Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_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: 3811333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 18
Found at i:268351 original size:22 final size:22
Alignment explanation
Indices: 268320--268361 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
268310 ACTTGGGAAG
* *
268320 ATTTCTCCGTTCTCAAAGGTCA
1 ATTTCCCCGTTATCAAAGGTCA
*
268342 ATTTCCCCGTTATCCAAGGT
1 ATTTCCCCGTTATCAAAGGT
268362 GAGGGAGCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (22 bp):
ATTTCCCCGTTATCAAAGGTCA
Found at i:270848 original size:25 final size:25
Alignment explanation
Indices: 270815--270862 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
270805 ACTCTTAAAA
* *
270815 AGTTTAATAGATAAGGATAACTACT
1 AGTTAAATAGACAAGGATAACTACT
270840 AGTTAAATAGACAAGGATAACTA
1 AGTTAAATAGACAAGGATAACTA
270863 TTAGGTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (25 bp):
AGTTAAATAGACAAGGATAACTACT
Found at i:284727 original size:20 final size:21
Alignment explanation
Indices: 284683--284728 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
284673 ACGAGAGTTT
284683 AATTTTAAAAAAATATTTATG
1 AATTTTAAAAAAATATTTATG
284704 -ATTTTAAAAATAA-A-TTATG
1 AATTTTAAAAA-AATATTTATG
284723 AATTTT
1 AATTTT
284729 CATATACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
AATTTTAAAAAAATATTTATG
Found at i:298014 original size:2 final size:2
Alignment explanation
Indices: 298007--298033 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
297997 CATAGAGATA
298007 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
298034 TTGCCACCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:300023 original size:12 final size:13
Alignment explanation
Indices: 300001--300029 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
299991 CTTAATTGCG
300001 AAAATTTAAAATT
1 AAAATTTAAAATT
300014 AAAA-TTAAAATT
1 AAAATTTAAAATT
300026 AAAA
1 AAAA
300030 AAATCAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:301444 original size:2 final size:2
Alignment explanation
Indices: 301433--301465 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
301423 GATAATAATA
*
301433 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
301466 TTTCAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:301498 original size:25 final size:25
Alignment explanation
Indices: 301451--301498 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
301441 TATATATATA
301451 TATATATATAAATATTTTCAAAAAC
1 TATATATATAAATATTTTCAAAAAC
*
301476 TATATA-ATATATATTTTCAAAAA
1 TATATATATAAATATTTTCAAAAA
301499 TCATTTTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
TATATATATAAATATTTTCAAAAAC
Found at i:301518 original size:38 final size:37
Alignment explanation
Indices: 301471--301542 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
301461 AATATTTTCA
301471 AAAACTATATAATATATATTTTCAAAAATCATTTTGTG
1 AAAACTATATAATATATATTTTCAAAAA-CATTTTGTG
* * *
301509 AAAATTATATATTATATTTTTTCAAAAACATTTT
1 AAAACTATATAATATATATTTTCAAAAACATTTT
301543 CAAATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 6 0.19
38 25 0.81
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (37 bp):
AAAACTATATAATATATATTTTCAAAAACATTTTGTG
Found at i:301552 original size:36 final size:36
Alignment explanation
Indices: 301460--301553 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 36
301450 ATATATATAT
*
301460 AAAT-ATTTTCAAAAACTATATAATATATATTTTCAA
1 AAATCATTTTC-AAAATTATATAATATATATTTTCAA
* * *
301496 AAATCATTTTGTGAAAATTATATATTATATTTTTTCAA
1 AAATCA-TTT-TCAAAATTATATAATATATATTTTCAA
301534 AAA-CATTTTCAAATATTATA
1 AAATCATTTTCAAA-ATTATA
301554 CTATATTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 4 0.08
36 13 0.27
37 3 0.06
38 28 0.57
39 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (36 bp):
AAATCATTTTCAAAATTATATAATATATATTTTCAA
Found at i:302077 original size:85 final size:86
Alignment explanation
Indices: 301962--302173 Score: 259
Period size: 85 Copynumber: 2.5 Consensus size: 86
301952 AAAAGTCTCC
*** * *
301962 GTTGACAGATAGTTTTTCTCGA-CTTAAGCTATGCTGTGAATTTGACATGCCCT-TGAGCTGAAT
1 GTTGACAGATAGCCCTTCTC-ACCTTGAGCTATGCTGTAAATTTGACATG-CCTGTGAGCTGAAT
302025 GTAATCGAACTCGAAGGTAT-TT
64 GTAATCGAACTCGAAGGTATGTT
* * *
302047 GTTGACAGATAGCCCTTCTCACCTTGAGCTATGCTGTAAATTTGATATGCCTGTGAGGTGAGTGT
1 GTTGACAGATAGCCCTTCTCACCTTGAGCTATGCTGTAAATTTGACATGCCTGTGAGCTGAATGT
*
302112 AATCGAACTCGAAGGTCTGTT
66 AATCGAACTCGAAGGTATGTT
* * * * *
302133 GTTGGCAGATATCCCTTCTCGCCTCGAGCTATGCTGCAAAT
1 GTTGACAGATAGCCCTTCTCACCTTGAGCTATGCTGTAAAT
302174 GATGTGCATT
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
84 4 0.04
85 68 0.62
86 38 0.35
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (86 bp):
GTTGACAGATAGCCCTTCTCACCTTGAGCTATGCTGTAAATTTGACATGCCTGTGAGCTGAATGT
AATCGAACTCGAAGGTATGTT
Found at i:302327 original size:148 final size:149
Alignment explanation
Indices: 302057--302340 Score: 399
Period size: 148 Copynumber: 1.9 Consensus size: 149
302047 GTTGACAGAT
* * *
302057 AGCCCTTCTCACCTTGAGCTATGCTGTAAATTTGATATGCCTGTGAGGTGAGTGTAATCGAACTC
1 AGCCCTTCTCACCTTGAGCTATGCTGCAAA-TTAATATGCCTGTGAGCTGAGTGTAATCGAACTC
*
302122 GAAGGTCTGTTGTTGGCAGATATCCCTTCTCGCCTCGAGCTATGCTGCAAATGATGTGCATTTGA
65 GAAGGTCTGTTGTTGGCAGATAGCCCTTCTCGCCTCGAGCTATGCTGCAAATGATGTGCATTTGA
302187 GCTGAGCGAAATCGCATATA
130 GCTGAGCGAAATCGCATATA
** * *
302207 AGCCCTTCTCGTCTTGAGCTATGCTGCAAA-TAATGTGCCTTTGAGCTGAGTGTAATCGAACTCG
1 AGCCCTTCTCACCTTGAGCTATGCTGCAAATTAATATGCCTGTGAGCTGAGTGTAATCGAACTCG
* * * * ** * * *
302271 AAGGTTTTTTGTTGGCATATAGCTCTTCTCTTCTTGAGCTATGCTTCAAATGATGTGCCTTTGAG
66 AAGGTCTGTTGTTGGCAGATAGCCCTTCTCGCCTCGAGCTATGCTGCAAATGATGTGCATTTGAG
302336 CTGAG
131 CTGAG
302341 TGTAATCAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
148 90 0.77
150 27 0.23
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (149 bp):
AGCCCTTCTCACCTTGAGCTATGCTGCAAATTAATATGCCTGTGAGCTGAGTGTAATCGAACTCG
AAGGTCTGTTGTTGGCAGATAGCCCTTCTCGCCTCGAGCTATGCTGCAAATGATGTGCATTTGAG
CTGAGCGAAATCGCATATA
Found at i:302353 original size:84 final size:84
Alignment explanation
Indices: 302207--303376 Score: 1326
Period size: 84 Copynumber: 14.0 Consensus size: 84
302197 ATCGCATATA
* * * *
302207 AGCCCTTCTCGTCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* *
302272 AGGTTTTTTGTTGGCATAT
66 AGGTCTTTTGTTGGCAGAT
* ** * *
302291 AGCTCTTCTCTTCTTGAGCTATGCTTCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
302356 AGGTCTTTTGTTGGCAGAT
66 AGGTCTTTTGTTGGCAGAT
* * * * * **
302375 AGCTCTTCTAGCCTTGAGCTATG-TTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTT
1 AGCCCTTCTCGCCTTGAGCTATGCTT-CAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
302439 AAGGTCTTTTGTTGGCAGAT
65 AAGGTCTTTTGTTGGCAGAT
* * * * * * *
302459 TGCCCTTCTCGCCTTAAGCTATACTGCAAATGATACGCCTTTGAGTTGAGTGTAATCGAACTCAA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
302524 AGGTCTTTTGTTGGCAGAT
66 AGGTCTTTTGTTGGCAGAT
* * * * *
302543 AACCCTTCTCGCCTTGAGCCATGCTGCAAATGATGCGCATTTGAGCTTAGTGTAATCGAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* *
302608 AGGTC-TTGGTTGACAGAT
66 AGGTCTTTTGTTGGCAGAT
* * * * * * *
302626 A-ACCTTGTCGCATTGAGTTATACTGT-AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCG
1 AGCCCTTCTCGCCTTGAGCTATGCT-TCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
302689 AAGGT-TTTGTGTTGGCAGAT
65 AAGGTCTTT-TGTTGGCAGAT
* * * *
302709 AGCCCTTCTCGCCTTGAGCTTTG-TTGCAAATAATGCGCCTTTGAGCTGAGTGTAATTGAACTTG
1 AGCCCTTCTCGCCTTGAGCTATGCTT-CAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
*
302773 AAGGTCTTTTGTTGGAAGAT
65 AAGGTCTTTTGTTGGCAGAT
* * * * *
302793 ATCCCTTCTCACCTTGAGCTATGCTGCAAATAATGCGCCTTTGAGCTGAGTGTAATCGAACTCAA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * *
302858 AAGTC-TTGGTTGACATAT
66 AGGTCTTTTGTTGGCAGAT
* * * * * *
302876 AACCCTTATCGCCTTGAGTTATGCTGT-AAATAATGTGCCTTTGAACTGAGTGTAATCGAACTCG
1 AGCCCTTCTCGCCTTGAGCTATGCT-TCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
*
302940 AAGGTCTTTTATTGGCAGAT
65 AAGGTCTTTTGTTGGCAGAT
* *
302960 AGCCCTTCTCGCCTTGAGCTATGCTGT-AAATGATGCGCCTTTGAGCTTAGTGTAATTGAACTCG
1 AGCCCTTCTCGCCTTGAGCTATGCT-TCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
* **
303024 AAGGTC-TTGGTTGATAGAT
65 AAGGTCTTTTGTTGGCAGAT
* * * * *
303043 AACCCTTCTCGCCCTGAGTTATGCTGT-AAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCG
1 AGCCCTTCTCGCCTTGAGCTATGCT-TCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
* *
303107 AAGGTCATTTT-TTGGTAGAA
65 AAGGTC-TTTTGTTGGCAGAT
* * * * *
303127 AACCCTTCTCGCCTTGAGTTATGCTACAAA-GATGCACCTTTGAGCTGAGTGTAATCAAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* *
303191 AGGTC-TTGGTTGACAGAT
66 AGGTCTTTTGTTGGCAGAT
* * * * * * *
303209 AACCCTTCTCGCCCTGAGTTATG-TTATAAATGATGTGCCTTTAAGCTGACTGTAATCGAACTCG
1 AGCCCTTCTCGCCTTGAGCTATGCTT-CAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCG
*
303273 AAGGTCTTTTGTTTGCAGAT
65 AAGGTCTTTTGTTGGCAGAT
* * * *
303293 AGCCATTCTCACCTTGAGCTATGCTGCAAATGATGCACCTTTGAGCTGAGTGTAATCGAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
*
303358 AGGTCTTTTGTTGACAGAT
66 AGGTCTTTTGTTGGCAGAT
303377 GCTTTTGAAT
Statistics
Matches: 922, Mismatches: 144, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
81 3 0.00
82 89 0.10
83 235 0.25
84 587 0.64
85 8 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (84 bp):
AGCCCTTCTCGCCTTGAGCTATGCTTCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
AGGTCTTTTGTTGGCAGAT
Found at i:302761 original size:250 final size:252
Alignment explanation
Indices: 302207--303376 Score: 1501
Period size: 250 Copynumber: 4.7 Consensus size: 252
302197 ATCGCATATA
* * *
302207 AGCCCTTCTCGTCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * * ** * *
302272 AGGTTTTTTGTTGGCATATAGCTCTTCTCTTCTTGAGCTATGCTTCAAATGATGTGCCTTTGAGC
66 AGGTCTTTTGTTGGCAGATAACCCTTCTCACCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC
* * * * * * *
302337 TGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGATAGCTCTTCTAGCCTTGAGCTATGTTGT
131 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
**
302402 AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTTAAGGTCTTTTGTTGGCAGAT
196 AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGAT
* * * * * *
302459 TGCCCTTCTCGCCTTAAGCTATACTGCAAATGATACGCCTTTGAGTTGAGTGTAATCGAACTCAA
1 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * *
302524 AGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCCATGCTGCAAATGATGCGCATTTGAGC
66 AGGTCTTTTGTTGGCAGATAACCCTTCTCACCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC
* * * * *
302589 TTAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAA-CCTTGTCGCATTGAGTTATACTGT
131 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
302652 AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGT-TTTGTGTTGGCAGAT
196 AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTT-TGTTGGCAGAT
* * * * *
302709 AGCCCTTCTCGCCTTGAGCTTTGTTGCAAATAATGCGCCTTTGAGCTGAGTGTAATTGAACTTGA
1 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * *
302774 AGGTCTTTTGTTGGAAGATATCCCTTCTCACCTTGAGCTATGCTGCAAATAATGCGCCTTTGAGC
66 AGGTCTTTTGTTGGCAGATAACCCTTCTCACCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC
* * * * *
302839 TGAGTGTAATCGAACTCAAAAGTC-TTGGTTGACATATAACCCTTATCGCCTTGAGTTATGCTGT
