Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014534.1 Kokia drynarioides strain JFW-HI SEQ_129573, 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: 188460
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 117 characters in sequence are not A, C, G, or T
Found at i:645 original size:217 final size:216
Alignment explanation
Indices: 2--1199 Score: 1272
Period size: 215 Copynumber: 5.6 Consensus size: 216
1 A
* * *
2 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCAATCCTTAGAGCAATTTTT-GA
1 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA
* * * *
66 ACATTTCATGCTCGGGAAGTTGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTT
66 ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTT
* * * * * *
131 GGCCTCTGAATTAAAAACTTATTTACGTGAAAATTGTTTCTCTCTTGGTTGTTGGATGAACTTCT
131 GGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCT
* *
196 GAACTTGTCAAGCTTTTAC-T
196 GAACTTGTCAAACTTTTCCAT
* * * *
216 AGTTCATTTT-TAACTCCGGTTCC--------TTCAAGAAGATCCATTCCTTCAAGTAA-TTTTC
1 -GTTC-TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC
* * * * * *
271 TGAACATTCAATGCTTGAGAAATCGCATCATTTGGTCTACATAGTTTTTCATTTTGTAAAAAAGT
64 -GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
* * * * *
336 TTTGGTTTTTGAATTGAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACAAACT
128 TTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
** * * *
401 TCCAAAATTGACAAACTTTTACAT
193 TCTGAACTTGTCAAACTTTTCCAT
* * * * *
425 GTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAGACGATCCATTCTTTCTAGCAGTTTTTCGA
1 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA
* *
490 ACATTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAAGTTT
66 ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC-AAGTTT
* * *
555 TTGTCTTTCAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTT-TTAGGACGAACTT
130 TGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTT
*
619 C-GAAACTTGTCAAACTTTGCCAT
194 CTG-AACTTGTCAAACTTTTCCAT
* * * * * * **
642 GTTCTTTTATAAATTCGATTTCTTAAAATATTCAAGATGATCCATTCCTTCGAGTAATTTCCCGA
1 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA
* * * * *
707 ACATTCCATGCTCAGGAAATTGCATCACTCGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTT
66 ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTT
* * * * * * *
772 -GTCTTTCTAA-TAAAAACTTTTTTACAAGAGAATTGTTCCTCTATTGGTTCATGGATGAACTTC
131 GGTCTTT-GAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC
* * * *
835 TGATCCTGT-AGAAATTTTACGA-
195 TGAACTTGTCA-AACTTTT-CCAT
* * * * * *
857 GTTCTTTTATAACTTCTGCTCCTTAGAGTATTCAAGATGATCCATTCTTTCGAGAAATTTTTCGA
1 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA
* * ** *
922 ACATTCCATGTTTGGGAAATCGCATCATTTGGTCTAAATTTTTTGTCATTTTTTAAACAAGTTTT
66 ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTT
* * * *
987 GGCCTTTGAA-T--AAACTTATTTACATGAGAATTGTTTTCTCTTTTGCTTCTTGGACAAACTTC
131 GGTCTTTGAATTAAAAACTTATTTACATGAGAATTG-TTTCTCTCTTGGTTCTTGGACGAACTTC
*
1049 TGAACTTGTCAAACTTTTTCGA-
195 TGAACTTGTCAAAC-TTTTCCAT
* * * * *
1071 GTTCTTTTATATCTTTGGTTCCTTCAAGTATTCAAGACGATCCATTCCTTCGACCAGTTTTTCGA
1 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA
* * * * *
1136 ACATTCCATGCTCGGG-AATCACATCATTCGTTCTAAATAGTTTTTCATTTTGTAATCAAGTTTT
66 ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTT
1200 TCGAGACGAT
Statistics
Matches: 810, Mismatches: 147, Indels: 54
0.80 0.15 0.05
Matches are distributed among these distances:
206 4 0.00
207 25 0.03
208 141 0.17
209 1 0.00
213 60 0.07
214 103 0.13
215 193 0.24
216 98 0.12
217 185 0.23
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (216 bp):
GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA
ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTT
GGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCT
GAACTTGTCAAACTTTTCCAT
Found at i:920 original size:432 final size:427
Alignment explanation
Indices: 1--1199 Score: 1324
Period size: 432 Copynumber: 2.8 Consensus size: 427
* * * * *
1 AGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCAATCCTTAGAGCAATTTTT-G
1 AGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTTCG
* * * *
65 AACATTTCATGCTCGGGAAGTTGCATCATTTGGTCTAAA-AAGTTTGTCATTTTGTAAACAAGTT
66 AACATTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAA-TTTGTCATTTTGTAAACAAGTT
* * * * *
129 TTGGCCTCTGAATTAAAAACTTATTTACGTGAAAATTGTTTCTCTCTTGGTTGTTGGATGAACTT
130 TTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT
* * * * *
194 CTGAACTTGTCAAGCTTTTAC-TAGTTCATTTT-TAACTCCGGTTC-----CTTCAAGAAGATCC
195 CTGAACTTGTCAAACTTTTCCAT-GTTC-TTTTATAACTTCGTTTCTTAATATTCAAGAAGATCC
* * * * * *
252 ATTCCTTCAAGTAATTTTCTGAACATTCAATGCTTGAGAAATCGCATCATTTGGTCTACATAGTT
258 ATTCCTTCGAGTAATTTTCCGAACATTCCATGCTCG-GAAATCGCATCATTCGGTCTAAATAGTT
* * ** *
317 TTTCATTTTGTAAAAAAGTTTTGGTTTTTGAATTGAAAACTTATTTACGTGAGAATTATTTCTCT
322 TTTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACAAGAGAATTATTCCTCT
* * *
382 CTTGGTTCTTGGACAAACTTCCAAAATTGACAAACTTTTAC
387 ATTGGTTCATGGACAAACTTCCAAAACTGACAAACTTTTAC
* * *
423 ATGTTCTTTTATAACTT-TGGTTCATTAAAGTATTCAAGACGATCCATTCTTTCTAGCAGTTTTT
1 A-GTTCTTTTATAACTTCT-GTTCCTTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTT
487 CGAACATTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAAG
64 CGAACATTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAAC-AAG
* * * *
552 TTTTTGTCTTTCAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTT-TTAGGACGAA
128 TTTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAA
* * *
616 CTTC-GAAACTTGTCAAACTTTGCCATGTTCTTTTATAAATTCGATTTCTTAAAATATTCAAGAT
192 CTTCTG-AACTTGTCAAACTTTTCCATGTTCTTTTATAACTTCG-TTTCTT--AATATTCAAGAA
* * *
680 GATCCATTCCTTCGAGTAATTTCCCGAACATTCCATGCTCAGGAAATTGCATCACTCGGTCTAAA
253 GATCCATTCCTTCGAGTAATTTTCCGAACATTCCATGCTC-GGAAATCGCATCATTCGGTCTAAA
* * *
745 TAGTTTCTCATTTTGTAAACAAGTTTT-GTCTTTCT-AA-TAAAAACTTTTTTACAAGAGAATTG
317 TAGTTTTTCATTTTGTAAACAAGTTTTGGT-TTT-TGAATTAAAAACTTATTTACAAGAGAATTA
** ** ** *
807 TTCCTCTATTGGTTCATGGATGAACTTCTGATCCTGTAGAAA-TTTTAC
380 TTCCTCTATTGGTTCATGGACAAACTTCCAAAACTG-ACAAACTTTTAC
* * * *
855 GAGTTCTTTTATAACTTCTGCTCCTTAGAGTATTCAAGATGATCCATTCTTTCGAGAAATTTTTC
1 -AGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTTC
* ** *
920 GAACATTCCATGT-TTGGGAAATCGCATCATTTGGTCTAAATTTTTTGTCATTTTTTAAACAAGT
65 GAACATTCCAT-TCTCGGGAAATCGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAGT
* * *
984 TTTGGCCTTTGAA-T--AAACTTATTTACATGAGAATTGTTTTCTCTTTTGCTTCTTGGACAAAC
129 TTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTG-TTTCTCTCTTGGTTCTTGGACGAAC
* * * * *
1046 TTCTGAACTTGTCAAACTTTTTCGA-GTTCTTTTATATCTTTGGTTCCTTCAAGTATTCAAGACG
193 TTCTGAACTTGTCAAAC-TTTTCCATGTTCTTTTATAAC-TTCGTTTCTT-AA-TATTCAAGAAG
** * * * * *
1110 ATCCATTCCTTCGACCAGTTTTTCGAACATTCCATGCTCGGGAATCACATCATTCGTTCTAAATA
254 ATCCATTCCTTCGAGTAATTTTCCGAACATTCCATGCTCGGAAATCGCATCATTCGGTCTAAATA
*
1175 GTTTTTCATTTTGTAATCAAGTTTT
319 GTTTTTCATTTTGTAAACAAGTTTT
1200 TCGAGACGAT
Statistics
Matches: 655, Mismatches: 92, Indels: 54
0.82 0.11 0.07
Matches are distributed among these distances:
422 1 0.00
423 53 0.08
424 60 0.09
425 88 0.13
426 4 0.01
428 67 0.10
429 94 0.14
430 12 0.02
431 14 0.02
432 162 0.25
433 98 0.15
434 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (427 bp):
AGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTTCG
AACATTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAGTTT
TGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC
TGAACTTGTCAAACTTTTCCATGTTCTTTTATAACTTCGTTTCTTAATATTCAAGAAGATCCATT
CCTTCGAGTAATTTTCCGAACATTCCATGCTCGGAAATCGCATCATTCGGTCTAAATAGTTTTTC
ATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACAAGAGAATTATTCCTCTATTG
GTTCATGGACAAACTTCCAAAACTGACAAACTTTTAC
Found at i:1295 original size:99 final size:98
Alignment explanation
Indices: 1105--1299 Score: 293
Period size: 99 Copynumber: 2.0 Consensus size: 98
1095 CAAGTATTCA
* * *
1105 AGACGATCCATTCCTTCGACCAGTTTTTCGAACATTCCATGCTCGGGAATCACATCATTCGTTCT
1 AGACGATCCATTCCTTCGACCAGTTTTTCGAACATTCCATGCTAGGAAATCACATCATTCGGTCT
*
1170 AAATAGTTTTTCATTTTGTAATCAAGTTTTTCG
66 AAATAGTTTTTCATTTTGTAAACAAGTTTTTCG
* * * *
1203 AGACGATCCATTCCTTCTAGCAGTTTTTCGAACATTCCATTCATAGGAAATCACATCATTTGGTC
1 AGACGATCCATTCCTTCGACCAGTTTTTCGAACATTCCATGC-TAGGAAATCACATCATTCGGTC
1268 TAAATAGTTTGTT-ATTTTGTAAACAAGTTTTT
65 TAAATAGTTT-TTCATTTTGTAAACAAGTTTTT
1300 GTCTTTCAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
98 39 0.45
99 46 0.53
100 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (98 bp):
AGACGATCCATTCCTTCGACCAGTTTTTCGAACATTCCATGCTAGGAAATCACATCATTCGGTCT
AAATAGTTTTTCATTTTGTAAACAAGTTTTTCG
Found at i:1586 original size:216 final size:216
Alignment explanation
Indices: 1203--2559 Score: 1055
Period size: 216 Copynumber: 6.4 Consensus size: 216
1193 AAGTTTTTCG
* * * * * *
1203 AGACGATCCATTCCTTCTAGCAGTTTTTCGAACATTCCATTCAT-AGGAAATCACATCATTTGGT
1 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC-TCAGGAAATCAAATCATTCGAT
* **
1267 CTAAATAGTTTGTT-ATTTTGTAAACAAGTTTTTGTCTTTCAATTAAAAACTTATTTATTTGAGA
65 CTAAATAGTTT-TTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGA
* * ** * **
1331 ATTGCTTCTCTCA-TGGTT-TTAGGACGAACTTTTGAACTTGTCAAAGTTTCCCAAGTTCTTTTA
129 ATTGTTTCTCT-ATTGGTTCATA-GACGAACTTCCGAACTTGTCAAAATTTTACAAGTTCTTTTA
** *
1394 TAACTTCAATTCCTTAAAATATACA
192 TAACTTCGGTTCCTTAAAGTATACA
* * * * ***
1419 AGACGATCCATTCGTTCGAGCAATTTTCCGAACATTCCACGCTCGGGAAATTGCATCATTCGATC
1 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCAAATCATTCGATC
* * * *
1484 TAAATAGTTTCTCATTTTGTATACAAGTTTTGGTCTTTCAAATAAAAACTTATTTACATGAGAAT
66 TAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAAT
* * * *
1549 TGTTCCTCTATTGGTTCATAGACGAACCTCCGAACTTGT-AGAAATTTTACGAGTTTTTTTATAA
131 TGTTTCTCTATTGGTTCATAGACGAACTTCCGAACTTGTCA-AAATTTTACAAGTTCTTTTATAA
*
1613 CTTCGGTTCCTTAGAGTATTA-A
195 CTTCGGTTCCTTAAAGTA-TACA
* * * ** *
1635 AGATGATTCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATTGAATCAATT-GGT
1 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCAAATC-ATTCGAT
* * * * *
1699 CTAAA-ATTTTTTTCATTTTTTAAATAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGA
65 CTAAATA-GTTTTTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGA
* * * * * * *
