Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_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: 1661737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:248415 original size:103 final size:103
Alignment explanation
Indices: 248087--248407 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
248077 GTAGAGGGTC
* * *
248087 TATGTGGTTCTTCGGAACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
248152 TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
248190 TATGTGGTCTTTCGGGACAGATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
248255 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATTA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
248293 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
248358 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
248396 TATGTGGTCCTT
1 TATGTGGTCCTT
248408 ATGGACATTA
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:248458 original size:23 final size:23
Alignment explanation
Indices: 248424--248486 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
248414 ATTATTATAT
248424 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTCTACGC
*
248447 GGCACTCTGGTGCAATTCTACGT
1 GGCACTCTGGTGCAATTCTACGC
248470 GGCACT-TAGGTGCAATT
1 GGCACTCT-GGTGCAATT
248487 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGC
Found at i:254542 original size:21 final size:21
Alignment explanation
Indices: 254500--254542 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
254490 TTTCTGGGCT
* *
254500 AGGGGAATTGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
254521 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
254542 A
1 A
254543 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:255262 original size:103 final size:103
Alignment explanation
Indices: 255083--255403 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
255073 GTAGAGGGTC
255083 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
255148 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * * * *
255186 TATGTGGTCTTTCGGGAGAGATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACAGATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
255251 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
255289 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
255354 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
255392 TATGTGGTCCTT
1 TATGTGGTCCTT
255404 ATGGACATTA
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:255477 original size:23 final size:23
Alignment explanation
Indices: 255428--255482 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
255418 ATGGGACTAC
*
255428 GGTGCAATTCTACGCGGCACTCC
1 GGTGCAATTCTACGCGGCACTCA
* * * *
255451 GGTGTAATTCTACGTGGCGCTTA
1 GGTGCAATTCTACGCGGCACTCA
255474 GGTGCAATT
1 GGTGCAATT
255483 ATATGAGCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (23 bp):
GGTGCAATTCTACGCGGCACTCA
Found at i:265742 original size:16 final size:17
Alignment explanation
Indices: 265717--265751 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
265707 AGCAGTGTTA
265717 AAAAAAGAAAA-AAAAC
1 AAAAAAGAAAAGAAAAC
*
265733 AAAAAGGAAAAGAAAAC
1 AAAAAAGAAAAGAAAAC
265750 AA
1 AA
265752 TACATGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAC
Found at i:266133 original size:20 final size:20
Alignment explanation
Indices: 266104--266142 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
266094 AAAGCTCATA
*
266104 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
266124 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
266143 GTGGTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:268170 original size:21 final size:21
Alignment explanation
Indices: 268146--268188 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
268136 GCTTCTCTAC
* *
268146 AAGATTTTATGGCTTCGACAA
1 AAGATTTCATGGCTTCAACAA
268167 AAGATTTCATGGCTTCAACAA
1 AAGATTTCATGGCTTCAACAA
268188 A
1 A
268189 GGCCTTGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
AAGATTTCATGGCTTCAACAA
Found at i:274625 original size:23 final size:23
Alignment explanation
Indices: 274599--274667 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
274589 CACCACAGCT
*
274599 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCTAAGTGCCA
* * *
274622 CATAGAATTGCATCGAAGTGCCG
1 CATAGAATTGCACCTAAGTGCCA
*
274645 CGTAGAATTGCACCGT-AGTGCCA
1 CATAGAATTGCACC-TAAGTGCCA
274668 TATAATAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCTAAGTGCCA
Found at i:274804 original size:103 final size:104
Alignment explanation
Indices: 274675--274887 Score: 385
Period size: 103 Copynumber: 2.1 Consensus size: 104
274665 CCATATAATA
* *
274675 ATGT-CCATAAGGACCATATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGT
1 ATGTCCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
274739 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
274778 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 ATGTCCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
*
274842 GTCTCACCAGACCTCACACATGTTCCAAATAATACATAT
66 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
274881 ATGTCCC
1 ATGTCCC
274888 GAATGACAAC
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
103 103 0.97
104 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (104 bp):
ATGTCCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
Found at i:275494 original size:64 final size:63
Alignment explanation
Indices: 275382--275521 Score: 183
Period size: 64 Copynumber: 2.2 Consensus size: 63
275372 CACTACACCA
* * * *
275382 TGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGGATGCATCGATGCACTCCTTT
1 TGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGAATGCATCGATGCACTCCATG
* * *
275446 TGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TAATGCATCGATGCACTGCATG
1 TGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGAATGCATCGATGCACTCCATG
275510 TGCATCGATGCA
1 TGCATCGATGCA
275522 CCTTAAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 57 0.85
65 7 0.10
66 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (63 bp):
TGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGAATGCATCGATGCACTCCATG
Found at i:278939 original size:103 final size:103
Alignment explanation
Indices: 278768--278985 Score: 402
Period size: 103 Copynumber: 2.1 Consensus size: 103
278758 TAATGTCCAT
*
278768 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTATCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATCTCACCA
278833 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
278871 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATCTCACCA
278936 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
278974 ATA-GACCACATA
1 A-AGGACCACATA
278986 GACCCTCTAC
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:282238 original size:125 final size:125
Alignment explanation
Indices: 281957--282947 Score: 1067
Period size: 125 Copynumber: 8.0 Consensus size: 125
281947 AGGACTTATG
** * *
281957 TTCTCACACATGAATGAAATTAGTCCATGCATGCACAAGAATACCAATTACGAAACTGATTGATC
1 TTCTCACACATGAAT-AAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATC
* * * * *
282022 ATGTACAGATAGTCATGGAAACCATAACATGCTCTGCTACATTTTGATGGTGTATATTCCCT
65 ATGTACAGACAGTCATGCAAACCATAACATGCTC-GCTATATTTTGATGGTGTATGTTCCTT
* *
282084 TTCTCACACATGAATGAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAATTGATTGATCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* **
282149 TGTAGAGACAGTCAATGCAAACCATAACATGC-CGCTATATTTTGATGGTGTATGTTTTTT
66 TGTACAGACAGTC-ATGCAAACCATAACATGCTCGCTATATTTTGATGGTGTATGTTCCTT
* * * * *
282209 TTCTTACACATGAATAAATTAGTCCATGCATGCACAAGAATATTAACTATGAAATTGATTGACCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* * *
282274 TGTAGAGACAATCAATGCAAACCATAACATGCT-GCTATATTTTGATGGTGTATGTTCATT
66 TGTACAGACAGTC-ATGCAAACCATAACATGCTCGCTATATTTTGATGGTGTATGTTCCTT
* * * * * *
282334 TTCTCACACATGAATAAATTAGTCCATGCATGCAAAAGTATGTCAATTATGAAACCGAATGGTCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* * *
282399 TGTACAG--AGTCATGGAAAACCATAACATACTC-CTATATCTTGATGGTGTATGTT-CTT
66 TGTACAGACAGTCAT-GCAAACCATAACATGCTCGCTATATTTTGATGGTGTATGTTCCTT
* * * ** * * * * * * *
282456 TTCTCACTCGTGAATGAATTAGTCCATGCATAAAAAAGTATGCCAATTATGAAACCGAATGGTCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* * * * * *
282521 TGTACAAACAGTCATGGCAAACCAAAATATGCT-GCTATATCTTGATGGTGCATGTTCTTT
66 TGTACAGACAGTCAT-GCAAACCATAACATGCTCGCTATATTTTGATGGTGTATGTTCCTT
** * * *
282581 TTCTCATTCCTGAATAAATTATTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGTTCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* * * * **
282646 TGTACAGATAGTCATGGCAAACCATAACACGCT-ACTATACTTTGATGGTGTATGTTTTTT
66 TGTACAGACAGTCAT-GCAAACCATAACATGCTCGCTATATTTTGATGGTGTATGTTCCTT
** * *
282706 TTCTCACATGTGAAGAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGTTCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* * * * * *
282771 TTTACAGATAATCATGGAAACCATAACATGCTTTGCTATATTTTGATGATGTATGTTCCTT
66 TGTACAGACAGTCATGCAAACCATAACATGC-TCGCTATATTTTGATGGTGTATGTTCCTT
* * * * * *
282832 TTATTACATATGAATGAATTAGT-C---CATG---AAGAATGTCAACAATGAAACAGATTGATCA
1 TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
* * *
282890 TGTACAGAAAGTCATTGTAAACCATAACATGCTGCTGTTATATTTTGATGGTGTATGT
66 TGTACAGACAGTCA-TGCAAACCATAACATGCT-C-GCTATATTTTGATGGTGTATGT
282948 ATGTTCCTTG
Statistics
Matches: 746, Mismatches: 105, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
119 39 0.05
120 16 0.02
121 20 0.03
122 73 0.10
123 39 0.05
124 55 0.07
125 376 0.50
126 96 0.13
127 32 0.04
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (125 bp):
TTCTCACACATGAATAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGATCA
TGTACAGACAGTCATGCAAACCATAACATGCTCGCTATATTTTGATGGTGTATGTTCCTT
Found at i:282940 original size:372 final size:372
Alignment explanation
Indices: 281957--282947 Score: 1146
Period size: 372 Copynumber: 2.7 Consensus size: 372
281947 AGGACTTATG
** *
281957 TTCTCACACATGAATGAAATTAGTCCATGCATGCACAAGAATACCAATTACGAAACTGATTGATC
1 TTCTCACACATGAA-GAAATTAGTCCATGCATGCACAAGAATGTCAATTATGAAACTGATTGATC
* * *
282022 ATGTACAGATAGTCATGGAAACCATAACATGCTCTGCTACATTTTGATGGTGTATATTCCCTTTC
65 ATGTACAGATAGTCATGGAAACCATAACATGCT-TGCTATATTTTGATGGTGTATGTTCCTTTTC
* **
282087 TCACACATGAATGAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAATTGATTGATCATGT
129 TCACATATGAATGAATTAGT-C---CATG-A-AAGAATGTCAACTATGAAACAGATTGATCATGT
* * * * *
282152 AGAGACAGTCAATGCAAACCATAACATGC--C-GCTATATTTTGATGGTGTATGTTTTTTTTCTT
188 ACAGAAAGTCATTGCAAACCATAACATGCTGCTGCTATATTTTGATGGTGTATGTTCTTTTTCTC
* * *
282214 ACACATGAATAAATTAGTCCATGCATGCACAAGAATATTAACTATGAAATTGATTGACCATGTAG
253 ACACATGAATAAATTAGTCCATGCATGCACAAGAATATCAACTATGAAACTGATTGACCATGTAC
* * *
282279 AGACAATCAATGCAAACCATAACATGCTGCTATATTTTGATGGTGTATGTTCATT
318 AGACAATCAATGCAAACCATAACACGCTACTATACTTTGATGGTGTATGTTCATT
* * * * * *
282334 TTCTCACACATGAATAAATTAGTCCATGCATGCAAAAGTATGTCAATTATGAAACCGAATGGTCA
1 TTCTCACACATGAAGAAATTAGTCCATGCATGCACAAGAATGTCAATTATGAAACTGATTGATCA
* * *
282399 TGTACAG--AGTCATGGAAAACCATAACATAC-TCCTATATCTTGATGGTGTATGTT-CTTTTCT
66 TGTACAGATAGTCATGG-AAACCATAACATGCTTGCTATATTTTGATGGTGTATGTTCCTTTTCT
* * * * * * *
282460 CAC-TCGTGAATGAATTAGTCCATGCATAAAAAAGTATGCCAATTATGAAACCGAATGGTCATGT
130 CACAT-ATGAATGAATTAGTCCATG------AAAGAATGTCAACTATGAAACAGATTGATCATGT
* * * *
282524 ACA-AACAGTCATGGCAAACCA-AA-AT-ATGCTGCTATATCTTGATGGTGCATGTTCTTTTTCT
188 ACAGAA-AGTCATTGCAAACCATAACATGCTGCTGCTATATTTTGATGGTGTATGTTCTTTTTCT
