Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold340
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: 358576
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:206131 original size:20 final size:23
Alignment explanation
Indices: 206105--206160 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
206095 AAAAACTACC
206105 AAAAAAAGA-AG-AAAAAGAA-A
1 AAAAAAAGAGAGAAAAAAGAAGA
206125 AAGAAAAAGAGAGAAAAAAGAAGA
1 AA-AAAAAGAGAGAAAAAAGAAGA
*
206149 AAAAAAGGAGAG
1 AAAAAAAGAGAG
206161 CTTTTTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 2 0.06
21 7 0.23
22 2 0.06
23 17 0.55
24 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAGAGAAAAAAGAAGA
Found at i:206160 original size:23 final size:20
Alignment explanation
Indices: 206105--206159 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
206095 AAAAACTACC
206105 AAAAAAAGA-AGAAAAAGAAA
1 AAAAAAAGAGAGAAAAAG-AA
206125 AAGAAAAAGAGAGAAAAAAGAA
1 AA-AAAAAGAGAG-AAAAAGAA
206147 GAAAAAAAG-GAGA
1 -AAAAAAAGAGAGA
206160 GCTTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.10
21 10 0.32
22 10 0.32
23 8 0.26
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAGAGAAAAAGAA
Found at i:207791 original size:11 final size:10
Alignment explanation
Indices: 207769--207802 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
207759 TTGCCTTGAA
207769 TTTCT-TTTT
1 TTTCTCTTTT
207778 TTTCTCTATTT
1 TTTCTCT-TTT
207789 TTTCTCTTTT
1 TTTCTCTTTT
207799 TTTC
1 TTTC
207803 CTCACTCGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 8 0.35
11 10 0.43
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTCTTTT
Found at i:208496 original size:167 final size:163
Alignment explanation
Indices: 208116--209064 Score: 948
Period size: 167 Copynumber: 5.8 Consensus size: 163
208106 TAATATATAC
** * * * * * ** * *
208116 AAAAAATTTAAAATTCATGAAATTAATTGAATATCTTG-AAACTGATTTTATGGGAGTTTAATAA
1 AAAAAATAAAAAACTCATGAAAATAAATGAAT-TTTTGAAAACTGATTTAATATGAATTAAATAA
* * ** ** * * * *
208180 CAATATTAGATGAATTTTAAAAATTTTAAACCGAGAAAAATCTCCCCGAAAACTTTTATGGAATA
65 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTA-CGAATA
* ** * *
208245 GAAAAC-TCGGTCTTTCAAAATAAAAAAATTT---TA
129 AAAAACTTC-GAATTTCAAAA-AAGAAAATTTCAAGA
** * * *
208278 AAAAAATTCAAAACTTATGGAAATAAATGAATTTTTGAAAACTAATTTAATATGAATTAAATAAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* * *
208343 AATATTTAATGAATTTAAAAAAATTAAAAACTAAAAAAAATCTCCTCAAAAACATTTACGATATA
66 AATATTTGATGAATTT-TAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGA-ATA
* *
208408 AAAAACTTCAAATTTCAAAAGTAAGAAAATTTAAAGA
129 AAAAACTTCGAATTTCAAAA--AAGAAAATTTCAAGA
* * * *
208445 AAAAAATGAAAAACTCAT-AAACATGAATGAAATTTTGAAAATTGATTTAATATGAATTAAATAA
1 AAAAAATAAAAAACTCATGAAA-ATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAA
* **
208509 TAATATTTGATGAATTTAAAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGTGT
65 TAATATTTGATGAATTT-TAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTAC-GAAT
* *
208574 AAAAAACTTCGAATTTCAAAAGTAGGAAAATTTTAAGA
128 AAAAAACTTCGAATTTCAAAA--AAGAAAATTTCAAGA
* * * * * *
208612 AAAAAATGAAAAACTCATAAAAATGAATGAAATTTTGAAAATTAATTTAATATGAATTAAATAAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* ** *
208677 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCAAAAAAACATTTACGAAGTAG
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGAA-TAA
* * *
208742 AAAACTTTGTATTTCGAAAACAGAAGAATTTCAAG-
130 AAAACTTCGAATTTC-AAAAAAGAA-AATTTCAAGA
* * * * * *
208777 GAAAAATAAAAAATTCCTGAAAATAAATGAATTTTTAAAAACTGATTAAATATGAAATAAATAAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
*** * *
208842 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCT-CTTTGAAACATTTACGGAGTAG
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTAC-GAATAA
* *
208906 AAAAC-TC-TATATTCAAAAACAGAGGAATTTCAAGAA
130 AAAACTTCGAAT-TTCAAAAA-AGA-AAATTTCAAG-A
* * * *
208942 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTAAAAACTGATTAAATATGAAATAAATTAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
*
209007 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATC-CCTCTAAAACATTTACG
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACG
209065 GAGTAGTAAA
Statistics
Matches: 679, Mismatches: 87, Indels: 40
0.84 0.11 0.05
Matches are distributed among these distances:
161 4 0.01
162 69 0.10
163 64 0.09
164 32 0.05
165 215 0.32
166 63 0.09
167 228 0.34
168 4 0.01
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (163 bp):
AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGAATAAA
AAACTTCGAATTTCAAAAAAGAAAATTTCAAGA
Found at i:208871 original size:165 final size:165
Alignment explanation
Indices: 208116--209131 Score: 995
Period size: 165 Copynumber: 6.2 Consensus size: 165
208106 TAATATATAC
** * * * * * ** * *
208116 AAAAAATTTAAAATTCATGAAATTAATTGAATATCTTG-AAACTGATTTTATGGGAGTTTAATAA
1 AAAAAATAAAAAACTCATGAAAATAAATGAAT-TTTTGAAAACTGATTTAATATGAATTAAATAA
* * ** ** * * * * *
208180 CAATATTAGATGAATTTTAAAAATTTTAAACCGAGAAAAATCTCCCCGAAAACTTTTATGGAATA
65 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGAGTA
*** * * * * *
208245 GAAAACTCGGTCTTTCAAAATAAAAAAATTT---TA
130 GAAAACTTTATATTTCAAAACAGAAGAATTTCAAGA
** * * *
208278 AAAAAATTCAAAACTTATGGAAATAAATGAATTTTTGAAAACTAATTTAATATGAATTAAATAAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* * * *
208343 AATATTTAATGAATTTAAAAAAATTAAAAACTAAAAAAAATCTCCTCAAAAACATTTAC-GATAT
66 AATATTTGATGAATTT-TAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGA-GT
* * * * *
208407 AAAAAACTTCAAATTTCAAAAGTAAGAA-AATTTAAAGA
129 AGAAAACTTTATATTTCAAAA--CAGAAGAATTTCAAGA
* * * *
208445 AAAAAATGAAAAACTCAT-AAACATGAATGAAATTTTGAAAATTGATTTAATATGAATTAAATAA
1 AAAAAATAAAAAACTCATGAAA-ATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAA
* *
208509 TAATATTTGATGAATTTAAAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGTGT
65 TAATATTTGATGAATTT-TAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGAGT
* * * *
208574 AAAAAACTTCGA-ATTTCAAAAGTAGGAA-AATTTTAAGA
129 AGAAAACTT-TATATTTCAAAA-CA-GAAGAATTTCAAGA
* * * * * *
208612 AAAAAATGAAAAACTCATAAAAATGAATGAAATTTTGAAAATTAATTTAATATGAATTAAATAAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* ** *
208677 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCAAAAAAACATTTACGAAGTAG
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGAGTAG
*
208742 AAAACTTTGTATTTCGAAAACAGAAGAATTTCAAG-
131 AAAACTTTATATTTC-AAAACAGAAGAATTTCAAGA
* * * * * *
208777 GAAAAATAAAAAATTCCTGAAAATAAATGAATTTTTAAAAACTGATTAAATATGAAATAAATAAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
***
208842 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCT-CTTTGAAACATTTACGGAGTAG
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGAGTAG
* *
208906 AAAACTCTATA-TTCAAAAACAGAGGAATTTCAAGAA
131 AAAACTTTATATTTC-AAAACAGAAGAATTTCAAG-A
* * * *
208942 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTAAAAACTGATTAAATATGAAATAAATTAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
*
209007 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATC-CCTCTAAAACATTTACGGAGTAG
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGAGTAG
* *
209071 TAAACTCTATA-TTCGAAAACAGAGAGAA-TTCTAA-A
131 AAAACTTTATATTTC-AAAACAGA-AGAATTTC-AAGA
* * *
209106 AGAAAATCAATAACTCAT-AAAATAAA
1 AAAAAATAAAAAACTCATGAAAATAAA
209132 AGAAAATTTT
Statistics
Matches: 736, Mismatches: 97, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
161 4 0.01
162 62 0.08
163 78 0.11
164 47 0.06
165 246 0.33
166 71 0.10
167 223 0.30
168 5 0.01
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (165 bp):
AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCAAAAACATTTACGGAGTAG
AAAACTTTATATTTCAAAACAGAAGAATTTCAAGA
Found at i:211485 original size:80 final size:79
Alignment explanation
Indices: 211401--211555 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 79
211391 AGGATCCTCC
* * *
211401 TTTGGATAGATGAGGTTGTAGTAT-TCCTGAAAATGTAAATTCAATATTTTTTCAAGAAAAATGA
1 TTTGGAGAGATGAGGTAGTAGTATCT-CTGAAAATGTAAATTCAAGATTTTTTCAA-AAAAATG-
211465 GA-TTAGAGTATCTCAT
63 GACTTAGAGTATCTCAT
* * **
211481 TTTGGAGAGATGGGGTAGTAGTATCTCTGAGAATGTAAATTCAAGATTTTTTGTAAAAAATGGAC
1 TTTGGAGAGATGAGGTAGTAGTATCTCTGAAAATGTAAATTCAAGATTTTTTCAAAAAAATGGAC
211546 TTAGAGTATC
66 TTAGAGTATC
211556 ACCATGGAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.03
79 17 0.26
80 46 0.70
81 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (79 bp):
TTTGGAGAGATGAGGTAGTAGTATCTCTGAAAATGTAAATTCAAGATTTTTTCAAAAAAATGGAC
TTAGAGTATCTCAT
Found at i:212808 original size:13 final size:13
Alignment explanation
Indices: 212790--212814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212780 CATTTTATGG
212790 TGTATCGATACAA
1 TGTATCGATACAA
212803 TGTATCGATACA
1 TGTATCGATACA
212815 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:212830 original size:32 final size:33
Alignment explanation
Indices: 212767--212834 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
212757 CGTTACAAGC
**
212767 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
212800 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
212832 CAA
1 CAA
212835 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:212927 original size:13 final size:13
Alignment explanation
Indices: 212909--212936 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
212899 TTTGGTTATA
212909 TATCGATACAATG
1 TATCGATACAATG
212922 TATCGATACAATG
1 TATCGATACAATG
212935 TA
1 TA
212937 ATCTGTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:212945 original size:20 final size:20
Alignment explanation
Indices: 212920--212970 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
212910 ATCGATACAA
212920 TGTATCGATACAATGT-AATC
1 TGTATCGATAC-ATGTAAATC
* *
212940 TGTATCGATACATTTAAATG
1 TGTATCGATACATGTAAATC
212960 TGTATCGATAC
1 TGTATCGATAC
212971 TTTTCAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGTAAATC
Found at i:215179 original size:20 final size:21
Alignment explanation
Indices: 215150--215190 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
215140 TGTTTTTGAT
215150 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
215169 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
215191 AAGAATCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:219253 original size:15 final size:15
Alignment explanation
Indices: 219230--219259 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
219220 CCATATAGAA
*
219230 CATAGAAAATGAATT
1 CATAAAAAATGAATT
219245 CATAAAAAATGAATT
1 CATAAAAAATGAATT
219260 ATGCAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (15 bp):
CATAAAAAATGAATT
Found at i:219478 original size:16 final size:15
Alignment explanation
Indices: 219452--219481 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
219442 CAATCTTTTG
219452 TTCAAAATTTTCAAC
1 TTCAAAATTTTCAAC
219467 TTCAATAATTTTCAA
1 TTCAA-AATTTTCAA
219482 TTTATTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
TTCAAAATTTTCAAC
Found at i:221679 original size:13 final size:13
Alignment explanation
Indices: 221661--221686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
221651 TTTGGTTATA
221661 TATCGATACAATG
1 TATCGATACAATG
221674 TATCGATACAATG
1 TATCGATACAATG
221687 CAATCTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:221697 original size:20 final size:20
Alignment explanation
Indices: 221672--221722 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
221662 ATCGATACAA
*
221672 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
221692 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
221712 TGTATCGATAC
1 TGTATCGATAC
221723 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:224997 original size:19 final size:19
Alignment explanation