1763 ATTGTTTATCTTTTGGTTC-TTGCACAAACTTCAGAACTTGTCAAACTTTTACGAGTTCTTTTAT
129 ATTGTTTCTCTATTGGTTCATAG-ACGAACTTCCGAACTTGTCAAAATTTTACAAGTTCTTTTAT
* * * * *
1827 ATCTTTGTTTCCTTCAAGTATTCA
193 AACTTCGGTTCCTTAAAGTATACA
* * * * * *
1851 AGACGATTCATTCCTTCGAGTAGTTTTTCGAAAATTCCAAGCTCGGGAAATCAAATCATTC-ATT
1 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCAAATCATTCGA-T
* * * **
1915 CTAAATAGTTTTTCATTTCGTAATCAAGTTTTGGTGTTTGTATTAAAAACTTATTTACGTGAGAA
65 CTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAA
* * * * * * *
1980 TTATTTCTCTCTT--TTTATTGGACGAACTTTCGAACTTATCAAAATTTTACAAGTTCTTTTTTA
130 TTGTTTCTCTATTGGTTCA-TAGACGAACTTCCGAACTTGTCAAAATTTTACAAGTTCTTTTATA
2043 ACTTCGGTTCCTTAAAGTAT---
194 ACTTCGGTTCCTTAAAGTATACA
* * * * * *
2063 ------T-C-TT--TT--AGTAGTTTTTTGAACATTCCATGCTCAAGAAATCGCAA-CATTCGGT
1 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATC-AAATCATTCGAT
* * * *
2115 CTAAATAGTTTTTAATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACCTATTAACGTGAGAA
65 CTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAA
* ** * ** * *
2180 TTGTTTCTCTCTTGGTTGTTGGACGAACTTTTGAACTTGTCAAACTTTTACGAA-TTCTTTTTTT
130 TTGTTTCTCTATTGGTTCATAGACGAACTTCCGAACTTGTCAAAATTTTAC-AAGTTC-TTTTAT
* *
2244 AACTTCGGTTCCTTAAAGTGTTCA
193 AACTTCGGTTCCTTAAAGTATACA
* * * * * * ** * *
2268 AAATGATCAATTCCTTAGAGTAA-TTTTCTG---A----ATG-TGAGGGAAATCGCATCATTTGG
1 AGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCA-GGAAATCAAATCATTCGA
* * * * **
2324 TCTAAATAGGTTTTCATTTTGCAAACAAGTTTT-GACATTTGAATTAAAAACTTATTTACGTGTT
64 TCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTC-TTTCAATTAAAAACTTATTTACGTGAG
* * * * * * * * * * * *
2388 AATTGTATCTCTCTTGGTTCTTGGAAGAACTTCTGAAATTGACAAACTGTTACGAGTTATTTTAT
128 AATTGTTTCTCTATTGGTTCATAGACGAACTTCCGAACTTGTCAAAATTTTACAAGTTCTTTTAT
* *
2453 AACTTCGGTTCCTTAATGTATTCA
193 AACTTCGGTTCCTTAAAGTATACA
* * * * * ** * *
2477 AGACAATCCATTCCTTCTAGCAGTTTTTCGAACATTCCATTCTCGGGAAATCGCATCATTTGGTC
1 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCAAATCATTCGATC
* *
2542 AAAATAATTTTTCATTTT
66 TAAATAGTTTTTCATTTT
2560 TGCGAAATCG
Statistics
Matches: 929, Mismatches: 161, Indels: 102
0.78 0.14 0.09
Matches are distributed among these distances:
200 105 0.11
201 34 0.04
202 32 0.03
204 2 0.00
205 1 0.00
206 1 0.00
209 49 0.05
210 121 0.13
211 1 0.00
212 1 0.00
213 2 0.00
214 3 0.00
215 64 0.07
216 498 0.54
217 15 0.02
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (216 bp):
AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCAAATCATTCGATC
TAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAAT
TGTTTCTCTATTGGTTCATAGACGAACTTCCGAACTTGTCAAAATTTTACAAGTTCTTTTATAAC
TTCGGTTCCTTAAAGTATACA
Found at i:2729 original size:195 final size:195
Alignment explanation
Indices: 2395--2754 Score: 456
Period size: 195 Copynumber: 1.8 Consensus size: 195
2385 GTTAATTGTA
* * * *
2395 TCTCTCTTGGTTCTTGGAAGAACTTCTGAAATTGACAAACTGTTACGAGTTATTTTATAACTTCG
1 TCTCTCTTGGTTCTTGGAAGAACTTCCGAAAGTGACAAACTGTTACAAGTTATTTTATAACTCCG
* * * * * *
2460 GTTCCTTAATGTATTCAAGACAATCCATTCCTTCTAGCAGTTTTTCGAACATTCCATTCTCGGGA
66 GTTCCTTAAAGTATTCAAGACAATCCATTCCTTCTAGCAATTTTCCGAACATTCAACTCTCGAGA
* *
2525 AATCGCATCATTTGGTCAAAATAATTTTTCATTTTTGCGAAATCGCATCATTTTGAACATTCCAT
131 AACCGCATCATTTGGCCAAAATAATTTTTCATTTTTGCGAAATCGCATCATTTTGAACATTCCAT
* * * * *
2590 TCTCTCTTGGTTGTTGGACA-AACTTCCGTACGTGTCAAACTTTTACAAGTTCATTTT-TAACTC
1 TCTCTCTTGGTTCTTGGA-AGAACTTCCGAAAGTGACAAACTGTTACAAGTT-ATTTTATAACTC
* * * *
2653 CGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTT-TGAGTAATTTTCCGAACATTCAACTCTCT
64 CGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCT-AGCAATTTTCCGAACATTCAACTCTCG
* * *
2717 AGAAACCGCATCATTTGGCCTAAGTAGTTTTTCATTTT
128 AGAAACCGCATCATTTGGCCAAAATAATTTTTCATTTT
2755 GTAAAAAAGT
Statistics
Matches: 138, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
194 1 0.01
195 131 0.95
196 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (195 bp):
TCTCTCTTGGTTCTTGGAAGAACTTCCGAAAGTGACAAACTGTTACAAGTTATTTTATAACTCCG
GTTCCTTAAAGTATTCAAGACAATCCATTCCTTCTAGCAATTTTCCGAACATTCAACTCTCGAGA
AACCGCATCATTTGGCCAAAATAATTTTTCATTTTTGCGAAATCGCATCATTTTGAACATTCCAT
Found at i:2767 original size:411 final size:405
Alignment explanation
Indices: 2184--2970 Score: 1026
Period size: 411 Copynumber: 1.9 Consensus size: 405
2174 TGAGAATTGT
* ** * * *
2184 TTCTCTCTTGGTTGTTGGACGAACTTTTGAACTTGTCAAACTTTTACGAATTCTTTTTTTAACTT
1 TTCTCTCTTGGTTGTTGGACAAACTTCCGAACGTGTCAAACTTTTACGAATTCTATTTTTAACTC
* * * * *
2249 CGGTTCCTTAAAGTGTTCAAAATGATCAATTCCTTAGAGTAATTTTCTGAATGTGAGGGAAATCG
66 CGGTTCCTTAAAGTGTTCAAAACGATCAATTCCTTAGAGTAATTTTCCGAATGTAAGAGAAACCG
* *
2314 CATCATTTGGTCTAAATAGGTTTTCATTTTGCAAACAAGTTTTGACATTTGAATTAAAAACTTAT
131 CATCATTTGGCCTAAATAGGTTTTCATTTTGCAAAAAAGTTTTGACATTTGAATTAAAAACTTAT
** * *
2379 TTACGTGTTAA-T-TGTATCTCTCTTGGTTCTTGGAAGAACTTCTGAAATTGACAAACTGTTACG
196 TTACGTGAGAATTATGTATC-CTC-TGATTCTTGGAAGAACTTCTGAAATTGACAAACTGTTAAG
* * *
2442 AGTTATTTTATAACTTCGGTTCCTTAATGTATTCAAGACAATCCATTCCTTCTAGCAGTTTTTCG
259 AGTTATCTTATAACTTCGGTTCATTAAAGTATTCAAGACAATCCATTCCTTCTAGCAGTTTTTCG
* * * *
2507 AACATTCCATTCTCGGGAAATCGCATCATTTGGTCAAAATAATTTTTCATTTTTGCGAAATCGCA
324 AACATTCCATTCTCGAGAAATCACATCAGTTGGTCAAAATAATTTGTCATTTTTGCGAAATCGCA
2572 TCATTTTGAACATTCCA
389 TCATTTTGAACATTCCA
*
2589 TTCTCTCTTGGTTGTTGGACAAACTTCCGTACGTGTCAAACTTTTAC-AAGTTC-ATTTTTAACT
1 TTCTCTCTTGGTTGTTGGACAAACTTCCGAACGTGTCAAACTTTTACGAA-TTCTATTTTTAACT
* * *
2652 CCGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTTGAGTAATTTTCCGAACAT-TCAACTCTC
65 CCGGTTCCTTAAAGTGTTCAAAACGATCAATTCCTTAGAGTAATTTTCCG-A-ATGT-AA-----
* * * * **
2716 TAGAAACCGCATCATTTGGCCTAAGTAGTTTTTCATTTTGTAAAAAAGTTTTGGTATTTGAATTA
122 GAGAAACCGCATCATTTGGCCTAAATAGGTTTTCATTTTGCAAAAAAGTTTTGACATTTGAATTA
* * *
2781 AAAACTTATTTACGTGAGAATTATTTATCCTCTGATTCTTGGACGAACTTTTGAAATTGACAAAC
187 AAAACTTATTTACGTGAGAATTATGTATCCTCTGATTCTTGGAAGAACTTCTGAAATTGACAAAC
* * * *
2846 TTTTAAGAGTTCTCTTATAACTTCTGTTCATTAAAGTATTCAAGACGATCCATTCCTTCTAGCAG
252 TGTTAAGAGTTATCTTATAACTTCGGTTCATTAAAGTATTCAAGACAATCCATTCCTTCTAGCAG
* * * * *
2911 TTTTTTGAACATTTCATTCTCGAGAAATCACATTAGTTGGTCTAAATAGTTTGTCATTTT
317 TTTTTCGAACATTCCATTCTCGAGAAATCACATCAGTTGGTCAAAATAATTTGTCATTTT
2971 GTAAACAAGT
Statistics
Matches: 325, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
404 55 0.17
405 47 0.14
406 3 0.01
411 211 0.65
412 4 0.01
413 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (405 bp):
TTCTCTCTTGGTTGTTGGACAAACTTCCGAACGTGTCAAACTTTTACGAATTCTATTTTTAACTC
CGGTTCCTTAAAGTGTTCAAAACGATCAATTCCTTAGAGTAATTTTCCGAATGTAAGAGAAACCG
CATCATTTGGCCTAAATAGGTTTTCATTTTGCAAAAAAGTTTTGACATTTGAATTAAAAACTTAT
TTACGTGAGAATTATGTATCCTCTGATTCTTGGAAGAACTTCTGAAATTGACAAACTGTTAAGAG
TTATCTTATAACTTCGGTTCATTAAAGTATTCAAGACAATCCATTCCTTCTAGCAGTTTTTCGAA
CATTCCATTCTCGAGAAATCACATCAGTTGGTCAAAATAATTTGTCATTTTTGCGAAATCGCATC
ATTTTGAACATTCCA
Found at i:4009 original size:216 final size:216
Alignment explanation
Indices: 3399--7291 Score: 2994
Period size: 216 Copynumber: 17.9 Consensus size: 216
3389 TCGATTCCTT
* * ** * *
3399 ATCCATTCCTTCGAGCAATTTTTTGAACATTCCACACAT-GGGAAATCGCATCATTCGGTCTAAA
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGC-TCGAGAAATCGCATCATTTGGTCTAAA
* * * *
3463 TAGTTTCTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAAAAACATATTTACATGAGAATT-TT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * * * *
3527 TCATCTATTGGTTCATGGACAAAATTCCGATCTTGT-AGAAATTTTACGAGTTCTTTTATAACTT
130 TC-TCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCA-AACTTTTACGAGTTCTTTTATAACTT
*
3591 TGGTTCCTTAAAGTATTC-A-A-G
193 CGGTTCCTTAAAGTATTCAAGACG
* * * * *
3612 ATCCATTCTTTTGAACAATTTTTCAAACATTGCATGCTCGGGAAATCGCATCATTTGGTCT-AAT
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
* * * * * * * *
3676 AATTTATCATTTTTTAAACAAGCTTTGGCCTTTGAATTAAAAACTAATTTATGTGAAAATTGTTT
66 AGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * * ** *
3741 CTCTCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTAAGAGTTCTTTTATATTTTTGG
131 CTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
*
3806 TTCCTTCAAGTATTCAAGACG
196 TTCCTTAAAGTATTCAAGACG
* * * * * * *
3827 ATTCATTCTTTCGAGCAGTTTTTTGAACATTCCATGCTCGGGAAATCGCATAATTCGCTCTAAAT
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
* * * * *
3892 AGTTTTTCACTTTGTAATCAAGTTTTGGTGTTTGTATTAAAAACTTATTTACGTGAGAATTATTT
66 AGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * * * * *
3957 CGCACTTTGTTCTTGGATGAACTTTCGAACTTGTCAAAATTTTACAAGTTCTTTTTTAACTTCGG
131 CTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
*
4022 TTCTTTAAAGTATTCAAGACG
196 TTCCTTAAAGTATTCAAGACG
* * * * * * * *
4043 ATCCATTTCTTT-TAGTAGTTTTTCAAACATTCCATGCTCTAGAAATTGCATCATTCGGTTTAAA
1 ATCCA-TTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAA
* * *
4107 TAGTTTTTCATTTTGTAAACGAGTTTT--TTTTTTAATT-AAAACTTATTTACGTGAGAATTGTT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
*
4169 TCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTG
130 TCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* * *
4234 ATTCCTTAACGTATTTAAGACG
195 GTTCCTTAAAGTATTCAAGACG
* * ** * *
4256 ATCCAATCCTTT-GAGCAA-TTTTCTGAACATTCTATGCGAGAGAAATTGCATCATTTGGTCTCA
1 ATCC-ATTCTTTCGAGCAATTTTTC-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
*
4319 ATAGTTTTT-ATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
64 ATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* * * ** *
4383 GTCTCTCTTGGTTCTTGGACGAACTTCCAAACTCATTAAACTTTTACGAGTTCTTTTATAACTTC
129 TTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
** **
4448 TTTTCCTTAAAGTATTCAAGGTG
194 GGTTCCTTAAAGTATTCAAGACG
* * * * *
4471 ATCTAATCCTTT-GAGCAATTTTCCAGAGCATTCCATGCTCGAGAAGTCGCATCATTTGGTCTAA
1 ATC-CATTCTTTCGAGCAATTTTTC-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
* * * * *
4535 AAAGTTTGTCATTTTGTAAATAAG-TTTGGCCTTTGAATTAAAAACTTATTTACGCGAGAATTGT
64 ATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* * * * * *
4599 TTCTCTTTTGGTTGTTAGAC-AGACTTTCGAACATGTCAAACTTTTACAAGTTCTTTTTTAAC-T
129 TTCTCTCTTGGTTCTTGGACGA-ACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
*
4662 CAGGTTCCTTAAAGTGTTCAAGACG
193 C-GGTTCCTTAAAGTATTCAAGACG
* * * * ** *
4687 ATTCATTCCTTCGAGTAA-TTTTCTAAACATTCCACACTCTAGAAATCGCATCATTTGGTCTAAA
