Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8984705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 112788 characters in sequence are not A, C, G, or T
File 15 of 20
Found at i:5772166 original size:12 final size:10
Alignment explanation
Indices: 5772150--5772261 Score: 59
Period size: 11 Copynumber: 10.2 Consensus size: 10
5772140 AAGAGAGGGG
5772150 GAGGAAAAG-
1 GAGGAAAAGA
5772159 GAGGAGGAAAGA
1 GAGGA--AAAGA
5772171 GAAGGAAAAGAA
1 G-AGGAAAAG-A
*
5772183 GAGGAGAAG-
1 GAGGAAAAGA
5772192 GAAGGAAAAAGA
1 G-AGG-AAAAGA
5772204 GAGAGAAGAAGA
1 GAG-GAA-AAGA
5772216 GAGGAAAAGGAA
1 GAGGAAAA-G-A
5772228 GAAGAGAAAAGA
1 G-AG-GAAAAGA
*
5772240 GAAGGAAAGGA
1 G-AGGAAAAGA
*
5772251 -AAGAAAAGA
1 GAGGAAAAGA
5772260 GA
1 GA
5772262 AAGAAGGAGA
Statistics
Matches: 83, Mismatches: 5, Indels: 29
0.71 0.04 0.25
Matches are distributed among these distances:
9 13 0.16
10 6 0.07
11 33 0.40
12 19 0.23
13 7 0.08
14 5 0.06
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (10 bp):
GAGGAAAAGA
Found at i:5772166 original size:36 final size:36
Alignment explanation
Indices: 5772108--5772246 Score: 108
Period size: 36 Copynumber: 3.9 Consensus size: 36
5772098 AGGAGGAGAG
* * *
5772108 GAGGAGGAGGAAGAGGAAGAGGAGAGAGAGGGAAGA
1 GAGGAGGAGGAAAAGGAAGAGGAAAGAGAAGGAAGA
* * *
5772144 GAGGGGGAGGAAAAGGAGGAGGAAAGAGAAGGAAAA
1 GAGGAGGAGGAAAAGGAAGAGGAAAGAGAAGGAAGA
* * * *
5772180 GAAGAGGA-GAAGGAAGGAAAAAGAGAGAGAA-GAAGA
1 GAGGAGGAGGAA--AAGGAAGAGGAAAGAGAAGGAAGA
** *
5772216 GAGGAAAAGG--AA-GAAGAGAAAAGAGAAGGAA
1 GAGGAGGAGGAAAAGGAAGAGGAAAGAGAAGGAA
5772247 AGGAAAGAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
32 11 0.14
33 5 0.06
35 3 0.04
36 45 0.57
37 15 0.19
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (36 bp):
GAGGAGGAGGAAAAGGAAGAGGAAAGAGAAGGAAGA
Found at i:5772178 original size:22 final size:24
Alignment explanation
Indices: 5772151--5772262 Score: 102
Period size: 23 Copynumber: 5.0 Consensus size: 24
5772141 AGAGAGGGGG
*
5772151 AGGAAAAGGAG-GAGGA-AAGAGA
1 AGGAAAAGGAGAGAGAAGAAGAGA
*
5772173 AGGAAAA-GA-AGAGGAGAAG-GA
1 AGGAAAAGGAGAGAGAAGAAGAGA
*
5772194 AGGAAAAAGAGAGAGAAGAAGAG-
1 AGGAAAAGGAGAGAGAAGAAGAGA
5772217 AGGAAAAGGAAGAAGAGAA-AAGAGA
1 AGGAAAAGG-AG-AGAGAAGAAGAGA
5772242 AGG-AAAGGA-A-AGAA-AAGAGA
1 AGGAAAAGGAGAGAGAAGAAGAGA
5772262 A
1 A
5772263 AGAAGGAGAA
Statistics
Matches: 80, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
20 11 0.14
21 17 0.21
22 12 0.15
23 18 0.22
24 13 0.16
25 9 0.11
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (24 bp):
AGGAAAAGGAGAGAGAAGAAGAGA
Found at i:5772187 original size:33 final size:32
Alignment explanation
Indices: 5772150--5772247 Score: 92
Period size: 33 Copynumber: 2.9 Consensus size: 32
5772140 AAGAGAGGGG
5772150 GAGGAAAAGGAGGAGGAAAGAGAAGGAAAAGAA
1 GAGGAAAAGGAGGAGGAAAGAGAAGGAAAAG-A
* *
5772183 GAGGAGAAGGA--AGGAAAAAGAGAGAGAAGAAGA
1 GAGGAAAAGGAGGAGGAAAGAGA-AG-GAA-AAGA
*
5772216 GAGGAAAAGGAAGAAGAGAAAAGAGAAGGAAA
1 GAGGAAAAGG-AG--GAGGAAAGAGAAGGAAA
5772248 GGAAAGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 9 0.17
32 2 0.04
33 23 0.44
34 4 0.08
35 1 0.02
36 3 0.06
37 2 0.04
38 8 0.15
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (32 bp):
