Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_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: 1248949
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:177282 original size:22 final size:25
Alignment explanation
Indices: 177254--177299 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
177244 TTTATAATAT
177254 AAAAAA-TAATAT-TATAT-TATTA
1 AAAAAATTAATATATATATATATTA
177276 AAAAAATTAATATATATATATATT
1 AAAAAATTAATATATATATATATT
177300 TTTTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 6 0.29
24 5 0.24
25 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAAATTAATATATATATATATTA
Found at i:180674 original size:233 final size:233
Alignment explanation
Indices: 179807--181926 Score: 2149
Period size: 233 Copynumber: 9.0 Consensus size: 233
179797 TTTTATAAGT
* * *
179807 TCAAAAAAGGAGAAAGGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGAT
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAAGTAAGAAAGGT
* * *
179872 TTCTTACCTAGTAAACTATTTCCAAAATTTATAATTCTTTCGGGCCATCAGTAAGTCTTTCGGGC
66 TTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * * *
179937 ATGATGTTTAAACCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGAAGATAAGTCTTTTGGGCCA
131 ATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCA
*
180002 TCCATAAGACCTTCGAGCAGGATG---------GT-T-
196 TCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
* * ** *
180029 TCACAAAATGAGAAATGTTTCTTGTTCAAATCTG-GAAATTGAAATTTTTGAAAAGTAAGAAAGG
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAG-AATTGAAATTTTTGAAAAGTAAGAAAGG
*
180093 TTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCCTTCGAG
65 TTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * * * * *
180158 CGTGATGCTTAAATCTTTCGGGACATCTGTAAGTCTTTCGAG-ATAGATGATAAATCCTTCT-AG
130 CATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCA-AGATGATAAGT-CTTTTGGG
*
180221 CCATCCATAAGTCCTTCGGGCAGGATGTTTTCACATGTCTA
193 CCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
* * *
180262 TCGAAATATGAGAAAGGTTTCTCATTTAAATCTGAGATTTGAAATTTTTG-AAAGTAAGAAAGGT
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAAGTAAGAAAGGT
* * * *
180326 TTCTTACATAGTAAACTATTTTCAAAATTTATAAGTCCTTCGGGCCATCAGCAAGTCTTTCGACC
66 TTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* *
180391 ATGATGCTGAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCA
131 ATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCA
* * *
180456 TCTATAAGTCCTTCGGGTAGGATGTTTTCACATGTCTA
196 TCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
* * *
180494 TCAAAATATGAGAAAGGTTTCTCATTTAAATCTGAGATTTGAAATTTTTGAAAAGTGAGAAAGGT
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAAGTAAGAAAGGT
* ** * *
180559 TTCTTACATAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGATATCAATAAGTATTTCGAGC
66 TTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * * **
180624 ATGATGCTTAAATCCTTCGGGTCATCTGTAAATCTTTAGAGCAAGATGATAAGTCCTTCAGGCCA
131 ATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCA
** * *
180689 TCCATAAGACCTTTAGGCAGGATGTTTTCATATGTCTC
196 TCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
* * * * *
180727 TCAAAAAATGAGAAAGATTTCTCATTCAAATTTGAAAATTGAAATTTTT-AAAAGGTAATAAAGG
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAA-GTAAGAAAGG
180791 TTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
65 TTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * * ** * **
180856 CATGATGCTTAAACCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGAT-ACTTAAACCCTTCAGG
130 CATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA--TAAGTCTTTTGGG
* ** * * * * ** * * *
180920 TCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTC-GGGCCA
193 CCATCCATAAGACCTTCGGGCAGGATG-T-TTTCA--CATGTCTA
* * * * *
180964 TCCATAAGACATTCAGGCAGGATGTTTTCACATGTCTATCAAAAAT-TGAGAAAGGTTTCTTATT
1 T-CA-AA-A-A---ATG-AGAAAGGTTTCTCA--T-T-T---AAATCTGAG--A--------ATT
* * * * * *
181028 CAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAATAAACTATTTCCAAA
41 GAAAT-T----TTTGAAA----AG-TAAG-AA---AGGTTTCTTACCTAGTAAACTATTTCC-AA
* ** * * * *
181093 AATTTAAAAGTCAATCAGGCCATCAGTAAGTCTTTCGATCATGATGCTTCAATCCTTTGGGTCAT
91 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * * * * * *
181158 CTGTAAGTCTTTCGATCTAGATGATAAGTCCTTTGGGCCATCCATAAGTCCTTCAGACATGATGT
156 CTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCGGGCAGGATGT
181223 TTTCACATGTCTA
221 TTTCACATGTCTA
* * * * * * *
181236 TCGAAATATGATAATGGTTTCTCGTTTAAATCTAAGATTTGAAATTTTTGAAAAGTAAGAAAGGT
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAAGTAAGAAAGGT
* * ** * *
181301 TTCTTACCTATTAAACTATTTCCAAAATTTATAAGTCTTTCAAGCCATTAGTAAGTCTTTTGAGC
66 TTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
** * ** * * * *
181366 ATGATATTTAAATCCTTCGGGTCATC-GATAAGTCTTTAGATAAAGAAGATAAGTCATTCGGGTC
131 ATGATGCTTAAATCCTTCGGGTCATCTG-TAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCC
* ** * * * *
181430 ATCCAAAAGTTCTTCAGCCAGGATGTTTTAACATGCCTA
195 ATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
* * * * * * *
181469 TCGAAATATGAGAAATGTTTCTCATTTAAATCTAAGATTTGAAATTTTTGAAAAGTGAGAAAAGT
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAAGTAAGAAAGGT
* *
181534 TTCTTACCTAGTAAACTATTTCCAAAATTTATAAATCTTTCGGGCCATCAGTAAGTCTTTCGAGC
66 TTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * * * * *
181599 ATGATGCTTAAATCCTTCGGGTAATCTATAAGTCTTTAGAGCAAGATGATAAGTCATTCGGGTCA
131 ATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCA
* * * *
181664 TCCATAAGACCTTTGGGCAGGATATTTTCATATGTCTG
196 TCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
* * * * *
181702 TCGAAAAATGAGAAATGTTTCTCATTCAAATTTG-GAAATTGAAAATTTTGAAAAGTAAGAAAGG
1 TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAG-AATTGAAATTTTTGAAAAGTAAGAAAGG
**
181766 TTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCATGCCATCAGTAAGTCTTTCGAG
65 TTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * * * *
181831 CATGATGCTTAAATTCTTCAGGTCATCTATAAGTCTTTCGAGCATGATGATAAGTCCTTTGGGCC
130 CATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCC
*
181896 ATCCATAAGACCTTTGGGCAGGATGTTTTCA
195 ATCCATAAGACCTTCGGGCAGGATGTTTTCA
181927 TATGGCCCTC
Statistics
Matches: 1587, Mismatches: 239, Indels: 133
0.81 0.12 0.07
Matches are distributed among these distances:
221 1 0.00
222 187 0.12
223 4 0.00
231 6 0.00
232 218 0.14
233 878 0.55
234 55 0.03
235 1 0.00
236 3 0.00
237 5 0.00
238 5 0.00
239 3 0.00
240 1 0.00
241 1 0.00
243 6 0.00
244 2 0.00
245 10 0.01
247 2 0.00
248 7 0.00
251 3 0.00
252 4 0.00
253 1 0.00
256 1 0.00
257 4 0.00
258 3 0.00
260 1 0.00
261 8 0.01
262 2 0.00
264 9 0.01
265 2 0.00
266 2 0.00
267 3 0.00
269 1 0.00
270 3 0.00
271 4 0.00
272 6 0.00
273 3 0.00
274 1 0.00
275 53 0.03
276 77 0.05
277 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (233 bp):
TCAAAAAATGAGAAAGGTTTCTCATTTAAATCTGAGAATTGAAATTTTTGAAAAGTAAGAAAGGT
TTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
ATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCCA
TCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTA
Found at i:180875 original size:42 final size:42
Alignment explanation
Indices: 180828--180946 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
180818 ATTTATAAGT
*
180828 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAC
1 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAAC
*
180870 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAAC
1 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAAC
* * *
180912 CCTTCAGGTCATCTGTAAGTCTTTCGAGCAAGATG
1 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATG
180947 ATAAGTCATT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (42 bp):
CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAAC
Found at i:181086 original size:275 final size:276
Alignment explanation
Indices: 180595--181172 Score: 856
Period size: 275 Copynumber: 2.1 Consensus size: 276
180585 ATTTATAAGT
* * * * *
180595 CCTTCGGGAT-ATCAATAAGTATTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAATCT
1 CCTTCGGG-TCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGTCATCTGTAAATCT
* * * *
180659 TTAGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTAGGCAGGATGTTTTCATATGT
65 TTAGAGCAAGATGATAAGTCATTCAGGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGT
* * *
180724 CTCTCAAAAAATGAGAAAGATTTCTCATTCAAATTTGAAAATTGAAATTTTTAAAAGGTAATAAA
130 CTATCAAAAAATGAGAAAGATTTCTCATTCAAATATGAAAATTGAAATTTTTAAAAGGTAAGAAA
* * * ** *
180789 GGTTTCTTACCTAGTAAACTATTTCC-AAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTC
195 AGTTTCTTACCTAATAAACTATTTCCAAAAATTTAAAAGTCAATCAGGCCATCAGTAAGTCTTTC
180853 GAGCATGATGCTTAAAC
260 GAGCATGATGCTTAAAC
*
180870 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGTCATCTGTAAGTCTT
1 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGTCATCTGTAAATCTT
* *
180935 TCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGTC
66 TAGAGCAAGATGATAAGTCATTCAGGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGTC
* * *
181000 TATCAAAAATTGAGAAAGGTTTCTTATTCAAATATGAAAATTGAAATTTTTGAAAA-GTAAGAAA
131 TATCAAAAAATGAGAAAGATTTCTCATTCAAATATGAAAATTGAAATTTTT-AAAAGGTAAGAAA
181064 AGTTTCTTACCTAATAAACTATTTCCAAAAATTTAAAAGTCAATCAGGCCATCAGTAAGTCTTTC
195 AGTTTCTTACCTAATAAACTATTTCCAAAAATTTAAAAGTCAATCAGGCCATCAGTAAGTCTTTC
* * *
181129 GATCATGATGCTTCAAT
260 GAGCATGATGCTTAAAC
* *
181146 CCTTTGGGTCATCTGTAAGTCTTTCGA
1 CCTTCGGGTCATCAGTAAGTCTTTCGA
181173 TCTAGATGAT
Statistics
Matches: 271, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
274 1 0.00
275 193 0.71
276 77 0.28
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (276 bp):
CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGTCATCTGTAAATCTT
TAGAGCAAGATGATAAGTCATTCAGGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGTC
TATCAAAAAATGAGAAAGATTTCTCATTCAAATATGAAAATTGAAATTTTTAAAAGGTAAGAAAA
GTTTCTTACCTAATAAACTATTTCCAAAAATTTAAAAGTCAATCAGGCCATCAGTAAGTCTTTCG
AGCATGATGCTTAAAC
Found at i:181206 original size:41 final size:42
Alignment explanation
Indices: 181110--181221 Score: 108
Period size: 41 Copynumber: 2.7 Consensus size: 42
181100 AAGTCAATCA
*
181110 GGCCAT-CAGTAAGTCTTTCGATCATGATGCTTCAATCCTTTG
1 GGCCATCCA-TAAGTCTTTCGATCATGATGCATCAATCCTTTG
* **
181152 GGTCATCTGTAAGTCTTTCGATC-TAGATG-AT-AAGTCCTTTG
1 GGCCATCCATAAGTCTTTCGATCAT-GATGCATCAA-TCCTTTG
*
181193 GGCCATCCATAAGTCCTTCAGA-CATGATG
1 GGCCATCCATAAGTCTTTC-GATCATGATG
181222 TTTTCACATG
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.04
41 29 0.51
42 26 0.46
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
GGCCATCCATAAGTCTTTCGATCATGATGCATCAATCCTTTG
Found at i:181551 original size:742 final size:740
Alignment explanation
Indices: 180130--181641 Score: 2075
Period size: 742 Copynumber: 2.0 Consensus size: 740
180120 ATTTATAAGT
* * * * * * *
180130 CCTTCGGGCCATCAGTAAGTCCTTCGAGCGTGATGCTTAAATCTTTCGGGACATCTGTAAGTCTT
1 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGACATCTGTAAGTCTT
* * * * *
180195 TCGAGATAGATGATAAATCCTTCTAGCCATCCATAAGTCCTTCGGGCAGGATGTTTTCACATGTC
66 TCGAGATAGATGATAAATCATTCGAGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGTC
* * * * * *
180260 TATCGAAATATGAGAAAGGTTTCTCATTTAAATCTGAGATTTGAAATTTTTGAAAGTAAGAAAGG
131 TATCAAAATATGAGAAAGGTTTCTCATTCAAATATGAAAATTGAAATTTTTGAAAGTAAGAAAAG
* * * ** *
180325 TTTCTTACATAGTAAACTATTTTCAAAATTTATAAGTCCTTCGGGCCATCAGCAAGTCTTTCGAC
196 TTTCTTACATAATAAACTATTTCCAAAATTTAAAAGTCAATCAGGCCATCAGCAAGTCTTTCGAC
*
180390 CATGATGCTGAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCTTTTGGGCC
261 CATGATGCTGAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCC
* * **
180455 ATCTATAAGTCCTTCGGGTAGGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATT
326 ATCCATAAGTCCTTCAGACAGGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATT
* *
180520 TAAATCTGAGATTTGAAATTTTTGAAAAGTGAGAAAGGTTTCTTACATAGTAAACTATTTCCAAA
