Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008648.1 Hibiscus syriacus cultivar Beakdansim tig00111635_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 367859
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:236 original size:84 final size:83
Alignment explanation
Indices: 14--678 Score: 609
Period size: 84 Copynumber: 8.1 Consensus size: 83
4 CACTAAGACC
* *
14 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
* * *
79 TG--CCAAAA-ACCCTTA
66 TGTAGCAAAAGACCTTTG
* * * * * * * * * * *
94 AGTTCGATTACACTCAGCTTCAAGGGTATAACATTTACAGCATAAATCAAGGCTAGAAGGGTTAT
1 AGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTAT
159 CTGTTAGCAAAAGACCTTTG
65 CTG-TAGCAAAAGACCTTTG
* * * *
179 AGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTACGTCGAGAAGGGCTATC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
* * *
244 --T-GCCAAAGACCCTTA
66 TGTAGCAAAAGACCTTTG
* * * * * * * * *
259 AGTTCGATTACACTCAGCTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
*
324 TGTGACCAAAAGACCTTTG
66 TGT-AGCAAAAGACCTTTG
* * *
343 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
* ***
408 --T-GCCAAAGACCCCCG
66 TGTAGCAAAAGACCTTTG
* * * *
423 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
1 AGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTAT
* * * *
488 CTGCCAACCAAAGACCTTCG
65 CTG-TAGCAAAAGACCTTTG
* * * * * * * * *
508 AGTTCAATTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
*
573 TGCTAACAAAAGACCTTTG
66 TG-TAGCAAAAGACCTTTG
* * *
592 AGTTCGACTACATTCAGCT-CAACGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
1 AGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTAT
* *
656 C--T-GCTAAAGACCTTCG
65 CTGTAGCAAAAGACCTTTG
672 AGTTCGA
1 AGTTCGA
679 TTATATTCAA
Statistics
Matches: 466, Mismatches: 104, Indels: 30
0.78 0.17 0.05
Matches are distributed among these distances:
80 126 0.27
81 78 0.17
82 2 0.00
83 3 0.01
84 205 0.44
85 52 0.11
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (83 bp):
AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
TGTAGCAAAAGACCTTTG
Found at i:542 original size:165 final size:164
Alignment explanation
Indices: 14--662 Score: 805
Period size: 165 Copynumber: 3.9 Consensus size: 164
4 CACTAAGACC
14 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
* * * *
79 TGCCAAAAACCCTTAAGTTCGATTACACTCAGCTTCAAGGGTATAACATTTACAGCATAAATCAA
66 TGCCAAAGACCCTTAAGTTCGATTACACTCAGC-TCAAGGGCACAACATTTACAGCATAACTCAA
* * * *
144 GGCTAGAAGGGTTATCTGTTAGCAAAAGACCTTTG
130 GGCGAGAAGGGTTATCTGCTAACCAAAGACCTTTG
* * * *
179 AGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTACGTCGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
* *
244 TGCCAAAGACCCTTAAGTTCGATTACACTCAGCTCGAGGGCACATCATTTACAGCATAACTCAAG
66 TGCCAAAGACCCTTAAGTTCGATTACACTCAGCTCAAGGGCACAACATTTACAGCATAACTCAAG
* * *
309 GCTAGGAGGGTTATCTG-TGACCAAAAGACCTTTG
131 GCGAGAAGGGTTATCTGCTAACC-AAAGACCTTTG
*
343 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
*** * * * *
408 TGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAA
66 TGCCAAAGACCCTTAAGTTCGATTACACTCAGC-TCAAGGGCACAACATTTACAGCATAACTCAA
* * *
473 GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
130 GGCGAGAAGGGTTATCTGCTAACCAAAGACCTTTG
* * * * * * * * *
508 AGTTCAATTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
* * * * * * *
573 TGCTAACAAAAGACCTTTGAGTTCGACTACATTCAGCTCAACGGCACAACATTTGCAGCATAGCT
66 TGC---C-AAAGACCCTTAAGTTCGATTACACTCAGCTCAAGGGCACAACATTTACAGCATAACT
* * *
638 TAAGTCGAGAAGGGCTATCTGCTAA
127 CAAGGCGAGAAGGGTTATCTGCTAA
663 AGACCTTCGA
Statistics
Matches: 428, Mismatches: 49, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
163 2 0.00
164 146 0.34
165 205 0.48
166 3 0.01
168 48 0.11
169 24 0.06
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
TGCCAAAGACCCTTAAGTTCGATTACACTCAGCTCAAGGGCACAACATTTACAGCATAACTCAAG
GCGAGAAGGGTTATCTGCTAACCAAAGACCTTTG
Found at i:542 original size:249 final size:244
Alignment explanation
Indices: 26--681 Score: 660
Period size: 249 Copynumber: 2.7 Consensus size: 244
16 TTCGACTACG
* * * * * * *
26 CTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGC---CAAAA-
1 CTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCTAACAAAAG
* * * * * * * * ** * * *
87 ACCCTTAAGTTCGATTACACTCAGCTTCAAGGGTATAACATTTACAGCATAAATCAAGGCTAGAA
66 ACCTTTGAGTTCGACTACACTCAGC-TCAACGGCACAACATTTGCAGAATAGCTTAAGTCGAGAA
* * *** * * *
152 GGGTTATCTGTTAGCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCA
130 GGGCTATC---T-GCCAAAGACCCCCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
* * *
217 GCATAGCTTACGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACA
191 GCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCAATTACA
* * * * *
271 CTCAGCTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTG-TGACCAAAA
1 CTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCT-AACAAAA
* *
335 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGA
65 GACCTTTGAGTTCGACTACACTCAGCT-CAACGGCACAACATTTGCAGAATAGCTTAAGTCGAGA
* *
399 AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGC
129 AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTGCAGC
* * *
464 ATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCAATTACG
193 ATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTT-AAGTTCAATTACA
* ** * * *
520 CTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAG
1 CTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCTAACAAAAG
* *
585 ACCTTTGAGTTCGACTACATTCAGCTCAACGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAG
66 ACCTTTGAGTTCGACTACACTCAGCTCAACGGCACAACATTTGCAGAATAGCTTAAGTCGAGAAG
* **
650 GGCTATCTGCTAAAGACCTTCGAGTTCGATTA
131 GGCTATCTGCCAAAGACCCCCGAGTTCGATTA
682 TATTCAACTT
Statistics
Matches: 340, Mismatches: 57, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
244 26 0.08
245 90 0.26
248 44 0.13
249 179 0.53
250 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (244 bp):
CTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCTAACAAAAG
ACCTTTGAGTTCGACTACACTCAGCTCAACGGCACAACATTTGCAGAATAGCTTAAGTCGAGAAG
GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATA
ACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCAATTACA
Found at i:667 original size:329 final size:327
Alignment explanation
Indices: 14--678 Score: 848
Period size: 329 Copynumber: 2.0 Consensus size: 327
4 CACTAAGACC
14 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
** * *
79 TGCCAAAAACCCTTAAGTTCGATTACACTCAGCTTCAAGGGTATAACATTTACAGCATAAATCAA
66 TGCCAAAAACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCACAACATTTACAGCATAAATCAA
* ** * * * *
144 GGCTAGAAGGGTTATCTGTTAGCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGTACAT
131 GGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACAT
* * * *
209 CATTTGCAGCATAGCTTACGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTC
196 CATTTGCAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGACTACACTC
* * * * * *
274 AGCTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACC
261 AGCTCAACGGCACAACATTTACAGCATAACTCAAGGCGAGAAGGGCTATC-GTGA-CAAAAGACC
*
339 TTTG
324 TTCG
*
343 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
* * * * * * *
408 TGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAA
66 TGCCAAAAACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCACAACATTTACAGCATAAATCAA
* * * *
473 GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCAATTACGCTCAGCTCCAAGGCATAT
131 GGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACAT
* * * * * *
538 CATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGACTAC
196 CATTTGCAGCACAACTTAAGTCGAGAAGGGCTATCTGC---C-AAAGACCCTTAAGTTCGACTAC
* * * * * *
603 ATTCAGCTCAACGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC-TG-CTAAAGA
257 ACTCAGCTCAACGGCACAACATTTACAGCATAACTCAAGGCGAGAAGGGCTATCGTGACAAAAGA
666 CCTTCG
322 CCTTCG
672 AGTTCGA
1 AGTTCGA
679 TTATATTCAA
Statistics
Matches: 286, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
329 221 0.77
331 2 0.01
332 1 0.00
333 62 0.22
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (327 bp):
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATC
TGCCAAAAACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCACAACATTTACAGCATAAATCAA
GGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACAT
CATTTGCAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGACTACACTC
AGCTCAACGGCACAACATTTACAGCATAACTCAAGGCGAGAAGGGCTATCGTGACAAAAGACCTT
CG
Found at i:761 original size:249 final size:249
Alignment explanation
Indices: 246--741 Score: 613
Period size: 249 Copynumber: 2.0 Consensus size: 249
236 GGGCTATCTG
* * * * *
246 CCAAAGACCCTT-AAGTTCGATTACACTCAGCTCGAGGGCACATCATTTACAGCATAACTCAAGG
1 CCAAAGA-CCTTCGAGTTCAATTACACTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGG
* * * *
310 CTAGGAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
65 CTAGAAGGGTTATCTGTGAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACAACA
*
375 TTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
130 TTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAA
* * * * * * * *
440 CTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
195 CTTAGAGGGCAAATCACTTACAGAATAACTAAAGACAAGAAGGGTTATCTGCCAA
* * ** * *
495 CCAAAGACCTTCGAGTTCAATTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTC
1 CCAAAGACCTTCGAGTTCAATTACACTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGC
* *
560 TAGAAGGGTTGTCTGCT-AACAAAAGACCTTTGAGTTCGACTACATTCAGCT-CAACGGCACAAC
66 TAGAAGGGTTATCTG-TGAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCCAA-GGCACAAC
* * ** * *
623 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTATATTCA
129 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
688 ACTTAGA-GGCAAATCAAGCTTACAGAATAGCTCAAAGACAAGAAGGGTTATCTG