GAGGAAAAGGAGGAGGAAAGAGAAGGAAAAGA
Found at i:5772232 original size:29 final size:26
Alignment explanation
Indices: 5772187--5772267 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 26
5772177 AAAGAAGAGG
*
5772187 AGAAGG-AAGGAAAAAGAGAGAGAAGA
1 AGAAGGAAAGGAAGAAGAGAGA-AAGA
5772213 AGAGAGGAAAAGGAAGAAGAGA-AAAG-
1 AGA-AGG-AAAGGAAGAAGAGAGAAAGA
*
5772239 AGAAGGAAAGGAAAGAAAAGAGAAAGA
1 AGAAGGAAAGG-AAGAAGAGAGAAAGA
5772266 AG
1 AG
5772268 GAGAAGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
24 5 0.11
25 11 0.23
26 10 0.21
27 8 0.17
28 1 0.02
29 12 0.26
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (26 bp):
AGAAGGAAAGGAAGAAGAGAGAAAGA
Found at i:5772235 original size:45 final size:43
Alignment explanation
Indices: 5772151--5772235 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 43
5772141 AGAGAGGGGG
* * *
5772151 AGGAAAAGGAGGAGGAAAGAGAAGGAAAAGAAGAGGAGAAGGA
1 AGGAAAAAGAGGAGAAAAGAGAAGGAAAAGAAGAAGAGAAGGA
5772194 AGGAAAAAGAGAGAGAAGAAGAG-AGGAAAAGGAAGAAGAGAA
1 AGGAAAAAGAG-GAGAA-AAGAGAAGGAAAA-GAAGAAGAGAA
5772236 AAGAGAAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.28
44 11 0.31
45 15 0.42
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (43 bp):
AGGAAAAAGAGGAGAAAAGAGAAGGAAAAGAAGAAGAGAAGGA
Found at i:5785600 original size:4 final size:4
Alignment explanation
Indices: 5785578--5785623 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
5785568 CTCCCCCTTT
* * *
5785578 TCTC CCTC TCCC TCCC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TC
5785624 CACTAACTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (4 bp):
TCTC
Found at i:5785622 original size:10 final size:10
Alignment explanation
Indices: 5785578--5785623 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
5785568 CTCCCCCTTT
*
5785578 TCTCCCTCTC
1 TCTCTCTCTC
* *
5785588 CCTCCCTCTC
1 TCTCTCTCTC
5785598 TCTCTCTCTC
1 TCTCTCTCTC
5785608 TCTCTCTCTC
1 TCTCTCTCTC
5785618 TCTCTC
1 TCTCTC
5785624 CACTAACTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (10 bp):
TCTCTCTCTC
Found at i:5820409 original size:28 final size:28
Alignment explanation
Indices: 5820374--5820428 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
5820364 ATTTGAAATT
5820374 TTATTTATATTTGATGTAATGTATTTGC
1 TTATTTATATTTGATGTAATGTATTTGC
* *
5820402 TTATTTATTTTTGATGTAATTTATTTG
1 TTATTTATATTTGATGTAATGTATTTG
5820429 TTTGTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.62
Consensus pattern (28 bp):
TTATTTATATTTGATGTAATGTATTTGC
Found at i:5821212 original size:64 final size:64
Alignment explanation
Indices: 5821085--5821237 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 64
5821075 TGCAGCATTG
* * * * *
5821085 ATATAATATAGAAAAGTGATAATTGCAGAGAATATTATCGATGAGAAGAATTTTAGAGTGTTTT
1 ATATAATATAGAAAAATGATAATTGCAGAGAATATGATCGATGAAAAAAATTTTAGAGCGTTTT
* * *
5821149 GTATAATATAGAAAAATGATAATTGCAG-GAAATATGATGGGTGAAAAAAACTTTGTA-A-CGTT
1 ATATAATATAGAAAAATGATAATTGCAGAG-AATATGATCGATGAAAAAAA-TTT-TAGAGCGTT
5821211 TT
63 TT
* *
5821213 ATATATTATAGAAAAATGATGATTG
1 ATATAATATAGAAAAATGATAATTG
5821238 TATGTAATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 68 0.91
65 4 0.05
66 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (64 bp):
