Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008430.1 Hibiscus syriacus cultivar Beakdansim tig00111220_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: 1186098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:255318 original size:27 final size:27
Alignment explanation
Indices: 255280--255394 Score: 205
Period size: 27 Copynumber: 4.3 Consensus size: 27
255270 TGGTTTTCGT
255280 CGAAGGCGGGGACCAGGACTACATTGA
1 CGAAGGCGGGGACCAGGACTACATTGA
* *
255307 CGAAGGTGGGGATCAGGACTACATTGA
1 CGAAGGCGGGGACCAGGACTACATTGA
255334 CGAAGGCGGGGACCAGGACTACATTGA
1 CGAAGGCGGGGACCAGGACTACATTGA
255361 CGAAGGCGGGGACCAGGACTACA-TGA
1 CGAAGGCGGGGACCAGGACTACATTGA
255387 CGAAGGCG
1 CGAAGGCG
255395 ATGGTTGGTG
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
26 11 0.13
27 73 0.87
ACGTcount: A:0.30, C:0.21, G:0.38, T:0.11
Consensus pattern (27 bp):
CGAAGGCGGGGACCAGGACTACATTGA
Found at i:257096 original size:22 final size:22
Alignment explanation
Indices: 257046--257096 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
257036 AAATTTTAAC
257046 TAATTTATAATTATACGTTTAG
1 TAATTTATAATTATACGTTTAG
*
257068 TACTTTATAATT-TAACGTTTTA-
1 TAATTTATAATTAT-ACG-TTTAG
257090 TAATTTA
1 TAATTTA
257097 ATTTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (22 bp):
TAATTTATAATTATACGTTTAG
Found at i:262532 original size:2 final size:2
Alignment explanation
Indices: 262527--262571 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
262517 TGTTTTTTAA
*
262527 AT AT AT -T AT AT AT AT -T AT AT AT AT AT AT AT AG 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
262567 AT AT A
1 AT AT A
262572 AGTTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:265219 original size:23 final size:22
Alignment explanation
Indices: 265156--265220 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
265146 AAACTAATGT
*
265156 TTTATAAATTATATTTTAATTAA
1 TTTAT-AATTATATTTTAACTAA
* * * *
265179 ATTACATTTAGATTTTTAACTAA
1 TTTATAATTATA-TTTTAACTAA
265202 TTTATAATTATATGTTTAA
1 TTTATAATTATAT-TTTAA
265221 ACGTTTTATA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTATAATTATATTTTAACTAA
Found at i:265282 original size:16 final size:16
Alignment explanation
Indices: 265250--265283 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
265240 AATAGTGTTG
* *
265250 ATCATTAATGATGTTC
1 ATCATTAACGATATTC
265266 ATCATTAACGATATTC
1 ATCATTAACGATATTC
265282 AT
1 AT
265284 TCGTGCTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
ATCATTAACGATATTC
Found at i:271460 original size:18 final size:18
Alignment explanation
Indices: 271432--271473 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
271422 AAAAAACGAG
271432 TAAATAATAAATAACATAA
1 TAAA-AATAAATAACATAA
271451 TAAAAATAAATAACATAA
1 TAAAAATAAATAACATAA
271469 TAAAA
1 TAAAA
271474 TGATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAATAAATAACATAA
Found at i:271686 original size:38 final size:37
Alignment explanation
Indices: 271577--271943 Score: 311
Period size: 38 Copynumber: 10.1 Consensus size: 37
271567 ATTTTTAAAC
* * *
271577 TATATAATATATTTTAAAAAAGTTTTCAAAACTATATAT
1 TATATAAT-T-TTTCAAAAATGTTTTTAAAACTATATAT
* * *
271616 TATAT-AGTTTT-GAAAATG-ATTT-AAA--A-ATAT
1 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAT
* *
271646 TATATAAGTTTTCAAAAAATATTTTTAAAACTATATAT
1 TATATAATTTTTC-AAAAATGTTTTTAAAACTATATAT
271684 TATATAATTTTTCAAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTTCAAAAATGTTTTT-AAAACTATATAT
* * * *
271722 TATATAATTCTTCCAAAATGTTTTT-AAAGTATAT-G
1 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAT
271757 T-TATAATTTTTCAAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTTCAAAAATGTTTTT-AAAACTATATAT
* *
271794 TATAT-ATTTTTCCAAAAATATTTTTAAAA--GTATAT
1 TATATAATTTTT-CAAAAATGTTTTTAAAACTATATAT
*
271829 TATATAATTTTTC-AAAATGTTTTCAAAAC--TATAT
1 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAT
* * * * *
271863 TATAT-ATACTTT-AAAAATATTTTCAAAACTATACAA
1 TATATAAT-TTTTCAAAAATGTTTTTAAAACTATATAT
* * *
271899 TATATAAATTTTCGAAAATCGTTTTCTGAAAATTATATAT
1 TATATAATTTTTCAAAAAT-GTTTT-T-AAAACTATATAT
271939 TATAT
1 TATAT
271944 TTTGTCAAAA
Statistics
Matches: 269, Mismatches: 34, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
30 9 0.03
31 7 0.03
33 10 0.04
34 67 0.25
35 20 0.07
36 36 0.13
37 30 0.11
38 71 0.26
39 5 0.02
40 14 0.05
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATAATTTTTCAAAAATGTTTTTAAAACTATATAT
Found at i:271765 original size:72 final size:72
Alignment explanation
Indices: 271642--271943 Score: 321
Period size: 72 Copynumber: 4.1 Consensus size: 72
271632 TGATTTAAAA
* *
271642 ATATTATATAAGTTTTCAAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTT
1 ATATTATATAA-TTTTC-CAAAATATTTTTAAAA--GTATATTATATAATTTTTCAAAAATGTTT
271707 TTAAAAACTAT
62 TTAAAAACTAT
*
271718 ATATTATATAATTCTTCCAAAATGTTTTT-AAAGTATATGT-TATAATTTTTCAAAAATGTTTTT
1 ATATTATATAATT-TTCCAAAATATTTTTAAAAGTATAT-TATATAATTTTTCAAAAATGTTTTT
271781 AAAAACTAT
64 AAAAACTAT
* *
271790 ATATTATATATTTTTCCAAAAATATTTTTAAAAGTATATTATATAATTTTTC-AAAATG-TTTTC
1 ATATTATATAATTTTCC-AAAATATTTTTAAAAGTATATTATATAATTTTTCAAAAATGTTTTTA
271853 AAAAC--T
65 AAAACTAT
* * * * * * *
271859 ATATTATATATACTTT-AAAAATATTTTCAAAACTATACAATATATAAATTTTCGAAAATCGTTT
1 ATATTATATA-ATTTTCCAAAATATTTTTAAAAGTAT--ATTATATAATTTTTCAAAAAT-GTTT
* *
271923 TCTGAAAATTAT
62 T-TAAAAACTAT
271935 ATATTATAT
1 ATATTATAT
271944 TTTGTCAAAA
Statistics
Matches: 197, Mismatches: 15, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
68 17 0.09
69 11 0.06
70 16 0.08
71 18 0.09
72 67 0.34
73 24 0.12
74 8 0.04
75 12 0.06
76 24 0.12
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (72 bp):
ATATTATATAATTTTCCAAAATATTTTTAAAAGTATATTATATAATTTTTCAAAAATGTTTTTAA
AAACTAT
Found at i:271862 original size:34 final size:35
Alignment explanation
Indices: 271525--271954 Score: 266
Period size: 34 Copynumber: 12.1 Consensus size: 35
271515 ATATATTTAA
* * * *
271525 AAAAATTGTTTTTAAAACTATATAACAT-ATATTTC
1 AAAAA-TGTTTTCAAAACTATATTATATAATTTTTC
* * *
271560 AAAAACTATTTT-TAAACTATATAATAT-A-TTTT-
1 AAAAA-TGTTTTCAAAACTATATTATATAATTTTTC
* *
271592 AAAAAAGTTTTCAAAACTATA-TATTATATAGTTTT-
1 AAAAATGTTTTCAAAACTATATTA-TATA-ATTTTTC
* * *
271627 GAAAATGATTT-AAAA--ATATTATATAAGTTTTC
1 AAAAATGTTTTCAAAACTATATTATATAATTTTTC
* *
271659 AAAAAATATTTTTAAAACTATATATTATATAATTTTTC
1 -AAAAATGTTTTCAAAAC--TATATTATATAATTTTTC
* *
271697 AAAAATGTTTTTAAAAACTATATATTATATAATTCTTC
1 AAAAATG-TTTTCAAAAC--TATATTATATAATTTTTC
* * *
271735 CAAAATGTTTT-TAAAGTATATGT-TATAATTTTTC
1 AAAAATGTTTTCAAAACTATAT-TATATAATTTTTC
*
271769 AAAAATGTTTTTAAAAACTATA-TATTATATATTTTTCC
1 AAAAATG-TTTTCAAAACTATATTA-TATA-ATTTTT-C
* * *
271807 AAAAATATTTTTAAAAGTATATTATATAATTTTTC
1 AAAAATGTTTTCAAAACTATATTATATAATTTTTC
*
271842 -AAAATGTTTTCAAAACTATATTATAT-ATACTTT-
1 AAAAATGTTTTCAAAACTATATTATATAAT-TTTTC
* * *
271875 AAAAATATTTTCAAAACTATACAATATATAAATTTTC
1 AAAAATGTTTTCAAAACTAT--ATTATATAATTTTTC
* *
271912 GAAAATCGTTTTCTGAAAATTATA-TAT-TATATTTTGTC
1 AAAAAT-GTTTTC--AAAACTATATTATATA-ATTTT-TC
271950 AAAAA
1 AAAAA
271955 CATTTTCACA
Statistics
Matches: 320, Mismatches: 42, Indels: 63
0.75 0.10 0.15
Matches are distributed among these distances:
31 11 0.03
32 23 0.07
33 15 0.05
34 89 0.28
35 28 0.09
36 31 0.10
37 45 0.14
38 71 0.22
40 7 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
AAAAATGTTTTCAAAACTATATTATATAATTTTTC
Found at i:272975 original size:165 final size:163
Alignment explanation
Indices: 272617--273545 Score: 1295
Period size: 165 Copynumber: 5.6 Consensus size: 163
272607 CTGAGTTGAA
* * * *
272617 TGTAATCGAACTCGGAGGTCTTCGGTTGGTAGATAGCCCTTCTCGACTTAAGTTATACTGTAAAT
1 TGTAATCGAACTCGG-GGTC-T---TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
* * *
272682 GATGTGCCTTGGAGCCGAGCGTAGTCGAACTCGAAGGTCTCTGG-TGACAGATAACCCTTCTAGC
61 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT-TGGTTGGCAGATAACCCTTCTAGA
* * * *
272746 CTTGAGTTATACTGTAAATGATGTGCCCTCGAAGTTGAG
125 CTTAAGTTATACTGCAAATGATATGCCCTCGAAGCTGAG
* *
272785 TGTAATCGAACTTGAGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCG-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
272850 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCCTTGGTTGGCAGATAACCCTTCTCGACTTA
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTGGTTGGCAGATAACCCTTCTAGACTTA
*
272915 AGTTATACTGCAAATGATATGCCCTCGAAGTTGAG
129 AGTTATACTGCAAATGATATGCCCTCGAAGCTGAG
*
272950 TGTAATCAAACTCGGGGATCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCGGGG-TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * *
273015 TGCTTTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTCTGTTGGCAGATAACCCTTCTTGACTTA
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-GGTTGGCAGATAACCCTTCTAGACTTA
* *
273080 AGTTATACTGCAAATGATATGCCCTTGGAGCTGAG
129 AGTTATACTGCAAATGATATGCCCTCGAAGCTGAG
* * *
273115 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTACAAATGATG
1 TGTAATCGAACTC-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * * * *
273180 TGCCTTAGAGTTGAGCGTAGTCGAACTCAAAGGTTTTCTGTTGGCAGATGACCCTTCTTGACTTA
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-GGTTGGCAGATAACCCTTCTAGACTTA
*
273245 AGTTATACTGCAAATGATATGCCCTCGGAGCTGAG
129 AGTTATACTGCAAATGATATGCCCTCGAAGCTGAG
*
273280 TGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCG-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * *
273345 TGCCTTGGAGCTGAGAGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTATAGCCTTG
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTAGACTTA
* * *
273409 AGTTATGCTGTAAATAATATGCCCTCGAAGCTGAG
129 AGTTATACTGCAAATGATATGCCCTCGAAGCTGAG
* *
273444 TGTAATCGAACTCGGAGGTCTTTGGCATATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCGG-GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
273509 TGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
273546 TGTTTGGTAA
Statistics
Matches: 692, Mismatches: 60, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
163 3 0.00
164 224 0.32
165 440 0.64
166 6 0.01
167 1 0.00
168 17 0.02
169 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (163 bp):
TGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTAGACTTAAG
TTATACTGCAAATGATATGCCCTCGAAGCTGAG
Found at i:273007 original size:81 final size:80
Alignment explanation
Indices: 272617--273547 Score: 812
Period size: 84 Copynumber: 11.3 Consensus size: 80
272607 CTGAGTTGAA
* * *
272617 TGTAATCGAACTCGGAGGTCTTCGGTTGGTAGATAGCCCTTCTCGACTTAAGTTATACTGTAAAT
1 TGTAATCGAACTCGG-GGTC-T---TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAAT
* *
272682 GATGTG-CCTTGGAGCCGAG
61 GATGTGCCCTCGGAGCTGAG
* * * * * * * *
272701 CGTAGTCGAACTCGAAGGTCTCTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATG
1 TGTAATCGAACTCG-GGGTCT-T--TGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATG
* *
272766 ATGTGCCCTCGAAGTTGAG
62 ATGTGCCCTCGGAGCTGAG
* * * * *
272785 TGTAATCGAACTTGAGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCG-GGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATG
*
272850 TG-CCTTGGAGCTGAG
65 TGCCCTCGGAGCTGAG
* * *
272865 CGTAGTCGAACTCGAAGGTCCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAAT
1 TGTAATCGAACTCG-GGGT-C-T--TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAAT
* * *
272930 GATATGCCCTCGAAGTTGAG
61 GATGTGCCCTCGGAGCTGAG
* * * *
272950 TGTAATCAAACTCGGGGATCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCGGGG-TCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATG
* *
273015 TG-CTTTGGAGCTGAG
65 TGCCCTCGGAGCTGAG
** * ** *
273030 CATAGTCGAACTCAAAGGTCTTCTGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAT
1 TGTAATCGAACTC---GG-GGTCT-TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAAT
* *
273095 GATATGCCCTTGGAGCTGAG
61 GATGTGCCCTCGGAGCTGAG
* *
273115 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTACAAATGATG
1 TGTAATCGAACTC-GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATG
** *
273180 TG-CCTTAGAGTTGAG
65 TGCCCTCGGAGCTGAG
* * ** * *
273195 CGTAGTCGAACTCAAAGGTTTTCTGTTGGCAGATGACCCTTCTTGACTTAAGTTATACTGCAAAT
1 TGTAATCGAACTC---GG-GGTCT-TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAAT
*
273260 GATATGCCCTCGGAGCTGAG
61 GATGTGCCCTCGGAGCTGAG
* *
273280 TGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCG-GGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATG
*
273345 TG-CCTTGGAGCTGAG
65 TGCCCTCGGAGCTGAG
* * * * * * * * * *
273360 AGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATA
1 TGTAATCGAACTCG-GGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATG
* *
273425 ATATGCCCTCGAAGCTGAG
62 ATGTGCCCTCGGAGCTGAG
* * * * *
273444 TGTAATCGAACTCGGAGGTCTTTGGCATATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATG
1 TGTAATCGAACTCGG-GGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATG
* *
273509 TG-TCTTGGAGCTGAG
65 TGCCCTCGGAGCTGAG
* * *
273524 CGTAGTCGAACTCGAAGGTCTTTG
1 TGTAATCGAACTCG-GGGTCTTTG
273548 TTTGGTAAAT
Statistics
Matches: 687, Mismatches: 132, Indels: 60
0.78 0.15 0.07
Matches are distributed among these distances:
80 127 0.18
81 197 0.29
82 12 0.02
83 88 0.13
84 198 0.29
85 65 0.09
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (80 bp):
TGTAATCGAACTCGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGT
GCCCTCGGAGCTGAG
Found at i:276156 original size:15 final size:15
Alignment explanation
Indices: 276136--276164 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
276126 TAGTGATGTA
276136 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
276151 AATAAAAATAAAAA
1 AATAAAAATAAAAA
276165 ATCATACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:278536 original size:17 final size:18
Alignment explanation
Indices: 278509--278549 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
278499 AAAAAATGAG
278509 TAAATAATAAATAA-ATAA
1 TAAA-AATAAATAACATAA
278527 TAAAAATAAATAACATAA
1 TAAAAATAAATAACATAA
278545 TAAAA
1 TAAAA
278550 TGAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAATAAATAACATAA
Found at i:278560 original size:2 final size:2
Alignment explanation
Indices: 278553--278616 Score: 85
Period size: 2 Copynumber: 31.0 Consensus size: 2
278543 AATAAAATGA
278553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT
*
278597 ACT AT AC A- AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT
278617 TTTAAAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
1 1 0.02
2 50 0.88
3 6 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:278793 original size:38 final size:37
Alignment explanation
Indices: 278630--279085 Score: 364
Period size: 38 Copynumber: 12.6 Consensus size: 37
278620 AAAAAATTTG
* *
278630 TTTTTAAAACTATATA--ACAT-ATATTTCAAAAACTA
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAA-TA
*
278665 TTTTT-AAACTATATA--ATAT-ATTTTT-AAAAA-G
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* * *
278696 TTTTCAAAACTATATATTATAT-AGTTTT-GAAAATGA
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAAT-A
*
278732 --TTT-AAA--A-ATATTATATAAGTTTTCAAAAAATA
1 TTTTTAAAACTATATATTATATAATTTTTC-AAAAATA
* *
278764 TTTTTAAAACTATATATCATATAATTTTTCAAAAATG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* *
278801 TTTTTAAAATCTATATATTATATAATTCTTCCAAAAATG
1 TTTTTAAAA-CTATATATTATATAATT-TTTCAAAAATA
* * *
278840 TTTTTAAAAGTATATGTTATATAATTTTTCAAAAATG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
278877 TTTTTAAAAACTATATATTATATAATTTTTCCAAAAATA
1 TTTTT-AAAACTATATATTATATAATTTTT-CAAAAATA
* *
278916 TTTTTAAAAGTATATATTATATAATTTTTC-AAAATG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* ** *
278952 TTTTCAAAAC--TATATTATAT-ATACTTAAAAAATA
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* * * * * *
278986 TTTTCAAAACTATACAATATATAAATTTTCGAAAATCG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAAT-A
* * *
279024 TTTTCTGAAAATTATATATTATAT--TTTATCAAAAACA
1 TTTT-T-AAAACTATATATTATATAATTTTTCAAAAATA
**
279061 TTTTTACAAGTTATATATATATATA
1 TTTTTA-AAACTATATAT-TATATA
279086 TATATATATA
Statistics
Matches: 347, Mismatches: 46, Indels: 53
0.78 0.10 0.12
Matches are distributed among these distances:
30 9 0.03
31 11 0.03
32 11 0.03
33 17 0.05
34 61 0.18
35 9 0.03
36 32 0.09
37 49 0.14
38 103 0.30
39 31 0.09
40 14 0.04
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
Found at i:279079 original size:2 final size:2
Alignment explanation
Indices: 279072--279118 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
279062 TTTTACAAGT
* *
279072 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA AA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
279113 TA TA TA
1 TA TA TA
279119 AAACAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:279126 original size:17 final size:17
Alignment explanation
Indices: 279093--279126 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
279083 ATATATATAT
* *
279093 ATATATATATAATAAAA
1 ATATATATAAAACAAAA
279110 ATATATATAAAACAAAA
1 ATATATATAAAACAAAA
279127 TAACTTCAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATATATAAAACAAAA
Found at i:279255 original size:16 final size:17
Alignment explanation
Indices: 279234--279268 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
279224 TATTAGAATA
*
279234 TATATTATTTTTAT-TT
1 TATATTACTTTTATGTT
279250 TATATTACTTTTATGTT
1 TATATTACTTTTATGTT
279267 TA
1 TA
279269 ATGAAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TATATTACTTTTATGTT
Found at i:282282 original size:2 final size:2
Alignment explanation
Indices: 282275--282309 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
282265 CCTGCATCAC
282275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
282310 AACATAAAAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:283338 original size:18 final size:19
Alignment explanation
Indices: 283315--283350 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
283305 AAAGGGGGCA
*
283315 TTCGAA-CAAAGAAAAGAT
1 TTCGAACCAAAAAAAAGAT
283333 TTCGAACCAAAAAAAAGA
1 TTCGAACCAAAAAAAAGA
283351 ACCATGAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (19 bp):
TTCGAACCAAAAAAAAGAT
Found at i:286733 original size:23 final size:24
Alignment explanation
Indices: 286703--286748 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
286693 TTATATGTGG
*
286703 TCCTTCGGGAC-ATTTCTACGTGA
1 TCCTTCGGGACAAATTCTACGTGA
286726 TCCTTCGGGACAAATTCTACGTG
1 TCCTTCGGGACAAATTCTACGTG
286749 CCCCTAGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.33
Consensus pattern (24 bp):
TCCTTCGGGACAAATTCTACGTGA
Found at i:288419 original size:21 final size:19
Alignment explanation
Indices: 288379--288418 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
288369 ATCAATCTAG
288379 TATTTTTTAAGACCGATTT
1 TATTTTTTAAGACCGATTT
288398 TATTTTATTAAAGACC-ATTT
1 TATTTT-TT-AAGACCGATTT
288418 T
1 T
288419 TCTCCTCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 6 0.32
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (19 bp):
TATTTTTTAAGACCGATTT