194 ACTTAGAGGGCAAATC-A-CTTACAGAATAACT-AAAGACAAGAAGGGTTATCTG
742 TCAATAAAAT
Statistics
Matches: 208, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
248 14 0.07
249 165 0.79
250 11 0.05
251 18 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (249 bp):
CCAAAGACCTTCGAGTTCAATTACACTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGC
TAGAAGGGTTATCTGTGAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACAACAT
TTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAAC
TTAGAGGGCAAATCACTTACAGAATAACTAAAGACAAGAAGGGTTATCTGCCAA
Found at i:2316 original size:5 final size:5
Alignment explanation
Indices: 2300--2331 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
2290 TTTATCTTTA
2300 TTATT ATTATT TTATT TTATT TTATT TTATT T
1 TTATT -TTATT TTATT TTATT TTATT TTATT T
2332 CTTATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:2323 original size:30 final size:30
Alignment explanation
Indices: 2289--2346 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2279 AATTTAATCC
2289 TTTTATCTTTA-TTATTATTATTTTATTTTA
1 TTTTAT-TTTATTTATTATTATTTTATTTTA
* *
2319 TTTTATTTTATTTCTTATTTTTTTATTT
1 TTTTATTTTATTTATTATTATTTTATTT
2347 ATACGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTATTTTATTTATTATTATTTTATTTTA
Found at i:2324 original size:15 final size:16
Alignment explanation
Indices: 2300--2346 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
2290 TTTATCTTTA
2300 TTATTATTATTTTATT
1 TTATTATTATTTTATT
2316 TTATT-TTATTTTA-T
1 TTATTATTATTTTATT
* *
2330 TTCTTATTTTTTTATT
1 TTATTATTATTTTATT
2346 T
1 T
2347 ATACGATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 15 0.56
16 7 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTATTATTTTATT
Found at i:2416 original size:14 final size:14
Alignment explanation
Indices: 2399--2446 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
2389 AATCATTTTA
2399 TTATTTTTATT-TCT
1 TTATTTTTATTAT-T
2413 TTATTTTTATTATT
1 TTATTTTTATTATT
2427 TTATTTCTT-TTATT
1 TTATTT-TTATTATT
2441 TCTATT
1 T-TATT
2447 ACTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTTATTATT
Found at i:2424 original size:23 final size:23
Alignment explanation
Indices: 2376--2447 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
2366 TATATATATA
*
2376 TATTTTATTT-TTTAATCATTTTAT
1 TATTTTATTTCTTTTAT--TTTTAT
2400 TATTTTTATTTC-TTTATTTTTAT
1 TA-TTTTATTTCTTTTATTTTTAT
*
2423 TATTTTATTTCTTTTATTTCTAT
1 TATTTTATTTCTTTTATTTTTAT
2446 TA
1 TA
2448 CTTTGTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.21
23 20 0.47
24 2 0.05
25 12 0.28
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (23 bp):
TATTTTATTTCTTTTATTTTTAT
Found at i:2431 original size:31 final size:33
Alignment explanation
Indices: 2379--2443 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 33
2369 ATATATATAT
2379 TTTATTTTTTAATCATTTTATTAT-TTTTATTTC
1 TTTATTTTTTAATCATTTTATT-TCTTTTATTTC
*
2412 TTTA-TTTTT-ATTATTTTATTTCTTTTATTTC
1 TTTATTTTTTAATCATTTTATTTCTTTTATTTC
2443 T
1 T
2444 ATTACTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 1 0.03
31 20 0.67
32 5 0.17
33 4 0.13
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTATTTTTTAATCATTTTATTTCTTTTATTTC
Found at i:2437 original size:17 final size:16
Alignment explanation
Indices: 2376--2440 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
2366 TATATATATA
*
2376 TATTTTATTTTTTAAT
1 TATTTTATTTTTTTAT
*
2392 CATTTTATTATTTTTAT
1 TATTTTATT-TTTTTAT
2409 T-TCTTTA--TTTTTAT
1 TAT-TTTATTTTTTTAT
2423 TATTTTATTTCTTTTAT
1 TATTTTATTT-TTTTAT
2440 T
1 T
2441 TCTATTACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 10 0.25
17 17 0.43
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTATTTTTTTAT
Found at i:2470 original size:2 final size:2
Alignment explanation
Indices: 2463--2511 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2453 TTTATACGTG
2463 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2505 TA TA TA T
1 TA TA TA T
2512 TATTTTTCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2587 original size:23 final size:21
Alignment explanation
Indices: 2557--2613 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
2547 CTCTCTTTTA
2557 TTTA-TTTAATTTATTTAATTT
1 TTTATTTTAATTTATTT-ATTT
2578 TTTATCTTT-ATTGTATTTATTT
1 TTTAT-TTTAATT-TATTTATTT
2600 TTTATTTCTAATTT
1 TTTATTT-TAATTT
2614 CTAGTTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 6 0.19
22 14 0.45
23 11 0.35
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTTTAATTTATTTATTT
Found at i:2644 original size:10 final size:9
Alignment explanation
Indices: 2625--2667 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 9
2615 TAGTTTCTAG
2625 TTTTTATTT
1 TTTTTATTT
2634 TTTTTACTTT
1 TTTTTA-TTT
2644 TTTTTATTAT
1 TTTTTATT-T
2654 ATATTTTATTT
1 -T-TTTTATTT
2665 TTT
1 TTT
2668 CCCTTGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 10 0.33
10 11 0.37
11 2 0.07
12 7 0.23
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:2743 original size:5 final size:5
Alignment explanation
Indices: 2733--2828 Score: 90
Period size: 5 Copynumber: 19.0 Consensus size: 5
2723 ATTTAAATTC
* * *
2733 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -CTTT ATCTT ATCTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* *
2782 A-TTT ATTTC ATTTCT TTTTT AATTGTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTT-T ATTTT -A-T-TTT ATTTT ATTTT ATTTT ATTTT
2829 CATTACTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
4 10 0.13
5 57 0.75
6 4 0.05
7 2 0.03
8 3 0.04
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:2786 original size:14 final size:14
Alignment explanation
Indices: 2735--2828 Score: 86
Period size: 14 Copynumber: 6.6 Consensus size: 14
2725 TTAAATTCAT
2735 TTTATTTTATTTTA
1 TTTATTTTATTTTA
2749 TTTTATTTTATTTTA
1 -TTTATTTTATTTTA
*
2764 TTT-TCTTTATCTTA
1 TTTAT-TTTATTTTA
*
2778 TCTTA-TTTATTTCA
1 T-TTATTTTATTTTA
* *
2792 TTTCTTTT-TTAATTG
1 TTTATTTTATT--TTA
2807 TTTATTTTATTTTA
1 TTTATTTTATTTTA
2821 TTTATTTT
1 TTTATTTT
2829 CATTACTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.08
14 33 0.52
15 24 0.38
16 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:3996 original size:18 final size:18
Alignment explanation
Indices: 3969--4016 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
3959 TAAATCACAC
3969 ATAT-TTATATGTTATAT
1 ATATATTATATGTTATAT
* *
3986 ATATATTATATATTGTAT
1 ATATATTATATGTTATAT
*
4004 AAATATTAT-TGTT
1 ATATATTATATGTT
4017 TTAGTAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATATTATATGTTATAT
Found at i:5167 original size:17 final size:17
Alignment explanation
Indices: 5147--5184 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5137 ATATTACGCT
5147 TTATTA-TATATATATTA
1 TTATTATTAT-TATATTA
*
5164 TTATTGTTATTATATTA
1 TTATTATTATTATATTA
5181 TTAT
1 TTAT
5185 ACGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:5261 original size:18 final size:17
Alignment explanation
Indices: 5230--5291 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
5220 TTTACCATTT
5230 TTATTTTTATTATTATTA
1 TTATTTTTA-TATTATTA
**
5248 TTATTCTTTATATTATCC
1 TTATT-TTTATATTATTA
*
5266 TTATTATTTCTATTATTA
1 TTATT-TTTATATTATTA
*
5284 CTATTTTT
1 TTATTTTT
5292 TTTTTGTGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.08
18 29 0.81
19 4 0.11
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTATATTATTA
Found at i:17361 original size:105 final size:105
Alignment explanation
Indices: 17176--17741 Score: 970
Period size: 105 Copynumber: 5.4 Consensus size: 105
17166 AGGTTTTACC
17176 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
17241 ACGAAGGGACAGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
17281 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
17346 ACGAAGGGACCGCTGGTTGCCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
17386 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
17451 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
17491 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
17556 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
17596 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * ** * * *
17661 ACGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* ** *
17702 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
17742 GGAACAATGC
Statistics
Matches: 441, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
105 397 0.90
106 44 0.10
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:19544 original size:18 final size:17
Alignment explanation
Indices: 19513--19574 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
19503 TTTACCATTT
19513 TTATTTTTATTATTATCA
1 TTATTTTTA-TATTATCA
*
19531 TTATTCTTTATATTATCC
1 TTATT-TTTATATTATCA
* *
19549 TTATTATTTCTATTATTA
1 TTATT-TTTATATTATCA
*
19567 CTATTTTT
1 TTATTTTT
19575 TTTTGTGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 3 0.08
18 30 0.81
19 4 0.11
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTTTATATTATCA
Found at i:21252 original size:15 final size:15
Alignment explanation
Indices: 21232--21275 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
21222 ATGTTCATAA
21232 ATTTTATTATATATT
1 ATTTTATTATATATT
21247 ATTTTATTA-A-ATT
1 ATTTTATTATATATT
21260 ATAATTTATTATATAT
1 AT--TTTATTATATAT
21276 ATAAATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.20
14 1 0.04
15 16 0.64
16 1 0.04
17 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTATTATATATT
Found at i:25873 original size:50 final size:51
Alignment explanation
Indices: 25814--25934 Score: 154
Period size: 52 Copynumber: 2.4 Consensus size: 51
25804 TAATTGGCAG
* * * *
25814 TGCCAAGTGAGATATATATATATATATATAT-ATGTTTATTTGAAATGACA
1 TGCCAAGTGATATATATATATATATATATATCATGTATACTTGAAATGAAA
* * *
25864 TGCCAAGTGATATAAATATATATGTATGTATGCATGTATACTTGAAATGAAA
1 TGCCAAGTGATATATATATATATATATATAT-CATGTATACTTGAAATGAAA