131 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
* * * *
302903 AAATAATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGAT
196 AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGAT
* * *
302960 AGCCCTTCTCGCCTTGAGCTATGCTGTAAATGATGCGCCTTTGAGCTTAGTGTAATTGAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* ** * * * * * *
303025 AGGTC-TTGGTTGATAGATAACCCTTCTCGCCCTGAGTTATGCTGTAAATGATGTGCCTTTGAGT
66 AGGTCTTTTGTTGGCAGATAACCCTTCTCACCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC
** * *
303089 TGAGTGTAATCGAACTCGAAGGTCATTTT-TTGGTAGAAAACCCTTCTCGCCTTGAGTTATGCTA
131 TGAGTGTAATCGAACTCGAAGGTC-TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTG
* ** * *
303153 CAAA-GATGCACCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC-TTGGTTGACAGAT
195 TAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGAT
* * * * ** * * *
303209 AACCCTTCTCGCCCTGAGTTATGTTATAAATGATGTGCCTTTAAGCTGACTGTAATCGAACTCGA
1 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * *
303274 AGGTCTTTTGTTTGCAGATAGCCATTCTCACCTTGAGCTATGCTGCAAATGATGCACCTTTGAGC
66 AGGTCTTTTGTTGGCAGATAACCCTTCTCACCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC
303339 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGAT
131 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGAT
303377 GCTTTTGAAT
Statistics
Matches: 789, Mismatches: 122, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
249 77 0.10
250 396 0.50
251 178 0.23
252 138 0.17
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (252 bp):
AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGA
AGGTCTTTTGTTGGCAGATAACCCTTCTCACCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC
TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
AAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGAT
Found at i:302822 original size:334 final size:334
Alignment explanation
Indices: 302204--303376 Score: 1489
Period size: 334 Copynumber: 3.5 Consensus size: 334
302194 GAAATCGCAT
*
302204 ATAAGCCCTTCTCGTCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACT
1 ATAA-CCCTTCTCGCCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACT
* * * ** *
302269 CGAAGGTTTTTTGTTGGCATATAGCTCTTCTCTTCTTGAGCTATGCT-TCAAATGATGTGCCTTT
65 CGAAGGTCTTTGGTTGGCAGATAGC-CTTCTCGCCTTGAGCTATGCTGT-AAATGATGCGCCTTT
* * * *
302333 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGATAGCTCTTCTAGCCTTGAGCTATG
128 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTTTG
* * *
302398 TTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTTAAGGTCTTTTGTTGGCAGAT-TGC
193 TTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGGAAGATAT-C
* * * *
302462 CCTTCTCGCCTTAAGCTATACTGCAAATGATACGCCTTTGAGTTGAGTGTAATCGAACTCAAAGG
257 CCTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCAAAGG
* *
302527 TCTTTTGTTGGCAG
322 TC-TTGGTTGACAG
* * * * *
302541 ATAACCCTTCTCGCCTTGAGCCATGCTGCAAATGATGCGCATTTGAGCTTAGTGTAATCGAACTC
1 ATAACCCTTCTCGCCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * * * * * *
302606 GAAGGTC-TTGGTTGACAGATAACCTTGTCGCATTGAGTTATACTGTAAATGATGTGCCTTTGAG
66 GAAGGTCTTTGGTTGGCAGATAGCCTTCTCGCCTTGAGCTATGCTGTAAATGATGCGCCTTTGAG
*
302670 CTGAGTGTAATCAAACTCGAAGGT-TTTGTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTTTGTT
131 CTGAGTGTAATCAAACTCGAAGGTCTTT-TGTTGACAGATAGCCCTTCTCGCCTTGAGCTTTGTT
* * * *
302734 GCAAATAATGCGCCTTTGAGCTGAGTGTAATTGAACTTGAAGGTCTTTTGTTGGAAGATATCCCT
195 GTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGGAAGATATCCCT
* * *
302799 TCTCACCTTGAGCTATGCTGCAAATAATGCGCCTTTGAGCTGAGTGTAATCGAACTCAAAAGTCT
260 TCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCT
*
302864 TGGTTGACAT
325 TGGTTGACAG
* * * *
302874 ATAACCCTTATCGCCTTGAGTTATGCTGTAAATAATGTGCCTTTGAACTGAGTGTAATCGAACTC
1 ATAACCCTTCTCGCCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTC
**
302939 GAAGGTCTTTTATTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATGATGCGCCTTTGA
66 GAAGGTCTTTGGTTGGCAGATAG-CCTTCTCGCCTTGAGCTATGCTGTAAATGATGCGCCTTTGA
* ** * * * * *
303004 GCTTAGTGTAATTGAACTCGAAGGTC-TTGGTTGATAGATAACCCTTCTCGCCCTGAG-TTATGC
130 GCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTT-TGT
* * * * *
303067 TGTAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCATTTT-TTGGTAGAAAACC
194 TGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTC-TTTTGTTGGAAGATATCC
* * * * *
303131 CTTCTCGCCTTGAGTTATGCTACAAA-GATGCACCTTTGAGCTGAGTGTAATCAAACTCGAAGGT
258 CTTCTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGT
303195 CTTGGTTGACAG
323 CTTGGTTGACAG
* * * ** * * *
303207 ATAACCCTTCTCGCCCTGAGTTATGTTATAAATGATGTGCCTTTAAGCTGACTGTAATCGAACTC
1 ATAACCCTTCTCGCCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * * * *
303272 GAAGGTCTTTTGTTTGCAGATAGCCATTCTCACCTTGAGCTATGCTGCAAATGATGCACCTTTGA
66 GAAGGTCTTTGGTTGGCAGATAGCC-TTCTCGCCTTGAGCTATGCTGTAAATGATGCGCCTTTGA
*
303337 GCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGAT
130 GCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGAT
303377 GCTTTTGAAT
Statistics
Matches: 727, Mismatches: 99, Indels: 23
0.86 0.12 0.03
Matches are distributed among these distances:
332 2 0.00
333 258 0.35
334 324 0.45
335 78 0.11
336 61 0.08
337 4 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (334 bp):
ATAACCCTTCTCGCCTTGAGCTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGGTTGGCAGATAGCCTTCTCGCCTTGAGCTATGCTGTAAATGATGCGCCTTTGAG
CTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTTTGTTG
TAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGGAAGATATCCCTT
CTCGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTT
GGTTGACAG
Found at i:304344 original size:95 final size:93
Alignment explanation
Indices: 304148--304403 Score: 287
Period size: 95 Copynumber: 2.7 Consensus size: 93
304138 AGCTAGCTGG
* * * * * *
304148 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTATAGAGACAGCTCAATATCATTGTATAGATA
1 ATCCATAAAG-CAGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAATTTTATTG--T--ATA
*
304213 TTATAATCACCTTTATCAGGCTAGCTGAATATT
61 TTATAATCACCTTTATCAGGCTAACTGAATATT
*
304246 ATCCATAAAGTCAGGGAATTTAACCAATTGCTCTAGAGGGACAACTCAAGTTTTATTGTATATTA
1 ATCCATAAAG-CAGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAA-TTTTATTGTATATTA
* * *
304311 TAATCACCTTTATCATGTTAACTGAATCTT
64 TAATCACCTTTATCAGGCTAACTGAATATT
* * * * *
304341 ATCCATAAAGCAGGGGCGTTTAACCAATTGCTTTAGTGGGACAACTAAACCTTTATTGTATAT
1 ATCCATAAAGCA-GGGCATTTAACCAATTGCTCTAGAGGGACAACTCAA-TTTTATTGTATAT
304404 ATGCATAATA
Statistics
Matches: 137, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
94 2 0.01
95 85 0.62
97 1 0.01
98 43 0.31
99 6 0.04
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (93 bp):
ATCCATAAAGCAGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAATTTTATTGTATATTATA
ATCACCTTTATCAGGCTAACTGAATATT
Found at i:307045 original size:16 final size:17
Alignment explanation
Indices: 307014--307046 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
307004 TGCAAATGAT
307014 GAAAATAAAATAAAAGA
1 GAAAATAAAATAAAAGA
*
307031 GAAAA-AAATTAAAAGA
1 GAAAATAAAATAAAAGA
307047 TGTTGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
GAAAATAAAATAAAAGA
Found at i:307218 original size:21 final size:21
Alignment explanation
Indices: 307192--307291 Score: 137
Period size: 21 Copynumber: 4.8 Consensus size: 21
307182 AGGGTGTCAA
*
307192 AGTGCATCCATGTACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
307213 AGTGCATCCATGTACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
307234 AGTGCATTCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* **
307255 AGTTCATCCATGCACTTCTGC
1 AGTGCATCCATGCACCCCTGC
*
307276 AGTGCATCCATCCACC
1 AGTGCATCCATGCACC
307292 AGTCACTAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.20, C:0.38, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:308147 original size:16 final size:16
Alignment explanation
Indices: 308126--308163 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
308116 AGAAGATGAC
*
308126 TTCCACCTCCGGCTCG
1 TTCCACCTCCAGCTCG
308142 TTCCACCTCCAGCTCG
1 TTCCACCTCCAGCTCG
308158 TTCCAC
1 TTCCAC
308164 ATGGAGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.50, G:0.13, T:0.26
Consensus pattern (16 bp):
TTCCACCTCCAGCTCG
Found at i:309823 original size:21 final size:21
Alignment explanation
Indices: 309784--309822 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
309774 AAACAATTGG
309784 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
309805 TAACAATTGATAT-ATTTT
1 TAACAATTGATATCATTTT
309823 TCATTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:310905 original size:64 final size:62
Alignment explanation
Indices: 310789--310929 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 62
310779 CACATTCAAT
* * *
310789 GTGCATCGATGCACTCTTTAAAGAAGAAACATCAAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCAAAGGCAATTGGTGCATCGATGCAT--GGTA
* * * * *
310852 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGTTA
1 GTGCATCGATGCA-CCCCTTAAAGAAG-AAACATCAAAGGCAATTGGTGCATCGATGCATGG-TA
310916 GTGCATCGATGCAC
1 GTGCATCGATGCAC
310930 ATGTTAAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
62 2 0.03
63 16 0.24
64 48 0.73
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCAAAGGCAATTGGTGCATCGATGCATGGTA
Found at i:310962 original size:20 final size:22
Alignment explanation
Indices: 310917--310974 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
310907 GCATGGTTAG
310917 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
310941 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
310961 TGCATCGATGCACT
1 TGCATCGATGCACT
310975 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:312246 original size:20 final size:20
Alignment explanation
Indices: 312223--312300 Score: 106
Period size: 20 Copynumber: 4.0 Consensus size: 20
312213 AAGGGATTAT
312223 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
312243 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * *
312261 TAGTGGTTCTTCGGAACAAG
1 CAGTGGTCCTTCGGGACAAA
312281 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
312301 TATTCAGTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.31
20 33 0.69
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:312285 original size:38 final size:38
Alignment explanation
Indices: 312224--312298 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
312214 AGGGATTATC
*
312224 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGAACAAACAGTGGTCCTTCGGGACAT
* *
312262 AGTGGTTCTTCGGAACAAGCAGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGAACAAACAGTGGTCCTTCGGGACA
312299 AATATTCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (38 bp):
AGTGGTCCTTCGGAACAAACAGTGGTCCTTCGGGACAT
Found at i:313160 original size:21 final size:21
Alignment explanation
Indices: 313134--313212 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
313124 AGGGTGTTAC
313134 AGTGCATCCATGCACCCCTGT
1 AGTGCATCCATGCACCCCTGT
**
313155 AGTGCATCCATGCACCTGCCACT
1 AGTGCATCCATGCACC--CCTGT
* * *
313178 AGTGTATCGATGCA-CCATGT
1 AGTGCATCCATGCACCCCTGT
313198 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
313213 TCTATTTCGA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 14 0.30
21 16 0.35
22 1 0.02
23 15 0.33
