Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 20
Found at i:4783464 original size:34 final size:34
Alignment explanation
Indices: 4783420--4783498 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
4783410 CTTACACCTA
* * *
4783420 GAGTGAATATTTATATATCTGATGATTGCACTTG
1 GAGTGCATATTTATATATCTGATGATAGCACATG
* * * *
4783454 GAGTGCATATTTTTGTTTCTGGTGATAGCACATG
1 GAGTGCATATTTATATATCTGATGATAGCACATG
*
4783488 GAGTGCTTATT
1 GAGTGCATATT
4783499 GTGCACACTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (34 bp):
GAGTGCATATTTATATATCTGATGATAGCACATG
Found at i:4783579 original size:21 final size:21
Alignment explanation
Indices: 4783550--4783589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4783540 TATACATTGG
4783550 GTTACGAAA-GTGAATGAGAAA
1 GTTACGAAATGTG-ATGAGAAA
*
4783571 GTTATGAAATGTGATGAGA
1 GTTACGAAATGTGATGAGA
4783590 TGGAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (21 bp):
GTTACGAAATGTGATGAGAAA
Found at i:4790848 original size:35 final size:35
Alignment explanation
Indices: 4790756--4790827 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
4790746 CCAAAAAAGA
4790756 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
4790791 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
4790826 AG
1 AG
4790828 GGTTTTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:4791219 original size:13 final size:14
Alignment explanation
Indices: 4791203--4791238 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4791193 ATTATATGGA
4791203 TATTTTATTCAT-T
1 TATTTTATTCATGT
4791216 TATTTTATTCATGT
1 TATTTTATTCATGT
4791230 TATTATTAT
1 TATT-TTAT
4791239 ACGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.57
14 5 0.24
15 4 0.19
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTATTCATGT
Found at i:4791487 original size:2 final size:2
Alignment explanation
Indices: 4791482--4791516 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4791472 TCTTATAACT
4791482 TA 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 TA T
4791517 TATTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4791688 original size:39 final size:37
Alignment explanation
Indices: 4791629--4791701 Score: 101
Period size: 39 Copynumber: 1.9 Consensus size: 37
4791619 GAGGGCCCAT
*
4791629 TTTTGTTTTATTTCTAACTAAAACTCTCCCACTTTCCTC
1 TTTTGTCTTATTTCTAACTAAAAC-C-CCCACTTTCCTC
* *
4791668 TTTTGTCTTATTTCTGACTAAAGCCCCCACTTTC
1 TTTTGTCTTATTTCTAACTAAAACCCCCACTTTC
4791702 GGTGAAGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 9 0.29
38 1 0.03
39 21 0.68
ACGTcount: A:0.19, C:0.29, G:0.05, T:0.47
Consensus pattern (37 bp):
TTTTGTCTTATTTCTAACTAAAACCCCCACTTTCCTC
Found at i:4799788 original size:14 final size:14
Alignment explanation
Indices: 4799769--4799795 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4799759 GATGAAAACT
4799769 TCAAGATTCCAGAG
1 TCAAGATTCCAGAG
4799783 TCAAGATTCCAGA
1 TCAAGATTCCAGA
4799796 CAGATTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAG
Found at i:4800001 original size:106 final size:106
Alignment explanation
Indices: 4799814--4800545 Score: 981
Period size: 106 Copynumber: 7.0 Consensus size: 106
4799804 AGCTAGAGTT
* *
4799814 AATTTCAACTTCACAGT-AAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAG
1 AATTTCAACTTCACA-TCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* *
4799878 GGACGACTGTTTGTCAACAAGA-AATTTCCCAATTTCAGAGCC
65 GGACGGCTGGTTGTCAACAA-ACAATTTCCCAATTTCAGAGCC
* * *
4799920 AATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACACAAGTTCAACTTCAAAACGAAGG
1 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
* *
4799985 GACGGCTGGTTATCAACAAACAATTTCCCAATTTCAGAGTC
66 GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
* * * *
4800026 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAATGAAAG
1 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
** * *
4800091 GATAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAG-C
66 GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
* *
4800131 -----CAA--T---AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
* * * * * *
4800186 GACTGCTAGTTGTCAATAAACAATTTCCCAATTTTAGGGTC
66 GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
4800227 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC--CACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
*
4800290 GACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
66 GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
* * *
4800331 AATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACACAAGTTCAACTTCAAAACGAAGG
1 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
* *
4800396 GACGGCTGGTTATCAACAAACAATTTCCCAATTTCAGAGTC
66 GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
* * * **
4800437 AATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAATGAAAA
1 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
* * * *
4800502 GACAGCTGGTTGTTAACAAATAATCTCCCAATTTCAGAGCC
66 GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
4800543 AAT
1 AAT
4800546 AGCGAAGGAT
Statistics
Matches: 550, Mismatches: 61, Indels: 30
0.86 0.10 0.05
Matches are distributed among these distances:
95 78 0.14
96 1 0.00
98 1 0.00
100 3 0.01
101 3 0.01
103 1 0.00
104 95 0.17
105 3 0.01
106 365 0.66
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (106 bp):
AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
GACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
Found at i:4800620 original size:411 final size:411
Alignment explanation
Indices: 4799814--4801297 Score: 2072
Period size: 411 Copynumber: 3.6 Consensus size: 411
4799804 AGCTAGAGTT
*
4799814 AATTTCAACTTCACAGT-AAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAG
1 AATTTCAACTTCACA-TCGAAGGATATTGGACTCAAGAC--CACAAGTTCAACTTCACAACGAAG
*
4799878 GGACGACTGTTTGTCAACAAGA-AATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
63 GGACGACTGGTTGTCAACAA-ATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
* *
4799942 ATGTTGGACTCGGGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACA
127 ATATTGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACA
*
4800007 ATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
192 ATTTCCCAATTCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
*
4800072 TTCAACTTCACAATGAAAGGATAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAGCCAATAG
257 TTCAACTTCACAATGAAAGGACAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAGCCAATAG
4800137 CGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAA
322 CGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAA
* *
4800202 TAAACAATTTCCCAATTTTAGGGTC
387 CAAACAATTTCCCAATTTCAGGGTC
*
4800227 AATTTCAACTTCACATCGAAGGATATTGGACTCGAGACCACAAGTTCAACTTCACAACGAAGGGA
1 AATTTCAACTTCACATCGAAGGATATTGGACTCAAGACCACAAGTTCAACTTCACAACGAAGGGA
* *
4800292 CGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGT
66 CGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATAT
*
4800357 TGGACTCGGGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTT
131 TGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTT
* *
4800422 CCCAATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCA
196 CCCAATTCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCA
* *
4800487 ACTTCACAATGAAAAGACAGCTGGTTGTTAACAAATAATCTCCCAATTTCAGAGCCAATAGCGAA
261 ACTTCACAATGAAAGGACAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAGCCAATAGCGAA
*
4800552 GGATATTGCACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAA
326 GGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAA
4800617 CAATTTCCCAATTTCAGGGTC
391 CAATTTCCCAATTTCAGGGTC
*
4800638 AATTTCAACTTCACATCGAAGGATTTTGGACTCAAGACCACAAGTTCAACTTCACAACGAAGGGA
1 AATTTCAACTTCACATCGAAGGATATTGGACTCAAGACCACAAGTTCAACTTCACAACGAAGGGA
* * * * *
4800703 CGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCTAATTTCAATTTCACAGCGAATGATAT
66 CGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATAT
** * * *
4800768 TGGACTCGAGAGGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTT
131 TGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTT
* * * * *
4800833 CCTAATTCCAGGGTCAATTTCAAC-T---AGCGAAGGATATTGCACTCGAGACGACAC-AGTTCA
196 CCCAATTCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCA
* * * * * * *
4800893 ACTTCACAACGAAGGGACTGCTAGTTGTCAACAAACAATTTCCCAATTTCAGGGTCAATTTCAAC
261 ACTTCACAATGAAAGGACAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAG-C-----CAA-
* * * * *
4800958 TTCACATCGAAGGATTTTGGACTCAAGAC--CACAAGTTCAACTTCACAACGAAGGGACGGCTGG
319 -T---AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAG
* *
4801021 TTGTCAACAAATAATTTCCCAATTTCAGAG-C
380 TTGTCAACAAACAATTTCCCAATTTCAGGGTC
* * *
4801052 TAATTTCAATTTCACAGCGAATGATATTGGACTCGAGAGGA-CACAAGTTCAACTTCACAACGAA
1 -AATTTCAACTTCACATCGAAGGATATTGGACTC-A-A-GACCACAAGTTCAACTTCACAACGAA
* * * * *
4801116 GGGACGGCTGGTTGTCAACAAATAATTTCCTAATTCCAGGGTCAATTTCAACTTCACATCGAAGG
62 GGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
* * * * ** * * * *
4801181 ATATTAGACTCAAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGGTTGGCTGTCAACAAACA
127 ATATTGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACA
* * * * * * *
4801246 ATTTTCCAGTTCCAAAGCCAATTTCAACTTCACGGTGGAGGATATTGGACTC
192 ATTTCCCAATTCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
4801298 GGAACATTAC
Statistics
Matches: 968, Mismatches: 82, Indels: 34
0.89 0.08 0.03
Matches are distributed among these distances:
406 51 0.05
407 26 0.03
410 2 0.00
411 564 0.58
412 4 0.00
413 34 0.04
414 2 0.00
415 89 0.09
416 1 0.00
417 177 0.18
418 3 0.00
421 15 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (411 bp):
AATTTCAACTTCACATCGAAGGATATTGGACTCAAGACCACAAGTTCAACTTCACAACGAAGGGA
CGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATAT
TGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTT
CCCAATTCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCA
ACTTCACAATGAAAGGACAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAGCCAATAGCGAA
GGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAA
CAATTTCCCAATTTCAGGGTC
Found at i:4801172 original size:106 final size:106
Alignment explanation
Indices: 4800546--4801298 Score: 997
Period size: 106 Copynumber: 7.2 Consensus size: 106
4800536 CAGAGCCAAT
* * *
4800546 AGCGAAGGATATTGCACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
*
4800611 AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
66 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
* * *
4800652 ATCGAAGGATTTTGGACTCAAGAC--CACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
* *
4800715 AACAAATAATTTCCCAATTTCAGAG-CTAATTTCAATTTCAC
66 AACAAATAATTTCCCAATTTCAGGGTC-AATTTCAACTTCAC
* *
4800756 AGCGAATGATATTGGACTCGAGAGGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
* *
4800821 AACAAATAATTTCCTAATTCCAGGGTCAATTTCAAC-T---
66 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
* * *
4800858 AGCGAAGGATATTGCACTCGAGACGACAC-AGTTCAACTTCACAACGAAGGGACTGCTAGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
*
4800922 AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
66 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
* * *
4800963 ATCGAAGGATTTTGGACTCAAGAC--CACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
* *
4801026 AACAAATAATTTCCCAATTTCAGAG-CTAATTTCAATTTCAC
66 AACAAATAATTTCCCAATTTCAGGGTC-AATTTCAACTTCAC
* *
4801067 AGCGAATGATATTGGACTCGAGAGGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
* *
4801132 AACAAATAATTTCCTAATTCCAGGGTCAATTTCAACTTCAC
66 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
* * * * * ** * * *
4801173 ATCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGGTTGGCTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
* * * * ** *
4801238 AACAAACAATTTTCCAGTTCCAAAGCCAATTTCAACTTCAC
66 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
* * *
4801279 GGTGGAGGATATTGGACTCG
1 AGCGAAGGATATTGGACTCG
4801299 GAACATTACA
Statistics
Matches: 565, Mismatches: 69, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
101 66 0.12
102 27 0.05
103 5 0.01
104 180 0.32
105 21 0.04
106 264 0.47
107 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (106 bp):
AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCAC
Found at i:4801267 original size:722 final size:717
Alignment explanation
Indices: 4799832--4801267 Score: 2164
Period size: 722 Copynumber: 2.0 Consensus size: 717
4799822 CTTCACAGTA
*
4799832 AAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGTTTGTCAACA
1 AAGGATATTGCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGTTTGTCAACA
**
4799897 AGAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACA
66 AGAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCAAGAC-ACA
4799962 CAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTTCCCAATTTCAGAGTCA
130 CAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTTCCCAATTTCAGAGTCA
*
4800027 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAATGAAAGG
195 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAAGG
* * *
4800092 ATAGCTGGTTGTCAACAAATAATCTCCCAATTTCAGAGCCAATAGCGAAGGATATTGGACTCGAG
260 ACAGCTGGTTGTCAACAAATAATCTCCCAATTCCAGAGCCAATAGCGAAGGATATTGCACTCGAG
* *
4800157 ACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAATAAACAATTTCCCAATTTTA
325 ACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAACAATTTCCCAATTTCA
*
4800222 GGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACCACAAGTTCAACTTCACAACGA
390 GGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACCACAAGTTCAACTTCACAACGA
*
4800287 AGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAG
455 AGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAG
* *
4800352 GATGTTGGACTCGGGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAAC
520 GATATTGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAAC
* *
4800417 AATTTCCCAATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAA
585 AATTTCCCAATTCCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAA
* * * * * *
4800482 GTTCAACTTCACAATGAAAAGACAGCTGGTTGTTAACAAATAATCTCCCAATTTCAGAGCCAATA
650 GCTCAACTTCACAATGAAAAGACAGCTGGCTGTCAACAAACAATCTCCCAATTCCAAAGCCAATA
4800547 GCG
715 GCG
* *
4800550 AAGGATATTGCACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTG-CTAG-TTGTCAA
1 AAGGATATTGCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GACT-GTTTGTCAA
* * *
4800613 CAA-ACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATTTTGGACTCAAGAC-
64 CAAGA-AATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCAAGACA
* * *
4800676 CACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAG-
128 CACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTTCCCAATTTCAGAGT
* * * **
4800740 CTAATTTCAATTTCACAGCGAATGATATTGGACTCGAGAGGACACAAGTTCAACTTCACAACGAA
193 C-AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAA
* * * * *
4800805 GGGACGGCTGGTTGTCAACAAATAATTTCCTAATTCCAGGGTCAATTTCAACTAGCGAAGGATAT
257 AGGACAGCTGGTTGTCAACAAATAATCTCCCAATTCCAGAG-C-----CAA-TAGCGAAGGATAT
4800870 TGCACTCGAGACGACAC-AGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAACAATTT
315 TGCACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAACAATTT
*
4800934 CCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATTTTGGACTCAAGACCACAAGTTCAAC
380 CCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACCACAAGTTCAAC
* * * *
4800999 TTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCTAATTTCAATTT
445 TTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
* ** *
4801064 CACAGCGAATGATATTGGACTCGAGAGGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTT
510 CACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTT
* * * * *
4801129 GTCAACAAATAATTTCCTAATTCCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAA
575 ATCAACAAACAATTTCCCAATTCCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAA
* ** * * * * * *
4801194 GACAACACAAGCTCAACTTCACAGTGAAGGGGCGGTTGGCTGTCAACAAACAATTTTCCAGTTCC
640 GACAACACAAGCTCAACTTCACAATGAAAAGACAGCTGGCTGTCAACAAACAATCTCCCAATTCC
4801259 AAAGCCAAT
705 AAAGCCAAT
4801268 TTCAACTTCA
Statistics
Matches: 645, Mismatches: 62, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
715 1 0.00
716 152 0.24
717 2 0.00
718 112 0.17
719 2 0.00
722 347 0.54
723 29 0.04
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (717 bp):
AAGGATATTGCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGTTTGTCAACA
AGAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCAAGACACAC
AAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAATTTCCCAATTTCAGAGTCAA
TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAAGGA
CAGCTGGTTGTCAACAAATAATCTCCCAATTCCAGAGCCAATAGCGAAGGATATTGCACTCGAGA
CGACACAAGTTCAACTTCACAACGAAGGGACTGCTAGTTGTCAACAAACAATTTCCCAATTTCAG
GGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACCACAAGTTCAACTTCACAACGAA
GGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
ATATTGGACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACA
ATTTCCCAATTCCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAG
CTCAACTTCACAATGAAAAGACAGCTGGCTGTCAACAAACAATCTCCCAATTCCAAAGCCAATAG
CG
Found at i:4801725 original size:35 final size:35
Alignment explanation
Indices: 4801633--4801704 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
4801623 ACCAAAAAGA
*
4801633 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTAGATTAGGACTCAAATACTAGTCTAAAAT
4801668 AGAGTTAGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTAGATTAGGACTCAAATACTAGTCTAAAAT
4801703 AG
1 AG
4801705 GGTTTATTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (35 bp):
AGAGTTAGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:4802164 original size:2 final size:2
Alignment explanation
Indices: 4802157--4802187 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4802147 ATTTTATTGT
4802157 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 T
4802188 TTTCTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4802555 original size:41 final size:39
Alignment explanation
Indices: 4802493--4802569 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 39
4802483 GAGTGTCCAT
* *
4802493 TTTTTGTTTTATTTCTAACTAAAGTCTCTCCCACTTTCCTC
1 TTTTTGTCTTATTTCTAACTAAAG-C-CCCCCACTTTCCTC
*
4802534 TTTTTGTCTTATTTCTGACTAAAGCCCCCCACTTTC
1 TTTTTGTCTTATTTCTAACTAAAGCCCCCCACTTTC
4802570 GGTGAAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 10 0.30
40 1 0.03
41 22 0.67
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.48
Consensus pattern (39 bp):
TTTTTGTCTTATTTCTAACTAAAGCCCCCCACTTTCCTC
Found at i:4802727 original size:2 final size:2
Alignment explanation
Indices: 4802653--4802708 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
4802643 TACTTTGATG
4802653 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4802694 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
4802709 TTTCAAATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4802779 original size:14 final size:14
Alignment explanation
Indices: 4802760--4802807 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
4802750 CATTATCTTA
*
4802760 TTTATTTATTTTAT
1 TTTATTCATTTTAT
*
4802774 TTTATTCCTTTTAT
1 TTTATTCATTTTAT
4802788 TTTATTC-TCTTTAT
1 TTTATTCAT-TTTAT
*
4802802 CTTATT
1 TTTATT
4802808 TGTTTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 1 0.03
14 29 0.97
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTCATTTTAT
Found at i:4821683 original size:20 final size:20
Alignment explanation
Indices: 4821638--4821709 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
4821628 TTTTCAATTA
*
4821638 CAGTATCGATACCTTCCTC-T
1 CAGTATCGATA-CTTCCACAT
**
4821658 TGGTATCGATACTTCCACAT
1 CAGTATCGATACTTCCACAT
* **
4821678 CAGTATCGATACTGCTTGCAT
1 CAGTATCGATACTTC-CACAT
4821699 CAGTATCGATA
1 CAGTATCGATA
4821710 TTGTTCATCG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.14
20 22 0.52
21 14 0.33
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (20 bp):
CAGTATCGATACTTCCACAT
Found at i:4827531 original size:16 final size:16
Alignment explanation
Indices: 4827510--4827549 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
4827500 AAAATCAAAA
4827510 TCCCCAAATTGATTTT
1 TCCCCAAATTGATTTT
4827526 TCCCCAAATTGATTTT
1 TCCCCAAATTGATTTT
4827542 TCCCCAAA
1 TCCCCAAA
4827550 GCCTAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (16 bp):
TCCCCAAATTGATTTT
Found at i:4832282 original size:29 final size:29
Alignment explanation
Indices: 4832235--4832301 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
4832225 AAGTCAACGG
* * *
4832235 GTTGACTCGGATGAGTTAACTCATACCGT
1 GTTGACTCGAATGAGTTAACTCAGACCGA
*
4832264 GTTGACTCGAATG-GTTTAACTCAGACTGA
1 GTTGACTCGAATGAG-TTAACTCAGACCGA
4832293 GTTGACTCG
1 GTTGACTCG
4832302 GTGAATGGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (29 bp):
GTTGACTCGAATGAGTTAACTCAGACCGA
Found at i:4834837 original size:97 final size:98
Alignment explanation
Indices: 4834633--4834849 Score: 250
Period size: 97 Copynumber: 2.2 Consensus size: 98
4834623 AAATAGAAAA
*
4834633 CCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAAACAGAAACAATTCATATTTTCCAGTG
1 CCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAAACAGAAACAATTCATATTTTCCAATG
**
4834698 AAAACAGGAAACCCAATAATACATTTCAGGTAT
66 AAAACAGGAAACCCAATAATACATACCAGGTAT
* * *
4834731 -CATAATTCATAAACCAGTAAATTCCATGATTCCATAAATCATG-AACAATTTATAGTTTT-CAA
1 CCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAAACA-GAAACAATTCATA-TTTTCCAA
* * *
4834793 TGAAAAC-TGAAA-TCAGAT-ATCACATACCATGT-T
64 TGAAAACAGGAAACCCA-ATAAT-ACATACCAGGTAT
*
4834826 GCCATGGTTCATAAACCAGTAAAT
1 -CCATAGTTCATAAACCAGTAAAT
4834850 CAATACTTTC
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
95 5 0.05
96 14 0.14
97 78 0.76
98 5 0.05
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (98 bp):
CCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAAACAGAAACAATTCATATTTTCCAATG
AAAACAGGAAACCCAATAATACATACCAGGTAT
Found at i:4842639 original size:29 final size:28
Alignment explanation
Indices: 4842606--4842660 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
4842596 TATTAAGAAG
4842606 TTAATATATTT-TTATTATATTATAATTAT
1 TTAATA-ATTTATTATTATATTA-AATTAT
*
4842635 TTAATAATTTATTATTTTATTAAATT
1 TTAATAATTTATTATTATATTAAATT
4842661 TTATTGTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTAATAATTTATTATTATATTAAATTAT
Found at i:4844970 original size:27 final size:26
Alignment explanation
Indices: 4844921--4844985 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
4844911 TTGTAAAGTT
*
4844921 TTTATTTAATTATGGATTATTTATTTA
1 TTTATTTAATTATCGATTATTTA-TTA
*
4844948 TTTATTTAATTGTTCGATT-TTTATTA
1 TTTATTTAATT-ATCGATTATTTATTA
4844974 TCTGTATTTAAT
1 T-T-TATTTAAT
4844986 GTTTCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 4 0.12
27 16 0.48
28 13 0.39
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (26 bp):
TTTATTTAATTATCGATTATTTATTA
Found at i:4847462 original size:61 final size:61
Alignment explanation
Indices: 4847388--4847510 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
4847378 AGCTTGCACT
* * *
4847388 TGAATGCCTCCCCTGGAATATGAAGGTATCCTGTCAAATGGGTACTGCACAGATTGCTGCG
1 TGAATGCCTCCCCTGGAACATGAAGGCATCCTATCAAATGGGTACTGCACAGATTGCTGCG
*
4847449 TGAATGCCTCCCCTGGAACATGAAGGCATCCTATCAAATGGTTACTGCACAGATTGCTGCG
1 TGAATGCCTCCCCTGGAACATGAAGGCATCCTATCAAATGGGTACTGCACAGATTGCTGCG
4847510 T
1 T
4847511 CGAGGGCATC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (61 bp):
TGAATGCCTCCCCTGGAACATGAAGGCATCCTATCAAATGGGTACTGCACAGATTGCTGCG
Found at i:4850595 original size:54 final size:54
Alignment explanation
Indices: 4850537--4850825 Score: 418
Period size: 54 Copynumber: 5.4 Consensus size: 54
4850527 TTTTTTGGTG
* * * *
4850537 TGCACACGTAGTACCGATACGATCGTTCATAAACATATTATGAATTACGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
* * * * **
4850591 TGCACACTTAATGTCAATATGGTTATTCATAAACATATTATGAATTTCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
* *
4850645 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATAAATTTCATGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
*
4850699 TGCACACTTAGTGCCGATACGGTCGTTGATAAACATATTATGAA-TTCTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTC-GTGGGT
* *
4850753 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
*
4850807 TGCACACTTAGTGTCGATA
1 TGCACACTTAGTGCCGATA
4850826 GTATGCATAG
Statistics
Matches: 209, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.01