Found at i:290830 original size:13 final size:12
Alignment explanation
Indices: 290808--290838 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
290798 GGATTTGATT
290808 TTTATTTTCGAG
1 TTTATTTTCGAG
290820 TTTACTTTTCGAG
1 TTTA-TTTTCGAG
290833 TTTATT
1 TTTATT
290839 ATTAGGAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (12 bp):
TTTATTTTCGAG
Found at i:300488 original size:50 final size:50
Alignment explanation
Indices: 300429--300533 Score: 210
Period size: 50 Copynumber: 2.1 Consensus size: 50
300419 AAATCCATTC
300429 AAAACATCAACCCCTTAACTTTTCATCTTTTCCAAATGGGTCCCTAAAGG
1 AAAACATCAACCCCTTAACTTTTCATCTTTTCCAAATGGGTCCCTAAAGG
300479 AAAACATCAACCCCTTAACTTTTCATCTTTTCCAAATGGGTCCCTAAAGG
1 AAAACATCAACCCCTTAACTTTTCATCTTTTCCAAATGGGTCCCTAAAGG
300529 AAAAC
1 AAAAC
300534 TAATGGATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.29
Consensus pattern (50 bp):
AAAACATCAACCCCTTAACTTTTCATCTTTTCCAAATGGGTCCCTAAAGG
Found at i:303668 original size:31 final size:31
Alignment explanation
Indices: 303630--303713 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
303620 AGTGATAAGT
* **
303630 TTTGATAAGTTTAATTATCATTTTATAATAA
1 TTTGATAAGTTTAATGATCATGCTATAATAA
*
303661 TTTGATAAGTTTAATGATCATGCTGTAATAA
1 TTTGATAAGTTTAATGATCATGCTATAATAA
* *
303692 TTTGATAAAGTTCATTGATCAT
1 TTTGAT-AAGTTTAATGATCAT
303714 TTGTAACTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 33 0.72
32 13 0.28
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTGATAAGTTTAATGATCATGCTATAATAA
Found at i:306405 original size:21 final size:21
Alignment explanation
Indices: 306363--306406 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
306353 AGTAAAAAAA
* * *
306363 TTACTTAAAACATTATTATTT
1 TTACCTAAAACATCAATATTT
*
306384 TTACCTAAAACATCAATGTTT
1 TTACCTAAAACATCAATATTT
306405 TT
1 TT
306407 TAATATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
TTACCTAAAACATCAATATTT
Found at i:306456 original size:21 final size:21
Alignment explanation
Indices: 306432--306478 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
306422 AGTGCCCAAC
306432 AATAACAAAACCGATAGAAAA
1 AATAACAAAACCGATAGAAAA
* *
306453 AATAACAAAATCGATAGAAAT
1 AATAACAAAACCGATAGAAAA
306474 AATAA
1 AATAA
306479 TGTTTCCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.66, C:0.11, G:0.09, T:0.15
Consensus pattern (21 bp):
AATAACAAAACCGATAGAAAA
Found at i:310710 original size:81 final size:81
Alignment explanation
Indices: 310575--310736 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
310565 ATCGAGTAAG
*
310575 GTGATTGCCTTTGTTGACGCTGACTGGGCAAGCAATGTTGATGACCGCCGATCAGTTTATGGTTC
1 GTGATTGCCTTTGTTGACGCTGACTGGACAAGCAATGTTGATGACCGCCGATCAGTTTATGGTTC
*
310640 TTGGATTTTTCTTGGC
66 TTGCATTTTTCTTGGC
* *
310656 GTGATTGCCTTTGTTGACGCTGACTGGACAAGCAATGTTGATGATCGCCGATCAGTTTCTGGTTC
1 GTGATTGCCTTTGTTGACGCTGACTGGACAAGCAATGTTGATGACCGCCGATCAGTTTATGGTTC
310721 TTGCATTTTTCTTGGC
66 TTGCATTTTTCTTGGC
310737 ATCAACCTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.38
Consensus pattern (81 bp):
GTGATTGCCTTTGTTGACGCTGACTGGACAAGCAATGTTGATGACCGCCGATCAGTTTATGGTTC
TTGCATTTTTCTTGGC
Found at i:318297 original size:35 final size:33
Alignment explanation
Indices: 318243--318321 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 33
318233 TTTTCATGTC
* *
318243 TTTT-TTCTTTTCTTTTTTTTCGAACAACATTT
1 TTTTCTTCTTTTTTTTTTTTTCAAACAACATTT
* *
318275 TTTTCTTCTTTTTTTCTCTTTTTCAAACTACTTTT
1 TTTTCTTCTTTTTTT-T-TTTTTCAAACAACATTT
318310 TTTTCTT-TTTTT
1 TTTTCTTCTTTTT
318322 CAATGGAGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.10
33 9 0.22
34 6 0.15
35 21 0.52
ACGTcount: A:0.11, C:0.16, G:0.01, T:0.71
Consensus pattern (33 bp):
TTTTCTTCTTTTTTTTTTTTTCAAACAACATTT
Found at i:318316 original size:32 final size:32
Alignment explanation
Indices: 318243--318322 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
318233 TTTTCATGTC
* *
318243 TTTTTTCTTTTCTT-TTTTTTCGAACAACATTT
1 TTTTTTCTTTTTTTCTTTTTTCAAACAACA-TT
*
318275 TTTTCTTCTTTTTTTCTCTTTTTCAAACTAC-TT
1 TTTT-TTCTTTTTTTCT-TTTTTCAAACAACATT
318308 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
318323 AATGGAGCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 15 0.36
33 15 0.36
34 1 0.02
35 11 0.26
ACGTcount: A:0.11, C:0.17, G:0.01, T:0.70
Consensus pattern (32 bp):
TTTTTTCTTTTTTTCTTTTTTCAAACAACATT
Found at i:319918 original size:26 final size:25
Alignment explanation
Indices: 319880--319929 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
319870 TTAGCATATT
319880 AAAAAGAAAACTTGAAAA-TAAAAG
1 AAAAAGAAAACTTGAAAAGTAAAAG
319904 AAAAATGAAGAACTTGAAAAGTAAAA
1 AAAAA-GAA-AACTTGAAAAGTAAAA
319930 AGAGAAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.22
25 3 0.13
26 10 0.43
27 5 0.22
ACGTcount: A:0.68, C:0.04, G:0.14, T:0.14
Consensus pattern (25 bp):
AAAAAGAAAACTTGAAAAGTAAAAG
Found at i:321904 original size:13 final size:13
Alignment explanation
Indices: 321896--321936 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
321886 TTTATTTTTT
321896 AAAAATATTATTA
1 AAAAATATTATTA
*
321909 AAAAATATTA-AA
1 AAAAATATTATTA
*
321921 AAAAATATTATGA
1 AAAAATATTATTA
321934 AAA
1 AAA
321937 TTATGTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AAAAATATTATTA
Found at i:321911 original size:12 final size:12
Alignment explanation
Indices: 321894--321936 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
321884 ATTTTATTTT
321894 TTAAAAATATTA
1 TTAAAAATATTA
321906 TTAAAAAATATTA
1 TT-AAAAATATTA
**
321919 AAAAAAATATTA
1 TTAAAAATATTA
*
321931 TGAAAA
1 TTAAAA
321937 TTATGTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
TTAAAAATATTA
Found at i:322070 original size:4 final size:4
Alignment explanation
Indices: 322061--322090 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
322051 AACTTTTGTG
*
322061 TGTA TGTA TGTA TGTA TGTA AGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
322091 GTACAAAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:322883 original size:20 final size:20
Alignment explanation
Indices: 322858--322895 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
322848 TTAGCGGGGT
322858 TATGACACGTAGGGAAGGGA
1 TATGACACGTAGGGAAGGGA
322878 TATGACACGTAGGGAAGG
1 TATGACACGTAGGGAAGG
322896 CGCGAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.39, T:0.16
Consensus pattern (20 bp):
TATGACACGTAGGGAAGGGA
Found at i:324196 original size:19 final size:19
Alignment explanation
Indices: 324172--324217 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
324162 ACAGAGTATG
**
324172 TTTTAATTTTATTATTTGT
1 TTTTAATTTTATTATTTAC
324191 TTTTAATTTTATTATTTAC
1 TTTTAATTTTATTATTTAC
324210 TTTTAATT
1 TTTTAATT
324218 ATCGTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTATTATTTAC
Found at i:324904 original size:21 final size:20
Alignment explanation
Indices: 324856--324905 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
324846 ACCTCAGTCT
* *
324856 GGTCAGACGCCACTGCTCCA
1 GGTCAGATGCCACTGCGCCA
**
324876 TATCAGATGCCACTGCAGCCA
1 GGTCAGATGCCACTGC-GCCA
324897 GGTCAGATG
1 GGTCAGATG
324906 ACACCATAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (20 bp):
GGTCAGATGCCACTGCGCCA
Found at i:325221 original size:15 final size:15
Alignment explanation
Indices: 325201--325233 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
325191 TAACTGCTCT
325201 TGATGATGATAATGA
1 TGATGATGATAATGA
325216 TGATGATGATAATGA
1 TGATGATGATAATGA
325231 TGA
1 TGA
325234 GAGTGAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
TGATGATGATAATGA
Found at i:330728 original size:21 final size:21
Alignment explanation
Indices: 330687--330730 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
330677 GAATGATAAA
*
330687 TTTGGAATTAAGATTTTGGAT
1 TTTGGAATTAAGATTTGGGAT
*
330708 TTTGGTATT-AGATTTAGGGAT
1 TTTGGAATTAAGATTT-GGGAT
330729 TT
1 TT
330731 AAAGGGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTGGAATTAAGATTTGGGAT
Found at i:333427 original size:8 final size:8
Alignment explanation
Indices: 333414--333443 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
333404 TTTGTCTTTT
333414 TTATATTA
1 TTATATTA
333422 TTATATTA
1 TTATATTA
333430 TTATTATTA
1 TTA-TATTA
333439 TTATA
1 TTATA
333444 CAAAAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATATTA
Found at i:336384 original size:49 final size:50
Alignment explanation
Indices: 336312--336411 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 50
336302 CCTCGAAAAC
*
336312 TAGTATGTGCTGATAAGGCTAGGGCTAAATCGG-TTTTACAAGATTCATA
1 TAGTATGTGCTGACAAGGCTAGGGCTAAATCGGTTTTTACAAGATTCATA
336361 TAGTATGTGCTGACAAGGCTAGGGCTAAATCGGTTTTTACAAGATTCATA
1 TAGTATGTGCTGACAAGGCTAGGGCTAAATCGGTTTTTACAAGATTCATA
336411 T
1 T
336412 GAGAATGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 32 0.65
50 17 0.35
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (50 bp):
TAGTATGTGCTGACAAGGCTAGGGCTAAATCGGTTTTTACAAGATTCATA
Found at i:338330 original size:23 final size:25
Alignment explanation
Indices: 338290--338337 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
338280 CATAAACTTA
338290 AATATTATATAAATTATTTAAATAAT
1 AATATTATATAAATTATTT-AATAAT
338316 AATATT-T-TAAA-TATTTAATAAT
1 AATATTATATAAATTATTTAATAAT
338338 TTATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 4 0.18
25 1 0.05
26 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATTATATAAATTATTTAATAAT
Found at i:338334 original size:16 final size:16
Alignment explanation
Indices: 338305--338347 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