** * * * **
282585 CATTCCTGAATAAATTATTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGTTCATGTA
252 CACACATGAATAAATTAGTCCATGCATGCACAAGAATATCAACTATGAAACTGATTGACCATGTA
* * **
282650 CAGATAGTC-ATGGCAAACCATAACACGCTACTATACTTTGATGGTGTATGTTTTTT
317 CAGACAATCAAT-GCAAACCATAACACGCTACTATACTTTGATGGTGTATGTTCATT
** * *
282706 TTCTCACATGTGAAGAAATTAGTCCATGCATGCACAAGAATGTCAACTATGAAACTGATTGTTCA
1 TTCTCACACATGAAGAAATTAGTCCATGCATGCACAAGAATGTCAATTATGAAACTGATTGATCA
* * * *
282771 TTTACAGATAATCATGGAAACCATAACATGCTTTGCTATATTTTGATGATGTATGTTCCTTTTAT
66 TGTACAGATAGTCATGGAAACCATAACATGC-TTGCTATATTTTGATGGTGTATGTTCCTTTTCT
* *
282836 TACATATGAATGAATTAGTCCATG-AAGAATGTCAACAATGAAACAGATTGATCATGTACAGAAA
130 CACATATGAATGAATTAGTCCATGAAAGAATGTCAACTATGAAACAGATTGATCATGTACAGAAA
* *
282900 GTCATTGTAAACCATAACATGCTGCTGTTATATTTTGATGGTGTATGT
195 GTCATTGCAAACCATAACATGCTGCTGCTATATTTTGATGGTGTATGT
282948 ATGTTCCTTG
Statistics
Matches: 510, Mismatches: 82, Indels: 49
0.80 0.13 0.08
Matches are distributed among these distances:
368 4 0.01
369 42 0.08
370 6 0.01
371 9 0.02
372 276 0.54
373 34 0.07
374 15 0.03
375 34 0.07
376 75 0.15
377 15 0.03
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (372 bp):
TTCTCACACATGAAGAAATTAGTCCATGCATGCACAAGAATGTCAATTATGAAACTGATTGATCA
TGTACAGATAGTCATGGAAACCATAACATGCTTGCTATATTTTGATGGTGTATGTTCCTTTTCTC
ACATATGAATGAATTAGTCCATGAAAGAATGTCAACTATGAAACAGATTGATCATGTACAGAAAG
TCATTGCAAACCATAACATGCTGCTGCTATATTTTGATGGTGTATGTTCTTTTTCTCACACATGA
ATAAATTAGTCCATGCATGCACAAGAATATCAACTATGAAACTGATTGACCATGTACAGACAATC
AATGCAAACCATAACACGCTACTATACTTTGATGGTGTATGTTCATT
Found at i:284159 original size:18 final size:18
Alignment explanation
Indices: 284136--284171 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
284126 TGGAGGTGGC
284136 CGCGGTGGAGGAAGAGGA
1 CGCGGTGGAGGAAGAGGA
284154 CGCGGTGGAGGAAGAGGA
1 CGCGGTGGAGGAAGAGGA
284172 GGGATGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.56, T:0.06
Consensus pattern (18 bp):
CGCGGTGGAGGAAGAGGA
Found at i:286391 original size:53 final size:53
Alignment explanation
Indices: 286302--287855 Score: 1334
Period size: 53 Copynumber: 27.8 Consensus size: 53
286292 AACGAGTTTG
*
286302 AACATTTATGTTTGTAGGTAGAA-ATGTATGCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * **
286354 AACAATTGTGTTTGTAGGTAGAATATGCATGCATTGTTAATGGTTAAGAGAAACGAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
* *
286415 AACAGTTATATTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * **
286468 AACAGTTACGTTTTTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGAGAAACGAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
* **
286529 AACAGTTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
286590 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * **
286643 AACAATTACGTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGAGAAACAAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
** *
286704 AACAATTATGTTTGTAAATAGAATATGTATGCATTGTTAATGGTTCTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* **
286757 AACAATTATGTTTATAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
* * *
286818 AACAGTTATATTTGTAGGTAGAATATGCATGCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * *
286871 AACAATTACGTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGATAAACAAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT----T--TC-A--TTGA
* *
286932 AACAATTATGTTTGTAAGTAGAATATGTATGCATTGTTAATGGTTCTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* *
286985 AACAATTATGTTTATAGGTAGAATGTGTATGCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * *
287038 AACAACTATGTTTGTATGTAGAATATGTATGCATTATTAGTGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* *
287091 AACAATTATGTTTATAGGTAGAATATGTATGCATTGTTAGTGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * * *
287144 AATAATTATGTTTGGAGGTAGAATATGTATGCACTGTTGATGGTTAAGAGAAATGAGTTTG-
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT-------TTCA--TTGA
* *
287205 AACAGTTATGTTTGTAGGTAGAATATGTATCCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * **
287258 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTGACGG--TTAAAAGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
*
287309 AACGAATTTGATCAGTTATATTTGTAGGTAGAATATGTATCCATTGTTAATGGTTTTCATTGA
1 AAC-AA-TT-AT--G-----TTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * *
287372 AACAGTTATGTTTGTAGGTAGAATATGTATGCATTGCTAATGATTTTCATAGG
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * *
287425 AACAAATATGTTTGTAGGTAGAGTATGTATGCGTTGTTAATGGTTTTCATTAA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * *
287478 AACAATTATGTTTGTAGGTAGAGTATGTATGCGTTGTTAATGGTTTTCATTAA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * * * **
287531 AACAATTATGTTTGGATGTAGAATTTGTATGCATTGTTGACGG--TTAAGAGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * *
287582 AACGAATTTGATCAGTTATATTTGTAGGTAGAATATGTATCCATTGTTAAT-GATTTCATAGG
1 AAC-AA-TT-AT--G-----TTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * *
287644 AACAAATATGTTTGTAGGTAGAGTATGTATGCATTGTTAATGGTTTTTATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * ** *
287697 AACAATTATGTTTGGATGTAGAATATGTATGCATTGTTGACGGTTAAGAGAAACGAATTTA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC--ATTGA
* * * *
287758 ATCAGTTATATTTGTAGGTAGAATATGTATCCATTGTTAATGGTTTTCATTGA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* *
287811 AACAGTTATGTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT
287856 AAGCGAAACG
Statistics
Matches: 1242, Mismatches: 166, Indels: 187
0.78 0.10 0.12
Matches are distributed among these distances:
51 15 0.01
52 72 0.06
53 674 0.54
54 11 0.01
55 6 0.00
56 2 0.00
57 2 0.00
58 1 0.00
59 7 0.01
60 11 0.01
61 406 0.33
62 27 0.02
63 8 0.01
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.40
Consensus pattern (53 bp):
AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
Found at i:286501 original size:114 final size:108
Alignment explanation
Indices: 286241--287909 Score: 1300
Period size: 114 Copynumber: 14.9 Consensus size: 108
286231 AAGGAGTTTG
* * *
286241 AACAATTATATTTGCAGGTAGAATATATATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT---AG-AAC-A-TTTGAACA
*
286306 TTTATGTTTGTAGGTAGAA-ATGTATGCATTGTTAATGGTTTTCATTGA
60 ATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* *
286354 AACAATTGTGTTTGTAGGTAGAATATGCATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT---AG-AAC-A-TTTGAACA
* *
286419 GTTATATTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
60 ATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * *
286468 AACAGTTACGTTTTTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT---AG-AAC-A-TTTGAACA
* **
286533 GTTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTG-
60 ATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
** *
286590 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT--TTCA-TTGAAACAATTAC
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTG-AACAATTAT
* **
286652 GTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGAGAAACAAGTTTG-
65 GTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
** **
286704 AACAATTATGTTTGTAAATAGAATATGTATGCATTGTTAATGGTT--CTCA-TTGAAACAATTAT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTG-AACAATTAT
* **
286766 GTTTATAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTG-
65 GTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT------TTC-A--TTGA
* * * ** *
286818 AACAGTTATATTTGTAGGTAGAATATGCATGCATTGTTAATGGTT--TTCA-TTGAAACAATTAC
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTG-AACAATTAT
* *
286880 GTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGATAAACAAGTTTG-
65 GTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT----T--TC-A--TTGA
* **
286932 AACAATTATGTTTGTAAGTAGAATATGTATGCATTGTTAATGGTT--CTCA-TTGAAACAATTAT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTG-AACAATTAT
* *
286994 GTTTATAGGTAGAATGTGTATGCATTGTTAATGGTTTTCATTGA
65 GTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * **
287038 AACAACTATGTTTGTATGTAGAATATGTATGCATTATTAGTGGTT--TTCA-TTGAAACAATTAT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTG-AACAATTAT
* *
287100 GTTTATAGGTAGAATATGTATGCATTGTTAGTGGTTTTCATTGA
65 GTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * * *
287144 AATAATTATGTTTGGAGGTAGAATATGTATGCACTGTTGATGGTTAAGAGAAATGAGTTTGAACA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT---AG-AA-CA-TTTGAACA
* *
287209 GTTATGTTTGTAGGTAGAATATGTATCCATTGTTAATGGTTTTCATTGA
60 ATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * *
287258 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTGACGGTTAAAAGAAACGAATTTGATCA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT---AG-AAC--ATTTGAACA
* * *
287323 GTTATATTTGTAGGTAGAATATGTATCCATTGTTAATGGTTTTCATTGA
60 ATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * ** ** *
287372 AACAGTTATGTTTGTAGGTAGAATATGTATGCATTGCTAATGATT--TTCATAGGAACAAATATG
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTGAACAATTATG
* * *
287435 TTTGTAGGTAGAGTATGTATGCGTTGTTAATGGTTTTCATTAA
66 TTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * ** **
287478 AACAATTATGTTTGTAGGTAGAGTATGTATGCGTTGTTAATGGTT--TTCATTAAAACAATTATG
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTGAACAATTATG
* * * * * * **
287541 TTTGGATGTAGAATTTGTATGCATTGTTGACGG--TTAAGAGA
66 TTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * **
287582 AACGAATTTGATCAGTTATATTTGTAGGTAGAATATGTATCCATTGTTAATGATT---TCATAGG
1 AAC-AA-TT-AT--G-----TTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTG
* * *
287644 AACAAATATGTTTGTAGGTAGAGTATGTATGCATTGTTAATGGTTTTTATTGA
56 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * * *
287697 AACAATTATGTTTGGATGTAGAATATGTATGCATTGTTGACGGTTAAGAGAAACGAATTT-AATC
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT---AG-AAC--ATTTGAA-C
* * *
287761 AGTTATATTTGTAGGTAGAATATGTATCCATTGTTAATGGTTTTCATTGA
59 AATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* *
287811 AACAGTTATGTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTTAAGCGAAACGAGTTTGAACA
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT-A--G-AAC-A-TTTGAACA
* *
287876 GTTA----TGTAGGTAAAATATGTATGCATTGTTAATG
60 ATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATG
287910 ATTAAGAGAA
Statistics
Matches: 1341, Mismatches: 164, Indels: 105
0.83 0.10 0.07
Matches are distributed among these distances:
104 7 0.01
105 34 0.03
106 266 0.20
107 3 0.00
108 2 0.00
109 1 0.00
110 30 0.02
112 7 0.01
113 126 0.09
114 803 0.60
115 15 0.01
116 1 0.00
120 1 0.00
121 1 0.00
122 41 0.03
123 3 0.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (108 bp):
AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTAGAACATTTGAACAATTATG
TTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
Found at i:286528 original size:30 final size:30
Alignment explanation
Indices: 286494--286589 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
286484 GGTAGAATAT
286494 GTTTGCATTGTTAATGGTTAAGAGAAACGA
1 GTTTGCATTGTTAATGGTTAAGAGAAACGA
* ** * * *
286524 GTTTGAACAGTT-ATGTTTGTAGGTAGAATA--T
1 GTTTGCATTGTTAATG-GT-TAAG-AGAA-ACGA
*
286555 GTATGCATTGTTAATGGTTAAGAGAAACGA
1 GTTTGCATTGTTAATGGTTAAGAGAAACGA
286585 GTTTG
1 GTTTG
286590 AACAATTATG
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
28 1 0.02
29 7 0.16
30 17 0.38
31 12 0.27
32 7 0.16
33 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (30 bp):
GTTTGCATTGTTAATGGTTAAGAGAAACGA
Found at i:287342 original size:387 final size:387