54 204 0.98
55 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (54 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
Found at i:4857067 original size:15 final size:15
Alignment explanation
Indices: 4857031--4857068 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4857021 TCTCGATTAC
*
4857031 ATCCACATTTGCTTT
1 ATCCACTTTTGCTTT
4857046 ATCCACTTTTGCTTT
1 ATCCACTTTTGCTTT
4857061 ATCCACTT
1 ATCCACTT
4857069 CGATACCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (15 bp):
ATCCACTTTTGCTTT
Found at i:4858280 original size:90 final size:88
Alignment explanation
Indices: 4858166--4858335 Score: 304
Period size: 90 Copynumber: 1.9 Consensus size: 88
4858156 TCCCGAATAT
*
4858166 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
4858231 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
4858255 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
4858320 GGTAACTTGGCTATAA
65 GGTAACTTGGATATAA
4858336 AAGAGTGTGT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:4859366 original size:34 final size:34
Alignment explanation
Indices: 4859323--4859391 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
4859313 GCCTAGAGAG
4859323 TAGTCTTAGGCTTTAAGGTTCTTGGTTCTCCCAT
1 TAGTCTTAGGCTTTAAGGTTCTTGGTTCTCCCAT
4859357 TAGTCTTAGGCTTTAAGGTTCTTGGTTCTCCCAT
1 TAGTCTTAGGCTTTAAGGTTCTTGGTTCTCCCAT
4859391 T
1 T
4859392 GGCTTGGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (34 bp):
TAGTCTTAGGCTTTAAGGTTCTTGGTTCTCCCAT
Found at i:4872239 original size:182 final size:181
Alignment explanation
Indices: 4871906--4872294 Score: 548
Period size: 182 Copynumber: 2.1 Consensus size: 181
4871896 TTGTCAGTTT
** * *
4871906 GTGTCGATACAATAAAAAATGTATCGATCCATAGCAATATAACAGTTAAAAATATGAAAAAACCG
1 GTGTCGATACTTTAAAAAATGTATCAATCCATAACAATATAACAGTTAAAAATATGAAAAAACCG
* * * * * * *
4871971 GTCTCAAAATGACCAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATA
66 GTCTAAAAAAGACCAAACCAGTAAAGAGCCACCGAATATGTTAAAAGTGTCGATACTTTATTATA
* **
4872036 AGTATCGACACTTTTGGAATTTAAAAGACAAGA-AGTAATAGTGTTTATAAA
131 AGTATCGACACTTTTGGAATTTAAAAGACAA-ACAGTAATAGCGCCTATAAA
* *
4872087 GTGTCGATACTTTAAAAATATTTATCAATCCATAACAATATAACA-TGTAAAAATATGATAAAAC
1 GTGTCGATACTTTAAAAA-ATGTATCAATCCATAACAATATAACAGT-TAAAAATATGAAAAAAC
* *
4872151 TGGTCTAAAAAAGACCAAACCAGTAAAGAGCCACCGAATATGTTAAAAGTGTCTATACTTTATTA
64 CGGTCTAAAAAAGACCAAACCAGTAAAGAGCCACCGAATATGTTAAAAGTGTCGATACTTTATTA
*
4872216 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAA
129 TAAGTATCGACACTTTTGGAATTTAAAAGACAAACAGTAATAGCGCCTATAAA
*
4872269 GTGTCAATACTTTATAAAAATGTATC
1 GTGTCGATACTTTA-AAAAATGTATC
4872295 GACACTTGGG
Statistics
Matches: 183, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
181 18 0.10
182 161 0.88
183 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (181 bp):
GTGTCGATACTTTAAAAAATGTATCAATCCATAACAATATAACAGTTAAAAATATGAAAAAACCG
GTCTAAAAAAGACCAAACCAGTAAAGAGCCACCGAATATGTTAAAAGTGTCGATACTTTATTATA
AGTATCGACACTTTTGGAATTTAAAAGACAAACAGTAATAGCGCCTATAAA
Found at i:4874201 original size:22 final size:23
Alignment explanation
Indices: 4874149--4874205 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
4874139 GAACGTTTTT
* * *
4874149 ATTTTTTTATATAAAATGGTAGT
1 ATTTTATTATATAAAATGATAGA
*
4874172 ATAGTTATTATATAAAATGATA-A
1 AT-TTTATTATATAAAATGATAGA
4874195 ATTTTATTATA
1 ATTTTATTATA
4874206 AATGTAGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTTATTATATAAAATGATAGA
Found at i:4876462 original size:19 final size:19
Alignment explanation
Indices: 4876438--4876486 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4876428 AATGATGGGT
*
4876438 TAATTTCGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
4876457 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
4876476 TAATTTTGTAT
1 TAATTTTGTAT
4876487 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:4877747 original size:199 final size:196
Alignment explanation
Indices: 4876936--4878470 Score: 1596
Period size: 199 Copynumber: 7.7 Consensus size: 196
4876926 GTAAACGTAT
* * * * *
4876936 GTGTCGATACATTTATAAAAAG-ATTCGATCCCAAGAACATCGAAACCCATAATAACAATGAAAT
1 GTGTCGATACATTTATAAAAAGTA-TCGATCCCAAAAACATCGAAACCTATAATTATAATGTAAT
* * * * ** * ** * *
4877000 ATGTAATTTTTCAATGTAACCGGTATAAATACATTGGTTTTATGAGAGAATAGATCTACATAATG
65 AGGTAA-TTTACAATGTAACCGGTAGAAATATACCGG-TTAATTCGAAAATAGGTCTACATAATG
* * *
4877065 TATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCCATAATGAATGCGCAAAAGGGGTGCAA
128 TATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGC-C-AAATGGGTGCAC
* * *
4877130 GTATTAT
190 GAATAAA
* * * * * * * *
4877137 GTGTCGATACATTTATAAGAAGTGTTGATCCCAAGAACATC-AACACCCATAATAACAATGTAAG
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAA-ACCTATAATTATAATGTAAT
* * * * ** *
4877201 AGGTAATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATG
65 AGGTAA-TTTACAATGTAACCGGTAGAAATATACCGG-TTAATTCGAAAATAGGTCTACATAATG
* * *
4877266 CATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAT-AGATGCCCAAAAGGGGTGCA
128 TATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGA-ATG-CC-AAATGGGTGCA
*
4877330 CGCATAAA
189 CGAATAAA
* * * *
4877338 GTGTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
* * * * *
4877403 AGTAATTTACAATGTAACCGGTAGAAATATACCAGTTTATTCAAAAATTGGTCTACATAATGTAT
66 GGTAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTAT
** * ** *
4877468 CGACACTTTTAAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACCAACCGAGGTGCACAAAT
131 CGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAATG-GGTGCACGAAT
4877533 AAA
194 AAA
* *
4877536 GTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAATA-ATATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAA-ACCTATAATTATAATGTAAT
* * * * * *
4877600 AGGTCAATTTCCAATGTAGCCGGTAGAAATATACC-GTTGAATTCGAAAATAAGTTTGCATCATG
65 AGGT-AATTTACAATGTAACCGGTAGAAATATACCGGTT-AATTCGAAAATAGGTCTACATAATG
* * * *
4877664 TATCGACACTTGTGGAATTTGTGTCTATACGTTTTGTCTAGAATGAATGCCTAAATGGGTGCACT
128 TATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCC-AAATGGGTGCACG
*
4877729 CATAAA
191 AATAAA
* * *
4877735 GTGTCAATACATTTA-AAATAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
* * * *
4877799 GTTAACTTTACAATGTAACCGGTAGAAATATACCGATTAATTAGAAAATAGGTATACATAATGTA
66 GGTAA-TTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTA
* ** * * * *
4877864 TCAACACTTTTTAAATTATGTCGATACTTTTTGTCTAGAATGAATGACC-AATCGAGGTACACGA
130 TCGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAT-G-GGTGCACGA
*
4877928 AAAAA
192 ATAAA
* * * * * *
4877933 GTGTTGATACATATATACAAAGTATCAATCCCATAAACATCGAATA-ATATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAA-ACCTATAATTATAATGTAAT
* * *
4877997 AGGTTAATTT-CTAATGTAACCGGTAGAAATATACCGGTTAATTAGACAATAGGTCTACATCATG
65 AGG-TAATTTAC-AATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATG
* * * ** *
4878061 TATCGACACTTGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATTCCTATTTGGGTGCACT
128 TATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCC-AAATGGGTGCACG
* *
4878126 CATTAA
191 AATAAA
*
4878132 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
* * *
4878197 TGTAAATTTACAATGTAACTGGTAGAAATATATCGGTTAATTCGAAAATAGGTCTACATAATGTA
66 GGT-AATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTA
* ** * * * * *
4878262 TGGACACTTTTTAAATTGTGTTGATACTTTTTGTCCAGAATGAATGACAAACCAGGGTCCACGAA
130 TCGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAA--TGGGTGCACGAA
4878327 TAAA
193 TAAA
* * *
4878331 GTGTCGATATATTTATAAAAAGTATCGATCCCATAAACATCGAATA-ATATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAA-ACCTATAATTATAATGTAAT
* * * * **
4878395 AGGTCAATTTCCAATGTAACCAGTAGAAATATACCGGTTAATTCAAAAATAGGTTTGTATAATGT
65 AGGT-AATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGT
4878460 ATCGACACTTT
129 ATCGACACTTT
4878471 TTAAAGTCGT
Statistics
Matches: 1132, Mismatches: 171, Indels: 64
0.83 0.13 0.05
Matches are distributed among these distances:
196 3 0.00
197 39 0.03
198 267 0.24
199 488 0.43
200 99 0.09
201 233 0.21
202 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (196 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
GGTAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTAT
CGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAATGGGTGCACGAATAA
A
Found at i:4878355 original size:398 final size:398
Alignment explanation
Indices: 4876936--4878469 Score: 1906
Period size: 398 Copynumber: 3.8 Consensus size: 398
4876926 GTAAACGTAT
* * *
4876936 GTGTCGATACATTTATAAAAAG-ATTCGATCCCAAGAACATCGAAACCCATAATAACAATGAAAT
1 GTGTCGATACATTTATAAAAAGTA-TCGATCCCAAAAACATCGAAACCCATAATTACAATGTAAT
* * * * ** * * * *
4877000 ATGTAATTTTTCAATGTAACCGGTATAAATACATTGGTTTTATGAGAGAATAGATCTACATAATG
65 ATGTAAATTTACAATGTAACCGGTAGAAATATACCGG-TTAATTAGAAAATAGGTCTACATAATG
** * * * * *
4877065 TATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCCATAATGAATGCGCAAA-AGGGGTGCA
129 TATCGACACTT-TTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATG-ACAAACCGAGGTGCA
* * * * * * * * ** *
4877129 AGTATTATGTGTCGATACATTTATAAGAAGTGTTGATCCCA-AGAACATC-AACACCCATAATAA
192 CGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATA-AACATCGAATA-ATATAATTA
* * * * * * * *
4877192 CAATGTAAGAGGT-AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGT
255 TAATGTAATAGGTCAA-TTTCCAATGTAACCGGTAGAAATATACCGG-TTAATTAGAAAATAGGT
* * * *
4877256 CTACATAATGCATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAT-AGATGCCCAA
318 CTACATAATGTATCGACACTTGTGGAATTTGTGTCAATACTTTTTGTCCAGAATGA-AT-CCCTA
* *
4877320 AAGGGGTGCACGCATAAA
381 AATGGGTGCACTCATAAA
* * *
4877338 GTGTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
* * * *
4877403 AGT-AATTTACAATGTAACCGGTAGAAATATACCAGTTTATTCA-AAAATTGGTCTACATAATGT
66 TGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATT-AGAAAATAGGTCTACATAATGT
* * *
4877466 ATCGACACTTTTAAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACCAACCGAGGTGCACAA
130 ATCGACACTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACCGAGGTGCACGA
4877531 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAATAATATAATTATAATG
195 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAATAATATAATTATAATG
* * * * *
4877596 TAATAGGTCAATTTCCAATGTAGCCGGTAGAAATATACC-GTTGAATTCGAAAATAAGTTTGCAT
260 TAATAGGTCAATTTCCAATGTAACCGGTAGAAATATACCGGTT-AATTAGAAAATAGGTCTACAT
* * * * *
4877660 CATGTATCGACACTTGTGGAATTTGTGTCTATACGTTTTGTCTAGAATGAATGCCTAAATGGGTG
324 AATGTATCGACACTTGTGGAATTTGTGTCAATACTTTTTGTCCAGAATGAATCCCTAAATGGGTG
4877725 CACTCATAAA
389 CACTCATAAA
* * * *
4877735 GTGTCAATACATTTA-AAATAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
* * *
4877799 -GTTAACTTTACAATGTAACCGGTAGAAATATACCGATTAATTAGAAAATAGGTATACATAATGT
66 TG-TAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATGT
* * * * * *
4877863 ATCAACACTTTTTAAATTATGTCGATACTTTTTGTCTAGAATGAATGACCAATCGAGGTACACGA
130 ATCGACACTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACCGAGGTGCACGA
* * * * *
4877928 AAAAAGTGTTGATACATATATACAAAGTATCAATCCCATAAACATCGAATAATATAATTATAATG
195 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAATAATATAATTATAATG
* * * *
4877993 TAATAGGTTAATTTCTAATGTAACCGGTAGAAATATACCGGTTAATTAGACAATAGGTCTACATC
260 TAATAGGTCAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATA
* * **
4878058 ATGTATCGACACTTGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATTCCTATTTGGGTGC
325 ATGTATCGACACTTGTGGAATTTGTGTCAATACTTTTTGTCCAGAATGAATCCCTAAATGGGTGC
*
4878123 ACTCATTAA
390 ACTCATAAA
*
4878132 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
* * *
4878197 TGTAAATTTACAATGTAACTGGTAGAAATATATCGGTTAATTCGAAAATAGGTCTACATAATGTA
66 TGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATGTA
* * *
4878262 TGGACACTTTTTAAATTGTGTTGATACTTTTTGTCCAGAATGAATGACAAACC-AGGGTCCACGA
131 TCGACACTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACCGA-GGTGCACGA
*
4878326 ATAAAGTGTCGATATATTTATAAAAAGTATCGATCCCATAAACATCGAATAATATAATTATAATG
195 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAATAATATAATTATAATG
* * **
4878391 TAATAGGTCAATTTCCAATGTAACCAGTAGAAATATACCGGTTAATTCA-AAAATAGGTTTGTAT
260 TAATAGGTCAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATT-AGAAAATAGGTCTACAT