Indices: 224973--225014 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
224963 AAAGATAATT
*
224973 TTTTAATGTAATGTATTTA
1 TTTTAATGCAATGTATTTA
*
224992 TTTTAATGCAATTTATTTA
1 TTTTAATGCAATGTATTTA
225011 TTTT
1 TTTT
225015 TATTACCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTAATGCAATGTATTTA
Found at i:227355 original size:22 final size:22
Alignment explanation
Indices: 227310--227353 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
227300 TTCCTTTTAG
227310 ATAAATATTATGAATAAATTAA
1 ATAAATATTATGAATAAATTAA
*
227332 ATAAATATT-TTAATAAATTAA
1 ATAAATATTATGAATAAATTAA
227353 A
1 A
227354 ATCATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATAAATATTATGAATAAATTAA
Found at i:227512 original size:15 final size:16
Alignment explanation
Indices: 227492--227531 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
227482 AAATATTATT
227492 TTTTAATATTTATA-A
1 TTTTAATATTTATATA
* *
227507 TTTTAAAATTTGTATA
1 TTTTAATATTTATATA
227523 TTTTAATAT
1 TTTTAATAT
227532 ATTTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTAATATTTATATA
Found at i:227714 original size:16 final size:17
Alignment explanation
Indices: 227683--227715 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
227673 CCAATTTTTA
227683 ATAAAATATATTAATAT
1 ATAAAATATATTAATAT
*
227700 ATAAAA-ATTTTAATAT
1 ATAAAATATATTAATAT
227716 TATATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAAATATATTAATAT
Found at i:228762 original size:16 final size:16
Alignment explanation
Indices: 228743--228824 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 16
228733 ATAATTGATG
228743 TTTAGAATAACTATTA
1 TTTAGAATAACTATTA
* * *
228759 TTTAGAGTAATTATTT
1 TTTAGAATAACTATTA
* *
228775 TTTAGAATAGCTCTT-
1 TTTAGAATAACTATTA
* *
228790 TTTGAAAATAGCTATTA
1 TTT-AGAATAACTATTA
* *
228807 CTTATAATAACTATTA
1 TTTAGAATAACTATTA
228823 TT
1 TT
228825 CAAAATAGTT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
15 3 0.06
16 46 0.90
17 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (16 bp):
TTTAGAATAACTATTA
Found at i:228831 original size:16 final size:16
Alignment explanation
Indices: 228780--228866 Score: 59
Period size: 16 Copynumber: 5.4 Consensus size: 16
228770 TATTTTTTAG
* * *
228780 AATAGCTCTTTTTGAA
1 AATAGCTATTATTCAA
*
228796 AATAGCTATTACTT-AT
1 AATAGCTATTA-TTCAA
*
228812 AATAACTATTATTCAA
1 AATAGCTATTATTCAA
* *
228828 AATAGTTTTTATTCAA
1 AATAGCTATTATTCAA
* * * *
228844 AACAGCTCTTACTCGA
1 AATAGCTATTATTCAA
228860 AATAGCT
1 AATAGCT
228867 TTCATTTAGA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
15 2 0.04
16 51 0.93
17 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (16 bp):
AATAGCTATTATTCAA
Found at i:230194 original size:68 final size:68
Alignment explanation
Indices: 230085--230219 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
230075 TACATAGATG
*
230085 TGGGATTCAAAGATGGTGTTAGAACTTTTATGTGTAAATAAGTGATTAACATCTTTATTAATTTG
1 TGGGATTCAAAGATGGTGTTAGAACTTTTATGTGTAAATAAGTGATTAACATCTTTAGTAATTTG
230150 ACT
66 ACT
230153 TGGGATTCAAAGATGGTGTTAGAACTTTTATGTGTAAATAAGTGATTAACATCTTTAGTAATTTG
1 TGGGATTCAAAGATGGTGTTAGAACTTTTATGTGTAAATAAGTGATTAACATCTTTAGTAATTTG
230218 AC
66 AC
230220 CTGAATTAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (68 bp):
TGGGATTCAAAGATGGTGTTAGAACTTTTATGTGTAAATAAGTGATTAACATCTTTAGTAATTTG
ACT
Found at i:231849 original size:27 final size:27
Alignment explanation
Indices: 231786--231852 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 27
231776 TATTTATTAT
231786 TTATATAATA-AAAATTACATAATATA
1 TTATATAATATAAAATTACATAATATA
*
231812 -TA-AAAATATAAAATTA-ATAATATA
1 TTATATAATATAAAATTACATAATATA
231836 TTATATAATCATAAAAT
1 TTATATAAT-ATAAAAT
231853 GAACTAGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 13 0.37
25 11 0.31
26 4 0.11
27 7 0.20
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
TTATATAATATAAAATTACATAATATA
Found at i:239784 original size:33 final size:33
Alignment explanation
Indices: 239742--239851 Score: 121
Period size: 33 Copynumber: 3.3 Consensus size: 33
239732 TAAAGCCGTG
* * *
239742 AACTTTGATCACAAATGTTATACACTTTTGGTT
1 AACTTTGATCATAGATGTTATACAATTTTGGTT
* * *
239775 AACTTTGATCATAGATGTGACACATTTTTGGTT
1 AACTTTGATCATAGATGTTATACAATTTTGGTT
* * * *
239808 AACTTTAACCATAGATATTATACAATTTTTGTT
1 AACTTTGATCATAGATGTTATACAATTTTGGTT
*
239841 AATTTTGATCA
1 AACTTTGATCA
239852 AATTTCTTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (33 bp):
AACTTTGATCATAGATGTTATACAATTTTGGTT
Found at i:247131 original size:97 final size:97
Alignment explanation
Indices: 246917--247251 Score: 494
Period size: 97 Copynumber: 3.5 Consensus size: 97
246907 GAAAAACTGG
* * * * *
246917 GGTTGGAGTATCCCCTCGGAGAAATGGGATTGGAGTGTCTCCGATGATGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAA
*
246982 TAAGATTT-AACTTTGATGTGTTGAAAAGCGA
66 TAAGATTTAAACTTTGATGTGTTTAAAAGCGA
* *
247013 GGTTGGAGTATCCTCTCGGAGGAATGGGGTTGAAGTGTCCCCAATGGTGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAA
* *
247078 GAAGATTTAAACTTTGATGCGTTTAAAAGCGA
66 TAAGATTTAAACTTTGATGTGTTTAAAAGCGA
* * *
247110 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCTGATGGAGATAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAA
*
247175 TAAGATTTAAACTTTGATGTATTTAAAAGCGA
66 TAAGATTTAAACTTTGATGTGTTTAAAAGCGA
* * *
247207 GGTTGGAGTATCCTCTCGGAGGAATAGGGTT-AGAGTATCCCCGAT
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGA-AGTGTCCCCGAT
247252 AAATAAAATT
Statistics
Matches: 215, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
96 66 0.31
97 149 0.69
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (97 bp):
GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAA
TAAGATTTAAACTTTGATGTGTTTAAAAGCGA
Found at i:248418 original size:45 final size:45
Alignment explanation
Indices: 248354--248445 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
248344 TAAGCTTATG
248354 TTAGTCCCCATTAATTGAGGCTAGCATGCTTAACTTAGGAGAGTT
1 TTAGTCCCCATTAATTGAGGCTAGCATGCTTAACTTAGGAGAGTT
*
248399 TTAGTCCCCATTAATTGAGGCTAGCATGCTTAACTTGGGAGAGTT
1 TTAGTCCCCATTAATTGAGGCTAGCATGCTTAACTTAGGAGAGTT
248444 TT
1 TT
248446 GAAAAATCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (45 bp):
TTAGTCCCCATTAATTGAGGCTAGCATGCTTAACTTAGGAGAGTT
Found at i:249023 original size:21 final size:19
Alignment explanation
Indices: 248999--249038 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
248989 ATATCATCTC
248999 TCTTTTCTTTCCCTTTTTTTT
1 TCTTTT-TTT-CCTTTTTTTT
*
249020 TCTTTTTTTTCTTTTTTTT
1 TCTTTTTTTCCTTTTTTTT
249039 AGTTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (19 bp):
TCTTTTTTTCCTTTTTTTT
Found at i:249027 original size:9 final size:9
Alignment explanation
Indices: 249013--249038 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
249003 TTCTTTCCCT
249013 TTTTTTTTC
1 TTTTTTTTC
249022 TTTTTTTTC
1 TTTTTTTTC
249031 TTTTTTTT
1 TTTTTTTT
249039 AGTTGAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:250580 original size:28 final size:28
Alignment explanation
Indices: 250521--250869 Score: 343
Period size: 28 Copynumber: 12.4 Consensus size: 28
250511 CACCAACTTG
* *
250521 TGTGGGCTTTGAAAAGGGTTGCCACTGCCT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* *
250551 TGTGGGCTTTAAAAAGG-TGCCATTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
** * *
250579 TGTTAGCTTTTGAAAATG-TGCCATTGACT
1 TGTGGGC-TTTG-AAAGGATGCCACTGACT
** *
250608 TGTTAGCTTTTGAAAGG-TGTCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
250636 TGTTGGCTTTTGAAAGG-TGCCATTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
250664 TATGGGCTTTAAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
250691 TATGGCCTTTGAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
250718 TATGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
250746 TGTGGGCTTTTGAAAGGATGCCACTGA-T
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
250774 TAGTGGGCTTTAAAAGGATGCCACTAACT
1 T-GTGGGCTTTGAAAGGATGCCACTGACT
* *
250803 TATGGGCTTTTGAAAGGATACCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
250832 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
250860 TGTAGGCTTT
1 TGTGGGCTTT
250870 AAAAAGGGTC
Statistics
Matches: 279, Mismatches: 32, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
27 58 0.21
28 126 0.45
29 82 0.29
30 13 0.05
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:250876 original size:57 final size:55
Alignment explanation
Indices: 250540--250869 Score: 351
Period size: 57 Copynumber: 5.9 Consensus size: 55
250530 TGAAAAGGGT
* * *
250540 TGCCACTGCCTTGTGGGCTTTAAAAAGGTGCCATTGACTTGTTA-GCTTTTGAAAATG
1 TGCCACTGACTTGTGGGCTTT-AAAAGGTGCCACTGACTTG-TAGGCTTTTG-AAAGG
* ** * * *
250597 TGCCATTGACTTGTTAGCTTTTGAAAGGTGTCACTGACTTGTTGGCTTTTGAAAGG
1 TGCCACTGACTTGTGGGC-TTTAAAAGGTGCCACTGACTTGTAGGCTTTTGAAAGG
* * * *
250653 TGCCATTGACTTATGGGCTTTAAAAGGTGCCACTGACTTAT-GGCCTTTGAAAGG
1 TGCCACTGACTTGTGGGCTTTAAAAGGTGCCACTGACTTGTAGGCTTTTGAAAGG
* * * *
250707 TGCCACTGACTTATGGGCTTTGAAAGGATACCACTGACTTGTGGGCTTTTGAAAGG
1 TGCCACTGACTTGTGGGCTTTAAAAGG-TGCCACTGACTTGTAGGCTTTTGAAAGG
* * *
250763 ATGCCACTGA-TTAGTGGGCTTTAAAAGGATGCCACTAACTTATGGGCTTTTGAAAGG
1 -TGCCACTGACTT-GTGGGCTTTAAAAGG-TGCCACTGACTTGTAGGCTTTTGAAAGG
* *
250820 ATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTT
1 -TGCCACTGACTTGTGGGCTTTAAAAGG-TGCCACTGACTTGTAGGCTTT
250870 AAAAAGGGTC
Statistics
Matches: 235, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
54 37 0.16
55 32 0.14
56 34 0.14
57 127 0.54
58 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (55 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGTGCCACTGACTTGTAGGCTTTTGAAAGG
Found at i:251734 original size:50 final size:53
Alignment explanation
Indices: 251654--251803 Score: 175
Period size: 50 Copynumber: 2.8 Consensus size: 53
251644 AAAGTCACAT
* * *
251654 TTTTACCCAGATGTATCAATATAGTTTTCAATGTATCGATACAT-TTTG-TC-A
1 TTTTACCCAGATGTATCGATACA-TTTTCAATGTATCGATACATGTATGTTCTA
*
251705 -TTTACCCAGATGTATCGATACATTCTTCAATTTATCGATACATGTATGTTCTA
1 TTTTACCCAGATGTATCGATACATT-TTCAATGTATCGATACATGTATGTTCTA
251758 TCTTTTTACCCAGATGTAT-GATACATTTTTCAATGTATCGATACAT
1 ---TTTTACCCAGATGTATCGATACA-TTTTCAATGTATCGATACAT
251804 CTAGTTAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 13
0.83 0.05 0.13
Matches are distributed among these distances:
49 2 0.02
50 37 0.44
51 3 0.04
52 2 0.02
53 1 0.01
56 23 0.27
57 17 0.20
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (53 bp):
TTTTACCCAGATGTATCGATACATTTTCAATGTATCGATACATGTATGTTCTA
Found at i:252701 original size:20 final size:22
Alignment explanation
Indices: 252661--252701 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
252651 TAGCCTTTGA
*
252661 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
252683 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
252702 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:254107 original size:98 final size:94
Alignment explanation
Indices: 253966--254194 Score: 325
Period size: 98 Copynumber: 2.4 Consensus size: 94
253956 GATACTCCAA
* * *
253966 CCTCATTCCTCCGAAGGATACTCTAACCCCATTTTTAAAACATGTCAAGATTTGAATCTTATCCT
1 CCTCATTCCTCCGAGGGATACTCCAACCCTATTTTTAAAACATGTCAAGATTTGAATCTTATCCT
*
254031 TGCCTAAATTGTCATCATTGGGAATACTC
66 TGCCTAAATTGTCATCATTGGGAACACTC
*
254060 TAATCC-CATTCCTCCGAGGAGATACTCCAACCCTGTTTTTAAAACATGTCAAGATTTGAATCTT
1 ----CCTCATTCCTCCGAGG-GATACTCCAACCCTATTTTTAAAACATGTCAAGATTTGAATCTT
* *
254124 ATCCTTGTCTAAATTGTCATCATTGGGGACACTC
61 ATCCTTGCCTAAATTGTCATCATTGGGAACACTC
*
254158 CCTCATGCCTCCGAGGGGATACTCCAACCCTATTTTT
1 CCTCATTCCTCCGA-GGGATACTCCAACCCTATTTTT
254195 CAATCAAAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
94 2 0.02
95 29 0.24
96 2 0.02
97 12 0.10
98 74 0.62
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (94 bp):