ATATAATATAGAAAAATGATAATTGCAGAGAATATGATCGATGAAAAAAATTTTAGAGCGTTTT
Found at i:5821545 original size:4 final size:4
Alignment explanation
Indices: 5821538--5821589 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
5821528 AATTAGTTGG
* * * *
5821538 TTAA TTAA TTTAA TTAA CTAA TTAA TTAG TTAA TTCA TTAA TGTAA CTAA
1 TTAA TTAA -TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T-TAA TTAA
5821588 TT
1 TT
5821590 TAAAATAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 31 0.82
5 7 0.18
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:5821560 original size:29 final size:29
Alignment explanation
Indices: 5821528--5821610 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
5821518 TTTATAAATA
* *
5821528 AATTAGTTGGTTAATTAATTTAAT-TAACT
1 AATTAATTAGTTAATTAA-TTAATGTAACT
*
5821557 AATTAATTAGTTAATTCATTAATGTAACT
1 AATTAATTAGTTAATTAATTAATGTAACT
* *
5821586 AATTTAAAATAGTTAATCAATTAAT
1 AA-TT-AATTAGTTAATTAATTAAT
5821611 ATTAATCACA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.11
29 22 0.49
30 2 0.04
31 16 0.36
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (29 bp):
AATTAATTAGTTAATTAATTAATGTAACT
Found at i:5822745 original size:15 final size:17
Alignment explanation
Indices: 5822716--5822748 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
5822706 TATTTTGTAT
5822716 TAACGTTATAGAAATTA
1 TAACGTTATAGAAATTA
5822733 TAACG-TATA-AAATTA
1 TAACGTTATAGAAATTA
5822748 T
1 T
5822749 TGTTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
TAACGTTATAGAAATTA
Found at i:5822940 original size:35 final size:35
Alignment explanation
Indices: 5822889--5822963 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
5822879 ACTTGTAATG
* *
5822889 TTTAAGTTGTAGTTTGATATATTT-GTTTTAAATTA
1 TTTAAGTTGTAGTTTGAGATATTTACTTTT-AATTA
5822924 TTTAAGTTGATA-TTTGAGATATTTACTTTTAATTA
1 TTTAAGTTG-TAGTTTGAGATATTTACTTTTAATTA
5822959 TTTAA
1 TTTAA
5822964 ATTTAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (35 bp):
TTTAAGTTGTAGTTTGAGATATTTACTTTTAATTA
Found at i:5829472 original size:4 final size:4
Alignment explanation
Indices: 5829463--5829507 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
5829453 GAGTATATCT
* *
5829463 ATTA ATTA ATGA ATTAA ATTA ATTA ATTA ACTA ATTA ATTTA ATT
1 ATTA ATTA ATTA ATT-A ATTA ATTA ATTA ATTA ATTA A-TTA ATT
5829508 CTTTAAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 27 0.77
5 8 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:5829513 original size:21 final size:21
Alignment explanation
Indices: 5829463--5829507 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
5829453 GAGTATATCT
5829463 ATTAATTAA-TGAATTAAATTA
1 ATTAATTAACT-AATTAAATTA
*
5829484 ATTAATTAACTAATTAATTTA
1 ATTAATTAACTAATTAAATTA
5829505 ATT
1 ATT
5829508 CTTTAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAATTAACTAATTAAATTA
Found at i:5829578 original size:15 final size:16
Alignment explanation
Indices: 5829537--5829591 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
5829527 TACTAAAAAT
*
5829537 AAATATTTAATAATTTC
1 AAATATTTAAT-ATATC
*
5829554 ACATATTTTAATATAT-
1 AAATA-TTTAATATATC
*
5829570 AAATATTTAGTAT-TC
1 AAATATTTAATATATC
5829585 AAATATT
1 AAATATT
5829592 ATGTTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.44