4878455 AATGTATCGACACTT
324 AATGTATCGACACTT
4878470 TTTAAAGTCG
Statistics
Matches: 985, Mismatches: 131, Indels: 36
0.86 0.11 0.03
Matches are distributed among these distances:
395 1 0.00
396 47 0.05
397 339 0.34
398 351 0.36
399 123 0.12
400 38 0.04
401 26 0.03
402 59 0.06
403 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (398 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
TGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACCGAGGTGCACGAA
TAAAGTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAATAATATAATTATAATGT
AATAGGTCAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAA
TGTATCGACACTTGTGGAATTTGTGTCAATACTTTTTGTCCAGAATGAATCCCTAAATGGGTGCA
CTCATAAA
Found at i:4883000 original size:202 final size:197
Alignment explanation
Indices: 4882544--4883218 Score: 805
Period size: 202 Copynumber: 3.4 Consensus size: 197
4882534 TACCTAATAT
* *
4882544 GTGTCGATACATTCTAAAAAGTATCGATCCCAACAACATCAAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATT-TAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * *
4882609 GTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTTATGAGAAAATAAGTCTACATAATGTA
65 GTAAATTTACAATGTAACCTGTAGAAATTTACCGGTTTTATGAAAAAATAGGTCTACATAATGTA
* * * *
4882674 TCGACACTTGTGGAATTTGTGTCGATACGTTTTGTCCAGAGTGAATGACCAACCGGGGTGCACGA
130 TCGACACTTGTGGAATTTGTGTCGATACTTTTTGTACAGAATGAAT-ACCAAAC-GGGTGCAC-A
4882739 -ATAAA
192 CATAAA
* *
4882744 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATTGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTA-AAAA-GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
4882809 TGTGAATTTACAATGTAACCTGTAGAAATTTATCAGTTTTATGTAAAAAAATAGGTCTACATAAT
64 GGTAAATTTACAATGTAACCTGTAGAAATTTACCGGTTTTATG--AAAAAATAGGTCTACATAAT
* * * * *
4882874 GTATCGACACTTGTGGAACTTGTGTCAATCCTTTTTGTACAGAATAAATTCCAAACAGGGTGCAC
127 GTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTACAGAATGAATACCAAAC-GGGTGCAC
4882939 ACATAAA
191 ACATAAA
* * *
4882946 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAGCATCGAAACCGATAATTACAAAGTAATA
1 GTGTCGATACATTTA--AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
4883011 GGTAAATTTACAATGT-A-CTCGATAGAAATATACCGGTTTTATG-AGAAATAGTTCTACATAA-
64 GGTAAATTTACAATGTAACCT-G-TAGAAATTTACCGGTTTTATGAAAAAATAGGTCTACATAAT
* * * *
4883072 -TATC--CACTT-T-TAAGTTTGTGTCGATACTTTTT-TTCAGAATGAATGCCCAACGAGGTGCA
127 GTATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTACAGAATGAATACCAAACG-GGTGCA
**
4883131 TGCATAAA
190 CACATAAA
* *
4883139 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
*
4883204 GTAAATTTGCAATGT
65 GTAAATTTACAATGT
4883219 TACCGGTATA
Statistics
Matches: 414, Mismatches: 50, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
191 3 0.01
192 56 0.14
193 44 0.11
194 16 0.04
195 5 0.01
197 4 0.01
199 18 0.04
200 19 0.05
201 80 0.19
202 104 0.25
203 65 0.16
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTAACCTGTAGAAATTTACCGGTTTTATGAAAAAATAGGTCTACATAATGTAT
CGACACTTGTGGAATTTGTGTCGATACTTTTTGTACAGAATGAATACCAAACGGGTGCACACATA
AA
Found at i:4883372 original size:64 final size:64
Alignment explanation
Indices: 4883279--4883398 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
4883269 TACCTATTAC
*
4883279 ATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATGCCTATTTT
1 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATGCCTATTTT
* *
4883343 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCTGGTTAAATG
1 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATG
4883399 ATATAACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (64 bp):
ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATGCCTATTTT
Found at i:4884232 original size:19 final size:19
Alignment explanation
Indices: 4884208--4884244 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4884198 AATTATGAGG
*
4884208 TAATTTTTATTTAATTATT
1 TAATTTGTATTTAATTATT
*
4884227 TAATTTGTATTTATTTAT
1 TAATTTGTATTTAATTAT
4884245 ATATTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TAATTTGTATTTAATTATT
Found at i:4886951 original size:3 final size:3
Alignment explanation
Indices: 4886943--4886978 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4886933 GATAGAAATA
* *
4886943 GAG GAG GAG AAT GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
4886979 AAGAAGTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.61, T:0.03
Consensus pattern (3 bp):
GAG
Found at i:4918690 original size:116 final size:117
Alignment explanation
Indices: 4918570--4918786 Score: 258
Period size: 116 Copynumber: 1.9 Consensus size: 117
4918560 TTATCTTTTT
* *** * **** *
4918570 GATAATTCGGATCGAATAT-TTTAAAAAATTTATAATAATCAAATCAGCTGCAAATCGGATAAAT
1 GATAATTCGAATCGAATATCAGAAAAAAATTCA-AATAATCAAATCAAAAACAAATCAGATAAAT
* * *
4918634 TTTAATTTTGAATTATTCTAAAATCTAGA-AAAAATTGACTTTTAGATTTATG
65 TTCAATTTTGAATTATCCTAAAATCCAGAGAAAAATTGACTTTTAGATTTATG
* * * *
4918686 GATAATTCGAATTGGATATCAGAAAAAAATTCAGATAATCAGATCAAAAACAAATCAGATAAATT
1 GATAATTCGAATCGAATATCAGAAAAAAATTCAAATAATCAAATCAAAAACAAATCAGATAAATT
4918751 TCAATTTTGAATTATCCTAAAATCCAGAGAAAAATT
66 TCAATTTTGAATTATCCTAAAATCCAGAGAAAAATT
4918787 AAATCATAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
116 66 0.80
117 16 0.20
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (117 bp):
GATAATTCGAATCGAATATCAGAAAAAAATTCAAATAATCAAATCAAAAACAAATCAGATAAATT
TCAATTTTGAATTATCCTAAAATCCAGAGAAAAATTGACTTTTAGATTTATG
Found at i:4919309 original size:7 final size:7
Alignment explanation
Indices: 4919297--4919470 Score: 285
Period size: 7 Copynumber: 24.9 Consensus size: 7
4919287 TGTCTCCTCT
4919297 TATCGCC
1 TATCGCC
4919304 TATCGCC
1 TATCGCC
4919311 TATCGCC
1 TATCGCC
4919318 TATCGCC
1 TATCGCC
4919325 TATCGCC
1 TATCGCC
4919332 TATCGCC
1 TATCGCC
4919339 TATCGCC
1 TATCGCC
4919346 TATCGCC
1 TATCGCC
4919353 TATCGCC
1 TATCGCC
4919360 TATCGCC
1 TATCGCC
4919367 TATCGCC
1 TATCGCC
4919374 TATCGCC
1 TATCGCC
4919381 TATCGCC
1 TATCGCC
4919388 TATCGCC
1 TATCGCC
4919395 TATCGCC
1 TATCGCC
4919402 TATCGCC
1 TATCGCC
*
4919409 TCTCGCC
1 TATCGCC
4919416 TATCGCC
1 TATCGCC
4919423 TATCGCC
1 TATCGCC
*
4919430 TCTCGCC
1 TATCGCC
*
4919437 TCTCGCC
1 TATCGCC
*
4919444 TCTCGCC
1 TATCGCC
*
4919451 TCTCGCC
1 TATCGCC
*
4919458 TCTCGCC
1 TATCGCC
*
4919465 TCTCGC
1 TATCGC
4919471 TATGTATCTT
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 164 1.00
ACGTcount: A:0.10, C:0.47, G:0.14, T:0.29
Consensus pattern (7 bp):
TATCGCC
Found at i:4919724 original size:12 final size:12
Alignment explanation
Indices: 4919709--4919733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4919699 GGTTTTCTTT
4919709 TTGGTTCTTTCA
1 TTGGTTCTTTCA
4919721 TTGGTTCTTTCA
1 TTGGTTCTTTCA
4919733 T
1 T
4919734 ACCTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGTTCTTTCA
Found at i:4921132 original size:3 final size:3
Alignment explanation
Indices: 4921124--4921189 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
4921114 TTTTATTTAT
* * *
4921124 TTA TTA TTA TTA TTA TTA TTA TAA TAA TTA TTA TTA TAA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4921171 TATA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA
4921190 AAAAAATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4922380 original size:3 final size:3
Alignment explanation
Indices: 4922372--4922470 Score: 75
Period size: 3 Copynumber: 34.0 Consensus size: 3
4922362 TTTATTTTTG
* *
4922372 ATT ATT ATT ATT ATT -TT A-T ATT -TT AAT ATT A-T ATT TTT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * *
4922414 ATT ATT -TGC AAT ATT ATT -TT ATT ATT ATT ATT AATT TTT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
*
4922459 ATT CTT ATT ATT
1 ATT ATT ATT ATT
4922471 TATATAAATA
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
2 11 0.15
3 59 0.79
4 5 0.07
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4922393 original size:13 final size:13
Alignment explanation
Indices: 4922372--4922470 Score: 57
Period size: 13 Copynumber: 7.5 Consensus size: 13
4922362 TTTATTTTTG
4922372 ATTATTATTATTAT
1 ATTATTATT-TTAT
*
4922386 TTTA-TATTTTAAT
1 ATTATTATTTT-AT
4922399 ATTA-TATTTT-T
1 ATTATTATTTTAT
*
4922410 AATTATTATTTGCAAT
1 -ATTATTATTT--TAT
4922426 ATTATT-TTATTATT
1 ATTATTATT-TTA-T
4922440 ATTATTAATTTT-T
1 ATTATT-ATTTTAT
*
4922453 ATTATTATTCT-T
1 ATTATTATTTTAT
4922465 ATTATT
1 ATTATT
4922471 TATATAAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
11 1 0.01
12 17 0.24
13 28 0.40
14 12 0.17
15 9 0.13
16 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAT
Found at i:4922409 original size:21 final size:21
Alignment explanation
Indices: 4922333--4922410 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 21
4922323 TACTCTAGTT
4922333 TTATAATTTTATATTTTAATCA
1 TTATAATTTTATATTTTAAT-A
4922355 TTCA-AATTTTAT-TTTTGATTATTA
1 TT-ATAATTTTATATTTT-A--A-TA
*
4922379 TTATTATTTTATATTTTAATA
1 TTATAATTTTATATTTTAATA
*
4922400 TTATATTTTTA
1 TTATAATTTTA
4922411 ATTATTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
21 15 0.33
22 12 0.26
23 2 0.04
24 12 0.26
25 5 0.11
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATAATTTTATATTTTAATA
Found at i:4922496 original size:20 final size:18
Alignment explanation
Indices: 4922471--4922507 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4922461 TCTTATTATT
4922471 TATATA-AATAAATATATA
1 TATATATAATAAATA-ATA
4922489 TATATATAATAAATAATA
1 TATATATAATAAATAATA
4922507 T
1 T
4922508 TTGTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATATATAATAAATAATA
Found at i:4922710 original size:119 final size:120
Alignment explanation
Indices: 4922571--4922800 Score: 286
Period size: 120 Copynumber: 1.9 Consensus size: 120
4922561 TTTTAATATA
* * * ** *
4922571 TATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAATAACTGGATGTCCATTTTCTG
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAAAAGTCC-TTTTCTG
* *
4922634 ATATTTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTGCTTTAAT
65 ATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTGCTTTAAT
* * ** * *
4922690 TATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAAAAGTCCTTTTCTTA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAAAAGTCCTTTTCTGA
*
4922755 TATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
66 TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
4922801 ATATATTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
119 29 0.31
120 43 0.46
121 21 0.23
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (120 bp):
TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAAAAGTCCTTTTCTGA
TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTGCTTTAAT
Found at i:4924933 original size:14 final size:14
Alignment explanation
Indices: 4924895--4924948 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
4924885 ATTTTAAATA
*
4924895 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
4924909 TTTTACATTTGCAT
1 ATTTACATTTGCAT
4924923 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
4924938 CTTTGCATTTG
1 ATTTACATTTG
4924949 TATTTTTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:4928480 original size:4 final size:4
Alignment explanation
Indices: 4928471--4928542 Score: 69
Period size: 4 Copynumber: 17.8 Consensus size: 4
4928461 CTCATCCAAC
*
4928471 AAAG AAAG AAA- AAAG AAA- AATCCAG CAAAG AAAG AAAA AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AA---AG -AAAG AAAG AAAG AAAG AAAG
*
4928517 AAAG AAAG AAAG AAA- AAAG AAGG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
4928543 AAGAAAAAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
3 8 0.14
4 44 0.77
5 2 0.04
6 1 0.02
8 2 0.04
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:4928514 original size:8 final size:8
Alignment explanation
Indices: 4928501--4928550 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
4928491 TCCAGCAAAG
4928501 AAAGAAAA
1 AAAGAAAA
*
4928509 AAAGAAAG
1 AAAGAAAA
*
4928517 AAAGAAAG
1 AAAGAAAA
4928525 AAAG-AAA
1 AAAGAAAA
4928532 AAAGAAGGAA
1 AAAGAA--AA
4928542 AAAGAAAA
1 AAAGAAAA
4928550 A
1 A
4928551 GGGGAGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 6 0.16
8 23 0.62