338295 TATATAAATT
*
338305 ATTTAAATA-ATAATA
1 ATTTAAATATTTAATA
*
338320 TTTTAAATATTTAATA
1 ATTTAAATATTTAATA
*
338336 ATTTATATATTT
1 ATTTAAATATTT
338348 TTAAAATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAAATATTTAATA
Found at i:348218 original size:2 final size:2
Alignment explanation
Indices: 348211--348235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
348201 TCTCAAAGTT
348211 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 T
348236 TTCCAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:348729 original size:16 final size:17
Alignment explanation
Indices: 348708--348754 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
348698 ATTTAAAAAC
348708 TTAAAATAATATATT-T
1 TTAAAATAATATATTAT
*
348724 TTAAAATTAT-TATTAT
1 TTAAAATAATATATTAT
*
348740 TTAATATATATATAT
1 TTAAAATA-ATATAT
348755 ATATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 2 0.08
18 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAATAATATATTAT
Found at i:352320 original size:2 final size:2
Alignment explanation
Indices: 352313--352350 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
352303 GATTCACAAA
352313 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
352351 GCTCTTCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:361595 original size:20 final size:21
Alignment explanation
Indices: 361570--361621 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
361560 TTTTCTCAAT
361570 TCGCAATGCGAATAAGT-AAA
1 TCGCAATGCGAATAAGTAAAA
* **
361590 TCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGTAAAA
361611 TCGCAATGCGA
1 TCGCAATGCGA
361622 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATAAGTAAAA
Found at i:361635 original size:20 final size:20
Alignment explanation
Indices: 361610--361677 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
361600 AATTGGTAAA
361610 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
361630 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
361651 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
361671 TTCGCAA
1 ATCGCAA
361678 CGTGATTCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 2 0.05
20 20 0.53
21 14 0.37
22 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:361894 original size:12 final size:12
Alignment explanation
Indices: 361858--361891 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
361848 CTCTCTGGCG
361858 ACATCCGTTCCT
1 ACATCCGTTCCT
*
361870 ATATCCGTTCCT
1 ACATCCGTTCCT
361882 ACATCC-TTCC
1 ACATCCGTTCC
361892 CTATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:362472 original size:24 final size:24
Alignment explanation
Indices: 362445--362498 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
362435 GTATTCAAAA
*
362445 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
362469 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
362493 TTTGAT
1 TTTGAT
362499 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:362690 original size:12 final size:12
Alignment explanation
Indices: 362673--362697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
362663 ATATAATCCT
362673 GAAGAAGAAAAA
1 GAAGAAGAAAAA
362685 GAAGAAGAAAAA
1 GAAGAAGAAAAA
362697 G
1 G
362698 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:365012 original size:19 final size:19
Alignment explanation
Indices: 364990--365120 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
364980 GGAAATTACT
364990 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
365009 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
365023 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
365042 ATCGCAA--CG---TGAAT
1 ATCGCAATGCGAAATGAAA
*
365056 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
365075 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
365089 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
365108 ATCGCAACGCGAA
1 ATCGCAATGCGAA
365121 TTTAATTTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 29 0.34
15 2 0.02
16 6 0.07
17 6 0.07
18 2 0.02
19 41 0.48
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:365032 original size:33 final size:33
Alignment explanation
Indices: 364990--365116 Score: 211
Period size: 33 Copynumber: 3.8 Consensus size: 33
364980 GGAAATTACT
364990 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
365023 ATCGCAATGCGAAATGAAAATCGCAACGTGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
365055 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
365089 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
365117 CGAATTTAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
32 1 0.01
33 85 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:365097 original size:66 final size:66
Alignment explanation
Indices: 364991--365123 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
364981 GAAATTACTA
*
364991 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
365056 T
66 T
*
365057 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
365122 T
66 T
365123 T
1 T
365124 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:365148 original size:14 final size:14
Alignment explanation
Indices: 365131--365187 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
365121 TTTAATTTCG
365131 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
365145 CGTTGCGATTTTCATTTT
1 CGTTGCGA--TTC--TCT
365163 GCGTTGCGATTCTCT
1 -CGTTGCGATTCTCT
365178 CGTTGCGATT
1 CGTTGCGATT
365188 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 2 0.06
16 3 0.08
17 3 0.08
18 2 0.06
19 8 0.22
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:365169 original size:19 final size:19
Alignment explanation
Indices: 365145--365205 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
365135 GCGATTCTCT
365145 CGTTGCGATTTTCATTTTG
1 CGTTGCGATTTTCATTTTG
*
365164 CGTTGCGA--TTC--TCT-
1 CGTTGCGATTTTCATTTTG
*
365178 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTTG
*
365197 CATTGCGAT
1 CGTTGCGAT
365206 AGTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 3 0.09
17 3 0.09
18 1 0.03
19 16 0.48
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTTG
Found at i:365172 original size:33 final size:33
Alignment explanation
Indices: 365116--365205 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
365106 AAATCGCAAC
* *
365116 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
365149 GCGATTTTCATTTTGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
365182 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
365206 AGTATTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:365331 original size:14 final size:14
Alignment explanation
Indices: 365312--365348 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
365302 CATCAATTAA
365312 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
365326 ACAAATCACCTTTT
1 ACAAATCAACTTTT
365340 ACAAATCAA
1 ACAAATCAA
365349 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:366763 original size:21 final size:21
Alignment explanation
Indices: 366697--366763 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
366687 GTGAATCGGG
*
366697 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
366717 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
366739 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
366760 CTCT
1 CTCT
366764 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:367211 original size:91 final size:90
Alignment explanation
Indices: 367037--367221 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 90
367027 ATTTCAAACT
* *
367037 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACATTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
367102 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
367130 TTCAACTAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
367194 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
367221 T
1 T
367222 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 42 0.49
93 18 0.21
95 26 0.30
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:368938 original size:20 final size:19
Alignment explanation
Indices: 368907--368967 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
368897 TCTTTTGGTT
368907 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
368926 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
368947 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
368966 GA
1 GA
368968 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:369026 original size:33 final size:33
Alignment explanation
Indices: 368932--369016 Score: 152
Period size: 33 Copynumber: 2.5 Consensus size: 33
368922 ACGAGATAAT
368932 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
368966 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
368999 GAGAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAA
369017 CCAAAATCGC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.39, C:0.24, G:0.27, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:372829 original size:29 final size:29
Alignment explanation
Indices: 372794--372875 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
372784 AAACTAAATT
*
372794 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
372823 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
372852 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
372876 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:377593 original size:29 final size:29
Alignment explanation