CCTCATTCCTCCGAGGGATACTCCAACCCTATTTTTAAAACATGTCAAGATTTGAATCTTATCCT
TGCCTAAATTGTCATCATTGGGAACACTC
Found at i:258823 original size:33 final size:33
Alignment explanation
Indices: 258786--258852 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
258776 TTCAATGATT
258786 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
258819 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
258852 T
1 T
258853 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:258824 original size:13 final size:13
Alignment explanation
Indices: 258806--258830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
258796 CATAAAATGT
258806 TGTATCGATACAA
1 TGTATCGATACAA
258819 TGTATCGATACA
1 TGTATCGATACA
258831 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:258911 original size:13 final size:13
Alignment explanation
Indices: 258893--258917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
258883 ATTACTCAAA
258893 TGTATCGATACAT
1 TGTATCGATACAT
258906 TGTATCGATACA
1 TGTATCGATACA
258918 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:262821 original size:73 final size:73
Alignment explanation
Indices: 262702--262847 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
262692 GATGGTCCTT
262702 TTATCAGTCTCGATTGCGTCTTTCGGATATTGTTGATCCTTGAGGTATCGAAAGATGTCATAGTA
1 TTATCAGTCTCGATTGCGTCTTTCGGATATTGTTGATCCTTGAGGTATCGAAAGATGTCATAGTA
262767 CCATGATA
66 CCATGATA
262775 TTATCAGTCTCGATTGCGTCTTTCGGATATTGTTGATCCTTGAGGTATCGAAAGATGTCATAGTA
1 TTATCAGTCTCGATTGCGTCTTTCGGATATTGTTGATCCTTGAGGTATCGAAAGATGTCATAGTA
262840 CCATGATA
66 CCATGATA
262848 GGCCATCTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (73 bp):
TTATCAGTCTCGATTGCGTCTTTCGGATATTGTTGATCCTTGAGGTATCGAAAGATGTCATAGTA
CCATGATA
Found at i:264134 original size:33 final size:33
Alignment explanation
Indices: 264097--264163 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
264087 TTCAACGATT
*
264097 TGTATTGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
264130 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
264163 T
1 T
264164 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:264135 original size:13 final size:13
Alignment explanation
Indices: 264117--264141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
264107 CATAAAATGT
264117 TGTATCGATACAA
1 TGTATCGATACAA
264130 TGTATCGATACA
1 TGTATCGATACA
264142 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:264267 original size:52 final size:53
Alignment explanation
Indices: 264204--264344 Score: 189
Period size: 52 Copynumber: 2.7 Consensus size: 53
264194 CATTACTCAA
*** *
264204 ATGTATCGATACACCGAT-CTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACCGATAAAATGTATCGATACATGCAAGCAAATTTGCCCAG
**
264256 ATGTATCGATACA-TTATAAAATGTATCGATACATGCAAGCAAATTTGCCCAG
1 ATGTATCGATACACCGATAAAATGTATCGATACATGCAAGCAAATTTGCCCAG
* *
264308 ATGTATCGATACA-CTATTAAATGTATCGATACATGCA
1 ATGTATCGATACACCGATAAAATGTATCGATACATGCA
264345 GATAAATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (53 bp):
ATGTATCGATACACCGATAAAATGTATCGATACATGCAAGCAAATTTGCCCAG
Found at i:264352 original size:52 final size:52
Alignment explanation
Indices: 264225--264353 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
264215 CACCGATCTT
* *
264225 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
*
264277 TGTATCGATACATGCA-AGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGA-CAAATTTGCCCAGATGTATCGATACACTATAAAA
*
264329 TGTATCGATACATGCAGATAAATTT
1 TGTATCGATACATGCAGACAAATTT
264354 TCATATTTTG
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
52 70 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:279214 original size:52 final size:52
Alignment explanation
Indices: 279066--279194 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
279056 CGAAATATGA
279066 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
279118 AAATTTGCCTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
279170 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
279195 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:279221 original size:13 final size:13
Alignment explanation
Indices: 279203--279227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
279193 CAAAGATCAG
279203 TGTATCGATACAA
1 TGTATCGATACAA
279216 TGTATCGATACA
1 TGTATCGATACA
279228 TTTAAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:279306 original size:13 final size:13
Alignment explanation
Indices: 279288--279314 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
279278 TACAAAACTT
279288 ATGTATCGATACA
1 ATGTATCGATACA
279301 ATGTATCGATACA
1 ATGTATCGATACA
279314 A
1 A
279315 CACTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:279311 original size:32 final size:33
Alignment explanation
Indices: 279270--279334 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
279260 TAGCTTAAAT
279270 TGTATCGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
279302 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
279335 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:284866 original size:51 final size:50
Alignment explanation
Indices: 284773--284887 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 50
284763 TGAATAGTAC
* *
284773 ATGTATCGATACATTCTGTTTTTTACCCAAATGTATCAATACATGTA-TGA
1 ATGTATCGATACATTCTATTTTTTACCCAAATGTATCAATACAT-TATTCA
* * * **
284823 ATGTATCGATACATTTTATCTTTTTACCTAGATGTATTGATACATTATTCA
1 ATGTATCGATACATTCTAT-TTTTTACCCAAATGTATCAATACATTATTCA
*
284874 ATGTATTGATACAT
1 ATGTATCGATACAT
284888 CTAGTTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 19 0.35
51 36 0.65
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (50 bp):
ATGTATCGATACATTCTATTTTTTACCCAAATGTATCAATACATTATTCA
Found at i:287195 original size:27 final size:26
Alignment explanation
Indices: 287154--287206 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
287144 TATTGTCATC
287154 GGGGATACTCCAACCCCATTTCTTCAA
1 GGGGATACTCCAACCCCATTT-TTCAA
* *
287181 GGGGATACTCTAACCTCATTTTTCAA
1 GGGGATACTCCAACCCCATTTTTCAA
287207 TCAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (26 bp):
GGGGATACTCCAACCCCATTTTTCAA
Found at i:289896 original size:28 final size:28
Alignment explanation
Indices: 289856--290198 Score: 392
Period size: 28 Copynumber: 12.1 Consensus size: 28
289846 CTAGAACATT
*
289856 CATCTCTTCAAAGCCCACAAGTTAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
* *
289884 CATCTCTTCAAAGCCCACAAGTCAGCGA
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
289912 CATC-CTTTCAAAGCCCACAAGTCAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
* *
289940 CATC-CTTCCTTAAAGCTCACAAGTCAATGG
1 CATCTCTT-C--AAAGCCCACAAGTCAGTGG
*
289970 CATC-CTTCTCAAAGCCCACAAGACAGTGG
1 CATCTC-T-TCAAAGCCCACAAGTCAGTGG
*
289999 CATCTGTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
* * *
290027 CATC-CTTCTCAAAGCCCACAAGTTAATAG
1 CATCTC-T-TCAAAGCCCACAAGTCAGTGG
* *
290056 CATCTTTTCAAAGCCTACAAGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
*
290084 CATCTTTTCAAAGCCCACAAGTCAGT-G
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
* *
290111 CATCTTTCTCAACGCCCACAAGTCAGTGG
1 CATCTCT-TCAAAGCCCACAAGTCAGTGG
*
290140 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
*
290168 CATC-CTTCTCAAAGCCTACAAGTCAGTGG
1 CATCTC-T-TCAAAGCCCACAAGTCAGTGG
290197 CA
1 CA
290199 CCCTTTCAAA
Statistics
Matches: 275, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
27 11 0.04
28 165 0.60
29 74 0.27
30 22 0.08
31 2 0.01
32 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGG
Found at i:290033 original size:57 final size:56
Alignment explanation
Indices: 289862--290210 Score: 452
Period size: 57 Copynumber: 6.1 Consensus size: 56
289852 CATTCATCTC
* * *
289862 TTCAAAGCCCACAAGTTAGTGGCATC-TCTTCAAAGCCCACAAGTCAGCGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTC-TCAAAGCCCACAAGTCAGTGGCATCCT
* * *
289918 TTCAAAGCCCACAAGTCAGTGGCATCCTTCCTTAAAGCTCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTT-CTCAAAGCCCACAAGTCAGTGGCATCCT
*
289976 TCTCAAAGCCCACAAGACAGTGGCATCTGT-TCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCT-TCTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
290033 TCTCAAAGCCCACAAGTTAATAGCATCTTTTCAAAGCCTACAAGTCAGTGGCATCTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
* *
290090 TTCAAAGCCCACAAGTCAGT-GCATCTTTCTCAACGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-TTCTCAAAGCCCACAAGTCAGTGGCATCCT
* *
290146 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTTCTCAAAGCCCACAAGTCAGTGGCATCCT
290203 TTCAAAGC
1 TTCAAAGC
290211 TTGCACAAAT
Statistics
Matches: 259, Mismatches: 25, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
55 5 0.02
56 89 0.34
57 113 0.44
58 27 0.10
59 25 0.10
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:290132 original size:56 final size:56
Alignment explanation
Indices: 289856--290266 Score: 448
Period size: 57 Copynumber: 7.1 Consensus size: 56
289846 CTAGAACATT
* * * * *
289856 CATCTCTTCAAAGCCCACAAGTTAGTGGCATCTCTTCAAAGCCCACAAGTCAGCGA
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
289912 CATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCCTT-AAAGCTCACAAGTCAATGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTT--TTCAAAGCCCACAAGTCAGTGG
* * *
289970 CATCCTTCTCAAAGCCCACAAGACAGTGGCATCTGTTCAAAGCCCACAAGTCAGTGG
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
* * * * *
290027 CATCCTTCTCAAAGCCCACAAGTTAATAGCATCTTTTCAAAGCCTACAAGTCAGTGG
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
*
290084 CATCTTTTCAAAGCCCACAAGTCAGT-GCATCTTTCTCAACGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTT-TCAAAGCCCACAAGTCAGTGG
* *
290140 CATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCTACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGG
* * * * ** *
290197 CACCCTTTCAAAGCTTGCACAAATTGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGG
1 CATCTTTTCAAAGC--CCACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGG
*
290259 CACCTTTT
1 CATCTTTT
290267 TTTAAAGCCC
Statistics
Matches: 303, Mismatches: 38, Indels: 22
0.83 0.10 0.06
Matches are distributed among these distances:
55 8 0.03
56 95 0.31
57 108 0.36
58 23 0.08
59 38 0.13
60 10 0.03
61 3 0.01
62 18 0.06
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (56 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:290250 original size:32 final size:32
Alignment explanation
Indices: 290214--290276 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
290204 TCAAAGCTTG
*
290214 CACAAATTGGTGGCAACTCTTTTCAAAGCCCA
1 CACAAATTAGTGGCAACTCTTTTCAAAGCCCA
* * * *
290246 CACAAGTTAGTGGCACCTTTTTTTAAAGCCC
1 CACAAATTAGTGGCAACTCTTTTCAAAGCCC
290277 TGCAAGTCGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (32 bp):
CACAAATTAGTGGCAACTCTTTTCAAAGCCCA
Found at i:291455 original size:20 final size:20
Alignment explanation
Indices: 291422--291495 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
291412 TTTTACCTAG
*
291422 ATGTATCGACACATATTTTA
1 ATGTATCGATACATATTTTA
* * * *
291442 ATGTACCGATACATGTATGA
1 ATGTATCGATACATATTTTA
291462 ATGTATCGAT--ATATTCTTCA
1 ATGTATCGATACATATT-TT-A
291482 ATGTATCGATACAT
1 ATGTATCGATACAT
291496 TCTGTCTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
20 35 0.85
22 2 0.05
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTTTA
Found at i:294081 original size:678 final size:676
Alignment explanation
Indices: 292624--294652 Score: 3232
Period size: 678 Copynumber: 3.0 Consensus size: 676
292614 CGAACATCAC
* * * *
292624 AAACTTGGGGTAAGTTTAATTTTTAGGTTTGGAAATTCGATTAAATGAGATTCAAATTTTTGATT
1 AAACTTAGGGTAAATTTAATTTTTAGGTCTGGAAATTCGATTAAATGAGATTCAAATTTCTGATT
*
292689 TTCTAATCAAAATAGCCATGCATATGCTCCTAAAATGTTTGTGCCTTGCTTTATGTCAAAACCAT
66 TTCTAATCAAAATAGCCATGCATATGCTCCTAAAATGTTTGTGCCTTGCTTTATGTCAAAACCTT