10 8 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:4932022 original size:34 final size:34
Alignment explanation
Indices: 4931984--4932098 Score: 79
Period size: 34 Copynumber: 3.1 Consensus size: 34
4931974 TTAAAGTATT
4931984 CTGAATATTTATATCAGTAAAATGTTAGGGCATG
1 CTGAATATTTATATCAGTAAAATGTTAGGGCATG
* * ** * *
4932018 CTGAAAACCCCTTTCA-ATCAGAATCAAGAATATTAAAGTATT
1 CTGAATA----TTT-ATATCAG--T-AA-AATGTTAGGGCATG
*
4932060 CTGAATATTTATATCAGCAAAATGTTAGGGCATG
1 CTGAATATTTATATCAGTAAAATGTTAGGGCATG
4932094 CTGAA
1 CTGAA
4932099 AGCCCCTTTC
Statistics
Matches: 58, Mismatches: 13, Indels: 20
0.64 0.14 0.22
Matches are distributed among these distances:
34 20 0.34
35 2 0.03
37 1 0.02
38 16 0.28
39 1 0.02
40 1 0.02
41 2 0.03
42 15 0.26
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (34 bp):
CTGAATATTTATATCAGTAAAATGTTAGGGCATG
Found at i:4932038 original size:38 final size:38
Alignment explanation
Indices: 4931996--4932114 Score: 86
Period size: 38 Copynumber: 3.1 Consensus size: 38
4931986 GAATATTTAT
4931996 ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
1 ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
* ** * * *
4932034 ATCAGAATCAAGAATATTAAAGTATTCTGAATA----TTT-A
1 ATCAG--T-AA-AATGTTAGGGCATGCTGAAAACCCCTTTCA
* *
4932071 TATCAGCAAAATGTTAGGGCATGCTGAAAGCCCCTTTCA
1 -ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
4932110 ATCAG
1 ATCAG
4932115 AATCAGGACT
Statistics
Matches: 57, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
34 14 0.25
35 2 0.04
37 1 0.02
38 21 0.37
39 1 0.02
40 1 0.02
41 2 0.04
42 15 0.26
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (38 bp):
ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
Found at i:4932062 original size:76 final size:76
Alignment explanation
Indices: 4931936--4932119 Score: 323
Period size: 76 Copynumber: 2.4 Consensus size: 76
4931926 CGAATGCTGT
* * *
4931936 GGCATGTTGAAAACCCTTTTCAATCAGAATCAGGAATATTAAAGTATTCTGAATATTTATATCAG
1 GGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATTTATATCAG
*
4932001 TAAAATGTTAG
66 CAAAATGTTAG
4932012 GGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATTTATATCAG
1 GGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATTTATATCAG
4932077 CAAAATGTTAG
66 CAAAATGTTAG
*
4932088 GGCATGCTGAAAGCCCCTTTCAATCAGAATCA
1 GGCATGCTGAAAACCCCTTTCAATCAGAATCA
4932120 GGACTGTTGA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 103 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (76 bp):
GGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATTTATATCAG
CAAAATGTTAG
Found at i:4933544 original size:22 final size:22
Alignment explanation
Indices: 4933513--4933567 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
4933503 ATCTACACTC
*
4933513 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
4933535 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
4933557 TTCAAAGATGA
1 TTCAAAGATGA
4933568 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:4934167 original size:113 final size:113
Alignment explanation
Indices: 4933969--4934176 Score: 346
Period size: 113 Copynumber: 1.8 Consensus size: 113
4933959 AGCAAAGATT
* *
4933969 CAAATCCATCACTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGAA
1 CAAATCCATCACTTGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
4934034 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGA
66 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGA
** *
4934082 CAAATCCATCACTTGATGAATCGGCTTTTCCA-AAGAAAGTTCATAATGAGAAGAACTTATCTGA
1 CAAATCCATCACTTGATGAATCAACTTTTCCAGAA-AAAGTTCATAATGAGAAGAACTCATCTGA
*
4934146 AGAAGGAAGAAGAAGTTCATAATGAGAAGAA
65 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
4934177 GTTCATAATG
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 2 0.02
113 86 0.98
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (113 bp):
CAAATCCATCACTTGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGA
Found at i:4934175 original size:17 final size:17
Alignment explanation
Indices: 4934153--4934190 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
4934143 TGAAGAAGGA
4934153 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
4934170 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
4934187 AGAA
1 AGAA
4934191 TAATTTGTTC
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:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:4934274 original size:130 final size:130
Alignment explanation
Indices: 4934040--4934306 Score: 358
Period size: 130 Copynumber: 2.1 Consensus size: 130
4934030 TGAAGAAGGA
*
4934040 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGACAAATCCATCACTTGATGAATCG
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGACAAATCCATCACTTGATGAATCA
* * * * * *
4934105 GCTTTTCCAAAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 ACATTGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
* * * * * * *
4934170 AGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTT-GTCTGAATTCATCATTTGATGGATC
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGAC-AAATCCATCACTTGATGAATC
* *
4934234 AACATTGCC-AGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAA
65 AACATTGCCAAAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAA
4934298 TG
129 TG
4934300 AGAAGAA
1 AGAAGAA
4934307 CTTATCTGAA
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
129 4 0.03
130 115 0.97
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (130 bp):
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGACAAATCCATCACTTGATGAATCA
ACATTGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
Found at i:4934304 original size:40 final size:42
Alignment explanation
Indices: 4934249--4934347 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
4934239 TGCCAGGTAG
*
4934249 AGTTCATAATGAGAAGAACTCATCTG-AAGA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* *
4934289 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
4934331 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
4934348 GCTTGTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 24 0.45
41 3 0.06
42 26 0.49
ACGTcount: A:0.51, C:0.09, G:0.22, T:0.18
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:4934340 original size:155 final size:155
Alignment explanation
Indices: 4934170--4934461 Score: 485
Period size: 155 Copynumber: 1.9 Consensus size: 155
4934160 GTTCATAATG
* *
4934170 AGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
* * * *
4934235 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAACAAAGAAGAAGAAATTCACAATA
4934300 AGAAGAACTTATCTGAAAAAGAAGA
131 AGAAGAACTTATCTGAAAAAGAAGA
* *
4934325 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
* * *
4934390 GCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAACAAGGAAGAAGAAATTCATAATA
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAACAAAGAAGAAGAAATTCACAATA
4934455 AGAAGAA
131 AGAAGAA
4934462 TTTGTTCAAC
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
155 126 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (155 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAACAAAGAAGAAGAAATTCACAATA
AGAAGAACTTATCTGAAAAAGAAGA
Found at i:4934490 original size:113 final size:112
Alignment explanation
Indices: 4934289--4934687 Score: 550
Period size: 113 Copynumber: 3.5 Consensus size: 112
4934279 AAGAAGAAGA
* * * **
4934289 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAG--GAAGAAGAAGTTCACAATGAGAAGAATTTGT
*
4934354 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
64 TCAACCTTTTG-TCGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * *
4934404 AGTTCATAATGAGAAGAACTCATCT-AAACAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAA-AAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTT
* * * * * * *
4934468 CAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAG-AA
65 CAACCTTTTG-TCGAATTCATCATTTGATGGATCAGCATTGCCAG-GTAG
* *
4934517 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
4934582 AACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
66 AACCTTTTGTC-GAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
*
4934630 AGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAA
4934688 CTTATCTGAA
Statistics
Matches: 249, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
112 3 0.01
113 214 0.86
114 6 0.02
115 26 0.10
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
AACCTTTTGTCGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
Found at i:4934685 original size:40 final size:42
Alignment explanation
Indices: 4934630--4934728 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
4934620 TGCCAGGTAG
4934630 AGTTCATAATGAGAAGAACTCATCTG-AAAA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* * *
4934670 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAATA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
4934712 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
4934729 GCTTGTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 24 0.45
41 4 0.08
42 25 0.47
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.19
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:4934720 original size:268 final size:266
Alignment explanation
Indices: 4934404--4934955 Score: 736
Period size: 268 Copynumber: 2.1 Consensus size: 266
4934394 TGCCAGGTAG
*
4934404 AGTTCATAATGAGAAGAACTCATCTAAACAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTAAACAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTC
* * *
4934469 AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAG
66 AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCATTGCCAG-GTAAAGTTCATAACGAGAAG
* * * * *
4934533 AACTTATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTCAACCTTTT-GTCTGAA
130 AACTCATCTGAAGAAGGAAGAAGAAATTCACAATAAGAAGAATTTGTTCAACCTTTTACTC-AAA
* * * *
4934597 TTCATCATTTGATGGATCAGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAAAA
194 TCCATCACTTGATGAATCAGCATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAAAA
4934661 AGAAGAAGA
258 AGAAGAAGA
* * * *
4934670 AGTTCACAATGAGAAGAACTTATCTGAAA-AA-GAAGAAGAATAAGTTCATAATGAGAAGAGCTT
1 AGTTCATAATGAGAAGAACTCATCT-AAACAAGGAAGAAG-A-AA-TTCATAATAAGAAGAACTT
* ** * * * *
4934733 GTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAG
62 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCATTGCCAGGTAAAGTTCATAACGAG
*
4934798 AAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTACTCA
127 AAGAACTCATCTGAAGAAGGAAGAAGAAATTCACAATAAGAAGAATTTGTTCAACCTTTTACTCA
* * * *
4934863 AATCCATCACTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
192 AATCCATCACTTGATGAATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAA
*
4934928 AGGAAGAAGA
257 AAGAAGAAGA
4934938 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
4934956 TTTGTTCAAC
Statistics
Matches: 248, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
265 7 0.03
266 26 0.10
267 6 0.02
268 206 0.83
269 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (266 bp):
AGTTCATAATGAGAAGAACTCATCTAAACAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCATTGCCAGGTAAAGTTCATAACGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCACAATAAGAAGAATTTGTTCAACCTTTTACTCAAATC
CATCACTTGATGAATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGA
AGAAGA
Found at i:4934760 original size:381 final size:381
Alignment explanation
Indices: 4934170--4935602 Score: 2564
Period size: 381 Copynumber: 3.8 Consensus size: 381
4934160 GTTCATAATG
*
4934170 AGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
4934235 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
4934300 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
*
4934365 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTA
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
*
4934430 AACAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
4934495 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
326 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
*
4934551 AGAAGAAGTTCACAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
* *
4934616 GCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
*
4934681 AGAAGAACTTATCTGAAAAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
*
