476576--104477412 Score: 1638
Period size: 40 Copynumber: 20.9 Consensus size: 40
104476566 GCGTTATCTA
104476576 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476616 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476656 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476696 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476736 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476776 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476816 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476856 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476896 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476936 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104476976 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477016 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477056 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477096 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477136 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477176 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477216 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477256 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
104477296 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
**
104477336 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
* *
104477376 TAAACGCCGCTATTGCTCACTCTTTAGCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
104477413 GCTCCAAACG
Statistics
Matches: 793, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 793 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
Found at i:104482982 original size:453 final size:453
Alignment explanation
Indices: 104482136--104483591 Score: 2876
Period size: 453 Copynumber: 3.2 Consensus size: 453
104482126 TATACCATAA
104482136 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
1 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
104482201 TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
66 TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
104482266 CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
131 CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
104482331 TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
196 TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
104482396 AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
261 AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
104482461 AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
326 AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
*
104482526 GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTACAAAATCCATATGACTATGAGG
391 GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTAGAAAATCCATATGACTATGAGG
* * *
104482589 TTTATTTCTCCTGAAACTAGACTCAATAAGGATTTTGAGAATATAAAATACACTACCTAATTATA
1 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
104482654 TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
66 TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
104482719 CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
131 CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
104482784 TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
196 TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
104482849 AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
261 AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
104482914 AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
326 AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
104482979 GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTAGAAAATCCATATGACTATGAGG
391 GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTAGAAAATCCATATGACTATGAGG
104483042 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
1 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
104483107 TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
66 TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
104483172 CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
131 CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
104483237 TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
196 TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
104483302 AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
261 AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
104483367 AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
326 AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
104483432 GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTAGAAAATCCATATGACTATGAGG
391 GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTAGAAAATCCATATGACTATGAGG
104483495 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
1 TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
104483560 TCTTTACAATTTATGGTGAATTTCTAAAGTTG
66 TCTTTACAATTTATGGTGAATTTCTAAAGTTG
104483592 GAACAGGGGA
Statistics
Matches: 996, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
453 996 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (453 bp):
TTTATTTATCCTGAAACTAGACTCAATAAGTATTCTGAGAATATAAAATACACTACCTAATTATA
TCTTTACAATTTATGGTGAATTTCTAAAGTTGTAACGCCCCCACGCCCGAGACTGTCGCTGGAGT
CGAGTATGAGGTGTTACTAAGCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACAT
TCACAGCTTTTAAGCTACTTGCATTACAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTCA
AAATCAAGATCTGTAAATTTTCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAG
AATTTTTGGTTGGGTCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACT
GGTCTGACCTCTGTTTACTACGAACCACATTTCTCTCTGTAGAAAATCCATATGACTATGAGG
Found at i:104484541 original size:46 final size:46
Alignment explanation
Indices: 104484440--104484527 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
104484430 TGTAACCCGC
* * * *
104484440 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
104484486 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
104484528 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:104486712 original size:15 final size:15
Alignment explanation
Indices: 104486689--104486718 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104486679 AAACACAGTA
104486689 ATTTAAATATAAAAT
1 ATTTAAATATAAAAT
*
104486704 ATTTCAATATAAAAT
1 ATTTAAATATAAAAT
104486719 TTAACTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTAAATATAAAAT
Found at i:104487174 original size:9 final size:9
Alignment explanation
Indices: 104487160--104487185 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
104487150 CTTCATGTAA
104487160 ATAATAATT
1 ATAATAATT
104487169 ATAATAATT
1 ATAATAATT
104487178 ATAATAAT
1 ATAATAAT
104487186 AAGATGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATAATT
Found at i:104487892 original size:14 final size:15
Alignment explanation
Indices: 104487873--104487901 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104487863 ATAAATATAA
104487873 ATTTAATTA-TAATT
1 ATTTAATTATTAATT
104487887 ATTTAATTATTAATT
1 ATTTAATTATTAATT
104487902 TAGTAATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTAATTATTAATT
Found at i:104488052 original size:25 final size:25
Alignment explanation
Indices: 104488006--104488053 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
104487996 TTAGGGTTTA
*
104488006 ATTTTAATAAGTTTTTAAATTACAT
1 ATTTTAATAAGTTTTAAAATTACAT
*
104488031 ATTTTAATTA-TTTTAAATATTAC
1 ATTTTAATAAGTTTTAAA-ATTAC
104488054 TAATAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTTAATAAGTTTTAAAATTACAT
Found at i:104490809 original size:50 final size:50
Alignment explanation
Indices: 104490734--104491060 Score: 584
Period size: 50 Copynumber: 6.5 Consensus size: 50
104490724 CCATGGCAAC
104490734 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
104490784 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
104490834 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
104490884 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
104490934 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
* *
104490984 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAA-TGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGA-AAAGTGA
* * *
104491034 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
104491061 CTGATCAGTG
Statistics
Matches: 270, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
50 244 0.90
51 26 0.10
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAGTGA
Found at i:104491074 original size:31 final size:31
Alignment explanation
Indices: 104491036--104491959 Score: 1733
Period size: 31 Copynumber: 29.8 Consensus size: 31
104491026 ACAAATGACA
*
104491036 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491067 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491098 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491129 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491160 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491191 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491222 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491253 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491284 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491315 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491346 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491377 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491408 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491439 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491470 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491501 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491532 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491563 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491594 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491625 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491656 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491687 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491718 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491749 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491780 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