391 TAAATCTAAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACATAGTAAACTATTTCCAAA
** * *
180585 ATTTATAAGTCCTTCGGGATATCAATAAGTATTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
456 ATTTATAAGTCCTTCAAGACATCAATAAGTATTTCGAGCATGATACTTAAATCCTTCGGGTCATC
* * * * * *
180650 TGTAAATCTTTAGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTAGGCAGGATGTT
521 TGTAAATCTTTAGAGAAAGAAGATAAGTCATTCAGGCCATCCAAAAGACCTTCAGCCAGGATGTT
* * * * *
180715 TTCATATGTCTCTCAAAAAATGAGAAAGATTTCTCATTCAAATTTGAAAATTGAAATTTTTAAAA
586 TTAACATGCCTATCAAAAAATGAGAAAGATTTCTCATTCAAATCTGAAAATTGAAATTTTTAAAA
* * *
180780 GGTAATAAAGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTA
651 GGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAATCCTTCGGGCCATCAGTA
180845 AGTCTTTCGAGCATGATGCTTAAAC
716 AGTCTTTCGAGCATGATGCTTAAAC
*
180870 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGTCATCTGTAAGTCTT
1 CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGACATCTGTAAGTCTT
* *
180935 TCGAGCA-AGATGATAAGTCATTCGGGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGT
66 TCGAG-ATAGATGATAAATCATTCGAGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGT
*
180999 CTATCAAAA-ATTGAGAAAGGTTTCTTATTCAAATATGAAAATTGAAATTTTTGAAAAGTAAGAA
130 CTATCAAAATA-TGAGAAAGGTTTCTCATTCAAATATGAAAATTGAAATTTTTG-AAAGTAAGAA
* *
181063 AAGTTTCTTACCTAATAAACTATTTCCAAAAATTTAAAAGTCAATCAGGCCATCAGTAAGTCTTT
193 AAGTTTCTTACATAATAAACTATTTCC-AAAATTTAAAAGTCAATCAGGCCATCAGCAAGTCTTT
* ** * * * *
181128 CGATCATGATGCTTCAATCCTTTGGGTCATCTGTAAGTCTTTCGATCTAGATGATAAGTCCTTTG
257 CGACCATGATGCTGAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTTG
* * * *
181193 GGCCATCCATAAGTCCTTCAGACATGATGTTTTCACATGTCTATCGAAATATGATAATGGTTTCT
322 GGCCATCCATAAGTCCTTCAGACAGGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCT
* * *
181258 CGTTTAAATCTAAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTATTAAACTATTTC
387 CATTTAAATCTAAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACATAGTAAACTATTTC
* * * * * * *
181323 CAAAATTTATAAGTCTTTCAAGCCATTAGTAAGTCTTTTGAGCATGATATTTAAATCCTTCGGGT
452 CAAAATTTATAAGTCCTTCAAGACATCAATAAGTATTTCGAGCATGATACTTAAATCCTTCGGGT
* * * * **
181388 CATC-GATAAGTCTTTAGATAAAGAAGATAAGTCATTCGGGTCATCCAAAAGTTCTTCAGCCAGG
517 CATCTG-TAAATCTTTAGAGAAAGAAGATAAGTCATTCAGGCCATCCAAAAGACCTTCAGCCAGG
* * * *
181452 ATGTTTTAACATGCCTATCGAAATATGAGAAATG-TTTCTCATTTAAATCT-AAGATTTGAAATT
581 ATGTTTTAACATGCCTATCAAAAAATGAGAAA-GATTTCTCATTCAAATCTGAA-AATTGAAATT
* *
181515 TTTGAAAA-GTGAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAATCTTTCGGGC
644 TTT-AAAAGGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAATCCTTCGGGC
*
181579 CATCAGTAAGTCTTTCGAGCATGATGCTTAAAT
708 CATCAGTAAGTCTTTCGAGCATGATGCTTAAAC
* *
181612 CCTTCGGGTAATCTA-TAAGTCTTTAGAGCA
1 CCTTCGGGTCATC-AGTAAGTCTTTCGAGCA
181642 AGATGATAAG
Statistics
Matches: 672, Mismatches: 91, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
739 1 0.00
740 157 0.23
741 37 0.06
742 471 0.70
743 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (740 bp):
CCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATACTTAAACCCTTCAGGACATCTGTAAGTCTT
TCGAGATAGATGATAAATCATTCGAGCCATCCATAAGACATTCAGGCAGGATGTTTTCACATGTC
TATCAAAATATGAGAAAGGTTTCTCATTCAAATATGAAAATTGAAATTTTTGAAAGTAAGAAAAG
TTTCTTACATAATAAACTATTTCCAAAATTTAAAAGTCAATCAGGCCATCAGCAAGTCTTTCGAC
CATGATGCTGAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCC
ATCCATAAGTCCTTCAGACAGGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATT
TAAATCTAAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACATAGTAAACTATTTCCAAA
ATTTATAAGTCCTTCAAGACATCAATAAGTATTTCGAGCATGATACTTAAATCCTTCGGGTCATC
TGTAAATCTTTAGAGAAAGAAGATAAGTCATTCAGGCCATCCAAAAGACCTTCAGCCAGGATGTT
TTAACATGCCTATCAAAAAATGAGAAAGATTTCTCATTCAAATCTGAAAATTGAAATTTTTAAAA
GGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAATCCTTCGGGCCATCAGTA
AGTCTTTCGAGCATGATGCTTAAAC
Found at i:181671 original size:41 final size:42
Alignment explanation
Indices: 181564--181671 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
181554 TCCAAAATTT
* * * *
181564 ATAAATCTTTCGGGCCAT-CAGTAAGTCTTTCGAGCATGATGC
1 ATAAATCATTCGGGTCATCCA-TAAGTCTTTAGAGCAAGATGC
* * * *
181606 TTAAATCCTTCGGGTAATCTATAAGTCTTTAGAGCAAGATG-
1 ATAAATCATTCGGGTCATCCATAAGTCTTTAGAGCAAGATGC
*
181647 ATAAGTCATTCGGGTCATCCATAAG
1 ATAAATCATTCGGGTCATCCATAAG
181672 ACCTTTGGGC
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 20 0.38
42 32 0.60
43 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
ATAAATCATTCGGGTCATCCATAAGTCTTTAGAGCAAGATGC
Found at i:182192 original size:15 final size:15
Alignment explanation
Indices: 182168--182206 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
182158 ATCCCTATAT
*
182168 TATTATTATTACTAC
1 TATTAATATTACTAC
* *
182183 TATTAATATTATTAT
1 TATTAATATTACTAC
182198 TATTAATAT
1 TATTAATAT
182207 ATTTTTTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATATTACTAC
Found at i:184390 original size:131 final size:131
Alignment explanation
Indices: 184237--184474 Score: 332
Period size: 131 Copynumber: 1.8 Consensus size: 131
184227 TCAATATTGA
* * * ** * * * *
184237 AAATAGTAATATCTTTTCATTTCAATCGGAGTAATAAATGATTGCTTTAAGGTATAAGATGTCAT
1 AAATAGTAATATCTCTTAATTTCAATCGGACTAATAAATGACGGCTTTAAGGCACAAAAGGTCAT
* * *
184302 TTATTCTCGATTGGAAATTATTAGTTATTATCGTTTTCACTTGAATTGCTATGTAATTTTAAGAC
66 TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTTGAATTGCTATGTAATTTTAAGAC
184367 G
131 G
* * * *
184368 AAATATTAATATCTCTTAATTTCAATTGGACTAATAAATGACGGTTTTAATGCACAAAAGGTCAT
1 AAATAGTAATATCTCTTAATTTCAATCGGACTAATAAATGACGGCTTTAAGGCACAAAAGGTCAT
184433 TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTT
66 TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTT
184475 TTAAAATTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
131 91 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (131 bp):
AAATAGTAATATCTCTTAATTTCAATCGGACTAATAAATGACGGCTTTAAGGCACAAAAGGTCAT
TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTTGAATTGCTATGTAATTTTAAGAC
G
Found at i:193285 original size:21 final size:21
Alignment explanation
Indices: 193255--193314 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
193245 GCGTAGAGTT
193255 TGTCCCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
* *
193276 TGTCCTGAAGAACCAC-T-G-
1 TGTCCCGAAGGACCACGTAGA
*
193294 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
193315 CCCTCGACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.42
19 2 0.06
20 2 0.06
21 14 0.45
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (21 bp):
TGTCCCGAAGGACCACGTAGA
Found at i:196908 original size:18 final size:20
Alignment explanation
Indices: 196815--196906 Score: 120
Period size: 21 Copynumber: 4.7 Consensus size: 20
196805 ACGTAGAATT
196815 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATA-A
196836 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATA-A
*
196857 TGTCCCAAAGGACCAC-T-A
1 TGTCCCGAAGGACCACATAA
*
196875 TGTCCCGAAGGACCGC-T-A
1 TGTCCCGAAGGACCACATAA
196893 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
196907 GCGTAGACCC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
18 31 0.46
20 1 0.01
21 36 0.53
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (20 bp):
TGTCCCGAAGGACCACATAA
Found at i:200480 original size:28 final size:28
Alignment explanation
Indices: 200460--200514 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
200450 AATTTTCAAT
200460 GAAAGATCCATTTCTATTAATTCACAAC
1 GAAAGATCCATTTCTATTAATTCACAAC
200488 GAAAGATCCATTTCTATTAATTCACAA
1 GAAAGATCCATTTCTATTAATTCACAA
200515 AGTAGCAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (28 bp):
GAAAGATCCATTTCTATTAATTCACAAC
Found at i:205854 original size:2 final size:2
Alignment explanation
Indices: 205847--205883 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
205837 TTCATTTGTG
*
205847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
205884 CTTATTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:206041 original size:40 final size:44
Alignment explanation
Indices: 205997--206092 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 44
205987 ATACGGATTA
* *
205997 ATTATTAGTTATTATTAT-T-TA-T-G-TGTGTTTATATATATAT
1 ATTATTAGTTATTATTATATATATTAGTTATGATTATATATAT-T
*
206037 ATTATTAGTTATTCTTATATATATTAGTTATGATTATATATATT
1 ATTATTAGTTATTATTATATATATTAGTTATGATTATATATATT
206081 ATTATTAGTTAT
1 ATTATTAGTTAT
206093 ATATAGGTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 17 0.35
41 1 0.02
42 2 0.04
43 1 0.02
44 14 0.29
45 13 0.27
ACGTcount: A:0.32, C:0.01, G:0.08, T:0.58
Consensus pattern (44 bp):
ATTATTAGTTATTATTATATATATTAGTTATGATTATATATATT
Found at i:206063 original size:19 final size:19
Alignment explanation
Indices: 205999--206097 Score: 96
Period size: 19 Copynumber: 5.1 Consensus size: 19
205989 ACGGATTAAT
*
205999 TATTAGTTATTATTATTTA
1 TATTAGTTATTATTATATA
*
206018 TGTGT-GTT-TATATATATATA
1 TAT-TAGTTAT-TAT-TATATA
*
206038 TTATTAGTTATTCTTATATA
1 -TATTAGTTATTATTATATA
*
206058 TATTAGTTATGATTATATA
1 TATTAGTTATTATTATATA
206077 TATTA-TTATTAGTTATATA
1 TATTAGTTATTA-TTATATA
206096 TA
1 TA
206098 GGTTAATTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
18 6 0.09
19 39 0.59
20 13 0.20
21 7 0.11
22 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (19 bp):
TATTAGTTATTATTATATA
Found at i:206109 original size:22 final size:19
Alignment explanation
Indices: 205964--206127 Score: 84
Period size: 22 Copynumber: 7.8 Consensus size: 19
205954 TATTGATTCA
*
205964 TATATTATATTATTACTAGT
1 TATA-TATATTATTATTAGT
*
205984 TATATACGGATTAATTATTAG-
1 TATATA--TATT-ATTATTAGT
*
206005 T-TAT-TATTATTTATGTGTGTT
1 TATATATATTA-TTAT-T-AG-T
206026 TATATATATATATTATTAGT
1 TATATATAT-TATTATTAGT
*
206046 TATTCTTATATATATTAGTTATGAT
1 TA-T-ATATAT-TATTA-TTA-G-T
206071 TATATATATTATTATTAGT
1 TATATATATTATTATTAGT
206090 TATATATAGGTTAATTATTAGT
1 TATATATA--TT-ATTATTAGT
206112 TAT-TATTATTAATTAT
1 TATATA-TATT-ATTAT
206128 GCATGTGTCT
Statistics
Matches: 117, Mismatches: 7, Indels: 40
0.71 0.04 0.24
Matches are distributed among these distances:
16 1 0.01
17 7 0.06
18 1 0.01
19 12 0.10
20 19 0.16
21 14 0.12
22 41 0.35
23 15 0.13
24 4 0.03
25 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (19 bp):
TATATATATTATTATTAGT
Found at i:206182 original size:106 final size:105
Alignment explanation
Indices: 205969--206191 Score: 249
Period size: 106 Copynumber: 2.1 Consensus size: 105
205959 ATTCATATAT
* * * *
205969 TATATTATTACTAGTTATATACGGATTAATTATTAGTTATTATTATTTATGTGTGTTTATATATA
1 TATATTATTATTAGTTATATAAGGATTAATTATTAGTTATTATTATTTATGTGTGTCTATATAAA
* *
206034 TATATTATTAGTTATTCTTATATATATTAGTTATGATTATA
66 TATATTATTAGTTATTCATATATATATTAGTTA-GATCATA
206075 TATATTATTATTAGTTATATATAGG-TTAATTATTAGTTATTATTATTAATTATGCATGTGTCTA
1 TATATTATTATTAGTTATATA-AGGATTAATTATTAGTTATTATTA-T--TTATG--TGTGTCTA
* * * *
206139 TATAAATATATTATTATTTA-T-ATATTTATA-TGGTTA-CTCATA
60 TATAAATATATTATTAGTTATTCATATATATATTAGTTAGATCATA
*
206181 TATAATATTAT
1 TATATTATTAT
206192 ATATATATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
106 54 0.54
107 3 0.03
108 5 0.05
109 12 0.12
110 1 0.01
111 25 0.25
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (105 bp):
TATATTATTATTAGTTATATAAGGATTAATTATTAGTTATTATTATTTATGTGTGTCTATATAAA
TATATTATTAGTTATTCATATATATATTAGTTAGATCATA
Found at i:211805 original size:20 final size:19
Alignment explanation
Indices: 211782--211828 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
211772 CGATATACCA
211782 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
211802 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
211822 GGTAAAA
1 GGTAAAA
211829 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:211916 original size:182 final size:182
Alignment explanation
Indices: 211569--212042 Score: 684
Period size: 181 Copynumber: 2.6 Consensus size: 182
211559 GATCCAAATT
* * * * * *
211569 AAAAATGTGTCAATCCAAAACGATATAACATGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TGAAAATGAT