4934746 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
*
4934811 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTACTCAAATCCATCACTTG
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
4934876 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
326 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
*
4934932 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
**
4934997 GTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
4935062 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
* * *
4935127 CTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
*
4935192 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTG
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
* * * *
4935257 ATTAATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
326 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
*
4935313 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
*
4935378 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
* * **
4935443 AGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
* *
4935506 TCTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
* * * *
4935571 AAGAAAGAAGAAGAAGTTCACAATGAGAAGAA
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAA
4935603 CTTATCTGAA
Statistics
Matches: 1013, Mismatches: 39, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
379 128 0.13
381 885 0.87
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (381 bp):
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
Found at i:4934799 original size:155 final size:153
Alignment explanation
Indices: 4934516--4934842 Score: 528
Period size: 155 Copynumber: 2.1 Consensus size: 153
4934506 TTTCCAGAGA
* *
4934516 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTT
*
4934581 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGAAG
4934646 AACTCATCTGAAAAAAGAAGAAG
131 AACTCATCTGAAAAAAGAAGAAG
* * * *
4934669 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAG--GAAGAAGAAGTTCACAATGAGAAGAACTTG
*
4934734 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGA
64 TTCAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGA
* *
4934799 AGAACTCATCTGAAGAAGGAAGAAG
129 AGAACTCATCTGAAAAAAGAAGAAG
* *
4934824 AAATTCATAATAAGAAGAA
1 AAGTTCATAATGAGAAGAA
4934843 TTTGTTCAAC
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
153 31 0.19
155 128 0.81
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (153 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTT
CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGAAG
AACTCATCTGAAAAAAGAAGAAG
Found at i:4934871 original size:113 final size:113
Alignment explanation
Indices: 4934670--4935068 Score: 541
Period size: 113 Copynumber: 3.5 Consensus size: 113
4934660 AAGAAGAAGA
* * **
4934670 AGTTCACAATGAGAAGAACTTATCTGAA-AAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTG
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG-A-AA-TTCATAATGAGAAGAATTTG
4934734 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
63 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * *
4934785 AGTTCATAACGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
** ** * * * * * *
4934850 AACCTTTTACTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAG-AA
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAG-GTAG
* * *
4934898 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
4934963 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGTATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* *
4935011 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAA
4935069 CTTATCTGAA
Statistics
Matches: 246, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
112 1 0.00
113 207 0.84
114 3 0.01
115 26 0.11
116 9 0.04
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
Found at i:4935066 original size:40 final size:42
Alignment explanation
Indices: 4935011--4935109 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
4935001 TGCCAGGTAG
*
4935011 AGTTCATAATGAGAAGAACTCATCTG-AAGA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* *
4935051 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
4935093 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
4935110 GCTTGTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 24 0.45
41 3 0.06
42 26 0.49
ACGTcount: A:0.51, C:0.09, G:0.22, T:0.18
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:4935177 original size:155 final size:153
Alignment explanation
Indices: 4934897--4935223 Score: 537
Period size: 155 Copynumber: 2.1 Consensus size: 153
4934887 TTTCCAGAGA
* *
4934897 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** *
4934962 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAG
4935027 AACTCATCTGAAGAAAGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAG
* *
4935050 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAG--GAAGAAGAAGTTCATAATGAGAAGAACTTG
4935115 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGA
64 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGA
*
4935180 AGAACTCATCTGAAGAAGGAAGAAG
129 AGAACTCATCTGAAGAAAGAAGAAG
* *
4935205 AAATTCATAATAAGAAGAA
1 AAGTTCATAATGAGAAGAA
4935224 TTTGTTCAAC
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
153 31 0.19
155 129 0.81
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.26
Consensus pattern (153 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAG
Found at i:4935252 original size:113 final size:113
Alignment explanation
Indices: 4935050--4935449 Score: 577
Period size: 113 Copynumber: 3.5 Consensus size: 113
4935040 AAAGAAGAAG
* * * **
4935050 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTG
4935115 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
64 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
* *
4935165 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* ** * * ** * * *
4935230 CAACTTTTTGCTCAAATCCATCACTTGATTAATCAACTTTTCCAAAG-A
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCC-AGGTA
4935278 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
*
4935343 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
* * *
4935391 GAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCACAATGAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
4935450 CTTATCTGAA
Statistics
Matches: 250, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
112 2 0.01
113 216 0.86
114 2 0.01
115 30 0.12
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
Found at i:4935447 original size:40 final size:40
Alignment explanation
Indices: 4935392--4935486 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
4935382 TGCCAGGTAG
*
4935392 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
4935432 AGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
4935472 AGTTCATAATGAGAA
1 AGTTCATAATGAGAA
4935487 TAATTTGTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.20
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
Found at i:4935457 original size:153 final size:153
Alignment explanation
Indices: 4935278--4935757 Score: 789
Period size: 153 Copynumber: 3.1 Consensus size: 153
4935268 TTTCCAAAGA
* *
4935278 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
4935343 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
*
4935408 AACTCATCTGAAGAATGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAG
*
4935431 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
4935496 CAACCTTTTGTCTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
4935561 AACTCATCTGAAGAAAGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAG
* * **
4935584 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGATGAGCTTG
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTG
* * *
4935649 TTCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATTATGAGA
64 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
*
4935714 AGAACTCATCTGAAGAAGGAAGAAG
129 AGAACTCATCTGAAGAAAGAAGAAG
* * *
4935739 AAATTCATAATAAGAAGAA
1 AAGTTCACAATGAGAAGAA
4935758 TTTGTTCAAC
Statistics
Matches: 306, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
153 179 0.58
155 127 0.42
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (153 bp):
AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAG
Found at i:4935589 original size:40 final size:42
Alignment explanation
Indices: 4935545--4935640 Score: 151
Period size: 40 Copynumber: 2.3 Consensus size: 42
4935535 TGCCAGGTAG
*
4935545 AGTTCATAATGAGAAGAACTCATCTG-AAGA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* *
4935585 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
4935627 AGTTCATAATGAGA
1 AGTTCATAATGAGA
4935641 TGAGCTTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 24 0.48
41 3 0.06
42 23 0.46
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:4935603 original size:534 final size:533
Alignment explanation
Indices: 4934897--4936187 Score: 2254
Period size: 534 Copynumber: 2.4 Consensus size: 533
4934887 TTTCCAGAGA
*
4934897 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
4934962 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGT-ATTGCCAGGTAGAGTTCATAATGAGAA
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCA-TCATTGCCAGGTAGAGTTCATAATGAGAA
4935026 GAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAA
130 GAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAA
*
4935091 GAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACAT
195 GAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCAACAT
4935156 TGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAA
260 TGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAA
* *
4935221 GAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATTAATCAACTTTTCCAAAGAAAGTTCAT
325 GAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAAAGAAAGTTCAT
*
4935286 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
390 AATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
4935351 TGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATC
455 TGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAA-TCATC
* * *
4935416 TGAAGAATGAAGAAG
519 TAAAAAAAGAAGAAG
*
4935431 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
*
4935496 CAACCTTTTGTCTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGAAG
4935561 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
* * *
4935626 AAGTTCATAATGAGATGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATT
196 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCAACATT
* *
4935691 GCCAGGTAGAGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
261 GCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
** *
4935756 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGAAAGTTCATA
326 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAAAGAAAGTTCATA
*
4935821 ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTT
391 ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
4935886 GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAATTATCTA
456 GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAATCATCTA
4935951 AAAAAAGAAGAAG
521 AAAAAAGAAGAAG
* * * **
4935964 AAGTTCACGATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTG
*
4936029 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
64 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGA
4936094 AGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCT------GAAGAAGA
129 AGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGA
*
4936153 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTT
194 AGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
4936188 GCTAGATTAC
Statistics
Matches: 724, Mismatches: 30, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
529 41 0.06
533 47 0.06
534 495 0.68
535 141 0.19
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (533 bp):
AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGTTTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCAACATT
GCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAAAGAAAGTTCATA
ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAATCATCTA
AAAAAAGAAGAAG
Found at i:4935786 original size:113 final size:113
Alignment explanation