104491811 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
*
104491842 AGTGAAAAGTGGTAG-TTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTG-CTACCTGATC
* * *
104491873 AGTAAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
104491904 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
104491935 AGTGAATACTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCTGCTAC
104491960 AAGTGACAAG
Statistics
Matches: 881, Mismatches: 10, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
30 4 0.00
31 874 0.99
32 3 0.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:104492134 original size:42 final size:43
Alignment explanation
Indices: 104492078--104492192 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
104492068 TATGTGATTC
*
104492078 GTGTAAGACCATAGCT-AGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGATTATATGAAGAT
* *
104492120 GTGTAAGACCATAGCTGCGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATTATATGAAGAT
* *
104492162 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
104492193 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATTATATGAAGAT
Found at i:104496336 original size:68 final size:68
Alignment explanation
Indices: 104496245--104496371 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
104496235 GCTACATTTA
* * *
104496245 TCTCGTAGCTCTCTTGTCTACATGGTGTACA-CATAGTATCACCCATGCGACCTAGCTACCTCAT
1 TCTCATAGCTCTCTTGTCTACATGGTATACATC-TAGTATCACACATGCGACCTAGCTACCTCAT
104496309 AATG
65 AATG
* * *
104496313 TCTCATAGCTCTCTTGTAC-ACATGGTATACATCTCGTATTACACATGTGACCTAGCTAC
1 TCTCATAGCTCTCTTGT-CTACATGGTATACATCTAGTATCACACATGCGACCTAGCTAC
104496372 ATACCATCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 49 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (68 bp):
TCTCATAGCTCTCTTGTCTACATGGTATACATCTAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:104496870 original size:30 final size:30
Alignment explanation
Indices: 104496836--104496893 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
104496826 TTCTTAACTC
104496836 AAACTTTTGCAAAATTACAATTTTGCCCTT
1 AAACTTTTGCAAAATTACAATTTTGCCCTT
* * *
104496866 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAAATTACAATTTTGCCC
104496894 CTAGGCTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCTT
Found at i:104500425 original size:11 final size:11
Alignment explanation
Indices: 104500409--104500435 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
104500399 TATGTAAAGT
104500409 AAAATAAAATA
1 AAAATAAAATA
104500420 AAAATAAAATA
1 AAAATAAAATA
104500431 AAAAT
1 AAAAT
104500436 TTCAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:104513635 original size:7 final size:6
Alignment explanation
Indices: 104513621--104513657 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
104513611 TGATGATGAA
*
104513621 AAAAAG -AAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
104513658 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:104513643 original size:17 final size:17
Alignment explanation
Indices: 104513621--104513657 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
104513611 TGATGATGAA
* *
104513621 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
104513638 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
104513655 AAA
1 AAA
104513658 GGCTCTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:104514977 original size:40 final size:39
Alignment explanation
Indices: 104514917--104515133 Score: 238
Period size: 40 Copynumber: 5.5 Consensus size: 39
104514907 GGATGATAAC
* * * *
104514917 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TTT
* * *
104514957 CGGGATAAGTCCCAAAGGCATTCGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAT-TT
*
104514997 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATTT
* *
104515036 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 C-GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAT-TT
* * *
104515077 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATTT
* * *
104515116 CCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
104515134 TACTTGGCTT
Statistics
Matches: 150, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.12
40 131 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATTT
Found at i:104515049 original size:80 final size:79
Alignment explanation
Indices: 104514916--104515116 Score: 278
Period size: 80 Copynumber: 2.5 Consensus size: 79
104514906 TGGATGATAA
* * * * *
104514916 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTTCGGGATAAGTCCCAAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTA-TATCGGGATAAGTCCCAAAGGCATTCG
104514981 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
* * * *
104514996 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATATC-GGGATAAGTCCCAAAGGCATTCG
104515061 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
*
104515076 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATATC
104515117 CGGTTAAATC
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 5 0.05
80 104 0.95
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATATCGGGATAAGTCCCAAAGGCATTCGT
GCGAGTTACTATAT
Found at i:104522556 original size:40 final size:40
Alignment explanation
Indices: 104522497--104522714 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
104522487 TGGATGATAA
* * * * *
104522497 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGATTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
104522537 CCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
104522577 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
104522617 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
** * * *
104522657 CTAGGCTATGTCCTGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
104522697 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
104522715 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:104524725 original size:21 final size:21
Alignment explanation
Indices: 104524701--104524748 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
104524691 CTACACACCT
*
104524701 ATGTGAAGGCGACACACGCCC
1 ATGTGAAGGCCACACACGCCC
*
104524722 ATGTGAAGGCCACACATGCCC
1 ATGTGAAGGCCACACACGCCC
*
104524743 GTGTGA
1 ATGTGA
104524749 GCAGCTCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (21 bp):
ATGTGAAGGCCACACACGCCC
Found at i:104527077 original size:39 final size:39
Alignment explanation
Indices: 104527021--104527347 Score: 510
Period size: 39 Copynumber: 8.4 Consensus size: 39
104527011 ATAATGGAGA
* * * *
104527021 ATTATATCCGAGTTAAGTCCCGAAGGTATTTGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
104527060 GTTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
*
104527099 ATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
104527138 GTTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
104527177 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTACTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
*
104527216 ATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
104527255 GTTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
*
104527294 ATTATATCCGGGCTAAAGTCCCGCAGGCATTCGTGCTGGT
1 ATTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
104527334 ATTATATCCGGGCT
1 ATTATATCCGGGCT
104527348 TAAAGTCCTG
Statistics
Matches: 265, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 227 0.86
40 38 0.14
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
Found at i:104530142 original size:16 final size:16
Alignment explanation
Indices: 104530118--104530148 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104530108 ATTATGATCA
104530118 AATTAAACTCAAATTC
1 AATTAAACTCAAATTC
*
104530134 AATTTAACTCAAATT
1 AATTAAACTCAAATT
104530149 TATCATAAAC
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:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAACTCAAATTC
Found at i:104539687 original size:28 final size:25
Alignment explanation
Indices: 104539640--104539691 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
104539630 CAAATTTACC
104539640 AATATTTAAAAGAAATTAATATATAT
1 AATATTTAAAAGAAATTAAT-TATAT
*
104539666 AATATTTAAATAAGATATTAATTATA
1 AATATTT-AA-AAGAAATTAATTATA
104539692 AAAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 6 0.26
28 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AATATTTAAAAGAAATTAATTATAT
Found at i:104539702 original size:28 final size:26
Alignment explanation
Indices: 104539640--104539702 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
104539630 CAAATTTACC
* * *
104539640 AATATTTAAAAGAAATTAATATATAT
1 AATATTAAAAAGAAATTAATATAAAA
*
104539666 AATATTTAAATAAGATATTAATTATAAAA
1 AATA-TTAAA-AAGAAATTAA-TATAAAA
104539695 AATATTAA
1 AATATTAA
104539703 TAAATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 4 0.13
27 4 0.13
28 13 0.43
29 9 0.30
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (26 bp):