* * * * * *
211633 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAATGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
*
211698 CGTGAATTTAAAAGAGAAGCAGTTTTAAGTCCTATAAAGTGTCGATACTTTTAA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCGATAC-TTTAA
* *
211752 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
* *
211817 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
211881 GTGAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAG-GCCTATAAAGTGTCGATACTTTAA
* * * * *
211933 AAAAATATATCGATCCACAACGATATAACAGATAAAAATATGATAAAACAGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
*
211998 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
212043 CGTAAGTACG
Statistics
Matches: 263, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
181 108 0.41
182 60 0.23
183 95 0.36
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCGATACTTTAA
Found at i:211982 original size:20 final size:20
Alignment explanation
Indices: 211954--212001 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
211944 GATCCACAAC
*
211954 GATATAACAGATA-AAAATAT
1 GATAAAACAGATATAAAA-AT
* *
211974 GATAAAACAGGTATCAAAAT
1 GATAAAACAGATATAAAAAT
211994 GATAAAAC
1 GATAAAAC
212002 CGGTAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.21
Consensus pattern (20 bp):
GATAAAACAGATATAAAAAT
Found at i:212615 original size:183 final size:183
Alignment explanation
Indices: 212365--213020 Score: 1154
Period size: 183 Copynumber: 3.6 Consensus size: 183
212355 GATAGGGTTT
*
212365 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATAAGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
*
212430 GTCTACAACCTATATCGACACTTTCTAATTTTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
*
212495 ATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACTCATCGGAACCCATAA
131 ATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACTCATCGGAACCCAGAA
212548 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
212613 GTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
*
212678 ATATGTCGATACATTGTCAAAAAGTGTCGACATTTACTCATCGGAACCCAGAA
131 ATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACTCATCGGAACCCAGAA
212731 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
* * *
212796 GTCTACAACCTATATCTACACTTTCTAATATTGTGTCGGTACTTTATGTCTAGATTAGAAGAAAA
66 GTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
* * * *
212861 ATGTGTCGATACCATT-TAAAAAAGTGTCGACATGTACACATCGGAACCCAGAT
131 ATGTGTCGATA-CATTGTCAAAAAGTGTCGACATTTACTCATCGGAACCCAGAA
*
212914 TTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
*
212979 GTCTTACAACCTATATCGACACGTTT-TAATATTGTGTTGGTA
66 GTC-TACAACCTATATCGACAC-TTTCTAATATTGTGTCGGTA
213021 ATTTTAAGTA
Statistics
Matches: 455, Mismatches: 15, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 416 0.91
184 36 0.08
185 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAG
GTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
ATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACTCATCGGAACCCAGAA
Found at i:215503 original size:25 final size:25
Alignment explanation
Indices: 215475--215539 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
215465 TTATCATTAA
215475 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
215500 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
215525 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
215540 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:215917 original size:23 final size:23
Alignment explanation
Indices: 215886--215949 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
215876 ATAGGTAAAA
*
215886 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
215909 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
215932 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
215950 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:216398 original size:23 final size:23
Alignment explanation
Indices: 216367--216430 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
216357 ATAGGTAAAA
*
216367 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
216390 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
216413 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
216431 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:216687 original size:480 final size:481
Alignment explanation
Indices: 215539--216833 Score: 2466
Period size: 480 Copynumber: 2.7 Consensus size: 481
215529 AGGTATATAC
215539 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
215604 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
215669 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
215734 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
*
215799 AAAATTGAAACATAAATTACATAACTTTAAAAAAACTATCGATCATTTTTATAAAAAGTATGGAC
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAACTATCGATCCTTTTTATAAAAAGTATGGAC
215864 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
325 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
215929 TTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
390 TTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
215994 CACTGTGGAAAACATTAATTTAAGGTT
455 CACTGTGGAAAACATTAATTTAAGGTT
* *
216021 ATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
216086 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTACC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
216151 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
216216 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
216281 AAATTGAAACATAAATTACATAACTTTAAAAAAACTATCGATCCTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAACTATCGATCCTTTTTATAAAAAGTATGGACA
216346 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
*
216411 TTATATAATGTAATAGGTAGTTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
391 TTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
216476 ACTGT-GAAAACATTAATTTAAGGTT
456 ACTGTGGAAAACATTAATTTAAGGTT
*
216501 ATCTTTTGAGTGAGTTATAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
216566 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
216631 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* * *
216696 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAGCATAAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
216761 AAATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTTATAAAAAAGTATGGAC
261 AAATTGAAACATAAATTACATAACTTTAAAAAAACTATCGATCCTTTTTAT-AAAAAGTATGGAC
216826 ACTTTCAA
325 ACTTTCAA
216834 CATATTATAA
Statistics
Matches: 797, Mismatches: 15, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
480 322 0.40
481 223 0.28
482 252 0.32
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (481 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAACTATCGATCCTTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
TTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTT
Found at i:217324 original size:21 final size:21
Alignment explanation
Indices: 217268--217327 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
217258 AGGGCATGTT
* *
217268 GTAAACTTTGTTTCAATTATC
1 GTAAATTTTGTTTCAATTACC
217289 GTAAATTTT-TTTCAATTACC
1 GTAAATTTTGTTTCAATTACC
217309 GTAAATTTTGTTTCAATTA
1 GTAAATTTTGTTTCAATTA
217328 TCGAACTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (21 bp):
GTAAATTTTGTTTCAATTACC
Found at i:217393 original size:32 final size:31
Alignment explanation
Indices: 217319--217393 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
217309 GTAAATTTTG
* * * *
217319 TTTCAATTATCGAACTTAAATTTTTTAAGTA
1 TTTCAATTATCGAACTTAAAGTATTAAAATA
*
217350 TTTAAATTTATCGAACTTATAAGTATTAAAATA
1 TTTCAA-TTATCGAACTTA-AAGTATTAAAATA
217383 TTTCAATTATC
1 TTTCAATTATC
217394 ATAAATTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 5 0.14
32 17 0.47
33 14 0.39
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTCAATTATCGAACTTAAAGTATTAAAATA
Found at i:217444 original size:14 final size:15
Alignment explanation
Indices: 217425--217461 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
217415 TTGATGACAA
217425 TATAATTTTA-ATAT
1 TATAATTTTAGATAT
217439 TATAATATTTAGATAT
1 TATAAT-TTTAGATAT
217455 T-TAATTT
1 TATAATTT
217462 ATCATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TATAATTTTAGATAT
Found at i:219486 original size:16 final size:17
Alignment explanation
Indices: 219465--219499 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
219455 GATAATTTGT
*
219465 TTTTAATTTATTT-TTA
1 TTTTAATATATTTATTA
219481 TTTTAATATATTTATTA
1 TTTTAATATATTTATTA
219498 TT
1 TT
219500 ATTTTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAATATATTTATTA
Found at i:222800 original size:17 final size:16
Alignment explanation
Indices: 222774--222812 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
222764 AGATACTAAC
222774 ATGTACTTTGAAAATG
1 ATGTACTTTGAAAATG
* *
222790 TATGTATTTTGTAAATG
1 -ATGTACTTTGAAAATG
222807 ATGTAC
1 ATGTAC
222813 ATGTAGATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (16 bp):
ATGTACTTTGAAAATG
Found at i:225026 original size:451 final size:452
Alignment explanation
Indices: 224183--225031 Score: 1274
Period size: 451 Copynumber: 1.9 Consensus size: 452
224173 CTAAGGAACA
224183 TGTTAGGATCGAGTCATTCAATTTTTGAACAACTTCCCAGTGGGCCACCCATCCTTGAATTACTC
1 TGTTAGGATCGAGTCATTCAATTTTTGAACAACTTCCCAGTGGGCCACCCATCCTTGAATTACTC
* ** *
224248 TGGTTCAAGCACGCTTTAACTATAGTGTTCTGAAGCGAATGATCACCATTCCTTCTTAAAACCAA
66 TGGTTCAAGCACGCTTTAACTACAGAATTCTGAAGCGAATGATCACCATTCATTCTTAAAACCAA
224313 TTGGTGATAAGTAGGTGGGCCAATTCAACCTCACATCTTTGTAACGGGTAATCACTGGTTTCCCC
131 TTGGTGATAAGTAGGTGGGCCAATTCAACCTCACATCTTTGTAACGGGTAATCACTGGTTTCCCC
** **
224378 CAAGCCAAGGTGGATTCTTGTAGGGTACCCCCACAATTCACCACGGCATTACAGAGCCCCGCATC
196 CAAGCCAAGGCAGATTCTTGTAGGGTACCCCCACAATTCACCACAACATTACAGAGCCCCGCATC
* * **
224443 TATAGCATGCTGCGGGCGGGCATATGGGCTTCGTAAGGCACTTGTGGGCCTCAAAAGGTTAGGCT
261 TATAGCATGCTGCGGGCGGGCATAGGGGCTTCGCAAGGCACACGTGGGCCTCAAAAGGTTAGGCT
* * * *
224508 GTCAAGCACCTGATATCGCACCCATATATGATAGAATCCCTAAGGGTGATCGCTGGACCCCATAA
326 GTCAAGCACATGATATCACACCCATACATGATAGAATCCCTAAGAGTGATCGCTGGACCCCATAA
224573 CCCAACAATCACCCCCAGCGACACCTGGGGGATTCGAACATGCAACCTGCTCTGATACCACT
391 CCCAACAATCACCCCCAGCGACACCTGGGGGATTCGAACATGCAACCTGCTCTGATACCACT
* *
224635 TGTTAGGATCGAGTTATTCAATTTTTTGAACAACTTCCCA-TGGGTCACCCATCCTTGAATTACT
1 TGTTAGGATCGAGTCATTCAA-TTTTTGAACAACTTCCCAGTGGGCCACCCATCCTTGAATTACT
* *
224699 CTGGTTCAAGCACGC-TTAACTACAGAATTCTGAAGCGAATGGTCA-CATTCATTCTTAAAACTA
65 CTGGTTCAAGCACGCTTTAACTACAGAATTCTGAAGCGAATGATCACCATTCATTCTTAAAACCA
* * * * *
224762 ATTGGTGATAAGTAGGTGGGCCAATTCAACCTCATATCTTTGTATCGGGTGATCGCTGTTTTCCC
130 ATTGGTGATAAGTAGGTGGGCCAATTCAACCTCACATCTTTGTAACGGGTAATCACTGGTTTCCC
* * * * *
224827 CCAAGCCAATGCAGATTCTTGTGGGGTATCCCCCACAGTTCACCACAACATTGCAGAGCCCCGTA
195 CCAAGCCAAGGCAGATTCTTGTAGGGTA-CCCCCACAATTCACCACAACATTACAGAGCCCCGCA
* * * * * **** *
224892 TTTATAAG-GTGTTGCGGGCGGGCCTAGGGGCTTCGCAAGGTACACGTGGGCCTTGGCAGGTTGG
259 TCTAT-AGCATGCTGCGGGCGGGCATAGGGGCTTCGCAAGGCACACGTGGGCCTCAAAAGGTTAG
*
224956 GCTGTCAAGCACATGATATCACGCCCATACATGATAGAATCCCTAAGAGTGATCGCTGGACCCCA
323 GCTGTCAAGCACATGATATCACACCCATACATGATAGAATCCCTAAGAGTGATCGCTGGACCCCA
225021 TAACCCAACAA
388 TAACCCAACAA
225032 AACACATTTA
Statistics
Matches: 353, Mismatches: 41, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
450 100 0.28
451 175 0.50
452 60 0.17
453 18 0.05
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (452 bp):
TGTTAGGATCGAGTCATTCAATTTTTGAACAACTTCCCAGTGGGCCACCCATCCTTGAATTACTC
TGGTTCAAGCACGCTTTAACTACAGAATTCTGAAGCGAATGATCACCATTCATTCTTAAAACCAA
TTGGTGATAAGTAGGTGGGCCAATTCAACCTCACATCTTTGTAACGGGTAATCACTGGTTTCCCC
CAAGCCAAGGCAGATTCTTGTAGGGTACCCCCACAATTCACCACAACATTACAGAGCCCCGCATC
TATAGCATGCTGCGGGCGGGCATAGGGGCTTCGCAAGGCACACGTGGGCCTCAAAAGGTTAGGCT
GTCAAGCACATGATATCACACCCATACATGATAGAATCCCTAAGAGTGATCGCTGGACCCCATAA
CCCAACAATCACCCCCAGCGACACCTGGGGGATTCGAACATGCAACCTGCTCTGATACCACT