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGT
Found at i:316281 original size:6 final size:6
Alignment explanation
Indices: 316261--316293 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
316251 GGACCTATAA
316261 AAAAAT -AAAAT -AAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
316294 ATGATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:316300 original size:16 final size:17
Alignment explanation
Indices: 316261--316292 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
316251 GGACCTATAA
316261 AAAAAT-AAAATAAAAT
1 AAAAATAAAAATAAAAT
316277 AAAAATAAAAATAAAA
1 AAAAATAAAAATAAAA
316293 AATGATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAATAAAAT
Found at i:316305 original size:22 final size:22
Alignment explanation
Indices: 316257--316306 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
316247 ATTTGGACCT
316257 ATAA-AAAAATAAAATAAAATA
1 ATAATAAAAATAAAATAAAATA
* *
316278 AAAATAAAAATAAAA-AATGATA
1 ATAATAAAAATAAAATAA-AATA
316300 ATAATAA
1 ATAATAA
316307 TATTATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (22 bp):
ATAATAAAAATAAAATAAAATA
Found at i:316360 original size:2 final size:2
Alignment explanation
Indices: 316306--316342 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
316296 GATAATAATA
316306 AT AT -T 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
316343 TTTCAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:316488 original size:2 final size:2
Alignment explanation
Indices: 316476--316514 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
316466 TTTAAAACCC
316476 AT AT A- 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
316515 TTAAAAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:316512 original size:98 final size:98
Alignment explanation
Indices: 316389--316588 Score: 287
Period size: 98 Copynumber: 2.1 Consensus size: 98
316379 TTTTCAAAAT
*
316389 TATA-ATATATATATATATATATATATATTCAAAAATATCTCCAAAAACTATATATTATATAAAA
1 TATATATATATATATATATATATATATATTCAAAAATAT-TCCAAAAACTAAATATTATATAAAA
*
316453 GTTTTC-AAAATATTTTAAAACCCATATAATATA
65 GTTTTCAAAAATATTTTAAAAACCATATAATATA
* * ** *
316486 TATATATATATATATATATATATATATATTTAAAAATGTTTTAAAAACTAAATATTATATATAAG
1 TATATATATATATATATATATATATATATTCAAAAATATTCCAAAAACTAAATATTATATAAAAG
* * *
316551 TTTTCAAAAATGTTTTAAAAACTATATATTATA
66 TTTTCAAAAATATTTTAAAAACCATATAATATA
316584 TATAT
1 TATAT
316589 TTTCAAAATG
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
97 31 0.34
98 60 0.66
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (98 bp):
TATATATATATATATATATATATATATATTCAAAAATATTCCAAAAACTAAATATTATATAAAAG
TTTTCAAAAATATTTTAAAAACCATATAATATA
Found at i:316681 original size:12 final size:12
Alignment explanation
Indices: 316664--316689 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
316654 TATAATATAT
316664 AAATGTTTTCAA
1 AAATGTTTTCAA
316676 AAATGTTTTCAA
1 AAATGTTTTCAA
316688 AA
1 AA
316690 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAATGTTTTCAA
Found at i:316744 original size:2 final size:2
Alignment explanation
Indices: 316732--316771 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
316722 TTTCAAAAAC
316732 TA TA TA GTA 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 TA TA TA T
316772 TCGAAAACCG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:316747 original size:39 final size:37
Alignment explanation
Indices: 316496--316749 Score: 253
Period size: 39 Copynumber: 6.5 Consensus size: 37
316486 TATATATATA
316496 TATATATATATATATATATTTAAAAATGTTTTAAAAAC
1 TATATATATATATATAT-TTTAAAAATGTTTTAAAAAC
*
316534 TAAATAT-TATATATAAGTTTTCAAAAATGTTTTAAAAAC
1 TATATATATATATAT-A-TTTT-AAAAATGTTTTAAAAAC
*
316573 TATATAT-TATATATATTTTCAAAATGTTTTAAAAAAAC
1 TATATATATATATATATTTTAAAAATGTTTT--AAAAAC
* **
316611 TATATA-ATATATATATTTTCAAAATGTTTTTTTTTTTAAAC
1 TATATATATATATATATTTTAAAAATG-----TTTTAAAAAC
* * *
316652 TATATAATATATAAATGTTTTCAAAAATGTTTTCAAAAC
1 TATAT-ATATATATATATTTT-AAAAATGTTTTAAAAAC
316691 TATATATTATGTATATATATTTTAAAAATGTTTTCAAAAAC
1 TATATA-TA--TATATATATTTTAAAAATGTTTT-AAAAAC
316732 TATATAGTATATATATAT
1 TATATA-TATATATATAT
316750 ATATATATAT
Statistics
Matches: 184, Mismatches: 14, Indels: 35
0.79 0.06 0.15
Matches are distributed among these distances:
36 10 0.05
37 11 0.06
38 43 0.23
39 55 0.30
40 11 0.06
41 32 0.17
42 1 0.01
43 15 0.08
44 6 0.03
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATATATATATATATTTTAAAAATGTTTTAAAAAC
Found at i:318611 original size:19 final size:19
Alignment explanation
Indices: 318587--318628 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
318577 TCATCGAGCC
318587 AGTGCTTGAAAACAACGAT
1 AGTGCTTGAAAACAACGAT
318606 AGTGCTTGAAAACAACGAT
1 AGTGCTTGAAAACAACGAT
318625 AGTG
1 AGTG
318629 TTAGTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (19 bp):
AGTGCTTGAAAACAACGAT
Found at i:319902 original size:21 final size:21
Alignment explanation
Indices: 319876--319947 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
319866 GATTTTGACT
319876 ATCGCAACGCAATAATACAAA
1 ATCGCAACGCAATAATACAAA
* ** *
319897 ATCGCAACGCGATTCTGAC--T
1 ATCGCAACGCAATAAT-ACAAA
319917 ATCGCAACGCAATAATACAAA
1 ATCGCAACGCAATAATACAAA
319938 ATCGCAACGC
1 ATCGCAACGC
319948 GATTCTGACT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 23 0.57
22 2 0.05
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCAATAATACAAA
Found at i:319916 original size:41 final size:41
Alignment explanation
Indices: 319857--320085 Score: 233
Period size: 41 Copynumber: 5.6 Consensus size: 41
319847 TTTTCCAGAT
* *
319857 TCGCAACACGATTTTGACTATCGCAACGCAATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAA
319898 TCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAA
* *
319939 TCGCAACGCGATTCTGACTATCGCAA---AACTGAATTTCAAAT
1 TCGCAACGCGATTCTGACTATCGCAACGCAA-T-AA-TACAAAA
* ** * ** *
319980 TCGCAACAG-G-TTTTAGAAAATTC-C-ATGCGAAT-AT-GTATA
1 TCGCAAC-GCGATTCT-GACTA-TCGCAACGC-AATAATACAAAA
320019 TCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAA
320060 TCGCAACGCGATTCTGACTATCGCAA
1 TCGCAACGCGATTCTGACTATCGCAA
320086 AACTGAATTT
Statistics
Matches: 154, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
38 5 0.03
39 17 0.11
40 15 0.10
41 111 0.72
42 3 0.02
43 1 0.01
44 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAA
Found at i:319922 original size:20 final size:20
Alignment explanation
Indices: 319857--319964 Score: 76
Period size: 20 Copynumber: 5.3 Consensus size: 20
319847 TTTTCCAGAT
* *
319857 TCGCAACACGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
319877 TCGCAACGCAATAAT-ACAAAA
1 TCGCAACGCGATTATGAC--TA
*
319898 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
* * *
319918 TCGCAACGCAATAAT-ACAAAA
1 TCGCAACGCGATTATGAC--TA
*
319939 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
319959 TCGCAA
1 TCGCAA
319965 AACTGAATTT
Statistics
Matches: 65, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 4 0.06
20 31 0.48
21 26 0.40
22 4 0.06
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:320040 original size:20 final size:20
Alignment explanation
Indices: 320017--320085 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
320007 CGAATATGTA
320017 TATCGCAACGCGATTCTGAC
1 TATCGCAACGCGATTCTGAC
* **
320037 TATCGCAACGCAATAAT-AC
1 TATCGCAACGCGATTCTGAC
*
320056 AAAATCGCAACGCGATTCTGAC
1 --TATCGCAACGCGATTCTGAC
320078 TATCGCAA
1 TATCGCAA
320086 AACTGAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 2 0.05
20 21 0.55
21 13 0.34
22 2 0.05
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (20 bp):
TATCGCAACGCGATTCTGAC
Found at i:320041 original size:121 final size:121
Alignment explanation
Indices: 319897--320116 Score: 440
Period size: 121 Copynumber: 1.8 Consensus size: 121
319887 ATAATACAAA
319897 ATCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCG
1 ATCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCG
319962 CAAAACTGAATTTCAAATTCGCAACAGGTTTTAGAAAATTCCATGCGAATATGTAT
66 CAAAACTGAATTTCAAATTCGCAACAGGTTTTAGAAAATTCCATGCGAATATGTAT
320018 ATCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCG
1 ATCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCG
320083 CAAAACTGAATTTCAAATTCGCAACAGGTTTTAG
66 CAAAACTGAATTTCAAATTCGCAACAGGTTTTAG
320117 TTTCGCAACA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 99 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (121 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCAATAATACAAAATCGCAACGCGATTCTGACTATCG
CAAAACTGAATTTCAAATTCGCAACAGGTTTTAGAAAATTCCATGCGAATATGTAT
Found at i:320248 original size:22 final size:21
Alignment explanation
Indices: 320223--320273 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 21
320213 CTCTCTCCGG
320223 CGACATCCGTTCCTATATCCAA
1 CGACATCC-TTCCTATATCCAA
320245 CGACA----TCCTATATCCAA
1 CGACATCCTTCCTATATCCAA
320262 CGACATCCTTCC
1 CGACATCCTTCC
320274 CCATCCGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 17 0.68
21 3 0.12
22 5 0.20
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.25
Consensus pattern (21 bp):
CGACATCCTTCCTATATCCAA
Found at i:320255 original size:17 final size:17
Alignment explanation
Indices: 320233--320270 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
320223 CGACATCCGT
320233 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
320250 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
320267 TCCT
1 TCCT
320271 TCCCCATCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (17 bp):
TCCTATATCCAACGACA
Found at i:323237 original size:18 final size:18
Alignment explanation
Indices: 323214--323249 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
323204 AAGCAAAAGG
*
323214 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
323232 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
323250 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:323445 original size:20 final size:20
Alignment explanation
Indices: 323420--323465 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
323410 TTACACATTC
323420 ATTTGAATATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
323440 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
323460 ATTTGA
1 ATTTGA
323466 TTATTGTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:323494 original size:20 final size:20
Alignment explanation
Indices: 323420--323495 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
323410 TTACACATTC
* * *
323420 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGTAACACGA
* *
323440 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGTAACACGA
* * *
323460 ATTTGATTATTGTAACATGA
1 ATTTGACTATCGTAACACGA
*
323480 ATTTAACTATCGTAAC
1 ATTTGACTATCGTAAC
323496 GAGAAAATCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (20 bp):
ATTTGACTATCGTAACACGA
Found at i:323564 original size:20 final size:20
Alignment explanation
Indices: 323535--323612 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
323525 ACAACGCGAA
**
323535 TTGACTTTCGTGTTGCGATT
1 TTGACTTTCGCATTGCGATT
* *
323555 TTGGCTTTCGCATTGTGATT
1 TTGACTTTCGCATTGCGATT
*
323575 TTGACTTTCACATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
323595 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
323613 AAGTGTACCT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.14, C:0.15, G:0.24, T:0.46