AATATTAAAAAGAAATTAATATAAAA
Found at i:104539717 original size:21 final size:20
Alignment explanation
Indices: 104539685--104539728 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
104539675 ATAAGATATT
*
104539685 AATTATAAAAAATATTAATA
1 AATTATAAAAAATACTAATA
* *
104539705 AATTATATGAAAATACTCATA
1 AATTATA-AAAAATACTAATA
104539726 AAT
1 AAT
104539729 GAACTTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AATTATAAAAAATACTAATA
Found at i:104540568 original size:35 final size:34
Alignment explanation
Indices: 104540496--104540560 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
104540486 GCTGATCATC
*
104540496 TTTCTTTACTTTTCATAGTTTTAAGTTGGGTTTCT
1 TTTCTTTACTTTTCATA-TTTTAAGTTAGGTTTCT
*
104540531 TTTCTTTTCTTTTCAT-TTTT-AGATTAGGTT
1 TTTCTTTACTTTTCATATTTTAAG-TTAGGTT
104540561 GTCCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 10 0.37
35 15 0.56
ACGTcount: A:0.14, C:0.11, G:0.12, T:0.63
Consensus pattern (34 bp):
TTTCTTTACTTTTCATATTTTAAGTTAGGTTTCT
Found at i:104544081 original size:34 final size:34
Alignment explanation
Indices: 104544041--104544163 Score: 142
Period size: 34 Copynumber: 3.6 Consensus size: 34
104544031 AAGAATTTGC
* *
104544041 GCCCAGCACTAGTCGGATAAATC-GACAAATGTGT
1 GCCCAGCACTAGTCAGATAAA-CAGACGAATGTGT
* * *
104544075 GCCCAGCACTAGCCAGATAAACTGATGGAA-GTCGT
1 GCCCAGCACTAGTCAGATAAACAGA-CGAATGT-GT
*
104544110 GCCCAGCACTAGTCAAATAAACAGACGAATGTGT
1 GCCCAGCACTAGTCAGATAAACAGACGAATGTGT
*
104544144 GCCCAACACTAGTCAGATAA
1 GCCCAGCACTAGTCAGATAA
104544164 GCTGATGAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
33 1 0.01
34 46 0.61
35 28 0.37
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (34 bp):
GCCCAGCACTAGTCAGATAAACAGACGAATGTGT
Found at i:104544118 original size:69 final size:69
Alignment explanation
Indices: 104544041--104544170 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
104544031 AAGAATTTGC
** *
104544041 GCCCAGCACTAGTCGGATAAATC-GACAAATGTGTGCCCAGCACTAGCCAGATAAACTGATGGAA
1 GCCCAGCACTAGTCAAATAAA-CAGACAAATGTGTGCCCAACACTAGCCAGATAAACTGATGGAA
104544105 GTCGT
65 GTCGT
* * *
104544110 GCCCAGCACTAGTCAAATAAACAGACGAATGTGTGCCCAACACTAGTCAGATAAGCTGATG
1 GCCCAGCACTAGTCAAATAAACAGACAAATGTGTGCCCAACACTAGCCAGATAAACTGATG
104544171 AATAATTAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 53 0.98
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (69 bp):
GCCCAGCACTAGTCAAATAAACAGACAAATGTGTGCCCAACACTAGCCAGATAAACTGATGGAAG
TCGT
Found at i:104545926 original size:25 final size:24
Alignment explanation
Indices: 104545876--104545926 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
104545866 CCAAAATAAA
*
104545876 TAAAGAAAAAATTATCCCATATAT
1 TAAAGAAAAAATTATCCCATACAT
104545900 TAAAGAAGAAAATTATCCACA-ACAT
1 TAAAGAA-AAAATTATCC-CATACAT
104545925 TA
1 TA
104545927 TTCAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 15 0.62
26 2 0.08
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (24 bp):
TAAAGAAAAAATTATCCCATACAT
Found at i:104546503 original size:23 final size:21
Alignment explanation
Indices: 104546465--104546507 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
104546455 CCAAACCTCT
104546465 CTAAATATTGAATTATAATTG
1 CTAAATATTGAATTATAATTG
104546486 CTAAATCATTGTAATTATAATT
1 CTAAAT-ATTG-AATTATAATT
104546508 TCTCTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (21 bp):
CTAAATATTGAATTATAATTG
Found at i:104546519 original size:23 final size:22
Alignment explanation
Indices: 104546462--104546520 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
104546452 ATTCCAAACC
104546462 TCTCTAAATATTGAATTATAATT
1 TCTCT-AATATTGAATTATAATT
* *
104546485 GCT-AAATCATTGTAATTATAATT
1 TCTCTAAT-ATTG-AATTATAATT
104546508 TCTCTAATATTGA
1 TCTCTAATATTGA
104546521 TCTCAAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 5 0.17
23 18 0.62
24 3 0.10
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (22 bp):
TCTCTAATATTGAATTATAATT
Found at i:104550715 original size:27 final size:26
Alignment explanation
Indices: 104550678--104551474 Score: 699
Period size: 27 Copynumber: 29.8 Consensus size: 26
104550668 ATACCCCCAG
*
104550678 TTGTAAAATTACCAAAGTACCCTTGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* *
104550705 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
104550732 TTGTAAAATTATCGAAATACCGTCGA-
1 TTGTAAAATTA-CCAAATACCCTCGAT
*
104550758 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
104550785 TTGTAAAATTATCGAAATACCTTCGA-
1 TTGTAAAATTA-CCAAATACCCTCGAT
*
104550811 TTGTAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
104550838 TTGTAAAATTGTCGAAATACCCTC-AGT
1 TTGTAAAATT-ACCAAATACCCTCGA-T
* **
104550865 TTGCAAAATTAATAAATACCCTCGAT
1 TTGTAAAATTACCAAATACCCTCGAT
* *
104550891 TTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
104550918 TTGTAAAATTACCAAAGTACCC-CCAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* *
104550945 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
104550972 TTGTAAAATTACCAAAATACCGC-CGA-
1 TTGTAAAATTACC-AAATACC-CTCGAT
*
104550998 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
104551025 TTGTAAAATTATCAAAGTACCC-CCAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* * *
104551052 CTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
104551079 TTGTAAAATTACCAAAATACCGC-CGA-
1 TTGTAAAATTACC-AAATACC-CTCGAT
*
104551105 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
104551132 TTGTAAAATTATCAAAGTACCC-CCAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* * *
104551159 CTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
104551186 TTGTAAAATTACCAAAATACCGC-CGA-
1 TTGTAAAATTACC-AAATACC-CTCGAT
*
104551212 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
104551239 TTGTAAAATTATCAAAGTACCC-CCAGT
1 TTGTAAAATTACCAAA-TACCCTCGA-T
* * *
104551266 CTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
104551293 TTGTAAAATTATCGAAATACCGTCGA-
1 TTGTAAAATTA-CCAAATACCCTCGAT
**
104551319 TTGTAAAATTATTGAAATACCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
104551346 TTGTAAAATTATCGAAATACCGTCGA-
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
104551372 TTGTAAAATTACTAAAATACCCTCAAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
104551399 TTGTAAAATTACCAAAATACCCTC-AGT
1 TTGTAAAATTACC-AAATACCCTCGA-T
* * * *
104551426 TTGCAAAATTACTAAAATACCCTTGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
104551453 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACC-AAATACCC
104551475 CTAATTTACA
Statistics
Matches: 638, Mismatches: 83, Indels: 98
0.78 0.10 0.12
Matches are distributed among these distances:
25 6 0.01
26 205 0.32
27 391 0.61
28 36 0.06
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:104550765 original size:53 final size:52
Alignment explanation
Indices: 104550657--104551475 Score: 769
Period size: 53 Copynumber: 15.3 Consensus size: 52
104550647 TTAGTTTACC
** * * * * *
104550657 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCGATTTGTAAAATTACGAAA-TACCCTCGATTTGTA
* * *
104550710 AAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCGTCGA-TTGTA
1 AAATTACCAAAATA-CCCCGATTTGTAAAATTA-CGAAATACCCTCGATTTGTA
** *
104550763 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCTTCGA-TTGTA
1 AAATTACCAAAATACCC-CGATTTGTAAAATTA-CGAAATACCCTCGATTTGTA
* * *
104550816 AAATTACTAAAATACCCTCGATTTGTAAAATTGTCGAAATACCCTC-AGTTTGCA
1 AAATTACCAAAATACCC-CGATTTGTAAAATT-ACGAAATACCCTCGA-TTTGTA
*
104550870 AAATTA--ATAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCA-AAATACCC-CGATTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * * *
104550923 AAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTAAAATTA-CGAAATACCCTCGATTTGTA
104550977 AAATTACCAAAATACCGCCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACC-CCGATTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * * * * *
104551030 AAATTATCAAAGTACCCCCAGTCTATAAAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTAAAATTA-CGAAATACCCTCGATTTGTA
104551084 AAATTACCAAAATACCGCCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACC-CCGATTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * * * * *
104551137 AAATTATCAAAGTACCCCCAGTCTATAAAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTAAAATTA-CGAAATACCCTCGATTTGTA
104551191 AAATTACCAAAATACCGCCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACC-CCGATTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * * * * *
104551244 AAATTATCAAAGTACCCCCAGTCTATAAAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTAAAATTA-CGAAATACCCTCGATTTGTA
* * * *
104551298 AAATTATCGAAATACCGTCGA-TTGTAAAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACC-CCGATTTGTAAAATTA-CGAAATACCCTCGATTTGTA
* * * * *
104551351 AAATTATCGAAATACCGTCGA-TTGTAAAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACC-CCGATTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * *
104551404 AAATTACCAAAATACCCTC-AGTTTGCAAAATTACTAAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCC-CGA-TTTGTAAAATTAC-GAAATACCCTCGATTTGTA
104551458 AAATTACCAAAATACCCC
1 AAATTACCAAAATACCCC
104551476 TAATTTACAG
Statistics
Matches: 647, Mismatches: 86, Indels: 66
0.81 0.11 0.08
Matches are distributed among these distances:
52 18 0.03
53 362 0.56
54 247 0.38
55 20 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (52 bp):
AAATTACCAAAATACCCCGATTTGTAAAATTACGAAATACCCTCGATTTGTA
Found at i:104550980 original size:107 final size:106
Alignment explanation
Indices: 104550678--104551475 Score: 906