1 ATCCATTCTTTCGAGCAATTTTTC-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAA
* *
4751 TAGTTTTTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * *
4816 TCTCTCTTGGTTCTTGGACGAACTTTCAAAATTGACAAACTTTTACGAGTTATTTTATAACTTCA
130 TCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* *
4881 GTTCATTAAAGTATTGAAGACG
195 GTTCCTTAAAGTATTCAAGACG
* * * * * * * *
4903 ATCCATTCATTCTAGCAGTTTTTCAAACATTCTATTCTC-ATGAAATCACATAATTTGGTCTAAA
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGA-GAAATCGCATCATTTGGTCTAAA
* * ***
4967 TAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAAAACTT-TTTTTTTGAGAATTGTT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* ** *
5031 TCTCTCTTGGTTCTTTGACGAAC-TTCTGAACTTGTCAAA-TTTGCCAAGTTCTTTTATAACTTC
130 TCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
* *
5094 GATTCCTTAAAGTATTCAAGACA
194 GGTTCCTTAAAGTATTCAAGACG
* * * ** * * *
5117 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATACT-TAGGAAATATCATTATTTCGTCAAAA
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGA-GAAATCGCATCATTTGGTCTAAA
* * * * ** * *
5181 TAGTTTCTAACTTTGTAAACAAGTTTTAGTCTACGAATCAAAAACTTATTTACGTTG-GTATTGT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACG-TGAGAATTGT
* *
5245 TTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTTTCGAACTTTTACGAGTTCTTTTATAACTTC
129 TTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
5310 GGTTCCTTAAAGTATTCAAGACG
194 GGTTCCTTAAAGTATTCAAGACG
* * * *
5333 ATCC-TTACCTTT-GAG-AAATTTTCAAACATTCCATGCTC-AGCAAATCGCATCATTAGGTATA
1 ATCCATT--CTTTCGAGCAATTTTTCGAACATTCCATGCTCGAG-AAATCGCATCATTTGGTCTA
** *** * *
5394 AATAGTTTCTCTC-TTGGGTATAACTCTCGAAAAATCGCAG-CATTTG-GTCT--AAA--TAGTT
63 AATAGTTT-T-TCATTTTGTA-AA----C-AAGTTTTG--GTC-TTTGAAT-TAAAAACTTA-TT
* * ** * * ** * ** *
5452 T--GTCAAAAACGTTT-TGGC-CTTTG-ACTT--AAAAACTTATTTACGTGAGAATTGTTTATCT
115 TACGTGAGAATTGTTTCT--CTCTTGGTTCTTGGACGAAC---TTT-C--GA-ACTTGTCAAACT
* ** ** ** ** * * *
5510 CTT--G-GTTCTTGGACGACTTTTGAACCTTTCAAACT-TTTACGA-G
171 TTTACGAGTTCTTTTATAACTTCGGTTCC-TT-AAAGTATTCAAGACG
* * * ** * * * * *
5553 TTCTTTTATATCTTTGGTTCCTTAAAGTATTCAGGACGA-TCCATTCCTACGAGTAATTTTTCG-
1 ATC---CAT-TCTTTCG-AGC---AATTTTTC-GAAC-ATTCCA-TGCT-CGAG-AA---ATCGC
* * * * * * * * *
5616 AACATTTGATGCTCAGTAAATTACTTCATTTGGTCTAAA-TA-TTTT-GTCATTT-TA-TAAATA
50 ATCATTTGGT-CTAAAT-AGTT-TTTCATTT--TGTAAACAAGTTTTGGTC-TTTGAATTAAA-A
* * ** * * * *** * *
5676 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTTCTTGGACAA
108 A---CT--TATTT-ACGTGAGAA-TTGTTT-C-T--CTCTTG-GT-TCT--TGG-AC---G--AA
** * ** * *
5741 ACTTCCGAACTTGTCAAACTTTTAC-AGTTCTTTTATATCTTCTATTCTTTAAAGTATTCAAAAC
152 CTTT-CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGAC
5805 G
216 G
* ** * * * * *
5806 ATCCATTCCTTCGAGCAATTTACCAAACATTCCATGCTTG-GAAAATCGCATTATTTAGACTAAA
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAG-AAATCGCATCATTTGGTCTAAA
** * * *
5870 TAGTTCGTCATTTTGTAAACAAGTTTTGGTCTTTGAACTAAAAATTTATTTACGTGAGAATTATT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * *
5935 TCTCTCTTTGTTATTGGATGAA-TTTCTGAACTTGTCAAAC-TTTACCGATTTCTTTTATAACTT
130 TCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTA-CGAGTTCTTTTATAACTT
* * * * **
5998 CGATTCATTAAAGTGTTGAAGATT
193 CGGTTCCTTAAAGTATTCAAGACG
* * * * *
6022 ATCCATTC-TTCGAGTAATTTTTTGAACATTCCACGCTC-AGGAAATCGCACCGTTTGGTCTAAA
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGA-GAAATCGCATCATTTGGTCTAAA
* * * *
6085 TAGGTTTTCATTTTGTATAA-AAGTTTAGGTCTTTGAATTAAAATCTTATTTACATGAGAATTGT
65 TAGTTTTTCATTTTGTA-AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* * * * *
6149 TTCTCTCTTAGTTCTTGGACGAA-GTTCTGAA-AT-T--AAC--TTATGAGTTCATTTATAACTT
129 TTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
** *
6207 CAATTCCTTAAAGTATTCAAGGCG
193 CGGTTCCTTAAAGTATTCAAGACG
** * * * * *
6231 ATCCATTCCATCTAGCAGTTTTTCGAACATTTCATGCTCGAAAAATCACATCATTTGGTCTAAAT
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
* * **
6296 AGTTTGTCATTTTGTAAACAAGTTTAGGTCTTTGAATTAAAAACTTATTTATTTGAGAATTGTTT
66 AGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * * * * *
6361 TTCTTTTGATTCTTAGACGAACTTTCAAACTTGTCAAAC-TTTACCAAGTTCTTTTATAACTACG
131 CTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA-CGAGTTCTTTTATAACTTCG
*
6425 ATTCCTTAAAGTATTCAAGACG
195 GTTCCTTAAAGTATTCAAGACG
* * * * * *
6447 ATCCATTCCTTCGAGCAATTTTTCGAACATTTCACT-CTCGGGAAATTGTATCATTCGGTCTAAA
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCA-TGCTCGAGAAATCGCATCATTTGGTCTAAA
* * * *
6511 TAGTTTCTCATTTTGTAAATAAGTTTTGGTCTTTCAATCT-AAAACTTATTTACGTGACAATTGT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAAT-TAAAAACTTATTTACGTGAGAATTGT
* * *
6575 TTCTCTCTTGGTTCATGGACGAAC-TTCAGATCTT-TTAGAACTTTTACGAGTTCTTTTATAACT
129 TTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCA-AACTTTTACGAGTTCTTTTATAACT
* * *
6638 TTGGTTCCTTAGAGTATTCAAGATG
192 TCGGTTCCTTAAAGTATTCAAGACG
* * * *
6663 ATTCATTCCTTCGAGCAATTTTGTCGAACATTCCATGCTAGAGAAATCGCATCATTTGGTCAAAA
1 ATCCATTCTTTCGAGCAATTTT-TCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAA
* * * *
6728 AATTTTTGTCATTTTTTAAACAAG-TTTGGCCTTTGAATTAAAAAACTTATTTACGTGAGAATTG
65 TAGTTTT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATT-AAAAACTTATTTACGTGAGAATTG
* * *
6792 TTTCTCTCTTGCTTCTTGGACGAAC-TTCTGAACTTGTCAAACATTTACGAGTTCTTTTATATCT
128 TTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
** *
6856 TTTGTTCCTTCAAGTATTCAAGACG
192 TCGGTTCCTTAAAGTATTCAAGACG
* * * *
6881 ATCCATTCCTTT-GAGCAGTTTTTCGAACATTCCATGCTCGGGAAATCGCAACATTCGGTCTAAA
1 ATCCATT-CTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAA
* * * * * * *
6945 TAGTTTTTCATTTCGTAATCAAGCTTTGGTGTTTGTATTAAAAACTTATTTACATGAGAATTATT
65 TAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * * *
7010 TCTCTCTCT-ATCCTTAGACGAACTTTCAAACTTGTCAAAATTTTACAAGTTCTTTT-TCAACTT
130 TCTCTCT-TGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTAT-AACTT
*** * *
7073 CGAAACATTAAAGTATTCATGACG
193 CGGTTCCTTAAAGTATTCAAGACG
* *** * * * * * * * **
7097 ATTCATTCCAACTAGTAGTCTTTCGAACATTCCATGCTCGGGAAATCGTATCAGTCAGTCTAAAT
1 ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
* * * *
7162 AGTTTTCCATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAAGTTATTTACGTAAGAATTGTTT
66 AGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * *
7227 CTCTCTTGGTTCTTGGATGAACTTCCGAAATTGACAAACTTTTACGAGTTCTTTTATAACTTCGG
131 CTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
7292 AAAATAGTAT
Statistics
Matches: 2910, Mismatches: 606, Indels: 325
0.76 0.16 0.08
Matches are distributed among these distances:
209 42 0.01
210 121 0.04
211 8 0.00
212 144 0.05
213 208 0.07
214 158 0.05
215 510 0.18
216 1139 0.39
217 147 0.05
218 132 0.05
219 18 0.01
220 21 0.01
221 12 0.00
222 15 0.01
223 15 0.01
224 7 0.00
225 2 0.00
226 2 0.00
227 1 0.00
228 2 0.00
229 13 0.00
230 14 0.00
231 10 0.00
232 6 0.00
233 4 0.00
234 7 0.00
235 8 0.00
236 25 0.01
237 16 0.01
238 13 0.00
239 12 0.00
240 3 0.00
241 3 0.00
242 1 0.00
243 6 0.00
244 8 0.00
245 4 0.00
247 2 0.00
248 1 0.00
249 6 0.00
250 2 0.00
251 14 0.00
252 8 0.00
253 15 0.01
254 3 0.00
257 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (216 bp):
ATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
AGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
CTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
TTCCTTAAAGTATTCAAGACG
Found at i:4718 original size:860 final size:859
Alignment explanation
Indices: 3067--7288 Score: 4097
Period size: 860 Copynumber: 4.9 Consensus size: 859
3057 NNNNNNNNNN
* * * * *
3067 AGTTTTGGTATTTGAATTAAAAACTTATTTACGTGAGAATTATTTATC-CTCTGATTCTTAGACG
1 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTTGGACG
* * * * *
3131 AACTTTTGAAATTGACAAACTTTTA-AGAGTTCTCTTATAACTTCTGTTCATTAAAGTATTCAAG
65 AACTTTCGAACTTGTCAAACTTTTACA-AGTTCTTTTATAACTTCGGTTCATTAAAGTATTCAAG
* ** * * * * * *
3195 ACAATCCATTCCTTCTAGCAGTTTTTTGAACATTTCATTCTCAAGAAATCACATTAGTTGGTCTA
129 ACGATCCATTCCTTCTAGCAGTTTTTCAAACATTCCATGCTCTAGAAATCGCATCATTTGGTCTA
** *
3260 AATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTATTTGAGAATTT
194 AATAGTTTGTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACTTATTTACGTGAGAATTG
* * * * * *
3325 TTTTTCCCTTGGTTCTTGGACGAAC-TTCCGAACTTGTCAAACTTTTCCAAGTCCTTTTATAACT
258 TTTCTCTCTTGGTTCTTGGACGAACTTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
** *
3389 TCGATTCC--------TT-------ATCCATTCCTTCGAGCAATTTTTTGAACATTCCACACATG
323 TCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA-TTTTTGAACATTCCATGC-TA
* *
3439 GGAAATCGCATCATTCGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGGTCTTTCAATTAA
386 GGAAATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * * * * * *
3504 AAACATATTTACATGAGAATT-TTTCATCTATTGGTTCATGGACAAAATTCCGATCT-TGTAGAA
450 AAACTTATTTACATGAGAATTGTTTC-TCTCTTGGTTCTTGGACGAACTTCCAAACTAT-TA-AA
* * * * * *
3567 ATTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTC-A-A-GATCCATTCTTTTGAACA
512 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCTATTCCTTTGAGCA
* * * * *
3629 ATTTTTCA-AACATTGCATGCTCGGGAAATCGCATCATTTGGTCTAATAA-TTTATCATTTTTTA
577 A-TTTTCAGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTA
* * *
3692 AACAAGCTTTGGCCTTTGAATTAAAAACTAATTTATGTGAAAATTGTTTCTCTCTTGGTTCTTGG
641 AACAAGCTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * * ** * *
3757 ACAAACTTCCAAACTTGTCAAACTTTTA-AGAGTTCTTTTATATTTTTGGTTCCTTCAAGTATTC
706 AC-GACTTTCGAACATGTCAAACTTTTACA-AGTTCTTTTATAACTTAGGTTCCTTAAAGTATTC
* * * * * *
3821 AAGACGATTCATTCTTTCGAGCAGTTTTTTGAACATTCCATGCTCGGGAAATCGCATAATTCGCT
769 AAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGT
*
3886 CTAAATAGTTTTTCACTTTGT-AATCA
834 CTAAATAGTTTTTCATTTTGTAAAT-A
* * * * * * *
3912 AGTTTTGGTGTTTGTATTAAAAACTTATTTACGTGAGAATTATTTCGCACTTTGTTCTTGGATGA
1 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
* * *
3977 ACTTTCGAACTTGTCAAAATTTTACAAGTTCTTTTTTAACTTCGGTTCTTTAAAGTATTCAAGAC
66 ACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCATTAAAGTATTCAAGAC
* * * * * *
4042 GATCCATTTCTTTTAGTAGTTTTTCAAACATTCCATGCTCTAGAAATTGCATCATTCGGTTTAAA
131 GATCCATTCCTTCTAGCAGTTTTTCAAACATTCCATGCTCTAGAAATCGCATCATTTGGTCTAAA
* * * *
4107 TAGTTTTTCATTTTGTAAACGAGTTTT-TTTTTTAATT-AAAACTTATTTACGTGAGAATTGTTT
196 TAGTTTGTCATTTTGTAAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
*
4170 CTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTG
261 CTCTCTTGGTTCTTGGACGAACTTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* * * * * *
4234 ATTCCTTAACGTATTTAAGACGATCCAATCCTTTGAGCAATTTTCTGAACATTCTATGCGAGAGA
326 ATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT-TGAACATTCCATGCTAG-GA
* * * *
4299 AATTGCATCATTTGGTCTCAATAGTTTTTATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAAC
389 AATCGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAAC
* *
4364 TTATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTCATTAAACTTTTA
454 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACT-ATTAAACTTTTA
** ** *
4429 CGAGTTCTTTTATAACTTCTTTTCCTTAAAGTATTCAAGGTGATCTAATCCTTTGAGCAATTTTC
518 CGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCTATTCCTTTGAGCAATTTT-
* * *
4494 CAGAGCATTCCATGCTCGAGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAATAAG
582 CAGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAG
* * * *
4559 -TTTGGCCTTTGAATTAAAAACTTATTTACGCGAGAATTGTTTCTCTTTTGGTTGTTAGACAGAC
647 CTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC-GAC
* * *
4623 TTTCGAACATGTCAAACTTTTACAAGTTCTTTTTTAACTCAGGTTCCTTAAAGTGTTCAAGACGA
711 TTTCGAACATGTCAAACTTTTACAAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGA
* * * ** ** *
4688 TTCATTCCTTCGAGTAA-TTTTCTAAACATTCCACACTCTAGAAATCGCATCATTTGGTCTAAAT
776 TCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTCGGTCTAAAT
*
4752 AGTTTTTCATTTTGTAAAAA
840 AGTTTTTCATTTTGTAAATA
*
4772 AGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
1 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
* * * * * * *
4837 ACTTTCAAAATTGACAAACTTTTACGAGTTATTTTATAACTTCAGTTCATTAAAGTATTGAAGAC
66 ACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCATTAAAGTATTCAAGAC
* * * * *
4902 GATCCATTCATTCTAGCAGTTTTTCAAACATTCTATTCTC-ATGAAATCACATAATTTGGTCTAA
131 GATCCATTCCTTCTAGCAGTTTTTCAAACATTCCATGCTCTA-GAAATCGCATCATTTGGTCTAA
* ***
4966 ATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAAAACTT-TTTTTTTGAGAATTGT
195 ATAGTTTGTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* ** *
5030 TTCTCTCTTGGTTCTTTGACGAAC-TTCTGAACTTGTCAAA-TTTGCCAAGTTCTTTTATAACTT
259 TTCTCTCTTGGTTCTTGGACGAACTTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* *
5093 CGATTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTTCGAACATTCCATACTTAG
324 CGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT-GAACATTCCATGC-TAG
** * * * * * * ** *
5158 GAAATATCATTATTTCGTCAAAATAGTTTCTAACTTTGTAAACAAGTTTTAGTCTACGAATCAAA
387 GAAATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAA
* * * * * *
5223 AACTTATTTACGTTG-GTATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTTTCGAACT
451 AACTTATTTAC-ATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTATT-AAACT
* * *
5287 TTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCT-TACCTTTGAGAAA
514 TTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGAT-CTATTCCTTTGAGCAA
5351 TTTTCA-AACATTCCATGCTC-AGCAAATCGCATCATTAGGTATAAATAGTTTCTCTCTTGGGTA
578 TTTTCAGAACATTCCATGCTCGAG-AAATCGCATC-------------A-------T-TT-GG--
* *
5414 TAACTCTCGAAAAATCGCAGCATTTGGTCTAAATAGTTTGTCAAA-AACGTTTTGGCCTTTGACT
618 ----TCT---AAAA----AG--TTT-GTC---AT--TTTGT-AAACAA-GCTTTGGCCTTTGAAT
* * * *
5478 TAAAAACTTATTTACGTGAGAATTGTTTATCTCTTGGTTCTTGGACGACTTTTGAACCTTTCAAA
662 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGACTTTCGAACATGTCAAA
* * * * * *
5543 CTTTTACGAGTTCTTTTATATCTTTGGTTCCTTAAAGTATTCAGGACGATCCATTCCTACGAGTA
727 CTTTTACAAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
** * * ** * * *
5608 ATTTTTCGAACATTTGATGCTCAGTAAATTACTTCATTTGGTCTAAATA-TTTTGTCATTTTATA
792 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGTCTAAATAGTTTT-TCATTTTGTA
5672 AATA
856 AATA
* *
5676 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTTCTTGGACAA
1 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
* * ** * *
5741 ACTTCCGAACTTGTCAAACTTTTAC-AGTTCTTTTATATCTTCTATTCTTTAAAGTATTCAAAAC
66 ACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCATTAAAGTATTCAAGAC
* * ** * * * *
5805 GATCCATTCCTTCGAGCAATTTACCAAACATTCCATGCT-TGGAAAATCGCATTATTTAGACTAA
131 GATCCATTCCTTCTAGCAGTTTTTCAAACATTCCATGCTCTAG-AAATCGCATCATTTGGTCTAA
* * * *
5869 ATAGTTCGTCATTTTGTAAACAAGTTTTGGTCTTTGAACTAAAAATTTATTTACGTGAGAATTAT
195 ATAGTTTGTCATTTTGTAAACAAGTTTT-GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* * * *
5934 TTCTCTCTTTGTTATTGGATGAA-TTTCTGAACTTGTCAAAC-TTTACCGATTTCTTTTATAACT
259 TTCTCTCTTGGTTCTTGGACGAACTTTCTGAACTTGTCAAACTTTTA-CGAGTTCTTTTATAACT
* * * ** * *
5997 TCGATTCATTAAAGTGTTGAAGATTATCCATT-CTTCGAGTAATTTTTTGAACATTCCACGCTCA
323 TCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA-TTTTTGAACATTCCATGCT-A
* * *
6061 GGAAATCGCACCGTTTGGTCTAAATAGGTTTTCATTTTGTATAA-AAGTTTAGGTCTTTGAATTA
386 GGAAATCGCATCATTTGGTCTAAATA-GTTTTCATTTTGTA-AACAAGTTTTGGTCTTTGAATTA
* * * **
6125 AAATCTTATTTACATGAGAATTGTTTCTCTCTTAGTTCTTGGACGAAGTTCTGAA--ATT-AAC-
449 AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTATTAAACT
* * * * * *
6186 -TTATGAGTTCATTTATAACTTCAATTCCTTAAAGTATTCAAGGCGATCCATTCCATCT-AGCAG
514 TTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCTATTCC-TTTGAGCA-
* * * * *
6249 TTTTTC-GAACATTTCATGCTCGAAAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
577 ATTTTCAGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAA
* ** * * * *
6313 ACAAG-TTTAGGTCTTTGAATTAAAAACTTATTTATTTGAGAATTGTTTTTCTTTTGATTCTTAG
642 ACAAGCTTT-GGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * *
6377 ACGAACTTTCAAACTTGTCAAAC-TTTACCAAGTTCTTTTATAAC-TACGATTCCTTAAAGTATT
706 ACG-ACTTTCGAACATGTCAAACTTTTA-CAAGTTCTTTTATAACTTA-GGTTCCTTAAAGTATT
* * *
6440 CAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTTCACT-CTCGGGAAATTGTATCATTCG
768 CAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCA-TGCTCGGGAAATCGCATCATTCG
*
6504 GTCTAAATAGTTTCTCATTTTGTAAATA
832 GTCTAAATAGTTTTTCATTTTGTAAATA
* * *
6532 AGTTTTGGTCTTTCAATCT-AAAACTTATTTACGTGACAATTGTTTCTCTCTTGGTTCATGGACG
1 AGTTTTGGTCTTTGAAT-TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG
* * * * * *
6596 AAC-TTCAGATCTT-TTAGAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAGAGTATTCAA
65 AACTTTC-GAACTTGTCA-AACTTTTACAAGTTCTTTTATAACTTCGGTTCATTAAAGTATTCAA
* * * * * **
6659 GATGATTCATTCCTTCGAGCAATTTTGTCGAACATTCCATGCTAGAGAAATCGCATCATTTGGTC
128 GACGATCCATTCCTTCTAGCAGTTTT-TCAAACATTCCATGCTCTAGAAATCGCATCATTTGGTC
* * * * * *
6724 AAAAAATTTTTGTCATTTTTTAAACAAGTTTGGCCTTTGAATTAAAAAACTTATTTACGTGAGAA
192 TAAATA-GTTTGTCATTTTGTAAACAAGTTTTGTCTTTGAATT-AAAAACTTATTTACGTGAGAA
* *
6789 TTGTTTCTCTCTTGCTTCTTGGACGAAC-TTCTGAACTTGTCAAACATTTACGAGTTCTTTTATA
255 TTGTTTCTCTCTTGGTTCTTGGACGAACTTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * *
6853 TCTTTTG-TTCCTTCAAGTATTCAAGACGATCCATTCCTTTGAGCAGTTTTTCGAACATTCCATG
320 AC-TTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT-GAACATTCCATG
* * * * * * * *
6917 CTCGGGAAATCGCAACATTCGGTCTAAATAGTTTTTCATTTCGTAATCAAGCTTTGGTGTTTGTA
383 CT-AGGAAATCGCATCATTTGGTCTAAATAG-TTTTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * * * *
6982 TTAAAAACTTATTTACATGAGAATTATTTCTCTCTCT-ATCCTTAGACGAACTTTCAAACT-TGT
446 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCT-TGGTTCTTGGACGAACTTCCAAACTAT-T
* * ** * * *
7045 CAAAATTTTACAAGTTCTTTT-TCAACTTCGAAACATTAAAGTATTCATGACGAT-TCATTCCAA
509 -AAACTTTTACGAGTTCTTTTAT-AACTTCGATTCCTTAAAGTATTCAAGACGATCT-ATTCC-T
* * * * * * ** *
7108 CT-AGTAGTCTTTC-GAACATTCCATGCTCGGGAAATCGTATCAGTCAGTCTAAATAGTTT-TCC
570 TTGAGCAAT-TTTCAGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGT-C
* * *
7170 ATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAAGTTATTTACGTAAGAATTGTTTCTCTCTTG
633 ATTTTGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* * * *
7235 GTTCTTGGATGAACTTCCGAA-ATTGACAAACTTTTACGAGTTCTTTTATAACTT
698 GTTCTTGGACG-ACTTTCGAACA-TGTCAAACTTTTACAAGTTCTTTTATAACTT
7289 CGGAAAATAG
Statistics
Matches: 2785, Mismatches: 446, Indels: 270
0.80 0.13 0.08
Matches are distributed among these distances:
842 82 0.03
843 11 0.00
845 184 0.07
846 3 0.00
850 2 0.00
854 3 0.00
855 63 0.02
856 318 0.11
857 116 0.04
858 49 0.02
859 148 0.05
860 541 0.19
861 126 0.05
862 199 0.07
863 11 0.00
864 4 0.00
865 3 0.00
866 183 0.07
867 8 0.00
868 3 0.00
871 3 0.00
873 1 0.00
877 2 0.00
878 2 0.00
879 1 0.00
880 1 0.00
881 2 0.00
882 2 0.00
886 1 0.00
888 3 0.00
891 4 0.00
895 2 0.00
897 4 0.00
898 51 0.02
899 29 0.01
900 4 0.00
901 2 0.00
902 3 0.00
903 139 0.05
904 360 0.13
905 112 0.04
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (859 bp):
AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
ACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCATTAAAGTATTCAAGAC
GATCCATTCCTTCTAGCAGTTTTTCAAACATTCCATGCTCTAGAAATCGCATCATTTGGTCTAAA
TAGTTTGTCATTTTGTAAACAAGTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
CTCTCTTGGTTCTTGGACGAACTTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
ATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTGAACATTCCATGCTAGGAAA
TCGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTT
ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTATTAAACTTTTACGA
GTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCTATTCCTTTGAGCAATTTTCAGA
ACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGCTTT
GGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGACTTTCG
AACATGTCAAACTTTTACAAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
TCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGTCTAAATAGTTTT
TCATTTTGTAAATA
Found at i:7431 original size:154 final size:154
Alignment explanation
Indices: 7154--7442 Score: 456
Period size: 154 Copynumber: 1.9 Consensus size: 154
7144 GTATCAGTCA
* * *
7154 GTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAAGTTATTTACGTAAG
1 GTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTGACGTAAG
* * *
7219 AATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAAATTGACAAACTTTTACGAGTTCTTTTAT
66 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAATTGACAAACTTTGACAAGTTCTTTTAT
7284 AACTTCGGAAAATAGTATCATTTG
131 AACTTCGGAAAATAGTATCATTTG
* *
7308 GTCTAAATAGTTTGT-CATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTGACGTGA