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:323775 original size:67 final size:65
Alignment explanation
Indices: 323663--323832 Score: 177
Period size: 71 Copynumber: 2.5 Consensus size: 65
323653 GATTGAAATC
*
323663 AACAAATCAACTTTTACATTTTAATCAATTAAACAAGCACAAATAAGAA-TTATTTA-CACATCA
1 AACAAATCAACTTTTACA---TAATCAATTAAACAAGCAAAAATAAGAATTTATTTACCA-ATCA
323726 ATTA
62 ATTA
* *
323730 AACAAATCAACTTTTACA-AATCAATTAAACAAGCAAAAAATAATAATAATTCTTATTTTCCTAA
1 AACAAATCAACTTTTACATAATCAATTAAACAAGC---AAA-AATAAGAA-T-TTATTTACC-AA
323794 TCAATTA
59 TCAATTA
*
323801 AACAAATCAACTTTTA-AGAATCAATTAAACAA
1 AACAAATCAACTTTTACATAATCAATTAAACAA
323833 TAAAAAAAGT
Statistics
Matches: 90, Mismatches: 3, Indels: 16
0.83 0.03 0.15
Matches are distributed among these distances:
63 16 0.18
66 2 0.02
67 25 0.28
70 7 0.08
71 39 0.43
72 1 0.01
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (65 bp):
AACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAATAAGAATTTATTTACCAATCAATTA
Found at i:325124 original size:21 final size:21
Alignment explanation
Indices: 325100--325202 Score: 84
Period size: 21 Copynumber: 4.9 Consensus size: 21
325090 GTGGGAGGGA
*
325100 CCTCTTCAACGATGACAGGAG
1 CCTCTTGAACGATGACAGGAG
* ** *
325121 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAGGAG
* ** *
325142 ACTCTTGAGGGATGATAGGAG
1 CCTCTTGAACGATGACAGGAG
*
325163 CCTCTTGAACGAT-A-GGAGAGG
1 CCTCTTGAACGATGACAG-GA-G
325184 CCTCTTGAACGATGACAGG
1 CCTCTTGAACGATGACAGG
325203 TGAGTCGGGC
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 54 0.89
22 2 0.03
23 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (21 bp):
CCTCTTGAACGATGACAGGAG
Found at i:325139 original size:42 final size:42
Alignment explanation
Indices: 325080--325202 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
325070 GTGAATCGGG
* *
325080 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGAGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGAGC
** *
325122 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGAGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGACAGGAGC
* *
325164 CTCTTGAACGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAG-GGACCTCTTGAACGATGACAGG
325203 TGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 63 0.93
43 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGAGC
Found at i:325361 original size:12 final size:12
Alignment explanation
Indices: 325342--325372 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
325332 GGGCCGCTAA
325342 AAATAAATTAAT
1 AAATAAATTAAT
*
325354 ACATAAATTAAT
1 AAATAAATTAAT
325366 AAATAAA
1 AAATAAA
325373 CAGACATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:325734 original size:20 final size:20
Alignment explanation
Indices: 325711--325755 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
325701 ACTTAAAATT
325711 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* **
325731 GCAAAGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
325751 GCAAC
1 GCAAC
325756 AAGATAACCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:325833 original size:20 final size:20
Alignment explanation
Indices: 325800--325837 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
325790 CGAAACTAAA
*
325800 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
*
325820 TTCGCATTGTGATTTTCA
1 TTCGCATTGCGATTTTCA
325838 CGTTGCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:325896 original size:20 final size:20
Alignment explanation
Indices: 325871--325939 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
325861 ACGATTATCC
*
325871 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
325891 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* *
325911 CGTTGCGATATTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
325931 CGTTGCGAT
1 CGTTGCGAT
325940 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:325949 original size:20 final size:19
Alignment explanation
Indices: 325871--325964 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 19
325861 ACGATTATCC
* *
325871 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATATTC-ATTTCG
*
325891 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATATTCATTT-CG
325911 CGTTGCGATATTCATTTTCG
1 CGTTGCGATATTCA-TTTCG
* *
325931 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATATTCA-TTTCG
*
325951 TGTTGCGACTATTC
1 CGTTGCGA-TATTC
325965 TTCTTCTGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
19 3 0.05
20 54 0.86
21 6 0.10
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (19 bp):
CGTTGCGATATTCATTTCG
Found at i:327906 original size:20 final size:20
Alignment explanation
Indices: 327883--327927 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
327873 AATCACAACA
327883 CGAAAATGACTATCGCAAAG
1 CGAAAATGACTATCGCAAAG
** *
327903 CGAATTTGACTATCGCAACG
1 CGAAAATGACTATCGCAAAG
327923 CGAAA
1 CGAAA
327928 CTAAAATCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
CGAAAATGACTATCGCAAAG
Found at i:328552 original size:20 final size:20
Alignment explanation
Indices: 328529--328594 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
328519 GAAAATCCCA
*
328529 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAAAATCGCG
* * * *
328549 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAAAATCGCG
328569 TTGCGATAGTCAAAATCGCG
1 TTGCGATAGTCAAAATCGCG
328589 TTGCGA
1 TTGCGA
328595 ATCTGGAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAAAATCGCG
Found at i:336723 original size:4 final size:4
Alignment explanation
Indices: 336714--336748 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
336704 TGGGGAGTTT
*
336714 TATG TATG TATG TATG TATG TATG TATG TGTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
336749 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:344151 original size:6 final size:6
Alignment explanation
Indices: 344135--344170 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
344125 GATGGATGTG
* *
344135 GTATAT TTATAC GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
344171 ATTCATTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:355364 original size:23 final size:23
Alignment explanation
Indices: 355334--355415 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
355324 GCATGGCAGT
*
355334 GTGCATCGATGCACATTCAAGTA
1 GTGCATCGATGCACATTCAAGTG
* *
355357 GTGCATCGGTGCACCTTC-A-TG
1 GTGCATCGATGCACATTCAAGTG
*
355378 GTGTATCGATGCACATTCAAAG-G
1 GTGCATCGATGCACATTC-AAGTG
355401 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
355416 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
21 16 0.33
22 1 0.02
23 19 0.40
24 12 0.25
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGTG
Found at i:355390 original size:21 final size:22
Alignment explanation
Indices: 355330--355396 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
355320 CGATGCATGG
355330 CAGT-GTGCATCGATGCACATT
1 CAGTAGTGCATCGATGCACATT
* *
355351 CAAGTAGTGCATCGGTGCACCTT
1 C-AGTAGTGCATCGATGCACATT
* *
355374 CA-TGGTGTATCGATGCACATT
1 CAGTAGTGCATCGATGCACATT
355395 CA
1 CA
355397 AAGGGATGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 18 0.47
22 4 0.11
23 16 0.42
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (22 bp):
CAGTAGTGCATCGATGCACATT
Found at i:361374 original size:65 final size:65
Alignment explanation
Indices: 361240--361399 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
361230 CATCGGTTTA
* * * * *
361240 GTGCATCGATGCATGAAGTGCATTTGATG-TTTCAAACAAGCCAGAGTGCATCGATGCATGGTTT
1 GTGCATCGATGCATAAAATGCATTTGATGTTTTCAAACAACCCAGAGTGCATAGATGCATGGTAT
* * *
361304 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AACCCTGAGTTCATAGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTTGATGTTTTCA-AACAACCCAGAGTGCATAGATGCATGGTA
361368 T
65 T
361369 GTGCATCGATGCATAAAATGCATTTGATGTT
1 GTGCATCGATGCATAAAATGCATTTGATGTT
361400 CAATTTATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 26 0.31
65 57 0.67
66 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTTGATGTTTTCAAACAACCCAGAGTGCATAGATGCATGGTAT
Found at i:362996 original size:22 final size:21
Alignment explanation
Indices: 362949--362998 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
362939 AAATTATCAT
*
362949 ATTAACTATTTTTAAAACTAA
1 ATTAACTATTTTTAAAAATAA
362970 ATTAA-TATTTTCTAAAAAATAA
1 ATTAACTATTTT-T-AAAAATAA
*
362992 TTTAACT
1 ATTAACT
362999 TTTAATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 11 0.46
23 1 0.04
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAACTATTTTTAAAAATAA
Found at i:364324 original size:2 final size:2
Alignment explanation
Indices: 364319--364357 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
364309 TTTAAAAAAG
364319 AT AT AT AT 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 AT A
364358 ACACATAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:365076 original size:26 final size:26
Alignment explanation
Indices: 365038--365096 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
365028 CCACGTGCAC
365038 ACGACGACACGTGGCTGCGAGTGACA
1 ACGACGACACGTGGCTGCGAGTGACA
* *
365064 ATGACGGCACGTGGCTGCGAGTGACA
1 ACGACGACACGTGGCTGCGAGTGACA
365090 ACGACGA
1 ACGACGA
365097 TGGGGTTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.36, T:0.12
Consensus pattern (26 bp):
ACGACGACACGTGGCTGCGAGTGACA
Found at i:366012 original size:70 final size:68
Alignment explanation
Indices: 365927--366064 Score: 213
Period size: 70 Copynumber: 2.0 Consensus size: 68
365917 GGGATAAGTC
** * *
365927 CCTGAACTTCCCAAACATTCGAGATTAACCCAATTTTTTTTTCAAAATTGTCCATTTTAGTCTCT
1 CCTGAACTTCCCAAACATTCGAGATTAACCCAA--AATTTTTCAAAATTGTCCATTTTAATCCCT
365992 TAATT
64 TAATT
*
365997 CCTGAACTTCTCAAACATTCGAGATTAACCCAAAATTTTTCAAAATTGTCCATTTTAATCCCTTA
1 CCTGAACTTCCCAAACATTCGAGATTAACCCAAAATTTTTCAAAATTGTCCATTTTAATCCCTTA
366062 ATT
66 ATT
366065 AAATTAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 31 0.49
70 32 0.51
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (68 bp):
CCTGAACTTCCCAAACATTCGAGATTAACCCAAAATTTTTCAAAATTGTCCATTTTAATCCCTTA
ATT
Found at i:369663 original size:2 final size:2
Alignment explanation
Indices: 369656--369698 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
369646 AGATTTTATC
369656 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
369698 A
1 A
369699 CATAAAACAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:371392 original size:10 final size:10
Alignment explanation
Indices: 371374--371427 Score: 72
Period size: 10 Copynumber: 5.1 Consensus size: 10
371364 CATTTAAATA
371374 ATAAACGAAC
1 ATAAACGAAC
*
371384 ATGAACGAAC
1 ATAAACGAAC
371394 ATAAACGAACAC
1 ATAAACG-A-AC
371406 AATAAACGAAC
1 -ATAAACGAAC
371417 ATAAACGAAC
1 ATAAACGAAC
371427 A
1 A
371428 ACACAAACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 26 0.67
11 3 0.08
12 3 0.08
13 7 0.18
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:371435 original size:23 final size:23
Alignment explanation
Indices: 371387--371435 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
371377 AACGAACATG
*
371387 AACGAACATAAACGAACACAATA
1 AACGAACATAAACGAACACAACA
371410 AACGAACATAAACGAACA-ACACA
1 AACGAACATAAACGAACACA-ACA
371433 AAC
1 AAC
371436 ACAAAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.61, C:0.24, G:0.08, T:0.06