16 4 0.12
17 7 0.22
18 6 0.19
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATATTTAATATATC
Found at i:5864050 original size:14 final size:15
Alignment explanation
Indices: 5864014--5864043 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5864004 TTTCTAGTTG
5864014 AAGCAGTTCTGGAAA
1 AAGCAGTTCTGGAAA
5864029 AAGCAGTTCTGGAAA
1 AAGCAGTTCTGGAAA
5864044 GGCAGTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (15 bp):
AAGCAGTTCTGGAAA
Found at i:5882246 original size:3 final size:3
Alignment explanation
Indices: 5882238--5882262 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5882228 TATAATTAAT
5882238 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
5882263 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5894783 original size:153 final size:153
Alignment explanation
Indices: 5894572--5894856 Score: 453
Period size: 153 Copynumber: 1.9 Consensus size: 153
5894562 CTCGACATGG
** * * *
5894572 ATTTTCTTTTTTGAAAAGAAAGTTCGACATGAATTTAGGTAAGTTTGGAATATCACCTTTAGGAT
1 ATTTTCTTTTTTGAAAAGAAAACTCGACAGGAATTTAGGTAAGTTTGGAATATAACCTTTAAGAT
** *
5894637 ACCCTAAACCAGAACTTTATTATATATAATGTTACAAAAATTTTAGATTTTGTGAGATTGGAACC
66 ACCCTAAACCAGAACTCAATTATATATAATGTTACAAAAATTTTAGATATTGTGAGATTGGAACC
5894702 TTCGTCAACCTTATCTCAACACA
131 TTCGTCAACCTTATCTCAACACA
* *
5894725 ATTTTCTTTTTTGAAAAGAAAACTCGACAGGGATTTAGGTAAGTTTGGAGTATAACCTTTAAGAT
1 ATTTTCTTTTTTGAAAAGAAAACTCGACAGGAATTTAGGTAAGTTTGGAATATAACCTTTAAGAT
* * *
5894790 ACCTTAAACTAGAACTCAATTATATATAATGTTACAAAAATTTTAGATATTGTGAGATTTGAACC
66 ACCCTAAACCAGAACTCAATTATATATAATGTTACAAAAATTTTAGATATTGTGAGATTGGAACC
5894855 TT
131 TT
5894857 TATTAACCTT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
153 119 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (153 bp):
ATTTTCTTTTTTGAAAAGAAAACTCGACAGGAATTTAGGTAAGTTTGGAATATAACCTTTAAGAT
ACCCTAAACCAGAACTCAATTATATATAATGTTACAAAAATTTTAGATATTGTGAGATTGGAACC
TTCGTCAACCTTATCTCAACACA
Found at i:5894944 original size:35 final size:35
Alignment explanation
Indices: 5894898--5895074 Score: 138
Period size: 35 Copynumber: 5.1 Consensus size: 35
5894888 TCTCAAATTA
5894898 ATTTATATTAGTTTAACTATGATGTAAACTTAAAT
1 ATTTATATTAGTTTAACTATGATGTAAACTTAAAT
** *
5894933 ATTTATATTAGTTTAATCCTTACCATCTCAAA-TT--A-
1 ATTTATATTAGTTTAA--C-TATGATGT-AAACTTAAAT
*
5894968 ATTTATATTCA-TTTAACTATGATGCAAACTTAAAT
1 ATTTATATT-AGTTTAACTATGATGTAAACTTAAAT
* * *
5895003 ATTTATATTAGTTTAA-TCT--T-TACCATCTCAAATT
1 ATTTATATTAGTTTAACTATGATGTA--AACTTAAA-T
*
5895037 AATTTATATTAGTTTAACTATGATGCAAACTTAAAT
1 -ATTTATATTAGTTTAACTATGATGTAAACTTAAAT
5895073 AT
1 AT
5895075 GTAAAATTTT
Statistics
Matches: 109, Mismatches: 15, Indels: 36
0.68 0.09 0.22
Matches are distributed among these distances:
31 4 0.04
32 7 0.06
33 7 0.06
34 5 0.05
35 62 0.57
36 5 0.05
37 7 0.06
38 8 0.07
39 4 0.04
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (35 bp):
ATTTATATTAGTTTAACTATGATGTAAACTTAAAT
Found at i:5894960 original size:70 final size:70
Alignment explanation
Indices: 5894877--5895074 Score: 362
Period size: 70 Copynumber: 2.8 Consensus size: 70
5894867 ATGTTAACAG
*
5894877 AATCTTTACCATCTCAAATTAATTTATATTAGTTTAACTATGATGTAAACTTAAATATTTATATT
1 AATCTTTACCATCTCAAATTAATTTATATTAGTTTAACTATGATGCAAACTTAAATATTTATATT