Found at i:236106 original size:34 final size:37
Alignment explanation
Indices: 236068--236136 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
236058 GCATTAGTCG
*
236068 ATAATTGAATT-T-ATCTTAATGGATG-AACCAAGCC
1 ATAATTGAATTATCATCATAATGGATGAAACCAAGCC
*
236102 ATAATTGGATTCATCATCATAATGGATGAAACCAA
1 ATAATTGAATT-ATCATCATAATGGATGAAACCAA
236137 TCAGTAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 10 0.34
36 1 0.03
37 12 0.41
38 6 0.21
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
ATAATTGAATTATCATCATAATGGATGAAACCAAGCC
Found at i:238150 original size:14 final size:14
Alignment explanation
Indices: 238131--238164 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
238121 ACAATAGATG
238131 GGCTATACAAGTGT
1 GGCTATACAAGTGT
238145 GGCTATACAAGTGT
1 GGCTATACAAGTGT
*
238159 GACTAT
1 GGCTAT
238165 TCCAAGACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (14 bp):
GGCTATACAAGTGT
Found at i:238452 original size:20 final size:21
Alignment explanation
Indices: 238428--238497 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
238418 ATATCTAGAG
238428 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
238449 -TAATCACGAATATTTAATTTTAA
1 TTAATTA--AATATAT-GTTTTAA
*
238472 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
238492 TTAATT
1 TTAATT
238498 TCAAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 16 0.42
22 11 0.29
23 6 0.16
24 5 0.13
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:238569 original size:90 final size:89
Alignment explanation
Indices: 238459--238633 Score: 262
Period size: 90 Copynumber: 2.0 Consensus size: 89
238449 TAATCACGAA
* *
238459 TATTTAATTTTAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCATAATATGAT
1 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAA-CCATAATATGAT
238524 T-AGAGTAACTTGAATATAAAAGGAT
65 TAAG-GTAACTTGAATATAAAAGGAT
* * *
238549 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGATATAATAAAACCCTAATATGATT
1 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAACCATAATATGATT
**
238614 AAGGTAACTTGGCTATAAAA
66 AAGGTAACTTGAATATAAAA
238634 TGGTGTGTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
89 27 0.35
90 50 0.65
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (89 bp):
TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAACCATAATATGATT
AAGGTAACTTGAATATAAAAGGAT
Found at i:239832 original size:18 final size:17
Alignment explanation
Indices: 239791--239839 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
239781 TGTTTAAGAT
239791 TCAGATTCCAATTCCTG
1 TCAGATTCCAATTCCTG
*
239808 TCAGATTTCAATTCCT-
1 TCAGATTCCAATTCCTG
239824 TAACAGATTCCAATTC
1 T--CAGATTCCAATTC
239840 TCTCATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 15 0.54
18 12 0.43
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.37
Consensus pattern (17 bp):
TCAGATTCCAATTCCTG
Found at i:240335 original size:6 final size:6
Alignment explanation
Indices: 240326--240368 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
240316 ATAAAAATAT
* * *
240326 TTTAAA TTTAAA ATAAAA TTTAAA TTTAAA TTTTAAA TATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA
240369 ATATTATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:240337 original size:17 final size:18
Alignment explanation
Indices: 240306--240355 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
240296 CTTATTTAAT
**
240306 TATTTTAAAAATAAAA-A
1 TATTTTAAATTTAAAATA
240323 TATTTTAAATTTAAAATA
1 TATTTTAAATTTAAAATA
* *
240341 AAATTTAAATTTAAA
1 TATTTTAAATTTAAA
240356 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTTTAAATTTAAAATA
Found at i:240386 original size:31 final size:31
Alignment explanation
Indices: 240324--240419 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 31
240314 AAATAAAAAT
* ** ** *
240324 ATTTTAAATTTAAAATAAAATTTAAATTTAA
1 ATTTTAAATATAAAATATTATAAAAAATTAA
240355 ATTTTAAATATAAAATATTATAAAAAATTAA
1 ATTTTAAATATAAAATATTATAAAAAATTAA
* * *
240386 A-TATAAAAATTAAATATATATTAAAAATATTAA
1 ATTTTAAATATAAAATAT-TA-TAAAAA-ATTAA
240419 A
1 A
240420 ATACTATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 13 0.25
31 28 0.53
32 6 0.11
33 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
ATTTTAAATATAAAATATTATAAAAAATTAA
Found at i:240389 original size:17 final size:17
Alignment explanation
Indices: 240367--240419 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 17
240357 TTTAAATATA
240367 AAATATTATAAAAAATT
1 AAATATTATAAAAAATT
240384 -AA-A-TAT-AAAAATT
1 AAATATTATAAAAAATT
240397 AAATATATATTAAAAATATT
1 AAATAT-TA-TAAAAA-ATT
240417 AAA
1 AAA
240420 ATACTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
13 7 0.24
14 5 0.17
15 2 0.07
16 2 0.07
17 2 0.07
18 1 0.03
19 4 0.14
20 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATTATAAAAAATT
Found at i:240395 original size:13 final size:13
Alignment explanation
Indices: 240333--240403 Score: 69
Period size: 13 Copynumber: 5.7 Consensus size: 13
240323 TATTTTAAAT
*
240333 TTAAA-ATAAAAT
1 TTAAATATAAAAA
* **
240345 TTAAATTTAAATT
1 TTAAATATAAAAA
240358 TTAAATATAAAATA
1 TTAAATATAAAA-A
240372 TT--ATA-AAAAA
1 TTAAATATAAAAA
240382 TTAAATATAAAAA
1 TTAAATATAAAAA
240395 TTAAATATA
1 TTAAATATA
240404 TATTAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 3 0.06
11 4 0.08
12 11 0.22
13 29 0.59
14 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAATATAAAAA
Found at i:240419 original size:20 final size:19
Alignment explanation
Indices: 240390--240430 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
240380 AATTAAATAT
240390 AAAAATTAAATATA-TATTA
1 AAAAATTAAA-ATACTATTA
240409 AAAATATTAAAATACTATTA
1 AAAA-ATTAAAATACTATTA
240429 AA
1 AA
240431 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTAAAATACTATTA
Found at i:240819 original size:18 final size:19
Alignment explanation
Indices: 240782--240826 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
240772 TTATGTATAA
*
240782 TATATGTTTTTAAAATATT
1 TATATTTTTTTAAAATATT
* *
240801 TTTATTTTTTTAATA-ATT
1 TATATTTTTTTAAAATATT
240819 TATATTTT
1 TATATTTT
240827 ATCATTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATATTTTTTTAAAATATT
Found at i:240901 original size:21 final size:20
Alignment explanation
Indices: 240875--240928 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
240865 TTTAATAGTA
*
240875 TTTTTAAT-TTATATATTTAAT
1 TTTTTAATATT-TA-ATTTAAC
240896 TTTTTAATAATTTAATTTAAC
1 TTTTTAAT-ATTTAATTTAAC
240917 TTTTTAATATTT
1 TTTTTAATATTT
240929 GAATATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 2 0.07
23 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAATATTTAATTTAAC
Found at i:240922 original size:29 final size:29
Alignment explanation
Indices: 240877--240933 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
240867 TAATAGTATT
* *
240877 TTTAATTTATATATTTAATTTTTTAATAA
1 TTTAATTTATATATTTAATATTTGAATAA
*
240906 TTTAATTTA-ACTTTTTAATATTTGAATA
1 TTTAATTTATA-TATTTAATATTTGAATA
240934 TTATATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTAATTTATATATTTAATATTTGAATAA
Found at i:241536 original size:36 final size:36
Alignment explanation
Indices: 241449--241562 Score: 171
Period size: 35 Copynumber: 3.2 Consensus size: 36
241439 TGGCATCCAA
241449 CTTTG-AAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
241484 CTTT-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
241519 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATG-TT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
241554 CGTTGAAAA
1 CTTTGAAAA
241563 TAGGAATGAG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 47 0.64
36 26 0.36
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:242015 original size:16 final size:17
Alignment explanation
Indices: 241994--242027 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
241984 ACTATTCACA
*
241994 TGAATAGT-GAATTTTG
1 TGAATAGTAAAATTTTG
242010 TGAATAGTAAAATTTTG
1 TGAATAGTAAAATTTTG
242027 T
1 T
242028 CGACGATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TGAATAGTAAAATTTTG
Found at i:246061 original size:21 final size:21
Alignment explanation
Indices: 246037--246097 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
246027 CCAACTTTGA
246037 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
246058 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
246072 AAATGGTTTCCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
246093 AAATG
1 AAATG
246098 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 3 0.10
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:246123 original size:36 final size:35
Alignment explanation
Indices: 246031--246145 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
246021 TGGCATCCAA
246031 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
246066 CTTTGAAAATGGTTTCCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
246101 CTTTGAAAAATGTTTTTGAAAGTTTGGTAGATG-TT
1 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
246136 CGTTGAAAAT
1 CTTTGAAAAT
246146 AGGAATGGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
34 5 0.07
35 45 0.62
36 23 0.32
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:248056 original size:30 final size:30
Alignment explanation
Indices: 248014--248070 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
248004 TAATCTCTAT
248014 CCTTTAATTTCCTTTATTTACATTTCATCA
1 CCTTTAATTTCCTTTATTTACATTTCATCA
*
248044 CCTTTACA-TTCCTTTATTTATATTTCA
1 CCTTTA-ATTTCCTTTATTTACATTTCA
248071 ATATCCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (30 bp):
CCTTTAATTTCCTTTATTTACATTTCATCA
Found at i:248095 original size:89 final size:87
Alignment explanation
Indices: 247985--248166 Score: 194
Period size: 89 Copynumber: 2.1 Consensus size: 87
247975 TTTAGTTTTT
* * *
247985 TCCTTTATTTCTGCCATTTTAATCTCTATC-CTTTAATTTCCTTTATTT-ACATTTCATCACCTT
1 TCCTTTATTTCTGCCAATTTAATCTC-AACACTTTAATTTCCATTATTTGA-ATTTCAT-ACCTT
*
248048 TACATTCC-TTTATTTATATTTCAATA
63 T--ATTCCATTTATTTACATTTCAATA
* * ** *
248074 TCCTTTATTTGTTG-CAATTTAATTTCAACACTTTAATTTCCATTATTTGAATTTGGTTCCTTTA
1 TCCTTTATTT-CTGCCAATTTAATCTCAACACTTTAATTTCCATTATTTGAATTTCATACCTTTA
248138 TTCCATTTATTTACATTTCAATA
65 TTCCATTTATTTACATTTCAATA
248161 -CCTTTA
1 TCCTTTA
248167 CCTCCCCTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
86 11 0.14
87 17 0.21
88 7 0.09
89 42 0.52
90 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.53
Consensus pattern (87 bp):
TCCTTTATTTCTGCCAATTTAATCTCAACACTTTAATTTCCATTATTTGAATTTCATACCTTTAT
TCCATTTATTTACATTTCAATA
Found at i:248302 original size:29 final size:28
Alignment explanation
Indices: 248270--248342 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
248260 CTCATTTACT
* *
248270 TTTTAATATTTAATTTTCAGCACTTTAAA
1 TTTTAGTATTTAATTTTCAGC-CTTCAAA
* * *
248299 TTTTAGTACCTTATTTTTCAGCCTTCAGA
1 TTTTAGTA-TTTAATTTTCAGCCTTCAAA
248328 TTTT-GTATTTAATTT
1 TTTTAGTATTTAATTT
248343 ATTTCAGTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
27 6 0.17
28 3 0.08
29 16 0.44
30 11 0.31
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTAGTATTTAATTTTCAGCCTTCAAA
Found at i:249774 original size:20 final size:20
Alignment explanation
Indices: 249749--249796 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
249739 ATGCAAAATG
* *
249749 AGTATCGATACTGCTACAGT
1 AGTATCAATACTACTACAGT
249769 AGTATCAATACTACTACAGT
1 AGTATCAATACTACTACAGT
*
249789 AATATCAA
1 AGTATCAA
249797 GCCCAACGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (20 bp):
AGTATCAATACTACTACAGT
Found at i:252468 original size:20 final size:21
Alignment explanation
Indices: 252443--252492 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
252433 TTGTCATGTA
*
252443 TGAATAGTATC-GATACTGTG
1 TGAATAGTAACTGATACTGTG
252463 TGAATAG-AACTGATACTGTG
1 TGAATAGTAACTGATACTGTG
252483 TGAATAGTAA
1 TGAATAGTAA
252493 TGAACAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (21 bp):
TGAATAGTAACTGATACTGTG
Found at i:252557 original size:20 final size:20
Alignment explanation