Alignment explanation
Indices: 286302--287855 Score: 1966
Period size: 387 Copynumber: 4.0 Consensus size: 387
286292 AACGAGTTTG
* *
286302 AACATTTATGTTTGTAGGTAGAA-ATGTATGCATTGTTAATGGTTTTCATTGAAACAATTGTGTT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGAAACAATTATGTT
* *
286366 TGTAGGTAGAATATGCATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
66 TGGAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
* * *
286431 GGTAGAATATGTATGCATTGTTAATGGTTTTCATTGAAACAGTTACGTTTTTAGGTAGAATATGT
131 GGTAGAATATGTATCCATTGTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGT
* *
286496 TTGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATGTTTGTAGGTAGAATATGTATGC
196 ATGCATTGTTAATGGTTAAGAGAAACGAATTTGAACAGTTATGTTTGTAGGTAGAATATGTATGC
*
286561 ATTGTTAATGGTTAAGAGAAACGAGTTTG-AACAATTATGTTTGTAGGTAGAATATGTATGCATT
261 ATTGTTAATGGTT------ATC-A--TTGAAACAATTATGTTTGTAGGTAGAATATGTATGCATT
* * *
286625 GTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTTAA
317 GTTAATGGTTTTCATTGAAACAAATATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT--
**
286690 GAGAAACAAGTTTG-
380 ----TTC-A--TTGA
** *
286704 AACAATTATGTTTGTAAATAGAATATGTATGCATTGTTAATGGTTCTCATTGAAACAATTATGTT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGAAACAATTATGTT
**
286769 TATAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
66 TGGAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
* *
286834 GGTAGAATATGCATGCATTGTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGT
131 GGTAGAATATGTATCCATTGTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGT
* * * *
286899 TTGCATTGTTAATGGTTAAGATAAAC-AAGTTTGAACAATTATGTTTGTAAGTAGAATATGTATG
196 ATGCATTGTTAATGGTTAAGAGAAACGAA-TTTGAACAGTTATGTTTGTAGGTAGAATATGTATG
* * *
286963 CATTGTTAATGGTTCTCATTGAAACAATTATGTTTATAGGTAGAATGTGTATGCATTGTTAATGG
260 CATTGTTAATGGTTATCATTGAAACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGG
* * * *
287028 TTTTCATTGAAACAACTATGTTTGTATGTAGAATATGTATGCATTATTAGTGGTTTTCATTGA
325 TTTTCATTGAAACAAATATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * *
287091 AACAATTATGTTTATAGGTAGAATATGTATGCATTGTTAGTGGTTTTCATTGAAATAATTATGTT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGAAACAATTATGTT
* * * *
287156 TGGAGGTAGAATATGTATGCACTGTTGATGGTTAAGAGAAATGAGTTTGAACAGTTATGTTTGTA
66 TGGAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
*
287221 GGTAGAATATGTATCCATTGTTAATGGTTTTCATTGAAACAATTATGTTTGTAGGTAGAATATGT
131 GGTAGAATATGTATCCATTGTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGT
* * * * * *
287286 ATGCATTGTTGACGGTTAAAAGAAACGAATTTGATCAGTTATATTTGTAGGTAGAATATGTATCC
196 ATGCATTGTTAATGGTTAAGAGAAACGAATTTGAACAGTTATGTTTGTAGGTAGAATATGTATGC
* * * *
287351 ATTGTTAATGGTTTTCATTGAAACAGTTATGTTTGTAGGTAGAATATGTATGCATTGCTAATGAT
261 ATTGTTAATGGTTATCATTGAAACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGT
* * * * *
287416 TTTCATAGGAACAAATATGTTTGTAGGTAGAGTATGTATGCGTTGTTAATGGTTTTCATTAA
326 TTTCATTGAAACAAATATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
* * *
287478 AACAATTATGTTTGTAGGTAGAGTATGTATGCGTTGTTAATGGTTTTCATTAAAACAATTATGTT
1 AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGAAACAATTATGTT
* * * * * *
287543 TGGATGTAGAATTTGTATGCATTGTTGACGGTTAAGAGAAACGAATTTGATCAGTTATATTTGTA
66 TGGAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
* * * * * *
287608 GGTAGAATATGTATCCATTGTTAAT-GATTTCATAGGAACAAATATGTTTGTAGGTAGAGTATGT
131 GGTAGAATATGTATCCATTGTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGT
*** * * *
287672 ATGCATTGTTAATGGTT--------TTTA-TTGAAACAATTATGTTTGGATGTAGAATATGTATG
196 ATGCATTGTTAATGGTTAAGAGAAACGAATTTG-AACAGTTATGTTTGTAGGTAGAATATGTATG
* * * * * * * *
287728 CATTGTTGACGGTTAAGAGAAACGAATTTAATCAGTTATATTTGTAGGTAGAATATGTATCCATT
260 CATTGTTAATGGTT------ATC--ATTGAAACAATTATGTTTGTAGGTAGAATATGTATGCATT
** *
287793 GTTAATGGTTTTCATTGAAACAGTTATGTTTGTAGGTAGAATATGTTTGCATTGTTAATGGTT
317 GTTAATGGTTTTCATTGAAACAAATATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTT
287856 AAGCGAAACG
Statistics
Matches: 1025, Mismatches: 113, Indels: 44
0.87 0.10 0.04
Matches are distributed among these distances:
377 3 0.00
378 38 0.04
384 1 0.00
386 142 0.14
387 485 0.47
388 3 0.00
389 1 0.00
394 3 0.00
395 90 0.09
396 1 0.00
397 1 0.00
402 21 0.02
403 236 0.23
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.40
Consensus pattern (387 bp):
AACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGAAACAATTATGTT
TGGAGGTAGAATATGTATGCATTGTTAATGGTTAAGAGAAACGAGTTTGAACAGTTATATTTGTA
GGTAGAATATGTATCCATTGTTAATGGTTTTCATTGAAACAATTACGTTTGTAGGTAGAATATGT
ATGCATTGTTAATGGTTAAGAGAAACGAATTTGAACAGTTATGTTTGTAGGTAGAATATGTATGC
ATTGTTAATGGTTATCATTGAAACAATTATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGT
TTTCATTGAAACAAATATGTTTGTAGGTAGAATATGTATGCATTGTTAATGGTTTTCATTGA
Found at i:290343 original size:2 final size:2
Alignment explanation
Indices: 290332--290367 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
290322 TAATAATTTA
290332 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
290368 ATTTAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:292589 original size:3 final size:3
Alignment explanation
Indices: 292581--292620 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
292571 TACTATTAAT
*
292581 TTA TTA TTA ATA CTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
292621 AAACAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:312946 original size:4 final size:4
Alignment explanation
Indices: 312937--312963 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
312927 TTTAACTATG
312937 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
312964 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:313937 original size:2 final size:2
Alignment explanation
Indices: 313930--313969 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
313920 TTTATTCTAA
313930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
313970 CGTATGTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:316320 original size:23 final size:23
Alignment explanation
Indices: 316276--316346 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 23
316266 TAAACGAAAA
316276 AATAAAAAATAATCTAAATTAATTTG
1 AATAAAAAAT-A--TAAATTAATTTG
*
316302 AGTAAAAAATATAAATTAATTTG
1 AATAAAAAATATAAATTAATTTG
316325 AATAAAAAATATAAATTAATTT
1 AATAAAAAATATAAATTAATTT
316347 AAACAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
23 33 0.77
25 1 0.02
26 9 0.21
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (23 bp):
AATAAAAAATATAAATTAATTTG
Found at i:321465 original size:17 final size:19
Alignment explanation
Indices: 321443--321481 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
321433 ATGTCAAAAT
*
321443 GTATCGGTACC-TAAG-GG
1 GTATCGATACCATAAGAGG
321460 GTATCGATACCATAAGAGG
1 GTATCGATACCATAAGAGG
321479 GTA
1 GTA
321482 GTATCGGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 4 0.21
19 5 0.26
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (19 bp):
GTATCGATACCATAAGAGG
Found at i:321855 original size:48 final size:48
Alignment explanation
Indices: 321799--321903 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
321789 AATTCATGAT
321799 TATAAGTATATGTTTAATATGATTATTATGTGTGCTAGAGTAGTTGAA
1 TATAAGTATATGTTTAATATGATTATTATGTGTGCTAGAGTAGTTGAA
321847 TATAAGTATATGTTTAATATGATTATTATGTGTGCTAGAGTAGTTGAA
1 TATAAGTATATGTTTAATATGATTATTATGTGTGCTAGAGTAGTTGAA
*
321895 TATGAGTAT
1 TATAAGTAT
321904 GTGGGTTACA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (48 bp):
TATAAGTATATGTTTAATATGATTATTATGTGTGCTAGAGTAGTTGAA
Found at i:323563 original size:17 final size:17
Alignment explanation
Indices: 323533--323579 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
323523 AGGTTTTCTA
*
323533 AATAATTTTTTAAAAAT
1 AATATTTTTTTAAAAAT
*
323550 AAT-TTTTTTATAAATAT
1 AATATTTTTT-TAAAAAT
323567 AATATTTTTTTAA
1 AATATTTTTTTAA
323580 TTTTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATTTTTTTAAAAAT
Found at i:324142 original size:17 final size:17
Alignment explanation
Indices: 324120--324153 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
324110 TTAGTACCAT
324120 AAAATTATAAATATTTA
1 AAAATTATAAATATTTA
324137 AAAATTATAAATATTTA
1 AAAATTATAAATATTTA
324154 GACTCGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTATAAATATTTA
Found at i:334861 original size:19 final size:19
Alignment explanation
Indices: 334837--334876 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
334827 CTCTCCTATT
334837 TCACTCACTATATTTTAAA
1 TCACTCACTATATTTTAAA
334856 TCACTCACTATATTTTAAA
1 TCACTCACTATATTTTAAA
334875 TC
1 TC
334877 CGTTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (19 bp):
TCACTCACTATATTTTAAA
Found at i:336740 original size:23 final size:25
Alignment explanation
Indices: 336696--336741 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
336686 AAAATATTTA
336696 CAAAATTATTTTAGAAAATTTAACT
1 CAAAATTATTTTAGAAAATTTAACT
336721 CAAAATTA-TTTA-AAAATTTAA
1 CAAAATTATTTTAGAAAATTTAA
336742 ATTATTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (25 bp):
CAAAATTATTTTAGAAAATTTAACT
Found at i:336745 original size:17 final size:18
Alignment explanation
Indices: 336723--336759 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
336713 ATTTAACTCA
336723 AAATTATTT-AAAAATTT
1 AAATTATTTGAAAAATTT
*
336740 AAATTATTTGATAAATTT
1 AAATTATTTGAAAAATTT
336758 AA
1 AA
336760 CAACAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATTATTTGAAAAATTT
Found at i:339245 original size:38 final size:37
Alignment explanation
Indices: 339164--339247 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
339154 CCAACCTGAT
* * * * *
339164 CCGACCCGAAAATTTTATATCCTTCATCCGACCCAAC
1 CCGACCCGAAAAATATATACCCTCCACCCGACCCAAC
* *
339201 CTGACCCGAAAAATATATACCCTCCACCCGACCCGAGC
1 CCGACCCGAAAAATATATACCCTCCACCCGACCC-AAC
339239 CCGACCCGA
1 CCGACCCGA
339248 TTTTTTGAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 28 0.74
38 10 0.26
ACGTcount: A:0.30, C:0.42, G:0.12, T:0.17
Consensus pattern (37 bp):
CCGACCCGAAAAATATATACCCTCCACCCGACCCAAC
Found at i:346407 original size:20 final size:20
Alignment explanation
Indices: 346384--346437 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
346374 AATGCGATTT
* *
346384 AGAAAATCGCAACGTTGAAA
1 AGAAAATCGCAACGGTCAAA
346404 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTCAAA
346424 AGAAAATCGCAACG
1 AGAAAATCGCAACG
346438 CGATATTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.50, C:0.19, G:0.20, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTCAAA
Found at i:346456 original size:22 final size:22
Alignment explanation
Indices: 346428--346494 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
346418 GTCAAAAGAA
346428 AATCGCAACGCGATATTCCAAG
1 AATCGCAACGCGATATTCCAAG
* *
346450 AATCGCAATGCG--ATT-AAGAG
1 AATCGCAACGCGATATTCCA-AG
*
346470 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATATTCCAAG
346492 AAT
1 AAT
346495 GCGATTAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 1 0.03
20 16 0.44
22 18 0.50
23 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (22 bp):
AATCGCAACGCGATATTCCAAG
Found at i:346473 original size:20 final size:20
Alignment explanation
Indices: 346448--346519 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
346438 CGATATTCCA
346448 AGAATCGCAATGCGATTAAG
1 AGAATCGCAATGCGATTAAG
* *
346468 AGAATCGCAACGCGATCT--T
1 AGAATCGCAATGCGAT-TAAG
**
346487 CCAA--G-AATGCGATTAAG
1 AGAATCGCAATGCGATTAAG
346504 AGAATCGCAATGCGAT
1 AGAATCGCAATGCGAT