Period size: 107 Copynumber: 7.5 Consensus size: 106
104550668 ATACCCCCAG
* * * * * *
104550678 TTGTAAAATTAC-CAAAGTACCCTTGATTTATAAAATTACCCAAA-TATCCTC-GATTTGTAAAA
1 TTGTAAAATTACTGAAA-TACCCTCGATTTGTAAAATTA-CCAAAGTACCCCCAG-TTTATAAAA
* * *
104550740 TTATCGAAATA-CCGTCGA-TTGTAAAATTACTGAAATACCCTCGA
63 TTACCCAAATATCC-TCGATTTGTAAAATTAC-AAAATACCCTCGA
* * * * *
104550784 TTTGTAAAATTA-TCGAAATACCTTCGA-TTGTAAAATTACTAAAATACCCTC-GATTTGTAAAA
1 -TTGTAAAATTACT-GAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAG-TTTATAAAA
** * * *
104550846 TTGTCGAAATACCCTC-AGTTTGCAAAATTA-ATAAATACCCTCGA
63 TTACCCAAATATCCTCGA-TTTGTAAAATTACA-AAATACCCTCGA
*
104550890 TTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATT
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATT
104550955 ACCCAAATATCCTCGATTTGTAAAATTACCAAAATACCGC-CGA
65 ACCCAAATATCCTCGATTTGTAAAATTA-CAAAATACC-CTCGA
* *
104550998 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAGTACCCCCAGTCTATAAAATTA
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTA
104551063 CCCAAATATCCTCGATTTGTAAAATTACCAAAATACCGC-CGA
66 CCCAAATATCCTCGATTTGTAAAATTA-CAAAATACC-CTCGA
* *
104551105 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAGTACCCCCAGTCTATAAAATTA
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTA
104551170 CCCAAATATCCTCGATTTGTAAAATTACCAAAATACCGC-CGA
66 CCCAAATATCCTCGATTTGTAAAATTA-CAAAATACC-CTCGA
* *
104551212 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAGTACCCCCAGTCTATAAAATTA
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTA
* *
104551277 CCCAAATATCCTCGATTTGTAAAATTATCGAAATACCGTCGA
66 CCCAAATATCCTCGATTTGTAAAATTA-CAAAATACCCTCGA
* * ** * *
104551319 TTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCGAAA-TACCGTC-GATTGTAAAATT
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTA-CCAAAGTACCCCCAGTTTATAAAATT
** * * *
104551382 ACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAGT
65 ACCCAAATATCCTCGATTTGTAAAATTA-CAAAATACCCTC-GA
* * * * *
104551426 TTGCAAAATTACTAAAATACCCTTGACTTGTAAAATTACCAAAATACCCC
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCC
104551476 TAATTTACAG
Statistics
Matches: 624, Mismatches: 49, Indels: 36
0.88 0.07 0.05
Matches are distributed among these distances:
105 5 0.01
106 122 0.20
107 477 0.76
108 18 0.03
109 2 0.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (106 bp):
TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTA
CCCAAATATCCTCGATTTGTAAAATTACAAAATACCCTCGA
Found at i:104551543 original size:27 final size:27
Alignment explanation
Indices: 104551521--104552039 Score: 680
Period size: 27 Copynumber: 19.2 Consensus size: 27
104551511 AAAATTATTA
* *
104551521 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551548 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551575 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
104551602 AAATACCCCTGTAGAGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
104551629 AAATACCCCTGTAGGGTA-AAATTACCG
1 AAATACCCCTGTAGGGTAGAAA-TACCG
* *
104551656 AAATACCCTTGTAGGGTTGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551683 AAATACCCTTATAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
104551710 AAATACCTCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551737 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551764 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAAATACCG
*
104551791 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551818 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
*
104551845 AAATACCCCTGTAGGATAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
104551872 AAATACCCTTATAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551899 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
*
104551926 AAATACCCCTGTAGGATAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
104551953 AAATACCCTTATAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
104551980 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
104552007 AAATACCCCTATAGGATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
104552034 AAATAC
1 AAATAC
104552040 TGAAATATCC
Statistics
Matches: 433, Mismatches: 57, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
26 2 0.00
27 428 0.99
28 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCG
Found at i:104552041 original size:35 final size:35
Alignment explanation
Indices: 104552002--104552074 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
104551992 AGGGTAGAAT
104552002 TACTGAAATACCCCTATAGGATAGAATTACCGAAA
1 TACTGAAATACCCCTATAGGATAGAATTACCGAAA
* * *
104552037 TACTGAAATATCCCTATAGGGTAGAATTACCGAGA
1 TACTGAAATACCCCTATAGGATAGAATTACCGAAA
104552072 TAC
1 TAC
104552075 CCTTGTGGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (35 bp):
TACTGAAATACCCCTATAGGATAGAATTACCGAAA
Found at i:104552092 original size:62 final size:62
Alignment explanation
Indices: 104551971--104552094 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
104551961 TTATAGGGTA
* * *
104551971 GAAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGATAGAATTACC
1 GAAATATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTATAGGATAAAATTACC
* * * * * *
104552033 GAAATA-CTGAAATATCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GAAATATC-GAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTATAGGATAAAATTACC
104552095 ATTTTGCCCC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 1 0.02
62 51 0.98
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (62 bp):
GAAATATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTATAGGATAAAATTACC
Found at i:104552935 original size:6 final size:6
Alignment explanation
Indices: 104552926--104553013 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
104552916 TTGCATTCAC
* * *
104552926 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTA ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
104552976 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
104553014 AGTGTTTCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
5 5 0.08
6 49 0.78
7 6 0.10
8 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:104552957 original size:25 final size:25
Alignment explanation
Indices: 104552929--104552992 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
104552919 CATTCACATT
* *
104552929 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTAATTCTATCACCTGATA
* *
104552954 CTGATTCTAATTCTGTCACCTGATT
1 CTGATTCTAATTCTATCACCTGATA
104552979 CTGATTCTAATTCT
1 CTGATTCTAATTCT
104552993 CATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (25 bp):
CTGATTCTAATTCTATCACCTGATA
Found at i:104557499 original size:18 final size:18
Alignment explanation
Indices: 104557476--104557511 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
104557466 AACGGTAAGC
104557476 TGGCGTGACATGTTAAAT
1 TGGCGTGACATGTTAAAT
*
104557494 TGGCGTGGCATGTTAAAT
1 TGGCGTGACATGTTAAAT
104557512 CATCATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.33
Consensus pattern (18 bp):
TGGCGTGACATGTTAAAT
Found at i:104566979 original size:137 final size:137
Alignment explanation
Indices: 104566733--104567021 Score: 490
Period size: 137 Copynumber: 2.1 Consensus size: 137
104566723 TATTGGGCCT
* * *
104566733 AAGCCCATTTAGGTAACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGGAACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
104566798 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCAGAGGCCCATTTCAAAATACATGCAACATCAATAAA
104566863 CATATGC
131 CATATGC
*
104566870 AAGCCCATTTGGGGAACAGTGGTACTGGGCCAGAG-CCTTTTCCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGGAACAGTGGTACTGGCCCAGAGCCCTTTT-CAGATTACAATAAACTGGGCCT
* *
104566934 TAGCCCCTTATTCGGATAACAGTATGGCCCAGAGGCCTATTTCAAAATACATGCAACATCAATAA
65 TAGCCCCTTATTCAGATAACAGTATGGCCCAGAGGCCCATTTCAAAATACATGCAACATCAATAA
104566999 ACATATGC
130 ACATATGC
*
104567007 AAGCCTATTTGGGGA
1 AAGCCCATTTGGGGA
104567022 GACTACTCAA
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 6 0.04
137 137 0.96
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGGAACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCAGAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:104568836 original size:26 final size:26
Alignment explanation
Indices: 104568806--104568965 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
104568796 TGAAATTCCC
104568806 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104568832 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
**
104568858 ATCATTAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
104568884 ATCATGGAATATTTACCTATCCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104568910 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104568936 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104568962 ATCA
1 ATCA
104568966 ATTTGTATCA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 124 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104573713 original size:64 final size:64
Alignment explanation
Indices: 104573634--104574464 Score: 1662
Period size: 64 Copynumber: 13.0 Consensus size: 64
104573624 TTAATTTTGG