1 GTCTAAATAGTTT-TCCATTTTGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTGACGTAA
* *
7372 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCC-AAACTTGTCAAACTTTGGCAAGTTCTTTT
65 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAA-TTGACAAACTTTGACAAGTTCTTTT
7436 ATAACTT
129 ATAACTT
7443 TGATTCCTTA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
153 3 0.02
154 119 0.97
155 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (154 bp):
GTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTGACGTAAG
AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAATTGACAAACTTTGACAAGTTCTTTTAT
AACTTCGGAAAATAGTATCATTTG
Found at i:7639 original size:370 final size:370
Alignment explanation
Indices: 6932--7658 Score: 935
Period size: 370 Copynumber: 2.0 Consensus size: 370
6922 GAAATCGCAA
* * ** * *
6932 CATTCGGTCTAAATAGTTTTTCATTTCGTAATCAAGCTTTGGTGTTTGTATTAAAAACTTATTTA
1 CATTCGGTCTAAATAGTTTGTCATTTCGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTGA
* *
6997 CATGAGAATTATTTCTCTCTCTATCCTTAGACGAACTTTCAAACTTGTCAAAATTTTACAAGTTC
66 CATGAGAATTATTTCTCTCTCTATCCTTAGACGAACTTCCAAACTTGTCAAAATTTGACAAGTTC
* * * * *
7062 TTTTTCAACTTCGAAACATTAAAGTATTCATGACGATTCATTCCAACTAGTAGTCTTTCGAACAT
131 TTTTTCAACTTCGAAACATTAAAGCATTCAAGACGATCCATTCCAACTAGCAATCTTTCGAACAT
* * *
7127 TCCATGCTCGGGAAATCGTATCAGTCAGTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGTC
196 TCCATGCTCGGGAAATCGCATCAGTCAGTCTAAATAGTTTTACATTTTGTAAACAAGCTTTAGTC
* * * * *
7192 TTTGAATTAAAAAGTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAAA
261 TTTCAATTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGATTCATGGACGAACTTCCGAAA
7257 TTGACAAACTTTTACGAGTTCTTTTATAACTTCGGAAAATAGTAT
326 TTGACAAACTTTTACGAGTTCTTTTATAACTTCGGAAAATAGTAT
* * *
7302 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTGA
1 CATTCGGTCTAAATAGTTTGTCATTTCGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTGA
* * * * * * *
7367 CGTGAGAATTGTTTCTCTCT-TGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTTGGCAAGTT
66 CATGAGAATTATTTCTCTCTCT-ATCCTTAGACGAACTTCCAAACTTGTCAAAATTTGACAAGTT
* ** * ** *
7431 CTTTTAT-AACTTTGATTCCTTAAAGCATTCAAGACGATCCATTCC-TTTGAGCAATTTTTCGAA
130 CTTTT-TCAACTTCGAAACATTAAAGCATTCAAGACGATCCATTCCAACT-AGCAATCTTTCGAA
* * * *
7494 CATTCCACT-CTCGGGAAATTGCATCATTC-GATCTAAATATTTTTACATTTTGTAAACAAGTTT
193 CATTCCA-TGCTCGGGAAATCGCATCAGTCAG-TCTAAATAGTTTTACATTTTGTAAACAAGCTT
* *
7557 TAGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGATTCATGGACGAACTTT
256 TAGTCTTTCAATTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGATTCATGGACGAACTTC
** *
7622 CGATCTTGTA-GAACTTTTACGAGTTCTTTTATAACTT
321 CGAAATTG-ACAAACTTTTACGAGTTCTTTTATAACTT
7659 TGGTTCCTTA
Statistics
Matches: 304, Mismatches: 47, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
369 3 0.01
370 298 0.98
371 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (370 bp):
CATTCGGTCTAAATAGTTTGTCATTTCGTAAACAAGCTTTGGCCTTTGAATTAAAAACTTATTGA
CATGAGAATTATTTCTCTCTCTATCCTTAGACGAACTTCCAAACTTGTCAAAATTTGACAAGTTC
TTTTTCAACTTCGAAACATTAAAGCATTCAAGACGATCCATTCCAACTAGCAATCTTTCGAACAT
TCCATGCTCGGGAAATCGCATCAGTCAGTCTAAATAGTTTTACATTTTGTAAACAAGCTTTAGTC
TTTCAATTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGATTCATGGACGAACTTCCGAAA
TTGACAAACTTTTACGAGTTCTTTTATAACTTCGGAAAATAGTAT
Found at i:7688 original size:216 final size:215
Alignment explanation
Indices: 7300--8738 Score: 1732
Period size: 216 Copynumber: 6.7 Consensus size: 215
7290 GGAAAATAGT
* * *
7300 ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATT
1 ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
* * * ** *
7365 GACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTTGGCAAGT
66 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGT
* *
7430 TCTTTTATAACTTTGATTCCTTAAAGCATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAAC
131 TCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTT-AGCAATTTTTCGAAC
* *
7495 ATTCCACT-CTCGGGAAATTGC
195 ATTCCA-TGCTCGAGAAATCGC
* * *
7516 ATCATTCGATCTAAATA-TTTTTACATTTTGTAAACAAGTTTTAGTCTTTCAATTAAAAACTTAT
1 ATCATTCGGTCTAAATAGTTTTT-CATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTAT
* * *
7580 TTACGTGAGAATTGTTTCTCTCTTGATTCATGGACGAACTTTCGATCTTGT-AGAACTTTTACGA
65 TTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCA-AACTTTTACGA
* * * * * *
7644 GTTCTTTTATAACTTTGGTTCCTTAGAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCCA
129 GTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTT-TAGCAATTTTTCGA
*
7709 ACATTTCATGCTCGAGAAATCGC
193 ACATTCCATGCTCGAGAAATCGC
* * * * * *
7732 ATCATTTGGTCTAAA-AATTTTGT-ATTTTTTTAAACAAGTTTTGGCCATTAAATTAAAAACTTA
1 ATCATTCGGTCTAAATAGTTTT-TCA-TTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTA
** * *
7795 TTTGTGTGAGAATTGTTTCTCTCTTGGTTATTAGGA-AAACTTTCGAACTTGTCAAACTTTTACG
64 TTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTTCGAACTTGTCAAACTTTTACG
* * * * * * *
7859 AGTTCTTTTATATA-TTTGGTTCCTTCAAGTATTCAAAACGATCTAGTCCTTCGAGCAATTTTTC
128 AGTTCTTTTATA-ACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTT-TAGCAATTTTTC
*
7923 GAACATTTCATGCTCGAGAAATCGC
191 GAACATTCCATGCTCGAGAAATCGC
* * *
7948 ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGCCTTTGAATTATAAACTTACT
1 ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
* * * *
8013 TACGTGAGAATTGTTTCTCTCTTAGTTCTTGGACAAATTTTTGAACTTGTCAAACTTTTACGAGT
66 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGT
* * *
8078 TCTTTTATAACTCCGATTCCTTAAAGTATTCAAGACGATTCATTCCTTCTA--ATAGTTTTCTGA
131 TCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTT-TAGCA-ATTTTTC-GA
*
8141 ACATTCCATGCTCGGGAAATCGC
193 ACATTCCATGCTCGAGAAATCGC
* *
8164 ATCATTCGGTCTAAATAGTTTTTCATATTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATT
1 ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
* * * * *
8229 TATGTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACAAGT
66 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGT
* * ** *** **
8294 TCTTTTTTAACTTCGATTCCTTAAAGTATTCAAGACGGTCCATTTCCGCTAGTTGTTTTTTAAAC
131 TCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCA-TTCCTTTAGCAATTTTTCGAAC
* *
8359 ATTCCATTCTCGGGAAATCGC
195 ATTCCATGCTCGAGAAATCGC
* * * ** *
8380 ATCATTCAGTCCAAATAGTTTTTCATTTTGTAATCAAGTTTTGGTCTTTCTATTAAAAATTTATT
1 ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
* * * * * *
8445 TACGTGAGAATTATTTCTCTCTTTGTTGTTGGATGAACTTTCAAACTTGTCAAACTTTTACAAGT
66 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGT
* * *
8510 TCTTTTTTAACTTCGGTTCCTTAACGTATTCAAGACGATCCATTCCTTCTAGCAATTTTTCGAAC
131 TCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTT-TAGCAATTTTTCGAAC
8575 ATTCCATGCTCGAGAAATCGC
195 ATTCCATGCTCGAGAAATCGC
* * * * * *
8596 ATCATTCGATCTAAATAGTTTTTCATTTTGTAAACAAATTTT-TTCTCTGAATTAAAAACATGTT
1 ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
* * * * * *
8660 TATGCGAGAATTGTTTCTCTCTTGGTTCTTGTACTAAC-TTCTAAACATGTGT-AAACTTTTATG
66 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAAC-T-TGTCAAACTTTTACG
8723 AGTTCTTTTATAACTT
128 AGTTCTTTTATAACTT
8739 AATTTAGCTA
Statistics
Matches: 1058, Mismatches: 142, Indels: 46
0.85 0.11 0.04
Matches are distributed among these distances:
214 4 0.00
215 71 0.07
216 960 0.91
217 23 0.02
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (215 bp):
ATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGT
TCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTTAGCAATTTTTCGAACA
TTCCATGCTCGAGAAATCGC
Found at i:7795 original size:802 final size:804
Alignment explanation
Indices: 6484--8089 Score: 2031
Period size: 802 Copynumber: 2.0 Consensus size: 804
6474 CATTTCACTC
* * * *
6484 TCGGGAAATTGTATCATTCGGTCTAAATAGTTTCTCATTTTGTAAATAAGTTTTGGTCTTTCAAT
1 TCGGAAAATAGTATCATTCGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGGCCTTTCAAT
* * *
6549 CTAAAACTTATTTACGTGACAATTGTTTCTCTCTTGGTTCATGGACGAACTTCAGATCTTTTAGA
66 CTAAAACTTATTGACGTGACAATTGTTTCTCTCTTGGTTCATGGACGAACTTCAGAACTTTCAGA
* * * * * * *
6614 ACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAGAGTATTCAAGATGATTCATTCCTTCGAGC
131 ACTTTGACAAGTTCTTTTATAACTTTGATTCCTTAAAGCATTCAAGACGATCCATTCCTTCGAGC
* * * *
6679 AATTTTGTCGAACATTCCATGCTAGAGAAATCGCATCATTTGGTCAAAAAATTTTTGTCATTTTT
196 AATTTTGTCGAACATTCCATGCTAGAGAAATCGCATCATTCGATCAAAAAATTTTTGACATTTTG
* * * *
6744 TAAACAAGTTTGGCCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGCTTCTT
261 TAAACAAGTTTAGCCTTTCAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGATTCAT
* *
6809 GGACGAACTTCTGAACTTGTCAAACATTTACGAGTTCTTTTATATCTTTTGTTCCTTCAAGTATT
326 GGACGAACTTCTGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTTGGTTCCTTCAAGTATT
* * * *
6874 CAAGACGATCCATTCCTTTGAGCAGTTTTTCGAACATTCCATGCTCGGGAAATCGCAACATTCGG
391 CAAGACGATCCATTCCTTCGAGCAATTTTTCCAACATTCCATGCTCGAGAAATCGCAACATTCGG
* * *** **
6939 TCTAAATAGTTTTTCATTTCGTAATCAAGCTTTGGTGTTTGTATTAAAAACTTATTTACATGAGA
456 TCTAAATAATTTTTCATTTCGTAAACAAGCTTTGGCCATTAAATTAAAAACTTATTTACATGAGA
* *
7004 ATTATTTCTCTCTCT-ATCCTTA-GACGAACTTTCAAACTTGTCAAAATTTTACAAGTTCTTTT-
521 ATTATTTCTCTCT-TGATCATTAGGA-AAACTTTCAAACTTGTCAAAATTTTACAAGTTCTTTTA
** * * * *
7066 TCA-ACTTCGAAACATTAAAGTATTCATGACGAT-TCATTCCAACTAGTAGTCTTTCGAACATTC
584 T-ATA-TTCGAAACATTAAAGTATTCAAAACGATCT-AGTCCAACGAGCAATCTTTCGAACATTC
* * *
7129 CATGCTCGGGAAATCGTATCAGTCAGTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGTCTT
646 CATGCTCGAGAAATCGCATCAGTCAGTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGCCTT
* * * **
7194 TGAATTAAAAAGTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAAATT
711 TGAATTAAAAACTTACTTACGTAAGAATTGTTTCTCTCTTAGTTCTTGGACAAACTTCCGAAATT
7259 GACAAACTTTTACGAGTTCTTTTATAACT
776 GACAAACTTTTACGAGTTCTTTTATAACT
* * *
7288 TCGGAAAATAGTATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAAT
1 TCGGAAAATAGTATCATTCGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGGCCTTTCAAT
* *
7353 -TAAAAACTTATTGACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCA-AACTTGTC
66 CT-AAAACTTATTGACGTGACAATTGTTTCTCTCTTGGTTCATGGACGAACTT-CAGAACTT-TC
* *
7416 A-AACTTTGGCAAGTTCTTTTATAACTTTGATTCCTTAAAGCATTCAAGACGATCCATTCCTTTG
128 AGAACTTTGACAAGTTCTTTTATAACTTTGATTCCTTAAAGCATTCAAGACGATCCATTCCTTCG
* * * * *
7480 AGCAATTTT-TCGAACATTCCACT-CTCGGGAAATTGCATCATTCGATCTAAATATTTTT-ACAT