346520 ATTCCAACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
15 1 0.03
16 7 0.18
17 3 0.08
19 3 0.08
20 23 0.61
21 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (20 bp):
AGAATCGCAATGCGATTAAG
Found at i:346474 original size:42 final size:38
Alignment explanation
Indices: 346423--346526 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 38
346413 CAACGGTCAA
*
346423 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
1 AAGAGAATCGCAACGCGATATTCCAA-AA--G-AATGCGATT
*
346465 AAGAGAATCGCAACGCGATCTTCC--AAGAATGCGATT
1 AAGAGAATCGCAACGCGATATTCCAAAAGAATGCGATT
*
346501 AAGAGAATCGCAATGCGATATTCCAA
1 AAGAGAATCGCAACGCGATATTCCAA
346527 CAAAATGACT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
36 31 0.55
37 1 0.02
39 2 0.04
42 22 0.39
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (38 bp):
AAGAGAATCGCAACGCGATATTCCAAAAGAATGCGATT
Found at i:353321 original size:30 final size:31
Alignment explanation
Indices: 353285--353342 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
353275 AAACTTTATG
* *
353285 CATTA-GGGATAGTTTCAGTTATGCATCCAA
1 CATTAGGGGATAGTATCAATTATGCATCCAA
353315 CATTAGGGGATAGTATCAATTATGCATC
1 CATTAGGGGATAGTATCAATTATGCATC
353343 TAGAACTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (31 bp):
CATTAGGGGATAGTATCAATTATGCATCCAA
Found at i:354636 original size:17 final size:17
Alignment explanation
Indices: 354614--354650 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
354604 GATAAAAAGT
*
354614 TTGCATCTAGATTCTGC
1 TTGCATCTAGATCCTGC
354631 TTGCATCTAGATCCTGC
1 TTGCATCTAGATCCTGC
354648 TTG
1 TTG
354651 TGATCCAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (17 bp):
TTGCATCTAGATCCTGC
Found at i:355644 original size:13 final size:14
Alignment explanation
Indices: 355626--355657 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
355616 CTACAATATG
355626 ATTTTT-GTGTTAT
1 ATTTTTAGTGTTAT
355639 ATTTTTAGTGTTAT
1 ATTTTTAGTGTTAT
355653 ATTTT
1 ATTTT
355658 CTTACTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (14 bp):
ATTTTTAGTGTTAT
Found at i:356099 original size:15 final size:15
Alignment explanation
Indices: 356079--356109 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
356069 CAACATATAG
356079 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
356094 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
356109 A
1 A
356110 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:358146 original size:16 final size:16
Alignment explanation
Indices: 358099--358151 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
358089 ATTTTATATA
*
358099 AAAATTAAAAA-TATT
1 AAAATTAAAAATTATC
**
358114 AAAATTGTAAATTTTATC
1 AAAA-T-TAAAAATTATC
358132 AAAATTAAAAATTATC
1 AAAATTAAAAATTATC
358148 AAAA
1 AAAA
358152 AAGAATAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.13
16 14 0.47
17 5 0.17
18 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAATTAAAAATTATC
Found at i:365023 original size:14 final size:14
Alignment explanation
Indices: 365004--365036 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
364994 CGCTGGGCAT
365004 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
365018 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
365032 ACGAG
1 CCGAG
365037 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:365057 original size:10 final size:10
Alignment explanation
Indices: 365042--365098 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
365032 ACGAGCTATG
365042 CGAGGGCATC
1 CGAGGGCATC
*
365052 CGAGGGCAAC
1 CGAGGGCATC
*
365062 CGAGCGAGCTATG
1 CGAG-G-GC-ATC
*
365075 CGAGGGAATC
1 CGAGGGCATC
*
365085 CGAGGGCAAC
1 CGAGGGCATC
365095 CGAG
1 CGAG
365099 CAAGGGTAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 27 0.73
11 2 0.05
12 3 0.08
13 5 0.14
ACGTcount: A:0.26, C:0.26, G:0.40, T:0.07
Consensus pattern (10 bp):
CGAGGGCATC
Found at i:365070 original size:33 final size:33
Alignment explanation
Indices: 365018--365099 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
365008 GGCCATCCGA
* * * *
365018 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
365051 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
365084 CCGAGGGCAACCGAGC
1 CCGAGGGCAACCGAGC
365100 AAGGGTAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.29, G:0.37, T:0.09
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:365176 original size:33 final size:33
Alignment explanation
Indices: 365135--365217 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
365125 GCGACCTACC
* *
365135 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
365168 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
* *
365201 CTCGTTCGGATGCCCTC
1 CTCGCTCGGTTGCCCTC
365218 ACATAGCTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.10, C:0.39, G:0.25, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
Found at i:365209 original size:23 final size:23
Alignment explanation
Indices: 365183--365235 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
365173 TCGGTTGCCC
*
365183 TCGGATGCCATCGCATAGCTCGT
1 TCGGATGCCATCACATAGCTCGT
*
365206 TCGGATGCCCTCACATAGCTCGT
1 TCGGATGCCATCACATAGCTCGT
365229 TCGGATG
1 TCGGATG
365236 GCCTCGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.26
Consensus pattern (23 bp):
TCGGATGCCATCACATAGCTCGT
Found at i:365262 original size:20 final size:20
Alignment explanation
Indices: 365233--365277 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
365223 GCTCGTTCGG
*
365233 ATGGCCTCGGATGCTCTCGA
1 ATGGCATCGGATGCTCTCGA
* *
365253 ATGGCATCGGATGCTTTCGG
1 ATGGCATCGGATGCTCTCGA
365273 ATGGC
1 ATGGC
365278 CTCAGTCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (20 bp):
ATGGCATCGGATGCTCTCGA
Found at i:365309 original size:14 final size:14
Alignment explanation
Indices: 365269--365310 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
365259 TCGGATGCTT
*
365269 TCGGATGGCCTCAG
1 TCGGATGGCCTCGG
365283 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
365297 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
365311 ATGCCCAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.10, C:0.29, G:0.40, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:365659 original size:29 final size:29
Alignment explanation
Indices: 365617--365705 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
365607 AACAGCCCAC
365617 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCTCGGATGCCATGGCGACCTCCA
*
365646 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCTCGGATGCCATGGCGACCTCCA
365675 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCTCGGATGCCATGGCGACCTCCA
365704 AG
1 AG
365706 CTCACTGTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (29 bp):
AGGTCGCTCGGATGCCATGGCGACCTCCA
Found at i:367442 original size:2 final size:2
Alignment explanation
Indices: 367437--367479 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
367427 TATACGTGTG
367437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
367479 T
1 T
367480 GATTCTTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:367574 original size:16 final size:16
Alignment explanation
Indices: 367553--367601 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
367543 GAGTCGAGTC
367553 GAGTTCAAGTATTGCT
1 GAGTTCAAGTATTGCT
*
367569 GAGTTC--G-ACT-C-
1 GAGTTCAAGTATTGCT
367580 GAGTTCAAGTATTGCT
1 GAGTTCAAGTATTGCT
367596 GAGTTC
1 GAGTTC
367602 GACTCGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
11 6 0.23
12 1 0.04
13 3 0.12
14 3 0.12
15 1 0.04
16 12 0.46
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (16 bp):
GAGTTCAAGTATTGCT
Found at i:367613 original size:32 final size:27
Alignment explanation
Indices: 367542--367608 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
367532 GGGGTGTAAA
*
367542 TGAG-TCGAGTCGAGTTCAAGTATTGC
1 TGAGTTCGACTCGAGTTCAAGTATTGC
367568 TGAGTTCGACTCGAGTTCAAGTATTGC
1 TGAGTTCGACTCGAGTTCAAGTATTGC
367595 TGAGTTCGACTCGA
1 TGAGTTCGACTCGA
367609 CTCGAAAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (27 bp):
TGAGTTCGACTCGAGTTCAAGTATTGC
Found at i:367906 original size:34 final size:33
Alignment explanation
Indices: 367863--367935 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
367853 TATATATATA
*
367863 TATATATATAGTATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATA-TTTTTATATTAAT
367897 TATATATATAATATTTTATATTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
367930 TATATA
1 TATATA
367936 ATACAAACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 19 0.50
34 19 0.50
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATATATATAATATTTTATATTTTTATATTAAT
Found at i:367933 original size:42 final size:46
Alignment explanation
Indices: 367851--367934 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 46
367841 ACCCCGATTA
**
367851 TATATATATATATATATATATAGTATTTTATATTTTTTATATTAAT
1 TATATATATATATATATATATAGTATTTTATATTAATTATATTAAT
*
367897 TATATATATA-ATAT-TTTATA-T-TTTTATATTAATTATAT
1 TATATATATATATATATATATAGTATTTTATATTAATTATAT
367935 AATACAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 15 0.43
43 1 0.03
44 5 0.14
45 4 0.11
46 10 0.29
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (46 bp):
TATATATATATATATATATATAGTATTTTATATTAATTATATTAAT
Found at i:369912 original size:17 final size:17
Alignment explanation
Indices: 369890--369924 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
369880 ACCTTCATTG
369890 CCACAACGAATTTGTAT
1 CCACAACGAATTTGTAT
369907 CCACAACGAATTTGTAT
1 CCACAACGAATTTGTAT
369924 C
1 C
369925 ATCATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (17 bp):
CCACAACGAATTTGTAT
Found at i:372364 original size:3 final size:3
Alignment explanation
Indices: 372356--372428 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
372346 TGCATCCAAC
*
372356 ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
372404 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
372429 CAACTCGGAC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:373143 original size:258 final size:258
Alignment explanation
Indices: 372554--373799 Score: 1590
Period size: 258 Copynumber: 4.8 Consensus size: 258
372544 GTCTCAAGTG
* * * *
372554 AGACTGATAGATAACACGAAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAAGA
1 AGACTGATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* *
372619 CTTACCAATTTTGGAAATTA-TTTACTCGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
66 CTTACCAATTTTGGAAA-TAGTTTACTCGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAA
* * * * *
372683 A-ATTTTAATTTCTAAAAACATTAAATGAGAAACTTTGAAAATTGTTTTTCTCATTTTTCAAAAA
130 AGATTTTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTG-CTTTCTCATTTTT-TAAAA
* * * * * * *
372747 CATCATATGAAAGCACAT--TGCCCAAAGGTCTTATAGATGACCCGAAAGACTTATCATTTTGTT
193 -ATCATGTGAAA--ACATCCTGCCCGAAGGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCT
372810 CGAA
255 CGAA
* * *
372814 AGACTGACAGATGGCCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAA-GA
1 AGACTGATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* * * *
372878 GCTTACCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTTGAAATCATTTTCTTACTTTTCAA
66 -CTTACCAATTTTGGAAATAGTTTACTCGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAA
* * * * * * *
372943 TGATTTCATTTTCTAAAAATATAAAACGAGAAACTTTGGAAATTGCTTTCTCATTTTTCAAAAAT
130 AGATTTTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTAAAAAT
* * * *
373008 CATGTGAAAACATCCTGCCCGAAGGTCTTATAAATGGCCTGAAGGACTTACCATCATGCTCAAA
195 CATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAA
* * * *
373072 AGACTGATAGAAT-TCTCGAAGGATTTAATCATCATGTTCAAAAGACTTACTGATGGCCCGAAGG
1 AGACTGATAG-ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
373136 ACTTACCAATTTTGGAAATAGTTTACTCTGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAA
65 ACTTACCAATTTTGGAAATAGTTTACTCGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAA
* * **
373201 AGATTTTATTTTATGAAAATATTAAATGAGAAACTTTGAAAAATCT-CTTTCTTATTTTTTGGAA
130 AGATTTTATTTTCTGAAAATATTAAATGAGAAACTTTG-AAAAT-TGCTTTCTCATTTTTTAAAA
* **
373265 ATCATGTGAAAACATCTTGCCCGAATATCTTATAGATGG-CTCGAAGGACTTATCATCTTGCTCG
193 ATCATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCCT-GAAGGACTTATCATCTTGCTCG
373329 AA
257 AA
* * * * * *
373331 ATACTGATAGATGACCCAAATGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCTGAATGA
1 AGACTGATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* * *
373396 CTTACCAATTTTGGAAATAGTTTACTGGGTAAGAAACTTTAGAAATTGTCTTCTTACTTTTCAAA
66 CTTACCAATTTTGGAAATAGTTTACTCGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAAA
* ** * **
373461 GATTTCATTTTCTGAAAATATTAAATGAGAAACTTTGAAAACCGATTTCTCATTTTTTGGAAATC
131 GATTTTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTAAAAATC
*
373526 ATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCCTGAATGACTTATCATCTTGCTCGAA
196 ATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAA
* * * **
373589 AGATTAATAGAAGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAACCGAAGGA
1 AGACTGATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* * *
373654 CTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTAGAAATCGCTTTCTTACTTTTCAAA
66 CTTACCAATTTTGGAAATAGTTTACTCGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAAA
* ** * *
373719 AATTTTATTTTCTGAAAACGTGAAATGAGAAACTTTGAAAATTACTTTTCTCATTTTTTTTAAAA
131 GATTTTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGC-TTTCTCA--TTTTTTAAAA
* *
373784 ATCATATGAAAGCATC
193 ATCATGTGAAAACATC
373800 TTGATGGTCG
Statistics
Matches: 856, Mismatches: 114, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
256 4 0.00
258 426 0.50
259 242 0.28
260 125 0.15
261 59 0.07
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (258 bp):
AGACTGATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
CTTACCAATTTTGGAAATAGTTTACTCGGTAAGAAACTTTAGAAATCGTTTTCTTACTTTTCAAA
GATTTTATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTAAAAATC
ATGTGAAAACATCCTGCCCGAAGGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAA
Found at i:373528 original size:517 final size:516
Alignment explanation
Indices: 372570--373794 Score: 1731
Period size: 517 Copynumber: 2.4 Consensus size: 516
372560 ATAGATAACA
* *
372570 CGAAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAAGACTTACCAATTTTGGAA
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* *
372635 ATTA-TTTACTCGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTAATTTCTAAA
66 A-TAGTTTACTCGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTATTTTCTGAA
* * *
372699 AACATTAAATGAGAAACTTTGAAAATTGTTTTTCTCATTTTTCAAAAACATCATATGAAAGCACA
130 AACATTAAATGAGAAACTTTGAAAATT-CTTTTCTCATTTTT-TAAAACATCATATGAAAACACA
* * * *
372764 TTGCCCAAAGGTCTTATAGATGACCCGAAAGACTTATCATTTTGTTCGAAAGACTGACAGATGGC
193 TTGCCCAAAGATCTTATAGATGACCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGAC
372829 CCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGAGCTTACCAATTTTGGA
258 CCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGAGCTTACCAATTTTGGA
* * *
372894 AATAGTTTAATGGGTAAGAAACTTTTGAAATCATTTTCTTACTTTTCAATGATTTCATTTTCTAA
323 AATAGTTTAATGGGTAAGAAACTTTAGAAATCATCTTCTTACTTTTCAAAGATTTCATTTTCTAA
* ** *
372959 AAATATAAAACGAGAAACTTTGGAAATTGCTTTCTCATTTTTCAAAAATCATGTGAAAACATCCT
388 AAATATAAAACGAGAAACTTTGAAAACCGATTTCTCATTTTTCAAAAATCATGTGAAAACATCCT
* ** *
373024 GCCCGAAGGTCTTATAAATGGCCTGAAGGACTTACCATCATGCTCAAAAGACTGATAGAATTCT
453 GCCCGAAGGTCTTATAAATGGCCTGAAGGACTTACCATCATGCTCAAAAGACTAATAGAAGACC
* *
373088 CGAAGGATTTAATCATCATGTTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* * *
373153 ATAGTTTACTCTGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAGATTTTATTTTATGAA
66 ATAGTTTACTCGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA-ATTTTATTTTCTGAA
* * * ** *
373218 AATATTAAATGAGAAACTTTGAAAAATCTCTTTCTTATTTTTTGGAA-ATCATGTGAAAACATC-
130 AACATTAAATGAGAAACTTTGAAAATTCT-TTTCTCATTTTTTAAAACATCATATGAAAACA-CA
* * * * * * *
373281 TTGCCCGAATATCTTATAGATGGCTCGAAGGACTTATCATCTTGCTCGAAATACTGATAGATGAC
193 TTGCCCAAAGATCTTATAGATGACCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGAC
* * *
373346 CCAAATGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCTGAATGA-CTTACCAATTTTGG
258 CCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAA-GAGCTTACCAATTTTGG
* ** *
373410 AAATAGTTTACTGGGTAAGAAACTTTAGAAATTGTCTTCTTACTTTTCAAAGATTTCATTTTCTG
322 AAATAGTTTAATGGGTAAGAAACTTTAGAAATCATCTTCTTACTTTTCAAAGATTTCATTTTCTA
* * ***
373475 AAAATATTAAATGAGAAACTTTGAAAACCGATTTCTCATTTTTTGGAAATCATGTGAAAACATCC
387 AAAATATAAAACGAGAAACTTTGAAAACCGATTTCTCATTTTTCAAAAATCATGTGAAAACATCC
* * * * * *
373540 TGCCCGAAGGTCTTATAGATGGCCTGAATGACTTATCATCTTGCTCGAAAGATTAATAGAAGACC
452 TGCCCGAAGGTCTTATAAATGGCCTGAAGGACTTACCATCATGCTCAAAAGACTAATAGAAGACC
** *
373605 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAACCGAAGGACTTACTAATTTTGGAA
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* *
373670 ATAGTTTACTAGGTAAGAAACTTTAGAAATCGCTTTCTTACTTTTCAAAAATTTTATTTTCTGAA
66 ATAGTTTACTCGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC-AAAATTTTATTTTCTGAA
* *
373735 AACGTGAAATGAGAAACTTTGAAAATTACTTTTCTCATTTTTTTTAAAA-ATCATATGAAA
130 AACATTAAATGAGAAACTTTGAAAATT-CTTTTCTCA--TTTTTTAAAACATCATATGAAA
373795 GCATCTTGAT
Statistics
Matches: 622, Mismatches: 76, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
517 440 0.71
518 116 0.19
519 66 0.11
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (516 bp):
CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
ATAGTTTACTCGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTATTTTCTGAAA
ACATTAAATGAGAAACTTTGAAAATTCTTTTCTCATTTTTTAAAACATCATATGAAAACACATTG
CCCAAAGATCTTATAGATGACCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCA
AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGAGCTTACCAATTTTGGAAAT
AGTTTAATGGGTAAGAAACTTTAGAAATCATCTTCTTACTTTTCAAAGATTTCATTTTCTAAAAA
TATAAAACGAGAAACTTTGAAAACCGATTTCTCATTTTTCAAAAATCATGTGAAAACATCCTGCC
CGAAGGTCTTATAAATGGCCTGAAGGACTTACCATCATGCTCAAAAGACTAATAGAAGACC
Found at i:373650 original size:42 final size:42
Alignment explanation
Indices: 373574--373653 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
373564 TGAATGACTT
* *
373574 ATCATCTTGCTCGAAAGATTAATAGAAGACCCGAAGGATTTA
1 ATCATCATGCTCGAAAGATTAATAGAAGAACCGAAGGATTTA
* *
373616 ATCATCATGCTCGAAAGACTTACT-GATGAACCGAAGGA
1 ATCATCATGCTCGAAAGA-TTAATAGAAGAACCGAAGGA
373654 CTTACTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.88
43 4 0.12
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGATTAATAGAAGAACCGAAGGATTTA
Found at i:379752 original size:31 final size:31
Alignment explanation
Indices: 379717--379783 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
379707 TACAATACAA
379717 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCGTTTGCAATATGG
* *
379748 TCCCCCAACATTTAGTCTGTTTGTAATATGG
1 TCCCCCAACATTTAGTCCGTTTGCAATATGG
379779 -CCCCC
1 TCCCCC
379784 GAAGTAACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCGTTTGCAATATGG
Found at i:383933 original size:13 final size:13
Alignment explanation
Indices: 383929--383973 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
383919 ATATATATAT
383929 ATAAT-AATAATA
1 ATAATAAATAATA
*
383941 ATAATAAATATTA
1 ATAATAAATAATA
383954 ATAATAAATAATA
1 ATAATAAATAATA
383967 ATAATAA
1 ATAATAA
383974 CTTGGACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 5 0.17
13 25 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:383937 original size:3 final size:3
Alignment explanation
Indices: 383929--383973 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
383919 ATATATATAT
*
383929 ATA ATA ATA ATA ATA ATAA ATA TTA ATA ATAA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA A
383974 CTTGGACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:394599 original size:24 final size:24
Alignment explanation
Indices: 394558--394710 Score: 134
Period size: 24 Copynumber: 6.3 Consensus size: 24
394548 AGTGTTAGAG
*
394558 AAAAAAGATAATGAAAATAAATAA-
1 AAAAAAGAAAAT-AAAATAAATAAC
*
394582 AAATAAAGAAAATAAAATAAATAAG
1 AAA-AAAGAAAATAAAATAAATAAC
** *
394607 AAAAAA-ATAGTTGAAATAAATAAC
1 AAAAAAGA-AAATAAAATAAATAAC
*
394631 AAAAAAGATAATGAAAATAAATAA-
1 AAAAAAGAAAAT-AAAATAAATAAC
*
394655 AAATAAAGAAAATAAAATAAATAAG
1 AAA-AAAGAAAATAAAATAAATAAC
* ** *
394680 AAAAAA-TAGTTGAAATAAATAAC
1 AAAAAAGAAAATAAAATAAATAAC
394703 AAAAAAGA
1 AAAAAAGA
394711 TACAACAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
23 19 0.18
24 53 0.50
25 33 0.31
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAAAGAAAATAAAATAAATAAC
Found at i:394699 original size:72 final size:73
Alignment explanation
Indices: 394558--394712 Score: 303
Period size: 73 Copynumber: 2.1 Consensus size: 73
394548 AGTGTTAGAG
394558 AAAAAAGATAATGAAAATAAATAAAAATAAAGAAAATAAAATAAATAAGAAAAAAATAGTTGAAA
1 AAAAAAGATAATGAAAATAAATAAAAATAAAGAAAATAAAATAAATAAGAAAAAAATAGTTGAAA
394623 TAAATAAC
66 TAAATAAC
394631 AAAAAAGATAATGAAAATAAATAAAAATAAAGAAAATAAAATAAATAAG-AAAAAATAGTTGAAA
1 AAAAAAGATAATGAAAATAAATAAAAATAAAGAAAATAAAATAAATAAGAAAAAAATAGTTGAAA
394695 TAAATAAC
66 TAAATAAC
394703 AAAAAAGATA
1 AAAAAAGATA
394713 CAACAAAGAT
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 33 0.40
73 49 0.60
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.17
Consensus pattern (73 bp):
AAAAAAGATAATGAAAATAAATAAAAATAAAGAAAATAAAATAAATAAGAAAAAAATAGTTGAAA
TAAATAAC
Found at i:394800 original size:29 final size:28
Alignment explanation
Indices: 394768--394857 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 28
394758 GAAATGAAAG
*
394768 AAATAAAAATATATAAAGAAAATATACAT
1 AAATAAAAATATATAAAGAAAATAGA-AT
* *
394797 AAAT-AAAATAAAATAAAGATAA-AGAAT
1 AAATAAAAAT-ATATAAAGAAAATAGAAT
* *
394824 AAATAAAAA-ATAAAAAGATAAATA-AAG
1 AAATAAAAATATATAAAGA-AAATAGAAT
394851 AAATAAA
1 AAATAAA
394858 TAAAGAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
26 7 0.14
27 17 0.34
28 12 0.24
29 14 0.28
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (28 bp):
AAATAAAAATATATAAAGAAAATAGAAT
Found at i:394804 original size:15 final size:15
Alignment explanation
Indices: 394768--394806 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
394758 GAAATGAAAG
*
394768 AAATAAAA-ATATAT
1 AAATAAAATATACAT
*
394782 AAAGAAAATATACAT
1 AAATAAAATATACAT
394797 AAATAAAATA
1 AAATAAAATA
394807 AAATAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (15 bp):
AAATAAAATATACAT
Found at i:394818 original size:20 final size:20
Alignment explanation
Indices: 394780--394880 Score: 68
Period size: 20 Copynumber: 5.0 Consensus size: 20
394770 ATAAAAATAT
* * *
394780 ATAAAGAAAATATACATAAAT
1 ATAAATAAAATA-AAATAAAG
394801 A-AAATAAAATAAAGATAAAG
1 ATAAATAAAATAAA-ATAAAG
394821 AATAAATAAAA-AATAA-AAAG
1 -ATAAATAAAATAA-AATAAAG
*
394841 ATAAATAAAGAAATAAATAAAG
1 ATAAATAAA-ATA-AAATAAAG
394863 --AAATAAAAATAAAATAAA
1 ATAAAT-AAAATAAAATAAA
394881 TGAAAAAAGT
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
19 17 0.25
20 25 0.37
21 11 0.16
22 14 0.21
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (20 bp):
ATAAATAAAATAAAATAAAG