*
25916 TGTCAAGTGATATATATAT
1 TGCCAAGTGATATATATAT
25935 GTACATTTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
50 27 0.45
52 33 0.55
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (51 bp):
TGCCAAGTGATATATATATATATATATATATCATGTATACTTGAAATGAAA
Found at i:30435 original size:95 final size:94
Alignment explanation
Indices: 30212--30436 Score: 299
Period size: 95 Copynumber: 2.4 Consensus size: 94
30202 TACCAACGAG
* * * * *
30212 GTAGTGTCGATACCATTGTAAGGGTATCGATACCAAGTCACATCGAATCTAAAATGGGTATCAAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATA-CTAGTAACATCGAATCAAAAATGGGTATCAAT
30277 ACAGGAAGGGGGTATCAATACCATAATATA
65 ACAGGAAGGGGGTATCAATACCATAATATA
* * * *
30307 GTAGTATTGATACCATGGTAAGGGTATCGATACTAGTAAACATTGAATCAAAAATTGGTATCGAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAGT-AACATCGAATCAAAAATGGGTATCAAT
* ** *
30372 ACTGGAAGGGGGTATCGGTACCATATTATA
65 ACAGGAAGGGGGTATCAATACCATAATATA
30402 GTAGTATCGATACCATGGT-AGAGGTATCGATACTA
1 GTAGTATCGATACCATGGTAAG-GGTATCGATACTA
30437 TAGAGCCAGA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
94 6 0.05
95 108 0.95
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (94 bp):
GTAGTATCGATACCATGGTAAGGGTATCGATACTAGTAACATCGAATCAAAAATGGGTATCAATA
CAGGAAGGGGGTATCAATACCATAATATA
Found at i:31190 original size:68 final size:68
Alignment explanation
Indices: 31080--31403 Score: 558
Period size: 68 Copynumber: 4.8 Consensus size: 68
31070 AAAAGATTAT
* * *
31080 AGGCCTAACTGTGCAAATGACATAAAGGTGTCATTTAGGCCAGTTAGATGAAAGGCCAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
31145 TTG
66 TTG
*
31148 AGGCCTAACTATGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
31213 TTG
66 TTG
*
31216 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGTTGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
31281 TTG
66 TTG
* * *
31284 AGGCCTAACTGTGCAAATGAAAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
31349 TTG
66 TTG
* *
31352 AGGCCTAACTGTGCAAATGACAGAAATGAGTCATTTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
31404 CAATTAAATA
Statistics
Matches: 244, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 244 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (68 bp):
AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:31491 original size:81 final size:81
Alignment explanation
Indices: 31353--31627 Score: 354
Period size: 81 Copynumber: 3.4 Consensus size: 81
31343 GTGCCTTTGA
* * * *
31353 GGCCTAACTGTGCAAATGACAGAAATGAGTCATTTATGCCAGTTAGATGAACAATTAAATACCGT
1 GGCCTAACTGTGCAATTGACAGAAATGTGTCATTTATGCCAGTTAGATGAACGATTAAATATCGT
*
31418 CGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
31434 GGCCTAACTATGCAATTGGCATAAACGTGTCATTTATGCCAGTTAGATGAACGATTAAATATCGT
1 GGCCTAACTGTGCAATTGACAGAAATGTGTCATTTATGCCAGTTAGATGAACGATTAAATATCGT
31499 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * *
31515 GGCCTAACTGTGTAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAATGGTTAAACATTGT
1 GGCCTAACTGTGCAATTGACAGAAATGTGTCATTTATGCCAGTTAGATGAACGATTAAATATCGT
31580 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * *
31596 GGATTAGCTGTGCATTTGACAGGAAA-GTGTCA
1 GGCCTAACTGTGCAATTGACA-GAAATGTGTCA
31628 AATATGTAAG
Statistics
Matches: 168, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 164 0.98
82 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGACAGAAATGTGTCATTTATGCCAGTTAGATGAACGATTAAATATCGT
TGAGTAAAAGAATAAT
Found at i:31657 original size:162 final size:161
Alignment explanation
Indices: 31353--31674 Score: 360
Period size: 162 Copynumber: 2.0 Consensus size: 161
31343 GTGCCTTTGA
* *
31353 GGCCTAACTGTGCAAATGACAGAAATGAGTCATTTATGCCAGTTAGATGAACAATTAAATACCGT
1 GGCCTAACTGTGCAAATGACAGAAATGAGTCAATTATGCCAGTTAGATGAACAATTAAACACCGT
* * * ** * *
31418 CGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCATAAACGTGTCATTTATGCCAGTTAGATG
66 CGAGTAAAAGAATAATGGACTAACTATGCAATTGACAGAAACGTGTCAAATATGCAAGTTAAATG
*
31483 AACGATTAAATATCGTTGAGTAAAAGAATAAT
131 AACAATTAAATATCGTTGAGT-AAAGAATAAT
* * * * *** **
31515 GGCCTAACTGTGTAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAATGGTTAAACATTGT
1 GGCCTAACTGTGCAAATGACAGAAATGAGTCAATTATGCCAGTTAGATGAACAATTAAACACCGT
* * * * * *
31580 TGAGTAAAAGAATAATGGATTAGCTGTGCATTTGACAGGAAA-GTGTCAAATATGTAAGTTAAAT
66 CGAGTAAAAGAATAATGGACTAACTATGCAATTGACA-GAAACGTGTCAAATATGCAAGTTAAAT
* *
31644 GAA-AATCTAAATATCTTTGTGTAAAGAATAA
130 GAACAAT-TAAATATCGTTGAGTAAAGAATAA
31675 AGGAATTATA
Statistics
Matches: 131, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
161 11 0.08
162 117 0.89
163 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (161 bp):
GGCCTAACTGTGCAAATGACAGAAATGAGTCAATTATGCCAGTTAGATGAACAATTAAACACCGT
CGAGTAAAAGAATAATGGACTAACTATGCAATTGACAGAAACGTGTCAAATATGCAAGTTAAATG
AACAATTAAATATCGTTGAGTAAAGAATAAT
Found at i:31668 original size:81 final size:81
Alignment explanation
Indices: 31356--31674 Score: 259
Period size: 81 Copynumber: 4.0 Consensus size: 81
31346 CCTTTGAGGC
* * ** ** * * * * *
31356 CTAACTGTGCAAATGACAGAAATGAGTCATTTATGCCAGTTAGATGAACAATTAAATACCGTCGA
1 CTAACTGTGCAATTGACAGAAATGTGTCAAATATGTAAGTTAAATGAATAATTAAATATCTTTGA
*
31421 GTAAAAGAATAATGGC
66 GTAAAAGAATAATGGA
* * * * ** ** * ** *
31437 CTAACTATGCAATTGGCATAAACGTGTCATTTATGCCAGTTAGATGAACGATTAAATATCGTTGA
1 CTAACTGTGCAATTGACAGAAATGTGTCAAATATGTAAGTTAAATGAATAATTAAATATCTTTGA
*
31502 GTAAAAGAATAATGGC
66 GTAAAAGAATAATGGA
* * * * ** *
31518 CTAACTGTGTAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAATGGTTAAACAT-TGTTG
1 CTAACTGTGCAATTGACAGAAATGTGTCAAATATGTAAGTTAAATGAATAATTAAATATCT-TTG
31582 AGTAAAAGAATAATGGA
65 AGTAAAAGAATAATGGA
* * *
31599 TTAGCTGTGCATTTGACAGGAAA-GTGTCAAATATGTAAGTTAAATGAA-AATCTAAATATCTTT
1 CTAACTGTGCAATTGACA-GAAATGTGTCAAATATGTAAGTTAAATGAATAAT-TAAATATCTTT
*
31662 GTGT-AAAGAATAA
64 GAGTAAAAGAATAA
31675 AGGAATTATA
Statistics
Matches: 202, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
80 10 0.05
81 187 0.93
82 5 0.02
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (81 bp):
CTAACTGTGCAATTGACAGAAATGTGTCAAATATGTAAGTTAAATGAATAATTAAATATCTTTGA
GTAAAAGAATAATGGA
Found at i:31735 original size:2 final size:2
Alignment explanation
Indices: 31728--31758 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31718 TGAAGGGATG
31728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31759 ATGTTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31874 original size:46 final size:46
Alignment explanation
Indices: 31824--32126 Score: 480
Period size: 46 Copynumber: 6.6 Consensus size: 46
31814 AGAACATAAT
*
31824 AGGCATGAAAGGATGCCATAATTAAAATGCAAGAAAGGATGCATTA
1 AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
* * *
31870 AGGCATGAAAAGATGTCATAATTAAAATTCATGAAAGGATGCATTA
1 AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
* * *
31916 AGGAATGAAAGGATGTCATAATTAAAATGCATGAAATGATGCATTA
1 AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
*
31962 AGGCATGAAAGGATGCCATAATTAAGATGCATGAAAGGATGCATTA
1 AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
*
32008 AGGCATGAAAGGATGCCATAATTAAGATGCATGAAAGGATGCATTA
1 AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
* * *
32054 AGGCATGAAAGGTTTCCATAATTAAGATGCATGAAAGGATGCATTA
1 AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
*
32100 AGGTATGAAAGGATGCCATAAATTAAA
1 AGGCATGAAAGGATGCCAT-AATTAAA
32127 TGTATAAATG
Statistics
Matches: 238, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 232 0.97
47 6 0.03
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (46 bp):
AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
Found at i:32004 original size:12 final size:12
Alignment explanation
Indices: 31964--32051 Score: 53
Period size: 12 Copynumber: 7.3 Consensus size: 12
31954 ATGCATTAAG
31964 GCATGAAAGGAT
1 GCATGAAAGGAT
*
31976 GCCAT-AATTAAGAT
1 G-CATGAA--AGGAT
31990 GCATGAAAGGAT
1 GCATGAAAGGAT
*
32002 GCAT-TAA-G--
1 GCATGAAAGGAT
32010 GCATGAAAGGAT
1 GCATGAAAGGAT
*
32022 GCCAT-AATTAAGAT
1 G-CATGAA--AGGAT
32036 GCATGAAAGGAT
1 GCATGAAAGGAT
32048 GCAT
1 GCAT
32052 TAAGGCATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
8 4 0.07
9 2 0.03
10 2 0.03
11 2 0.03
12 22 0.38
13 12 0.21
14 14 0.24
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (12 bp):
GCATGAAAGGAT
Found at i:32087 original size:26 final size:25
Alignment explanation
Indices: 31964--32091 Score: 105
Period size: 26 Copynumber: 5.4 Consensus size: 25
31954 ATGCATTAAG
*
31964 GCATGAAAGGATGCCATAATTAAGAT
1 GCATGAAAGG-TTCCATAATTAAGAT
* *
31990 GCATGAAAGGATGC---ATTAAG--
1 GCATGAAAGGTTCCATAATTAAGAT
*
32010 GCATGAAAGGATGCCATAATTAAGAT
1 GCATGAAAGG-TTCCATAATTAAGAT
* *
32036 GCATGAAAGGATGC---ATTAAG--
1 GCATGAAAGGTTCCATAATTAAGAT
32056 GCATGAAAGGTTTCCATAATTAAGAT
1 GCATGAAAGG-TTCCATAATTAAGAT
32082 GCATGAAAGG
1 GCATGAAAGG
32092 ATGCATTAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
20 20 0.25
21 3 0.04
22 12 0.15
24 12 0.15
25 2 0.03
26 30 0.38
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.23
Consensus pattern (25 bp):
GCATGAAAGGTTCCATAATTAAGAT
Found at i:35196 original size:17 final size:16
Alignment explanation
Indices: 35151--35199 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
35141 CTATATATAT
* *
35151 ATTTTTAATTATATTT
1 ATTTTTTATTATATTC
35167 ATTTATTTATTATATTC
1 ATTT-TTTATTATATTC
*
35184 CTTTTTTATTTATATT
1 ATTTTTTA-TTATATT
35200 ATATATATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTTATTATATTC
Found at i:35367 original size:31 final size:31
Alignment explanation
Indices: 35326--35467 Score: 93
Period size: 31 Copynumber: 4.7 Consensus size: 31
35316 TATTTTCTTA
*
35326 ATATTCTATTTTTATTTTTATTTATTTATAT
1 ATATTATATTTTTATTTTTATTTATTTATAT
* * *
35357 ATATTATATTTTTA-CTTTATTTTATTTTTTT
1 ATATTATATTTTTATTTTTA-TTTATTTATAT
* * * * *
35388 ATATTAT-TTTTT-TCTTAATATA-ATGTAT