Consensus pattern (23 bp):
AACGAACATAAACGAACACAACA
Found at i:371706 original size:14 final size:14
Alignment explanation
Indices: 371687--371734 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
371677 GCCCTCTGTT
371687 CGAACATAAATGAA
1 CGAACATAAATGAA
371701 CGAACATAAAT--A
1 CGAACATAAATGAA
371713 --AACATAAATGAA
1 CGAACATAAATGAA
371725 CGAACATAAA
1 CGAACATAAA
371735 CAAACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.30
12 2 0.07
14 19 0.63
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:371718 original size:24 final size:24
Alignment explanation
Indices: 371689--371752 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 24
371679 CCTCTGTTCG
*
371689 AACATAAATGAACGAACATAAATA
1 AACATAAATGAACGAACATAAACA
371713 AACATAAATGAACGAACATAAACA
1 AACATAAATGAACGAACATAAACA
371737 AACATATAATCGAACG
1 AACATA-AAT-GAACG
371753 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
24 29 0.78
25 3 0.08
26 5 0.14
ACGTcount: A:0.59, C:0.16, G:0.09, T:0.16
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACA
Found at i:374621 original size:31 final size:31
Alignment explanation
Indices: 374554--374613 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
374544 CAATTTAAGG
*
374554 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
374585 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
374614 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:374857 original size:21 final size:21
Alignment explanation
Indices: 374831--374872 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
374821 ATTTGAATAT
*
374831 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
374852 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
374873 CCCATTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:375195 original size:34 final size:32
Alignment explanation
Indices: 375156--375225 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
375146 TTTTGTAAAG
*
375156 GGGAAATGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAATGTTCTAGCTTAGCCCG-G-AAAAACTA
*
375190 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAATGTTCTAGCTTAGCCCGGAAAAACTA
375222 GGGA
1 GGGA
375226 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAATGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:375923 original size:19 final size:20
Alignment explanation
Indices: 375899--375946 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
375889 AACGATTTTC
*
375899 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
375918 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
375938 TTTTGAAAA
1 TTTTGAAAA
375947 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:377187 original size:31 final size:31
Alignment explanation
Indices: 377120--377179 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
377110 TAATTTAAGG
*
377120 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
377151 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
377180 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:377404 original size:21 final size:21
Alignment explanation
Indices: 377378--377419 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
377368 ATTTGAATAT
377378 TATGAAGGGGTA-TCGATTCCC
1 TATGAAGGGGTACT-GATTCCC
377399 TATGAAGGGGTACTGATTCCC
1 TATGAAGGGGTACTGATTCCC
377420 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTACTGATTCCC
Found at i:377481 original size:21 final size:21
Alignment explanation
Indices: 377448--377487 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
377438 TTTTTACAGA
*
377448 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
377470 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
377488 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:378886 original size:15 final size:15
Alignment explanation
Indices: 378865--378900 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
378855 ACCTCAAATT
378865 CCTCAATTTTCTGCA
1 CCTCAATTTTCTGCA
*
378880 TCTCAATTTTCTGCA
1 CCTCAATTTTCTGCA
378895 CCTCAA
1 CCTCAA
378901 ATTCCTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (15 bp):
CCTCAATTTTCTGCA
Found at i:390172 original size:26 final size:26
Alignment explanation
Indices: 390136--390193 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
390126 TAAGTTCGTA
390136 TCGGGTCGAGTCGGATTTGAATAATG
1 TCGGGTCGAGTCGGATTTGAATAATG
390162 TCGGGTCGAGTCGGATTTGAATAATG
1 TCGGGTCGAGTCGGATTTGAATAATG
390188 TCGGGT
1 TCGGGT
390194 TGGGTATCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (26 bp):
TCGGGTCGAGTCGGATTTGAATAATG
Found at i:392377 original size:43 final size:43
Alignment explanation
Indices: 392290--392552 Score: 266
Period size: 43 Copynumber: 6.1 Consensus size: 43
392280 AAATAAAAAT
* * *
392290 GCCGCAAAA-AGTCAAGATCTATAGCGTCGTTTTT-AAAACAAAC
1 GCCGCAAAAGA-TC-AGATCTATAGCGGCGTTTTTGGATACAAAC
* * * *
392333 GCCGCAAAATATCAGATCTATAGCAGCATTTTTGGATACCAAC
1 GCCGCAAAAGATCAGATCTATAGCGGCGTTTTTGGATACAAAC
* * * *
392376 GCCCCAAAAGGTCAAGATCTATAGCGGCGTTTTTGCA-ACAAAT
1 GCCGCAAAAGATC-AGATCTATAGCGGCGTTTTTGGATACAAAC
* * *
392419 GCCGCAAAGGACCAGATCTATAGCAGCGTTTTTGGATACAAAC
1 GCCGCAAAAGATCAGATCTATAGCGGCGTTTTTGGATACAAAC
* *
392462 GCCACAAAA-AGTCAGATCTATAGTGGCGTTTTTGGATACAAAC
1 GCCGCAAAAGA-TCAGATCTATAGCGGCGTTTTTGGATACAAAC
* * * *
392505 GCCGGAAAATG-TCAAATCTCTAGCGGCGTTTTTTGATACAAAC
1 GCCGCAAAA-GATCAGATCTATAGCGGCGTTTTTGGATACAAAC
392548 GCCGC
1 GCCGC
392553 TAATTACCAT
Statistics
Matches: 180, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
42 39 0.22
43 120 0.67
44 21 0.12
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCGCAAAAGATCAGATCTATAGCGGCGTTTTTGGATACAAAC
Found at i:392439 original size:86 final size:86
Alignment explanation
Indices: 392294--392550 Score: 302
Period size: 86 Copynumber: 3.0 Consensus size: 86
392284 AAAAATGCCG
* * * *
392294 CAAAAAGTCAAGATCTATAGCGTCGTTTTTAAAACAAACGCCGCAAAATATCAGATCTATAGCAG
1 CAAAAAGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAAGACCAGATCTATAGCAG
* *
392359 CATTTTTGGATACCAACGCCC
66 CATTTTTGGATACAAACGCCA
* * * *
392380 CAAAAGGTCAAGATCTATAGCGGCGTTTTTGCAACAAATGCCGCAAAGGACCAGATCTATAGCAG
1 CAAAAAGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAAGACCAGATCTATAGCAG
*
392445 CGTTTTTGGATACAAACGCCA
66 CATTTTTGGATACAAACGCCA
* * * * * *
392466 CAAAAAGTC-AGATCTATAGTGGCGTTTTTGGATACAAACGCCGGAAAATG-TCAAATCTCTAGC
1 CAAAAAGTCAAGATCTATAGCGGCGTTTTT-GAAACAAACGCCGCAAAA-GACCAGATCTATAGC
* * *
392529 GGCGTTTTTTGATACAAACGCC
64 AGCATTTTTGGATACAAACGCC
392551 GCTAATTACC
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
85 19 0.13
86 126 0.86
87 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (86 bp):
CAAAAAGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAAGACCAGATCTATAGCAG
CATTTTTGGATACAAACGCCA
Found at i:392498 original size:129 final size:128
Alignment explanation
Indices: 392286--392537 Score: 321
Period size: 129 Copynumber: 2.0 Consensus size: 128
392276 TGTAAAATAA
* *
392286 AAATGCCGCAAAAAGTCAAGATCTATAGCGTCGTTTTTAAAACAAACGCCGCAAAATATCAGATC
1 AAATGCCGCAAAAAGACAAGATCTATAGCGTCGTTTTTAAAACAAACGCCACAAAATATCAGATC
*
392351 TATAGCAGCATTTTTGGATACCAACGCCCCAAAAGGTCAAGATCTATAGCGGCGTTTTTGCAAC
66 TATAGCAGCATTTTTGGATACAAACGCCCCAAAAGGTCAA-ATCTATAGCGGCGTTTTTGCAAC
* * * *
392415 AAATGCCGC-AAAGGACCAGATCTATAGCAG-CGTTTTTGGATACAAACGCCACAAAA-AGTCAG
1 AAATGCCGCAAAAAGACAAGATCTATAGC-GTCGTTTTT-AAAACAAACGCCACAAAATA-TCAG
** * ** * *
392477 ATCTATAGTGGCGTTTTTGGATACAAACGCCGGAAAATGTCAAATCTCTAGCGGCGTTTTT
63 ATCTATAGCAGCATTTTTGGATACAAACGCCCCAAAAGGTCAAATCTATAGCGGCGTTTTT
392538 TGATACAAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
128 41 0.39
129 65 0.61
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (128 bp):
AAATGCCGCAAAAAGACAAGATCTATAGCGTCGTTTTTAAAACAAACGCCACAAAATATCAGATC
TATAGCAGCATTTTTGGATACAAACGCCCCAAAAGGTCAAATCTATAGCGGCGTTTTTGCAAC
Found at i:392799 original size:20 final size:20
Alignment explanation
Indices: 392752--392801 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
392742 TGATTTCAAA
*
392752 TTCGCAACACGAACTCTAAT
1 TTCGCAACACGAACTCCAAT
* *
392772 TTCACAACACTAACTCCAAT
1 TTCGCAACACGAACTCCAAT
*
392792 TTTGCAACAC
1 TTCGCAACAC
392802 AATTTCCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.06, T:0.26
Consensus pattern (20 bp):
TTCGCAACACGAACTCCAAT
Found at i:399157 original size:20 final size:21
Alignment explanation
Indices: 399132--399171 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
399122 CAATTCAACT
*
399132 TACAAA-CATATAATAAACAC
1 TACAAATCATATAAAAAACAC
*
399152 TACAAATTATATAAAAAACA
1 TACAAATCATATAAAAAACA
399172 TAAAATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (21 bp):
TACAAATCATATAAAAAACAC
Found at i:400835 original size:4 final size:4
Alignment explanation
Indices: 400826--405062 Score: 5338
Period size: 4 Copynumber: 1076.8 Consensus size: 4
400816 ATATTAATAT
400826 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
400874 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
400921 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC AACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC
400969 ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
401014 ATAC ATAC ATAC ATAC -TAC ATGC ATGC ATAC ATAC ATAC ATCAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC
401062 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
401109 ATAC ATAC ATAC ATAT ATAC ATAC ATAC ACAT ATA- ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
401156 ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
401202 ATAC -TAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
401248 -TAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
401295 ATAC AT-C ATAC ATAGC -TAC ATAC ATAC --AC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
401340 ATAC ATGC ATGC ATGC ATAC ATGC ATAC ATAT ATAC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
401388 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * **
401436 ATGC ATGC ATAC ATAC ATGC ATAC ATAC ATAC ATGC ATGC ATAC ATGT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
401484 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
401532 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
401579 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
401625 -TAC ATAC ATAC ATAC ATAT ATGC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
401672 ATGC ATAC ATAC ATGC ATGC ATGC ATAC ATGC ATAC ATAT ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
401720 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
401768 ATAC ATAC ATGC ATGC ATAC ATAC ATGC ATAC ATAC ATAC A-GC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
**
401815 ATAC ATGT ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
401862 ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC TATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC
*
401911 ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
401958 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402004 A-AC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
402048 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAT ATAC ATA- A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
** * * *
402094 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GCAA AT-T GTGCAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--AC