Found at i:394830 original size:4 final size:4
Alignment explanation
Indices: 394821--394881 Score: 58
Period size: 4 Copynumber: 15.8 Consensus size: 4
394811 AAAGATAAAG
* *
394821 AATA AATA AA-A AATA AA-A AGATA AATA AAGA AATA AATA AAGA AAT-
1 AATA AATA AATA AATA AATA A-ATA AATA AATA AATA AATA AATA AATA
394867 AA-A AATAA AATA AAT
1 AATA AAT-A AATA AAT
394882 GAAAAAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 9 0.19
4 32 0.68
5 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:394848 original size:12 final size:11
Alignment explanation
Indices: 394795--394888 Score: 70
Period size: 12 Copynumber: 8.1 Consensus size: 11
394785 GAAAATATAC
*
394795 ATAAATAAAAT
1 ATAAATAAAAA
394806 A-AAATAAAGATA
1 ATAAATAAA-A-A
394818 A-AGAATAAATAA
1 ATA-AATAAA-AA
394830 A-AAATAAAAA
1 ATAAATAAAAA
394840 GATAAATAAAGAA
1 -ATAAATAAA-AA
394853 ATAAATAAAGAA
1 ATAAATAAA-AA
394865 ATAAA-AATAAA
1 ATAAATAA-AAA
394876 ATAAATGAAAAA
1 ATAAAT-AAAAA
394888 A
1 A
394889 GTAATATATA
Statistics
Matches: 72, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
10 9 0.12
11 18 0.25
12 34 0.47
13 11 0.15
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:394856 original size:31 final size:31
Alignment explanation
Indices: 394743--394885 Score: 114
Period size: 31 Copynumber: 4.4 Consensus size: 31
394733 TAGCATAATT
394743 AAAATAAAGATAGATGAAATGAAAGAAATAAAAA-
1 AAAATAAAGA-A-AT-AAAT-AAAGAAATAAAAAG
* * *
394777 TATATAAAGAAAATATACATAAATAAAATAAAATA-
1 AAAATAAAG-AAATA-A-ATAAA-GAAATAAAA-AG
*
394812 AAGATAAAG-AATAAATAAA-AAATAAAAAG
1 AAAATAAAGAAATAAATAAAGAAATAAAAAG
*
394841 ATAAATAAAGAAATAAATAAAGAAATAAAAAT
1 A-AAATAAAGAAATAAATAAAGAAATAAAAAG
394873 AAAATAAATGAAA
1 AAAATAAA-GAAA
394886 AAAGTAATAT
Statistics
Matches: 92, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
28 1 0.01
29 9 0.10
30 7 0.08
31 22 0.24
32 16 0.17
33 10 0.11
34 18 0.20
35 9 0.10
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.18
Consensus pattern (31 bp):
AAAATAAAGAAATAAATAAAGAAATAAAAAG
Found at i:394879 original size:19 final size:19
Alignment explanation
Indices: 394759--394885 Score: 65
Period size: 19 Copynumber: 6.6 Consensus size: 19
394749 AAGATAGATG
394759 AAATGAAAGAAATAAAAAT-
1 AAAT-AAAGAAATAAAAATA
* * *
394778 ATATAAAGAAAATATACAT-
1 AAATAAAG-AAATAAAAATA
394797 AAAT--A-AAAT-AAAATA
1 AAATAAAGAAATAAAAATA
394812 AAGATAAAG-AATAAATAA-A
1 AA-ATAAAGAAATAAA-AATA
394831 AAATAAAAAGATAAATAAAGAA-A
1 AAAT--AAAG--AAATAAA-AATA
394854 TAAATAAAGAAATAAAAATA
1 -AAATAAAGAAATAAAAATA
394874 AAATAAATGAAA
1 AAATAAA-GAAA
394886 AAAGTAATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
14 3 0.04
15 6 0.07
16 2 0.02
17 1 0.01
18 10 0.12
19 28 0.33
20 18 0.21
22 4 0.05
23 9 0.11
24 4 0.05
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (19 bp):
AAATAAAGAAATAAAAATA
Found at i:394936 original size:3 final size:3
Alignment explanation
Indices: 394928--395042 Score: 51
Period size: 3 Copynumber: 36.7 Consensus size: 3
394918 TATTAGAGAA
394928 AAT AAT AAT AAT AAT AAT AAAT AAAT AA- AAT AAAT AAT AA- AAGT ATAT
1 AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT -AAT AAT AAT AA-T A-AT
* ** * * *
394976 ATAT AA- AAT AA- AAT ATT AGG AAA AAT -AT AGT AAGG AAT AAAT AAAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT -AAT -AAT
395022 AAAT AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AA
395043 CCCAAAACAA
Statistics
Matches: 91, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
2 10 0.11
3 50 0.55
4 30 0.33
5 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:394990 original size:40 final size:40
Alignment explanation
Indices: 394869--394990 Score: 94
Period size: 40 Copynumber: 3.0 Consensus size: 40
394859 AAAGAAATAA
* *
394869 AAATAAAATAAATGAAAAAAGTAATATATATAACAA-CATAT
1 AAATAAAATAAAT-AAAAAAGT-ATATATATAACAATAAAAT
* * *
394910 AAACAAAAT-ATTAGAGAAAA-TA-ATA-ATAATAATAATAAAT
1 AAATAAAATAAATA-A-AAAAGTATATATATAACAAT-A-AAAT
394950 AAATAAAATAAATAATAAAAGTATATATATAA-AATAAAAT
1 AAATAAAATAAATAA-AAAAGTATATATATAACAATAAAAT
394990 A
1 A
394991 TTAGGAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
37 6 0.09
38 3 0.05
39 2 0.03
40 25 0.39
41 18 0.28
42 6 0.09
43 4 0.06
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.25
Consensus pattern (40 bp):
AAATAAAATAAATAAAAAAGTATATATATAACAATAAAAT
Found at i:395777 original size:32 final size:33
Alignment explanation
Indices: 395736--395813 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
395726 TTTAAATAGT
* *
395736 TATTATTTTTTA-TATTAAT-ATATTTATGTAAA
1 TATTATTTTTTATTA-AAATAATATTTATATAAA
*
395768 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATTAAAATAATATTTATATAAA
395801 TATTATTTATTTA
1 TATTATTT-TTTA
395814 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.38
33 21 0.52
34 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATTATTTTTTATTAAAATAATATTTATATAAA
Found at i:397567 original size:21 final size:21
Alignment explanation
Indices: 397537--397584 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
397527 GTAGGGGTAC
* *
397537 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
397558 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
397579 ATGCCA
1 ATGCCA
397585 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:397614 original size:21 final size:21
Alignment explanation
Indices: 397588--397681 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
397578 TATGCCATCT
* *
397588 CCGCAGGGTTACATTCCAAGC
1 CCGCAGGGTTACATGCCTAGC
*
397609 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
397630 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
397651 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
397672 CCGCAGGGTT
1 CCGCAGGGTT
397682 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:397640 original size:42 final size:42
Alignment explanation
Indices: 397558--397675 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
397548 TCCACTTCAT
* * * *
397558 ATGCCAAGCCCACCAGTTTATATGCC-ATCTCCG-CAGGGTTAC
1 ATGCCAAGCCCGCCAGGTTACATGCCTAGC-CCGCCA-GGTTAC
* *
397600 ATTCCAAGCCCG-CAGGGTTACATTCCTAGCCCGCCAGGTTAC
1 ATGCCAAGCCCGCCA-GGTTACATGCCTAGCCCGCCAGGTTAC
*
397642 ATGCCTAGCCCGCCAGGTTACATGCCTAGCCCGC
1 ATGCCAAGCCCGCCAGGTTACATGCCTAGCCCGC
397676 AGGGTTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 55 0.87
43 6 0.10
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (42 bp):
ATGCCAAGCCCGCCAGGTTACATGCCTAGCCCGCCAGGTTAC
Found at i:398263 original size:33 final size:34
Alignment explanation
Indices: 398204--398300 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 34
398194 AAATGTTTTT
398204 AAAATAAAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
398238 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
398271 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
398301 CATTAAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:398307 original size:34 final size:33
Alignment explanation
Indices: 398202--398307 Score: 142
Period size: 34 Copynumber: 3.2 Consensus size: 33
398192 ATAAATGTTT
398202 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
398236 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
398268 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
398303 TTAAA
1 TTAAA
398308 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 34 0.54
35 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:398933 original size:128 final size:128
Alignment explanation
Indices: 398701--399456 Score: 1381
Period size: 128 Copynumber: 5.9 Consensus size: 128
398691 TTACCTTATT
398701 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
398766 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGAGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
*
398829 TACTGATATTTCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
398894 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
398957 TACTGATATATCTAATGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
399022 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
399085 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
399150 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
399213 TACTGATATATCTAGTGTTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
399278 TGACGAAATAATAGAAGGCGCGCCCCCGGGAACGCGCATTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
399341 TACTGATATATCTAG-GTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
399405 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
399457 ACTCCGATTA
Statistics
Matches: 609, Mismatches: 18, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
127 99 0.16
128 510 0.84
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:404604 original size:21 final size:21
Alignment explanation
Indices: 404574--404744 Score: 156
Period size: 21 Copynumber: 8.2 Consensus size: 21
404564 GATTTACATA
* *
404574 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
404595 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
404616 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
404635 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
404658 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
404677 TTTGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
404700 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
404719 TTCGAGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
404740 TTCGC
1 TTCGC
404745 AACGACTGGT
Statistics
Matches: 120, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
19 33 0.28
21 70 0.58
23 17 0.14
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:404656 original size:42 final size:42
Alignment explanation
Indices: 404580--404731 Score: 254
Period size: 42 Copynumber: 3.7 Consensus size: 42
404570 CATATTCGCA
*
404580 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
404620 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
404662 TTGCGATAGTCCAAGTTTGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
404704 TTGCGATAGTCCAAGTTCGAGTTGCGAT
1 TTGCGATAGTCCAAGTTCGCGTTGCGAT
404732 AGTCCAAGTT
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
40 27 0.25
41 2 0.02
42 77 0.73
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:405374 original size:6 final size:6
Alignment explanation
Indices: 405363--405405 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
405353 TCGTCTCGTC
405363 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
405406 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:405552 original size:42 final size:41
Alignment explanation
Indices: 405492--405759 Score: 317
Period size: 42 Copynumber: 6.7 Consensus size: 41
405482 AGTCGTTACG
*
405492 TCGCAACGAATTTGGAATAAATCGTAACGCGAACTTTGACTA
1 TCGCAACGAATTTGGAATAAATCGCAACGCG-ACTTTGACTA
* *
405534 CCGCAACGAACTTGGAATAAATCGCAA---G-----GACTA
1 TCGCAACGAATTTGGAATAAATCGCAACGCGACTTTGACTA
*
405567 TCGCAACGAATTTGGAATAAATCGCAA--CGATTTTGGACTA
1 TCGCAACGAATTTGGAATAAATCGCAACGCGACTTT-GACTA
* * *
405607 TCGCAACGAATTTCGAATAAATCGCAA--CGATTTTGGACCA
1 TCGCAACGAATTTGGAATAAATCGCAACGCGACTTT-GACTA
*
405647 TCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTA
1 TCGCAACGAATTTGGAATAAATCGCAACGCG-ACTTTGACTA
* *
405689 TCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTA
1 TCGCAACGAATTTGGAATAAATCGCAACGCG-ACTTTGACTA
405731 TCGCAACGAATTTGGAATAAATCGCAACG
1 TCGCAACGAATTTGGAATAAATCGCAACG
405760 AATTTGGAAT
Statistics
Matches: 202, Mismatches: 14, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
33 30 0.15