193 AGCAATTTTGTCGAACATTCCA-TGCTAGAGAAATCGCATCATTCGATCAAAAAATTTTTGACAT
*
7542 TTTGTAAACAAGTTTTAGTCTTTCAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGA
257 TTTGTAAACAAG-TTTAGCCTTTCAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGA
* *
7606 TTCATGGACGAACTT-TCGATCTTGT-AGAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTT-
321 TTCATGGACGAACTTCT-GAACTTGTCA-AACATTTACGAGTTCTTTTATAACTTTGGTTCCTTC
* *
7668 AGAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCCAACATTTCATGCTCGAGAAATCGCA
384 A-AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCCAACATTCCATGCTCGAGAAATCGCA
* * ** *
7733 TCATTTGGTCTAAA-AATTTTGT-ATTTTTTTAAACAAGTTTTGGCCATTAAATTAAAAACTTAT
448 ACATTCGGTCTAAATAATTTT-TCA-TTTCGTAAACAAGCTTTGGCCATTAAATTAAAAACTTAT
*** * * * * * *
7796 TTGTGTGAGAATTGTTTCTCTCTTGGTTATTAGGAAAACTTTCGAACTTGTCAAACTTTTACGAG
511 TTACATGAGAATTATTTCTCTCTTGATCATTAGGAAAACTTTCAAACTTGTCAAAATTTTACAAG
* *** * * ** *
7861 TTCTTTTATATATTTGGTTCCTTCAAGTATTCAAAACGATCTAGTCCTTCGAGCAATTTTTCGAA
576 TTCTTTTATATATTCGAAACATTAAAGTATTCAAAACGATCTAGTCCAACGAGCAATCTTTCGAA
* * * * *
7926 CATTTCATGCTCGAGAAATCGCATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTG
641 CATTCCATGCTCGAGAAATCGCATCAGTCAGTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTG
* * * **
7991 GCCTTTGAATTATAAACTTACTTACGTGAGAATTGTTTCTCTCTTAGTTCTTGGACAAATTTTTG
706 GCCTTTGAATTAAAAACTTACTTACGTAAGAATTGTTTCTCTCTTAGTTCTTGGACAAACTTCCG
* *
8056 AACTTGTCAAACTTTTACGAGTTCTTTTATAACT
771 AAATTGACAAACTTTTACGAGTTCTTTTATAACT
8090 CCGATTCCTT
Statistics
Matches: 684, Mismatches: 103, Indels: 32
0.84 0.13 0.04
Matches are distributed among these distances:
801 10 0.01
802 439 0.64
803 58 0.08
804 173 0.25
805 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (804 bp):
TCGGAAAATAGTATCATTCGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGGCCTTTCAAT
CTAAAACTTATTGACGTGACAATTGTTTCTCTCTTGGTTCATGGACGAACTTCAGAACTTTCAGA
ACTTTGACAAGTTCTTTTATAACTTTGATTCCTTAAAGCATTCAAGACGATCCATTCCTTCGAGC
AATTTTGTCGAACATTCCATGCTAGAGAAATCGCATCATTCGATCAAAAAATTTTTGACATTTTG
TAAACAAGTTTAGCCTTTCAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGATTCAT
GGACGAACTTCTGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTTGGTTCCTTCAAGTATT
CAAGACGATCCATTCCTTCGAGCAATTTTTCCAACATTCCATGCTCGAGAAATCGCAACATTCGG
TCTAAATAATTTTTCATTTCGTAAACAAGCTTTGGCCATTAAATTAAAAACTTATTTACATGAGA
ATTATTTCTCTCTTGATCATTAGGAAAACTTTCAAACTTGTCAAAATTTTACAAGTTCTTTTATA
TATTCGAAACATTAAAGTATTCAAAACGATCTAGTCCAACGAGCAATCTTTCGAACATTCCATGC
TCGAGAAATCGCATCAGTCAGTCTAAATAGTTTTCCATTTTGTAAACAAGCTTTGGCCTTTGAAT
TAAAAACTTACTTACGTAAGAATTGTTTCTCTCTTAGTTCTTGGACAAACTTCCGAAATTGACAA
ACTTTTACGAGTTCTTTTATAACT
Found at i:7853 original size:586 final size:587
Alignment explanation
Indices: 6713--7870 Score: 1501
Period size: 586 Copynumber: 2.0 Consensus size: 587
6703 GAGAAATCGC
* *
6713 ATCATTTGGTCAAAAAATTTTTGTCATTTTTTAAACAAGTTTGGCCTTTGAATTAAAAAACTTAT
1 ATCATTTGGTCAAAAAATGTTTGTCATTTTGTAAACAAGTTTGGCCTTTGAATTAAAAAACTTAT
* ** *
6778 TTACGTGAGAATTGTTTCTCTCTTGCTTCTTGGACGAACTTCTGAACTTGTCAAACATTTACGAG
66 TGACGTGAGAATTGTTTCTCTCTTGCTTCTTGGACGAACTTCCAAACTTGTCAAACATTTACAAG
* * * *
6843 TTCTTTTATATCTTTTGTTCCTTCAAGTATTCAAGACGATCCATTCCTTTGAGCAGTTTTTCGAA
131 TTCTTTTATAACTTTTGTTCCTTAAAGCATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAA
* * *
6908 CATTCCATGCTCGGGAAATCGCAACATTCGGTCTAAATAGTTTTTCATTTCGTAATCAAGCTTTG
196 CATTCCATGCTCGGGAAATCGCAACATTCGATCTAAATAGTTTTTCATTTCGTAAACAAGCTTTA
* ** *
6973 GTGTTTGTATTAAAAACTTATTTACATGAGAATTATTTCTCTCTCTATCCTTAGACGAACTTTCA
261 GTCTTTCAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTCTATCCATAGACGAACTTTCA
* *
7038 AACTTGTCAAAATTTTACAAGTTCTTTTTCAACTTCGAAACATTAAAGTATTCATGACGATTCAT
326 AACTTGTCAAAATTTTACAAGTTCTTTTTCAACTTCGAAACATTAAAGTATTCAAGACGATCCAT
* * * * * * *
7103 TCCAACTAGTAGTCTTTCGAACATTCCATGCTCGGGAAATCGTATCAGTCAGTCTAAATAGTTTT
391 TCCAACGAGCAATCTTTCCAACATTCCATGCTCGAGAAATCGCATCAGTCAGTCTAAATAATTTT
* * * *
7168 CCATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAAGTTATTTACGTAAGAATTGTTTCTCTCT
456 CCATTTTGTAAACAAGCTTTGGCCATTAAATTAAAAACTTATTTACGTAAGAATTGTTTCTCTCT
* *
7233 TGGTTCTTGGATGAACTTCCGAAATTGACAAACTTTTACGAGTTCTTTTATAACTTCGGAAAATA
521 TGGTTATTGGATAAACTTCCGAAATTGACAAACTTTTACGAGTTCTTTTATAACTTCGGAAAATA
7298 GT
586 GT
* *
7300 ATCATTTGGTCTAAATA-GTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATT-AAAAACTTA
1 ATCATTTGGTCAAAAAATGTTTGTCATTTTGTAAACAAG-TTTGGCCTTTGAATTAAAAAACTTA
* *
7363 TTGACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAAC-TTTGGCA
65 TTGACGTGAGAATTGTTTCTCTCTTGCTTCTTGGACGAACTTCCAAACTTGTCAAACATTT-ACA
7427 AGTTCTTTTATAAC-TTTGATTCCTTAAAGCATTCAAGACGATCCATTCCTTTGAGCAATTTTTC
129 AGTTCTTTTATAACTTTTG-TTCCTTAAAGCATTCAAGACGATCCATTCCTTTGAGCAATTTTTC
* * *
7491 GAACATTCCACT-CTCGGGAAATTGCATCATTCGATCTAAATA-TTTTTACATTTTGTAAACAAG
193 GAACATTCCA-TGCTCGGGAAATCGCAACATTCGATCTAAATAGTTTTT-CATTTCGTAAACAAG
* * * * *
7554 TTTTAGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGATTCATGGACGAA
256 CTTTAGTCTTTCAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTCT-ATCCATAGACGAA
* * * * * *** * *
7618 CTTTCGATCTTGT-AGAACTTTTACGAGTTCTTTTAT-AACTTTGGTTCCTTAGAGTATTCAAGA
320 CTTTCAAACTTGTCA-AAATTTTACAAGTTCTTTT-TCAACTTCGAAACATTAAAGTATTCAAGA
* ** * * * **
7681 TGATCCATTCCTTCGAGCAATTTTTCCAACATTTCATGCTCGAGAAATCGCATCATTTGGTCTAA
383 CGATCCATTCCAACGAGCAATCTTTCCAACATTCCATGCTCGAGAAATCGCATCAGTCAGTCTAA
** * * ** *
7746 A-AATTTTGTATTTTTTTAAACAAGTTTTGGCCATTAAATTAAAAACTTATTTGTGTGAGAATTG
448 ATAATTTTCCA-TTTTGTAAACAAGCTTTGGCCATTAAATTAAAAACTTATTTACGTAAGAATTG
* * *
7810 TTTCTCTCTTGGTTATTAGGA-AAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
512 TTTCTCTCTTGGTTATT-GGATAAACTTCCGAAATTGACAAACTTTTACGAGTTCTTTTATA
7871 TATTTGGTTC
Statistics
Matches: 489, Mismatches: 72, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
585 20 0.04
586 434 0.89
587 35 0.07
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (587 bp):
ATCATTTGGTCAAAAAATGTTTGTCATTTTGTAAACAAGTTTGGCCTTTGAATTAAAAAACTTAT
TGACGTGAGAATTGTTTCTCTCTTGCTTCTTGGACGAACTTCCAAACTTGTCAAACATTTACAAG
TTCTTTTATAACTTTTGTTCCTTAAAGCATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAA
CATTCCATGCTCGGGAAATCGCAACATTCGATCTAAATAGTTTTTCATTTCGTAAACAAGCTTTA
GTCTTTCAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTCTATCCATAGACGAACTTTCA
AACTTGTCAAAATTTTACAAGTTCTTTTTCAACTTCGAAACATTAAAGTATTCAAGACGATCCAT
TCCAACGAGCAATCTTTCCAACATTCCATGCTCGAGAAATCGCATCAGTCAGTCTAAATAATTTT
CCATTTTGTAAACAAGCTTTGGCCATTAAATTAAAAACTTATTTACGTAAGAATTGTTTCTCTCT
TGGTTATTGGATAAACTTCCGAAATTGACAAACTTTTACGAGTTCTTTTATAACTTCGGAAAATA
GT
Found at i:13271 original size:10 final size:10
Alignment explanation
Indices: 13246--13281 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
13236 CCGCTGTATA
13246 TTTTTTTATT
1 TTTTTTTATT
13256 TATTTTTTATT
1 T-TTTTTTATT
13267 TTTTTTTATT
1 TTTTTTTATT
13277 TTTTT
1 TTTTT
13282 GAATGCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:13274 original size:17 final size:18
Alignment explanation
Indices: 13247--13280 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13237 CGCTGTATAT
13247 TTTTTTATTTATTTTTTA
1 TTTTTTATTTATTTTTTA
13265 TTTTTT-TTTATTTTTT
1 TTTTTTATTTATTTTTT
13281 TGAATGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTATTTATTTTTTA
Found at i:16067 original size:15 final size:14
Alignment explanation
Indices: 16043--16094 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
16033 ATACTAAAAA
16043 ATAAACAAAATAAAC
1 ATAAA-AAAATAAAC
*
16058 ATAAATAAAAATAAAG
1 AT-AA-AAAAATAAAC
16074 ATAAAATAAATAAAC
1 ATAAAA-AAATAAAC
16089 A-AAAAA
1 ATAAAAA
16095 CAAACAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 1 0.03
14 6 0.19
15 12 0.38
16 12 0.38
17 1 0.03
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (14 bp):
ATAAAAAAATAAAC
Found at i:16137 original size:29 final size:29
Alignment explanation
Indices: 16105--16185 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 29
16095 CAAACAATAA
16105 AAAGGACTGAATTAAAAAATAAAAAAAGT
1 AAAGGACTGAATTAAAAAATAAAAAAAGT
* * * * * *
16134 AAAGCA-TAAATTGAAAAA-ACAATAATT
1 AAAGGACTGAATTAAAAAATAAAAAAAGT
*
16161 AAAGGGGCTGAATTAAATAAATAAA
1 AAA-GGACTGAATTAAA-AAATAAA
16186 GGATTAAATT
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
27 9 0.24
28 11 0.30
29 12 0.32
30 3 0.08
31 2 0.05
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.20
Consensus pattern (29 bp):
AAAGGACTGAATTAAAAAATAAAAAAAGT
Found at i:18916 original size:13 final size:14
Alignment explanation
Indices: 18898--18928 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18888 TATAAAATCA
18898 CCAAAA-TTAAAGT
1 CCAAAATTTAAAGT
18911 CCAAAATTTAAAGT
1 CCAAAATTTAAAGT
18925 CCAA
1 CCAA
18929 TGTCCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (14 bp):
CCAAAATTTAAAGT
Found at i:26895 original size:43 final size:43
Alignment explanation
Indices: 26832--27175 Score: 469
Period size: 43 Copynumber: 8.0 Consensus size: 43
26822 TCTGAAAGTT
*
26832 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* *
26875 GAAACACTATTTCCTATTATTAAAAGTATGTGATTGATTAAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
*
26918 GGAACACT-TTTCCTATTATTGAAAGTATGTGATTGATTGAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * *
26960 GAAACACTATTTCCTATTATTAAAAGTATGTGATTGATTGAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
27003 GGAACACT-TTTCCTATTATTGAAAGTATGTGATTGATTAAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * *
27045 GGAACATTGTTTCCTATTATTTAAAGTATGTGATTGATTAAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * * ** *
27088 GGAACACTGTTTCGTAGTATTGAAAGTATGTGATCAACTAAGA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * * *
27131 GGAACACTGTTTCCCTAATATTGATAA-TATGTGATTAATTGAGA
1 GGAACACTATTT-CCTATTATTGA-AAGTATGTGATTGATTAAGA
27175 G
1 G
27176 CATGATGAAT
Statistics
Matches: 272, Mismatches: 25, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
42 78 0.29
43 168 0.62
44 24 0.09
45 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (43 bp):
GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTAAGA
Found at i:26984 original size:85 final size:86
Alignment explanation
Indices: 26832--27121 Score: 485
Period size: 85 Copynumber: 3.4 Consensus size: 86