104573634 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104573698 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104573762 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104573826 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104573890 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104573954 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574018 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574082 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574146 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574210 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574274 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574338 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
104574402 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTT
1 AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTT
104574465 TGAAAACGCG
Statistics
Matches: 767, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 767 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (64 bp):
AAAATACTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAATTGTTGTTTTC
Found at i:104576756 original size:26 final size:26
Alignment explanation
Indices: 104576716--104576824 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
104576706 ATGAAATTCC
104576716 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
104576742 TATCATGGAATATTTACCTATCCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
104576768 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
104576794 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
104576820 TATCA
1 TATCA
104576825 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:104578280 original size:31 final size:31
Alignment explanation
Indices: 104578245--104578314 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
104578235 CTTGTCACTT
*
104578245 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
* * * *
104578276 GTAGCCGGAGTTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
104578307 GTAGCCGA
1 GTAGCCGA
104578315 TGATTAGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAA
Found at i:104578343 original size:46 final size:46
Alignment explanation
Indices: 104578269--104578360 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
104578259 CACTATTCAC
* * *
104578269 TGATCAGGTAGCCGGAGTTACCATTTTTCACTGATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGA
* * *
104578315 TGATTAGGTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGA
104578361 AGCTACCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGA
Found at i:104578353 original size:31 final size:31
Alignment explanation
Indices: 104578315--104578373 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
104578305 AAGTAGCCGA
104578315 TGATTAGGTAGCCGAAGCTACCACTTTTCAC
1 TGATTAGGTAGCCGAAGCTACCACTTTTCAC
104578346 TGATTAGGTAGCCGAAGCTACCACTTTT
1 TGATTAGGTAGCCGAAGCTACCACTTTT
104578374 TACTTATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (31 bp):
TGATTAGGTAGCCGAAGCTACCACTTTTCAC
Found at i:104579539 original size:16 final size:18
Alignment explanation
Indices: 104579508--104579542 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
104579498 TAATTAACCC
104579508 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
104579526 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
104579542 C
1 C
104579543 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:104583364 original size:22 final size:22
Alignment explanation
Indices: 104583292--104583395 Score: 93
Period size: 22 Copynumber: 4.6 Consensus size: 22
104583282 TCAGCTCGTA
*
104583292 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTT-AGCTCAAT
* * ** *
104583316 GGTGCTTACCATTTTGCTC-AT
1 AGAGCTTACTGTTTAGCTCAAT
**
104583337 ATGAGCTTACTGTTTAGCTTGAT
1 A-GAGCTTACTGTTTAGCTCAAT
104583360 AGAGCTTACTGTTTTAGCTCAAT
1 AGAGCTTACTG-TTTAGCTCAAT
104583383 AGAGCTTACTGTT
1 AGAGCTTACTGTT
104583396 CATCAGCTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
21 1 0.02
22 29 0.46
23 26 0.41
24 7 0.11
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (22 bp):
AGAGCTTACTGTTTAGCTCAAT
Found at i:104583384 original size:23 final size:23
Alignment explanation
Indices: 104583292--104583395 Score: 106
Period size: 23 Copynumber: 4.6 Consensus size: 23
104583282 TCAGCTCGTA
*
104583292 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTGTTTT-AGCTCAAT
* * **
104583316 GGTGCTTACCATTTT-GCTC-AT
1 AGAGCTTACTGTTTTAGCTCAAT
**
104583337 ATGAGCTTACTG-TTTAGCTTGAT
1 A-GAGCTTACTGTTTTAGCTCAAT
104583360 AGAGCTTACTGTTTTAGCTCAAT
1 AGAGCTTACTGTTTTAGCTCAAT
104583383 AGAGCTTACTGTT
1 AGAGCTTACTGTT
104583396 CATCAGCTCA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 4 0.06
22 24 0.38
23 25 0.39
24 11 0.17
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (23 bp):
AGAGCTTACTGTTTTAGCTCAAT
Found at i:104583609 original size:20 final size:20
Alignment explanation
Indices: 104583564--104583615 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
104583554 TAAGATAGGT
* *
104583564 GTTTATATGGATGAACTACT
1 GTTTATATGAATGAACTACA
*
104583584 GGTTATATGAATGAACTACA
1 GTTTATATGAATGAACTACA
*
104583604 GTTTATACGAAT
1 GTTTATATGAAT
104583616 AGAAATGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (20 bp):
GTTTATATGAATGAACTACA
Found at i:104589387 original size:24 final size:24
Alignment explanation
Indices: 104589350--104589429 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
104589340 TACCGATATA
* * *
104589350 TCAGCTCGTAAGAGTTTACTATTT
1 TCAGCTCATTAGAGCTTACTATTT
**
104589374 TCAGCTCATTAGAGCTTAC-CGTT
1 TCAGCTCATTAGAGCTTACTATTT
* *
104589397 TCAGCTCAATAGAGCTTACTATTCA
1 TCAGCTCATTAGAGCTTACTATT-T
104589422 TCAGCTCA
1 TCAGCTCA
104589430 GGAGGAGCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 20 0.44
24 17 0.38
25 8 0.18
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (24 bp):
TCAGCTCATTAGAGCTTACTATTT
Found at i:104597190 original size:57 final size:57
Alignment explanation
Indices: 104597102--104597217 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
104597092 TCCTTTTAGT
*
104597102 GAAGGTGCTATGGTGAAATCATAGTACTGATGAGGCCATGTGGGAGCCTAAGGATTC
1 GAAGGTGCTATGGTGAAATCATAGTACTGATGAGGCCACGTGGGAGCCTAAGGATTC
104597159 GAAGGTGCTATGGTGAAATCATAGTACTGATGAGGCCACGTGGGAGCCTAAGGATTC
1 GAAGGTGCTATGGTGAAATCATAGTACTGATGAGGCCACGTGGGAGCCTAAGGATTC
104597216 GA
1 GA
104597218 TGCGTCAGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (57 bp):
GAAGGTGCTATGGTGAAATCATAGTACTGATGAGGCCACGTGGGAGCCTAAGGATTC
Found at i:104602871 original size:18 final size:20
Alignment explanation
Indices: 104602837--104602873 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
104602827 CCATTCTTCC
104602837 TTCTCTTCCTTTCTTTTCTT
1 TTCTCTTCCTTTCTTTTCTT
104602857 TTCT-TTCCTTT-TTTTCT
1 TTCTCTTCCTTTCTTTTCT
104602874 CTCCATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTCTTCCTTTCTTTTCTT
Found at i:104603994 original size:28 final size:28
Alignment explanation
Indices: 104603954--104604021 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
104603944 TAGATGTACT
*
104603954 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
104603982 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
104604010 TTTATACCCCTA
1 ATTATACCCCTA
104604022 GGGTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:104604185 original size:27 final size:27
Alignment explanation
Indices: 104604127--104604216 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
104604117 AGGAAGCGTC
**
104604127 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAA-TATCTGTT
*
104604155 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCCCTGCCACAAATATCTGTT
*
104604182 CTGGTGGCAGC-GCCACAAAATATCTGTAT
1 CTGGTGGC-CCTGCCAC-AAATATCTGT-T
104604211 CTGGTG
1 CTGGTG
104604217 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 21 0.39
28 26 0.48
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (27 bp):
CTGGTGGCCCTGCCACAAATATCTGTT
Found at i:104604672 original size:19 final size:19
Alignment explanation
Indices: 104604648--104604686 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
104604638 TTTTAATTAT
* *
104604648 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
104604667 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
104604686 T
1 T
104604687 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:104605481 original size:45 final size:45
Alignment explanation
Indices: 104605417--104605510 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
104605407 TTTGCTTTCA
* *
104605417 TTTAAGTTTTGTTTTAACACTGAATTGGGCATTGGAATATCAATT
1 TTTAAATTTCGTTTTAACACTGAATTGGGCATTGGAATATCAATT
104605462 TTTAAATTTCGTTTTAACACTGAATTGGGCATTGGAATATCAATT
1 TTTAAATTTCGTTTTAACACTGAATTGGGCATTGGAATATCAATT
104605507 TTTA
1 TTTA
104605511 GGTTCTGGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (45 bp):
TTTAAATTTCGTTTTAACACTGAATTGGGCATTGGAATATCAATT
Found at i:104609321 original size:50 final size:50
Alignment explanation
Indices: 104609267--104609363 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
104609257 TAACATTACG
* *
104609267 TAAATACTTACCTATATAACCGAATATACAAGGTCCAATATATCATCTCA
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCTCA
* ** * *
104609317 TAAATACTTACATGTATGGCCGAATACACAAGGTTCATTATATCATC
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATC
104609364 ACAAATGGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (50 bp):
TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCTCA
Found at i:104609475 original size:35 final size:35
Alignment explanation
Indices: 104609331--104609475 Score: 141
Period size: 35 Copynumber: 4.1 Consensus size: 35
104609321 TACTTACATG
* * * *
104609331 TATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TATGGCCAAATATACAA-GTTCAATATAACATCACA
* *