34 1 0.00
39 1 0.00
40 69 0.34
42 98 0.49
43 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
TCGCAACGAATTTGGAATAAATCGCAACGCGACTTTGACTA
Found at i:405559 original size:21 final size:21
Alignment explanation
Indices: 405492--405560 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
405482 AGTCGTTACG
*
405492 TCGCAACGAATTTGGAATAAA
1 TCGCAACGAACTTGGAATAAA
* * *
405513 TCGTAACGCGAACTTTGACT--A
1 TCGCAA--CGAACTTGGAATAAA
*
405534 CCGCAACGAACTTGGAATAAA
1 TCGCAACGAACTTGGAATAAA
405555 TCGCAA
1 TCGCAA
405561 GGACTATCGC
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
19 10 0.29
21 16 0.46
23 9 0.26
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (21 bp):
TCGCAACGAACTTGGAATAAA
Found at i:405592 original size:21 final size:21
Alignment explanation
Indices: 405566--405810 Score: 231
Period size: 21 Copynumber: 11.9 Consensus size: 21
405556 CGCAAGGACT
405566 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
405587 ATCGCAACGATTTTGGACT--
1 ATCGCAACGAATTTGGAATAA
*
405606 ATCGCAACGAATTTCGAATAA
1 ATCGCAACGAATTTGGAATAA
* **
405627 ATCGCAACGATTTTGG-A-CC
1 ATCGCAACGAATTTGGAATAA
405646 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
405667 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
405688 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
405709 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
405730 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
405751 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
405772 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
405793 ATCGCAACGAATTTGGAA
1 ATCGCAACGAATTTGGAA
405811 AATCGTAATG
Statistics
Matches: 184, Mismatches: 26, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
19 59 0.32
20 2 0.01
21 94 0.51
23 29 0.16
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:405616 original size:40 final size:40
Alignment explanation
Indices: 405561--405767 Score: 306
Period size: 40 Copynumber: 5.1 Consensus size: 40
405551 TAAATCGCAA
*
405561 GGACTATCGCAACGAATTTGGAATAAATCGCAACGATTTT
1 GGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTT
* *
405601 GGACTATCGCAACGAATTTCGAATAAATCGCAACGATTTT
1 GGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTT
* *
405641 GGACCATCGCAACGAATTTGGAATAAATCGCAACGCGAACTT
1 GGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAATTT
* * *
405683 CGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTT
1 GGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAATTT
405725 GGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTT
1 GGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTT
405765 GGA
1 GGA
405768 ATAAATCGCA
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 79 0.51
42 75 0.49
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
GGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTT
Found at i:405776 original size:42 final size:40
Alignment explanation
Indices: 405565--405815 Score: 272
Period size: 42 Copynumber: 6.1 Consensus size: 40
405555 TCGCAAGGAC
* *
405565 TATCGCAACGAATTTGGAATAAATCGCAACGATTTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAA
* * *
405605 TATCGCAACGAATTTCGAATAAATCGCAACGATTTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAA
* * * *
405645 CATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 TATCGCAACGAATTTGGAATAAATCGCAA--CGAATTTGGAA
* * *
405687 TATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAA--CGAATTTGGAA
405729 TATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAA
1 TATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAA
* * *
405769 TAAATCGCAACGCGAACTTCGACT--ATCGCAACGAATTTGGAA
1 T--ATCGCAA--CGAATTTGGAATAAATCGCAACGAATTTGGAA
*
405811 AATCG
1 TATCG
405816 TAATGCGAAC
Statistics
Matches: 189, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
40 80 0.42
42 100 0.53
44 9 0.05
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
TATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAA
Found at i:405825 original size:40 final size:42
Alignment explanation
Indices: 405751--405841 Score: 150
Period size: 40 Copynumber: 2.2 Consensus size: 42
405741 TTTGGAATAA
405751 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
* *
405793 ATCGCAACGAATTTGG-A-AAATCGTAATGCGAACTTCGACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
405833 ATCGCAACG
1 ATCGCAACG
405842 CGAACTTGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 30 0.64
41 1 0.02
42 16 0.34
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:405836 original size:21 final size:21
Alignment explanation
Indices: 405667--405862 Score: 111
Period size: 21 Copynumber: 9.4 Consensus size: 21
405657 TTTGGAATAA
*
405667 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
405688 ATCGCAA--CGAACTTGGAAT
1 ATCGCAATGCGAACTTCGACT
* *
405707 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAATGCGAACTTCGACT
* * *
405730 ATCGCAA--CGAATTTGGAAT
1 ATCGCAATGCGAACTTCGACT
* * *
405749 AAATCGCAA--CGAATTTGGAAT
1 --ATCGCAATGCGAACTTCGACT
*
405770 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAATGCGAACTTCGACT
* * **
405793 ATCGCAA--CGAATTTGGAAA
1 ATCGCAATGCGAACTTCGACT
*
405812 ATCGTAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
405833 ATCGCAACGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
405854 ATCGCAATG
1 ATCGCAATG
405863 TGAATATTTA
Statistics
Matches: 144, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
19 34 0.24
21 90 0.62
23 20 0.14
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:408707 original size:3 final size:3
Alignment explanation
Indices: 408699--408746 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
408689 GTAATTAAGT
* *
408699 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA CAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
408745 TA
1 TA
408747 TATTTTTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:409669 original size:25 final size:25
Alignment explanation
Indices: 409576--409680 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 25
409566 TCTTCTATTT
409576 ATTTAAATTTA-AATAAATA-TATAA
1 ATTTAAATTTATAA-AAATATTATAA
*
409600 ATTTAAACTTATAAAAATATTATTAA
1 ATTTAAATTTATAAAAATATTA-TAA
* ** **
409626 TTTTAAATCGAGTGCAAATA-TATAA
1 ATTTAAATTTA-TAAAAATATTATAA
*
409651 ATTTAAATTTATAAAAAATATTATTA
1 ATTTAAATTTAT-AAAAATATTATAA
409677 ATTT
1 ATTT
409681 TAAGATTTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
24 16 0.26
25 20 0.32
26 20 0.32
27 6 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (25 bp):
ATTTAAATTTATAAAAATATTATAA
Found at i:411168 original size:73 final size:73
Alignment explanation
Indices: 411045--411184 Score: 201
Period size: 73 Copynumber: 1.9 Consensus size: 73
411035 TTAAGTTTAT
* * ** *
411045 TAATTAAAAAAGATTTTTAAACATATTTGTTTATTTTAAATACTTGAAAATATGGTAATTTAGTG
1 TAATTAAAAAAGATTTTTAAACATATTTGTTTATTTAAAAAACTCAAAAATATAGTAATTTAGTG
411110 GGCCTCAA
66 GGCCTCAA
* *
411118 TAATTAAAAAATATTTTTAAATATCATTT-TTTATTTAAAAAACTCAAAAATATAGTAATTTAGT
1 TAATTAAAAAAGATTTTTAAACAT-ATTTGTTTATTTAAAAAACTCAAAAATATAGTAATTTAGT
411182 GGG
65 GGG
411185 GCCCCATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 55 0.93
74 4 0.07
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (73 bp):
TAATTAAAAAAGATTTTTAAACATATTTGTTTATTTAAAAAACTCAAAAATATAGTAATTTAGTG
GGCCTCAA
Found at i:411349 original size:2 final size:2
Alignment explanation
Indices: 411342--411374 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
411332 TTCAATTTAG
411342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
411375 TTTACGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:411691 original size:2 final size:2
Alignment explanation
Indices: 411684--411732 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
411674 AGGTAATCAA
411684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
411726 AT AT AT A
1 AT AT AT A
411733 AAGAAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:419611 original size:23 final size:23
Alignment explanation
Indices: 419585--419674 Score: 117
Period size: 23 Copynumber: 3.9 Consensus size: 23
419575 CCTAAATATA
*
419585 TAAACGAACATATTCGCAAACGC
1 TAAACGAACATATTCACAAACGC
*
419608 TAAACGAACATATTCGCAAACGC
1 TAAACGAACATATTCACAAACGC
* * *
419631 TAAATGAACATATTCACGAACGT
1 TAAACGAACATATTCACAAACGC
* *
419654 TAAACAAACATAGTCACAAAC
1 TAAACGAACATATTCACAAAC
419675 ACCTTTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (23 bp):
TAAACGAACATATTCACAAACGC
Found at i:427878 original size:61 final size:58
Alignment explanation
Indices: 427715--427886 Score: 204
Period size: 60 Copynumber: 2.9 Consensus size: 58
427705 AATATCATCT
* *
427715 TTATTCTAAATTGGT-CTCTAAACTTTTAAATATTCTAATTTCATCCTCAAACTATGATAC
1 TTATTCTAAATTGGTCCT-TAAACTTTT-AATCTTCCAATTTCATCCTCAAACTA-GATAC
* *
427775 TTATTCTAAATTTGTCCTTAAACTTTTGAATCTTCCAATTTCATTCTCAAACTA-ATACCC
1 TTATTCTAAATTGGTCCTTAAACTTTT-AATCTTCCAATTTCATCCTCAAACTAGATA--C
* *
427835 TTATTCTAAATTGGGTCCTTAAACTTTTAAGCCTTCCAATTTCATCCCCAAA
1 TTATTCTAAATT-GGTCCTTAAACTTTTAA-TCTTCCAATTTCATCCTCAAA
427887 TTCATCCAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
58 3 0.03
60 61 0.62
61 34 0.35
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (58 bp):
TTATTCTAAATTGGTCCTTAAACTTTTAATCTTCCAATTTCATCCTCAAACTAGATAC
Found at i:429583 original size:10 final size:10
Alignment explanation
Indices: 429568--429597 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
429558 GGGTCTCCAA
429568 CGTTTATGTT
1 CGTTTATGTT
429578 CGTTTATGTT
1 CGTTTATGTT
429588 CGTTTATGTT
1 CGTTTATGTT
429598 TTAAATGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.60
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:431451 original size:15 final size:16
Alignment explanation
Indices: 431423--431452 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
431413 GGGAATGTAA
431423 GATTACTAGGGAATAG
1 GATTACTAGGGAATAG
431439 GATTACT-GGGAATA
1 GATTACTAGGGAATA
431453 TTGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.27
Consensus pattern (16 bp):
GATTACTAGGGAATAG
Found at i:431662 original size:37 final size:37
Alignment explanation
Indices: 431589--431663 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
431579 TTGCAAAAAT
* *
431589 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
431626 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
431663 A
1 A
431664 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:431907 original size:15 final size:15
Alignment explanation
Indices: 431883--431919 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
431873 AAGGAAATGG
*
431883 AGGTATTGACATTCC
1 AGGTAATGACATTCC
431898 AGGTAATGACATTCC
1 AGGTAATGACATTCC
*
431913 CGGTAAT
1 AGGTAAT
431920 ATACCCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (15 bp):
AGGTAATGACATTCC
Found at i:432802 original size:86 final size:86
Alignment explanation
Indices: 432665--432831 Score: 316
Period size: 86 Copynumber: 1.9 Consensus size: 86
432655 AACATTCAGT
* *
432665 GTTGAATGATTCCATTCAGAGCCAAACAAACAGCCCCTAAGTTTTGCAAATGTGAAAATCATGCT
1 GTTGAATGATTCCATTCAGAGCCAAACAAACAACCCCTAAATTTTGCAAATGTGAAAATCATGCT
432730 TCAAATGCAATACCATTCAAC
66 TCAAATGCAATACCATTCAAC
432751 GTTGAATGATTCCATTCAGAGCCAAACAAACAACCCCTAAATTTTGCAAATGTGAAAATCATGCT
1 GTTGAATGATTCCATTCAGAGCCAAACAAACAACCCCTAAATTTTGCAAATGTGAAAATCATGCT
432816 TCAAATGCAATACCAT
66 TCAAATGCAATACCAT
432832 CCATAAACTC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (86 bp):
GTTGAATGATTCCATTCAGAGCCAAACAAACAACCCCTAAATTTTGCAAATGTGAAAATCATGCT