Indices: 377558--377639 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
377548 AAACTAAATT
*
377558 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
377587 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
377616 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
377640 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:381174 original size:34 final size:31
Alignment explanation
Indices: 381103--381182 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 31
381093 TTTAAAATAG
* *
381103 TTATTATATTTTATATTAATATATTTATGTAA
1 TTATTAT-TTTTTTATTAATATATTTATATAA
*
381135 ATATTATTTTTTTATTAAAATAATATTTATATAA
1 TTATTATTTTTTTATT--AAT-ATATTTATATAA
*
381169 TTATTATTTATTTA
1 TTATTATTTTTTTA
381183 GAATTATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
TTATTATTTTTTTATTAATATATTTATATAA
Found at i:381345 original size:17 final size:17
Alignment explanation
Indices: 381323--381376 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
381313 AATGTTAATA
381323 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
381340 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
381357 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
381374 TTT
1 TTT
381377 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:382987 original size:21 final size:21
Alignment explanation
Indices: 382957--383029 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
382947 TATGCCATCT
*
382957 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
382978 CCGCATGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
382999 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
383020 CCGCAGGGTT
1 CCGCAGGGTT
383030 TTATACCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:383590 original size:12 final size:12
Alignment explanation
Indices: 383573--383598 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
383563 TATATTATTC
383573 AAAATTTAAAAT
1 AAAATTTAAAAT
383585 AAAATTTAAAAT
1 AAAATTTAAAAT
383597 AA
1 AA
383599 TATTATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTTAAAAT
Found at i:383602 original size:34 final size:34
Alignment explanation
Indices: 383558--383659 Score: 134
Period size: 34 Copynumber: 3.0 Consensus size: 34
383548 TTTTAAAATA
*
383558 AAAATTATATTATTCAAAATTTAAAATAAAATTT
1 AAAATTATATTATTCGAAATTTAAAATAAAATTT
* *
383592 AAAATAATATTATTCGAAATTTAAAATTAAAATAT
1 AAAATTATATTATTCGAAATTTAAAA-TAAAATTT
* * *
383627 -AAATTATAGTATTCGAAATTTAACATTAAATTT
1 AAAATTATATTATTCGAAATTTAAAATAAAATTT
383660 CAACTTAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
33 6 0.10
34 46 0.78
35 7 0.12
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (34 bp):
AAAATTATATTATTCGAAATTTAAAATAAAATTT
Found at i:384170 original size:128 final size:128
Alignment explanation
Indices: 384009--384755 Score: 1352
Period size: 128 Copynumber: 5.8 Consensus size: 128
383999 TTACCTGATT
*
384009 TACTGATATATCTACTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
384074 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTAAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
* *
384137 TACTGATATGA-ATAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTAT
1 TACTGATAT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
*
384201 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGG
65 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
* *
384265 TACTGATATATCTAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
384330 TGACAAAATAATGGAAGGTGTGTCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
*
384393 TACTGATATATCTAGTGTTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
384458 TGACAAAATAATGGAAGGCGCGCCCTCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
384521 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
384586 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
* *
384649 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATTATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
384714 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
384756 TGTGAATAGT
Statistics
Matches: 593, Mismatches: 24, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
127 1 0.00
128 591 1.00
129 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
Found at i:384849 original size:8 final size:8
Alignment explanation
Indices: 384836--384876 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
384826 TCACAAGCTT
384836 TCAAATTC
1 TCAAATTC
384844 TCAAATTC
1 TCAAATTC
* *
384852 CCAAACTC
1 TCAAATTC
384860 T-AAATTC
1 TCAAATTC
384867 TCAAATTC
1 TCAAATTC
384875 TC
1 TC
384877 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:389099 original size:26 final size:28
Alignment explanation
Indices: 389070--389131 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
389060 TTATCCTTTA
389070 TTTATTATTAATTATA-TATT-TTTATT
1 TTTATTATTAATTATACTATTATTTATT
* *
389096 TTTATTTTTTATTATATCTATTACTTTATT
1 TTTATTATTAATTATA-CTATTA-TTTATT
389126 TTTATT
1 TTTATT
389132 TTGTGTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 14 0.47
28 4 0.13
30 12 0.40
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTATTATTAATTATACTATTATTTATT
Found at i:404486 original size:36 final size:35
Alignment explanation
Indices: 404405--404521 Score: 162
Period size: 35 Copynumber: 3.3 Consensus size: 35
404395 AGATGAACAA
* * *
404405 TTGAATCGAAAGTGTTGATGATTCCTACCGTTCAC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
* * *
404440 TTGAATCGAAAGTGTCGATGCTTCCTTTCATTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC-AC
*
404476 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
404511 TTGAATCGAAA
1 TTGAATCGAAA
404522 TGTTTCCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
35 40 0.56
36 31 0.44
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (35 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
Found at i:423302 original size:33 final size:34
Alignment explanation
Indices: 423265--423344 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
423255 AAAATAAATC
*
423265 AACGTATTTGAGTCTTATTGAAACACTAAAACT-
1 AACGTATTTGAGTCATATTGAAACACTAAAACTG
423298 AACGTATTTGAGTCATATTGAAACACTAAAACTG
1 AACGTATTTGAGTCATATTGAAACACTAAAACTG
*
423332 AA-GCATTTGAGTC
1 AACGTATTTGAGTC
423345 CAAGTATGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 42 0.95
34 2 0.05
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (34 bp):
AACGTATTTGAGTCATATTGAAACACTAAAACTG
Found at i:428543 original size:37 final size:37
Alignment explanation
Indices: 428493--428565 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
428483 TTTCCAAGTT
*
428493 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAAATC
*
428530 TTGTCTCTCTTGAGACAGTTTCCCTTAAAATAAAAT
1 TTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAAAT
428566 ATATTTTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAAATC
Found at i:428895 original size:83 final size:83
Alignment explanation
Indices: 428754--429011 Score: 290
Period size: 83 Copynumber: 3.1 Consensus size: 83
428744 GAAACATCAA
* * * *
428754 ACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTACAGCATAACTTAAGGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTACAGAATAACTCAAGGCTAGAAG
*
428819 GGTTATCTGCCAACAAAG
66 GGTTATCTGACAACAAAG
* * * *
428837 ACCTTCGAGTTCGACTACGTTTAGCTCCAAATCACATCATTTATAGAATAACTCAAGGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTACAGAATAACTCAAGGCTAGAAG
*
428902 GGTTATCTGACAACGAAG
66 GGTTATCTGACAACAAAG
* * * * * * * * *
428920 ACCTCCGAGTTCGACTCCACTCAGCT-CAAAGGAACCATCATTTGCAGTATAGCTCAAAGCAAGA
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAA-GCA-CATCATTTACAGAATAACTCAAGGCTAGA
*
428984 AGGGCTATCTG-C--CAAAG
64 AGGGTTATCTGACAACAAAG
429001 ACCTTCGAGTT
1 ACCTTCGAGTT
429012 TGATTCCATT
Statistics
Matches: 147, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
81 14 0.10
82 4 0.03
83 96 0.65
84 33 0.22
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (83 bp):
ACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTACAGAATAACTCAAGGCTAGAAG
GGTTATCTGACAACAAAG
Found at i:429380 original size:15 final size:15
Alignment explanation
Indices: 429356--429425 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 15
429346 GTCTACAAAA
*
429356 ATATTTTATTTTATT
1 ATATTATATTTTATT
429371 ATATTATA-TTTATT
1 ATATTATATTTTATT
429385 -TATT-TATTATTATT
1 ATATTATATT-TTATT
* *
429399 ACTAATATTTTTTATT
1 A-TATTATATTTTATT
*
429415 TTATTAT-TTTT
1 ATATTATATTTT
429426 GTAGGCCCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
12 2 0.04
13 5 0.11
14 15 0.33
15 12 0.27
16 8 0.18
17 3 0.07
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTATATTTTATT
Found at i:429406 original size:27 final size:27
Alignment explanation
Indices: 429357--429422 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
429347 TCTACAAAAA
429357 TATTTTATT-TTATTATATTATATTTATT
1 TATTTTATTATTATTATA-TATATTT-TT
429385 TA-TTTATTATTATTACTA-ATATTTTT
1 TATTTTATTATTATTA-TATATATTTTT
429411 TATTTTATTATT
1 TATTTTATTATT
429423 TTTGTAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 4 0.11
27 21 0.60
28 8 0.23
29 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TATTTTATTATTATTATATATATTTTT
Found at i:429518 original size:33 final size:33
Alignment explanation
Indices: 429476--429541 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
429466 AAAAATAAAT
*
429476 CAACATATTTGAGTCTTATTAAAACACTAAAAC
1 CAACATATTTGAGTCATATTAAAACACTAAAAC
* *
429509 CAACGTATTTGAGTCATATTGAAACACTAAAAC
1 CAACATATTTGAGTCATATTAAAACACTAAAAC