* * * * * * *
402143 AAAGG ATGAC AT-C AGAA ATTA- ATTA- A-AA ATGTC ATAT ATTTGA- ATA-
1 ATA-C AT-AC ATAC ATAC A-TAC A-TAC ATAC AT-AC ATAC A--T-AC ATAC
* * * * * * * * * * *
402189 AAAGC TTGAAC CTAA AAAA ATTTA- AAAGG ATAC ATGC ACAC GCTA- ATA-
1 ATA-C AT--AC ATAC ATAC A--TAC ATA-C ATAC ATAC ATAC -ATAC ATAC
* *
402237 TTA- ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402284 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402332 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402380 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402427 ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
402473 ATAC ATAT ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
402521 ATGC ATGC ATGC ATAC ATGC ATAC ATAT ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
402569 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * **
402617 ATGC ATAC ATAC ATGC ATAC ATAC ATAC ATGC ATGC ATAC ATGT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402665 ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402711 A-AC ATAC ATAC --AC ATAC -TAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402754 ATAC ATAC ATAC AT-C AT-C ATAC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402798 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402844 ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402891 ATAC ATAC -TAC ATAC -TAC ATAC ATAC AT-C ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402934 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
402982 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403030 ATAC ATAC -TAC ATAC ATAC ATAC -TAC ATAC AT-C ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403075 ATAC ATAC ATAC ATAC AT-C ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403120 ATAC ATAC ATAC AT-- ATAC ATAC ATA- ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
403164 ATAC ACATC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAT ATAC ATAC
1 ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
403212 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATATC ATGC AAATT GTGCAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATA-C AT--AC
* * * * * * * *
403264 AAAGG ATGAC ATAC AGAA ATTA- ATTA- AAAA ATGTC ATAT ATTTGA- ATA-
1 ATA-C AT-AC ATAC ATAC A-TAC A-TAC ATAC AT-AC ATAC A--T-AC ATAC
* * * * * * * * * * *
403312 AAAGC TTGAAC CTAA AAAA ATTTA- AAAGG ATAC ATGC ACAC GCTA- ATA-
1 ATA-C AT--AC ATAC ATAC A--TAC ATA-C ATAC ATAC ATAC -ATAC ATAC
* *
403360 TTA- ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403407 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403453 ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
403499 ATAC ATAC ATAC AT-C CTAC ATAC ATAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403544 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403591 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403639 ATAC ATAC ATAC ATAC ATAC ATATC -TAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC
403685 ATAC AT-C ATAC ATAC AT-- ATAC ATAC ATAC AT-- ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
403726 ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATAC ATGC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
403774 ATGC ATGC ATGC ATGC ATGC ATGC ATTC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
403822 ATGC ATGC ATGC ATGC ATAC ATAC ATGC ATAC AT-C ATCC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
403869 ATAC ATAC ATAC ATAC ATAC ATAC AATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC
403918 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
403966 ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404014 ATAC AT-- ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404059 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404107 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
404155 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATATC ATGC AAATT GTGCAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATA-C AT--AC
* * * * * * * *
404207 AAAGG ATGAC ATAC AGAA ATTA- ATTA- AAAA ATGTC ATAT ATTTGA- ATA-
1 ATA-C AT-AC ATAC ATAC A-TAC A-TAC ATAC AT-AC ATAC A--T-AC ATAC
* * * * * * * * * * *
404255 AAAGC TTGAAC CTAA AAAA ATTTA- AAAGG ATAC ATGC ACAC GCTA- ATA-
1 ATA-C AT--AC ATAC ATAC A--TAC ATA-C ATAC ATAC ATAC -ATAC ATAC
* *
404303 TTA- ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404350 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404396 ATAC -T-C ATAC ATAC ATAC ATAC AT-C ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404440 ATAC -TAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404486 ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404533 ATAC ATAC ATAC ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404582 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404630 ATAC ATAC ATAC ATAC ATAC -TAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
404676 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATGC ATAC A-GC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
404723 ATGC ATGC ATGC ATGC ATGC ATGC ATTC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
404771 ATGC ATGC ATGC ATGC ATAC ATAC ATGC ATAC ATAC ATCC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404819 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
404867 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404915 --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
404960 ATAC ATAC ATAC ATAC ATAC -TAC A-AC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
405004 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATCC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
405052 ATAC ATAC ATA
1 ATAC ATAC ATA
405063 TGCATGTATC
Statistics
Matches: 3800, Mismatches: 253, Indels: 360
0.86 0.06 0.08
Matches are distributed among these distances:
2 47 0.01
3 207 0.05
4 3460 0.91
5 60 0.02
6 18 0.00
7 8 0.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:403690 original size:6 final size:6
Alignment explanation
Indices: 403679--403728 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
403669 ACATACATAC
*
403679 ATACAT ATACAT CATAC-- ATACAT ATACAT ACATACAT ATACAT ACACAT
1 ATACAT ATACAT -ATACAT ATACAT ATACAT --ATACAT ATACAT ATACAT
403728 A
1 A
403729 CATACATACA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
4 4 0.11
6 24 0.63
7 4 0.11
8 6 0.16
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (6 bp):
ATACAT
Found at i:405094 original size:2 final size:2
Alignment explanation
Indices: 405087--405153 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
405077 ATGTATAATG
405087 CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
405128 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
405154 TACAAGAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:410639 original size:140 final size:139
Alignment explanation
Indices: 410371--410648 Score: 457
Period size: 140 Copynumber: 2.0 Consensus size: 139
410361 ATTAAGATGG
* * *
410371 GATTAAGTAAAATTATCCCCTGACTTTTGGGGTTGTGTTTGGTTTTAACTTTGGAATATTTTCGG
1 GATTAAGTAAAATCATCCCCTGACTTTTGGGGTTGTGTTTGGTTTTAACTTTGGAACATTTTCAG
410436 TGAATGATTGATCATTTGTTAACTTTAATGGATTTGTTGCAGGTTTCACGTGGGAGGCATAGGTG
66 TGAATGATTGATCATTTGTTAACTTTAATGGATTTGTTGCAGGTTTCACGTGGGAGGCATAGGTG
*
410501 CTTATCACA
131 CTGATCACA
* * *
410510 GATTAGGTAAAATCATCCCCTGATTTTTGGGGTTGTGTTTGGTTTTAACTTTGGTACATTTTCCA
1 GATTAAGTAAAATCATCCCCTGACTTTTGGGGTTGTGTTTGGTTTTAACTTTGGAACATTTT-CA
* * *
410575 GTGGATGATTGATCATTTGTTAACTTTAGTGGATTTGTTGCAGGTTTCACGTGGGAGGCTTAGGT
65 GTGAATGATTGATCATTTGTTAACTTTAATGGATTTGTTGCAGGTTTCACGTGGGAGGCATAGGT
410640 GCTGATCAC
130 GCTGATCAC
410649 TGACTTCATG
Statistics
Matches: 128, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
139 57 0.45
140 71 0.55
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (139 bp):
GATTAAGTAAAATCATCCCCTGACTTTTGGGGTTGTGTTTGGTTTTAACTTTGGAACATTTTCAG
TGAATGATTGATCATTTGTTAACTTTAATGGATTTGTTGCAGGTTTCACGTGGGAGGCATAGGTG
CTGATCACA
Found at i:411245 original size:39 final size:39
Alignment explanation
Indices: 411172--411246 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
411162 AGGTTGAACA
****
411172 AGTTCTTCTCATTATGAACTTCTTCTTCCTTATTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTGAAATATTGGATG
411211 AGTTCTTCTCATTATGAAC-TCTTCTGGAAATATTGG
1 AGTTCTTCTCATTATGAACTTCTTCT-GAAATATTGG
411247 TTAACCTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 6 0.19
39 25 0.81
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTGAAATATTGGATG
Found at i:411515 original size:136 final size:135
Alignment explanation
Indices: 411276--411747 Score: 596
Period size: 136 Copynumber: 3.5 Consensus size: 135
411266 AATTTGAAAG
* * * *
411276 GAACAAGTTATTCTCATTATGAAC-T-TTCT-CCT-T-TAGGACGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * * *
411336 CTCCATTAGAAATTTCAATCCTTCAAGTGAGGCGTCACTGATTCGAAATGCCATGAATCGAGTGA
66 CTCCATTTGAAATGTCAATCCCTCAAG-CAAGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
411401 TAGGTC
130 TAGGTC
* * * * * *
411407 GAACAAGCTCTTCTCATTATGAACTTATTTTCTCTCTGTTGGATAAGTTCTTCTCATTATGAATT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
*
411472 CTCCATTTGAAATGACAATCCCTCAAGCAAGACGTCACTGATTCGAAATGTCATGAATCGAGTGA
66 CTCCATTTGAAATGTCAATCCCTCAAGCAAG-CGTCACTGATTCGAAATGTCATGAATCGAGTGA
411537 TAGGTC
130 TAGGTC
* ** * *
411543 AAACAAAATCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGGACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
** * ** *
411608 CT-CATTTGAAAATGTTGATCCCTCAAGCGATGCGTCACTGATTTAAAATGTCATAAATCGAGTG
66 CTCCATTTG-AAATGTCAATCCCTCAAGC-AAGCGTCACTGATTCGAAATGTCATGAATCGAGTG
411672 ATAGGTC
129 ATAGGTC
* *
411679 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
411744 CTCC
66 CTCC
411748 GAAATGTTGA
Statistics
Matches: 292, Mismatches: 40, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
131 22 0.08
132 1 0.00
133 3 0.01
134 2 0.01
135 9 0.03
136 252 0.86
137 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCATTTGAAATGTCAATCCCTCAAGCAAGCGTCACTGATTCGAAATGTCATGAATCGAGTGAT
AGGTC
Found at i:411813 original size:41 final size:41
Alignment explanation
Indices: 411768--411864 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
411758 AAACATTCTT
* * *
411768 CCCGAAGGTCTT-ATCATCTTGCTCGAAAGGCTTACAGATGA
1 CCCGAAGGT-TTAAGCATCATGCTCGAAAGACTTACAGATGA
* * *
411809 CCCGAATGATTTAAGCATCATGCTCGAAAGATTTACTGATGA
1 CCCGAA-GGTTTAAGCATCATGCTCGAAAGACTTACAGATGA
411851 CCCGAAGGATTTAA
1 CCCGAAGG-TTTAA
411865 AAATCAAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 9 0.20
42 37 0.80
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
CCCGAAGGTTTAAGCATCATGCTCGAAAGACTTACAGATGA
Found at i:411834 original size:42 final size:42
Alignment explanation
Indices: 411782--411864 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
411772 AAGGTCTTAT
* * *
411782 CATCTTGCTCGAAAGGCTTACAGATGACCCGAATGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
* *
411824 CATCATGCTCGAAAGATTTACTGATGACCCGAAGGATTTAA
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAA
411865 AAATCAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:412037 original size:52 final size:52
Alignment explanation