TCAAATGCAATACCATTCAAC
Found at i:441925 original size:41 final size:41
Alignment explanation
Indices: 441878--442066 Score: 220
Period size: 41 Copynumber: 4.6 Consensus size: 41
441868 CCATTCATGG
441878 TGAATTTCACTTCAGATTATCAGTGGATTCACCCTTCGAGA
1 TGAATTTCACTTCAGATTATCAGTGGATTCACCCTTCGAGA
* * * * * *
441919 TAAATTTCACTTTAGATTATAAATGGATTCACCCTTTGGGA
1 TGAATTTCACTTCAGATTATCAGTGGATTCACCCTTCGAGA
* *
441960 TGAATTTCACTTTAGAATATCAGTGGATTCACCCTTC-AGGA
1 TGAATTTCACTTCAGATTATCAGTGGATTCACCCTTCGA-GA
* * * *
442001 TGAATTTCACTTCGGAATAAT-AGTGGATTCACCATTCAAGA
1 TGAATTTCACTTCAG-ATTATCAGTGGATTCACCCTTCGAGA
* *
442042 TGAATTTGACTTCGGATTATCAGTG
1 TGAATTTCACTTCAGATTATCAGTG
442067 CCTCCTCCCT
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
40 4 0.03
41 117 0.94
42 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (41 bp):
TGAATTTCACTTCAGATTATCAGTGGATTCACCCTTCGAGA
Found at i:444365 original size:40 final size:42
Alignment explanation
Indices: 444321--444452 Score: 110
Period size: 42 Copynumber: 3.2 Consensus size: 42
444311 CTATTCATAA
444321 TTGTGA-TGAA-AACATTTTGTCACTACTCTTAATTGGTGAT
1 TTGTGACTGAATAACATTTTGTCACTACTCTTAATTGGTGAT
* * ** * *
444361 TTGTGACGTTAATTATTTTTTGTCACTAGTCTTAGTTGGTGAT
1 TTGTGAC-TGAATAACATTTTGTCACTACTCTTAATTGGTGAT
** * * *
444404 TTGTGAC--AATAATTGTTTTTGTCATTAGTCTTAGTTGGTGAT
1 TTGTGACTGAATAA--CATTTTGTCACTACTCTTAATTGGTGAT
444446 TTGTGAC
1 TTGTGAC
444453 GACAATAGTT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
40 10 0.13
42 36 0.46
43 32 0.41
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (42 bp):
TTGTGACTGAATAACATTTTGTCACTACTCTTAATTGGTGAT
Found at i:444383 original size:43 final size:42
Alignment explanation
Indices: 444335--444465 Score: 181
Period size: 42 Copynumber: 3.1 Consensus size: 42
444325 GATGAAAACA
* * * *
444335 TTTTGTCACTACTCTTAATTGGTGATTTGTGACGTTAATTATT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATT-GT
*
444378 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACAATAATTGT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTGT
* * *
444420 TTTTGTCATTAGTCTTAGTTGGTGATTTGTGACGACAATAGT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTGT
444462 TTTT
1 TTTT
444466 TATCACTATT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 43 0.54
43 36 0.46
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.50
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTGT
Found at i:445567 original size:12 final size:12
Alignment explanation
Indices: 445550--445617 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 12
445540 ATTATACGGT
*
445550 GTGAACAGTACC
1 GTGAACAATACC
445562 GTGAACAATA--
1 GTGAACAATACC
* *
445572 ATGAACAATATC
1 GTGAACAATACC
445584 GTGAACAATA--
1 GTGAACAATACC
* *
445594 ATGAACAGTACC
1 GTGAACAATACC
*
445606 GTGAACAGTACC
1 GTGAACAATACC
445618 AAATGCTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 17 0.37
12 29 0.63
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (12 bp):
GTGAACAATACC
Found at i:445576 original size:22 final size:22
Alignment explanation
Indices: 445551--445612 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
445541 TTATACGGTG
445551 TGAACAGTACCGTGAACAATAA
1 TGAACAGTACCGTGAACAATAA
* *
445573 TGAACAATATCGTGAACAATAA
1 TGAACAGTACCGTGAACAATAA
445595 TGAACAGTACCGTGAACA
1 TGAACAGTACCGTGAACA
445613 GTACCAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (22 bp):
TGAACAGTACCGTGAACAATAA
Found at i:448924 original size:23 final size:23
Alignment explanation
Indices: 448892--448937 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
448882 CTAGTCACTG
*
448892 ACCCGGTATTGAGGATGTTACAA
1 ACCCGATATTGAGGATGTTACAA
448915 ACCCGATATTGAGGATGTTACAA
1 ACCCGATATTGAGGATGTTACAA
448938 TAATTGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (23 bp):
ACCCGATATTGAGGATGTTACAA
Found at i:459050 original size:43 final size:42
Alignment explanation
Indices: 458981--459405 Score: 277
Period size: 43 Copynumber: 9.9 Consensus size: 42
458971 ATTTTATGAA
* *
458981 ATTGTAAAAAATTAGAGGCCTTAATTATAAAGGTAGAAATTGAG
1 ATTG-AAAAAATTAG-GGCCTCAATTATAAAGGTAGAAAGTGAG
* * * * * *
459025 ATTGAAAAAAATAGGGATCTCAATTACAAAGGTA-TAATTAAG
1 ATTGAAAAAATTAGGG-CCTCAATTATAAAGGTAGAAAGTGAG
* ** * * *
459067 ATAGAAAATTCTTAGGGGCCTCAATTAGAAAGTTAGAAAGTGAT
1 ATTGAAAA-AATTA-GGGCCTCAATTATAAAGGTAGAAAGTGAG
* * * *
459111 ATTAAAAAAACTTAAGGGCCTCAATTATGAAGTTAAAAAAGTGAG
1 ATTGAAAAAA-TT-AGGGCCTCAATTATAAAGGT-AGAAAGTGAG
* * *
459156 ATTAAAAAAATTAGGGGCATCAATTATAAAGGTAGAAATTGAG
1 ATTGAAAAAATTA-GGGCCTCAATTATAAAGGTAGAAAGTGAG
* *
459199 ATTGAAAAAACTTAGAGCCTTAATTGA-AAAGGTAGAAAGTGAG
1 ATTGAAAAAA-TTAGGGCCTCAATT-ATAAAGGTAGAAAGTGAG
** * *
459242 ATTGAAAAAACTTAAAAGTCTCAATTATAAAGTTA-AAAGTGAG
1 ATTGAAAAAA-TT-AGGGCCTCAATTATAAAGGTAGAAAGTGAG
* * * * * *
459285 ACT-ATAGAATTAGGGGCCTCAATTATAAAGGAAAAAAG-GGG
1 ATTGAAAAAATTA-GGGCCTCAATTATAAAGGTAGAAAGTGAG
* * *** * * *
459326 ATTAAAAAAAATAGAGATTTCAATTATAAAGATAAAAAGTTAG
1 ATTGAAAAAATTAG-GGCCTCAATTATAAAGGTAGAAAGTGAG
* *
459369 ATTGAATAATATTAGGTCCTCAATTATAAAGGT-GAAA
1 ATTGAA-AAAATTAGGGCCTCAATTATAAAGGTAGAAA
459406 AATAAGATTT
Statistics
Matches: 296, Mismatches: 67, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
40 1 0.00
41 22 0.07
42 51 0.17
43 124 0.42
44 79 0.27
45 19 0.06
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (42 bp):
ATTGAAAAAATTAGGGCCTCAATTATAAAGGTAGAAAGTGAG
Found at i:459180 original size:131 final size:128
Alignment explanation
Indices: 458998--459315 Score: 329
Period size: 131 Copynumber: 2.4 Consensus size: 128
458988 AAAATTAGAG
* * * * * *
458998 GCCTTAATTATAAAGGTAGAAATTGAGATTGAAAAAAA-TAGGGATCTCAATTACAAAGGTA-TA
1 GCCTCAATTATAAAGTTA-AAAGTGAGATT-AAAAAAATTAGGG-GCTCAATTATAAAGGTAGAA
** * * *
459061 ATTAAGATAGAAAATTCTTAGGGGCCTCAATT-AGAAAGTTAGAAAGTGATATTAAAAAAACTTA
63 ATTAAGATAGAAAAAACTTA-GAGCCTCAATTGA-AAAGGTAGAAAGTGAGATTAAAAAAACTTA
**
459125 AGG
126 AAA
*
459128 GCCTCAATTATGAAGTTAAAAAAGTGAGATTAAAAAAATTAGGGGCATCAATTATAAAGGTAGAA
1 GCCTCAATTATAAAGTT--AAAAGTGAGATTAAAAAAATTAGGGGC-TCAATTATAAAGGTAGAA
* * * *
459193 ATTGAGATTGAAAAAACTTAGAGCCTTAATTGAAAAGGTAGAAAGTGAGATTGAAAAAACTTAAA
63 ATTAAGATAGAAAAAACTTAGAGCCTCAATTGAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAA
459258 A
128 A
* * * *
459259 GTCTCAATTATAAAGTTAAAAGTGAGACT-ATAGAATTAGGGGCCTCAATTATAAAGG
1 GCCTCAATTATAAAGTTAAAAGTGAGATTAAAAAAATTAGGGG-CTCAATTATAAAGG
459316 AAAAAAGGGG
Statistics
Matches: 158, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
128 24 0.15
129 12 0.08
130 22 0.14
131 81 0.51
132 19 0.12
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (128 bp):
GCCTCAATTATAAAGTTAAAAGTGAGATTAAAAAAATTAGGGGCTCAATTATAAAGGTAGAAATT
AAGATAGAAAAAACTTAGAGCCTCAATTGAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAAA
Found at i:464020 original size:17 final size:17
Alignment explanation
Indices: 463998--464031 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
463988 AGCAGGGTAA
463998 ACATACCTGAAAAGAGC
1 ACATACCTGAAAAGAGC
464015 ACATACCTGAAAAGAGC
1 ACATACCTGAAAAGAGC
464032 GAAGCCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (17 bp):
ACATACCTGAAAAGAGC
Found at i:466272 original size:30 final size:30
Alignment explanation
Indices: 466238--466305 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
466228 TGTTTGTAAC
466238 AATATTTGAATTGAGTGACTTGATTGAAAT
1 AATATTTGAATTGAGTGACTTGATTGAAAT
466268 AATATTTGAATTGAGTGACTTGATTGAAAT
1 AATATTTGAATTGAGTGACTTGATTGAAAT
466298 AATATTTG
1 AATATTTG
466306 TTACAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (30 bp):
AATATTTGAATTGAGTGACTTGATTGAAAT
Found at i:469746 original size:32 final size:32
Alignment explanation
Indices: 469718--469800 Score: 157
Period size: 32 Copynumber: 2.6 Consensus size: 32
469708 GCATGTCAAT
469718 GTTGCATTTAGATAATGCACAATAATGTCAGG
1 GTTGCATTTAGATAATGCACAATAATGTCAGG
*
469750 GTTGCATTTAGATAATGCACAATAGTGTCAGG
1 GTTGCATTTAGATAATGCACAATAATGTCAGG
469782 GTTGCATTTAGATAATGCA
1 GTTGCATTTAGATAATGCA
469801 TAACAATTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (32 bp):
GTTGCATTTAGATAATGCACAATAATGTCAGG
Found at i:470659 original size:18 final size:18
Alignment explanation
Indices: 470636--470681 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
470626 CAAAATATGG
* *
470636 AAAATGTAGGGATCCTTA
1 AAAATGTAGGAATCCCTA
*
470654 AAAATGTATGAATCCCTA
1 AAAATGTAGGAATCCCTA
470672 AAAATGTAGG
1 AAAATGTAGG
470682 CATCAAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (18 bp):
AAAATGTAGGAATCCCTA
Found at i:476062 original size:13 final size:13
Alignment explanation
Indices: 476044--476068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
476034 GAACAATTGA
476044 ACCATAAGTAGGT
1 ACCATAAGTAGGT
476057 ACCATAAGTAGG
1 ACCATAAGTAGG
476069 CCAAAACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (13 bp):
ACCATAAGTAGGT
Found at i:477924 original size:23 final size:23
Alignment explanation
Indices: 477898--477971 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
477888 TACCCATTAT
477898 TTTTAGAAAATTATTAAATTTAG
1 TTTTAGAAAATTATTAAATTTAG
* * * * *
477921 TTTTTG-TAATTGTATACCCA-TTAT
1 TTTTAGAAAATTAT-TA--AATTTAG
477945 TTTTAGAAAATTATTAAATTTAG
1 TTTTAGAAAATTATTAAATTTAG
477968 TTTT
1 TTTT
477972 TGTATAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
22 6 0.17
23 14 0.39
24 10 0.28
25 6 0.17
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTTAGAAAATTATTAAATTTAG
Found at i:477924 original size:24 final size:24
Alignment explanation
Indices: 477897--477972 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
477887 ATACCCATTA
477897 TTTTTAGAAAATTATTAAATTTAG
1 TTTTTAGAAAATTATTAAATTTAG
* * *
477921 TTTTT-G-TAATTGTATACCCA-TTA-
1 TTTTTAGAAAATTAT-TA--AATTTAG
477944 TTTTTAGAAAATTATTAAATTTAG
1 TTTTTAGAAAATTATTAAATTTAG
477968 TTTTT
1 TTTTT
477973 GTATAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 16 0.41
25 6 0.15
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTTTAGAAAATTATTAAATTTAG
Found at i:477948 original size:47 final size:47
Alignment explanation
Indices: 477879--477975 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
477869 GCGGAGGACA
477879 GTAATTGTATACCCATTATTTTTAGAAAATTATTAAATTTAGTTTTT
1 GTAATTGTATACCCATTATTTTTAGAAAATTATTAAATTTAGTTTTT
477926 GTAATTGTATACCCATTATTTTTAGAAAATTATTAAATTTAGTTTTT
1 GTAATTGTATACCCATTATTTTTAGAAAATTATTAAATTTAGTTTTT
477973 GTA
1 GTA
477976 TAATAAAGAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (47 bp):
GTAATTGTATACCCATTATTTTTAGAAAATTATTAAATTTAGTTTTT
Found at i:481711 original size:31 final size:31
Alignment explanation
Indices: 481669--481729 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
481659 GTAACTTTTA
* *
481669 ATAGTCGAGGGACTTAATAAAATAATACCCT
1 ATAGTCAAGGGACCTAATAAAATAATACCCT
* *
481700 ATAGTCAAGGGACCTAATAAAGTAGTACCC
1 ATAGTCAAGGGACCTAATAAAATAATACCC
481730 ACCAGTCAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (31 bp):
ATAGTCAAGGGACCTAATAAAATAATACCCT
Found at i:481743 original size:30 final size:31
Alignment explanation
Indices: 481671--481743 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
481661 AACTTTTAAT
* * *
481671 AGTCGAGGGACTTAATAAAATAATACCCTAT
1 AGTCAAGGGACCTAATAAAATAATACCCTAC
* *
481702 AGTCAAGGGACCTAATAAAGTAGTACCC-ACC
1 AGTCAAGGGACCTAATAAAATAATACCCTA-C
481733 AGTC-AGGGACC
1 AGTCAAGGGACC
481744 ATTGGTGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 8 0.22
31 28 0.78
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (31 bp):
AGTCAAGGGACCTAATAAAATAATACCCTAC
Done.