104609367 AATGGCCAAATATACAAGTT-AGATAGAACATCACA
1 TATGGCCAAATATACAAGTTCA-ATATAACATCACA
* * * * *
104609402 TGTAGCCAAATTTACAAATTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATAACATCACA
*
104609437 TATGGCCGAATATACAAGTT-AGATATAACATCACA
1 TATGGCCAAATATACAAGTTCA-ATATAACATCACA
104609472 TATG
1 TATG
104609476 TACATATCTA
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.02
35 70 0.80
36 15 0.17
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATAACATCACA
Found at i:104611109 original size:54 final size:53
Alignment explanation
Indices: 104611035--104611143 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 53
104611025 TCGTGATTTT
**
104611035 TCCCTGAAACTAGACTCCTATTTCCATCTGA-ATATTTTTTTCTAGAATTTTTGG
1 TCCCTGAAACTAGACTCCTATGCCCATCT-ACATA-TTTTTTCTAGAATTTTTGG
104611089 TCCCTGAAACTAGACTCCTATGCCCATCTACATATTTTTTCTAGAATTTTTGG
1 TCCCTGAAACTAGACTCCTATGCCCATCTACATATTTTTTCTAGAATTTTTGG
104611142 TC
1 TC
104611144 GGGCCAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
53 22 0.42
54 30 0.58
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (53 bp):
TCCCTGAAACTAGACTCCTATGCCCATCTACATATTTTTTCTAGAATTTTTGG
Found at i:104611577 original size:40 final size:40
Alignment explanation
Indices: 104611522--104612278 Score: 1462
Period size: 40 Copynumber: 18.9 Consensus size: 40
104611512 CTATTTTTAG
*
104611522 TAGCATGAATGCTCTTCGGGACTTAGCTCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611562 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611602 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611642 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611682 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611722 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611762 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611802 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611842 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611882 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611922 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104611962 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104612002 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104612042 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104612082 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104612122 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
104612162 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* *
104612202 TAGCACGAATGCTCTTCGGGACTTAGCTCGGATACATCAC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* *
104612242 TAGCACGAATGCTCTTTGGGACTTAGCCCGGAT-CATC
1 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
104612279 GTCGAGACCT
Statistics
Matches: 712, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
39 4 0.01
40 708 0.99
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
Found at i:104613397 original size:52 final size:52
Alignment explanation
Indices: 104613319--104613423 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
104613309 GTACAGGGCT
* *
104613319 TCAATACTGATGTCGTTTGTTTCTATAGAAACTAGACTCAGAGTGGAAGCTA
1 TCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAAGCTA
*
104613371 TCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTA
1 TCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAAGCTA
104613423 T
1 T
104613424 ACATATATGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (52 bp):
TCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAAGCTA
Found at i:104617141 original size:35 final size:35
Alignment explanation
Indices: 104617102--104617220 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
104617092 GGTATGTACT
* *
104617102 TATGTGATGTTATATCTAACTTGTATATTCAGCTA
1 TATGTGATGATATATCTAACTTGTATATTCGGCTA
* * *
104617137 TATGTGATGATATAT-TGAATTTGTAAATTTGGCTA
1 TATGTGATGATATATCT-AACTTGTATATTCGGCTA
* * * *
104617172 CATGTGATGGTCTATCTAACTTGTATATTCGGCCA
1 TATGTGATGATATATCTAACTTGTATATTCGGCTA
104617207 TATGTGATGATATA
1 TATGTGATGATATA
104617221 ATGAACCTTG
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 65 0.97
36 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (35 bp):
TATGTGATGATATATCTAACTTGTATATTCGGCTA
Found at i:104618905 original size:22 final size:22
Alignment explanation
Indices: 104618880--104618923 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
104618870 TCCTAATGCC
104618880 TTAATTTCATGTTTTATACTTA
1 TTAATTTCATGTTTTATACTTA
104618902 TTAATTTCATGTTTTATACTTA
1 TTAATTTCATGTTTTATACTTA
104618924 GGAGAGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.59
Consensus pattern (22 bp):
TTAATTTCATGTTTTATACTTA
Found at i:104621686 original size:29 final size:30
Alignment explanation
Indices: 104621653--104621712 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
104621643 TCCTTTACTC
104621653 AAAC-TTTGCAAAAATTACA-TTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
104621682 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
104621712 A
1 A
104621713 GGCTGAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:104628824 original size:13 final size:13
Alignment explanation
Indices: 104628802--104628839 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
104628792 CCATTTCTTG
104628802 TATT-ACCCTTAA
1 TATTAACCCTTAA
104628814 TATTAACCCTTAA
1 TATTAACCCTTAA
*
104628827 TATTAACCATTAA
1 TATTAACCCTTAA
104628840 CCCATTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAACCCTTAA
Found at i:104629439 original size:23 final size:23
Alignment explanation
Indices: 104629421--104629469 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
104629411 TGATGTTCTT
104629421 TTAGTTGAATTCTCAATGTATGA
1 TTAGTTGAATTCTCAATGTATGA
104629444 TTAGTTGAATTCTCAATGTATGA
1 TTAGTTGAATTCTCAATGTATGA
104629467 TTA
1 TTA
104629470 CCTATGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (23 bp):
TTAGTTGAATTCTCAATGTATGA
Found at i:104650667 original size:57 final size:57
Alignment explanation
Indices: 104650598--104650710 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
104650588 TCTATTACAT
*
104650598 AAGGAATAAAACACGTGGCAATAACATTTCATGAATAATCTAAAATAATTAGGAAAA
1 AAGGAATAAAACACGTGGCAATAACATTTCATGAATAATCTAAAATAATAAGGAAAA
104650655 AAGGAATAAAACACGTGGCAATAACATTTCATGAATAATCTAAAATAATAAGGAAA
1 AAGGAATAAAACACGTGGCAATAACATTTCATGAATAATCTAAAATAATAAGGAAA
104650711 TACAAAGGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (57 bp):
AAGGAATAAAACACGTGGCAATAACATTTCATGAATAATCTAAAATAATAAGGAAAA
Found at i:104658393 original size:47 final size:47
Alignment explanation
Indices: 104658339--104658532 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
104658329 TTAGGATTTT
** * *
104658339 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
104658386 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
104658433 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
104658480 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
104658527 ATGTGA
1 ATGTGA
104658533 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:104658439 original size:22 final size:22
Alignment explanation
Indices: 104658368--104658439 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
104658358 GTATATATGA
104658368 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
104658390 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
104658415 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
104658437 GAT
1 GAT
104658440 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:104658488 original size:25 final size:25
Alignment explanation
Indices: 104658413--104658488 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
104658403 ATGCATATAT
104658413 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
104658438 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
104658460 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
104658485 GTGA
1 GTGA
104658489 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:104658566 original size:48 final size:48
Alignment explanation
Indices: 104658503--104658638 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 48
104658493 GAACATGCAT
104658503 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
104658551 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
104658601 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
104658639 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.01
48 33 0.41
49 4 0.05
50 41 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:104658653 original size:50 final size:50
Alignment explanation
Indices: 104658497--104658659 Score: 201
Period size: 50 Copynumber: 3.3 Consensus size: 50
104658487 GAATATGAAC
*
104658497 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
104658547 ATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
104658597 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
104658645 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
104658660 CCGAACGACC
Statistics
Matches: 98, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 38 0.39
49 4 0.04
50 49 0.50
51 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:104661211 original size:49 final size:49
Alignment explanation
Indices: 104661156--104661700 Score: 990
Period size: 49 Copynumber: 11.2 Consensus size: 49
104661146 ATTTGAATAA
104661156 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