1 ATATTATATTTTTATTTTTATTTATTTATAT
* * *
35416 ATCTT-TATTTTTATTTGT-TTTACTTAGTAT
1 ATATTATATTTTTATTTTTATTTATTTA-TAT
35446 -TA-TATATTTATTATTTTTATTT
1 ATATTATATTT-TTATTTTTATTT
35468 GTTTTAGTAA
Statistics
Matches: 84, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
27 1 0.01
28 16 0.19
29 12 0.14
30 23 0.27
31 32 0.38
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (31 bp):
ATATTATATTTTTATTTTTATTTATTTATAT
Found at i:35401 original size:79 final size:82
Alignment explanation
Indices: 35304--35473 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 82
35294 ATTTTATACG
35304 TTTTTATATATATATTTTCTTAATAT-TCTAT-T-TTTATTTTTATTTATTTATA-TA-TATTAT
1 TTTTTATATATATATTTTCTTAATATATCTATATCTTTATTTTTATTTATTT-TACTAGTATTAT
*
35364 ATTTTTACTT-TATTTTATT
65 ATATTTA-TTAT-TTTTATT
* * *
35383 TTTTTATAT-TATTTTTTTCTTAATATAATGTATATCTTTATTTTTATTTGTTTTACTTAGTATT
1 TTTTTATATATA-TATTTTCTTAATAT-ATCTATATCTTTATTTTTATTTATTTTAC-TAGTATT
35447 ATATATTTATTATTTTTATT
63 ATATATTTATTATTTTTATT
35467 TGTTTTA
1 T-TTTTA
35474 GTAAATACTA
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
78 2 0.03
79 22 0.29
81 4 0.05
82 3 0.04
83 16 0.21
84 12 0.16
85 18 0.23
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (82 bp):
TTTTTATATATATATTTTCTTAATATATCTATATCTTTATTTTTATTTATTTTACTAGTATTATA
TATTTATTATTTTTATT
Found at i:35430 original size:35 final size:36
Alignment explanation
Indices: 35391--35473 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
35381 TTTTTTTATA
*
35391 TTATTT-TTTT-CTTAATATAATGTATATCT-TTATTT
1 TTATTTGTTTTACTTAATAT--TATATATCTATTATTT
* *
35426 TTATTTGTTTTACTTAGTATTATATATTTATTATTT
1 TTATTTGTTTTACTTAATATTATATATCTATTATTT
35462 TTATTTGTTTTA
1 TTATTTGTTTTA
35474 GTAAATACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 13 0.31
36 22 0.52
37 7 0.17
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (36 bp):
TTATTTGTTTTACTTAATATTATATATCTATTATTT
Found at i:40211 original size:21 final size:21
Alignment explanation
Indices: 40186--40240 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
40176 GGCTTGACAT
* *
40186 GGTAGGTAACTAGGTATGTG-
1 GGTAGGTAGCTAGGTAAGTGA
*
40206 GTGTAGCTAGCTAGGTAAGTGA
1 G-GTAGGTAGCTAGGTAAGTGA
40228 GGTAGGTAGCTAG
1 GGTAGGTAGCTAG
40241 ATACCTAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.40, T:0.27
Consensus pattern (21 bp):
GGTAGGTAGCTAGGTAAGTGA
Found at i:40671 original size:20 final size:19
Alignment explanation
Indices: 40635--40674 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
40625 AATAAAGATG
**
40635 TGATAACATATGTTATGCA
1 TGATAACATATAATATGCA
40654 TGATAACCATATAATATGCA
1 TGATAA-CATATAATATGCA
40674 T
1 T
40675 ATCATATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
TGATAACATATAATATGCA
Found at i:45530 original size:32 final size:32
Alignment explanation
Indices: 45489--45563 Score: 150
Period size: 32 Copynumber: 2.3 Consensus size: 32
45479 AATGAATAAA
45489 ATATATATATAACGGTAAAATACATAATATAT
1 ATATATATATAACGGTAAAATACATAATATAT
45521 ATATATATATAACGGTAAAATACATAATATAT
1 ATATATATATAACGGTAAAATACATAATATAT
45553 ATATATATATA
1 ATATATATATA
45564 TATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (32 bp):
ATATATATATAACGGTAAAATACATAATATAT
Found at i:45554 original size:2 final size:2
Alignment explanation
Indices: 45547--45590 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
45537 AAAATACATA
*
45547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45588 AT A
1 AT A
45591 ACGGTAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46108 original size:33 final size:33
Alignment explanation
Indices: 46066--46136 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
46056 AAAGCAGAGG
46066 AGCCTGCAGTAAGGTCTTACAAGTCATAGACTA
1 AGCCTGCAGTAAGGTCTTACAAGTCATAGACTA
46099 AGCCTGCAGTAAGGTCTTACAAGTCATAGACTA
1 AGCCTGCAGTAAGGTCTTACAAGTCATAGACTA
46132 AGCCT
1 AGCCT
46137 AAGATACTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (33 bp):
AGCCTGCAGTAAGGTCTTACAAGTCATAGACTA
Found at i:48238 original size:16 final size:15
Alignment explanation
Indices: 48211--48242 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
48201 ATTATATATC
48211 TCTATTTTATCTTTA
1 TCTATTTTATCTTTA
48226 TCTATTCTTATCTTTA
1 TCTATT-TTATCTTTA
48242 T
1 T
48243 TTGATCCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (15 bp):
TCTATTTTATCTTTA
Found at i:48595 original size:21 final size:21
Alignment explanation
Indices: 48571--48610 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48561 AGTTCATCGT
**
48571 TTTCAGTTTCTTTTCAATTTA
1 TTTCAGTTTAGTTTCAATTTA
48592 TTTCAGTTTAGTTTCAATT
1 TTTCAGTTTAGTTTCAATT
48611 CCTTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTCAGTTTAGTTTCAATTTA
Found at i:50281 original size:21 final size:21
Alignment explanation
Indices: 50217--50283 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
50207 TTTCAGAGAC
*
50217 ACTTACCAAGGTATTTCATCT
1 ACTTACCAAGGTAATTCATCT
* * *
50238 AATTACCAAGGTACTTCTTCT
1 ACTTACCAAGGTAATTCATCT
50259 ACTTACCAAGGTAATTCATCT
1 ACTTACCAAGGTAATTCATCT
50280 ACTT
1 ACTT
50284 CCACTTATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (21 bp):
ACTTACCAAGGTAATTCATCT
Found at i:50297 original size:42 final size:42
Alignment explanation
Indices: 50217--50300 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
50207 TTTCAGAGAC
* *
50217 ACTTACCAAGGTATTTCATCTAATTACCAAGGTACTTCTTCT
1 ACTTACCAAGGTAATTCATCTAATTACCAACGTACTTCTTCT
* *
50259 ACTTACCAAGGTAATTCATCTACTT-CC-ACTTA-TTCTTCT
1 ACTTACCAAGGTAATTCATCTAATTACCAACGTACTTCTTCT
50298 ACT
1 ACT
50301 CCACTTTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 10 0.26
40 3 0.08
41 2 0.05
42 23 0.61
ACGTcount: A:0.27, C:0.26, G:0.07, T:0.39
Consensus pattern (42 bp):
ACTTACCAAGGTAATTCATCTAATTACCAACGTACTTCTTCT
Found at i:50305 original size:17 final size:18
Alignment explanation
Indices: 50272--50306 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50262 TACCAAGGTA
50272 ATTCATCTACTTCCACTT
1 ATTCATCTACTTCCACTT
*
50290 ATTCTTCTAC-TCCACTT
1 ATTCATCTACTTCCACTT
50307 TCTACCACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCATCTACTTCCACTT
Found at i:57518 original size:20 final size:20
Alignment explanation
Indices: 57493--57531 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
57483 CCACTATTTT
57493 TACAAGTTTCAAAACTCTTA
1 TACAAGTTTCAAAACTCTTA
*
57513 TACAAGTTTCGAAACTCTT
1 TACAAGTTTCAAAACTCTT
57532 TGTCAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (20 bp):
TACAAGTTTCAAAACTCTTA
Found at i:58414 original size:3 final size:3
Alignment explanation
Indices: 58401--58489 Score: 133
Period size: 3 Copynumber: 29.7 Consensus size: 3
58391 AAGATACTAA
* * *
58401 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
58449 TAT TAT TGT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
58490 AATATATTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:59864 original size:20 final size:21
Alignment explanation
Indices: 59818--59864 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
59808 CTGCTTTTAA
*
59818 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
59839 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
59858 ATATATT
1 ATATATT
59865 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:59942 original size:23 final size:24
Alignment explanation
Indices: 59908--59953 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
59898 TATATATGAT
59908 AAATAATAA-TTT-ATATTTTTTA
1 AAATAATAATTTTAATATTTTTTA
*
59930 AAATAAATTATTTTAATATTTTTT
1 AAAT-AATAATTTTAATATTTTTT
59954 CAATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 3 0.15
25 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AAATAATAATTTTAATATTTTTTA
Found at i:60651 original size:18 final size:18
Alignment explanation
Indices: 60604--60652 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
60594 CTTTTCATTC
60604 TTTTTA-TTTATTTATTA
1 TTTTTATTTTATTTATTA
**
60621 TTTTTATAATATTTA-TA
1 TTTTTATTTTATTTATTA
60638 TGTTTTATTTTATTT
1 T-TTTTATTTTATTT
60653 GCAAGTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTATTTATTA
Found at i:60674 original size:13 final size:15
Alignment explanation
Indices: 60643--60679 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
60633 TTATATGTTT
60643 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
60658 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
60671 TA-TTTATTT
1 TATTTTATTT
60680 TTCTGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:71322 original size:20 final size:19
Alignment explanation
Indices: 71277--71329 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
71267 TATTATGCTT
*
71277 GAAGAGAATAGAAAAAAAAA
1 GAAGAAAAT-GAAAAAAAAA
71297 -ATAGAAAATGAAAAAAAAGA
1 GA-AGAAAATGAAAAAAAA-A
*
71317 GAAGAAAAAGAAA
1 GAAGAAAATGAAA
71330 GGGGGTCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 10 0.36
20 17 0.61
21 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (19 bp):
GAAGAAAATGAAAAAAAAA
Found at i:73496 original size:83 final size:83
Alignment explanation
Indices: 72363--73492 Score: 1759
Period size: 83 Copynumber: 13.6 Consensus size: 83
72353 CATTAACTGA
* * * * * **
72363 AAGATGAGTTTGCTCATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTAATCTGG-TCGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
*
72427 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTGG
* * * ** *
72446 AAGATGAGTTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TCGGATAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
*
72510 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTGG
* *
72529 AAGATGAGTTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
72594 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* *
72612 AAGATAAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
72677 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