292754 GAGTGGTATGATCAACGGGCTATTTCATCATCCTAAACTACT-TCGGGATTGTGTAAATGAGTTT
131 GAGTGGTATGATCAACGGGCTATTTCATCATCCTAAACTACTCT-GGGATTGTGTAAATGAGTTT
* * * *
292818 ATGATGCTTATAACACTTTTTCCCTTCTGTCACAAACATTTGGATGTTCATGACTCGAGTTTAGA
195 GTGATGCTCATACCACTCTTTCCCTTCTGTCACAAACATTTGGATGTTCATGACTCGAGTTTAGA
* *
292883 CCCGTAAATATTTAGGAAACCGAAACCTTCCCCTCTTTTACTATGTTCCCTACTGGCAGCAACTC
260 CCCGTAAATATTTAGGAAACCGAAACCTTCCCCTCTTTTACTATGTTCCCTACTGGTAGTAACTC
292948 TATTTCGTATTGAAAAAAGATTTTCAAATCTTAAACAATTTTTCAAGATTTTTTTAGTATTTTTT
325 TATTTCGTATTGAAAAAAGATTTTCAAATCTTAAACAATTTTTCAAGATTTTTTTAGTATTTTTT
*
293013 CTGTAAATTATGTCAAAATATC-TTTCCAGATATCTTATTTGCCCCTAGATCATTCCAGATGAGG
390 CTGTAAATTATGTCAAAATATCTTTTCAAGATATCTTATTTGCCCCTAGATCATTCCAGATGAGG
* * *
293077 GAGTTATGATATTTTGAACCTAAATTGTCTCAAACCCCTAGATT-AGCGATTCGCATTCTGGTCA
455 GAGTTATGATATTTTGAACCTAAACTATCTCGAACCCCTAGATTCAGCGATTCGCATTCTGGTC-
* * *
293141 GGCCATTTTGACTCACTAGATGATTTTTCCAAATTTTCTAAACATTTTTCCTAAAAACTTCAAGA
519 GGCCATTTTGGCTCACTAGATGATTTTTCCAAATTTTCTAAACATTTTTCATAAAAACTTCATGA
* * *
293206 ACTTATCTTTTCGGAAAGGTATATTTTGTAATTTTTTGGTACCAAATGAATTCGGGGTGATTTTT
584 AATTATCTTTTCGGAAAGATATATTTTGTAATTTTTTTGTACCAAATGAATTCGGGGTGATTTTT
*
293271 CAAAGTTTGTCACACCTTTTCTTCATAA
649 CAAAGTTTGTCACACCTTTACTTCATAA
293299 AAACTTAGGGTAAATTTAATTTTTAGGTCTGGAAATTCGATTAAATGAGATTCAAATTTCTGATT
1 AAACTTAGGGTAAATTTAATTTTTAGGTCTGGAAATTCGATTAAATGAGATTCAAATTTCTGATT
*
293364 TTCTAATCAAAATAGCCATGCATATGCTCCTAAAATGTTTATGCCTTGCTTTATGTCAAAACCTT
66 TTCTAATCAAAATAGCCATGCATATGCTCCTAAAATGTTTGTGCCTTGCTTTATGTCAAAACCTT
*
293429 GAGTGGTATGATCAACGGGCTATTTCATAATCCTAAACTACTCTGGGATTGTGTAAATGAGTTTG
131 GAGTGGTATGATCAACGGGCTATTTCATCATCCTAAACTACTCTGGGATTGTGTAAATGAGTTTG
293494 TGATGCTCATACCACTCTTTCCCTTCTGTCACAAACATTTGGATGTTCATGACTCGAGTTTAGAC
196 TGATGCTCATACCACTCTTTCCCTTCTGTCACAAACATTTGGATGTTCATGACTCGAGTTTAGAC
* *
293559 CCATAAATATTTAGAAAACCGAAACCTTCCCCTCTTTTACTATGTTCCCTACTGGTAGTAACTCT
261 CCGTAAATATTTAGGAAACCGAAACCTTCCCCTCTTTTACTATGTTCCCTACTGGTAGTAACTCT
293624 ATTTCGTATTGAAAAAAGATTTTCAAATCTTAAACAATTTTTCAAGATTTTTTTAGTATTTTTTC
326 ATTTCGTATTGAAAAAAGATTTTCAAATCTTAAACAATTTTTCAAGATTTTTTTAGTATTTTTTC
*
293689 TGTAAATTATGTCAAAATATCTTTTCAACGATATCTTATTTGGCCCCTAGATCGTTCCAGATGAG
391 TGTAAATTATGTCAAAATATCTTTTCAA-GATATCTTATTT-GCCCCTAGATCATTCCAGATGAG
*
293754 GGAGTTATGATATTTTGAACCTAAACTATCTCGAACCCCTAGATTCAGCGATTTGCATTCTGGTC
454 GGAGTTATGATATTTTGAACCTAAACTATCTCGAACCCCTAGATTCAGCGATTCGCATTCTGGTC
* * * *
293819 GGCCGTTTTGGCTCACAAAATGATTTTTCCAAATTTTCTAAACATTTTTCATAAGAACTTCATGA
519 GGCCATTTTGGCTCACTAGATGATTTTTCCAAATTTTCTAAACATTTTTCATAAAAACTTCATGA
293884 AATTATCTTTTCGGAAAGATATATTTTGTAATTTTTTTGTACCAAATGAATTCGGGGTGATTTTT
584 AATTATCTTTTCGGAAAGATATATTTTGTAATTTTTTTGTACCAAATGAATTCGGGGTGATTTTT
293949 CAAAGTTTGTCACACCTTTACTTCATAA
649 CAAAGTTTGTCACACCTTTACTTCATAA
*
293977 AAACTTAGGGTAAATTTAATTTTTAGGTCTGGAAATTCAATTAAATGAGATTCAAATTTCTGATT
1 AAACTTAGGGTAAATTTAATTTTTAGGTCTGGAAATTCGATTAAATGAGATTCAAATTTCTGATT
** *
294042 TTCTAATCAAAATAATCATGCATATGCTCCTAAAATGTTTGTGCCTTGCTTTGTGTCAAAACCTT
66 TTCTAATCAAAATAGCCATGCATATGCTCCTAAAATGTTTGTGCCTTGCTTTATGTCAAAACCTT
* * * *
294107 GAGTGGTATGATCAACGGGCTGTTTCATCAT-CTCAAACTACTCTAGGACTATGTAAATGAGTTT
131 GAGTGGTATGATCAACGGGCTATTTCATCATCCT-AAACTACTCTGGGATTGTGTAAATGAGTTT
* * * * *
294171 GTGATGCTCATACCACTCTTTTCCTTCTGTCATAGACATTCGGATATTCATGACTCGAGTTTAGA
195 GTGATGCTCATACCACTCTTTCCCTTCTGTCACAAACATTTGGATGTTCATGACTCGAGTTTAGA
* * ** * * *
294236 CTCGTAAACATTTAGGAAACTAAAACCTTCCTCTGTTTTACTATGTTCCCTGCTGGTA-TCAACT
260 CCCGTAAATATTTAGGAAACCGAAACCTTCCCCTCTTTTACTATGTTCCCTACTGGTAGT-AACT
* * * ** * *
294300 CTATTTTGTGTTGAAAAAAGATTTTAAAATCTTAAATGATTTTTCAAGATTTTCTTAATA-TTTT
324 CTATTTCGTATTGAAAAAAGATTTTCAAATCTTAAACAATTTTTCAAGATTTTTTTAGTATTTTT
* * *
294364 TCTTGTAAATTATGTCAAAATATCTTTCCAATGACATCTTATTTGCCCCTGGATCATTCCAGATG
389 TC-TGTAAATTATGTCAAAATATCTTTTCAA-GATATCTTATTTGCCCCTAGATCATTCCAGATG
* * * * *
294429 AGGGAGTTATGATATTTCGAACCTAAACTTTCTCGAA-CCCTAGAATCAGCAATTCGTATTCTGG
452 AGGGAGTTATGATATTTTGAACCTAAACTATCTCGAACCCCTAGATTCAGCGATTCGCATTCTGG
*
294493 TCGAGCCATTTTGGC-CTACTAGATAATATTTT-CAAATTTTCTAAACATTTTTCATAAAAACCT
517 TCG-GCCATTTTGGCTC-ACTAGATGAT-TTTTCCAAATTTTCTAAACATTTTTCATAAAAA-CT
* * *
294556 TCATGAAACTATCTTTCCGGAAAGATATATTTTGTAA-CTTTTTGATACCAAATGAATTCGGGGT
578 TCATGAAATTATCTTTTCGGAAAGATATATTTTGTAATTTTTTTG-TACCAAATGAATTCGGGGT
294620 GATTTTTCAAAGTTTGTCACACCTTTACTTCAT
642 GATTTTTCAAAGTTTGTCACACCTTTACTTCAT
294653 GTGCTCTGCC
Statistics
Matches: 1259, Mismatches: 82, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
675 394 0.31
676 33 0.03
677 125 0.10
678 689 0.55
679 18 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (676 bp):
AAACTTAGGGTAAATTTAATTTTTAGGTCTGGAAATTCGATTAAATGAGATTCAAATTTCTGATT
TTCTAATCAAAATAGCCATGCATATGCTCCTAAAATGTTTGTGCCTTGCTTTATGTCAAAACCTT
GAGTGGTATGATCAACGGGCTATTTCATCATCCTAAACTACTCTGGGATTGTGTAAATGAGTTTG
TGATGCTCATACCACTCTTTCCCTTCTGTCACAAACATTTGGATGTTCATGACTCGAGTTTAGAC
CCGTAAATATTTAGGAAACCGAAACCTTCCCCTCTTTTACTATGTTCCCTACTGGTAGTAACTCT
ATTTCGTATTGAAAAAAGATTTTCAAATCTTAAACAATTTTTCAAGATTTTTTTAGTATTTTTTC
TGTAAATTATGTCAAAATATCTTTTCAAGATATCTTATTTGCCCCTAGATCATTCCAGATGAGGG
AGTTATGATATTTTGAACCTAAACTATCTCGAACCCCTAGATTCAGCGATTCGCATTCTGGTCGG
CCATTTTGGCTCACTAGATGATTTTTCCAAATTTTCTAAACATTTTTCATAAAAACTTCATGAAA
TTATCTTTTCGGAAAGATATATTTTGTAATTTTTTTGTACCAAATGAATTCGGGGTGATTTTTCA
AAGTTTGTCACACCTTTACTTCATAA
Found at i:295203 original size:98 final size:97
Alignment explanation
Indices: 295045--295293 Score: 417
Period size: 98 Copynumber: 2.5 Consensus size: 97
295035 AATTTAATTT
* *
295045 ATTGGAGATACTCCAACCTCATTCCTCTGAGGGGATACTCTAACCCTGTTTTTAAAACATGTCAA
1 ATTGGGGATACTCCAACCTCATTCCTC-GAGGGGATACTCTAACCCCGTTTTTAAAACATGTCAA
295110 GATTTGAATCTTATCCTTGCCTAAATTGTCATC
65 GATTTGAATCTTATCCTTGCCTAAATTGTCATC
* *
295143 ATTGGGGACACTCCAACCTCATTCCTTCGAGGGGATACTCCAACCCCGTTTTTAAAACATGTCAA
1 ATTGGGGATACTCCAACCTCATTCC-TCGAGGGGATACTCTAACCCCGTTTTTAAAACATGTCAA
295208 GATTTGAATCTTATCCTTGCCTAAATTGTCATC
65 GATTTGAATCTTATCCTTGCCTAAATTGTCATC
* *
295241 ATTGGGGATACTCCAACCTCATTCCTCCATGGGGATACTCTAACCCCATTTTT
1 ATTGGGGATACTCCAACCTCATTCCTCGA-GGGGATACTCTAACCCCGTTTTT
295294 CAATCAAAAA
Statistics
Matches: 141, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
97 3 0.02
98 136 0.96
99 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (97 bp):
ATTGGGGATACTCCAACCTCATTCCTCGAGGGGATACTCTAACCCCGTTTTTAAAACATGTCAAG
ATTTGAATCTTATCCTTGCCTAAATTGTCATC
Found at i:305699 original size:97 final size:97
Alignment explanation
Indices: 305570--305900 Score: 482
Period size: 97 Copynumber: 3.4 Consensus size: 97
305560 AAAGGGGTTA
* * * * *
305570 GAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTGAAATGAGAATAAGA
1 GAGTATCCCCTCGGAGGAACGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAATAAGA
**
305635 TTTAAACTTTGATGCATTTAAAAGCAGGGTCG
66 TTTAAACTTTGATGTGTTTAAAAGCAGGGTCG
**
305667 GAGTATCCCCTCGGAGGAACGGGGTTGAAGTGTCCGTGATGGTGACAATTTAAGTGAGAATAAGA
1 GAGTATCCCCTCGGAGGAACGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAATAAGA
305732 TTTAAACTTTGATGTGTTTAAAAGCAGGGTCG
66 TTTAAACTTTGATGTGTTTAAAAGCAGGGTCG
* * *
305764 GAGTATCCCCTCTGAGGAACGGGGTTGAAGTGTCCCTGATGGTCACAATTTAAGTGAGAATAAGA
1 GAGTATCCCCTCGGAGGAACGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAATAAGA
* ** *
305829 TTTAAACTTTAATGTGTTTAAAAGTGGGGTTG
66 TTTAAACTTTGATGTGTTTAAAAGCAGGGTCG
** * *
305861 GAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 GAGTATCCCCTCGGAGGAACGGGGTTGAAGTGTCCCCGAT
305901 AAATAAAATT
Statistics
Matches: 212, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 212 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (97 bp):
GAGTATCCCCTCGGAGGAACGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGAATAAGA
TTTAAACTTTGATGTGTTTAAAAGCAGGGTCG
Found at i:307614 original size:12 final size:11
Alignment explanation
Indices: 307597--307641 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
307587 TTTGTTTCTA
307597 TTTCTTCTCTCT
1 TTTCTT-TCTCT
307609 TTTCTTTCTCT
1 TTTCTTTCTCT
*
307620 TTT-TTTTTCT
1 TTTCTTTCTCT
307630 TTT-TTT-TCT
1 TTTCTTTCTCT
307639 TTT
1 TTT
307642 TTTTAGTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 6 0.19
10 12 0.38
11 8 0.25
12 6 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTCTCT
Found at i:307630 original size:21 final size:19
Alignment explanation
Indices: 307606--307645 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 19
307596 ATTTCTTCTC
307606 TCTTTTCTTTCTCTTTTTTTT
1 TCTTTT-TTT-TCTTTTTTTT
307627 TCTTTTTTTTCTTTTTTTT
1 TCTTTTTTTTCTTTTTTTT
307646 AGTTGAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TCTTTTTTTTCTTTTTTTT
Found at i:307632 original size:9 final size:9
Alignment explanation
Indices: 307606--307645 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
307596 ATTTCTTCTC
307606 TCTTTTCTTT
1 TCTTTT-TTT
307616 CTCTTTTTTTT
1 -TC-TTTTTTT
307627 TCTTTTTTT
1 TCTTTTTTT
307636 TCTTTTTTT
1 TCTTTTTTT
307645 T
1 T
307646 AGTTGAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 17 0.61
10 2 0.07
11 5 0.18
12 4 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:307632 original size:10 final size:10
Alignment explanation
Indices: 307606--307645 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
307596 ATTTCTTCTC
*
307606 TCTTTTCTTTC
1 TCTTTT-TTTT
307617 TCTTTTTTTT
1 TCTTTTTTTT
307627 TC-TTTTTTT
1 TCTTTTTTTT
307636 TCTTTTTTTT
1 TCTTTTTTTT
307646 AGTTGAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 9 0.33
10 12 0.44
11 6 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:309692 original size:165 final size:164
Alignment explanation
Indices: 309315--309699 Score: 390
Period size: 165 Copynumber: 2.3 Consensus size: 164
309305 TTTTACTTTG
* * * * *
309315 TAAATATTTTCG-GGAGGAGTTTTCATGGTTTATAATTTTAAAATTTATCAAATATTATCATTTA
1 TAAATGTTTTCGAGG-GGATTTTTC-TGGTTTAAAATTTTAAAATTCATCAAATATCATCATTTA
* * * *
309379 ATTCATATTAAATCTGTTTTGAGCAATTCATTTATTTTCATGAATTTATCTTTTTTTCCTTGAAA
64 ATTCATATTAAATCAGTTTTGAGAAATTCATTTATTTTCAAGAATTTATCTATTTTTCCTTGAAA
** * * *
309444 TTCTCTTGTTTCGAAAGAAACGAGTTTTCTATTCCT
129 GCCTCTTGTTTCGAAAGAAACAAATTTTCTATTCCA
* * * * *
309480 TAAAGGTTTTC-ACGAGGATTTTTCTCGGTTCAAAATTTTAAAATTCATCAAATATCATTATTTG
1 TAAATGTTTTCGA-GGGGATTTTTCT-GGTTTAAAATTTTAAAATTCATCAAATATCATCATTTA
* * * *
309544 ATTCATATTAAATCAGTTTTGA-AAATTTTATTTGTTTTCAAGAGTTTTTC-ATTTTTCCTTGAA
64 ATTCATATTAAATCAGTTTTGAGAAA-TTCATTTATTTTCAAGAATTTATCTATTTTTCCTTGAA
309607 ACGCCT-TTGTTTTCG-AA-AAACTAAATTTTCTACTT-CA
128 A-GCCTCTTG-TTTCGAAAGAAAC-AAATTTTCTA-TTCCA
* *
309644 TAAATGTTTTCGAGGGGATTTTTCGTGGTTTAAAATTTTTATAATTCATCTAATAT
1 TAAATGTTTTCGAGGGGATTTTTC-TGGTTTAAAA-TTTTAAAATTCATCAAATAT
309700 TTTCATTAAA
Statistics
Matches: 181, Mismatches: 28, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
163 4 0.02
164 58 0.32
165 118 0.65
166 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (164 bp):
TAAATGTTTTCGAGGGGATTTTTCTGGTTTAAAATTTTAAAATTCATCAAATATCATCATTTAAT
TCATATTAAATCAGTTTTGAGAAATTCATTTATTTTCAAGAATTTATCTATTTTTCCTTGAAAGC
CTCTTGTTTCGAAAGAAACAAATTTTCTATTCCA
Found at i:312427 original size:32 final size:30
Alignment explanation
Indices: 312386--312456 Score: 101
Period size: 28 Copynumber: 2.4 Consensus size: 30
312376 ATATCGGTGT
*
312386 TTTAGAAATAAAAACTAGAGTTGGAGTATCCC
1 TTTAGAAAT-AAAACAAG-GTTGGAGTATCCC
312418 TTTAGAAAT--AACAAGGTTGGAGTATCCC
1 TTTAGAAATAAAACAAGGTTGGAGTATCCC
312446 TTTAGAAATAA
1 TTTAGAAATAA
312457 CAAGGATGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 22 0.61
29 5 0.14
32 9 0.25
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (30 bp):
TTTAGAAATAAAACAAGGTTGGAGTATCCC
Found at i:312444 original size:80 final size:79