26822 TCTGAAAGTT
26832 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
26897 AAAGTATGTGATTGATTAAGA
66 AAAGTATGTGATTGATTAAGA
26918 GGAACACT-TTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
*
26982 AAAGTATGTGATTGATTGAGA
66 AAAGTATGTGATTGATTAAGA
* * * * *
27003 GGAACACT-TTTCCTATTATTGAAAGTATGTGATTGATTAAGAGGAACATTGTTTCCTATTATTT
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
27067 AAAGTATGTGATTGATTAAGA
66 AAAGTATGTGATTGATTAAGA
* * *
27088 GGAACACTGTTTCGTAGTATTGAAAGTATGTGAT
1 GGAACACTATTTCCTATTATTGAAAGTATGTGAT
27122 CAACTAAGAG
Statistics
Matches: 194, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
85 163 0.84
86 31 0.16
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (86 bp):
GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
AAAGTATGTGATTGATTAAGA
Found at i:27132 original size:128 final size:128
Alignment explanation
Indices: 26832--27175 Score: 485
Period size: 128 Copynumber: 2.7 Consensus size: 128
26822 TCTGAAAGTT
* *
26832 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGAAACACTATTTCCTATTATTA
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGGAACACTATTTCCTATTATTG
*
26897 AAAGTATGTGATTGATTAAGAGGAACACTTTTCCTATTATTGAAAGTATGTGATTGATTGAGA
66 AAAGTATGTGATTGATTAAGAGGAACACTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* *
26960 GAAACACTATTTCCTATTATTAAAAGTATGTGATTGATTGAGAGGAACACT-TTTCCTATTATTG
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGGAACACTATTTCCTATTATTG
* *
27024 AAAGTATGTGATTGATTAAGAGGAACATTGTTTCCTATTATTTAAAGTATGTGATTGATTAAGA
66 AAAGTATGTGATTGATTAAGAGGAACACT-TTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * * ** * * * *
27088 GGAACACTGTTTCGTAGTATTGAAAGTATGTGATCAACTAAGAGGAACACTGTTTCCCTAATATT
1 GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGGAACACTATTT-CCTATTATT
* *
27153 GATAA-TATGTGATTAATTGAGAG
65 GA-AAGTATGTGATTGATTAAGAG
27176 CATGATGAAT
Statistics
Matches: 193, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
127 40 0.21
128 122 0.63
129 3 0.02
130 26 0.13
131 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (128 bp):
GGAACACTATTTCCTATTATTGAAAGTATGTGATTGATTGAGAGGAACACTATTTCCTATTATTG
AAAGTATGTGATTGATTAAGAGGAACACTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
Found at i:27816 original size:14 final size:14
Alignment explanation
Indices: 27797--27824 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27787 TTAATTTTCA
27797 ATTATTATTATTTG
1 ATTATTATTATTTG
27811 ATTATTATTATTTG
1 ATTATTATTATTTG
27825 GCTTTGGACT
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:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
ATTATTATTATTTG
Found at i:27879 original size:17 final size:17
Alignment explanation
Indices: 27857--27896 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
27847 TAGACTATGG
*
27857 TTTGGGACTGTTTTTGC
1 TTTGGGACTATTTTTGC
* *
27874 TTTGGGATTATTTTTGT
1 TTTGGGACTATTTTTGC
27891 TTTGGG
1 TTTGGG
27897 TTTTTCACGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.07, C:0.05, G:0.30, T:0.57
Consensus pattern (17 bp):
TTTGGGACTATTTTTGC
Found at i:30071 original size:16 final size:18
Alignment explanation
Indices: 30039--30072 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
30029 GACAACAATG
30039 GAGAAGAAGAGAAAATAA
1 GAGAAGAAGAGAAAATAA
30057 GAGAA-AAGA-AAAATAA
1 GAGAAGAAGAGAAAATAA
30073 AGATTGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (18 bp):
GAGAAGAAGAGAAAATAA
Found at i:33116 original size:26 final size:26
Alignment explanation
Indices: 33073--33123 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
33063 AATTCTGGGC
33073 ACAATTCTGGACACGTTCATGCAGCG
1 ACAATTCTGGACACGTTCATGCAGCG
* *
33099 ACAATTCTGTACATGTTCATGCAGC
1 ACAATTCTGGACACGTTCATGCAGC
33124 AACATTCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (26 bp):
ACAATTCTGGACACGTTCATGCAGCG
Found at i:33158 original size:37 final size:38
Alignment explanation
Indices: 33117--33197 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
33107 GTACATGTTC
*
33117 ATGCAGCAACA-TTCCTGGGTGCAA-TTGAAGAATATTT
1 ATGCAGCAACAGTT-CTGGATGCAATTTGAAGAATATTT
** *
33154 ATGCAGTGATAGTTCTGGATGCAATTTGAAGAATATTT
1 ATGCAGCAACAGTTCTGGATGCAATTTGAAGAATATTT
33192 ATGCAG
1 ATGCAG
33198 TGACAGTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 17 0.45
38 21 0.55
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (38 bp):
ATGCAGCAACAGTTCTGGATGCAATTTGAAGAATATTT
Found at i:33665 original size:40 final size:40
Alignment explanation
Indices: 33572--33756 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
33562 AGTACCATCA
* *
33572 AATTTCAACACTGGCTCATAGCCTGCTAAGTCGTCGTAGCTTG
1 AATTTTAACACCGGCTCATAGCCTGCTAA---GTCGTAGCTTG
* *
33615 AGTTTTAACACCGGTTCATAGCCTGCTAAGTCGTAGCTTG
1 AATTTTAACACCGGCTCATAGCCTGCTAAGTCGTAGCTTG
* ** **
33655 AATTTCAACACTAGCTCATAGCCTGCTAAGTTATAGCTTG
1 AATTTTAACACCGGCTCATAGCCTGCTAAGTCGTAGCTTG
* * * *
33695 AATTTTAACACAGACTCATAGCTTGCTAAGCCGTAGCTTG
1 AATTTTAACACCGGCTCATAGCCTGCTAAGTCGTAGCTTG
*
33735 AATTTTAACATCGGCTCATAGC
1 AATTTTAACACCGGCTCATAGC
33757 TTGAATTTTA
Statistics
Matches: 120, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 95 0.79
43 25 0.21
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (40 bp):
AATTTTAACACCGGCTCATAGCCTGCTAAGTCGTAGCTTG
Found at i:33752 original size:80 final size:82
Alignment explanation
Indices: 33572--33756 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 82
33562 AGTACCATCA
* * * **
33572 AATTTCAACACTGGCTCATAGCCTGCTAAGTCGTCGTAGCTTGAGTTTTAACACCGGTTCATAGC
1 AATTTCAACACTGGCTCATAGCCTGCTAAGTC-TCATAGCTTGAATTTTAACACAGACTCATAGC
*
33637 CTGCTAAGTCGTAGCTTG
65 CTGCTAAGCCGTAGCTTG
* *
33655 AATTTCAACACTAGCTCATAGCCTGCTAAGT-T-ATAGCTTGAATTTTAACACAGACTCATAGCT
1 AATTTCAACACTGGCTCATAGCCTGCTAAGTCTCATAGCTTGAATTTTAACACAGACTCATAGCC
33718 TGCTAAGCCGTAGCTTG
66 TGCTAAGCCGTAGCTTG
*
33735 AATTTTAACA-TCGGCTCATAGC
1 AATTTCAACACT-GGCTCATAGC
33757 TTGAATTTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 1 0.01
80 59 0.65
81 1 0.01
83 30 0.33
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (82 bp):
AATTTCAACACTGGCTCATAGCCTGCTAAGTCTCATAGCTTGAATTTTAACACAGACTCATAGCC
TGCTAAGCCGTAGCTTG
Found at i:33762 original size:25 final size:25
Alignment explanation
Indices: 33728--33784 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
33718 TGCTAAGCCG
33728 TAGCTTGAATTTTAACATCGGCTCA
1 TAGCTTGAATTTTAACATCGGCTCA
33753 TAGCTTGAATTTTAACATCGGCTCA
1 TAGCTTGAATTTTAACATCGGCTCA
33778 TAGCTTG
1 TAGCTTG
33785 TTAAGCCGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (25 bp):
TAGCTTGAATTTTAACATCGGCTCA
Found at i:35031 original size:27 final size:28
Alignment explanation
Indices: 35000--35063 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
34990 ATCGTGAAAG
*
35000 TGGGAAGTCT-ACAAAGACTACCTATTA
1 TGGGAAGTCTCACAAAGACTACCTAATA
* * *
35027 TGGGAAGT-TCGCAAGGACTATCTAATA
1 TGGGAAGTCTCACAAAGACTACCTAATA
35054 TGGGAAGTCT
1 TGGGAAGTCT
35064 GGATCAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 29 0.94
28 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (28 bp):
TGGGAAGTCTCACAAAGACTACCTAATA
Found at i:36051 original size:31 final size:31
Alignment explanation
Indices: 35987--36052 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
35977 TAAAAGCATT
*
35987 TGACCAAAATAGAAACGATCTAAAACGTGAG
1 TGACCAAAATAGAAACGATCTAAAACATGAG
* * * * *
36018 TGACCGAAATAGAAATGATGTAAAATATTAG
1 TGACCAAAATAGAAACGATCTAAAACATGAG
36049 TGAC
1 TGAC
36053 TAAATTGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (31 bp):
TGACCAAAATAGAAACGATCTAAAACATGAG
Found at i:43686 original size:102 final size:101
Alignment explanation
Indices: 43510--43717 Score: 328
Period size: 102 Copynumber: 2.0 Consensus size: 101
43500 CTTGGAAAAA
* * * *
43510 AGACTGTGTTGGCGTGTTGGTACAGTGGAACGAATTTGTGTTTCTGATGCTTGGATCCTTAGGTC
1 AGACTGTGTTGGCATGTAGGTACAGGGGAACGAATTTGTGTTTCTGATGCCTGGATCCTTAGGTC
43575 AATTGATTACAAAGTTAGTAGCCCCATTAAAAATACT
66 AATTGATTACAAAGTTAG-AGCCCCATTAAAAATACT
*
43612 AGACTGTGTTGGCATGTAGGTATAGGGGAACGAATTTGTGTTTCTGATGCCTGGATCCTT-GGCT
1 AGACTGTGTTGGCATGTAGGTACAGGGGAACGAATTTGTGTTTCTGATGCCTGGATCCTTAGG-T
*
43676 CAATTGATTACAAAGTTAGGGCCCCATTAAAAATACT
65 CAATTGATTACAAAGTTAGAGCCCCATTAAAAATACT
*
43713 GGACT
1 AGACT
43718 TCACACAATA
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 23 0.23
102 75 0.77
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (101 bp):
AGACTGTGTTGGCATGTAGGTACAGGGGAACGAATTTGTGTTTCTGATGCCTGGATCCTTAGGTC
AATTGATTACAAAGTTAGAGCCCCATTAAAAATACT
Found at i:48149 original size:29 final size:29
Alignment explanation
Indices: 48104--48184 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
48094 ACAAAGCAAT
*
48104 AACATAAATAATTAAAATATAATATTTCA
1 AACATAAATAACTAAAATATAATATTTCA
* * ** *
48133 AATATAAATTACTAAAACGTAATATTTTA
1 AACATAAATAACTAAAATATAATATTTCA
* *
48162 AACGTAAATGACTAAAATATAAT
1 AACATAAATAACTAAAATATAAT
48185 TTAAAACAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (29 bp):
AACATAAATAACTAAAATATAATATTTCA
Found at i:49593 original size:34 final size:33
Alignment explanation
Indices: 49547--49613 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
49537 AACAGAAGAA
* *
49547 TAATCCATAAATATATTCTAAGGGTTAATGCATG
1 TAATCCAGAAATATATTCT-AGGGTTAATACATG
49581 TAATCCAGAAATATATTCTAGGGTTAATACATG
1 TAATCCAGAAATATATTCTAGGGTTAATACATG
49614 AATAGGCGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
TAATCCAGAAATATATTCTAGGGTTAATACATG
Found at i:54917 original size:37 final size:37
Alignment explanation
Indices: 54862--55076 Score: 223
Period size: 37 Copynumber: 5.8 Consensus size: 37
54852 TAAATCAAGT
* * *
54862 TATGTGTCTAGCAGGCTTCATGTCGGTGTATTCGGGC
1 TATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCGGGC
* * * **
54899 TATGTGCCTAGCAAGCTTCGTACCGGTGTACTCAAGC
1 TATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCGGGC
* * *
54936 TATGTGCCTAGTAGGCCTCGTGCCGGTGTGTTCGGGC
1 TATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCGGGC
* * * *
54973 TATTTGCCTAGCTGTCCTCGTGCCGGTGTATTCGGGC
1 TATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCGGGC
* * * *
55010 TATTTGCCTAGCAGGCTTCTTGCCAGTGTATTCAGGC
1 TATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCGGGC
* *
55047 TATGTAACCTAGCAGGCCTTTGTGCCGGTG
1 TATGT-GCCTAGCAGG-CTTCGTGCCGGTG