Indices: 4935585--4935982 Score: 494
Period size: 113 Copynumber: 3.5 Consensus size: 113
4935575 AAGAAGAAGA
* * * **
4935585 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGATGAGCTTGT
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTGT
*
4935650 TCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
64 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * * *
4935700 AGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* ** * * * * * * *
4935765 AACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAG-AA
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAG-GTAG
* * *
4935813 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
*
4935878 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * * **
4935926 AGTTCATAATGAGAAGAA-TTATCTAAAAAAAGAAGAAGAAGTTCACGATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAA
4935983 ATTATCTGAA
Statistics
Matches: 237, Mismatches: 44, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
112 33 0.14
113 175 0.74
114 1 0.00
115 28 0.12
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
Found at i:4936019 original size:42 final size:40
Alignment explanation
Indices: 4935926--4936023 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 40
4935916 TGCCAGGTAG
4935926 AGTTCATAATGAGAAG-AATTATCTAAAAAAAGAAGAAGA
1 AGTTCATAATGAGAAGAAATTATCTAAAAAAAGAAGAAGA
**
4935965 AGTTCACGATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAAATTATCT-AAAAA-AAGAAGAAGA
4936007 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
4936024 GCTTGTTCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.27
40 8 0.15
41 5 0.10
42 25 0.48
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.19
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAAATTATCTAAAAAAAGAAGAAGA
Found at i:4936019 original size:154 final size:155
Alignment explanation
Indices: 4935812--4936187 Score: 554
Period size: 154 Copynumber: 2.5 Consensus size: 155
4935802 TTTCCAGAGA
* * * * * * *
4935812 AAGTTCATAATAAGAAGAACTCATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAATAATTTG
1 AAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
4935875 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
66 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
*
4935940 AGAA-TTATCTAAAAAAAGAAGAAG
131 AGAACTCATCTAAAAAAAGAAGAAG
* *
4935964 AAGTTCACGATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
4936029 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
66 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
* *
4936094 AGAACTCATCTGAAGAAAGAAGAAG
131 AGAACTCATCTAAAAAAAGAAGAAG
* * *
4936119 AAGTTCACAATGAGAAGAACTTATCT------GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
4936178 TTCAACCTTT
66 TTCAACCTTT
4936188 GCTAGATTAC
Statistics
Matches: 206, Mismatches: 15, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
149 42 0.20
152 27 0.13
154 96 0.47
155 41 0.20
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (155 bp):
AAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
AGAACTCATCTAAAAAAAGAAGAAG
Found at i:4936094 original size:380 final size:381
Alignment explanation
Indices: 4935431--4936137 Score: 1245
Period size: 380 Copynumber: 1.9 Consensus size: 381
4935421 AATGAAGAAG
* *
4935431 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
*
4935496 CAACCTTTTGTCTGAATTCATCATTTGATGGATCATCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
* * *
4935561 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
131 AACTCATCTAAAAAAAGAAGAAGAAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAG
* *
4935626 AAGTTCATAATGAGATGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATT
196 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAACATT
* * *
4935691 GCCAGGTAGAGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
261 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCACAATAAGAAG
4935756 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGA
326 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGA
*
4935812 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
*
4935877 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
* *
4935942 AA-TTATCTAAAAAAAGAAGAAGAAGTTCACGATGAGAAGAAATTATCTGAAAAAGAAGAAGAAG
131 AACTCATCTAAAAAAAGAAGAAGAAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAG
*
4936006 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATT
196 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAACATT
* *
4936071 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAG
261 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCACAATAAGAAG
4936136 AA
326 AA
4936138 CTTATCTGAA
Statistics
Matches: 308, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
380 181 0.59
381 127 0.41
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (381 bp):
AAGTTCACAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCATCTAAAAAAAGAAGAAGAAGTTCACAATGAGAAGAAATTATCTGAAAAAGAAGAAGAAG
AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAACATT
GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCACAATAAGAAG
AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGA
Found at i:4936136 original size:17 final size:17
Alignment explanation
Indices: 4936114--4936172 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
4936104 TGAAGAAAGA
4936114 AGAAGAAGTTCACAATG
1 AGAAGAAGTTCACAATG
*
4936131 AGAAGAACTT-ATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
4936149 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
4936167 AGAAGA
1 AGAAGA
4936173 GCTTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 18 0.53
18 2 0.06
19 12 0.35
20 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.24, T:0.17
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:4936157 original size:36 final size:38
Alignment explanation
Indices: 4936080--4936172 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 38
4936070 TGCCAGGTAG
*
4936080 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
1 AGTTCACAATGAGAAGAACTCATCT--AGAAAGAAGAAGA
*
4936120 AGTTCACAATGAGAAGAACTTATCT-G-AAGAAGAAGA
1 AGTTCACAATGAGAAGAACTCATCTAGAAAGAAGAAGA
4936156 AGTTCACAATGAGAAGA
1 AGTTCACAATGAGAAGA
4936173 GCTTGTTCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 27 0.53
37 1 0.02
40 23 0.45
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (38 bp):
AGTTCACAATGAGAAGAACTCATCTAGAAAGAAGAAGA
Found at i:4936423 original size:3 final size:3
Alignment explanation
Indices: 4936415--4936492 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
4936405 CCCATTTTAT
* *
4936415 TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4936463 TAA TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
4936493 AAAAAATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4937654 original size:13 final size:12
Alignment explanation
Indices: 4937636--4937715 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
4937626 CATTCAAATT
4937636 TTATTTTTGATTA
1 TTATTTTT-ATTA
4937649 TTATTTTTATT-
1 TTATTTTTATTA
*
4937660 TTATATTTTAATA
1 TTAT-TTTTATTA
4937673 TTATATTTTTAATTA
1 -T-TATTTTT-ATTA
** *
4937688 TTATTTGCAATA
1 TTATTTTTATTA
*
4937700 TT-CTTTTATTA
1 TTATTTTTATTA
4937711 TTATT
1 TTATT
4937716 ATTACTTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 13
0.69 0.14 0.18
Matches are distributed among these distances:
11 11 0.22
12 15 0.29
13 13 0.25
14 6 0.12
15 6 0.12
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:4937661 original size:24 final size:25
Alignment explanation
Indices: 4937633--4937681 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
4937623 AATCATTCAA
*
4937633 ATTTTAT-TTTTGATTATTAT-TTTT
1 ATTTTATATTTT-AATATTATATTTT
4937657 ATTTTATATTTTAATATTATATTTT
1 ATTTTATATTTTAATATTATATTTT
4937682 TAATTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTTATATTTTAATATTATATTTT
Found at i:4937661 original size:39 final size:40
Alignment explanation
Indices: 4937606--4937693 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
4937596 TACTCTAGTT
* * *
4937606 TTATAATTTTATATTTTA-ATCATTCAA-ATTTTATTTTTGA
1 TTATTATTTTATATTTTATAT--TTCAATATTATATTTTTAA
*
4937646 TTATTATTTT-TATTTTATATTTTAATATTATATTTTTAA
1 TTATTATTTTATATTTTATATTTCAATATTATATTTTTAA
4937685 TTATTATTT
1 TTATTATTT
4937694 GCAATATTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.10
39 27 0.64
40 11 0.26
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (40 bp):
TTATTATTTTATATTTTATATTTCAATATTATATTTTTAA
Found at i:4937692 original size:26 final size:26
Alignment explanation
Indices: 4937645--4937718 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
4937635 TTTATTTTTG
**
4937645 ATTATTATTTTTATT-TTATATTTTAAT
1 ATTA-TATTTTTATTATTAT-TTGCAAT
4937672 ATTATATTTTTAATTATTATTTGCAAT
1 ATTATATTTTT-ATTATTATTTGCAAT
*
4937699 ATTCT-TTTATTATTATTATT
1 ATTATATTT-TTATTATTATT
4937719 ACTTTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 19 0.46
27 18 0.44
28 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (26 bp):
ATTATATTTTTATTATTATTTGCAAT
Found at i:4937767 original size:18 final size:16
Alignment explanation
Indices: 4937744--4937778 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4937734 TCTTATTATT
4937744 TATATA-AATAAATATA
1 TATATATAATAAATA-A
4937760 TATATATAATAAATAA
1 TATATATAATAAATAA
4937776 TAT
1 TAT
4937779 TTGTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATATAATAAATAA
Found at i:4937963 original size:20 final size:19
Alignment explanation
Indices: 4937938--4937979 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4937928 TTATTTTATA
4937938 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
4937958 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
4937977 AAT
1 AAT
4937980 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:4937981 original size:119 final size:118
Alignment explanation
Indices: 4937842--4938069 Score: 273
Period size: 120 Copynumber: 1.9 Consensus size: 118
4937832 TTTTAATATA
* * * *
4937842 TATTTATTTATTTTTCAATAT-TAAG-AAAG-GGCAGTCTTAAAATAACTGGATGTCCATTTTAT
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGG-AGTCTTAAAACAACTAGAAGTCC-TTTTAT
* *
4937904 GATATTTTTAAATAAATAAATATCTTATTTTATAAATTATATATTAATTGTTTTAAT
64 GATATTTCTAAATAAATAAATATCTTA-TTTATAAA-TATAAATTAATTGTTTTAAT
* * ** * * *
4937961 TATTTATTTATTTTTTAATATCAAAGAAAAGAGGTGTCTTAAGGCACCTAGAAGTCCTTTTCTTA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGGAGTCTTAAAACAACTAGAAGTCCTTTTATGA
*
4938026 TATTTCTAAATAAATAAATATTTTATTTATAAATATAAATTAAT
66 TATTTCTAAATAAATAAATATCTTATTTATAAATATAAATTAAT
4938070 ATATTTTTCA
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
118 10 0.11
119 28 0.30
120 32 0.35
121 20 0.22
122 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (118 bp):
TATTTATTTATTTTTCAATATCAAAGAAAAGAGGAGTCTTAAAACAACTAGAAGTCCTTTTATGA
TATTTCTAAATAAATAAATATCTTATTTATAAATATAAATTAATTGTTTTAAT
Found at i:4938082 original size:25 final size:25
Alignment explanation
Indices: 4938035--4938088 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
4938025 ATATTTCTAA
*
4938035 ATAAATAAATATTTTATTTATAAAT
1 ATAAATAAATATTTTATTCATAAAT
* *
4938060 ATAAATTAATATATTT-TTCATAATT
1 ATAAATAAATAT-TTTATTCATAAAT
4938085 ATAA
1 ATAA
4938089 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAAATAAATATTTTATTCATAAAT
Found at i:4942267 original size:47 final size:49
Alignment explanation
Indices: 4942211--4942345 Score: 177
Period size: 47 Copynumber: 2.8 Consensus size: 49
4942201 CCTACCTGTA
* * *
4942211 CATTTTTGGCAGAAATGTGCCATTAATTCAAGTTAGATG-CTAACTGTG
1 CATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACGGTG
4942259 C-TTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACGGTG
1 CATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACGGTG
* * * *
4942307 CACTCTTGGCAGAAAGGTTCCACTAATGC-AGTTTAGATG
1 CATTTTTGGCAGAAAGGTGCCATTAATGCAAG-TTAGATG
4942346 AGGAATAGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
47 35 0.45
48 12 0.16
49 30 0.39
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (49 bp):
CATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACGGTG
Found at i:4942357 original size:49 final size:49
Alignment explanation
Indices: 4942216--4942357 Score: 128