Indices: 411976--412096 Score: 172
Period size: 55 Copynumber: 2.3 Consensus size: 52
411966 CCCCCGAAGG
411976 CTTAGTTTCTAAAATCTCATTTGAAA-ACATCAAGAAACTTCTGAAAATAAGA
1 CTTAGTTTCTAAAA-CTCATTTGAAAGACATCAAGAAACTTCTGAAAATAAGA
* *
412028 CTTAGTTTCTTTGAAAACTCATTTGAAAGTCATCAAGAAACTTCTGAAAATCAGA
1 CTTAGTTTC--T-AAAACTCATTTGAAAGACATCAAGAAACTTCTGAAAATAAGA
*
412083 CTTAGCTTCTAAAA
1 CTTAGTTTCTAAAA
412097 AAACACATTA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
52 13 0.21
53 1 0.02
54 12 0.19
55 36 0.58
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (52 bp):
CTTAGTTTCTAAAACTCATTTGAAAGACATCAAGAAACTTCTGAAAATAAGA
Found at i:417863 original size:6 final size:6
Alignment explanation
Indices: 417852--417895 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
417842 AAGGCAATAA
*
417852 AAATGC AAATGC ACATGC AAATGC AAATGC AAATGC AAATGC AA
1 AAATGC AAATGC AAATGC AAATGC AAATGC AAATGC AAATGC AA
417896 TAAAAAGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGC
Found at i:418546 original size:33 final size:33
Alignment explanation
Indices: 418509--418578 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
418499 CACTTAAAAT
418509 AATTTTAAATTAAAAGGGTATTACCCTTAATCC
1 AATTTTAAATTAAAAGGGTATTACCCTTAATCC
418542 AATTTTAAATTAAAAGGGTATTACCCTTAATCC
1 AATTTTAAATTAAAAGGGTATTACCCTTAATCC
418575 AATT
1 AATT
418579 ATGTAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (33 bp):
AATTTTAAATTAAAAGGGTATTACCCTTAATCC
Found at i:418935 original size:4 final size:4
Alignment explanation
Indices: 418926--422419 Score: 6166
Period size: 4 Copynumber: 898.2 Consensus size: 4
418916 AAATTATGTG
418926 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418974 ATAC ATAC ATAC --AC ATAC ATAC A-AC ATAC ATAC A-AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419018 ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419065 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419111 ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419157 ATAC ATAC A-AC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419203 ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC A-AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419250 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC AGAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419297 ATAC ATAC ATAC ATAC -TAC AT-C ATAC A-AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419342 -TAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419387 ATAC ATAC -TAC ATAC ATAC ATAC GATAC ATAC ATA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC
419434 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419481 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419528 A-AC ATAC ATAC CTAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419572 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419619 ATAC ATAC ATAC AT-- ATAC ATAC ATAC AT-C AT-C A-AC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419661 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419709 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419755 ATAC ATAC ATAC A-ATC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419802 --AC ATAC ATAC ATAC ATAC -TAC ATAC AT-C ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419846 ATAC ATAC ATAC ATAC ATAC -TAC A-AC A-AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419891 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419936 ATAC A-AC -T-C ATAC AT-C ATAC A-AC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419977 ATAC ATAC ATAC AT-- ATAC ATAC ATAC --AC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420019 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420065 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420113 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420159 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420206 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420254 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420301 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420349 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420397 ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420443 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420490 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420535 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420583 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420631 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420679 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420727 ATAC ATAC ATAC -TAC ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420774 --AC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420819 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420867 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420915 ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420962 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421008 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421054 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421101 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421149 A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421196 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421244 ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421291 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421339 ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421385 ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421434 --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421480 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421528 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421576 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421623 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421671 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421718 ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421765 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421813 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421861 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
421909 ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
421957 ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422003 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422050 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422098 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422144 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422189 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422237 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422283 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422331 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
422379 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
422420 GTGACGTAAA
Statistics
Matches: 3369, Mismatches: 18, Indels: 206
0.94 0.01 0.06
Matches are distributed among these distances:
2 45 0.01
3 164 0.05
4 3151 0.94
5 9 0.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:427532 original size:2 final size:2
Alignment explanation
Indices: 427525--427551 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
427515 ATAATAGTTA
427525 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 A
427552 ATTAAGGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:428079 original size:43 final size:44
Alignment explanation
Indices: 427898--428098 Score: 239
Period size: 43 Copynumber: 4.7 Consensus size: 44
427888 AAAAGTCAAG
* * * **
427898 ATCTATAGCGGCGCTTTT-AAAACAAACGCCGCAAAAGGTTGAA
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCCAA
* * *
427941 ATCTATAGCGGCTTTTTTGGATACAAACGCCGCAAAAGGTCGAG
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCCAA
* * * *
427985 ATCTATAGTGGTGTTTTTGGA-ACAAACGCCACAAAAGGT-CAG
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCCAA
428027 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGG-CCAA
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCCAA
* * *
428070 ATCTCTAGCGACGTTTTTTGATACAAACG
1 ATCTATAGCGGCGTTTTTGGATACAAACG
428099 TCGATGATTA
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
42 21 0.15
43 77 0.56
44 39 0.28
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCCAA
Found at i:432607 original size:443 final size:444
Alignment explanation
Indices: 431781--432668 Score: 1611
Period size: 443 Copynumber: 2.0 Consensus size: 444
431771 AAATTTTTTT
*
431781 ATGTTCAAAGATTTGAAACTAGACATATTTATTGATTTAATTGGATTAGAGTAAATATTTTTAGA
1 ATGTTCAAAGATTTGAAACTAGACATATTTATTGATTTAATTGGATTAGAGTAAATAATTTTAGA
*
431846 TTTTTTTTGTAGATTAATTTATTTATTTAATGTAATCAATTATTTAATATTAAAAAACATTTGGT
66 TTTTTTTTGCAGATTAATTTATTTATTTAATGTAATCAATTATTTAATATTAAAAAACATTTGGT
*
431911 GCTAATCTGGATCGACCCATGTCGCACACTTGGTTTTAGTGGGTGAGTCTCCTAGTATAGATTTT
131 GCTAATCTGGATCGACCCATGTCGCACACTTGGTTTTAGTGGGTGAGTCTCCTAGAATAGATTTT
*
431976 CTGCATACACAATTGCTTAAGCGATATCAAATGACTTACTACTTGAACCAACCCATAACGTGTCA
196 CTGCATACACAATTGCTTAAGCGATATCAAATGAATTACTACTTGAACCAACCCATAACGTGTCA
*
432041 CAAACACATAAATTCTTATTCAAAATTGGAAAAAAAAGCTCAAGAAAAAAGAAAAACAAATGACA
261 CAAACACAGAAATTCTTATTCAAAATTGGAAAAAAAAGCTCAAGAAAAAAGAAAAACAAATGACA
*
432106 TTGTATGAAAAAACAATAGAACTAATATTCACTGACGGTCGACAATCAACATTAAGATCAATGTC
326 TAGTATGAAAAAACAATAGAACTAATATTCACTGACGGTCGACAATCAACATTAAGATCAATGTC
432171 GTTATCGGCTAAAC-AAAAAAATGAAGAATACGACGCAAAAATATTGAAAAAAA
391 GTTATCGGCTAAACAAAAAAAATGAAGAATACGACGCAAAAATATTGAAAAAAA
432224 ATGTTCAAAGATTTGAAACTAGACATATTTATTGATTTAATTGGATTAGAGTAAATAATTTTAGA
1 ATGTTCAAAGATTTGAAACTAGACATATTTATTGATTTAATTGGATTAGAGTAAATAATTTTAGA
* *
432289 TTTTTTTTGCAGATTTATTTATTTATTTAATGTAATTAATTATTTAATATT-AAAAACATTTGGT
66 TTTTTTTTGCAGATTAATTTATTTATTTAATGTAATCAATTATTTAATATTAAAAAACATTTGGT
* * *
432353 GCTAATCTGGATCGACCCGTGTCGTACACTTGGTTTTGGTGGGTGAGTCTCCTAGAATAGATTTT
131 GCTAATCTGGATCGACCCATGTCGCACACTTGGTTTTAGTGGGTGAGTCTCCTAGAATAGATTTT
* *
432418 CTGCATACACAATTGTTTAAGTGATATCAAACT-AATTACTACTTGAACCAACCCATAACGTGTC
196 CTGCATACACAATTGCTTAAGCGATATCAAA-TGAATTACTACTTGAACCAACCCATAACGTGTC
*
432482 ACAAATACAGAAATTCTTATTCAAAATTGGAAAAAAAAAGCTCAAGAAAAAAGAAAAACAAATGA
260 ACAAACACAGAAATTCTTATTCAAAATTGG-AAAAAAAAGCTCAAGAAAAAAGAAAAACAAATGA
432547 CATAGTATGAAAAAACAATAGAACTAATATTCACTGACGGTCGACAATCAACATTAAGATCAATG
324 CATAGTATGAAAAAACAATAGAACTAATATTCACTGACGGTCGACAATCAACATTAAGATCAATG
432612 TCGTTATCGGCTAAACAAAAAAAATGAAGAATACGACGCAAAAATATTGAAAAAAA
389 TCGTTATCGGCTAAACAAAAAAAATGAAGAATACGACGCAAAAATATTGAAAAAAA
432668 A
1 A
432669 CTACGTTAAA
Statistics
Matches: 428, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
442 161 0.38
443 227 0.53
444 40 0.09
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (444 bp):
ATGTTCAAAGATTTGAAACTAGACATATTTATTGATTTAATTGGATTAGAGTAAATAATTTTAGA
TTTTTTTTGCAGATTAATTTATTTATTTAATGTAATCAATTATTTAATATTAAAAAACATTTGGT
GCTAATCTGGATCGACCCATGTCGCACACTTGGTTTTAGTGGGTGAGTCTCCTAGAATAGATTTT
CTGCATACACAATTGCTTAAGCGATATCAAATGAATTACTACTTGAACCAACCCATAACGTGTCA
CAAACACAGAAATTCTTATTCAAAATTGGAAAAAAAAGCTCAAGAAAAAAGAAAAACAAATGACA
TAGTATGAAAAAACAATAGAACTAATATTCACTGACGGTCGACAATCAACATTAAGATCAATGTC
GTTATCGGCTAAACAAAAAAAATGAAGAATACGACGCAAAAATATTGAAAAAAA
Found at i:433057 original size:29 final size:29
Alignment explanation