429542 TGAAGCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (33 bp):
CAACATATTTGAGTCATATTAAAACACTAAAAC
Found at i:429552 original size:33 final size:33
Alignment explanation
Indices: 429482--429556 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
429472 AAATCAACAT
* *
429482 ATTTGAGTCTTATTAAAACACTAAAACCAACGT
1 ATTTGAGTCATATTAAAACACTAAAACCAACGC
* *
429515 ATTTGAGTCATATTGAAACACTAAAACTGAA-GC
1 ATTTGAGTCATATTAAAACACTAAAAC-CAACGC
429548 ATTTGAGTC
1 ATTTGAGTC
429557 CAAGTAGGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 35 0.95
34 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (33 bp):
ATTTGAGTCATATTAAAACACTAAAACCAACGC
Found at i:429976 original size:24 final size:24
Alignment explanation
Indices: 429927--429976 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
429917 ATATATATAT
* *
429927 TTATTTATTTATTTTTTATTAATA
1 TTATTTATTAATATTTTATTAATA
*
429951 TTATTATATTAATATTTT-TTATTA
1 TTATT-TATTAATATTTTATTAATA
429975 TT
1 TT
429977 TTTTTCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATTTATTAATATTTTATTAATA
Found at i:436970 original size:67 final size:64
Alignment explanation
Indices: 436855--437002 Score: 217
Period size: 67 Copynumber: 2.3 Consensus size: 64
436845 TACCCATTCA
* *
436855 AGGGGAACCGATA-CCCCTCAACAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCCTCAACAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCC
* *
436918 AGGGGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCC
1 A--GGGGAACCGATACCCCCTCAAC-AATATGAAATTCCAGAATACTAGAGGGGAACCGATACCC
436983 CC
63 CC
*
436985 AGGGGAACCGATTCCCCC
1 AGGGGAACCGATACCCCC
437003 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
63 1 0.01
65 28 0.37
66 9 0.12
67 38 0.50
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (64 bp):
AGGGGAACCGATACCCCCTCAACAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCC
Found at i:436990 original size:18 final size:18
Alignment explanation
Indices: 436967--437003 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
436957 AGAATGCTAG
436967 AGGGGAACCGATACCCCC
1 AGGGGAACCGATACCCCC
*
436985 AGGGGAACCGATTCCCCC
1 AGGGGAACCGATACCCCC
437003 A
1 A
437004 TGAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.38, G:0.27, T:0.08
Consensus pattern (18 bp):
AGGGGAACCGATACCCCC
Found at i:437673 original size:149 final size:149
Alignment explanation
Indices: 437482--437785 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
437472 GGGTAGAGGG
437482 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
437547 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
437612 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
437631 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
437696 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
437761 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
437780 TCTACG
1 TCTACG
437786 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:437808 original size:23 final size:23
Alignment explanation
Indices: 437764--437808 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
437754 ATCATTATAT
*
437764 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
437787 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
437809 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:443889 original size:21 final size:21
Alignment explanation
Indices: 443847--443889 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
443837 TTTATGGGTT
* * *
443847 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
443868 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
443889 A
1 A
443890 CAATATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:443954 original size:66 final size:68
Alignment explanation
Indices: 443869--444019 Score: 243
Period size: 67 Copynumber: 2.2 Consensus size: 68
443859 ACCCATTCAA
* *
443869 GGGGAACCGATACCCCCTCAAC-AATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCCA
443933 -GG
66 GGG
* *
443935 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCCA
444000 GGG
66 GGG
*
444003 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
444020 ATGAGAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
66 22 0.28
67 38 0.49
68 18 0.23
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.15
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCCA
GGG
Found at i:444691 original size:149 final size:149
Alignment explanation
Indices: 444500--444803 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
444490 GGGTAGAGGG
444500 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
444565 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATTA
444630 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
444649 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
444714 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATTA
444779 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
444798 TCTACG
1 TCTACG
444804 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:444826 original size:23 final size:23
Alignment explanation
Indices: 444782--444826 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
444772 ATCATTATAT
*
444782 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
444805 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
444827 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:449249 original size:22 final size:22
Alignment explanation
Indices: 449213--449273 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
449203 TTGTTTGGCT
449213 CTGAATG-T-AACCGTTCAACG
1 CTGAATGTTGAACCGTTCAACG
*
449233 CTGAATGTTGAACCGTTCAGCG
1 CTGAATGTTGAACCGTTCAACG
*
449255 CTGAATGTTGAATCGTTCA
1 CTGAATGTTGAACCGTTCA
449274 TCATTCAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.19
21 1 0.03
22 29 0.78
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (22 bp):
CTGAATGTTGAACCGTTCAACG
Found at i:449429 original size:16 final size:16
Alignment explanation
Indices: 449408--449448 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
449398 AGAGTCTCTG
*
449408 AATCATTCAACATTTA
1 AATCATTCAACATTAA
449424 AATCATTCAACATTAA
1 AATCATTCAACATTAA
449440 AATCATTCA
1 AATCATTCA
449449 GCGCTTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (16 bp):
AATCATTCAACATTAA
Found at i:454443 original size:20 final size:20
Alignment explanation
Indices: 454420--454458 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
454410 TAATTTTAAA
* *
454420 TTTAGTTATTAAATTAAAAT
1 TTTAATTATTAAAATAAAAT
454440 TTTAATTATTAAAATAAAA
1 TTTAATTATTAAAATAAAA
454459 GTGAAAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTAATTATTAAAATAAAAT
Found at i:455197 original size:59 final size:60
Alignment explanation
Indices: 455075--455201 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 60
455065 ATAGTCATGT
* * *
455075 GACCATTTTGTAACTTTTAATAATCGAGGGACTTGAAAAAGCAATATCATATAGTCAGAG
1 GACCATTTTATAACTTTTAATAATCGAGGGACTTCAAAAAGCAACATCATATAGTCAGAG
* * * * * *
455135 GACCATTTTATAGCTTTTAATAGTTG-GGGAC-TCAACAAAGCAACATCCTATAGTTAGGG
1 GACCATTTTATAACTTTTAATAATCGAGGGACTTCAA-AAAGCAACATCATATAGTCAGAG
455194 GACCATTT
1 GACCATTT
455202 GTGTTCTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 3 0.05
59 32 0.56
60 22 0.39
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAATCGAGGGACTTCAAAAAGCAACATCATATAGTCAGAG
Found at i:455556 original size:2 final size:2
Alignment explanation
Indices: 455551--455582 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
455541 TTTAATATTT
455551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
455583 ATTTAGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:455668 original size:59 final size:60
Alignment explanation
Indices: 455605--455730 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 60
455595 ATTGAAGTAT
* * * * * *
455605 TTAAAAAAT-TAAGGATTGATTTAGAATGA-ATATCATAGTTTAGGGATGAAACTA-AAATA
1 TTAAAAAATCTAAAGACTAATTTAAAATGATAGAT-ATAGTTTAGGGATAAAACTAGAAA-A
*
455664 TT-AAAAATCTAAAGACTAATTTAAAATGATAGATATAGTTTAGGGATAAAATTAGAAAA
1 TTAAAAAATCTAAAGACTAATTTAAAATGATAGATATAGTTTAGGGATAAAACTAGAAAA
455723 TTAAAAAA
1 TTAAAAAA
455731 AATTAGTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
58 6 0.11
59 39 0.70
60 11 0.20
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (60 bp):
TTAAAAAATCTAAAGACTAATTTAAAATGATAGATATAGTTTAGGGATAAAACTAGAAAA
Found at i:461664 original size:40 final size:40
Alignment explanation
Indices: 461602--461677 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
461592 TCTAGTGGAT
*
461602 ATTTAAATTAAATATATAAATATTATATATATATATTTTA
1 ATTTAAATTAAATATATAAATATTACATATATATATTTTA
* *
461642 ATTTAAATTAAATTTATTAATATTACATATATATAT
1 ATTTAAATTAAATATATAAATATTACATATATATAT
461678 ATATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (40 bp):
ATTTAAATTAAATATATAAATATTACATATATATATTTTA
Found at i:465523 original size:12 final size:15
Alignment explanation
Indices: 465491--465520 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
465481 AAAATTATAT
465491 ATAATTTTTTATTTA
1 ATAATTTTTTATTTA
465506 ATAATTTTTT-TTTA
1 ATAATTTTTTATTTA
465520 A
1 A
465521 ATTATATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATAATTTTTTATTTA
Found at i:475920 original size:20 final size:20
Alignment explanation
Indices: 475895--475936 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
475885 CTCCATAAGG
475895 AACATACCCTCTGTTTTACA
1 AACATACCCTCTGTTTTACA
*
475915 AACATACTCTCTGTTTTACA
1 AACATACCCTCTGTTTTACA
475935 AA
1 AA