72695 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
*
72760 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTGG
* *
72778 AAGATAAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
72843 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* *
72861 AAGATAAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
72926 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
72944 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
*
73009 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTGG
* *
73027 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
*
73092 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTGG
* * *
73110 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
*
73174 AATCAATCATTGAATTTGG
65 AACCAATCATTGAATTTGG
* * *
73193 AAGATAAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTT-GACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
*
73257 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTGG
* * *
73276 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
*
73340 AATCAATCATTGAATTTGG
65 AACCAATCATTGAATTTGG
* * *
73359 AAGATAAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTT-GACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAG
*
73423 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTGG
*
73442 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
73493 TCTGTTTTGG
Statistics
Matches: 992, Mismatches: 50, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
82 5 0.01
83 981 0.99
84 6 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
ACCAATCATTGAATTTGG
Found at i:74309 original size:114 final size:114
Alignment explanation
Indices: 74182--74822 Score: 1158
Period size: 114 Copynumber: 5.6 Consensus size: 114
74172 GCCAGGTAGA
*
74182 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
74247 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
66 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
74296 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
74361 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
66 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
*
74410 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
74475 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
66 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
74524 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* *
74589 ACCTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAA
66 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
74638 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * * * *
74703 ACCTTTTACTTGAATCCATC-ATTTGATGGATCAGCTTTTCCAGAGAAA
66 ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
* *
74751 GTTCATAATGAGAAGTACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
*
74816 ACTTTTT
66 ACCTTTT
74823 GCATAATTCT
Statistics
Matches: 514, Mismatches: 13, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
113 94 0.18
114 420 0.82
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (114 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG
Found at i:75141 original size:3 final size:3
Alignment explanation
Indices: 75129--75212 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
75119 AAGATACTAA
*
75129 TAT T-T TAT TAT TAT TAT TAT TAT TA- TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
75175 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
75213 AATATATTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.05
3 71 0.95
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:76585 original size:20 final size:21
Alignment explanation
Indices: 76539--76585 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
76529 CTACTTTTAA
*
76539 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
76560 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
76579 ATATATT
1 ATATATT
76586 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:82609 original size:23 final size:23
Alignment explanation
Indices: 82583--82643 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
82573 GGTATACCCA
*
82583 AACTAGATAGCTAATGACACTTC
1 AACTACATAGCTAATGACACTTC
*
82606 AACTACTTAGCTAATGACACTTC
1 AACTACATAGCTAATGACACTTC
82629 AACTAC-TCAGCTAAT
1 AACTACAT-AGCTAAT
82644 ATCTCAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (23 bp):
AACTACATAGCTAATGACACTTC
Found at i:82655 original size:20 final size:23
Alignment explanation
Indices: 82591--82643 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
82581 CAAACTAGAT
*
82591 AGCTAATGACACTTCAACTACTT
1 AGCTAATGACACTTCAACTACTC
82614 AGCTAATGACACTTCAACTACTC
1 AGCTAATGACACTTCAACTACTC
82637 AGCTAAT
1 AGCTAAT
82644 ATCTCAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.28
Consensus pattern (23 bp):
AGCTAATGACACTTCAACTACTC
Found at i:82948 original size:19 final size:21
Alignment explanation
Indices: 82918--82979 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
82908 CCTATAATGA
*
82918 ATACATA-AATGAGCTAAGA-
1 ATACATAGCATGAGCTAAGAT
*
82937 ATGA-AT-GCATGAGCTAACAT
1 AT-ACATAGCATGAGCTAAGAT
82957 ATACATAGCATGAGCTAAG-T
1 ATACATAGCATGAGCTAAGAT
82977 ATA
1 ATA
82980 AAAATGTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
19 15 0.43
20 9 0.26
21 11 0.31
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (21 bp):
ATACATAGCATGAGCTAAGAT
Found at i:83292 original size:18 final size:18
Alignment explanation
Indices: 83268--83309 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
83258 CATATAGGCA
*
83268 AAAATAACCAAAATATCC
1 AAAATAACCAAAACATCC
*
83286 TAAATAACCAAAACATCC
1 AAAATAACCAAAACATCC
83304 AAAATA
1 AAAATA
83310 TGAAGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAACCAAAACATCC
Found at i:85369 original size:22 final size:22
Alignment explanation
Indices: 85341--85382 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
85331 ATGTGAAATC
85341 TATGTCCCAAAGGACCTATGCA
1 TATGTCCCAAAGGACCTATGCA
85363 TATGTCCCAAAGGACCTATG
1 TATGTCCCAAAGGACCTATG
85383 TAACCCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (22 bp):
TATGTCCCAAAGGACCTATGCA
Found at i:85653 original size:19 final size:19
Alignment explanation
Indices: 85613--85656 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
85603 TGTTCACATT
* *
85613 AATCATATAGCATGTATCA
1 AATCATATAACATATATCA
85632 AATCATATAAACATATAT-A
1 AATCATAT-AACATATATCA
85651 AATCAT
1 AATCAT
85657 GCAGGTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (19 bp):
AATCATATAACATATATCA
Found at i:87937 original size:18 final size:18
Alignment explanation
Indices: 87914--87960 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
87904 CCCTAGTTGT
87914 AGTATCGATACCAGTACA
1 AGTATCGATACCAGTACA
87932 AGTATCGATACCAGTACA
1 AGTATCGATACCAGTACA
87950 AGTATCGATAC
1 AGTATCGATAC
87961 TCATTTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (18 bp):
AGTATCGATACCAGTACA
Found at i:88805 original size:13 final size:13
Alignment explanation
Indices: 88787--88811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88777 TACTAAAAAG
88787 AAAATTTCCTCAC
1 AAAATTTCCTCAC
88800 AAAATTTCCTCA
1 AAAATTTCCTCA
88812 ATTAAATCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTCCTCAC
Found at i:95741 original size:145 final size:145
Alignment explanation
Indices: 95559--95846 Score: 576
Period size: 145 Copynumber: 2.0 Consensus size: 145
95549 TTAATAATAT
95559 TTTTTATTAAACTGAGTGATTACAAGATTATATTTTTTCTAAAGATTCTAAAATCATTTGATAAT
1 TTTTTATTAAACTGAGTGATTACAAGATTATATTTTTTCTAAAGATTCTAAAATCATTTGATAAT
95624 TAATGTGCTCAAACACCTCTGTTTATACATGTTGATGCTCAAACTTTAGACCTCTAAGAACAACA
66 TAATGTGCTCAAACACCTCTGTTTATACATGTTGATGCTCAAACTTTAGACCTCTAAGAACAACA
95689 ATCATCCCTTAATTA
131 ATCATCCCTTAATTA
95704 TTTTTATTAAACTGAGTGATTACAAGATTATATTTTTTCTAAAGATTCTAAAATCATTTGATAAT
1 TTTTTATTAAACTGAGTGATTACAAGATTATATTTTTTCTAAAGATTCTAAAATCATTTGATAAT
95769 TAATGTGCTCAAACACCTCTGTTTATACATGTTGATGCTCAAACTTTAGACCTCTAAGAACAACA
66 TAATGTGCTCAAACACCTCTGTTTATACATGTTGATGCTCAAACTTTAGACCTCTAAGAACAACA
95834 ATCATCCCTTAAT
131 ATCATCCCTTAAT
95847 CACTGGATAG
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 143 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (145 bp):
TTTTTATTAAACTGAGTGATTACAAGATTATATTTTTTCTAAAGATTCTAAAATCATTTGATAAT
TAATGTGCTCAAACACCTCTGTTTATACATGTTGATGCTCAAACTTTAGACCTCTAAGAACAACA
ATCATCCCTTAATTA
Found at i:97914 original size:30 final size:29
Alignment explanation
Indices: 97842--97916 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
97832 AAACATAAAT
*
97842 TTAAGGGATT-AAATAGCAAAAAAAAAAA
1 TTAAAGGATTAAAATAGCAAAAAAAAAAA
* ** * *
97870 TTAAAGTACCAAAATAGCACAAATAGAAAA
1 TTAAAGGATTAAAATAGCA-AAAAAAAAAA
97900 TTAAAGGATTAAAATAG
1 TTAAAGGATTAAAATAG
97917 AAATTAACAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 6 0.17
29 8 0.22
30 22 0.61
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (29 bp):
TTAAAGGATTAAAATAGCAAAAAAAAAAA
Found at i:98664 original size:46 final size:46
Alignment explanation
Indices: 98611--98700 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
98601 CGAAGACAAC
* *
98611 ACATCCCCGACTTACACCATGTCATCTAGGTAATTATAAATCCCCG
1 ACATCCCCGACATACACCATGGCATCTAGGTAATTATAAATCCCCG
*
98657 ACATCCCCGACATACACCATGGCATCTAGGTAATTATGAATCCC
1 ACATCCCCGACATACACCATGGCATCTAGGTAATTATAAATCCC
98701 TCCCTTTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.24
Consensus pattern (46 bp):
ACATCCCCGACATACACCATGGCATCTAGGTAATTATAAATCCCCG
Found at i:98870 original size:18 final size:18
Alignment explanation
Indices: 98847--98881 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
98837 GGAAGCGACG
98847 GCAGAGCACTTTGAGGCT
1 GCAGAGCACTTTGAGGCT
98865 GCAGAGCACTTTGAGGC
1 GCAGAGCACTTTGAGGC
98882 ACCCAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (18 bp):
GCAGAGCACTTTGAGGCT