104661205 ATGTGATATGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661254 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661303 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661352 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661401 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661450 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661499 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661548 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661597 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
104661644 ATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAA--GTATATAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
104661691 ATGTGATAAG
1 ATGTGATAAG
104661701 TCCCGAAGGG
Statistics
Matches: 484, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
45 1 0.00
47 51 0.11
49 432 0.89
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:104662856 original size:37 final size:37
Alignment explanation
Indices: 104662748--104662856 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
104662738 GGAAATATAT
*
104662748 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
104662785 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
104662822 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
104662857 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:104666595 original size:43 final size:43
Alignment explanation
Indices: 104666546--104666673 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
104666536 AAGGTAAATC
* * *
104666546 CAACAACCCATGTTTATTTTCTCCTCTTTTTAAATT-TATTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCT-TTTTT
104666589 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
* * *
104666632 CAACATCCTAAGATTATCATCTCCTCTTTTTAAATTCTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT
104666674 CTTCTAGGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 77 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.49
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:104669028 original size:29 final size:29
Alignment explanation
Indices: 104668986--104669044 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
104668976 CTGTTGTTTC
104668986 TATCAAGTCAATGGCATGACATTATTCAT
1 TATCAAGTCAATGGCATGACATTATTCAT
104669015 TATCAAGTCAATGGCATGACATTATTCAT
1 TATCAAGTCAATGGCATGACATTATTCAT
104669044 T
1 T
104669045 CTCATCAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (29 bp):
TATCAAGTCAATGGCATGACATTATTCAT
Found at i:104694856 original size:24 final size:24
Alignment explanation
Indices: 104694820--104694981 Score: 105
Period size: 24 Copynumber: 6.8 Consensus size: 24
104694810 GAGCCAACAT
* *
104694820 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
104694844 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
104694868 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
104694892 TGTCAATAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
104694917 -AGCACTATGTGTGCG-GTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
104694940 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
104694964 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
104694982 ATCGGTTGAG
Statistics
Matches: 98, Mismatches: 35, Indels: 10
0.69 0.24 0.07
Matches are distributed among these distances:
23 5 0.05
24 87 0.89
25 6 0.06
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:104700642 original size:24 final size:24
Alignment explanation
Indices: 104700606--104700767 Score: 96
Period size: 24 Copynumber: 6.8 Consensus size: 24
104700596 GAGCCAACAT
* *
104700606 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
104700630 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
104700654 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* ** ** * * *
104700678 TGTCAAAAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
104700703 -AGCACTATGTGTGC-AGTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
104700726 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
104700750 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
104700768 ATCAGTTGAG
Statistics
Matches: 96, Mismatches: 37, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
23 6 0.06
24 83 0.86
25 7 0.07
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:104705841 original size:108 final size:108
Alignment explanation
Indices: 104705652--104705870 Score: 420
Period size: 108 Copynumber: 2.0 Consensus size: 108
104705642 TTGACGAATT
104705652 TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
1 TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
*
104705717 TTTCTTCACTAACATTGGATTGAGTTTTTAGCAATGTTGATGG
66 TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
*
104705760 TCAGGGGATAATCTTAGGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
1 TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
104705825 TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
66 TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
104705868 TCA
1 TCA
104705871 ATGAAGTATC
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (108 bp):
TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
Found at i:104712524 original size:13 final size:14
Alignment explanation
Indices: 104712498--104712526 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
104712488 ACTAATGATG
104712498 AATTAAACCATTAT
1 AATTAAACCATTAT
104712512 AATTAAA-CATTAT
1 AATTAAACCATTAT
104712525 AA
1 AA
104712527 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:104716840 original size:414 final size:414
Alignment explanation
Indices: 104716070--104716897 Score: 1656
Period size: 414 Copynumber: 2.0 Consensus size: 414
104716060 TGTAAGAGAA
104716070 CTTCTTCCCATTATACAACCACTTCGAACAAGTTTGCGTAGCACAACAAGGACAAGCATAACATC
1 CTTCTTCCCATTATACAACCACTTCGAACAAGTTTGCGTAGCACAACAAGGACAAGCATAACATC
104716135 TTTTAGTACTCTAACCCGATAAATTAGCATAAGCCGAGAAATCATTAATTGTCCATAACAAAGCT
66 TTTTAGTACTCTAACCCGATAAATTAGCATAAGCCGAGAAATCATTAATTGTCCATAACAAAGCT
104716200 GCACGTAAATTAAAGTTATCCTTTCTCAATACATCATATGTCTCAACACCCGACCATAACTGTTT
131 GCACGTAAATTAAAGTTATCCTTTCTCAATACATCATATGTCTCAACACCCGACCATAACTGTTT
104716265 TAACTCTTCAATAAGTGGCTGCAAATTGATGTCAATATCATTTCCAGGACCTTTCTTTCTAGGGA
196 TAACTCTTCAATAAGTGGCTGCAAATTGATGTCAATATCATTTCCAGGACCTTTCTTTCTAGGGA
104716330 TAATCATTGATAAAATAAATGAAGATTGCTTCATGTAAATCCATGGAGGAAAATTGTAAGGAACA
261 TAATCATTGATAAAATAAATGAAGATTGCTTCATGTAAATCCATGGAGGAAAATTGTAAGGAACA
104716395 ACCACTACAGGCCAAGTACTGTACGAAGTACTCATGATTTTAAAAGGATTAAAGCCGTCAGCTGC
326 ACCACTACAGGCCAAGTACTGTACGAAGTACTCATGATTTTAAAAGGATTAAAGCCGTCAGCTGC
104716460 TAGCCCAAGGCTCACATTCTGAAG
391 TAGCCCAAGGCTCACATTCTGAAG
104716484 CTTCTTCCCATTATACAACCACTTCGAACAAGTTTGCGTAGCACAACAAGGACAAGCATAACATC
1 CTTCTTCCCATTATACAACCACTTCGAACAAGTTTGCGTAGCACAACAAGGACAAGCATAACATC
104716549 TTTTAGTACTCTAACCCGATAAATTAGCATAAGCCGAGAAATCATTAATTGTCCATAACAAAGCT
66 TTTTAGTACTCTAACCCGATAAATTAGCATAAGCCGAGAAATCATTAATTGTCCATAACAAAGCT
104716614 GCACGTAAATTAAAGTTATCCTTTCTCAATACATCATATGTCTCAACACCCGACCATAACTGTTT
131 GCACGTAAATTAAAGTTATCCTTTCTCAATACATCATATGTCTCAACACCCGACCATAACTGTTT
104716679 TAACTCTTCAATAAGTGGCTGCAAATTGATGTCAATATCATTTCCAGGACCTTTCTTTCTAGGGA
196 TAACTCTTCAATAAGTGGCTGCAAATTGATGTCAATATCATTTCCAGGACCTTTCTTTCTAGGGA
104716744 TAATCATTGATAAAATAAATGAAGATTGCTTCATGTAAATCCATGGAGGAAAATTGTAAGGAACA
261 TAATCATTGATAAAATAAATGAAGATTGCTTCATGTAAATCCATGGAGGAAAATTGTAAGGAACA
104716809 ACCACTACAGGCCAAGTACTGTACGAAGTACTCATGATTTTAAAAGGATTAAAGCCGTCAGCTGC
326 ACCACTACAGGCCAAGTACTGTACGAAGTACTCATGATTTTAAAAGGATTAAAGCCGTCAGCTGC
104716874 TAGCCCAAGGCTCACATTCTGAAG
391 TAGCCCAAGGCTCACATTCTGAAG
104716898 ATCGCTTGCA
Statistics
Matches: 414, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 414 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (414 bp):
CTTCTTCCCATTATACAACCACTTCGAACAAGTTTGCGTAGCACAACAAGGACAAGCATAACATC
TTTTAGTACTCTAACCCGATAAATTAGCATAAGCCGAGAAATCATTAATTGTCCATAACAAAGCT
GCACGTAAATTAAAGTTATCCTTTCTCAATACATCATATGTCTCAACACCCGACCATAACTGTTT
TAACTCTTCAATAAGTGGCTGCAAATTGATGTCAATATCATTTCCAGGACCTTTCTTTCTAGGGA
TAATCATTGATAAAATAAATGAAGATTGCTTCATGTAAATCCATGGAGGAAAATTGTAAGGAACA
ACCACTACAGGCCAAGTACTGTACGAAGTACTCATGATTTTAAAAGGATTAAAGCCGTCAGCTGC
TAGCCCAAGGCTCACATTCTGAAG
Found at i:104718089 original size:46 final size:47
Alignment explanation
Indices: 104718015--104718127 Score: 174
Period size: 46 Copynumber: 2.4 Consensus size: 47
104718005 TGTAAGTTAT
* *
104718015 GATATGATATATATTTACGTATTATGTAAGTTATATAAATTATGTAA
1 GATATGATATATATTTACGTATAATGTAAATTATATAAATTATGTAA
* *
104718062 GATATGATA-ATATTTATGTATAATGTAAATTATGTAAATTATGTAA
1 GATATGATATATATTTACGTATAATGTAAATTATATAAATTATGTAA
*
104718108 GATATGATATATATCTACGT
1 GATATGATATATATTTACGT
104718128 TGATGGGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 42 0.71
47 17 0.29
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (47 bp):
GATATGATATATATTTACGTATAATGTAAATTATATAAATTATGTAA
Found at i:104718113 original size:18 final size:18
Alignment explanation
Indices: 104718035--104718107 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
104718025 ATATTTACGT
* *
104718035 ATTATGTAAGTTATATAA
1 ATTATGTAAGATATGTAA
104718053 ATTATGTAAGATATGATAA
1 ATTATGTAAGATATG-TAA
*
104718072 TATTTATGT-ATA-ATGTAA
1 -A-TTATGTAAGATATGTAA
104718090 ATTATGTAA-ATTATGTAA
1 ATTATGTAAGA-TATGTAA
104718108 GATATGATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 7 0.15
17 2 0.04
18 22 0.48
19 6 0.13
20 3 0.07
21 6 0.13
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATTATGTAAGATATGTAA
Found at i:104719232 original size:25 final size:25
Alignment explanation