475937 GTCATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (20 bp):
AACATACCCTCTGTTTTACA
Found at i:478929 original size:2 final size:2
Alignment explanation
Indices: 478924--478971 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
478914 CAAACTTTTA
478924 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
478966 AT AT AT
1 AT AT AT
478972 TAGTTATCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:483784 original size:20 final size:20
Alignment explanation
Indices: 483759--483802 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
483749 TAAATTAAAT
*
483759 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
* *
483779 ATTAGATAGAATTAGTTTTT
1 ATTAGATAGAATCAGTTTTA
483799 ATTA
1 ATTA
483803 TGTTGCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:488409 original size:20 final size:20
Alignment explanation
Indices: 488365--488409 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
488355 CTAAATTAAA
*
488365 TATTAGATAGGATCAATTTT
1 TATTAGATAGAATCAATTTT
* * *
488385 AATTAGATAGAATTAGTTTT
1 TATTAGATAGAATCAATTTT
488405 TATTA
1 TATTA
488410 TGTTGCTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (20 bp):
TATTAGATAGAATCAATTTT
Found at i:494745 original size:4 final size:4
Alignment explanation
Indices: 494736--495267 Score: 1064
Period size: 4 Copynumber: 133.0 Consensus size: 4
494726 AGAAAATGGT
494736 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
494784 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
494832 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
494880 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
494928 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
494976 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
495024 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
495072 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
495120 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
495168 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
495216 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
495264 ATAC
1 ATAC
495268 TGTAGACACC
Statistics
Matches: 528, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 528 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:495359 original size:38 final size:37
Alignment explanation
Indices: 495303--495405 Score: 136
Period size: 38 Copynumber: 2.8 Consensus size: 37
495293 TTTTATATAT
* *
495303 ACATATATATATAATATAGTTTTGAAAACATATTTGAA
1 ACATATATATATTATATAGTTTTTAAAACA-ATTTGAA
* *
495341 ACATTTATATATTATATAGTTTTTAAAACACTTTGAA
1 ACATATATATATTATATAGTTTTTAAAACAATTTGAA
* *
495378 A-ATAAATATAATATATAGTTTTTAAAAC
1 ACATATATATATTATATAGTTTTTAAAAC
495406 GTTTTTAAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 24 0.41
37 7 0.12
38 27 0.47
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (37 bp):
ACATATATATATTATATAGTTTTTAAAACAATTTGAA
Found at i:495394 original size:36 final size:36
Alignment explanation
Indices: 495307--495540 Score: 149
Period size: 35 Copynumber: 6.4 Consensus size: 36
495297 ATATATACAT
* **
495307 ATATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATA-AT-ATATAGTTTTTAAAACAT-TTTGAAA-ATAA
* *
495347 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* * *
495383 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* ** * *
495418 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATAATATATAGTTTT-TAAAACATTTTGAAAATAA
** * *
495455 ATATAAT-T-T--TTTAAAAAGAAACATTTTGAAAACAT
1 ATATAATATATAGTTT--TTA-AAACATTTTGAAAATAA
* * *
495490 ATATATTATATAGTTTTGAAATCATTTT-AAAA-AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
*
495524 CTTATAATATATAGTTT
1 -ATATAATATATAGTTT
495541 AAAAAAAAAA
Statistics
Matches: 155, Mismatches: 29, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
33 3 0.02
34 3 0.02
35 54 0.35
36 53 0.34
37 17 0.11
38 16 0.10
39 4 0.03
40 5 0.03
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
Found at i:495434 original size:35 final size:36
Alignment explanation
Indices: 495309--495459 Score: 151
Period size: 36 Copynumber: 4.1 Consensus size: 36
495299 ATATACATAT
* * * **
495309 ATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATATTATATAGTTTTTAAAACAT-TTTTAAA-ATAA
* *
495347 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
* * *
495383 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
** *
495418 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATATTATATAGTTTT-TAAAACATTTTTAAAATAA
495455 ATATA
1 ATATA
495460 ATTTTTTAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
35 16 0.17
36 43 0.45
37 14 0.15
38 22 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
Found at i:495629 original size:35 final size:36
Alignment explanation
Indices: 495563--495638 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
495553 TTTTGAAAAC
495563 TATATAATTTTGAAAACGTTTTTAAAAATATATATAA
1 TATATAATTTTGAAAACG-TTTTAAAAATATATATAA
* * *
495600 TATATAATTTT-AAATAC-TTTTGAATATATATATTA
1 TATATAATTTTGAAA-ACGTTTTAAAAATATATATAA
495635 TATA
1 TATA
495639 GTTTGTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 19 0.54
36 3 0.09
37 13 0.37
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (36 bp):
TATATAATTTTGAAAACGTTTTAAAAATATATATAA
Found at i:495700 original size:14 final size:15
Alignment explanation
Indices: 495681--495722 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
495671 ATCGTTGTTG
495681 TTTATTTTTATTTA-
1 TTTATTTTTATTTAT
*
495695 TTTATTTTTATTAAT
1 TTTATTTTTATTTAT
*
495710 TTTATTTTCATTT
1 TTTATTTTTATTT
495723 TAATTGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATTTAT
Found at i:498696 original size:19 final size:19
Alignment explanation
Indices: 498662--498706 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
498652 ATTTAGACAT
498662 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
498680 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
498699 TTTGCATT
1 TTTGCATT
498707 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:502593 original size:84 final size:83
Alignment explanation
Indices: 502057--502825 Score: 843
Period size: 84 Copynumber: 9.2 Consensus size: 83
502047 GCTCAAGGCC
* * * * *
502057 AGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACGTTCAGCTTCGAAAGCACATCATT
1 AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
*
502122 TGCAGTATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * *
502141 AGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATATCA
1 AGAAGGGCTATCTGCCAAC-AAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCA
* * * *
502205 TTTACAGCATAACTCAAGGCT
63 TTTGCAGCATAACTTAAGTCG
* * * *
502226 AGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
502291 GCAGAATAGCTTAAGTCG
66 GCAGCATAACTTAAGTCG
* * *
502309 AGAAGGGCTATCTG-C--CAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATT
1 AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
*
502371 TGCAGTATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * *
502390 AGAAGGGCTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCGAGGGCACATCA
1 AGAAGGGCTATCTGCCAAC-AAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
* * *
502454 TTTGCAGCATAACTCAAGGCT
63 TTTGCAGCATAACTTAAGTCG
* * * * *
502475 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
502540 TGCAGCATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* *
502559 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
502624 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
** * * * * *
502643 AGAAGGGCTATCTG-C--CAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
502705 TACAGCATAACTCAAGGCT
65 TGCAGCATAACTTAAGTCG
* ** * *
502724 AGAAGGGTTATCTGTGACCAAAGGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATA
1 AGAAGGGCTATCTGCCAACAAA-GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
502789 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
502808 AGAAGGGCTATCTGCCAA
1 AGAAGGGCTATCTGCCAA
502826 AGACTCCCGA
Statistics
Matches: 575, Mismatches: 94, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
80 51 0.09
81 87 0.15
82 2 0.00
83 41 0.07
84 217 0.38
85 170 0.30
86 7 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (83 bp):
AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCG
Found at i:502643 original size:334 final size:333
Alignment explanation
Indices: 502048--502825 Score: 1076
Period size: 334 Copynumber: 2.3 Consensus size: 333
502038 TGCAGCTTAG
* * * * *
502048 CTCAAGGCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACGTTCAGCTTCGAAAG
1 CTCAAGGCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAAGG
* *
502113 CACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCG
66 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCCTTAAGTTCG
* * *
502178 ATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
131 ATTACACTCAGCTCCAAGGGCATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* *
502243 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTC
196 CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTC
* * ** *
502308 GAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTG
261 GAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTA
*
502373 CAGTATAA
326 CAGCATAA
* * * * * *
502381 CTTAAGTCGAGAAGGGCTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCGAG
1 CTCAAGGCGAGAAGGGCTATCTGCCAAC-AAAGA-CCTTCGAGTTCGACTACGCTCAGCTTCGAA
* * * * * *
502445 GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTT
64 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCCTTAAGTT
* * * *
502510 CGATTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
129 CGATTACACTCAGCTCCAAGGGCATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGC
* *
502574 CAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAA
194 C-ACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAA
* *
502639 GTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
258 GTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGCTTCGAAGGCACATCAT
502704 TTACAGCATAA
323 TTACAGCATAA
* * ** * *
502715 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAGGACCTTCGAGTTCGACTACGCTCAGC-TCCAAG
1 CTCAAGGCGAGAAGGGCTATCTGCCAACAAA-GACCTTCGAGTTCGACTACGCTCAGCTTCGAAG
* * *
502779 GCACATCATATGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
65 GCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
502826 AGACTCCCGA
Statistics
Matches: 383, Mismatches: 57, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
333 116 0.30
334 263 0.69
335 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (333 bp):
CTCAAGGCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAAGG
CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCCTTAAGTTCG
ATTACACTCAGCTCCAAGGGCATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTC
GAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTA
CAGCATAA
Found at i:502665 original size:249 final size:252
Alignment explanation
Indices: 502035--502825 Score: 1211
Period size: 249 Copynumber: 3.2 Consensus size: 252
502025 TAAACAAACT
* * * * * *
502035 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACGT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGT
* *
502100 TCAGCTTCGAAAGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAG
66 TCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCC-ACTAAAG
* *
502165 ACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAA
130 ACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
*
502230 GGGTTATCTGTC-ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
195 GGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
502287 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCTCGAGTTCGACTACGT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGT
502349 TCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAACTAAAG
66 TCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCC-ACTAAAG
*
502414 ACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAA
130 ACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
* * * *
502479 GGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATC
195 GGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
502537 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
* * * * *
502602 CTCAGC-TCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C-C-AAAG
65 TTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCCACTAAAG
**
502663 ACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
130 ACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
* * * *
502728 GGGTTATCTGTGACCAAAGGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
195 GGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
502786 ATATGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
502826 AGACTCCCGA
Statistics
Matches: 494, Mismatches: 40, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
249 311 0.63
250 76 0.15
251 2 0.00
252 32 0.06
253 46 0.09
254 27 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (252 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGT
TCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCCACTAAAGA
CCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
GGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:503523 original size:38 final size:37
Alignment explanation
Indices: 503467--503569 Score: 136
Period size: 38 Copynumber: 2.8 Consensus size: 37
503457 TTTTATATAT
* *
503467 ACATATATATATAATATAGTTTTGAAAACATATTTGAA
1 ACATATATATATTATATAGTTTTTAAAACA-ATTTGAA
* *
503505 ACATTTATATATTATATAGTTTTTAAAACACTTTGAA
1 ACATATATATATTATATAGTTTTTAAAACAATTTGAA
* *
503542 A-ATAAATATAATATATAGTTTTTAAAAC
1 ACATATATATATTATATAGTTTTTAAAAC
503570 GTTTTTAAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 24 0.41
37 7 0.12
38 27 0.47
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (37 bp):
ACATATATATATTATATAGTTTTTAAAACAATTTGAA
Found at i:503558 original size:36 final size:36
Alignment explanation
Indices: 503471--503705 Score: 142
Period size: 36 Copynumber: 6.4 Consensus size: 36
503461 ATATATACAT
* **
503471 ATATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATA-AT-ATATAGTTTTTAAAACAT-TTTGAAA-ATAA
* *
503511 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* * *
503547 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* ** * *
503582 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATAATATATAGTTTT-TAAAACATTTTGAAAATAA
*** *
503619 ATATAAT-T-T--TTAAAAAGAAACATTTTGAAAACATAT
1 ATATAATATATAGTT-TTTA-AAACATTTTG-AAA-ATAA
* * *
503655 ATATATTATATAGTTTTGAAATCATTTT-AAAA-AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
*
503689 CTTATAATATATAGTTT
1 -ATATAATATATAGTTT
503706 AAAAAAAAAA
Statistics
Matches: 154, Mismatches: 30, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
33 4 0.03
34 10 0.06
35 34 0.22
36 56 0.36
37 16 0.10
38 25 0.16
39 2 0.01
40 7 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
Found at i:503598 original size:35 final size:36
Alignment explanation
Indices: 503473--503623 Score: 151
Period size: 36 Copynumber: 4.1 Consensus size: 36
503463 ATATACATAT
* * * **
503473 ATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATATTATATAGTTTTTAAAACAT-TTTTAAA-ATAA
* *
503511 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
* * *
503547 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
** *
503582 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATATTATATAGTTTT-TAAAACATTTTTAAAATAA
503619 ATATA
1 ATATA
503624 ATTTTTAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
35 16 0.17
36 43 0.45
37 14 0.15
38 22 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
Found at i:503859 original size:14 final size:15
Alignment explanation
Indices: 503840--503881 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
503830 ATCGTTGTTG
503840 TTTATTTTTATTTA-
1 TTTATTTTTATTTAT
*
503854 TTTATTTTTATTAAT
1 TTTATTTTTATTTAT
*
503869 TTTATTTTCATTT
1 TTTATTTTTATTT
503882 TAATTGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATTTAT
Found at i:505463 original size:4 final size:4
Alignment explanation
Indices: 505454--506029 Score: 1089
Period size: 4 Copynumber: 144.0 Consensus size: 4
505444 CGGTTACGAC
505454 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505502 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505550 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505598 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505646 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505694 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505742 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505790 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
505838 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
505886 GCAT GCAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505934 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
505982 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
506030 CTTAAATGAT
Statistics
Matches: 570, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 570 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:518998 original size:3 final size:3
Alignment explanation
Indices: 518992--519022 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
518982 TAAATTTATT
*
518992 ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
519023 GTTTGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:520270 original size:34 final size:32
Alignment explanation
Indices: 520217--520280 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
520207 CCTTACAAAC
*
520217 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
**
520249 TCCCTAGCTTTTACACGGGCTAAGTTAGAACC
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACC
520281 AAAACCCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 7 0.26
33 5 0.19
34 15 0.56
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:520675 original size:21 final size:21
Alignment explanation
Indices: 520651--520727 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
520641 GTTGCAGCCT
*
520651 TGATGCATGGATGCATAGCAA
1 TGATGCATCGATGCATAGCAA
* *
520672 TGATGCATGGATGCATATCAA
1 TGATGCATCGATGCATAGCAA
*
520693 GGATGCATCGATGCATAGCAA
1 TGATGCATCGATGCATAGCAA
520714 -GATGCATCGATGCA
1 TGATGCATCGATGCA
520728 CTAATTGCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 14 0.27
21 38 0.73
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (21 bp):
TGATGCATCGATGCATAGCAA
Found at i:520794 original size:21 final size:21
Alignment explanation
Indices: 520747--520825 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
520737 TTTGATGTTT
*
520747 GGATGCATGGATGCATTGCA-
1 GGATGCATGGATGCACTGCAG
* *
520767 TGATGCATCGATGCACTGCAG
1 GGATGCATGGATGCACTGCAG
*
520788 GGATGCATGGATGCACTGTAG
1 GGATGCATGGATGCACTGCAG
*
520809 GGGTGCATGGATGCACT
1 GGATGCATGGATGCACT
520826 TTGACACCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 17 0.33
21 34 0.67
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (21 bp):
GGATGCATGGATGCACTGCAG
Done.