Period size: 49 Copynumber: 2.9 Consensus size: 49
4942206 CTGTACATTT
* * * * * * *
4942216 TTGGCAGAAATGTGCCATTAATTCAAGTTAGATG-CTAACTGTGC-TTT
1 TTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACGAACAGTGCACTC
* * * *
4942263 TTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACGGTGCACTC
1 TTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACGAACAGTGCACTC
* * *
4942312 TTGGCAGAAAGGTTCCACTAATGC-AGTTTAGATGAGGAATAGTGCA
1 TTGGCAGAAAGGTGCCACTAATGCAAG-TTAGATGACGAACAGTGCA
4942358 TAGTTAGCAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
47 32 0.40
48 11 0.14
49 37 0.46
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (49 bp):
TTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACGAACAGTGCACTC
Found at i:4951267 original size:28 final size:27
Alignment explanation
Indices: 4951244--4951340 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
4951234 TAATATTATT
* * *
4951244 TAATAATAATAATAGTAATAAT-ATTAA
1 TAATAAT-ATAATAATAACATTAATTAA
4951271 TAATAATATAATAATAACATGTAATTAA
1 TAATAATATAATAATAACAT-TAATTAA
4951299 TAATAATATAATAATAACATTTAATTAA
1 TAATAATATAATAATAACA-TTAATTAA
4951327 TAATAATAATAATA
1 TAATAAT-ATAATA
4951341 TGATAATAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.16
27 8 0.13
28 38 0.60
29 7 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
TAATAATATAATAATAACATTAATTAA
Found at i:4951337 original size:65 final size:66
Alignment explanation
Indices: 4951259--4951383 Score: 175
Period size: 65 Copynumber: 1.9 Consensus size: 66
4951249 ATAATAATAG
* * * *
4951259 TAATAATATTAATAATAAT-ATAATAATAACATGTAATTAATAATA-ATATAA-TAATAACATTT
1 TAATAATAATAATAAT-ATGATAATAATAACATAT-ATAAATAATACATACAATTAATAACATTT
4951321 AAT
64 AAT
4951324 TAATAATAATAATAATATGATAATAATAACATATATAAATAATACATACAATTAATAACA
1 TAATAATAATAATAATATGATAATAATAACATATATAAATAATACATACAATTAATAACA
4951384 AAAAACGGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
64 11 0.21
65 34 0.64
66 8 0.15
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (66 bp):
TAATAATAATAATAATATGATAATAATAACATATATAAATAATACATACAATTAATAACATTTAA
T
Found at i:4951367 original size:3 final size:3
Alignment explanation
Indices: 4951244--4951352 Score: 98
Period size: 3 Copynumber: 36.0 Consensus size: 3
4951234 TAATATTATT
* * * *
4951244 TAA TAA TAA TAA TAG TAA TAA TAT TAA TAA TAA T-A TAA TAA TAA CATG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* *
4951292 TAA TTAA TAA TAA T-A TAA TAA TAA CATT TAA TTAA TAA TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA TAA TAA TAA
*
4951339 T-A TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA
4951353 CATATATAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.07
3 72 0.84
4 8 0.09
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4951936 original size:49 final size:48
Alignment explanation
Indices: 4951813--4951945 Score: 126
Period size: 49 Copynumber: 2.7 Consensus size: 48
4951803 TTGTACATTT
* * * * * *
4951813 TTGGCAAAAAGGTGCCACTAATCCTAGTAGTTAGAT-ACTAACTGTGCTTT
1 TTGGCAGAAAGGTGCCACTTATGC-A--AGTTAGATGACTAACGGTGCCTC
**
4951863 TTGGCAGAAAGGTTACA-TTAATGCAAGTTAGATGACTAACGGTGCACTC
1 TTGGCAGAAAGGTGCCACTT-ATGCAAGTTAGATGACTAACGGTGC-CTC
*
4951912 TTGGCAGAAAGGTGCCACTTATGCAGGTTAGATG
1 TTGGCAGAAAGGTGCCACTTATGCAAGTTAGATG
4951946 TGGAACAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
47 8 0.12
48 10 0.15
49 31 0.46
50 19 0.28
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (48 bp):
TTGGCAGAAAGGTGCCACTTATGCAAGTTAGATGACTAACGGTGCCTC
Found at i:4952000 original size:46 final size:46
Alignment explanation
Indices: 4951949--4952036 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
4951939 TTAGATGTGG
** *
4951949 AACAATGCATTGTTGGCATGAAAGGATGCCATAAATGAAAATGTAT
1 AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAATGTAT
4951995 AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAAT
1 AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAAT
4952037 ACATAACAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (46 bp):
AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAATGTAT
Found at i:4953894 original size:2 final size:2
Alignment explanation
Indices: 4953887--4953933 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4953877 TGACAGAAAG
4953887 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
4953929 AT AT A
1 AT AT A
4953934 GTTTTTATGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4961608 original size:20 final size:19
Alignment explanation
Indices: 4961573--4961616 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4961563 TGATCTTAAA
*
4961573 ATATAA-ATATTAATTAATT
1 ATATAATATACTAATT-ATT
4961592 ATATAATATACTAATTATT
1 ATATAATATACTAATTATT
4961611 A-ATAAT
1 ATATAAT
4961617 TAATTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
20 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATAATATACTAATTATT
Found at i:4962951 original size:23 final size:23
Alignment explanation
Indices: 4962921--4962976 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
4962911 AATAATAATA
4962921 ATAATAATAAT-ATAAATAACATG
1 ATAATAATAATAAT-AATAACATG
*
4962944 -TAATTAATAATAATAATAATATG
1 ATAA-TAATAATAATAATAACATG
4962967 ATAATAATAA
1 ATAATAATAA
4962977 CTTCTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 21 0.72
24 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAACATG
Found at i:4962991 original size:3 final size:3
Alignment explanation
Indices: 4962907--4962976 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
4962897 TATTTATTAT
* *
4962907 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA CATG TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA-A TAA -TAA TAA
*
4962954 TAA TAA TAA T-A TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
4962977 CTTCTATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.07
3 47 0.82
4 6 0.11
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4963547 original size:20 final size:20
Alignment explanation
Indices: 4963484--4963548 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
4963474 CGGAAGACTG
4963484 ACAGATGACCCGAAAGATTT
1 ACAGATGACCCGAAAGATTT
* * *
4963504 AAACATCATG-CTCGAAAGACTT
1 --ACA-GATGACCCGAAAGATTT
*
4963526 ACAGATGACCCGAAGGATTT
1 ACAGATGACCCGAAAGATTT
4963546 ACA
1 ACA
4963549 AATTCGTGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 3 0.09
20 15 0.44
22 13 0.38
23 3 0.09
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
ACAGATGACCCGAAAGATTT
Found at i:4964197 original size:25 final size:22
Alignment explanation
Indices: 4964133--4964190 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
4964123 GATAAAGCCT
*
4964133 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGATTCTA
* *
4964155 TCTTCTTTGAAAAGAGATTTTA
1 TCATCTTTGAAAAGAGATTCTA
4964177 TCATCTTTGCAAAA
1 TCATCTTTG-AAAA
4964191 TGTAGATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGATTCTA
Found at i:4964359 original size:56 final size:56
Alignment explanation
Indices: 4964273--4964382 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
4964263 TTGAAACATA
*
4964273 TCACAAGAAGGATTTATCCTAATTTCTTTCATGTCTCCACATCTAATCAGATCTTT
1 TCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAGATCTTT
*
4964329 TCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCATATCTAATCAGATCT
1 TCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAGATCT
4964383 CGAACAAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (56 bp):
TCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAGATCTTT
Found at i:4970780 original size:3 final size:3
Alignment explanation
Indices: 4970774--4970874 Score: 84
Period size: 3 Copynumber: 33.0 Consensus size: 3
4970764 TAATATTATT
* *
4970774 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA CATG TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA
* *
4970820 TAA TAA TAA T-A TGA TAA TAA TAA CATA TAGA -AA TAA T-A TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TA-A TAA
4970865 TTAA TAA TAA
1 -TAA TAA TAA
4970875 AAACGGACAA
Statistics
Matches: 81, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
2 7 0.09
3 61 0.75
4 13 0.16
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4970870 original size:46 final size:45
Alignment explanation
Indices: 4970764--4970874 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 45
4970754 TTTGGGTTTG
* * *
4970764 TAATATTATTTAATAATAATAATATAATAATAATAATAATAACATG
1 TAATA-TATATAATAATAATAATATAATAATAATAACAATAACATA
*
4970810 TAAT-TA-ATAATAATAATAATATGATAATAATAACATATAGA-A-A
1 TAATATATATAATAATAATAATATAATAATAATAACA-ATA-ACATA
4970853 TAATATATATAATTAATAATAA
1 TAATATATATAA-TAATAATAA
4970875 AAACGGACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
43 30 0.54
44 8 0.14
45 5 0.09
46 13 0.23
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (45 bp):
TAATATATATAATAATAATAATATAATAATAATAACAATAACATA
Found at i:4971362 original size:47 final size:49
Alignment explanation
Indices: 4971287--4971409 Score: 160
Period size: 47 Copynumber: 2.6 Consensus size: 49
4971277 AAATGTCTAG
* *
4971287 CTGTGCATTTTTGGCATAAAGGTGCCATTAATCCAGGTTAGAT-ACTAA
1 CTGTGCATTTTTGGCAGAAAGGTGCCATTAATCCAAGTTAGATGACTAA
* * *
4971335 CTGTGC-TTTTTGGTAGAAAGGTTCCATTAATGCAAGTTAGATGACTAA
1 CTGTGCATTTTTGGCAGAAAGGTGCCATTAATCCAAGTTAGATGACTAA
* * *
4971383 CGGTGCACTCTTGGCAGAAAGGTGCCA
1 CTGTGCATTTTTGGCAGAAAGGTGCCA
4971410 CGTATGCAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 31 0.49
48 16 0.25
49 16 0.25
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (49 bp):
CTGTGCATTTTTGGCAGAAAGGTGCCATTAATCCAAGTTAGATGACTAA
Found at i:4972153 original size:28 final size:28
Alignment explanation
Indices: 4972122--4972180 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
4972112 TTACAAATGG
4972122 GTGAAAGTTTTTTTTTTTTAAAAGTAAT
1 GTGAAAGTTTTTTTTTTTTAAAAGTAAT
*
4972150 GTG-AAGTTTTTTTTTTTTAAAAGTATT
1 GTGAAAGTTTTTTTTTTTTAAAAGTAAT
4972177 GTGA
1 GTGA
4972181 CACCTATGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (28 bp):
GTGAAAGTTTTTTTTTTTTAAAAGTAAT
Found at i:4972591 original size:30 final size:30
Alignment explanation
Indices: 4972557--4972613 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4972547 ATGCATGGGT
*
4972557 TAAATTGATATTTCATCTAAAGTTTAGGTG
1 TAAATTAATATTTCATCTAAAGTTTAGGTG
* *
4972587 TAAATTAATATTTTATCTAAATTTTAG
1 TAAATTAATATTTCATCTAAAGTTTAG
4972614 TTCAAATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (30 bp):
TAAATTAATATTTCATCTAAAGTTTAGGTG
Found at i:4975022 original size:21 final size:21
Alignment explanation
Indices: 4974988--4975066 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
4974978 ATCCCTTCAT
*
4974988 AAAAGGAT-AGATCCCTCGAGG
1 AAAAGGATCA-ATCCCTCGACG
* * *
4975009 AAAATGATCAATCCTTTC-ACT
1 AAAAGGATCAATCC-CTCGACG
*
4975030 AAAAGGATCAA-CCCTTCGATG
1 AAAAGGATCAATCCC-TCGACG
4975051 AAAAGGATCAATCCCT
1 AAAAGGATCAATCCCT
4975067 TTCTTGTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.09
21 35 0.78
22 6 0.13
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (21 bp):
AAAAGGATCAATCCCTCGACG
Found at i:4975054 original size:42 final size:41
Alignment explanation
Indices: 4974978--4975069 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
4974968 TTTTGGATTG
* *
4974978 ATCCCTTCATAAAAGGATAGATCCCTCGAGGAAAATGATCA
1 ATCCTTTCATAAAAGGATAGATCCCTCGAGGAAAAGGATCA
*
4975019 ATCCTTTCACTAAAAGGATCA-A-CCCTTCGATGAAAAGGATCA
1 ATCCTTTCA-TAAAAGGAT-AGATCCC-TCGAGGAAAAGGATCA
4975061 ATCCCTTTC
1 AT-CCTTTC
4975070 TTGTAATGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
41 11 0.25
42 26 0.59
43 7 0.16
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (41 bp):
ATCCTTTCATAAAAGGATAGATCCCTCGAGGAAAAGGATCA
Found at i:4979626 original size:11 final size:11
Alignment explanation
Indices: 4979592--4979643 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
4979582 TTGAATTTAC
*
4979592 TTCTTTTAA-A
1 TTCTTTTAATT
4979602 TTCTTCTTAATT
1 TTCTT-TTAATT
*
4979614 TTCTTTTATTT
1 TTCTTTTAATT
*
4979625 TTCTCTTTAATC
1 TTCT-TTTAATT
4979637 TTCTTTT
1 TTCTTTT
4979644 TTTCTTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 5 0.14
11 16 0.46
12 14 0.40
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTCTTTTAATT
Done.