Indices: 252532--252577 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
252522 GTGCAAAATA
252532 AGTATCGATACTGCTACAGT
1 AGTATCGATACTGCTACAGT
* *
252552 AGTATCGATATTGCTATAGT
1 AGTATCGATACTGCTACAGT
*
252572 AATATC
1 AGTATC
252578 AAACCCAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTGCTACAGT
Found at i:260265 original size:18 final size:19
Alignment explanation
Indices: 260232--260267 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
260222 TATATTTGGT
*
260232 TTTTATATTTAATATTATG
1 TTTTATATTAAATATTATG
260251 TTTTA-ATTAAATATTAT
1 TTTTATATTAAATATTAT
260268 ATATTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATATTAAATATTATG
Found at i:261739 original size:169 final size:169
Alignment explanation
Indices: 261391--261744 Score: 410
Period size: 169 Copynumber: 2.1 Consensus size: 169
261381 ATGGGACAGT
*
261391 GAGAATTGTTGGGATGAATAGTTCCCCGAAGGGAACATTATACGTAAAATATGTTTCTAGAATAT
1 GAGAATTGTTGGGATAAATAGTTCCCCGAAGGGAACATTATACGTAAAATATGTTTCTAGAATAT
* *
261456 GCAGATAATCTCTGCAAAAAAAAAAGAAAGCTTTTTGCACAAGAAGCTCTTTCACCTTATGCAAA
66 GCAGAGAATCTCT-CAAAAAAAAAAGAAAGCTTTTTGCACAAGAAGCTCTTTCACATTATGCAAA
* * ** * * * *
261521 GAATCTTTGTCATGTCGTAGTGTCTCATCCCATCAGGCAT
130 GAATATCTACCATGTCATAGTATCTCATCCCATCAGACAC
* * * * *
261561 GATAATTGTTGGGATAAATAGTTCCCTGAAGGGGAGCATTATATGTACAAATATGTTTCTGGAAT
1 GAGAATTGTTGGGATAAATAGTTCCCCGAA-GGGAACATTATACGTA-AAATATGTTTCTAGAAT
* * * * * *
261626 ATGCGGAGAATCT-T-TACAAAAAAGGAAGGCTCTTTT-CACAAGAAG-TGTTTTCACATTATGC
64 ATGCAGAGAATCTCTCAAAAAAAAAAGAAAGCT-TTTTGCACAAGAAGCT-CTTTCACATTATGC
* * *
261687 AGAGAATATCTACCATGTCATAGTATCTTATCCCATCATACAC
127 AAAGAATATCTACCATGTCATAGTATCTCATCCCATCAGACAC
261730 GAGAATTGTTGGGAT
1 GAGAATTGTTGGGAT
261745 GATTCACAAG
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
168 1 0.01
169 80 0.52
170 31 0.20
171 15 0.10
172 27 0.18
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (169 bp):
GAGAATTGTTGGGATAAATAGTTCCCCGAAGGGAACATTATACGTAAAATATGTTTCTAGAATAT
GCAGAGAATCTCTCAAAAAAAAAAGAAAGCTTTTTGCACAAGAAGCTCTTTCACATTATGCAAAG
AATATCTACCATGTCATAGTATCTCATCCCATCAGACAC
Found at i:261811 original size:87 final size:87
Alignment explanation
Indices: 261660--261829 Score: 200
Period size: 87 Copynumber: 2.0 Consensus size: 87
261650 GAAGGCTCTT
* * *
261660 TTCACAAGAAGTGTTTTCACATTATGCAGAGAATATCTACCATGTCATAGTATCTTATCCCATCA
1 TTCACAAGAAATGCTTTCACATTAAGCAGAGAATATCTACCATGTCATAGTATCTTATCCCATCA
* *
261725 TACACGAGAATTGTTGGGATGA
66 GACACGAGAACTGTTGGGATGA
* * * * *
261747 TTCACAAGAAATGCTTTCACCTTAAGTAG-GAAATCTCTACCATGTCATAGTGT-TTCATCTCAT
1 TTCACAAGAAATGCTTTCACATTAAGCAGAG-AATATCTACCATGTCATAGTATCTT-ATCCCAT
* *
261810 CAGGCATGAGAACTGTTGGG
64 CAGACACGAGAACTGTTGGG
261830 TTGAATAGTT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
86 3 0.04
87 66 0.96
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (87 bp):
TTCACAAGAAATGCTTTCACATTAAGCAGAGAATATCTACCATGTCATAGTATCTTATCCCATCA
GACACGAGAACTGTTGGGATGA
Found at i:261949 original size:256 final size:256
Alignment explanation
Indices: 261531--262002 Score: 599
Period size: 256 Copynumber: 1.8 Consensus size: 256
261521 GAATCTTTGT
* * *
261531 CATGTCGTAGTGTCTCATCCCATCAGGCATGATAATTGTTGGGATAAATAGTTCCCTGAAGGGGA
1 CATGTCATAGTGTCTCATCCCATCAGGCATGAGAACTGTTGGGATAAATAGTTCCCTGAAGGGGA
* *** * * * **
261596 GCATTATATGTACAAATATGTTTCTGGAATATGCGGAGAATCTTTACAAAAAAGGAAGGCTCTTT
66 GAATTATATGTACAAATATGTTTCCAAAATATACAGAAAATCTGCACAAAAAAGGAAGGCTCTTT
*** * * *
261661 TCACAAGAAGTGTTTTCACATTATGCAGAGAATATCTACCATGTCATAGTATCTTATCCCATCAT
131 TCACAAGAAGCACTTTCACATGATGCAGAGAATATCTACCATGTCATAGTATCTCATCCCATCAG
*
261726 ACACGAGAATTGTTGGGATGATTCACAAGAAATGCTTTCACCTTAAGTAGGAAATCTCTAC
196 ACACGAGAATTGTTAGGATGATTCACAAGAAATGCTTTCACCTTAAGTAGGAAATCTCTAC
* * * *
261787 CATGTCATAGTGTTTCATCTCATCAGGCATGAGAACTGTTGGGTTGAATAGTTCCCTGAA-GGGA
1 CATGTCATAGTGTCTCATCCCATCAGGCATGAGAACTGTTGGGATAAATAGTTCCCTGAAGGGGA
*
261851 -AATTATATGTACAAATATGTTTCCAAAATATACAGAAATATCTGCA-AAAAAATGGAAGGCTTT
66 GAATTATATGTACAAATATGTTTCCAAAATATACAGAAA-ATCTGCACAAAAAA-GGAAGGC-TC
* * * ** * *
261914 TTTTCACAAGAAGCACTTTCACCTGATGTAGAGAATCTCTGTCATGTCATAGTGTCTCATCTCAT
128 TTTTCACAAGAAGCACTTTCACATGATGCAGAGAATATCTACCATGTCATAGTATCTCATCCCAT
* *
261979 CAGACATGGGAATTGTTAGGATGA
193 CAGACACGAGAATTGTTAGGATGA
262003 ATAGTTCCCC
Statistics
Matches: 180, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
254 37 0.21
255 16 0.09
256 127 0.71
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (256 bp):
CATGTCATAGTGTCTCATCCCATCAGGCATGAGAACTGTTGGGATAAATAGTTCCCTGAAGGGGA
GAATTATATGTACAAATATGTTTCCAAAATATACAGAAAATCTGCACAAAAAAGGAAGGCTCTTT
TCACAAGAAGCACTTTCACATGATGCAGAGAATATCTACCATGTCATAGTATCTCATCCCATCAG
ACACGAGAATTGTTAGGATGATTCACAAGAAATGCTTTCACCTTAAGTAGGAAATCTCTAC
Found at i:265304 original size:2 final size:2
Alignment explanation
Indices: 265266--265291 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
265256 TCTCTTAAAG
265266 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
265292 TATTGTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:265328 original size:30 final size:30
Alignment explanation
Indices: 265292--265351 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
265282 ATATATATAT
* *
265292 TATTGTTATATATTAAAATATCTAAACTTA
1 TATTGTTATAAATTAAAATACCTAAACTTA
* **
265322 TATTGTTCTAAATTGGAATACCTAAACTTA
1 TATTGTTATAAATTAAAATACCTAAACTTA
265352 CTATCATTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (30 bp):
TATTGTTATAAATTAAAATACCTAAACTTA
Found at i:275750 original size:43 final size:43
Alignment explanation
Indices: 275636--275990 Score: 306
Period size: 43 Copynumber: 8.3 Consensus size: 43
275626 TTTGTGAACA
* * *
275636 AAAAACTCCACAATAGGTGTTGATATTTAGCGGCGTTTGTTATAT
1 AAAAACGCCGCAATAGTTGTTGATATTTAGCGGCGTTTG-TAT-T
*
275681 ACAAACGCCGCAATAGGTT-TTGATATTTAGCGGCGTTTGTATT
1 AAAAACGCCGCAATA-GTTGTTGATATTTAGCGGCGTTTGTATT
**
275724 AAAAACATCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATT
1 AAAAACGCCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATT
* *
275767 ACAAACGCCGCAATAGGTT-TTGATATTTAGCGGCGTTTGTAAT
1 AAAAACGCCGCAATA-GTTGTTGATATTTAGCGGCGTTTGTATT
* * * **
275810 AAAAATGCCGCAATAGGTGTTGATGTTTAGCGGCGTTT-TCCT
1 AAAAACGCCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATT
* * * * * * * *
275852 ACAAACGCCACAGT-GTTGTTGAGATTTAGCGACATTTTTATC
1 AAAAACGCCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATT
** * * * * **
275894 GCAAACGCCGCAATAAG-TGTTGAGATTTAGCGACATTTTTCCT
1 AAAAACGCCGCAAT-AGTTGTTGATATTTAGCGGCGTTTGTATT
* * ** * *
275937 ACAAACGCCGCAATAGGTGTTGAGCTTTAGCGGCATTTTTATT
1 AAAAACGCCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATT
*
275980 ACAAACGCCGC
1 AAAAACGCCGC
275991 TAAATGTTTG
Statistics
Matches: 262, Mismatches: 40, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
41 18 0.07
42 31 0.12
43 172 0.66
44 7 0.03
45 32 0.12
46 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
AAAAACGCCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATT
Found at i:275800 original size:86 final size:86
Alignment explanation
Indices: 275636--275990 Score: 374
Period size: 86 Copynumber: 4.1 Consensus size: 86
275626 TTTGTGAACA
* * *
275636 AAAAACTCCACAATAGGTGTTGATATTTAGCGGCGTTTGTTATATACAAACGCCGCAATAGGTTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTG-TA-CTACAAACGCCGCAATAGGTTT
* *
275701 TGATATTTAGCGGCGTTTGTATT
64 TGAGATTTAGCGGCATTTGTATT
** * *
275724 AAAAACATCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATTACAAACGCCGCAATAGGTTTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTACTACAAACGCCGCAATAGGTTTTG
* * *
275789 ATATTTAGCGGCGTTTGTAAT
66 AGATTTAGCGGCATTTGTATT
* * * * *
275810 AAAAATGCCGCAATAGGTGTTGATGTTTAGCGGCGTTT-TCCTACAAACGCCACAGT--GTTGTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTACTACAAACGCCGCAATAGGTT-TT
* * *
275872 GAGATTTAGCGACATTTTTATC
65 GAGATTTAGCGGCATTTGTATT
** * * * * * * *
275894 GCAAACGCCGCAATAAGTGTTGAGATTTAGCGACATTTTTCCTACAAACGCCGCAATAGGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTACTACAAACGCCGCAATAGGTTTTG
* *
275959 AGCTTTAGCGGCATTTTTATT
66 AGATTTAGCGGCATTTGTATT
*
275980 ACAAACGCCGC
1 AAAAACGCCGC
275991 TAAATGTTTG
Statistics
Matches: 227, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
83 3 0.01
84 48 0.21
85 30 0.13
86 107 0.47
87 4 0.02
88 35 0.15
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (86 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTACTACAAACGCCGCAATAGGTTTTG
AGATTTAGCGGCATTTGTATT
Found at i:275908 original size:127 final size:128
Alignment explanation
Indices: 275646--275975 Score: 376
Period size: 127 Copynumber: 2.6 Consensus size: 128
275636 AAAAACTCCA
* *
275646 CAATAGGTGTTGATATTTAGCGGCGTTTGTTATATACAAACGCCGCAATAGGTTTTGATATTTAG
1 CAATAGGTGTTGATATTTAGCGGCGTTTG-TA-ATACAAACGCCGCAATAGGTGTTGATGTTTAG
* * * * * * *
275711 CGGCGTTTGTATTAAAAACATCGCAATAGTTGTTGATATTTAGCGGCGTTTGTATTACAAACGCC
64 CGGCGTTT-TACTAAAAACACCACAATAGTTGTTGAGATTTAGCGACATTTGTATCACAAACGCC
275776 G
128 G
* * *
275777 CAATAGGTTTTGATATTTAGCGGCGTTTGTAATAAAAATGCCGCAATAGGTGTTGATGTTTAGCG
1 CAATAGGTGTTGATATTTAGCGGCGTTTGTAATACAAACGCCGCAATAGGTGTTGATGTTTAGCG
* * * * * *
275842 GCGTTTTCCTACAAACGCCACAGT-GTTGTTGAGATTTAGCGACATTTTTATCGCAAACGCCG
66 GCGTTTTACTAAAAACACCACAATAGTTGTTGAGATTTAGCGACATTTGTATCACAAACGCCG
* * * * * **
275904 CAATAAGTGTTGAGATTTAGCGACATTTTTCCTACAAACGCCGCAATAGGTGTTGA-GCTTTAGC
1 CAATAGGTGTTGATATTTAGCGGCGTTTGTAATACAAACGCCGCAATAGGTGTTGATG-TTTAGC
*
275968 GGCATTTT
65 GGCGTTTT
275976 TATTACAAAC
Statistics
Matches: 169, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
126 1 0.01
127 91 0.54
128 11 0.07
129 36 0.21
130 2 0.01
131 28 0.17
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (128 bp):
CAATAGGTGTTGATATTTAGCGGCGTTTGTAATACAAACGCCGCAATAGGTGTTGATGTTTAGCG
GCGTTTTACTAAAAACACCACAATAGTTGTTGAGATTTAGCGACATTTGTATCACAAACGCCG
Found at i:281844 original size:103 final size:103
Alignment explanation
Indices: 281619--281836 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
281609 GTCGAGGGTC
*
281619 TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
281684 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
281722 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
281787 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
281825 TATGTGGTCCTT
1 TATGTGGTCCTT
281837 ATGGACATTA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
Found at i:281879 original size:23 final size:23
Alignment explanation
Indices: 281846--281920 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
281836 TATGGACATT
281846 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
281867 ATTCTATGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* * *
281890 ATTATACGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
281913 ATTATATG
1 ATTATATG
281921 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.13
23 39 0.87
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:286748 original size:64 final size:64
Alignment explanation
Indices: 286666--286822 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 64
286656 TTTGAAGGTG
* * ** *
286666 ATCGATGCACAAGAAGTGCATCGATGCA-CTCTTTTAA-AATA-AATACATCGAATGCAATTCGT
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CTAGTAATAA-ACAA-ACATCGAATGCAATTCAT
286728 GC
63 GC
* *
286730 ATCGATGCATAAGTAGTGCATCGATGCATCCTAGTAATAAACAAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCTAGTAATAAACAAACATCGAATGCAATTCATGC
* *
286794 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
286823 ACCTTCATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
64 76 0.94
65 5 0.06
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCTAGTAATAAACAAACATCGAATGCAATTCATGC
Found at i:287742 original size:101 final size:102
Alignment explanation
Indices: 287562--287775 Score: 385
Period size: 101 Copynumber: 2.1 Consensus size: 102
287552 CGAGGGTCTT