Found at i:99088 original size:3 final size:3
Alignment explanation
Indices: 99080--99126 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
99070 AAATATATGT
99080 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
99127 TTTTTTAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:99795 original size:124 final size:124
Alignment explanation
Indices: 99575--100293 Score: 953
Period size: 124 Copynumber: 5.8 Consensus size: 124
99565 GTCGATATGT
* ** * * * * * *
99575 TGGGCACGATATCCTTCTTTGTGAAGTTGAAATCATGGGTTGCTCATTCATCGTGAAGTTGAGAT
1 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* *
99640 TTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTTCTTG
66 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTGCTTG
* * * * * *
99699 TGGGCACAATATCATTTGTCCTGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTAAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* *
99764 TTGAATTAGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTACTTG
66 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTGCTTG
* **
99823 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGCAAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* * * *
99888 TTGAATTGGATATCCTTTGTTATGAAGTTTAAATCCAATCTAGAGATGGATGCTGCTTG
66 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTGCTTG
** *
99947 TGGGCACGATATCCTTCGTTGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTAAGCT
1 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
*
100012 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATGT-TGTTTG
66 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGAT-TCTGCTTG
** * * * *
100071 TAAGCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCCTTCGTTATGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* * * * * * * *
100136 TTAAATTGGATATCCTTCGTCGTGAATTTGAAATCC-A---AGGGTTGTATGCTGCTTA
66 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTGCTTG
* * *
100191 TGGGCACGATATCCTTTGTCATGAAGTTAAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* *
100256 TTAAATTGGATATCCTTCGCTGTGAAGTTGAAATCCAA
66 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
100294 GTATTGTTTC
Statistics
Matches: 525, Mismatches: 67, Indels: 9
0.87 0.11 0.01
Matches are distributed among these distances:
120 100 0.19
121 1 0.00
123 1 0.00
124 423 0.81
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (124 bp):
TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATTCTGCTTG
Found at i:100427 original size:65 final size:63
Alignment explanation
Indices: 100252--100428 Score: 225
Period size: 65 Copynumber: 2.8 Consensus size: 63
100242 TGTGAAGTTG
* * * * *
100252 AGCTTTAAATTGGATATCCTTCGCTGTGAAGTTGAAATCCAAGT-A-T-TGTTTCACCAAATT
1 AGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATTGAGTAAGTTTCACCAAATT
* *
100312 GGCTTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAAATTTGAGTAAGTTTCACCAAATT
1 AGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCC-AA-TTGAGTAAGTTTCACCAAATT
*
100377 AGCTTTGAGTTGGATATCCATCGTTGTGAAGTTGAAATCCAATCTCGAGTAA
1 AGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAT-T-GAGTAA
100429 ATTGTGTTGT
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
60 35 0.35
61 2 0.02
62 1 0.01
63 2 0.02
64 4 0.04
65 56 0.56
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (63 bp):
AGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATTGAGTAAGTTTCACCAAATT
Found at i:102223 original size:18 final size:19
Alignment explanation
Indices: 102200--102248 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
102190 GATCAATCTT
102200 ATAATTTGAATCCCGAT-C
1 ATAATTTGAATCCCGATAC
102218 ATAATTTGAATCCCGATAC
1 ATAATTTGAATCCCGATAC
* *
102237 GTCATTTGAATC
1 ATAATTTGAATC
102249 GAGATAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (19 bp):
ATAATTTGAATCCCGATAC
Found at i:102331 original size:32 final size:31
Alignment explanation
Indices: 102290--102349 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
102280 TTTCTTTGCC
*
102290 TTTTCCTTTGTTTTTGTTTCTTTTTTTTTTA
1 TTTTCCTTTGTTTTTCTTTCTTTTTTTTTTA
*
102321 TTTTCTCTTTGTTTTTCTTTGTTTTTTTT
1 TTTTC-CTTTGTTTTTCTTTCTTTTTTTT
102350 CATTTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.82
Consensus pattern (31 bp):
TTTTCCTTTGTTTTTCTTTCTTTTTTTTTTA
Found at i:102338 original size:12 final size:10
Alignment explanation
Indices: 102278--102346 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
102268 CGTCTTGTCT
102278 TTTTTCTTTG
1 TTTTTCTTTG
*
102288 CCTTTTCCTTTG
1 --TTTTTCTTTG
* *
102300 TTTTTGTTTCT
1 TTTTTCTTT-G
* *
102311 TTTTTTTTTA
1 TTTTTCTTTG
102321 TTTTCTCTTTG
1 TTTT-TCTTTG
102332 TTTTTCTTTG
1 TTTTTCTTTG
102342 TTTTT
1 TTTTT
102347 TTTCATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
10 22 0.47
11 16 0.34
12 9 0.19
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTG
Found at i:102369 original size:41 final size:42
Alignment explanation
Indices: 102290--102371 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
102280 TTTCTTTGCC
* ** *
102290 TTTTCCTTTGTTTTTGTTTCTTTTTTTTTTATTTTCTCTTTG
1 TTTTCCTTTGTTTTTGTTTCATTTTTGATTATTCTCTCTTTG
* *
102332 TTTTTCTTTGTTTTT-TTTCATTTTTGATTCTTCTCTCTTT
1 TTTTCCTTTGTTTTTGTTTCATTTTTGATTATTCTCTCTTT
102372 TTATTCTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (42 bp):
TTTTCCTTTGTTTTTGTTTCATTTTTGATTATTCTCTCTTTG
Found at i:105399 original size:6 final size:6
Alignment explanation
Indices: 105388--105414 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
105378 TTAATTACGA
105388 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
105415 AATTTGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:111670 original size:31 final size:31
Alignment explanation
Indices: 111597--111662 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
111587 GGTTACGTCG
*
111597 GGGACCATATTGCAAACGGACTAAATGTTGA
1 GGGACCATATTGCAAACAGACTAAATGTTGA
* *
111628 GGGACCATATTGTAAACAGACTAAATGTTGG
1 GGGACCATATTGCAAACAGACTAAATGTTGA
111659 GGGA
1 GGGA
111663 TTGTATTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.23
Consensus pattern (31 bp):
GGGACCATATTGCAAACAGACTAAATGTTGA
Found at i:118212 original size:47 final size:47
Alignment explanation
Indices: 118143--118233 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
118133 GTTGTTCGTA
118143 AACCTGCTGACTAAGACATGATAAAGTATGATACCATAATCTTAGTT
1 AACCTGCTGACTAAGACATGATAAAGTATGATACCATAATCTTAGTT
*
118190 AACCTGCTGACTAAGACATGATAAAGTATGATATCATAATCTTA
1 AACCTGCTGACTAAGACATGATAAAGTATGATACCATAATCTTA
118234 AATGACTATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (47 bp):
AACCTGCTGACTAAGACATGATAAAGTATGATACCATAATCTTAGTT
Found at i:125505 original size:20 final size:20
Alignment explanation
Indices: 125480--125517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
125470 AATAGTTTCT
125480 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
125500 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
125518 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:125807 original size:22 final size:22
Alignment explanation
Indices: 125782--125825 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
125772 GATTTAGATA
125782 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
125804 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
125826 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:126038 original size:20 final size:20
Alignment explanation
Indices: 126013--126106 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
126003 GATTATGTAT
126013 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
126033 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
126053 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
126074 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
126094 TATCGCATTGCGA
1 TATCGCGTTGCGA
126107 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:126078 original size:41 final size:41
Alignment explanation
Indices: 126033--126110 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
126023 CGAAAGTCAG
* * *
126033 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
126074 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
126111 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:126107 original size:20 final size:20
Alignment explanation
Indices: 125993--126107 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
125983 CGCTTTGAAA
*
125993 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
126014 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
126034 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
126054 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
126075 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
126095 ATCGCATTGCGAT
1 ATCGCATTGCGAT
126108 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:126126 original size:41 final size:41
Alignment explanation
Indices: 126033--126150 Score: 105
Period size: 41 Copynumber: 2.9 Consensus size: 41
126023 CGAAAGTCAG
* * * ** *
126033 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
126074 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
* **
126116 T-TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTT
1 TATCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTT
126151 ACTTATTCGC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
40 3 0.05
41 57 0.92
42 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:126140 original size:20 final size:20
Alignment explanation
Indices: 126096--126167 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
126086 ATAGTCAGTA
* **
126096 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
126117 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
126137 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
126157 TCGCATTGCGA
1 TCGCATTGCGA