5894942 AGTTT
66 AGTTT
*
5894947 AATCCTTACCATCTCAAATTAATTTATATTCA-TTTAACTATGATGCAAACTTAAATATTTATAT
1 AATCTTTACCATCTCAAATTAATTTATATT-AGTTTAACTATGATGCAAACTTAAATATTTATAT
5895011 TAGTTT
65 TAGTTT
5895017 AATCTTTACCATCTCAAATTAATTTATATTAGTTTAACTATGATGCAAACTTAAATAT
1 AATCTTTACCATCTCAAATTAATTTATATTAGTTTAACTATGATGCAAACTTAAATAT
5895075 GTAAAATTTT
Statistics
Matches: 123, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
69 1 0.01
70 121 0.98
71 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (70 bp):
AATCTTTACCATCTCAAATTAATTTATATTAGTTTAACTATGATGCAAACTTAAATATTTATATT
AGTTT
Found at i:5895287 original size:149 final size:149
Alignment explanation
Indices: 5895090--5895389 Score: 424
Period size: 149 Copynumber: 2.0 Consensus size: 149
5895080 ATTTTATTAC
* * * * *
5895090 TAGTGGGGATTGAACTCATAGGAGGATGAGAAACACTCTAAGTTTTTGCCTATTTTGCCAACTTA
1 TAGTAGGGATTGAACTCATAGGAGGATGAGAAACACTCCAAGTCTTTGCCAATATTGCCAACTTA
* * * **
5895155 AA-TAGGTATTTAATAGATTTGGATAATTAACAGATAGTTCTTTACT-ATTTGAATTCAATTTTG
66 AACT-GGTATTTAATAGATTTGGATAATTAACAGATACTTCTTCACTGCTAAG-ATTCAATTTTG
*
5895218 ATAGTGTTTTACAATTTTATG
129 ATAGTGTCTTACAATTTTATG
*
5895239 TAGTAGGGATTGAACTCATAGGAGGATGAGAAACACTCCAAGTCTTTGCCAATATTGCTAACTTA
1 TAGTAGGGATTGAACTCATAGGAGGATGAGAAACACTCCAAGTCTTTGCCAATATTGCCAACTTA
* **
5895304 AACTTGTATTTAATAGATTTGGATAATTAACAGATACTTCTTCACTGCTAAGATTCGGTTTTGAT
66 AACTGGTATTTAATAGATTTGGATAATTAACAGATACTTCTTCACTGCTAAGATTCAATTTTGAT
*
5895369 AGTGTCTTGCAATTTTATG
131 AGTGTCTTACAATTTTATG
5895388 TA
1 TA
5895390 AGTTTTAATG
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
149 130 0.98
150 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (149 bp):
TAGTAGGGATTGAACTCATAGGAGGATGAGAAACACTCCAAGTCTTTGCCAATATTGCCAACTTA
AACTGGTATTTAATAGATTTGGATAATTAACAGATACTTCTTCACTGCTAAGATTCAATTTTGAT
AGTGTCTTACAATTTTATG
Found at i:5907548 original size:2 final size:2
Alignment explanation
Indices: 5907541--5907567 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5907531 TGATAACAAC
5907541 AG 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 A
5907568 ATGGATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5916118 original size:6 final size:6
Alignment explanation
Indices: 5916107--5916131 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5916097 CAAGACTATA
5916107 AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT A
5916132 TTGTGACGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:5921510 original size:13 final size:13
Alignment explanation
Indices: 5921492--5921518 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5921482 CTAAGGAATT
5921492 GATGGAACCTTTA
1 GATGGAACCTTTA
5921505 GATGGAACCTTTA
1 GATGGAACCTTTA
5921518 G
1 G
5921519 GATCAATGAG
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:0.26, T:0.30
Consensus pattern (13 bp):
GATGGAACCTTTA
Found at i:5927670 original size:23 final size:23
Alignment explanation
Indices: 5927643--5927687 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5927633 AAGCATTTTA
5927643 GAGTGATTTTTGATACATGGAAG
1 GAGTGATTTTTGATACATGGAAG
*
5927666 GAGTGATTTTTTATACATGGAA
1 GAGTGATTTTTGATACATGGAA
5927688 AAAAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (23 bp):