Indices: 433024--433083 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
433014 ATTTGCAAAC
433024 TTACAAGGAAATTCTCAAAAGGTAGATTG
1 TTACAAGGAAATTCTCAAAAGGTAGATTG
433053 TTACAAGGAAATTCTCAAAAGGTAGATTG
1 TTACAAGGAAATTCTCAAAAGGTAGATTG
433082 TT
1 TT
433084 TGCACAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (29 bp):
TTACAAGGAAATTCTCAAAAGGTAGATTG
Found at i:433438 original size:20 final size:20
Alignment explanation
Indices: 433386--433440 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
433376 TGGAGCGTGG
*
433386 GGGGAATCGGTACCCCTTAA
1 GGGGAATCGGTTCCCCTTAA
*
433406 GGGGAATCAGTTCCCCTTAA
1 GGGGAATCGGTTCCCCTTAA
433426 GGGGAATCGGTTCCC
1 GGGGAATCGGTTCCC
433441 TAAGTGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (20 bp):
GGGGAATCGGTTCCCCTTAA
Found at i:434224 original size:15 final size:15
Alignment explanation
Indices: 434198--434245 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
434188 TTCAAACATC
*
434198 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
434214 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
434231 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
434246 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:436259 original size:20 final size:21
Alignment explanation
Indices: 436207--436267 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
436197 TTCCCCTGTG
436207 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
436230 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
* *
436250 GGGGGTATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
436268 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:440118 original size:20 final size:20
Alignment explanation
Indices: 440076--440118 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
440066 TTATTTTCAT
* *
440076 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
440096 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
440116 TTT
1 TTT
440119 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:445973 original size:16 final size:16
Alignment explanation
Indices: 445952--445982 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
445942 CCCGATTATA
445952 TATATTTTTTATATTT
1 TATATTTTTTATATTT
445968 TATATTTTTTATATT
1 TATATTTTTTATATT
445983 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATATTTTTTATATTT
Found at i:449076 original size:14 final size:15
Alignment explanation
Indices: 449054--449084 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
449044 TGGCAGATCG
449054 AAATCCAAAACGGGA
1 AAATCCAAAACGGGA
449069 AAAT-CAAAACGGGA
1 AAATCCAAAACGGGA
449083 AA
1 AA
449085 GAAAGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.58, C:0.16, G:0.19, T:0.06
Consensus pattern (15 bp):
AAATCCAAAACGGGA
Found at i:454858 original size:32 final size:32
Alignment explanation
Indices: 454813--454876 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
454803 GCTTTAAGAA
454813 GTGATAAAAGAGTGATGAGTAAACCAAACTAT
1 GTGATAAAAGAGTGATGAGTAAACCAAACTAT
*
454845 GTGATAAAGGAGTGATGAGTAAACCAAACTAT
1 GTGATAAAAGAGTGATGAGTAAACCAAACTAT
454877 CTCGCAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (32 bp):
GTGATAAAAGAGTGATGAGTAAACCAAACTAT
Found at i:461909 original size:2 final size:2
Alignment explanation
Indices: 461904--461928 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
461894 CAAAGATATA
461904 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
461929 ATAAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:465405 original size:33 final size:33
Alignment explanation
Indices: 465368--465433 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
465358 AAAAAATCAT
465368 CAAAAATAAGTCTTTAGTATTTCTAGGAAAATA
1 CAAAAATAAGTCTTTAGTATTTCTAGGAAAATA
465401 CAAAAATAAGTCTTTAGTATTTCTAGGAAAATA
1 CAAAAATAAGTCTTTAGTATTTCTAGGAAAATA
465434 GTATGTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (33 bp):
CAAAAATAAGTCTTTAGTATTTCTAGGAAAATA
Found at i:465974 original size:22 final size:23
Alignment explanation
Indices: 465949--465992 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
465939 AATTTTTTAT
*
465949 TAAATTATCTTC-TTTATTTAAA
1 TAAAATATCTTCATTTATTTAAA
*
465971 TAAAATATTTTCAATTTATTTA
1 TAAAATATCTTC-ATTTATTTA
465993 TTTTTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
24 8 0.44
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
TAAAATATCTTCATTTATTTAAA
Found at i:473335 original size:31 final size:31
Alignment explanation
Indices: 473297--473607 Score: 498
Period size: 31 Copynumber: 10.0 Consensus size: 31
473287 AGGGTCGAGG
*
473297 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
473328 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
473359 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
473390 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
473421 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * *
473452 ATTTACCTATGTTCTTCGGGAAAAATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
473483 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
473514 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
473545 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
473576 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
473607 G
1 G
473608 GTCCTTCGGG
Statistics
Matches: 259, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
31 258 1.00
32 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:476419 original size:16 final size:16
Alignment explanation
Indices: 476398--476440 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
476388 GGTAATTAAA
476398 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
476414 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
476431 GAGTGATAAG
1 GATTGATAAG
476441 AACTGATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:477568 original size:31 final size:31
Alignment explanation
Indices: 477530--477716 Score: 313
Period size: 31 Copynumber: 6.0 Consensus size: 31
477520 AGGGTCGAGG
477530 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
477561 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
477592 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
477623 GTTTACATATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
477654 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
477685 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
477716 G
1 G
477717 GTCCTTCGGG
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:482680 original size:182 final size:182
Alignment explanation
Indices: 482296--482680 Score: 639
Period size: 182 Copynumber: 2.1 Consensus size: 182
482286 ATTAAATTTT
* * *
482296 AAATATTAAATATATTATATATAACATATGGGTTCAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAAAATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
*
482361 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
* * * *
482426 TATTTTATAATTATATATTATTTAAATTAATTGTAAACTTTTTTTAATTAAA
131 CATTTTATAATTATATATTATATAAATTAATTATAAACTTTTTTGAATTAAA
482478 AAATATTAAATATATTATATATAAAATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAAAATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATA
*
482542 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAATT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATT
482607 TTCATTTTATAATTATATATTATATAAATTAATTATAAACTTTTTTGAATTAAA
129 TTCATTTTATAATTATATATTATATAAATTAATTATAAACTTTTTTGAATTAAA
* *
482661 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
482681 AATTAGAAAA
Statistics
Matches: 190, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
181 2 0.01
182 118 0.62
183 70 0.37
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (182 bp):
AAATATTAAATATATTATATATAAAATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
CATTTTATAATTATATATTATATAAATTAATTATAAACTTTTTTGAATTAAA
Found at i:485972 original size:44 final size:44
Alignment explanation
Indices: 485836--486053 Score: 194
Period size: 43 Copynumber: 5.0 Consensus size: 44
485826 TAAAAATATT
* * * * *
485836 GCAAAAAGTCAAGATCTATAGAGGCGTTTTT-AAAACAAAAGCC
1 GCAAAAAGTCAAGATCTATAGCGACGTTTTTGGATACAAACGCC
* * * * * *
485879 GCAAAATGTC-ATATCTATAGCGACCTTTTTGAATACCAACACC
1 GCAAAAAGTCAAGATCTATAGCGACGTTTTTGGATACAAACGCC
* **
485922 GCAAAAGGTTGAGATCTATAGCGACGTTTTTGGA-ACAAACGCC
1 GCAAAAAGTCAAGATCTATAGCGACGTTTTTGGATACAAACGCC
* * * *
485965 ACAAAAAGTCAAGATCTATAGTGGCGTTTTTTGATACAAACGCC
1 GCAAAAAGTCAAGATCTATAGCGACGTTTTTGGATACAAACGCC
* * * *
486009 GCAAAAGGTC-ATATCTCTAGC-ATCGTTTTTTGATACAAACGCC
1 GCAAAAAGTCAAGATCTATAGCGA-CGTTTTTGGATACAAACGCC
486052 GC
1 GC
486054 TAATTACCAT
Statistics
Matches: 142, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
42 16 0.11
43 89 0.63
44 37 0.26
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (44 bp):
GCAAAAAGTCAAGATCTATAGCGACGTTTTTGGATACAAACGCC
Found at i:486320 original size:2 final size:2
Alignment explanation
Indices: 486313--486345 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
486303 AAATTGTACT
486313 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
486346 TTAACAAGTT
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:496303 original size:20 final size:21
Alignment explanation
Indices: 496278--496329 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
496268 TTTTCCCAAT
*
496278 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
496298 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
496319 TCGCAATGCGA
1 TCGCAATGCGA
496330 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:496373 original size:21 final size:21
Alignment explanation
Indices: 496349--496411 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
496339 TCGCAATACA
*
496349 ATTTTCCTAATTCGCATTGCG
1 ATTTTCATAATTCGCATTGCG
* * * * *
496370 ATTTACGT-ATTCACGTTGTG
1 ATTTTCATAATTCGCATTGCG
*
496390 ATTTTCATAATTCGCAATGCG
1 ATTTTCATAATTCGCATTGCG
496411 A
1 A
496412 ATACGTAAAT
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (21 bp):
ATTTTCATAATTCGCATTGCG
Found at i:496426 original size:20 final size:20
Alignment explanation
Indices: 496401--496474 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
496391 TTTTCATAAT
*
496401 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
496421 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* * *
496441 TCGCAATGCAAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
496462 TCGCAATGCGAAT
1 TCGCAATGCGAAT
496475 CTGACTATCG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.61
21 17 0.39
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:501119 original size:18 final size:19
Alignment explanation
Indices: 501081--501120 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
501071 GAATAATAAG
*
501081 AAAATGAAAATAGTAGAAA
1 AAAAGGAAAATAGTAGAAA
501100 AAAAGGAAAATAGTAGAAA
1 AAAAGGAAAATAGTAGAAA
501119 AA
1 AA
501121 CATATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (19 bp):
AAAAGGAAAATAGTAGAAA
Found at i:501152 original size:15 final size:15
Alignment explanation
Indices: 501132--501171 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
501122 ATATATGTAT
501132 ATATATAAATATAGG
1 ATATATAAATATAGG
501147 ATATATAAATATAGG
1 ATATATAAATATAGG
501162 ATATA-AAATA
1 ATATATAAATA
501172 GATAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (15 bp):
ATATATAAATATAGG
Done.