Indices: 104719199--104719246 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
104719189 GTAAAATATC
*
104719199 GAATTAGTAGAATCAAACTATTATG
1 GAATAAGTAGAATCAAACTATTATG
* * *
104719224 GAATAAGTATAATTAAATTATTA
1 GAATAAGTAGAATCAAACTATTA
104719247 CAACACAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (25 bp):
GAATAAGTAGAATCAAACTATTATG
Found at i:104722764 original size:5 final size:5
Alignment explanation
Indices: 104722756--104722780 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104722746 AAAAATACTA
104722756 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
104722781 TAAAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:104723216 original size:38 final size:40
Alignment explanation
Indices: 104723153--104723232 Score: 128
Period size: 38 Copynumber: 2.0 Consensus size: 40
104723143 ACCCATACCG
104723153 TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
1 TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
* *
104723193 TAAACTTAA-A-ATATATTCTACCATTGAACCCTAAACCA
1 TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
104723231 TA
1 TA
104723233 GGCTTTAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 28 0.74
39 1 0.03
40 9 0.24
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (40 bp):
TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
Found at i:104723426 original size:21 final size:21
Alignment explanation
Indices: 104723387--104723453 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
104723377 GATTTAGGGT
* *
104723387 TTTAGAGTTTATGGATTAGTG
1 TTTAGGGTTTATGGTTTAGTG
* * **
104723408 TTTATGGTTTATGTTTTAGAA
1 TTTAGGGTTTATGGTTTAGTG
* *
104723429 TTTAGGGTTTAGGGTTTAATG
1 TTTAGGGTTTATGGTTTAGTG
104723450 TTTA
1 TTTA
104723454 AGATTTAAGG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTAGTG
Found at i:104724076 original size:41 final size:41
Alignment explanation
Indices: 104723756--104724088 Score: 355
Period size: 41 Copynumber: 8.2 Consensus size: 41
104723746 AACTTTTTGC
* *
104723756 GGCGTTTGGACCAAAAACGCCGCTATTCACAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
** * * *
104723797 GGCGTTTGGAAGAAAAAAGCCGTTATTGATTAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * *
104723838 GGCGTTTGGGCCAAAAACGCCACTATTCATAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* ** *
104723879 GGTGTTTGGAAGAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * *
104723920 GGCGCTTGGGCCAAAAACACTGCTATTGATAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * * *
104723961 GGTGTTT-GTCCAAAAATGCTGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * *
104724001 GGCG-TTGGTCTAAAAATGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * * * *
104724041 GGCGTTTGGGCCAAAAACGCCGTTATTGTTTAGTTTTTTGC
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
104724082 GGCGTTT
1 GGCGTTT
104724089 TTATTAAACG
Statistics
Matches: 243, Mismatches: 47, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
39 2 0.01
40 67 0.28
41 174 0.72
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
Found at i:104725165 original size:25 final size:24
Alignment explanation
Indices: 104725131--104725177 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
104725121 TAAAGAAATG
*
104725131 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
104725156 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
104725178 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:104726768 original size:47 final size:47
Alignment explanation
Indices: 104726710--104727057 Score: 615
Period size: 47 Copynumber: 7.4 Consensus size: 47
104726700 CAGCCAAGAC
104726710 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
104726757 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
104726804 AGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
104726851 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
104726898 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
104726945 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
104726992 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
104727039 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
104727058 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 289 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:104727232 original size:37 final size:37
Alignment explanation
Indices: 104727176--104727254 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
104727166 CCGAGCTCTA
* * *
104727176 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
104727213 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
104727250 AAGAC
1 AAGAC
104727255 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:104730215 original size:27 final size:26
Alignment explanation
Indices: 104730153--104730265 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
104730143 AGGAAGCGTC
*
104730153 CTGGTGGCTATGCCACAAATTATCTGATT
1 CTGGTGGCTCTGCCAC--ATTATCTG-TT
*
104730182 -TGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
104730208 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
104730236 CTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
104730262 CTGG
1 CTGG
104730266 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.12
27 35 0.47
28 30 0.41
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:104730247 original size:55 final size:54
Alignment explanation
Indices: 104730153--104730265 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
104730143 AGGAAGCGTC
* *
104730153 CTGGTGGCTATGCCACAAATTATCTGATTTGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGATGACTCTGCCACAT-TATCTGTT
* * * * *
104730208 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGATGACTCTGCCACATTATCTGTT
104730262 CTGG
1 CTGG
104730266 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 19 0.38
55 31 0.62
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGATGACTCTGCCACATTATCTGTT
Found at i:104740309 original size:25 final size:25
Alignment explanation
Indices: 104740134--104740311 Score: 231
Period size: 25 Copynumber: 7.2 Consensus size: 25
104740124 AGCATAGCTG
*
104740134 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
*
104740161 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
* *
104740185 CTTT-TAATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
104740209 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
104740233 CCTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
104740258 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
104740283 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
104740308 CTTT
1 CTTT
104740312 TACACTTCCT
Statistics
Matches: 140, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
23 17 0.12
24 38 0.27
25 80 0.57
27 1 0.01
28 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:104740387 original size:20 final size:20
Alignment explanation
Indices: 104740362--104740428 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
104740352 TTATGAATAC
104740362 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104740382 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
104740402 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104740422 ACCATGT
1 ATCATGT
104740429 TTATTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:104744984 original size:27 final size:27
Alignment explanation
Indices: 104744946--104744997 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
104744936 GGCCAAGTAT
*
104744946 GCCTCACAACCTTTCTGAATCAACTAC
1 GCCTCACAACCTTTCTAAATCAACTAC
*
104744973 GCCTTACAACCTTTCTAAATCAACT
1 GCCTCACAACCTTTCTAAATCAACT
104744998 TCTCGGCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.29
Consensus pattern (27 bp):
GCCTCACAACCTTTCTAAATCAACTAC
Found at i:104747870 original size:31 final size:30
Alignment explanation
Indices: 104747829--104747892 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
104747819 CCTTTTCATA
104747829 TTTCACATTTCATAACACTGGGCCGAAGCCT
1 TTTCACATTTCATAACACTGGGCCGAAG-CT
* ** *
104747860 TTTCATATTTCATATTATTGGGCCGAAGCT
1 TTTCACATTTCATAACACTGGGCCGAAGCT
104747890 TTT
1 TTT
104747893 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (30 bp):
TTTCACATTTCATAACACTGGGCCGAAGCT
Found at i:104748031 original size:25 final size:24
Alignment explanation
Indices: 104747937--104748069 Score: 212
Period size: 24 Copynumber: 5.5 Consensus size: 24
104747927 TATCACATGA
104747937 AAGCCCTTTTAATAACTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
104747961 AAGCCCTTTTAATAACTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
104747985 AAGCCCTTTTAATAACTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
* *
104748009 AAGCCCTTTATCATAACTTGGGCAT
1 AAGCCCTTT-TAATAACTGGGGCAT
*
104748034 AAGCCCTTTATCATAACTGGGGCAT
1 AAGCCCTTT-TAATAACTGGGGCAT
*
104748059 AAGCCTTTTTA
1 AAGCCCTTTTA
104748070 CACTTCCTCC
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
24 58 0.56
25 45 0.44
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
AAGCCCTTTTAATAACTGGGGCAT
Found at i:104748143 original size:20 final size:20
Alignment explanation
Indices: 104748118--104748184 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
104748108 TTATGAATAC
104748118 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104748138 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
104748158 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104748178 ACCATGT
1 ATCATGT
104748185 TTATTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Done.