126168 ATTGGGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 36 0.78
21 10 0.22
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:133932 original size:9 final size:9
Alignment explanation
Indices: 133920--133965 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
133910 CGCTGCTGGG
133920 GTTGCTGCT
1 GTTGCTGCT
*
133929 GTTGCTGTT
1 GTTGCTGCT
133938 GTTGCTGCT
1 GTTGCTGCT
* *
133947 GTTGTTGTT
1 GTTGCTGCT
*
133956 GTTGTTGCT
1 GTTGCTGCT
133965 G
1 G
133966 GGCATGCCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.00, C:0.13, G:0.35, T:0.52
Consensus pattern (9 bp):
GTTGCTGCT
Found at i:133941 original size:18 final size:18
Alignment explanation
Indices: 133920--133965 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
133910 CGCTGCTGGG
133920 GTTGCTGCTGTTGCTGTT
1 GTTGCTGCTGTTGCTGTT
*
133938 GTTGCTGCTGTTGTTGTT
1 GTTGCTGCTGTTGCTGTT
*
133956 GTTGTTGCTG
1 GTTGCTGCTG
133966 GGCATGCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.00, C:0.13, G:0.35, T:0.52
Consensus pattern (18 bp):
GTTGCTGCTGTTGCTGTT
Found at i:134021 original size:15 final size:15
Alignment explanation
Indices: 134003--134057 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
133993 CATCTGCAGT
134003 TGTTGCTGCTGTTGA
1 TGTTGCTGCTGTTGA
** *
134018 TGTTGAGGCTGCTGA
1 TGTTGCTGCTGTTGA
* *
134033 GGTTGCTGCTGTTGC
1 TGTTGCTGCTGTTGA
*
134048 TGCTGCTGCT
1 TGTTGCTGCT
134058 CTCGTGCTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.05, C:0.18, G:0.36, T:0.40
Consensus pattern (15 bp):
TGTTGCTGCTGTTGA
Found at i:139810 original size:30 final size:32
Alignment explanation
Indices: 139755--139824 Score: 108
Period size: 30 Copynumber: 2.2 Consensus size: 32
139745 TTCAATTAAT
* *
139755 AATTATAATCATAAAAAATAATTTAATATTCA
1 AATTATAATCATAAAAAATAATTTAAGATGCA
139787 AATTATAATCAT-AAAAA-AATTTAAGATGCA
1 AATTATAATCATAAAAAATAATTTAAGATGCA
139817 AATTATAA
1 AATTATAA
139825 AATTTATCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 19 0.53
31 5 0.14
32 12 0.33
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (32 bp):
AATTATAATCATAAAAAATAATTTAAGATGCA
Found at i:148841 original size:20 final size:20
Alignment explanation
Indices: 148816--148874 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
148806 TTTTCAAGGT
*
148816 CATGCACCGATGCACCAATC
1 CATGCATCGATGCACCAATC
148836 CATGCATCGATGCACCAATC
1 CATGCATCGATGCACCAATC
*
148856 CATGCATCGATGCATCAAT
1 CATGCATCGATGCACCAAT
148875 TAATTTCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (20 bp):
CATGCATCGATGCACCAATC
Found at i:151143 original size:20 final size:21
Alignment explanation
Indices: 151118--151163 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
151108 TAATTTAATT
*
151118 TCAAAAG-TTAATGATGATCA
1 TCAAAAGAATAATGATGATCA
*
151138 TCAAAAGAATATTGATGATCA
1 TCAAAAGAATAATGATGATCA
151159 T-AAAA
1 TCAAAA
151164 CTTCTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (21 bp):
TCAAAAGAATAATGATGATCA
Found at i:156488 original size:21 final size:21
Alignment explanation
Indices: 156446--156489 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
156436 ACTCCGGGAG
* *
156446 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
156467 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
156488 CT
1 CT
156490 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:157580 original size:20 final size:20
Alignment explanation
Indices: 157555--157593 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
157545 TTTTCAAGGG
157555 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
157575 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
157594 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:157662 original size:45 final size:46
Alignment explanation
Indices: 157613--157700 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
157603 GAACATCGAA
* * *
157613 TGCATTTTAGGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGAGGCATCGATGCACAAGACCATGCATAGATGCACTTAG
* *
157658 TGCATTTGATGCATCGATGCACAAGACTATGCATAGATGCACT
1 TGCATTTGAGGCATCGATGCACAAGACCATGCATAGATGCACT
157701 CAGGCTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 20 0.54
46 17 0.46
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (46 bp):
TGCATTTGAGGCATCGATGCACAAGACCATGCATAGATGCACTTAG
Found at i:162240 original size:22 final size:22
Alignment explanation
Indices: 162209--162261 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
162199 GTGTTTTTCT
*
162209 GCTTTCGAATAGAAAAATAATA
1 GCTTTTGAATAGAAAAATAATA
*
162231 GCTTTTGAATAGTAAAATAATA
1 GCTTTTGAATAGAAAAATAATA
162253 GCTTTTGAA
1 GCTTTTGAA
162262 AACGTGAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (22 bp):
GCTTTTGAATAGAAAAATAATA
Found at i:163640 original size:41 final size:41
Alignment explanation
Indices: 163590--163675 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
163580 TTTTTTTATT
* *
163590 AAACGCCGCAAAATACTCTTAATTTAGTGGAGTTTGTGACA
1 AAACACCGCAAAAGACTCTTAATTTAGTGGAGTTTGTGACA
* * * * * *
163631 AAACACCGCAATAGCCTTTTACTTTAGTGGCGTTTGTGACC
1 AAACACCGCAAAAGACTCTTAATTTAGTGGAGTTTGTGACA
163672 AAAC
1 AAAC
163676 GCCACAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (41 bp):
AAACACCGCAAAAGACTCTTAATTTAGTGGAGTTTGTGACA
Found at i:163695 original size:41 final size:41
Alignment explanation
Indices: 163612--163697 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
163602 ATACTCTTAA
* * *
163612 TTTAGTGGAGTTTGTGACAAAACACCGCAATAGCCTTTTAC
1 TTTAGTGGAGTTTGTGACAAAACACCACAATAGCCATGTAC
* * * *
163653 TTTAGTGGCGTTTGTGACCAAACGCCACAATATCCATGTAC
1 TTTAGTGGAGTTTGTGACAAAACACCACAATAGCCATGTAC
163694 TTTA
1 TTTA
163698 CCGGCGCTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (41 bp):
TTTAGTGGAGTTTGTGACAAAACACCACAATAGCCATGTAC
Found at i:163771 original size:42 final size:42
Alignment explanation
Indices: 163720--163833 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
163710 AAAAATTGCT
* * *
163720 GCAATAGTTTTGTTCTTTAGTGACGTTTTTTTAATAAACGCC
1 GCAATAGTTTTGTCCTTTAGTGGCGTTTTTGTAATAAACGCC
* * *
163762 GCAGTAGTTTTGTCCTTTAGTGGCATTTTTGTAATAAACGTC
1 GCAATAGTTTTGTCCTTTAGTGGCGTTTTTGTAATAAACGCC
* * *
163804 GCAAAAGTTTTATCCCTTAGTGGCGTTTTT
1 GCAATAGTTTTGTCCTTTAGTGGCGTTTTT
163834 AATATAAAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (42 bp):
GCAATAGTTTTGTCCTTTAGTGGCGTTTTTGTAATAAACGCC
Found at i:163841 original size:42 final size:42
Alignment explanation
Indices: 163736--163847 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
163726 GTTTTGTTCT
* * ** * *
163736 TTAGTGACGTTTTTTTAATAAACGCCGCAGTAGTTTTGTCCT
1 TTAGTGGCGTTTTTATAATAAACGCCGCAAAAGTTTTATCCC
* * *
163778 TTAGTGGCATTTTTGTAATAAACGTCGCAAAAGTTTTATCCC
1 TTAGTGGCGTTTTTATAATAAACGCCGCAAAAGTTTTATCCC
*
163820 TTAGTGGCGTTTTTA-ATATAAAAGCCGC
1 TTAGTGGCGTTTTTATA-ATAAACGCCGC
163848 CATTGTCCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (42 bp):
TTAGTGGCGTTTTTATAATAAACGCCGCAAAAGTTTTATCCC
Found at i:175222 original size:23 final size:23
Alignment explanation
Indices: 175187--175254 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
175177 AACCTTATAT
175187 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
175210 GGCACTACAGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
175233 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
175255 AGTTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:180476 original size:84 final size:85
Alignment explanation
Indices: 180324--180493 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 85
180314 ACAGTGGTTG
180324 TACGAAAGCCTACGACCTTGTTTCCAAACCGCCGTCATCATAGTCTGGTTCGACTGCCTAAGGCT
1 TACGAAAGCCTACGACCTTGTTTCCAAACCGCCGTCATCATAGTCTGGTTCGACTGCCTAAGGCT
180389 GTCTTGTGACAGACGTTCGC
66 GTCTTGTGACAGACGTTCGC
180409 TACGAAAGCCTACGACCTTGTTTCCAAACCGCCG-CATCATAGTCTGGTTCGACTGCCTAAGGCT
1 TACGAAAGCCTACGACCTTGTTTCCAAACCGCCGTCATCATAGTCTGGTTCGACTGCCTAAGGCT
180473 GTCTTGTGACAGACGTTCGC
66 GTCTTGTGACAGACGTTCGC
180493 T
1 T
180494 TGTGGCAACC
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 51 0.60
85 34 0.40
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (85 bp):
TACGAAAGCCTACGACCTTGTTTCCAAACCGCCGTCATCATAGTCTGGTTCGACTGCCTAAGGCT
GTCTTGTGACAGACGTTCGC
Found at i:185754 original size:13 final size:13
Alignment explanation
Indices: 185736--185760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185726 TCATAACCCG
185736 ACCCGACCCGTTT
1 ACCCGACCCGTTT
185749 ACCCGACCCGTT
1 ACCCGACCCGTT
185761 GACCGGCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.20
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:188576 original size:43 final size:43
Alignment explanation
Indices: 188514--188849 Score: 505
Period size: 43 Copynumber: 7.8 Consensus size: 43
188504 TTAATTACCG
*
188514 TTACAGTTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAG-TTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
188558 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
188601 TTACAGTTCCCCCAGGTCTCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
188644 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
188687 TTACAGTTCCCCCATGTCCCTTTGTTGTGTGCAAGGATAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
188730 TTACAGTTCTCCCAGTTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
188773 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
188815 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
188850 TATAAGACCT
Statistics
Matches: 271, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
42 41 0.15
43 224 0.83
44 6 0.02
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:190657 original size:13 final size:15
Alignment explanation
Indices: 190628--190658 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
190618 CCCATATCTC
190628 TATACTTAGTTTATA
1 TATACTTAGTTTATA
190643 TATACTTAGTTTATA
1 TATACTTAGTTTATA
190658 T
1 T