Alignment explanation
Indices: 312214--312445 Score: 270
Period size: 79 Copynumber: 2.9 Consensus size: 79
312204 TCCCCAATGG
* * * * *
312214 TGAAAAATCGATATTTTGGAAATAAAAAC-AGGGTTGGAGTATTTCCTCAGAAATAACAGGGTTG
1 TGAAAAATCGATGTTTTAGAAATAAAAACTAGGGTTGGAGTA-TCCCTTAGAAATAACAAGGTTG
*
312278 GAGTATCCTCGATTA
65 GAGTATCCCCGATTA
* * ** * * * *
312293 TGAAAAATCGATGTTTTAGAAAT-AAAGCTGGGGTTAAAGCATCCCCTCGAAAATAACGAGGTTG
1 TGAAAAATCGATGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCCTTAG-AAATAACAAGGTTG
312357 GAGTATCCCCGATTA
65 GAGTATCCCCGATTA
* * *
312372 TGAAATATCGGTGTTTTAGAAATAAAAACTAGAGTTGGAGTATCCCTTTAGAAATAACAAGGTTG
1 TGAAAAATCGATGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCC-TTAGAAATAACAAGGTTG
312437 GAGTATCCC
65 GAGTATCCC
312446 TTTAGAAATA
Statistics
Matches: 124, Mismatches: 25, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
78 8 0.06
79 76 0.61
80 38 0.31
81 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
TGAAAAATCGATGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCCTTAGAAATAACAAGGTTGG
AGTATCCCCGATTA
Found at i:312445 original size:28 final size:28
Alignment explanation
Indices: 312405--312461 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
312395 AAAAACTAGA
312405 GTTGGAGTATCCCTTTAGAAATAACAAG
1 GTTGGAGTATCCCTTTAGAAATAACAAG
312433 GTTGGAGTATCCCTTTAGAAATAACAAG
1 GTTGGAGTATCCCTTTAGAAATAACAAG
312461 G
1 G
312462 ATGGTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (28 bp):
GTTGGAGTATCCCTTTAGAAATAACAAG
Found at i:312529 original size:28 final size:28
Alignment explanation
Indices: 312494--312567 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
312484 GAAATAAAAT
312494 CAGGGTTGGAGTATCCCTTCGAAAATAA
1 CAGGGTTGGAGTATCCCTTCGAAAATAA
* * *
312522 CGGGGTTGGAGTACCCCCTCGAAAATAA
1 CAGGGTTGGAGTATCCCTTCGAAAATAA
*
312550 CAAGGTTGGAGTATCCCT
1 CAGGGTTGGAGTATCCCT
312568 GATTATGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCTTCGAAAATAA
Found at i:312548 original size:93 final size:94
Alignment explanation
Indices: 312382--312554 Score: 226
Period size: 93 Copynumber: 1.9 Consensus size: 94
312372 TGAAATATCG
* *
312382 GTGTTTTAGAAATAAAAACTAGAGTTGGAGTATCCCTTTAGAAATAACAAGGTTGGAGTATCCCT
1 GTGTTTTAGAAATAAAAACTAGAGTTGGAGTATCCCTTGAGAAATAACAAGGTTGGAGTACCCCT
**
312447 TTAGAAATAACAAGGATGGTGAAAAATTA
66 CGAGAAATAACAAGGATGGTGAAAAATTA
* * * **
312476 GTGTTTTGGAAATAAAATC-AGGGTTGGAGTATCCCTTCGA-AAATAACGGGGTTGGAGTACCCC
1 GTGTTTTAGAAATAAAAACTAGAGTTGGAGTATCCCTT-GAGAAATAACAAGGTTGGAGTA-CCC
312539 CTCGA-AAATAACAAGG
64 CTCGAGAAATAACAAGG
312555 TTGGAGTATC
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
93 45 0.66
94 23 0.34
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (94 bp):
GTGTTTTAGAAATAAAAACTAGAGTTGGAGTATCCCTTGAGAAATAACAAGGTTGGAGTACCCCT
CGAGAAATAACAAGGATGGTGAAAAATTA
Found at i:312613 original size:79 final size:78
Alignment explanation
Indices: 312524--312873 Score: 382
Period size: 79 Copynumber: 4.4 Consensus size: 78
312514 GAAAATAACG
* * * * *
312524 GGGTTGGAGTACCCCCTCGAAAATAACAAGGTTGGAGTATCCCTGATTATGAAAAATCAATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTT
*
312589 TGGAAATAAAACTA
66 TAGAAATAAAAC-A
* * * * * * *
312603 GGGTTAGAGTATCCCCTTAGAAATAATGAGGTTGGAGTATCCTCGATTGTGGAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTT
*
312668 TAGAAATAAAGCA
66 TAGAAATAAAACA
* * * *
312681 GGGGTTGGAGCATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGATTGTCG-AAAATCAGTGT
1 -GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGT-GAAAAATCAATGT
*
312745 TTTAGAAATAAAAACC
64 TTTAGAAAT-AAAACA
* * ***
312761 GAGGTTGGAGTATCCCTTCAAAAATAAC-AGGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGT
1 G-GGTTGGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAATCAATGT
*
312825 TTT-GAAAATAAAACT
64 TTTAG-AAATAAAACA
*
312840 GGGGTGGAGTATCCCCTCAAAAATAACGAGGTTG
1 GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTG
312874 TAGCTCGGCT
Statistics
Matches: 227, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
78 30 0.13
79 133 0.59
80 64 0.28
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTT
TAGAAATAAAACA
Found at i:314038 original size:159 final size:158
Alignment explanation
Indices: 313808--314108 Score: 347
Period size: 159 Copynumber: 1.9 Consensus size: 158
313798 GGAAAATCGA
* * * * *
313808 TATTTTGGAAATAAAATCGAGGTTGGAGTATTTCCTTAAAAATAACGAGGTTAGAGTATCTTCGA
1 TATTTTAGAAATAAAATCGAAGTTGGAGTATTCCCTTAAAAATAACGAGGTTAGAGTATCTCCAA
* * * * **
313873 TTGTGAAAAATTAATGTTTTAGAAATAATACCGGGGTTAGAGCATCCCCTCGAAAATAATGGGGT
66 TGGTGAAAAATTAATGTTTGAGAAATAAAACCAGGGTTAGAGCATCCCCTCGAAAATAACAGGGT
313938 TGAAGTATCCCCGATTATGGAATATTGG
131 TGAAGTATCCCCGATTATGGAATATTGG
* *
313966 TATTTTAGAAATAAAAACTC-AAGTTGGAGTA-TCCCTTTAGAAATAACGAGGTTGGAGTATC-C
1 TATTTTAGAAAT-AAAA-TCGAAGTTGGAGTATTCCC-TTAAAAATAACGAGGTTAGAGTATCTC
** * ** * * *
314028 CAAATGGTGAAAAATTGGTGTTTGGGAAATAAAATTAGGGTTGGAGTATCCCCTTGAAAATAACA
63 C-AATGGTGAAAAATTAATGTTTGAGAAATAAAACCAGGGTTAGAGCATCCCCTCGAAAATAACA
*
314093 GGGTTGGAGTATCCCC
127 GGGTTGAAGTATCCCC
314109 TCAAAAATAA
Statistics
Matches: 117, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
158 15 0.13
159 100 0.85
160 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (158 bp):
TATTTTAGAAATAAAATCGAAGTTGGAGTATTCCCTTAAAAATAACGAGGTTAGAGTATCTCCAA
TGGTGAAAAATTAATGTTTGAGAAATAAAACCAGGGTTAGAGCATCCCCTCGAAAATAACAGGGT
TGAAGTATCCCCGATTATGGAATATTGG
Found at i:314045 original size:80 final size:79
Alignment explanation
Indices: 313793--314107 Score: 185
Period size: 79 Copynumber: 4.0 Consensus size: 79
313783 ACATTCCCCG
* * * ** *
313793 ATGGTGGAAAATCGATATTTTG-GAAATAAAATC-GAGGTTGGAGTATTTCCTTAAAAATAAC-G
1 ATGGTGAAAAATTGGTA-TTTGAGAAATAAAATCAGA-GTTGGAGTATCCCCTTGAAAATAACAG
* * *
313855 AGGTTAGAGTATCTTC-G
64 -GGTTGGAGTATC-CCAA
* ** * * * * * * * * * **
313872 ATTGTGAAAAATTAATGTTTTAGAAATAATACCGGGGTTAGAGCATCCCCTCGAAAATAATGGGG
1 ATGGTGAAAAATTGGTATTTGAGAAATAAAATCAGAGTTGGAGTATCCCCTTGAAAATAACAGGG
* **
313937 TTGAAGTATCCCCG
66 TTGGAGTATCCCAA
** * * * *
313951 ATTATGGAATATTGGTATTTTAGAAATAAAAACTCA-AGTTGGAGTAT-CCCTTTAGAAATAAC-
1 ATGGTGAAAAATTGGTATTTGAGAAAT-AAAA-TCAGAGTTGGAGTATCCCCTTGA-AAATAACA
314013 GAGGTTGGAGTATCCCAA
63 G-GGTTGGAGTATCCCAA
* * * *
314031 ATGGTGAAAAATTGGTGTTTGGGAAATAAAATTAGGGTTGGAGTATCCCCTTGAAAATAACAGGG
1 ATGGTGAAAAATTGGTATTTGAGAAATAAAATCAGAGTTGGAGTATCCCCTTGAAAATAACAGGG
314096 TTGGAGTATCCC
66 TTGGAGTATCCC
314108 CTCAAAAATA
Statistics
Matches: 178, Mismatches: 47, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
78 6 0.03
79 112 0.63
80 59 0.33
81 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
ATGGTGAAAAATTGGTATTTGAGAAATAAAATCAGAGTTGGAGTATCCCCTTGAAAATAACAGGG
TTGGAGTATCCCAA
Found at i:314097 original size:28 final size:28
Alignment explanation
Indices: 314064--314135 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
314054 AAATAAAATT
**
314064 AGGGTTGGAGTATCCCCTTGAAAATAAC
1 AGGGTTGGAGTATCCCCTCAAAAATAAC
*
314092 AGGGTTGGAGTATCCCCTCAAAAATAAT
1 AGGGTTGGAGTATCCCCTCAAAAATAAC
*
314120 AAGGTTGGAGTATCCC
1 AGGGTTGGAGTATCCC
314136 TGATTGTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (28 bp):
AGGGTTGGAGTATCCCCTCAAAAATAAC
Found at i:314117 original size:107 final size:107
Alignment explanation
Indices: 313988--314213 Score: 292
Period size: 107 Copynumber: 2.1 Consensus size: 107
313978 AAAAACTCAA
* * * * **
313988 GTTGGAGTATCCCTTTAGAAATAACGAGGTTGGAGTATCCCAAATGGTGAAAAATTGGTGTTTGG
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCAAATGGTGAAAAATCAGTGTTTGG
* * *
314053 GAAATAAAATTAGGGTTGGAGTATCCCCTT-GAAAATAACAGG
66 AAAATAAAACTAGGGTTGGAGTATCCCCTTAG-AAAGAACAGG
* ** * *
314095 GTTGGAGTATCCCCTCAAAAATAATAAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTGTTTTG
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCAAATGGTGAAAAATCAGTGTTTGG
* *
314160 AAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAAGAACGGG
66 AAAATAAAACTAGGGTTGGAGTATCCCCTTAGAAAGAACAGG
314202 GTTGGAGTATCC
1 GTTGGAGTATCC
314214 TCGATTATGG
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 101 0.99
108 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (107 bp):
GTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCAAATGGTGAAAAATCAGTGTTTGG
AAAATAAAACTAGGGTTGGAGTATCCCCTTAGAAAGAACAGG
Found at i:314176 original size:79 final size:78
Alignment explanation
Indices: 314093--314433 Score: 323
Period size: 79 Copynumber: 4.3 Consensus size: 78
314083 GAAAATAACA
* * *
314093 GGGTTGGAGTATCCCCTCAAAAATAATAAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTAT-CCTGATTGTGAAAAATCAGTGCTT
314158 TGAAAATAAAACTG
65 TGAAAATAAAACTG
* * * * * *
314172 GGGTTGGAGTATCCCCTTAGAAAGAACGGGGTTGGAGTATCCTCGATTATGGAAAATC-GATGCT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCT-GATTGTGAAAAATCAG-TGCT
* **
314236 TT-AGAAATAAAGCCA
64 TTGA-AAATAAAACTG
* * * * * *
314251 AGGTTGGAGCATCCCTTCAAAAATAACATGGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTAT-CCTGATTGTGAAAAATCAGTGCTT
*
314315 TCAAAAATAAAAACTG
65 T-GAAAAT-AAAACTG
* * * * * * * **
314331 AGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAGAGTATCCTGATGGTAAAAAATTGGTGCTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTGATTGTGAAAAATCAGTGCTTT
314396 GAAAATAAAACT-
66 GAAAATAAAACTG
*
314408 GGG-TGCAGTATCCCCTCAAAAATAAC
1 GGGTTGGAGTATCCCCTCAAAAATAAC
314434 GAGGTTAGAA
Statistics
Matches: 212, Mismatches: 41, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
76 20 0.09
77 2 0.01
78 14 0.07
79 130 0.61
80 46 0.22
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTGATTGTGAAAAATCAGTGCTTT
GAAAATAAAACTG
Found at i:314338 original size:266 final size:266
Alignment explanation
Indices: 313828--314372 Score: 629
Period size: 266 Copynumber: 2.0 Consensus size: 266
313818 ATAAAATCGA
** * * * *
313828 GGTTGGAGTATTTCCTTAAAAATAACGAGGTTAGAGTATCTTCGATTGTGAAAAATTAATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTCGATTGTGAAAAATCAATGTTTT
* * * *
313893 AGAAATAATACCGGGGTTAGAGCATCCCCTCGAAAATAATGGGGTTGAAGTATCCCCGATTATGG
66 AGAAATAAAACCGGGGTTAGAGCATCCCCTAGAAAAGAACGGGGTTGAAGTATCCCCGATTATGG
* * * * * * *
313958 AATATTGGTATTTTAGAAATAAAAACTCAAGTTGGAGTATCCCTTTAGAAATAACGAGGTTGGAG
131 AAAATCGATACTTTAGAAATAAAAACTCAAGTTGGAGCATCCCTTCAAAAATAACGAGGTTGGAG
* *** *
314023 TATCCCAAATGGTGAAAAATTGGTGTTTGGGAAATAAAATTAGGGTTGGAGTATCCCCTT-GAAA
196 TATCCCAAATGGTGAAAAATTAGTGTTTCAAAAATAAAATGAGGGTTGGAGTAT-CCCTTCGAAA
314087 ATAACAG
260 ATAACAG
* * *
314094 GGTTGGAGTATCCCCTCAAAAATAATAAGGTTGGAGTATCC-CTGATTGTGAAAAATCAGTGTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTC-GATTGTGAAAAATCAATGTTT
* * * * *
314158 T-GAAAATAAAACTGGGGTTGGAGTATCCCCTTAG-AAAGAACGGGGTTGGAGTATCCTCGATTA
65 TAG-AAATAAAACCGGGGTTAGAGCATCCCC-TAGAAAAGAACGGGGTTGAAGTATCCCCGATTA
* *
314221 TGGAAAATCGATGCTTTAGAAAT-AAAGC-CAAGGTTGGAGCATCCCTTCAAAAATAAC-ATGGT
128 TGGAAAATCGATACTTTAGAAATAAAAACTCAA-GTTGGAGCATCCCTTCAAAAATAACGA-GGT
** *
314283 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTCAAAAATAAAAACTGA-GGTTGGAGTATCCCT
191 TGGAGTATCCCAAATGGTGAAAAATTAGTGTTTCAAAAAT-AAAA-TGAGGGTTGGAGTATCCCT
*
314347 TCGAAAATAACGG
254 TCGAAAATAACAG
*
314360 GGTTAGAGTATCC
1 GGTTGGAGTATCC
314373 TGATGGTAAA
Statistics
Matches: 234, Mismatches: 37, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
264 4 0.02
265 69 0.29
266 157 0.67
267 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (266 bp):
GGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTCGATTGTGAAAAATCAATGTTTT
AGAAATAAAACCGGGGTTAGAGCATCCCCTAGAAAAGAACGGGGTTGAAGTATCCCCGATTATGG
AAAATCGATACTTTAGAAATAAAAACTCAAGTTGGAGCATCCCTTCAAAAATAACGAGGTTGGAG
TATCCCAAATGGTGAAAAATTAGTGTTTCAAAAATAAAATGAGGGTTGGAGTATCCCTTCGAAAA
TAACAG