55077 ATTGGAGAAC
Statistics
Matches: 144, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
37 125 0.87
38 9 0.06
39 10 0.07
ACGTcount: A:0.14, C:0.24, G:0.30, T:0.32
Consensus pattern (37 bp):
TATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCGGGC
Found at i:61912 original size:19 final size:19
Alignment explanation
Indices: 61888--61928 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
61878 GTACATACGC
* *
61888 TCTTTTTTTTTTCTTTTTT
1 TCTTTTTCTTTTCTCTTTT
61907 TCTTTTTCTTTTCTCTTTT
1 TCTTTTTCTTTTCTCTTTT
61926 TCT
1 TCT
61929 GAGCATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TCTTTTTCTTTTCTCTTTT
Found at i:63257 original size:21 final size:21
Alignment explanation
Indices: 63232--63277 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
63222 CTCCACAGGA
* *
63232 TCTTCCTCGGGATCTTGTTCT
1 TCTTCCTCAGGATCTTCTTCT
*
63253 TCTTCTTCAGGATCTTCTTCT
1 TCTTCCTCAGGATCTTCTTCT
63274 TCTT
1 TCTT
63278 TAACAATCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.28, G:0.13, T:0.52
Consensus pattern (21 bp):
TCTTCCTCAGGATCTTCTTCT
Found at i:64894 original size:109 final size:104
Alignment explanation
Indices: 64742--65047 Score: 391
Period size: 110 Copynumber: 2.8 Consensus size: 104
64732 AACAAATATT
*
64742 AATTCAAAAT-TTGGATAATAATTAAT-AAATTATAAAATTTAATTTATAATTAATATTAAAAAT
1 AATTCAAACTCTT-GATAATAATTAATAAAATTATAAAATTTAATTTATAATTAATATTAAAAAT
64805 TATCAAAATTTTGAAAAATAAAAATTTAAATAAAAAAAAATC
65 TATCAAAA-TTTGAAAAATAAAAATTTAAAT-AAAAAAAATC
* * *
64847 TAATTTTAAACTCTTGTTAATAATTAATACAAATTATAAAATTTAATTTATAATTAATATTAAGA
1 -AA-TTCAAACTCTTGATAATAATTAATA-AAATTATAAAATTTAATTTATAATTAATATTAAAA
* ***
64912 ATTATCAAAACTTTGAAAAATAAGAAAACATTTAAATGAAAACTTTC
63 ATTATCAAAA-TTTGAAAAAT---AAAA-ATTTAAATAAAAAAAATC
* * *
64959 AATTCAAACTTTTGATAATAATTAATATAATTTATAAAATTTAATTTATAATTAATATTAATAAT
1 AATTCAAACTCTTGATAATAATTAATA-AAATTATAAAATTTAATTTATAATTAATATTAAAAAT
65024 TATCAAAATTTGAAAAATAAAAAT
65 TATCAAAATTTGAAAAATAAAAAT
65048 AACATTAAAT
Statistics
Matches: 177, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
105 2 0.01
106 6 0.03
107 18 0.10
108 2 0.01
109 64 0.36
110 65 0.37
111 2 0.01
112 10 0.06
113 8 0.05
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.39
Consensus pattern (104 bp):
AATTCAAACTCTTGATAATAATTAATAAAATTATAAAATTTAATTTATAATTAATATTAAAAATT
ATCAAAATTTGAAAAATAAAAATTTAAATAAAAAAAATC
Found at i:65052 original size:110 final size:107
Alignment explanation
Indices: 64741--65057 Score: 410
Period size: 109 Copynumber: 2.9 Consensus size: 107
64731 AAACAAATAT
* *
64741 TAATTCAAAATTTGGATAATAATTAATAAATTATAAAATTTAATTTATAATTAATATTAAAAATT
1 TAATTCAAACTTTTGATAATAATTAATAAATTATAAAATTTAATTTATAATTAATATTAAAAATT
*
64806 ATCAAAATTTTGAAAAATAAAAATTTAA-A-TAAA-AAAAAATC
66 ATCAAAACTTTGAAAAATAAAAA--TAACATTAAATAAAAAATC
* * * *
64847 TAATTTTAAACTCTTGTTAATAATTAATACAAATTATAAAATTTAATTTATAATTAATATTAAGA
1 TAA-TTCAAACTTTTGATAATAATTAAT--AAATTATAAAATTTAATTTATAATTAATATTAAAA
* * * *
64912 ATTATCAAAACTTTGAAAAATAAGAA-AACATTTAAATGAAAACTT
63 ATTATCAAAACTTTGAAAAATAAAAATAACA-TTAAATAAAAAATC
*
64957 TCAATTCAAACTTTTGATAATAATTAATATAATTTATAAAATTTAATTTATAATTAATATTAATA
1 T-AATTCAAACTTTTGATAATAATTAATA-AA-TTATAAAATTTAATTTATAATTAATATTAAAA
65022 ATTATCAAAA-TTTGAAAAATAAAAATAACATTAAAT
63 ATTATCAAAACTTTGAAAAATAAAAATAACATTAAAT
65058 TCAAATAAAA
Statistics
Matches: 184, Mismatches: 16, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
106 5 0.03
107 20 0.11
108 1 0.01
109 84 0.46
110 72 0.39
111 2 0.01
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (107 bp):
TAATTCAAACTTTTGATAATAATTAATAAATTATAAAATTTAATTTATAATTAATATTAAAAATT
ATCAAAACTTTGAAAAATAAAAATAACATTAAATAAAAAATC
Found at i:65143 original size:19 final size:20
Alignment explanation
Indices: 65121--65168 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
65111 CAAACTCTTG
65121 ATAATAATTAATATA-AATT
1 ATAATAATTAATATATAATT
*
65140 ATAA-AATTTAATTTATAATT
1 ATAATAA-TTAATATATAATT
65160 -TAAT-ATTAA
1 ATAATAATTAA
65169 GAATTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATAATTAATATATAATT
Found at i:78778 original size:12 final size:12
Alignment explanation
Indices: 78763--78787 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78753 ATTAAAGAAT
78763 TAATAGCATTCA
1 TAATAGCATTCA
78775 TAATAGCATTCA
1 TAATAGCATTCA
78787 T
1 T
78788 CATATAACAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:85127 original size:19 final size:19
Alignment explanation
Indices: 85103--85141 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
85093 ACTAACAATT
*
85103 AAAATGCAGTGACAAATAA
1 AAAATGCAATGACAAATAA
*
85122 AAAATGCAATGACAACTAA
1 AAAATGCAATGACAAATAA
85141 A
1 A
85142 TGATATGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATGCAATGACAAATAA
Found at i:94780 original size:37 final size:37
Alignment explanation
Indices: 94733--94896 Score: 157
Period size: 37 Copynumber: 4.4 Consensus size: 37
94723 AAGTAAATCA
* * *
94733 GGCTACGTGCCTAGCAAGCCTCATGCTGGTGTATTCA
1 GGCTATGTGCCTAGCAAGCCTCATGCCGGTGTATTCG
* * ** *
94770 GGCTATGTGCCTAGTAGGCCTTGTGCCGGTGTATTGG
1 GGCTATGTGCCTAGCAAGCCTCATGCCGGTGTATTCG
* * * * * * **
94807 GGCTATGTGCATCGCAGGCTTCGTGTCATTGTATTCG
1 GGCTATGTGCCTAGCAAGCCTCATGCCGGTGTATTCG
* *
94844 GGCTATGTGCCTAGCAAGCTTCATGCCAGTGTATTCG
1 GGCTATGTGCCTAGCAAGCCTCATGCCGGTGTATTCG
*
94881 GGCTACGTGCCTAGCA
1 GGCTATGTGCCTAGCA
94897 GACCTTTATG
Statistics
Matches: 103, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (37 bp):
GGCTATGTGCCTAGCAAGCCTCATGCCGGTGTATTCG
Found at i:99619 original size:14 final size:15
Alignment explanation
Indices: 99583--99621 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
99573 TAATAATTTT
*
99583 TTATGGAATTTTGAA
1 TTATTGAATTTTGAA
*
99598 TTAATGAATTTT-AA
1 TTATTGAATTTTGAA
99612 TTATTGAATT
1 TTATTGAATT
99622 AAAAGTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (15 bp):
TTATTGAATTTTGAA
Found at i:101362 original size:24 final size:25
Alignment explanation
Indices: 101318--101381 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 25
101308 TTAAACTCTG
* * *
101318 TCTAAGCTCG-AATGAGCTAACTTA
1 TCTAGGCTCGTAATGAGATAACCTA
101342 TCTAGGCTCGTAA-GAGATAACCTA
1 TCTAGGCTCGTAATGAGATAACCTA
* *
101366 TTTGGGCTCGT-ATGAG
1 TCTAGGCTCGTAATGAG
101382 CTAATTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 30 0.91
25 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (25 bp):
TCTAGGCTCGTAATGAGATAACCTA
Found at i:106371 original size:27 final size:29
Alignment explanation
Indices: 106336--106404 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 29
106326 TATCTATTTT
*
106336 TCTTCCTTTCC-ATCTTT-TTCTTTTCTC
1 TCTTTCTTTCCTATCTTTGTTCTTTTCTC
*
106363 TCTTTCTTTTCACTTTCTTTGTTCTTTTCTC
1 TCTTTC-TTTC-CTATCTTTGTTCTTTTCTC
*
106394 TCATT-TTTCCT
1 TCTTTCTTTCCT
106405 TTCATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 5 0.14
28 6 0.17
29 5 0.14
30 5 0.14
31 14 0.40
ACGTcount: A:0.04, C:0.29, G:0.01, T:0.65
Consensus pattern (29 bp):
TCTTTCTTTCCTATCTTTGTTCTTTTCTC
Found at i:112715 original size:18 final size:18
Alignment explanation
Indices: 112688--112732 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
112678 TTGTTCATTT
112688 ATTT-TTATT-AATTTACA
1 ATTTATTATTAAATTTA-A
112705 ATTTATTATTAAATTTAA
1 ATTTATTATTAAATTTAA
112723 ATTGTATTAT
1 ATT-TATTAT
112733 ATTTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 12 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTATTATTAAATTTAA
Found at i:121714 original size:85 final size:85
Alignment explanation
Indices: 121571--121740 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
121561 CACTATCTTC
121571 GCACTTTGAATATTTGCGCTGCTGTATTTGGTTAATGGTAGTTTTAATTTAGGTATTTAGTAGTT
1 GCACTTTGAATATTTGCGCTGCTGTATTTGGTTAATGGTAGTTTTAATTTAGGTATTTAGTAGTT
121636 CTTTCAGATCCATTTTAGTT
66 CTTTCAGATCCATTTTAGTT
121656 GCACTTTGAATATTTGCGCTGCTGTATTTGGTTAATGGTAGTTTTAATTTAGGTATTTAGTAGTT
1 GCACTTTGAATATTTGCGCTGCTGTATTTGGTTAATGGTAGTTTTAATTTAGGTATTTAGTAGTT
121721 CTTTCAGATCCATTTTAGTT
66 CTTTCAGATCCATTTTAGTT
121741 TTTTTGGTTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (85 bp):
GCACTTTGAATATTTGCGCTGCTGTATTTGGTTAATGGTAGTTTTAATTTAGGTATTTAGTAGTT
CTTTCAGATCCATTTTAGTT
Found at i:123339 original size:15 final size:15
Alignment explanation
Indices: 123319--123357 Score: 69
Period size: 16 Copynumber: 2.5 Consensus size: 15
123309 TTAGTCCTTT
123319 TAATTTAAAATATGC
1 TAATTTAAAATATGC
123334 TAATTTTAAAATATGC
1 TAA-TTTAAAATATGC
123350 TAATTTAA
1 TAATTTAA
123358 GTACAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (15 bp):
TAATTTAAAATATGC
Found at i:129528 original size:17 final size:17
Alignment explanation
Indices: 129506--129538 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
129496 AATGTAGATG
129506 CAGTGAGAATAAAAATA
1 CAGTGAGAATAAAAATA
129523 CAGTGAGAATAAAAAT
1 CAGTGAGAATAAAAAT
129539 GCAGGGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (17 bp):
CAGTGAGAATAAAAATA
Found at i:164524 original size:14 final size:14
Alignment explanation
Indices: 164505--164540 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
164495 TCAAGCAAAC
164505 AAAACAAGAAAAAA-
1 AAAACAA-AAAAAAG
164519 AAAACAAAAAAAAG
1 AAAACAAAAAAAAG
164533 AAAACAAA
1 AAAACAAA
164541 TAATGGAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAAAG
Found at i:166911 original size:11 final size:11
Alignment explanation
Indices: 166879--166911 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
166869 AGATGAAAGA
166879 TTGAAAGAGTT
1 TTGAAAGAGTT
166890 TTG-AAGAGTT
1 TTGAAAGAGTT
*
166900 TTGAAAGTGTT
1 TTGAAAGAGTT
166911 T
1 T
166912 AATGTTAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.42
Consensus pattern (11 bp):
TTGAAAGAGTT
Found at i:174104 original size:27 final size:30
Alignment explanation
Indices: 174061--174124 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 30
174051 ATCTAGAGAT
*
174061 AAAGAAA-CAGGAGGAAGCAAAAA-AGAA-
1 AAAGAAAGCAGGAAGAAGCAAAAAGAGAAG
174088 AAAGAAAGCA-GAAGAAGCAAAAAGAGAAG
1 AAAGAAAGCAGGAAGAAGCAAAAAGAGAAG
174117 AAA-AAAGC
1 AAAGAAAGC
174125 CTTGGCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 19 0.58
28 11 0.33
29 3 0.09
ACGTcount: A:0.67, C:0.08, G:0.25, T:0.00
Consensus pattern (30 bp):
AAAGAAAGCAGGAAGAAGCAAAAAGAGAAG
Done.