190659 TATGATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TATACTTAGTTTATA
Found at i:193772 original size:18 final size:18
Alignment explanation
Indices: 193746--193789 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
193736 AATCAAAGGT
*
193746 CATGACTCATGGATTATA
1 CATGCCTCATGGATTATA
193764 CATGCCTCATGGATTATA
1 CATGCCTCATGGATTATA
193782 CATGCCTC
1 CATGCCTC
193790 TTCACATACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (18 bp):
CATGCCTCATGGATTATA
Found at i:201985 original size:14 final size:14
Alignment explanation
Indices: 201968--201995 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
201958 ATCATAACAA
201968 AATTATATAACTAT
1 AATTATATAACTAT
201982 AATTATATAACTAT
1 AATTATATAACTAT
201996 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:202988 original size:12 final size:12
Alignment explanation
Indices: 202971--202995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
202961 TGATTCAGAC
202971 TATGAATAATAT
1 TATGAATAATAT
202983 TATGAATAATAT
1 TATGAATAATAT
202995 T
1 T
202996 GGTTGATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TATGAATAATAT
Found at i:206278 original size:25 final size:25
Alignment explanation
Indices: 206244--206293 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
206234 ATTGATACAG
206244 ACAGTTGGTAATCCCCAAAGTTGTT
1 ACAGTTGGTAATCCCCAAAGTTGTT
206269 ACAGTTGGTAATCCCCAAAGTTGTT
1 ACAGTTGGTAATCCCCAAAGTTGTT
206294 CTTCGCATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (25 bp):
ACAGTTGGTAATCCCCAAAGTTGTT
Found at i:208632 original size:3 final size:3
Alignment explanation
Indices: 208624--208650 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
208614 TGCGACATAT
208624 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
208651 GCTACACGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:214795 original size:231 final size:232
Alignment explanation
Indices: 214392--214893 Score: 790
Period size: 231 Copynumber: 2.2 Consensus size: 232
214382 GATTTTTTTG
* * * *
214392 AAAGTTTAAGTACTAAAACGGACCAAAACTTATAGTTTAGGTATTAAACACATTAAGTTTTTAAC
1 AAAGTTTAAATACTAAAACAGACCAAAACTTATAGTTTAGATACTAAACACATTAAGTTTTTAAC
* *
214457 AATGAGATACTAAAATGAAACAAAAACTAAACATTAAGTATAATTTAAAAAAAATTGAAAGTTTA
66 AATAAGATACTAAAATGAAACAAAAACTAAACATAAAGTATAATTTAAAAAAAATTGAAAGTTTA
* *
214522 GATACTAAAACAGACCAAAACTGATAATTACATTAAGTTTTTAATAATAAGGTACTAAAATAAAA
131 GATACTAAAACAGACCAAAACTGATAATTACATCAAGTTTTTAACAATAAGGTACTAAAATAAAA
214587 CAAAAACTAAACGTTAAGTAT-AATTTAAAAAAATTA
196 CAAAAACTAAACGTTAAGTATGAATTTAAAAAAATTA
*
214623 AAAGTTTAAATACTAAAACAGACCAAAACTTATAGTTTAGATACTAAACACGTTAAGTTTTTAAC
1 AAAGTTTAAATACTAAAACAGACCAAAACTTATAGTTTAGATACTAAACACATTAAGTTTTTAAC
* * * * *
214688 AGTAAGATATTAAAATGAAATAAAAACTAAACGTAAAGTATAATTTTAAAAAAATTGAAAGTTTA
66 AATAAGATACTAAAATGAAACAAAAACTAAACATAAAGTATAATTTAAAAAAAATTGAAAGTTTA
* * *
214753 GATACTAAAACAGACCAAAACTTATAATTACGTCAAGTTTTTAACAATAAGGTACTAAAATGAAA
131 GATACTAAAACAGACCAAAACTGATAATTACATCAAGTTTTTAACAATAAGGTACTAAAATAAAA
*
214818 CAAAAACTAAACGTTAAGTATGATTTTAAAAAAATTA
196 CAAAAACTAAACGTTAAGTATGAATTTAAAAAAATTA
* * * * *
214855 AAAGTTTAAATACTACACCAAACCAAAACTGATAATTTA
1 AAAGTTTAAATACTAAAACAGACCAAAACTTATAGTTTA
214894 AGCACTAAAT
Statistics
Matches: 247, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
231 199 0.81
232 48 0.19
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.28
Consensus pattern (232 bp):
AAAGTTTAAATACTAAAACAGACCAAAACTTATAGTTTAGATACTAAACACATTAAGTTTTTAAC
AATAAGATACTAAAATGAAACAAAAACTAAACATAAAGTATAATTTAAAAAAAATTGAAAGTTTA
GATACTAAAACAGACCAAAACTGATAATTACATCAAGTTTTTAACAATAAGGTACTAAAATAAAA
CAAAAACTAAACGTTAAGTATGAATTTAAAAAAATTA
Found at i:214880 original size:110 final size:110
Alignment explanation
Indices: 214444--214891 Score: 574
Period size: 110 Copynumber: 4.0 Consensus size: 110
214434 ATTAAACACA
* * *
214444 TTAAGTTTTTAACAATGAGATACTAAAATGAAACAAAAACTAAACATTAAGTATAATTTAAAAAA
1 TTAAGTTTTTAACAATAAGATACTAAAATGAAACAAAAACTAAACGTTAAGTATAATTTTAAAAA
* * *
214509 AATTGAAAGTTTAGATACTAAAACAGACCAAAACTGATAATTACA
66 AATTAAAAGTTTAAATACTAAAACAGACCAAAACTGATAATTACG
* * *
214554 TTAAGTTTTTAATAATAAGGTACTAAAATAAAACAAAAACTAAACGTTAAGTATAA-TTTAAAAA
1 TTAAGTTTTTAACAATAAGATACTAAAATGAAACAAAAACTAAACGTTAAGTATAATTTTAAAAA
*
214618 AATTAAAAGTTTAAATACTAAAACAGACCAAAACTTATAGTTTAGATACTAAACACG
66 AATTAAAAGTTTAAATACTAAAACAGACCAAAAC---T-G-ATA-AT--T----ACG
* * * *
214675 TTAAGTTTTTAACAGTAAGATATTAAAATGAAATAAAAACTAAACGTAAAGTATAATTTTAAAAA
1 TTAAGTTTTTAACAATAAGATACTAAAATGAAACAAAAACTAAACGTTAAGTATAATTTTAAAAA
* * *
214740 AATTGAAAGTTTAGATACTAAAACAGACCAAAACTTATAATTACG
66 AATTAAAAGTTTAAATACTAAAACAGACCAAAACTGATAATTACG
* * *
214785 TCAAGTTTTTAACAATAAGGTACTAAAATGAAACAAAAACTAAACGTTAAGTATGATTTTAAAAA
1 TTAAGTTTTTAACAATAAGATACTAAAATGAAACAAAAACTAAACGTTAAGTATAATTTTAAAAA
* * *
214850 AATTAAAAGTTTAAATACTACACCAAACCAAAACTGATAATT
66 AATTAAAAGTTTAAATACTAAAACAGACCAAAACTGATAATT
214892 TAAGCACTAA
Statistics
Matches: 291, Mismatches: 34, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
109 39 0.13
110 148 0.51
112 1 0.00
113 1 0.00
114 3 0.01
115 2 0.01
116 2 0.01
117 3 0.01
119 1 0.00
121 51 0.18
122 40 0.14
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (110 bp):
TTAAGTTTTTAACAATAAGATACTAAAATGAAACAAAAACTAAACGTTAAGTATAATTTTAAAAA
AATTAAAAGTTTAAATACTAAAACAGACCAAAACTGATAATTACG
Found at i:216007 original size:19 final size:19
Alignment explanation
Indices: 215983--216035 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
215973 AATAACCAAC
215983 AAAATCGCAATGCGAAATA
1 AAAATCGCAATGCGAAATA
216002 AAAATCGCAATGCGAAATA
1 AAAATCGCAATGCGAAATA
*
216021 AAAATCGCAACGCGA
1 AAAATCGCAATGCGA
216036 TCTCCAGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.13
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATA
Found at i:216119 original size:21 final size:21
Alignment explanation
Indices: 216023--216119 Score: 65
Period size: 21 Copynumber: 4.7 Consensus size: 21
216013 GCGAAATAAA
*
216023 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
216043 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* ** *
216063 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
216083 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
216105 AATCGCAACGCGATT
1 AATCGCAACGCGATT
216120 CTGACTATCG
Statistics
Matches: 56, Mismatches: 17, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
19 1 0.02
20 25 0.45
21 28 0.50
22 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:216170 original size:20 final size:20
Alignment explanation
Indices: 216126--216358 Score: 194
Period size: 20 Copynumber: 11.6 Consensus size: 20
216116 GATTCTGACT
* *
216126 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCAGT-AA
216147 ATCGCAACGCGTATCAGTAA
1 ATCGCAACGCGTATCAGTAA
*
216167 ATCGCAACGAC-AAT-ACGTAAA
1 ATCGCAACG-CGTATCA-GT-AA
*
216188 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCAGTAA
* *
216208 ATCGCAACGAGAAT-ACGTAA
1 ATCGCAACGCGTATCA-GTAA
*
216228 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCAGTAA
* *
216248 ATCGCAACGAGAATACA-TAA
1 ATCGCAACGCGTAT-CAGTAA
* *
216268 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCAGTAA
*
216288 ATCGCAACGAC-AAT-ACGTAAA
1 ATCGCAACG-CGTATCA-GT-AA
*
216309 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCAGTAA
216329 ATCGCAACGCG-ATC-GATAA
1 ATCGCAACGCGTATCAG-TAA
*
216348 TTCGCAACGCG
1 ATCGCAACGCG
216359 ATCTCCGGTA
Statistics
Matches: 173, Mismatches: 24, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.01
19 18 0.10
20 105 0.61
21 49 0.28
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGTATCAGTAA
Found at i:216241 original size:40 final size:41
Alignment explanation
Indices: 216126--216337 Score: 338
Period size: 41 Copynumber: 5.2 Consensus size: 41
216116 GATTCTGACT
* * *
216126 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCAGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
216167 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
216208 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
216248 ATCGCAACGAGAATACAT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
216288 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
216329 ATCGCAACG
1 ATCGCAACG
216338 CGATCGATAA
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 74 0.47
41 84 0.53
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:216392 original size:20 final size:20
Alignment explanation
Indices: 216369--216414 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
216359 ATCTCCGGTA
*
216369 TCGCAAATCAGTTTCCAAAT
1 TCGCAAATCAATTTCCAAAT
* **
216389 TCGCAACTCAATTTCTGAAT
1 TCGCAAATCAATTTCCAAAT
216409 TCGCAA
1 TCGCAA
216415 CAGGTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (20 bp):
TCGCAAATCAATTTCCAAAT
Found at i:217265 original size:24 final size:24
Alignment explanation
Indices: 217213--217267 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
217203 AGTATTCGAA
217213 ATTTT-ATCTTGGTCAATACCCAG
1 ATTTTGATCTTGGTCAATACCCAG
* * *
217236 ACTTTGATCTTGGTCAATACTCGG
1 ATTTTGATCTTGGTCAATACCCAG
217260 ATTTTGAT
1 ATTTTGAT
217268 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (24 bp):
ATTTTGATCTTGGTCAATACCCAG
Found at i:219705 original size:20 final size:20
Alignment explanation
Indices: 219680--219773 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
219670 GACATTCATT
219680 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
*
219700 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
219720 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
**
219740 TGACTATCGCAACATGGAAA
1 TGACTATCGCAACGCGGAAA
219760 TGACTATCGCAACG
1 TGACTATCGCAACG
219774 ACAGAATCGC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 61 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Done.