Found at i:314386 original size:158 final size:158
Alignment explanation
Indices: 314094--314439 Score: 414
Period size: 158 Copynumber: 2.2 Consensus size: 158
314084 AAAATAACAG
* * * *
314094 GGTTGGAGTATCCCCTCAAAAATAATAAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTGTTTT
1 GGTTGGAGCATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTC
* * * * **
314159 GAAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAAGAACGGGGTTGGAGTATCCTCGATTATGG
66 AAAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAAGAACGGGGTTAGAGTATCCTCGATGATAA
314224 AAAATCGATGCTTT-AGAAATAAAGCCAA
131 AAAATCGATGCTTTGA-AAATAAAGCCAA
* * *
314252 GGTTGGAGCATCCCTTCAAAAATAACATGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTC
1 GGTTGGAGCATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTC
* * *
314317 AAAAATAAAAACTGAGGTTGGAGTAT-CCCTTCGAAAATAACGGGGTTAGAGTATCCT-GATGGT
66 AAAAAT-AAAACTGAGGTTGGAGTATCCCCTTAG-AAAGAACGGGGTTAGAGTATCCTCGATGAT
* * * *
314380 AAAAAATTGGTGCTTTGAAAATAAA-AC-T
129 AAAAAATCGATGCTTTGAAAATAAAGCCAA
* * * *
314408 GGGTGCAGTATCCCCTCAAAAATAACGAGGTT
1 GGTTGGAGCATCCCCTCAAAAATAACAAGGTT
314440 AGAATATTCT
Statistics
Matches: 159, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
156 26 0.16
157 1 0.01
158 92 0.58
159 40 0.25
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (158 bp):
GGTTGGAGCATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTC
AAAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAAGAACGGGGTTAGAGTATCCTCGATGATAA
AAAATCGATGCTTTGAAAATAAAGCCAA
Found at i:314534 original size:342 final size:338
Alignment explanation
Indices: 313810--314766 Score: 1007
Period size: 342 Copynumber: 2.8 Consensus size: 338
313800 AAAATCGATA
** * * * *
313810 TTTTGGAAATAAAA-TCGAGGTTGGAGTATTTCCTTAAAAATAACGAGGTTAGAGTATCTTCGAT
1 TTTTGGAAATAAAACT-GAGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCTCGAT
* * * * * *
313874 TGTGAAAAATTAATGTTTTAGAAATAATACCGGGGTTAGAGCATCCCCTCGAAAATAATGGGGTT
65 TGTGGAAAA-TCATG-TTTAGAAATAA-ACCGAGGTTGGAGCATCCCTTCGAAAATAACGGGGTT
* * * * *
313939 GAAGTATCCCCGATTATGGAATATTGGTATTTTAGAAATAAAAACTCAAGTTGGAGTATCCCTTT
127 GGAGTATCCCCGATTATGAAAAATT-GTGTTTCAGAAATAAAAACTCAAGTTGGAGTATCCC-TT
* * * ** * * *
314004 AGAAATAACGAGGTTGGAGTATCCCAAATGGTGAAAAATTGGTGTTTGGGAAATAAAATTAGGGT
190 AAAAATAACGGGGTTAGAGTAT-CCTGATGGTAAAAAATTGGTGTTT-GAAAATAAAACTAGGGT
* ** * * * *
314069 TGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCTCAAAAATAATAAGGTTGGAGTATC
253 TGCAGTATCCCCTCAAAAATAACAGGGTTAGAATATCCCCTCAAAAATAACAAGGTTAGAGTATC
314134 CCTGATTGTGAAAAATCAGTG
318 CCTGATTGTGAAAAATCAGTG
* * *
314155 TTTTGAAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAAGAACGGGGTTGGAGTATCCTCGATT
1 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCTCGATT
* * * **
314220 ATGGAAAATCGATGCTTTAGAAATAAAGCCAAGGTTGGAGCATCCCTTCAAAAATAACATGGTTG
66 GTGGAAAATC-ATG-TTTAGAAATAAA-CCGAGGTTGGAGCATCCCTTCGAAAATAACGGGGTTG
* * * * *
314285 GAGTATCCCCGATTGTGAAAAATTAGTGTTTCAAAAATAAAAACTGAGGTTGGAGTATCCCTTCG
128 GAGTATCCCCGATTATGAAAAATT-GTGTTTCAGAAATAAAAACTCAAGTTGGAGTATCCCTT-A
314350 AAAATAACGGGGTTAGAGTATCCTGATGGTAAAAAATTGGTGCTTTGAAAATAAAACT-GGG-TG
191 AAAATAACGGGGTTAGAGTATCCTGATGGTAAAAAATTGGTG-TTTGAAAATAAAACTAGGGTTG
* * * *
314413 CAGTATCCCCTCAAAAATAAC-GAGGTTAGAATATTCTCTCGAAAATAACAGGGTTAGAGTATCC
255 CAGTATCCCCTCAAAAATAACAG-GGTTAGAATATCCCCTCAAAAATAACAAGGTTAGAGTATCC
314477 CTGATTGTGAAAAATCAGTG
319 CTGATTGTGAAAAATCAGTG
* * *
314497 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAATAACAGGGTTGGTGTATCCTTGATT
1 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCTCGATT
* * * * *
314562 GTGGAAAATCATTGTTCTGGAAATAAAACTGAGATTGAAGTATCCCCTT-GAAAATAACGGGGTT
66 GTGGAAAATCA-TGTT-TAGAAAT-AAACCGAGGTTGGAGCAT-CCCTTCGAAAATAACGGGGTT
* * * * *
314626 AGAGTATCCCCGATTATGAATAATTGATG-TTCTGGAAAT-AAAAC-CACGTTAGAGTATCCCCT
127 GGAGTATCCCCGATTATGAAAAATTG-TGTTTC-AGAAATAAAAACTCAAGTTGGAGTAT-CCCT
* * * *
314688 AAAAAATAA-TGGGTTAGAGTATCCTCGATGGTAGAAAATTGATGTTTTGAAAATAAAA-TCAGG
189 TAAAAATAACGGGGTTAGAGTATCCT-GATGGTAAAAAATTGGTG-TTTGAAAATAAAACT-AGG
* *
314751 GTTGGAATATCCCCTC
251 GTTGCAGTATCCCCTC
314767 GCAAATAATG
Statistics
Matches: 512, Mismatches: 83, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
339 16 0.03
340 46 0.09
341 20 0.04
342 211 0.41
343 11 0.02
344 32 0.06
345 175 0.34
346 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (338 bp):
TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCTCGATT
GTGGAAAATCATGTTTAGAAATAAACCGAGGTTGGAGCATCCCTTCGAAAATAACGGGGTTGGAG
TATCCCCGATTATGAAAAATTGTGTTTCAGAAATAAAAACTCAAGTTGGAGTATCCCTTAAAAAT
AACGGGGTTAGAGTATCCTGATGGTAAAAAATTGGTGTTTGAAAATAAAACTAGGGTTGCAGTAT
CCCCTCAAAAATAACAGGGTTAGAATATCCCCTCAAAAATAACAAGGTTAGAGTATCCCTGATTG
TGAAAAATCAGTG
Found at i:314570 original size:79 final size:80
Alignment explanation
Indices: 314453--314823 Score: 314
Period size: 79 Copynumber: 4.7 Consensus size: 80
314443 ATATTCTCTC
* * *
314453 GAAAATAACAGGGTTAGAGTATCCCTGATTGTGAAAAATCAGTGTTTTGGAAATAAAACTGAGGT
1 GAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACTCAGGT
314518 TGGAGTATCCCCTTA
66 TGGAGTATCCCCTTA
* * ** * * * *
314533 G-AAATAACAGGGTTGGTGTATCCTTGATTGTGGAAAATCATTGTTCTGGAAATAAAACTGAGAT
1 GAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACTCAGGT
*
314597 TGAAGTATCCCCTT-
66 TGGAGTATCCCCTTA
* * * * *
314611 GAAAATAACGGGGTTAGAGTATCCCCGATTAT-GAATAAT-TGATGTTCTGGAAATAAAAC-CAC
1 GAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAA-AATCAG-TGTTTTGGAAATAAAACTCAG
*
314673 GTTAGAGTATCCCC-TA
64 GTTGGAGTATCCCCTTA
* * * * * * *
314689 AAAAATAA-TGGGTTAGAGTATCCTCGATGGTAGAAAAT-TGATGTTTTGAAAATAAAA-TCAGG
1 GAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCAG-TGTTTTGGAAATAAAACTCA-G
* *
314751 GTTGGAATATCCCC-TC
64 GTTGGAGTATCCCCTTA
* ** * * * * *
314767 GCAAATAATGGGGTTGGAGTAT-CCGGATGGTGGAAAATCAGTATTTTAGAAATAAAA
1 GAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAA
314824 ACATGAATGA
Statistics
Matches: 239, Mismatches: 43, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
77 42 0.18
78 71 0.30
79 125 0.52
80 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (80 bp):
GAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACTCAGGT
TGGAGTATCCCCTTA
Found at i:314588 original size:184 final size:186
Alignment explanation
Indices: 314270--314628 Score: 449
Period size: 184 Copynumber: 1.9 Consensus size: 186
314260 CATCCCTTCA
* * *
314270 AAAATAACATGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTCAAAAATAAAAACTGAGGT
1 AAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTCAAAAATAAAAACTGAGGT
* * **
314335 TGGAGTATCCCTTCGAAAATAACGGGGTTAGAGTATCCTGATGGTAAAAAATTGGTGCTTTGAAA
66 TGGAGTATCCCTTAGAAAATAACAGGGTTAGAGTATCCTGATGGTAAAAAATCAGTGCTTTGAAA
*
314400 ATAAAACTG-G-GTGCAGTATCCCCTCAAAAATAACGAGGTTAGAATATTCTCTCG
131 ATAAAACTGAGAGTGAAGTATCCCCTCAAAAATAACGAGGTTAGAATATTCTCTCG
* ***
314454 AAAATAACAGGGTTAGAGTATCCCTGATTGTGAAAAATCAGTGTTTTGGAAAT-AAAACTGAGGT
1 AAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTCAAAAATAAAAACTGAGGT
* * * ** *
314518 TGGAGTATCCCCTTAG-AAATAACAGGGTTGGTGTATCCTTGATTGTGGAAAATCATTG-TTCTG
66 TGGAGTAT-CCCTTAGAAAATAACAGGGTTAGAGTATCC-TGATGGTAAAAAATCAGTGCTT-TG
* * ** *
314581 GAAATAAAACTGAGATTGAAGTATCCCCTTGAAAATAACGGGGTTAGA
128 AAAATAAAACTGAGAGTGAAGTATCCCCTCAAAAATAACGAGGTTAGA
314629 GTATCCCCGA
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
183 40 0.27
184 78 0.53
185 1 0.01
186 28 0.19
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (186 bp):
AAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTCAAAAATAAAAACTGAGGT
TGGAGTATCCCTTAGAAAATAACAGGGTTAGAGTATCCTGATGGTAAAAAATCAGTGCTTTGAAA
ATAAAACTGAGAGTGAAGTATCCCCTCAAAAATAACGAGGTTAGAATATTCTCTCG
Found at i:314773 original size:156 final size:157
Alignment explanation
Indices: 314434--314790 Score: 373
Period size: 156 Copynumber: 2.3 Consensus size: 157
314424 CAAAAATAAC
* * * * *
314434 GAGGTTAGAATATTCTCTCGAAAATAACAGGGTTAGAGTATCCCTGATTGTGAAAAATCAGTGTT
1 GAGGTT-GAATATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTGTT
* * * * * * * * * *
314499 TTGGAAATAAAACTGAGGTTGGAGTATCCCCTTAGAAATAACAGGGTTGGTGTATCCTTGATTGT
65 CTGGAAATAAAACTCACGTTAGAGTATCCCCTAAAAAATAACAGGGTTAGAGTATCCTCGATGGT
* * *
314564 GGAAAATCATTGTTCTGGAAATAAAACT
130 AGAAAATCATTGTTCTGAAAATAAAACA
* * * *
314592 GAGATTGAAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGATTATGAATAAT-TGATGT
1 GAGGTTGAA-TATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAG-TGT
*
314656 TCTGGAAATAAAAC-CACGTTAGAGTATCCCCTAAAAAATAA-TGGGTTAGAGTATCCTCGATGG
64 TCTGGAAATAAAACTCACGTTAGAGTATCCCCTAAAAAATAACAGGGTTAGAGTATCCTCGATGG
* *
314719 TAGAAAATTGA-TGTTTTGAAAATAAAATCA
129 TAGAAAA-TCATTGTTCTGAAAATAAAA-CA
* * *
314749 G-GGTTGGAATATCCCCTCGCAAATAATGGGGTTGGAGTATCC
1 GAGGTT-GAATATCCCCTCGAAAATAACGGGGTTAGAGTATCC
314791 GGATGGTGGA
Statistics
Matches: 164, Mismatches: 30, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
156 69 0.42
157 33 0.20
158 62 0.38
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (157 bp):
GAGGTTGAATATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTGTTC
TGGAAATAAAACTCACGTTAGAGTATCCCCTAAAAAATAACAGGGTTAGAGTATCCTCGATGGTA
GAAAATCATTGTTCTGAAAATAAAACA
Found at i:314796 original size:78 final size:77
Alignment explanation
Indices: 314602--314804 Score: 214
Period size: 78 Copynumber: 2.6 Consensus size: 77
314592 GAGATTGAAG
* * *
314602 TATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGAT--TATGAATAATTGATGTTCTGGAAAT
1 TATCCCCTAGAAAATAATGGGGTTAGAGTAT-CCCGATGGTA-GAA-AATTGATGTTCTGAAAAT
*
314665 AAAACCACGTTAGAG
63 AAAACCACGTTAGAA
* *
314680 TATCCCCTAAAAAATAAT-GGGTTAGAGTATCCTCGATGGTAGAAAATTGATGTTTTGAAAATAA
1 TATCCCCTAGAAAATAATGGGGTTAGAGTATCC-CGATGGTAGAAAATTGATGTTCTGAAAATAA
* * *
314744 AATCAGGGTTGGAA
65 AACCA-CGTTAGAA
* * * * *
314758 TATCCCCTCGCAAATAATGGGGTTGGAGTATCCGGATGGTGGAAAAT
1 TATCCCCTAGAAAATAATGGGGTTAGAGTATCCCGATGGTAGAAAAT
314805 CAGTATTTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
76 2 0.02
77 38 0.36
78 50 0.48
79 15 0.14
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (77 bp):
TATCCCCTAGAAAATAATGGGGTTAGAGTATCCCGATGGTAGAAAATTGATGTTCTGAAAATAAA
ACCACGTTAGAA
Found at i:315941 original size:20 final size:19
Alignment explanation
Indices: 315893--315949 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
315883 TTTGTATTAT
*
315893 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
315912 TCACTGTATCGATACATGG
1 ACATTGTATCGATACATGG
315931 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
315950 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:315996 original size:13 final size:13
Alignment explanation
Indices: 315978--316037 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
315968 CTACCACTGT
315978 TTGTATCGATACA
1 TTGTATCGATACA
*
315991 TTGTATCTATACA
1 TTGTATCGATACA
316004 -TG----G-TACA
1 TTGTATCGATACA
*
316011 ATGTATCGATACA
1 TTGTATCGATACA
316024 TTGTATCGATACA
1 TTGTATCGATACA
316037 T
1 T
316038 GATGGAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
7 4 0.11
8 2 0.05
12 3 0.08
13 29 0.76
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:316015 original size:20 final size:20
Alignment explanation
Indices: 315987--316024 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
315977 TTTGTATCGA
* *
315987 TACATTGTATCTATACATGG
1 TACAATGTATCGATACATGG
316007 TACAATGTATCGATACAT
1 TACAATGTATCGATACAT
316025 TGTATCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
TACAATGTATCGATACATGG
Found at i:316021 original size:33 final size:34
Alignment explanation
Indices: 315978--316059 Score: 121
Period size: 33 Copynumber: 2.4 Consensus size: 34
315968 CTACCACTGT
* *
315978 TTGTATCGATACATTGTATCTATACATGGTACAA