287562 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACA-ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
287627 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
65 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
287665 TGTGGTCCTTCGGGAC-ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 TGTGGTCCTTCGGGACAATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
*
287729 ATCCCTAGTATATGTATATGATTCTTAAGGAATGATA
66 ATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
287766 TGTGGTCCTT
1 TGTGGTCCTT
287776 ATGGACATTA
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
101 92 0.85
103 16 0.15
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (102 bp):
TGTGGTCCTTCGGGACAATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
ATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
Found at i:287826 original size:23 final size:23
Alignment explanation
Indices: 287792--287857 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
287782 ATTATTATAT
*
287792 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTATACGC
*
287815 GGCACTCTGGTGCAATTATACGT
1 GGCACTCTGGTGCAATTATACGC
287838 GGCACT-TCGGTGCAATTATA
1 GGCACTCT-GGTGCAATTATA
287858 TGAGCTGTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTATACGC
Found at i:288843 original size:42 final size:42
Alignment explanation
Indices: 288797--289198 Score: 475
Period size: 42 Copynumber: 9.6 Consensus size: 42
288787 TATGTTAACC
* * * *
288797 CTATTACGACGTTTGAACTATAAACGCCGCTATACTACTACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* ** *
288839 CTATTGCGGTGTTTCTTG-TA-AAAAGCCGCTATATTACTACT
1 CTATTGCGGCGTTT-GAGCTATAAACGCCGCTATATTACTACT
* * * * *
288880 ATATTGCGGCATTTGAGCTATAAATGTCGCTATATTACGACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* * *
288922 CTATTGCGGCGTTTGAGCTATAAATGTCGATATATTACTACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
*
288964 CTATTACGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* * * *
289006 CTATTGCGGCGTTTGTGCTACAAACGTCGCTATATTACAACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* * * *
289048 CTATTACGACATTTGAGCTATAAACTCCGCTATATTACTACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* * * *
289090 CTATTACGGCGTTTGATCTATAAATGCCGCTATATTACAACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* *
289132 CTATTGCGACATTTGAGCTATAAACGCCGCTATATTACTACT
1 CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
* **
289174 CTATTGCGGTGTTTTTGCTATAAAC
1 CTATTGCGGCGTTTGAGCTATAAAC
289199 TGTAACCCCC
Statistics
Matches: 303, Mismatches: 54, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.00
41 32 0.11
42 270 0.89
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (42 bp):
CTATTGCGGCGTTTGAGCTATAAACGCCGCTATATTACTACT
Found at i:289818 original size:24 final size:23
Alignment explanation
Indices: 289791--289863 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
289781 ATCAAAATTT
289791 AAAACATAATTCAGGTCAAGTATC
1 AAAACA-AATTCAGGTCAAGTATC
* * *
289815 AAAACAGAGTCCATGTCAAGTATC
1 AAAACA-AATTCAGGTCAAGTATC
*
289839 ATATAA-AAATTCAGGTCAAATATC
1 A-A-AACAAATTCAGGTCAAGTATC
289863 A
1 A
289864 TATCGGAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 35 0.90
25 2 0.05
26 2 0.05
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (23 bp):
AAAACAAATTCAGGTCAAGTATC
Found at i:289864 original size:24 final size:24
Alignment explanation
Indices: 289824--289892 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
289814 CAAAACAGAG
* *
289824 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* ***
289848 TTCAGGTCAAATATCATATCGGAA
1 TCCAGGTCAAATATCATATAAAAA
*
289872 TCCAGGTCAAA-ATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
289893 CTATTTATAT
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
23 6 0.18
24 28 0.82
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:290588 original size:18 final size:18
Alignment explanation
Indices: 290565--290616 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
290555 ACGAGTCAAC
290565 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
290583 GGTCGGGTAAACTGGTCG
1 GGTCGGGTAAACGGGTCG
290601 GGTCGGGTAAACGGGT
1 GGTCGGGTAAACGGGT
290617 AGTGACTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.15, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:290643 original size:10 final size:10
Alignment explanation
Indices: 290624--290675 Score: 72
Period size: 10 Copynumber: 5.3 Consensus size: 10
290614 GGTAGTGACT
290624 GGTC-AAACC
1 GGTCAAAACC
290633 GGTCAAAACC
1 GGTCAAAACC
290643 GGTTCAAAACC
1 GG-TCAAAACC
*
290654 GGT-TAAACC
1 GGTCAAAACC
290663 GGTCAAAACC
1 GGTCAAAACC
290673 GGT
1 GGT
290676 TTCCAACGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 12 0.32
10 16 0.42
11 10 0.26
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (10 bp):
GGTCAAAACC
Found at i:296843 original size:24 final size:24
Alignment explanation
Indices: 296816--296864 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
296806 ATCAAAATTT
* *
296816 AAAACATAATTCATGTCAAGTATC
1 AAAACAGAATCCATGTCAAGTATC
*
296840 AAAACAGAGTCCATGTCAAGTATC
1 AAAACAGAATCCATGTCAAGTATC
296864 A
1 A
296865 TATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (24 bp):
AAAACAGAATCCATGTCAAGTATC
Found at i:297585 original size:12 final size:13
Alignment explanation
Indices: 297560--297601 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
297550 ACCGGTCAAC
297560 GGTCAACGGGTCG
1 GGTCAACGGGTCG
297573 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
297585 GGTAAACGGGTCG
1 GGTCAACGGGTCG
297598 GGTC
1 GGTC
297602 GGGTAAACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:297603 original size:18 final size:18
Alignment explanation
Indices: 297580--297633 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
297570 TCGGGTCAAC
297580 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
297598 GGTCGGGTAAACTGGTCG
1 GGTCGGGTAAACGGGTCG
297616 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
297634 TGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:297633 original size:13 final size:13
Alignment explanation
Indices: 297564--297600 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
297554 GTCAACGGTC
*
297564 AACGGGTCGGGTC
1 AACGGGTCGGGTA
297577 AAC-GGTCGGGTA
1 AACGGGTCGGGTA
297589 AACGGGTCGGGT
1 AACGGGTCGGGT
297601 CGGGTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:299968 original size:42 final size:41
Alignment explanation
Indices: 299914--300156 Score: 165
Period size: 42 Copynumber: 5.9 Consensus size: 41
299904 TGGACAAACA
* *
299914 TATTGCGGCGTTTGTAGGGAAAACGCCACTAAATTATTACTC
1 TATTGCGGCGTTTGTA-GAAAAACGCCACTAAATTACTACTC
* * * * * *
299956 TATTGCGACGTTTTTAGCACAAACACCACTATAA--ACAACTA
1 TATTGCGGCGTTTGTAG-AAAAACGCCACTA-AATTACTACTC
* *
299997 TATTGCGGCGTTTGTATAAAAACGCCGCTAAATTACTACTC
1 TATTGCGGCGTTTGTAGAAAAACGCCACTAAATTACTACTC
* * * * * *
300038 TATTGCGGTGTTTTTTGTAAAAACGCCAATATAA--ACAACTA
1 TATTGCGGCGTTTGTAG-AAAAACGCCACTA-AATTACTACTC
* * * *
300079 TATTCCGGCGTTT-TAGCTATAAACGCCGCTAAATTACCACTC
1 TATTGCGGCGTTTGTAG--AAAAACGCCACTAAATTACTACTC
* *
300121 TATTACGGCGTTTGTTGAAAAAACG-CAGCTAAATTA
1 TATTGCGGCGTTTGTAG-AAAAACGCCA-CTAAATTA
300157 TCATTTTCTG
Statistics
Matches: 153, Mismatches: 37, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
39 2 0.01
40 14 0.09
41 65 0.42
42 66 0.43
43 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (41 bp):
TATTGCGGCGTTTGTAGAAAAACGCCACTAAATTACTACTC
Found at i:300009 original size:41 final size:41
Alignment explanation
Indices: 299880--300105 Score: 158
Period size: 41 Copynumber: 5.5 Consensus size: 41
299870 ATGTTTTTGT
* **
299880 GGCGTTTTTA-TAAAAGCGCCACTATGGACAAAC-ATATTGC
1 GGCGTTTTTAGTAAAAACGCCACTATAAAC-AACTATATTGC
* ** ** *
299920 GGCGTTTGTAGGGAAAACGCCACTA-AATTATTACTCTATTGC
1 GGCGTTTTTAGTAAAAACGCCACTATAA--ACAACTATATTGC
* * * *
299962 GACGTTTTTAGCACAAACACCACTATAAACAACTATATTGC
1 GGCGTTTTTAGTAAAAACGCCACTATAAACAACTATATTGC
* * * *
300003 GGCGTTTGTA-TAAAAACGCCGCTA-AATTACTACTCTATTGC
1 GGCGTTTTTAGTAAAAACGCCACTATAA--ACAACTATATTGC
* * * *
300044 GGTGTTTTTTGTAAAAACGCCAATATAAACAACTATATTCC
1 GGCGTTTTTAGTAAAAACGCCACTATAAACAACTATATTGC
*
300085 GGCG-TTTTAGCTATAAACGCC
1 GGCGTTTTTAG-TAAAAACGCC
300106 GCTAAATTAC
Statistics
Matches: 139, Mismatches: 37, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
39 2 0.01
40 24 0.17
41 71 0.51
42 38 0.27
43 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (41 bp):
GGCGTTTTTAGTAAAAACGCCACTATAAACAACTATATTGC
Found at i:300031 original size:82 final size:83
Alignment explanation
Indices: 299913--300133 Score: 284
Period size: 82 Copynumber: 2.7 Consensus size: 83
299903 ATGGACAAAC
** * * * *
299913 ATATTGCGGCGTTTGTAGGGAAAACGCCACTAAATTATTACTCTATTGCGACGTTTTTAGCACAA
1 ATATTGCGGCGTTTGTAGTAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTTTAGCAAAA
*
299978 ACACCACTATAAACAACT
66 ACACCAATATAAACAACT
* * *
299996 ATATTGCGGCGTTTGTA-TAAAAACGCCGCTAAATTACTACTCTATTGCGGTGTTTTTTGTAAAA
1 ATATTGCGGCGTTTGTAGTAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTTTAGCAAAA
*
300060 ACGCCAATATAAACAACT
66 ACACCAATATAAACAACT
* * * *
300078 ATATTCCGGCGTTT-TAGCTATAAACGCCGCTAAATTACCACTCTATTACGGCGTTT
1 ATATTGCGGCGTTTGTAG-TAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTT
300134 GTTGAAAAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 2 0.02
82 67 0.56
83 51 0.43
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (83 bp):
ATATTGCGGCGTTTGTAGTAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTTTAGCAAAA
ACACCAATATAAACAACT
Found at i:300355 original size:21 final size:21
Alignment explanation
Indices: 300329--300369 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
300319 TTCTTACAAG
300329 TCTTTAACTAAACTATTTAAT
1 TCTTTAACTAAACTATTTAAT
300350 TCTTTAACTAAACTATTTAA
1 TCTTTAACTAAACTATTTAA
300370 AGATCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
TCTTTAACTAAACTATTTAAT
Found at i:304069 original size:23 final size:23
Alignment explanation
Indices: 304043--304086 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
304033 TAATAAAATT
304043 TATTAATTAATAATATATAGTGA
1 TATTAATTAATAATATATAGTGA
*
304066 TATTAATTAATGATATATAGT
1 TATTAATTAATAATATATAGT
304087 AATACAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
TATTAATTAATAATATATAGTGA
Found at i:305173 original size:31 final size:31
Alignment explanation
Indices: 305135--305211 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
305125 GAAAAATTTA
*
305135 TTGTTCGTGTTCGTTCGTTAAGGAATGTAGC
1 TTGTTCGTATTCGTTCGTTAAGGAATGTAGC
305166 TTGTTCGTATTCGTTCGTTAAGGAATGTAGC
1 TTGTTCGTATTCGTTCGTTAAGGAATGTAGC
305197 TTGTTCGTATTCGTT
1 TTGTTCGTATTCGTT
305212 TATTTAAATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (31 bp):
TTGTTCGTATTCGTTCGTTAAGGAATGTAGC
Found at i:305264 original size:14 final size:14
Alignment explanation
Indices: 305228--305258 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
305218 AATGATAAAA
*
305228 GAACACAAATGAAC
1 GAACATAAATGAAC
305242 GAACATAAATGAAC
1 GAACATAAATGAAC
305256 GAA
1 GAA
305259 TGTAAACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (14 bp):
GAACATAAATGAAC
Found at i:305266 original size:10 final size:10
Alignment explanation
Indices: 305261--305340 Score: 54
Period size: 10 Copynumber: 7.4 Consensus size: 10
305251 TGAACGAATG
305261 TAAACGAACA
1 TAAACGAACA
305271 TAAACGAACACAA
1 TAAACG-A-AC-A
*
305284 TAAACGAACG
1 TAAACGAACA
305294 TAAACGAACACAA
1 TAAACG-A-AC-A
305307 TAAA-GTAACA
1 TAAACG-AACA
* *
305317 TAAATGAACT
1 TAAACGAACA
*
305327 TAAACGAATA
1 TAAACGAACA
305337 TAAA
1 TAAA
305341 TGAAAATAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
10 31 0.55
11 7 0.12
12 7 0.12
13 11 0.20
ACGTcount: A:0.59, C:0.16, G:0.10, T:0.15
Consensus pattern (10 bp):
TAAACGAACA
Found at i:305288 original size:13 final size:13
Alignment explanation
Indices: 305270--305310 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
305260 GTAAACGAAC