1 TTGTATCGATACATTGTATCGATACATGATACAA
**
316012 -TGTATCGATACATTGTATCGATACATGATGGAA
1 TTGTATCGATACATTGTATCGATACATGATACAA
316045 TTGTATCGATACATT
1 TTGTATCGATACATT
316060 TCTTGTAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 29 0.67
34 14 0.33
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (34 bp):
TTGTATCGATACATTGTATCGATACATGATACAA
Found at i:322230 original size:13 final size:13
Alignment explanation
Indices: 322212--322238 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
322202 ACAACATTCC
322212 TTGTATCGATACA
1 TTGTATCGATACA
322225 TTGTATCGATACA
1 TTGTATCGATACA
322238 T
1 T
322239 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:324147 original size:22 final size:22
Alignment explanation
Indices: 324122--324226 Score: 72
Period size: 22 Copynumber: 5.2 Consensus size: 22
324112 AATAAATTTT
324122 TTAAGAAGGAGAAATGCTTTGA
1 TTAAGAAGGAGAAATGCTTTGA
*
324144 TTAAGGAA--ATAAAT--TTT--
1 TTAA-GAAGGAGAAATGCTTTGA
*
324161 TTAAGAAGGAAAAATGCTTTGA
1 TTAAGAAGGAGAAATGCTTTGA
* *
324183 TTAAGGAA--ATAAAT--ATT--
1 TTAA-GAAGGAGAAATGCTTTGA
324200 TTAAGAAGGAGAAATGCTTTGA
1 TTAAGAAGGAGAAATGCTTTGA
324222 TTAAG
1 TTAAG
324227 GGGGAGATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 28
0.65 0.06 0.29
Matches are distributed among these distances:
16 6 0.10
17 8 0.13
18 10 0.16
19 5 0.08
20 5 0.08
21 10 0.16
22 13 0.21
23 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (22 bp):
TTAAGAAGGAGAAATGCTTTGA
Found at i:324154 original size:39 final size:39
Alignment explanation
Indices: 324111--324227 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
324101 TATTATAAAT
324111 AAATAAATTTTTTAAGAAGGAGAAATGCTTTGATTAAGG
1 AAATAAATTTTTTAAGAAGGAGAAATGCTTTGATTAAGG
*
324150 AAATAAATTTTTTAAGAAGGAAAAATGCTTTGATTAAGG
1 AAATAAATTTTTTAAGAAGGAGAAATGCTTTGATTAAGG
*
324189 AAATAAATATTTTAAGAAGGAGAAATGCTTTGATTAAGG
1 AAATAAATTTTTTAAGAAGGAGAAATGCTTTGATTAAGG
324228 GGGAGATATT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (39 bp):
AAATAAATTTTTTAAGAAGGAGAAATGCTTTGATTAAGG
Found at i:324190 original size:19 final size:19
Alignment explanation
Indices: 324127--324227 Score: 62
Period size: 19 Copynumber: 5.2 Consensus size: 19
324117 ATTTTTTAAG
*
324127 AAGGAGAAATGCTTTGATT
1 AAGGAAAAATGCTTTGATT
* * **
324146 AAGGAAATAAAT-TTTTTAAG
1 AAGG-AA-AAATGCTTTGATT
324166 AAGGAAAAATGCTTTGATT
1 AAGGAAAAATGCTTTGATT
* * **
324185 AAGGAAATAAAT-ATTTTAAG
1 AAGG-AA-AAATGCTTTGATT
*
324205 AAGGAGAAATGCTTTGATT
1 AAGGAAAAATGCTTTGATT
324224 AAGG
1 AAGG
324228 GGGAGATATT
Statistics
Matches: 58, Mismatches: 18, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
18 8 0.14
19 23 0.40
20 19 0.33
21 8 0.14
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.31
Consensus pattern (19 bp):
AAGGAAAAATGCTTTGATT
Found at i:324832 original size:13 final size:13
Alignment explanation
Indices: 324814--324840 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
324804 ACATTATGCT
324814 TTGTATCGATACA
1 TTGTATCGATACA
324827 TTGTATCGATACA
1 TTGTATCGATACA
324840 T
1 T
324841 GGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:324851 original size:20 final size:21
Alignment explanation
Indices: 324821--324865 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
324811 GCTTTGTATC
324821 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
324842 GATA-ATTGTATCGATACAT-
1 GATACATTGTATCGATACATG
324861 GATAC
1 GATAC
324866 TGGCAGTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.17
20 15 0.65
21 4 0.17
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:324916 original size:20 final size:20
Alignment explanation
Indices: 324891--324928 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
324881 TACCACTGTT
324891 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
324911 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
324929 CGATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:324927 original size:13 final size:13
Alignment explanation
Indices: 324911--324936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
324901 CATGGTATAA
324911 TGTATCGATACAT
1 TGTATCGATACAT
324924 TGTATCGATACAT
1 TGTATCGATACAT
324937 GATAGAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:324927 original size:33 final size:34
Alignment explanation
Indices: 324890--324958 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 34
324880 CTACCACTGT
* *
324890 TTGTATCGATACATGGTATAA-TGTATCGATACA
1 TTGTATCGATACATGATAGAATTGTATCGATACA
324923 TTGTATCGATACATGATAGAATTGTATCGATACA
1 TTGTATCGATACATGATAGAATTGTATCGATACA
324957 TT
1 TT
324959 ACTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 19 0.58
34 14 0.42
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (34 bp):
TTGTATCGATACATGATAGAATTGTATCGATACA
Found at i:327274 original size:20 final size:20
Alignment explanation
Indices: 327249--327290 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
327239 TCGAAATGGT
327249 CAATGAAGAATGTATCGATA
1 CAATGAAGAATGTATCGATA
* *
327269 CAATGAATAATGTATTGATA
1 CAATGAAGAATGTATCGATA
327289 CA
1 CA
327291 TCTGGGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
CAATGAAGAATGTATCGATA
Found at i:328209 original size:122 final size:121
Alignment explanation
Indices: 328034--328275 Score: 297
Period size: 122 Copynumber: 2.0 Consensus size: 121
328024 AATGAAGAAG
* ** * *
328034 AGTATGTCCTCCTTTTCGGGGATAAAGGAAAAAAAGAAATGAAGTGCAACCTACTTTTTGAGGAC
1 AGTATGTCCTCCTCTTCAAGGACAAAGGAAAAAAAGAAATGAAGTGC-ACCTACTCTTTGAGGAC
* * * * *
328099 AAAGGAAAATAAGAAAATAAATTGTATCCTGCTCTTTAAGGATAAAGGAGAAAAAAT
65 AAAAGAAAAGAAGAAAATAAAGTGCATCCTGCTCTTTAAGGACAAAGGAGAAAAAAT
* * *
328156 AGTATGTCTTCCTCTTCAAGGACAAAGGAAAAAAGGTAATGAAGCGTGC-CCTACTCTTTGAGGA
1 AGTATGTCCTCCTCTTCAAGGACAAAGGAAAAAAAGAAATGAA--GTGCACCTACTCTTTGAGGA
* * * *
328220 CAAAAGAAAAGAAGGAAATAAAGTGCGTCCTGTTCTTTGAGGACAAAGGAGAAAAA
64 CAAAAGAAAAGAAGAAAATAAAGTGCATCCTGCTCTTTAAGGACAAAGGAGAAAAA
328276 GGAATAAAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
122 97 0.96
124 4 0.04
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (121 bp):
AGTATGTCCTCCTCTTCAAGGACAAAGGAAAAAAAGAAATGAAGTGCACCTACTCTTTGAGGACA
AAAGAAAAGAAGAAAATAAAGTGCATCCTGCTCTTTAAGGACAAAGGAGAAAAAAT
Found at i:328342 original size:44 final size:44
Alignment explanation
Indices: 328174--328476 Score: 272
Period size: 44 Copynumber: 7.1 Consensus size: 44
328164 TTCCTCTTCA
* ** * *
328174 AGGACAAA-GGAAAA-AAGGTAATGAAGCGTGCCCTACTCTTTG
1 AGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
* * *
328216 AGGACAAA-AGAAAAGAAGGAAAT-AAAGTGCGTCCTGTTCTTTG
1 AGGACAAAGGGAAAAGAAGGAAATGAAA-TGTGTCCTGCTCTTTG
* * *
328259 AGGACAAA-GGAGAAA-AAGG-AATAAAATGTGTCCTACTCTTTA
1 AGGACAAAGGGA-AAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
* *
328301 AAGACAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTG
1 AGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
* * * *
328345 AAGACAAAGGGAAAAGAAGGAAATAAAATGTGTGCTGCTCCTTG
1 AGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
* * * * *
328389 AGGAAAAAGGGAAAAGAAAGAAATGAAATATG-CGTTGCTTTTTG
1 AGGACAAAGGGAAAAGAAGGAAATGAAATGTGTC-CTGCTCTTTG
* *
328433 AGGACAAAGGGCAAAGAA-G--A--AAATGAGTCCTGCTCTTTG
1 AGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
328472 AGGAC
1 AGGAC
328477 TAAAATGCGC
Statistics
Matches: 215, Mismatches: 37, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
39 18 0.08
40 1 0.00
41 1 0.00
42 40 0.19
43 43 0.20
44 112 0.52
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (44 bp):
AGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
Found at i:328727 original size:62 final size:62
Alignment explanation
Indices: 328449--329140 Score: 672
Period size: 62 Copynumber: 11.1 Consensus size: 62
328439 AAGGGCAAAG
* * * * *
328449 AAGAAAATGA-GTCCTGCTCTTTGAGGACTAAAATGCGCCACCAACTTGTGAGGGCTTT-AA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
*
328509 AAGGAAAAAGGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTCGTGTGGGCTTT-
1 AA-GAAAAA-G--A-TGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG
328573 -A
61 AA
* * * **
328574 AA-AAAAAGATGGCCTGCTCTTTGAGGACTAAAAGGTGCTAGCAGTTCGTGTGGGCTTT-AA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
*** * * * *
328634 AAGAAAAAGGCATCCTGCTCTTTGAGGACTAAATGATGCCACCAACTCATATGGGCTTTGAA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * * *
328696 AAGAAAAAGATGTCCTACTCTTTGAAGACTAAAGGGTGCCACCAACTTGTATGGGCTTTGAA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
*** * * * *
328758 AAGAAAAAGGCATCATGCTCTTTGAGGACT-AAAGGTTGCCACCAATTCATGTGGGCTTTAAA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGG-TGCCACCAACTCGTGTGGGCTTTGAA
* * * * * * *
328820 AACAAAAAGGTGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTCGTATGAGCTTTAAA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * **
328882 AAGGAAAAAG-TGACCTGCTTTTTGAGGACTAAAAAGGTGCCACCAGCTTATGTGGGCTTTGAA
1 AA-GAAAAAGATGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * * *
328945 AAGGAAAA-ATG-CCTTACTCTTTGAGGACTAAAAAGCTGCCACC-ACCCTATGTGGGCTTTGAA
1 AAGAAAAAGATGTCC-TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTC-GTGTGGGCTTTGAA
* * * *
329007 AAGAAAAAG-TGTCCTGCTCTTTAAGGACTAAAAAGGTGCCACCACCTTGTGTGGACTTTGAA
1 AAGAAAAAGATGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
329069 AAGAAAAA-AGTGTCCTACTCTTTAAGGACTAGAAGGGTGCCACCAACTCGTGTAGGCTTTGAA
1 AAGAAAAAGA-TGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTTGAA
329132 AAGAAAAAG
1 AAGAAAAAG
329141 GCTTTGAAGG
Statistics
Matches: 525, Mismatches: 84, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
59 45 0.09
60 6 0.01
61 56 0.11
62 273 0.52
63 98 0.19
64 1 0.00
65 3 0.01
66 43 0.08
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (62 bp):
AAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
Found at i:330112 original size:6 final size:6
Alignment explanation
Indices: 330101--330130 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
330091 CACCAAGGTC
*
330101 TTTTGT TTTTGT TTTTGT TTTTTT TTTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
330131 AGAAGAGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTGT
Found at i:330381 original size:10 final size:10
Alignment explanation
Indices: 330356--330416 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
330346 ATTCTTTTTG
*
330356 TTTTTTTCCT
1 TTTTTTTCAT
*
330366 TGTTTTTTGAT
1 T-TTTTTTCAT
330377 TTTTTTTCAT
1 TTTTTTTCAT
330387 TTTTTTGCTCAT
1 TTTTTT--TCAT
* *
330399 GTGTTTCTCAT
1 -TTTTTTTCAT
330410 TTTTTTT
1 TTTTTTT
330417 GCTTTTACCC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
10 20 0.50
11 12 0.30
12 4 0.10
13 4 0.10
ACGTcount: A:0.07, C:0.11, G:0.08, T:0.74
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:330390 original size:19 final size:18
Alignment explanation
Indices: 330337--330393 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
330327 TCTTGTTCTC
*
330337 TTTTTATTCATTCTTTTTG
1 TTTTTTTTCATT-TTTTTG
* *
330356 TTTTTTTCCTTGTTTTTTG
1 TTTTTTTTCAT-TTTTTTG
330375 ATTTTTTTTCATTTTTTTG
1 -TTTTTTTTCATTTTTTTG
330394 CTCATGTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTTTTTTCATTTTTTTG
Found at i:334465 original size:69 final size:70
Alignment explanation
Indices: 334383--334536 Score: 229
Period size: 69 Copynumber: 2.2 Consensus size: 70
334373 AAAAATGCCT
* *
334383 GAATGTATCGATACATTGAGAAATGTATGGATACATCGGGGTAA-AACCAGAATGTATCGATGCA
1 GAATGTATCGATACATTGAGAAATGTATGGATACATAGGGGTAATAACCAGAATGTATCGATACA
*
334447 ATGAA
66 ATAAA
* * * * *
334452 TAATGTATTGATACATTGAGAAATGTATTGATACATATGGGTAATACCCAGAATGTATCGATACA
1 GAATGTATCGATACATTGAGAAATGTATGGATACATAGGGGTAATAACCAGAATGTATCGATACA
334517 ATAAA
66 ATAAA
334522 GAATGTATCGATACA
1 GAATGTATCGATACA