305270 ATAAACGAACACA
1 ATAAACGAACACA
305283 ATAAACG-A-AC-
1 ATAAACGAACACA
*
305293 GTAAACGAACACA
1 ATAAACGAACACA
305306 ATAAA
1 ATAAA
305311 GTAACATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 6 0.26
11 3 0.13
12 3 0.13
13 11 0.48
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:305291 original size:23 final size:23
Alignment explanation
Indices: 305222--305325 Score: 104
Period size: 23 Copynumber: 4.4 Consensus size: 23
305212 TATTTAAATG
* *
305222 ATAAAAGAACACAAATGAACGAAC
1 ATAAACGAACAC-AATAAACGAAC
* *
305246 ATAAATGAACGA-ATGTAAACGAAC
1 ATAAACGAAC-ACA-ATAAACGAAC
305270 ATAAACGAACACAATAAACGAAC
1 ATAAACGAACACAATAAACGAAC
*
305293 GTAAACGAACACAATAAA-GTAAC
1 ATAAACGAACACAATAAACG-AAC
*
305316 ATAAATGAAC
1 ATAAACGAAC
305326 TTAAACGAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.01
23 39 0.57
24 27 0.40
25 1 0.01
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (23 bp):
ATAAACGAACACAATAAACGAAC
Found at i:305297 original size:33 final size:34
Alignment explanation
Indices: 305239--305303 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
305229 AACACAAATG
* *
305239 AACGAACATAAATGAACGAATGTAAACGAACATA
1 AACGAACATAAATAAACGAACGTAAACGAACATA
*
305273 AACGAACA-CAATAAACGAACGTAAACGAACA
1 AACGAACATAAATAAACGAACGTAAACGAACA
305304 CAATAAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.57, C:0.18, G:0.14, T:0.11
Consensus pattern (34 bp):
AACGAACATAAATAAACGAACGTAAACGAACATA
Found at i:305624 original size:43 final size:41
Alignment explanation
Indices: 305577--305678 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 41
305567 TTCACGAACG
*
305577 TAAATGAACGAAC-GAACACTCTGTTCATGTTCGTTCATTTAA
1 TAAATGAACGAACAAAACA-T-TGTTCATGTTCGTTCATTTAA
* *
305619 TTAAATGAAC--ACAAAACATTGTTTATGTTCGTTCGTTTAA
1 -TAAATGAACGAACAAAACATTGTTCATGTTCGTTCATTTAA
*
305659 TAAATAAACGAACATAAACA
1 TAAATGAACGAACA-AAACA
305679 AATTTTCCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
39 8 0.16
40 19 0.37
41 6 0.12
42 9 0.18
43 9 0.18
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (41 bp):
TAAATGAACGAACAAAACATTGTTCATGTTCGTTCATTTAA
Found at i:307889 original size:15 final size:15
Alignment explanation
Indices: 307817--307890 Score: 114
Period size: 15 Copynumber: 5.0 Consensus size: 15
307807 TAATAAGGTT
*
307817 ATTTATTATAAAACA
1 ATTTATTATAAAATA
*
307832 ATTTATT-TAAAACA
1 ATTTATTATAAAATA
307846 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
307861 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
307876 ATTTATTATAAAATA
1 ATTTATTATAAAATA
307891 TGGATTGATT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
14 14 0.25
15 41 0.75
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:307901 original size:22 final size:22
Alignment explanation
Indices: 307876--307931 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
307866 TTTTAAAATA
*
307876 ATTTATTATAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
307898 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
307920 ATTTATTTTAAA
1 ATTTATTTTAAA
307932 TAATTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:307953 original size:32 final size:31
Alignment explanation
Indices: 307910--308017 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 31
307900 TTATTTTAAA
307910 ATATGGATTGATTTATTTTAAATAATTTATT
1 ATATGGATTGATTTATTTTAAATAATTTATT
*
307941 ATTATAGATTGATTTA-TTT---TAA---A--
1 A-TATGGATTGATTTATTTTAAATAATTTATT
307964 ATATGGATTGATTTATTTTAAATAATTTATT
1 ATATGGATTGATTTATTTTAAATAATTTATT
307995 AGTATGGATTGATTTATTTTAAA
1 A-TATGGATTGATTTATTTTAAA
308018 ATATAGATTG
Statistics
Matches: 64, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
22 13 0.20
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 5 0.08
32 34 0.53
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (31 bp):
ATATGGATTGATTTATTTTAAATAATTTATT
Found at i:307959 original size:22 final size:22
Alignment explanation
Indices: 307943--307985 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
307933 AATTTATTAT
307943 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
307965 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
307986 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:308085 original size:32 final size:32
Alignment explanation
Indices: 308044--308647 Score: 449
Period size: 32 Copynumber: 19.7 Consensus size: 32
308034 TATTGTAGTT
308044 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308076 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
308108 GTATGAATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308131 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308162 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
308194 GTATGGATTGATTTATTTTAAA-ATATGAATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** *
308225 G-ATTTATT-ATTGTAGTTGT--ATAGATTTATTTA
1 GTATGGATTGATT-TA-TTTTAAATA-ATTTA-TTA
* ** * * * *
308257 -TTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
308296 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
308328 GGATGAATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308351 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308382 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
308414 GTATGGATTGATTTATTTTAAATATGGATTGATTTA
1 GTATGGATTGATTTATTTTAAATA---ATTTA-TTA
* * ** *
308450 TTATTGTAGTTGTATAGATTGATT-TATAATTTATTA
1 GTA-TGGA-TTG-ATTTATT--TTAAATAATTTATTA
308486 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308509 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
308540 GTATGGATTGATTTATTTT-AA-AA--TA-TC
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308567 G-A--G--TGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
308594 GTATGGATTGATTTATTGTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
308626 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
308648 ATATGGATTG
Statistics
Matches: 461, Mismatches: 44, Indels: 134
0.72 0.07 0.21
Matches are distributed among these distances:
22 50 0.11
23 14 0.03
24 3 0.01
25 3 0.01
26 12 0.03
27 4 0.01
28 12 0.03
29 7 0.02
30 16 0.03
31 20 0.04
32 240 0.52
33 6 0.01
34 6 0.01
35 7 0.02
36 23 0.05
37 12 0.03
38 4 0.01
39 6 0.01
40 14 0.03
41 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:308091 original size:166 final size:166
Alignment explanation
Indices: 307911--308615 Score: 765
Period size: 166 Copynumber: 4.3 Consensus size: 166
307901 TATTTTAAAA
*
307911 TATGGATTGATTTATTTTAAATAATTTATTATTAT-AGATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATGGATTGA
*
307975 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTA-TTATTG
65 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTATTT
308039 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
130 TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAG
308077 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
* *
308142 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTATT
*** * *
308207 TATTTTAAAATATGAATTGATTTA--TT--AT--TGTAGTT-G
125 TATTTTATTGTATGGATTGATTTATTTTAAATAATTTA-TTAG
* *
308243 TATAGATTTATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
* * *
308308 TTATTTTAAATAATTTATTAGGATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTA-TTT--AT
308373 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
128 --TTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAG
** * * * *
308415 TATGGATTGATTTATTTTAAAT-ATGGATT-G-AT---TT-A-TTATTGT--AGT-TGTATAGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
* *
308469 TGA-TTT--ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTA-TTT--AT
*
308531 AATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TCG
128 --TTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAG
* *
308568 -A--G--TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTGTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
308616 TAATTTATTT
Statistics
Matches: 472, Mismatches: 35, Indels: 72
0.82 0.06 0.12
Matches are distributed among these distances:
148 15 0.03
149 5 0.01
150 2 0.00
151 2 0.00
152 1 0.00
153 2 0.00
154 4 0.01
155 1 0.00
156 9 0.02
157 2 0.00
158 83 0.18
160 10 0.02
161 14 0.03
162 4 0.01
163 2 0.00
164 8 0.02
165 7 0.01
166 220 0.47
167 5 0.01
168 6 0.01
169 2 0.00
170 7 0.01
171 10 0.02
172 44 0.09
173 7 0.01
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (166 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTATTTT
ATTGTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:308134 original size:22 final size:22
Alignment explanation
Indices: 308109--308151 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
308099 AATTTATTAG
308109 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
308131 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
308152 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:308300 original size:22 final size:22
Alignment explanation
Indices: 308275--308317 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
308265 AATTTATTAG
308275 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
308297 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
308318 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:308512 original size:22 final size:22
Alignment explanation
Indices: 308415--308529 Score: 106
Period size: 22 Copynumber: 5.0 Consensus size: 22
308405 AATTTATTAG
308415 TATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAAA
***
308436 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
* * *
308462 TATAGATTGATTTATAATTTATTAG
1 TATGGATTGATTTAT--TTTA-AAA
308487 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
308509 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
308530 TAATTTATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
21 14 0.18
22 23 0.29
23 6 0.08
24 1 0.01
25 19 0.24
26 16 0.20
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:308538 original size:126 final size:134
Alignment explanation
Indices: 308247--308664 Score: 427
Period size: 140 Copynumber: 3.1 Consensus size: 134
308237 TAGTTGTATA
* * * *
308247 GATTTATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGAGTGATTTA-
* * * *
308312 TTTAAATAATTTATTAGGATGA--ATTGATT-T-AT--TTTA-AAATATGGATTGATTTATTTTA
65 TTT-AAT-ATGTATTAGTATGATGATTGATTGTAATAATTTATTAGTATGGATTGATTTA-TTT-
308370 AATAATTTATTAGTATG
126 --TAA---A--A-TATG
* *
308387 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGAGTGATTTAT
308450 TT-AT-TGTAGTT-GTAT-A-GATTGATT-T-ATAATTTATTAGTATGGATTGATTTATTTTAAA
66 TTAATATGTA-TTAGTATGATGATTGATTGTAATAATTTATTAGTATGGATTGATTTATTTTAAA
308508 ATATG
130 ATATG
308513 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGAGTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGAGTGATTTA-
* * *
308578 TTTAAATAATTTATTAGTATGGATTGATTTATTGTAAATAATTTATTTGTATGGATTGATTTATT
65 TTT-AAT-ATGTATTAGTAT-GA-TGATTGATTGT-AATAATTTATTAGTATGGATTGATTTATT
308643 TTAAAATATG
125 TTAAAATATG
308653 GATTGATTTATT
1 GATTGATTTATT
308665 ATTGTAGTTG
Statistics
Matches: 247, Mismatches: 11, Indels: 40
0.83 0.04 0.13
Matches are distributed among these distances:
126 50 0.20
127 16 0.06
129 3 0.01
131 2 0.01
132 6 0.02
133 23 0.09
134 2 0.01
135 10 0.04
136 15 0.06
137 9 0.04
138 1 0.00
139 17 0.07
140 93 0.38
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (134 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGAGTGATTTAT
TTAATATGTATTAGTATGATGATTGATTGTAATAATTTATTAGTATGGATTGATTTATTTTAAAA
TATG
Found at i:308609 original size:18 final size:18
Alignment explanation
Indices: 308586--308665 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
308576 ATTTTAAATA
308586 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* *
308604 ATTTATT-GTA---AATA
1 ATTTATTAGTATGGATTG
*
308618 ATTTATTTGTATGGATTG
1 ATTTATTAGTATGGATTG
*
308636 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AGTATGGATTG
308658 ATTTATTA
1 ATTTATTA
308666 TTGTAGTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
14 9 0.19
15 3 0.06
17 3 0.06
18 15 0.31
20 4 0.08
22 14 0.29
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:308643 original size:22 final size:22
Alignment explanation
Indices: 308618--308691 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
308608 ATTGTAAATA
308618 ATTTATTTGTATGGATTGATTT
1 ATTTATTTGTATGGATTGATTT
***
308640 ATTT-TAAAATATGGATTGATTTATT
1 ATTTAT-TTGTATGGATTGA--T-TT
*
308665 ATTGTAGTTGTATGGATTGATTT
1 ATT-TATTTGTATGGATTGATTT
308688 ATTT
1 ATTT
308692 TAAATAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
21 1 0.03
22 15 0.38
23 5 0.13
24 2 0.05
25 5 0.13
26 11 0.28
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (22 bp):
ATTTATTTGTATGGATTGATTT
Found at i:308732 original size:22 final size:22
Alignment explanation
Indices: 308707--308749 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
308697 AATTTATTAG
308707 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
308729 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
308750 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:308759 original size:54 final size:54
Alignment explanation
Indices: 307861--308183 Score: 399
Period size: 54 Copynumber: 5.8 Consensus size: 54
307851 TTATAAAATA
*
307861 ATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTT-AAATAATTTA-T-T--AGTATGGATTGATTTATTTTAAAATATGGATTG
* *
307920 ATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
307974 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
308028 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
*
308086 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
308140 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
308184 TAATTTATTA
Statistics
Matches: 236, Mismatches: 10, Indels: 41
0.82 0.03 0.14
Matches are distributed among these distances:
48 18 0.08
49 5 0.02
50 2 0.01
52 5 0.02
54 139 0.59
55 2 0.01
56 1 0.00
57 3 0.01
58 23 0.10
59 9 0.04
60 5 0.02
62 2 0.01
63 5 0.02
64 17 0.07
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:308809 original size:31 final size:31
Alignment explanation
Indices: 308774--308832 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
308764 AGTTATATGG
* * *
308774 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
308805 ATTATTTAAATCTCAATATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
308833 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:318108 original size:21 final size:22
Alignment explanation
Indices: 318082--318122 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
318072 TTATGGTTTG
318082 AATGATAAAATGTT-GAATTAT
1 AATGATAAAATGTTGGAATTAT
* *
318103 AATGATTACATGTTGGAATT
1 AATGATAAAATGTTGGAATT
318123 TTAAATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (22 bp):
AATGATAAAATGTTGGAATTAT
Found at i:319764 original size:17 final size:18
Alignment explanation
Indices: 319726--319788 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
319716 ATTCTAAATG
**
319726 TTTACAGTTATTTGATGA
1 TTTACAGTTATAAGATGA
319744 -TTACAGTTATAAGAT-A
1 TTTACAGTTATAAGATGA
* * *
319760 TTTACAGATATTAGATGT
1 TTTACAGTTATAAGATGA
*
319778 TTTACAATTAT
1 TTTACAGTTAT
319789 CAGACACAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 1 0.03
17 26 0.72
18 9 0.25
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (18 bp):
TTTACAGTTATAAGATGA
Found at i:320545 original size:15 final size:15
Alignment explanation
Indices: 320525--320557 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
320515 TTAGCTGGGT
*
320525 GGGCGGATGTGGAGC
1 GGGCGGATGCGGAGC
320540 GGGCGGATGCGGAGC
1 GGGCGGATGCGGAGC
320555 GGG
1 GGG
320558 TAATGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGCGGATGCGGAGC
Found at i:321689 original size:35 final size:34
Alignment explanation
Indices: 321640--321972 Score: 115
Period size: 35 Copynumber: 9.7 Consensus size: 34
321630 TAAATCGGTT
* *
321640 TTTTCAAAATATATAATATAGTTTTGAAAAATATG
1 TTTTAAAAACATATAATATAGTTTTGAAAAA-ATG
321675 TTTTAAAAACATATATTATATAGTTTT-AAAAACAT-
1 TTTTAAAAACATATA--ATATAGTTTTGAAAAA-ATG
* **
321710 TTTTGAAAATGTATAATATATGTTTTTG--AAAATG
1 TTTTAAAAACATATAATATA-G-TTTTGAAAAAATG
*
321744 TTTTAAAAACGAATATAATATACAGTTTT--AAAAACG
1 TTTTAAAAAC--ATATAATAT--AGTTTTGAAAAAATG
* * *
321780 -----AATATA-AT-ATATAGTTTTGAAAATAT-
1 TTTTAAAAACATATAATATAGTTTTGAAAAAATG
** * *
321806 TTTCGAAAACGTATAATATATGGTTTTGAAAACAT-
1 TTTTAAAAACATATAATATA--GTTTTGAAAAAATG
* ** *
321841 TTTCTGAAAACGTATATAATATAGTTTTTTAAAAATAC
1 TTT-TAAAAAC--ATATAATATAGTTTTGAAAAAAT-G
* *
321879 TTTTGAAAACGTATAATATA-TAGTTT-AAAAAATG
1 TTTTAAAAACATATAATATAGT--TTTGAAAAAATG
** * * *
321913 ATTTTTGAAACATGTAATATAATTTTCGAAAAAATAT
1 -TTTTAAAAACATATAATATAGTTTT-GAAAAAAT-G
* * *
321950 TTTTGAAAATATATTATATAGTT
1 TTTTAAAAACATATAATATAGTT
321973 ACATCATATT
Statistics
Matches: 227, Mismatches: 37, Indels: 67
0.69 0.11 0.20
Matches are distributed among these distances:
25 6 0.03
27 8 0.04
28 2 0.01
29 1 0.00
31 6 0.03
32 2 0.01
33 12 0.05
34 16 0.07
35 75 0.33
36 68 0.30
37 18 0.08
38 13 0.06
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (34 bp):
TTTTAAAAACATATAATATAGTTTTGAAAAAATG
Found at i:321777 original size:25 final size:25
Alignment explanation
Indices: 321743--321802 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
321733 TTTTGAAAAT
321743 GTTTTAAAAACGAATATAATATACA
1 GTTTTAAAAACGAATATAATATACA
*
321768 GTTTTAAAAACGAATATAATATATA
1 GTTTTAAAAACGAATATAATATACA
*
321793 GTTTTGAAAA
1 GTTTTAAAAA
321803 TATTTTCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (25 bp):
GTTTTAAAAACGAATATAATATACA
Found at i:321814 original size:96 final size:96
Alignment explanation
Indices: 321674--321863 Score: 260
Period size: 96 Copynumber: 2.0 Consensus size: 96
321664 TGAAAAATAT
* * * *
321674 GTTTTAAAAACATATATTATATAGTTTTAAAAACATTTTTGAAAATGTATAATATATGTTTTTG-
1 GTTTTAAAAACATATAATATATAGTTTTAAAAACATTTTCGAAAACGTATAATATATGGTTTTGA
321738 AAA-ATGTTT-TAAAAACGAATATAATATACA
66 AAACAT-TTTCTAAAAACGAATATAATATACA
* *
321768 GTTTTAAAAACGAATATAATATATAGTTTTGAAAATATTTTCGAAAACGTATAATATATGGTTTT
1 GTTTTAAAAAC--ATATAATATATAGTTTTAAAAACATTTTCGAAAACGTATAATATATGGTTTT
* *
321833 GAAAACATTTTCTGAAAACGTATATAATATA
64 GAAAACATTTTCTAAAAACGAATATAATATA
321864 GTTTTTTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
94 11 0.13
96 47 0.57
97 6 0.07
98 19 0.23
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (96 bp):
GTTTTAAAAACATATAATATATAGTTTTAAAAACATTTTCGAAAACGTATAATATATGGTTTTGA
AAACATTTTCTAAAAACGAATATAATATACA
Found at i:321922 original size:36 final size:35
Alignment explanation
Indices: 321782--321972 Score: 178
Period size: 35 Copynumber: 5.4 Consensus size: 35
321772 TAAAAACGAA
* *
321782 TATAATATATAGTTTTGAAAATATTTTCGAAAACG
1 TATAATATATAGTTTTAAAAATATTTTTGAAAACG
* * *
321817 TATAATATATGGTTTTGAAAACATTTTCTGAAAACG
1 TATAATATATAGTTTTAAAAATATTTT-TGAAAACG
*
321853 TAT-ATAATATAGTTTTTTAAAAATACTTTTGAAAACG
1 TATAAT-ATATAG--TTTTAAAAATATTTTTGAAAACG
* *
321890 TATAATATATAGTTTAAAAAATGATTTTTG-AAACA
1 TATAATATATAGTTTTAAAAAT-ATTTTTGAAAACG
*
321925 TGTAATATA-A-TTTTCGAAAAAATATTTTTGAAAA--
1 TATAATATATAGTTTT---AAAAATATTTTTGAAAACG
*
321959 TATATTATATAGTT
1 TATAATATATAGTT
321973 ACATCATATT
Statistics
Matches: 130, Mismatches: 14, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
33 3 0.02
34 8 0.06
35 56 0.43
36 32 0.25
37 17 0.13
38 14 0.11
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (35 bp):
TATAATATATAGTTTTAAAAATATTTTTGAAAACG
Found at i:321922 original size:73 final size:69
Alignment explanation
Indices: 321769--321972 Score: 182
Period size: 73 Copynumber: 2.9 Consensus size: 69
321759 TAATATACAG
* * * * **
321769 TTTTAAAAACGAATATAATATATAGTTTTGAAAATATTTTCGAAAACGTATAATATATGGTTTTG
1 TTTTGAAAACG-ATATAATATAT-TTTTTAAAAATATTTT-GAAAACGTATAATATATAGTTTAA
321834 AAAACAT
63 AAAACAT
321841 TTTCTGAAAACGTATATAATATAGTTTTTTAAAAATACTTTTGAAAACGTATAATATATAGTTTA
1 TTT-TGAAAACG-ATATAATATA-TTTTTTAAAAATA-TTTTGAAAACGTATAATATATAGTTTA
*
321906 AAAAATGAT
62 AAAAA-CAT
* ** *
321915 TTTTG-AAAC-ATGTAATATAATTTTCGAAAAAATATTTTTGAAAA--TATATTATATAGTT
1 TTTTGAAAACGATATAATAT-ATTTT-TTAAAAATA-TTTTGAAAACGTATAATATATAGTT
321973 ACATCATATT
Statistics
Matches: 113, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
69 13 0.12
70 12 0.11
71 17 0.15
72 7 0.06
73 54 0.48
74 10 0.09
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (69 bp):
TTTTGAAAACGATATAATATATTTTTTAAAAATATTTTGAAAACGTATAATATATAGTTTAAAAA
ACAT
Found at i:322029 original size:18 final size:17
Alignment explanation
Indices: 321979--322016 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
321969 AGTTACATCA
321979 TATTT-ATTTTATATATT
1 TATTTCATTTTAT-TATT
321996 TATTTCATTTTATTATT
1 TATTTCATTTTATTATT
322013 TATT
1 TATT
322017 CTTTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTCATTTTATTATT
Found at i:323539 original size:12 final size:13
Alignment explanation
Indices: 323512--323541 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
323502 TCTTAAGCAA
323512 AAATTTTAATTTT
1 AAATTTTAATTTT
323525 AAATTTTAA-TTT
1 AAATTTTAATTTT
323537 AAATT
1 AAATT
323542 CTCGATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATTTTAATTTT
Found at i:328861 original size:37 final size:35
Alignment explanation
Indices: 328815--329023 Score: 176
Period size: 35 Copynumber: 5.8 Consensus size: 35
328805 AAAAAATATA
* * *
328815 ATATAGTTTTGAAAATATGTTTTAAAAAACATATATT
1 ATATAGTTTTGAAAATAT-TTTT-GAAAACGTATAAT
*
328852 ATATAGTTTTGAAAATATTTTTGAAAATGTATAAT
1 ATATAGTTTTGAAAATATTTTTGAAAACGTATAAT
* *
328887 ATATGGTTTTGAAACAT-TTTCTGAAAACGTAT-AT
1 ATATAGTTTTGAAA-ATATTTTTGAAAACGTATAAT
* *
328921 AATATAGTTTTTAAAAATACTTTTGAAAACGTATAAT
1 -ATATAG-TTTTGAAAATATTTTTGAAAACGTATAAT
* *
328958 ATATAGTTTTTTAAAAAAATTATTTTTG-AAACGTGTAAT
1 ATATAG--TTTT--GAAAA-TATTTTTGAAAACGTATAAT
*
328997 ATA-A-TTTTCGAAAACATATTTTGAAAA
1 ATATAGTTTT-GAAAATAT-TTTTGAAAA
329024 TATTTATAGT
Statistics
Matches: 145, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
33 2 0.01
34 11 0.08
35 49 0.34
36 32 0.22
37 25 0.17
38 1 0.01
39 18 0.12
40 7 0.05
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (35 bp):
ATATAGTTTTGAAAATATTTTTGAAAACGTATAAT
Found at i:330814 original size:17 final size:18
Alignment explanation
Indices: 330782--330816 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
330772 AATTGATGTG
330782 ACATATGTAAAAATTTAT
1 ACATATGTAAAAATTTAT
*
330800 ACATAT-TAAATATTTAT
1 ACATATGTAAAAATTTAT
330817 CAAATTGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
ACATATGTAAAAATTTAT
Found at i:330817 original size:47 final size:47
Alignment explanation
Indices: 330748--330838 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
330738 ATTTTAAATC
* * *
330748 TTTATTCATAGTAAATGTTTATCTAATTGATGTGACATATGTAAAAA
1 TTTATACATAGTAAATATTTATCAAATTGATGTGACATATGTAAAAA
* *
330795 TTTATACATATTAAATATTTATCAAATTGATGTGATATATGTAA
1 TTTATACATAGTAAATATTTATCAAATTGATGTGACATATGTAA
330839 CTTATATTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (47 bp):
TTTATACATAGTAAATATTTATCAAATTGATGTGACATATGTAAAAA
Found at i:334296 original size:20 final size:21
Alignment explanation
Indices: 334247--334295 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
334237 CCCTCAATAT
334247 TTTTATTTTAGTCAAAATGAC
1 TTTTATTTTAGTCAAAATGAC
334268 -TTTATTTTAGTCAAAATGAC
1 TTTTATTTTAGTCAAAATGAC
334288 TTTTATTT
1 TTTTATTT
334296 AATAGAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (21 bp):
TTTTATTTTAGTCAAAATGAC
Found at i:336784 original size:24 final size:23
Alignment explanation
Indices: 336743--336792 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
336733 TTATTTTAAT
**
336743 TTTTTGAATATTTTATTAATTGTTA
1 TTTTTGAATATTAAATT-A-TGTTA
336768 TTTTT-AATATTAAATTATGTTA
1 TTTTTGAATATTAAATTATGTTA
336790 TTT
1 TTT
336793 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 9 0.39
25 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTTGAATATTAAATTATGTTA
Done.