334537 AATTGTGAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 39 0.53
70 35 0.47
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (70 bp):
GAATGTATCGATACATTGAGAAATGTATGGATACATAGGGGTAATAACCAGAATGTATCGATACA
ATAAA
Found at i:335409 original size:155 final size:154
Alignment explanation
Indices: 335240--335524 Score: 356
Period size: 155 Copynumber: 1.8 Consensus size: 154
335230 TGTTATGTTA
* * * * * **
335240 AAGGTATCCTTTAGGAGCATTTTTGTAATTTTTTAGAATCGAGTCCTAGGTTGTCACTAGGTCTG
1 AAGGTATCCTTTAGGAGCATTTTTGTAATTTTTCAGAACCAAGTCCTAAGTTGTCACCAGGTCCA
* * * *
335305 TTTTTATGCCAAAGATGGGTATTTAGGATAGGTTCATCCCATATATAATCCTTTTTGAGTCCTTT
66 CTTTTATGCCAAAGATAGGTATTTAGGATAGGTCCAT-CCATATATAATCCTTTTTAAGTCCTTT
335370 AGAGGTATTGGGCGCTTCTAAATTG
130 AGAGGTATTGGGCGCTTCTAAATTG
* * *
335395 AAGGTAT-CTCTTAGGGGCATTTTTGTAATTTTTCATAACCAAGTCTTAAGTTGTCACCAGGTCC
1 AAGGTATCCT-TTAGGAGCATTTTTGTAATTTTTCAGAACCAAGTCCTAAGTTGTCACCAGGTCC
*** * * * *
335459 ACTTTTATGTTGAATATAGGTATTTAGGATAGGTCCATCCATCTATAATCTTTTTTAAGTCTTTT
65 ACTTTTATGCCAAAGATAGGTATTTAGGATAGGTCCATCCATATATAATCCTTTTTAAGTCCTTT
335524 A
130 A
335525 AGGATACGGA
Statistics
Matches: 108, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
154 26 0.24
155 82 0.76
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (154 bp):
AAGGTATCCTTTAGGAGCATTTTTGTAATTTTTCAGAACCAAGTCCTAAGTTGTCACCAGGTCCA
CTTTTATGCCAAAGATAGGTATTTAGGATAGGTCCATCCATATATAATCCTTTTTAAGTCCTTTA
GAGGTATTGGGCGCTTCTAAATTG
Found at i:338394 original size:13 final size:13
Alignment explanation
Indices: 338376--338400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
338366 ATTTTGCTTA
338376 GTATCGATACATT
1 GTATCGATACATT
338389 GTATCGATACAT
1 GTATCGATACAT
338401 AAACTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:338591 original size:13 final size:13
Alignment explanation
Indices: 338573--338597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
338563 TCACTATTCA
338573 TGTATCGATACAG
1 TGTATCGATACAG
338586 TGTATCGATACA
1 TGTATCGATACA
338598 TTATGAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:341805 original size:21 final size:21
Alignment explanation
Indices: 341781--341838 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
341771 AATATTCTTG
* *
341781 AAAAGAAATTAAGTGAATTAA
1 AAAAGAAAATAAATGAATTAA
341802 AAAAGAAAATAAATGAATTAA
1 AAAAGAAAATAAATGAATTAA
** *
341823 AGGAGAAAAGAAATGA
1 AAAAGAAAATAAATGA
341839 GTTTCAAGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAAGAAAATAAATGAATTAA
Found at i:345233 original size:13 final size:13
Alignment explanation
Indices: 345215--345239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
345205 ATTTTGCTTA
345215 GTATCGATACATT
1 GTATCGATACATT
345228 GTATCGATACAT
1 GTATCGATACAT
345240 AAACTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:347388 original size:20 final size:20
Alignment explanation
Indices: 347345--347396 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
347335 TAAGTGAAAT
* **
347345 GTATCGATACATGGGACATT
1 GTATCGATACATGGGAAAAA
*
347365 GTATCGATACATGGTAAAAA
1 GTATCGATACATGGGAAAAA
347385 GTATCGATACAT
1 GTATCGATACAT
347397 TGTGCCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGGGAAAAA
Found at i:351736 original size:18 final size:16
Alignment explanation
Indices: 351700--351743 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
351690 AAATAAATTT
351700 GAACTCGAAATCGACCC
1 GAACTCG-AATCGACCC
351717 GAACTCGAATCCGAACCC
1 GAACTCGAAT-CG-ACCC
351735 GAACTCGAA
1 GAACTCGAA
351744 CCCAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 9 0.36
18 13 0.52
ACGTcount: A:0.36, C:0.34, G:0.18, T:0.11
Consensus pattern (16 bp):
GAACTCGAATCGACCC
Found at i:351793 original size:16 final size:16
Alignment explanation
Indices: 351774--351829 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
351764 AATAAGTCCG
*
351774 AACCTGAAAAAGCTCA
1 AACCCGAAAAAGCTCA
* * *
351790 AACCCGAATAAGTTCG
1 AACCCGAAAAAGCTCA
*
351806 AACCCAAAAAAGCTCA
1 AACCCGAAAAAGCTCA
*
351822 AACTCGAA
1 AACCCGAA
351830 TAAATCCAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.12
Consensus pattern (16 bp):
AACCCGAAAAAGCTCA
Found at i:351799 original size:32 final size:32
Alignment explanation
Indices: 351740--351832 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
351730 AACCCGAACT
* * *
351740 CGAACCCAAATAAACCT-GAACCTGAATAAGTC
1 CGAACCCAAA-AAAGCTCAAACCCGAATAAGTC
** *
351772 CGAACCTGAAAAAGCTCAAACCCGAATAAGTT
1 CGAACCCAAAAAAGCTCAAACCCGAATAAGTC
*
351804 CGAACCCAAAAAAGCTCAAACTCGAATAA
1 CGAACCCAAAAAAGCTCAAACCCGAATAA
351833 ATCCAAATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 5 0.10
32 46 0.90
ACGTcount: A:0.46, C:0.27, G:0.13, T:0.14
Consensus pattern (32 bp):
CGAACCCAAAAAAGCTCAAACCCGAATAAGTC
Found at i:352533 original size:2 final size:2
Alignment explanation
Indices: 352520--352552 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
352510 GAGAAAGGTT
*
352520 AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
352553 TGAAAATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:352911 original size:16 final size:17
Alignment explanation
Indices: 352879--352934 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
352869 TGTTAAAAAT
352879 AAATATTATATATTTAA
1 AAATATTATATATTTAA
352896 AAATA-TATA-ATATTAA
1 AAATATTATATAT-TTAA
* * *
352912 ATATATTCT-TATTTTA
1 AAATATTATATATTTAA
352928 AAATATT
1 AAATATT
352935 TAAATATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 2 0.06
16 21 0.66
17 9 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATATTATATATTTAA
Found at i:352931 original size:32 final size:34
Alignment explanation
Indices: 352889--352986 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 34
352879 AAATATTATA
352889 TATTTAAAAATATATAATATTAAATA-T-ATTCT
1 TATTTAAAAATATATAATATTAAATATTAATTCT
* * *
352921 TATTTTAAAATATTTAA-ATATAATATATTAAATTTT
1 TATTTAAAAATATATAATAT-TAA-ATATT-AATTCT
*
352957 TATTTAAAAACATAT-ATATTAAATAATTAA
1 TATTTAAAAATATATAATATTAAAT-ATTAA
352987 AATTTTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
31 2 0.04
32 18 0.34
33 3 0.06
34 5 0.09
35 7 0.13
36 18 0.34
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (34 bp):
TATTTAAAAATATATAATATTAAATATTAATTCT
Found at i:352949 original size:31 final size:32
Alignment explanation
Indices: 352875--352950 Score: 72
Period size: 32 Copynumber: 2.5 Consensus size: 32
352865 ATGTTGTTAA
*
352875 AAATA-AATAT-T-ATATATTTAAAAATATAT
1 AAATATAATATATTATATATTTAAAAATATTT
* *
352904 -AATATTAAATATATTCT-TATTTTAAAATATTT
1 AAATA-T-AATATATTATATATTTAAAAATATTT
352936 AAATATAATATATTA
1 AAATATAATATATTA
352951 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
28 4 0.11
31 13 0.35
32 15 0.41
33 5 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
AAATATAATATATTATATATTTAAAAATATTT
Found at i:353641 original size:16 final size:16
Alignment explanation
Indices: 353622--353700 Score: 122
Period size: 16 Copynumber: 4.9 Consensus size: 16
353612 TTTTAAAATT
* *
353622 TTTAAATAATTTTTAA
1 TTTAAATTATTTTAAA
353638 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
353654 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
* *
353670 TTTAATTTACTTTAAA
1 TTTAAATTATTTTAAA
353686 TTTAAATTATTTTAA
1 TTTAAATTATTTTAA
353701 GTCCAAGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:354090 original size:72 final size:72
Alignment explanation
Indices: 354010--354295 Score: 287
Period size: 72 Copynumber: 4.0 Consensus size: 72
354000 TATAGTTTAA
* * * * *
354010 GTTTAAGGGAAATAGTACCACATTAAAGACTTAATTATGGAGTTGCACGCGTGAATA-GAGTCGT
1 GTTTAAGGGAGATAGTACCACGTTAAATACTTAATTATGGAGTTGCACGTGTGAATAGGA-TCAT
*
354074 TTAAGTAG
65 TTAAGTGG
* * *
354082 ATTTAAGGGAGATCA-TACGACGTTAAATACTTAATTATGGAATTGCA-GATGTGAATAGGATCA
1 GTTTAAGGGAGAT-AGTACCACGTTAAATACTTAATTATGGAGTTGCACG-TGTGAATAGGATCA
354145 TTTAAGTGG
64 TTTAAGTGG
* * * * * ** *
354154 GTTTAAGGGAGACAGTACCATGTTAAATTCTTAATCATTGAGTCACACGTGTGAATA-GAGTTAT
1 GTTTAAGGGAGATAGTACCACGTTAAATACTTAATTATGGAGTTGCACGTGTGAATAGGA-TCAT
354218 TTAAGTGG
65 TTAAGTGG
* * ** * *
354226 GTTTAAAGG-CATCTTACCACGTTAAATACTAAATTATGGAGTTGCACGTGTGAA-AGGATCGTT
1 GTTTAAGGGAGATAGTACCACGTTAAATACTTAATTATGGAGTTGCACGTGTGAATAGGATCATT
354289 TAAGTGG
66 TAAGTGG
354296 ATATGGCGAA
Statistics
Matches: 173, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
70 11 0.06
71 40 0.23
72 118 0.68
73 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (72 bp):
GTTTAAGGGAGATAGTACCACGTTAAATACTTAATTATGGAGTTGCACGTGTGAATAGGATCATT
TAAGTGG
Found at i:355351 original size:10 final size:9
Alignment explanation
Indices: 355308--355381 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
355298 TGATTTCCTC
355308 TTTTCTTTT
1 TTTTCTTTT
*
355317 TGTT-TTTT
1 TTTTCTTTT
* **
355325 TTTCCTAAT
1 TTTTCTTTT
*
355334 TTTACTTTT
1 TTTTCTTTT
355343 CTTTTCTTTT
1 -TTTTCTTTT
355353 TCTTTCTTTT
1 T-TTTCTTTT
*
355363 CTTTCTTTT
1 TTTTCTTTT
*
355372 TTTCCTTTT
1 TTTTCTTTT
355381 T
1 T
355382 CATTTTGTCT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
8 6 0.12
9 28 0.56
10 16 0.32
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.78
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:355358 original size:15 final size:15
Alignment explanation
Indices: 355340--355382 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
355330 TAATTTTACT
355340 TTTCTTTTCTTTTTC
1 TTTCTTTTCTTTTTC
355355 TTTCTTTTC--TTTC
1 TTTCTTTTCTTTTTC
355368 TTT-TTTTCCTTTTTC
1 TTTCTTTT-CTTTTTC
355383 ATTTTGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
15 13 0.52
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:355382 original size:24 final size:24
Alignment explanation
Indices: 355301--355387 Score: 69
Period size: 26 Copynumber: 3.7 Consensus size: 24
355291 TTTCAATTGA
*
355301 TTTCCTCTTTTCTTTT-TGTTTTTT
1 TTTCCTATTTTCTTTTCT-TTTTTT
*
355325 TTTCCTAATTTTACTTTTCTTTTCTT
1 TTTCCT-ATTTT-CTTTTCTTTTTTT
355351 TTT-C---TTTCTTTTCTTTCTTTT
1 TTTCCTATTTTCTTTTCTTT-TTTT
355372 TTTCCT-TTTTCATTTT
1 TTTCCTATTTTC-TTTT
355388 GTCTCTTTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
20 9 0.17
21 9 0.17
22 1 0.02
24 10 0.19
25 9 0.17
26 13 0.25
27 1 0.02
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTCCTATTTTCTTTTCTTTTTTT
Found at i:355643 original size:6 final size:7
Alignment explanation
Indices: 355623--355703 Score: 51
Period size: 8 Copynumber: 11.0 Consensus size: 7
355613 TTATAATAAA
355623 AATATTT
1 AATATTT
355630 AATATTT
1 AATATTT
355637 AAT-TTT
1 AATATTT
*
355643 AAAAATATT
1 -AATAT-TT
*
355652 AAAATATT
1 AATAT-TT
*
355660 AATATAT
1 AATATTT
355667 AATTATTTT
1 AA-TA-TTT
355676 AATATTAT
1 AATATT-T
355684 AA-ATTT
1 AATATTT
355690 CAATATTT
1 -AATATTT
355698 -ATATTT
1 AATATTT
355704 TGAATTTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
6 10 0.16
7 22 0.35
8 24 0.39
9 6 0.10
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (7 bp):
AATATTT
Found at i:355664 original size:30 final size:29
Alignment explanation
Indices: 355621--355704 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 29
355611 TATTATAATA
355621 AAAATATTTAATATTTAATTTTAAAAATATT
1 AAAATA-TTAATATTTAATTTT-AAAATATT
* **
355652 AAAATATTAATATATAATTATTTTAATATT
1 AAAATATTAATATTTAATT-TTAAAATATT
355682 ATAAAT-TTCAATATTTATATTTT
1 A-AAATATT-AATATTTA-ATTTT
355705 GAATTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 21 0.47
31 21 0.47
32 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
AAAATATTAATATTTAATTTTAAAATATT
Found at i:356572 original size:13 final size:13
Alignment explanation
Indices: 356554--356579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
356544 ACATTTTATG
356554 GTGTATCGATACA
1 GTGTATCGATACA
356567 GTGTATCGATACA
1 GTGTATCGATACA
356580 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Done.