GAGTGATTTTTGATACATGGAAG
Found at i:5927922 original size:22 final size:22
Alignment explanation
Indices: 5927866--5927922 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
5927856 GTAGTTTTAG
5927866 TAGTTTTTAGGCATTATGTAAC
1 TAGTTTTTAGGCATTATGTAAC
* * * *
5927888 CAG--TTTAGACATTATGTGAT
1 TAGTTTTTAGGCATTATGTAAC
5927908 TAGTTTTTAGGCATT
1 TAGTTTTTAGGCATT
5927923 GCATTACTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (22 bp):
TAGTTTTTAGGCATTATGTAAC
Found at i:5928088 original size:22 final size:22
Alignment explanation
Indices: 5928045--5928088 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
5928035 TTAGACATTA
**
5928045 TCTAAAAATCAGTTACGCAATG
1 TCTAAAAATCAGAGACGCAATG
* *
5928067 TCTAAAAATTAGAGACGTAATG
1 TCTAAAAATCAGAGACGCAATG
5928089 ATTAAGCCAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (22 bp):
TCTAAAAATCAGAGACGCAATG
Found at i:5928904 original size:6 final size:6
Alignment explanation
Indices: 5928893--5928917 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5928883 ATGCATGTGC
5928893 CTGATT CTGATT CTGATT CTGATT C
1 CTGATT CTGATT CTGATT CTGATT C
5928918 ATGTTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:5931203 original size:19 final size:20
Alignment explanation
Indices: 5931181--5931226 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
5931171 AATAAAATTT
*
5931181 TTTCTCTTCTC-TTAAATAC
1 TTTCTCTTCCCTTTAAATAC
5931200 TTTCT-TTCCCTTTAAATAC
1 TTTCTCTTCCCTTTAAATAC
5931219 TTTCTCTT
1 TTTCTCTT
5931227 GTATTTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 18 0.75
20 2 0.08
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTCTCTTCCCTTTAAATAC
Found at i:5931311 original size:16 final size:16
Alignment explanation
Indices: 5931290--5931322 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5931280 CGATTCTCTA
5931290 ATCTCTCAAGTTTTAG
1 ATCTCTCAAGTTTTAG
5931306 ATCTCTCAAGTTTTAG
1 ATCTCTCAAGTTTTAG
5931322 A
1 A
5931323 ATTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (16 bp):
ATCTCTCAAGTTTTAG
Found at i:5931598 original size:53 final size:54
Alignment explanation
Indices: 5931541--5931673 Score: 189
Period size: 53 Copynumber: 2.4 Consensus size: 54
5931531 AAAAACCATA
*
5931541 AATGTCCATTCCCTGAAGTGAATGTGACAAATGA-ACTACTAAT-AAAAATTATG
1 AATGTTCATTCCCTGAAGTGAATGTGACAAATGAGA-TACTAATAAAAAATTATG
* * *
5931594 AATGTTCGTTCCTTAAAGTGAATGTGACAAATGAGATACTAATAAAAAATTATG
1 AATGTTCATTCCCTGAAGTGAATGTGACAAATGAGATACTAATAAAAAATTATG
5931648 AATTCGTTCATTCCCTGAAGTGAATG
1 AA-T-GTTCATTCCCTGAAGTGAATG
5931674 CCACATCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
53 37 0.54
54 13 0.19
55 1 0.01
56 18 0.26
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (54 bp):
AATGTTCATTCCCTGAAGTGAATGTGACAAATGAGATACTAATAAAAAATTATG
Found at i:5931719 original size:59 final size:59
Alignment explanation
Indices: 5931645--5931760 Score: 151
Period size: 59 Copynumber: 2.0 Consensus size: 59
5931635 ATAAAAAATT
* * * * * *
5931645 ATGAATTCGTTCATTCCCTGAAGTGAATGCCACATCATTTAATAATTATGGTCATAATA
1 ATGAATTCATCCATTCCCTGAAGTGAATACAACATCATTTAATAATGATGGCCATAATA
* * *
5931704 ATGAATTCATCCATTCCTTGAAGTGAATACAATATCATTTAATTATGATGGCCATAA
1 ATGAATTCATCCATTCCCTGAAGTGAATACAACATCATTTAATAATGATGGCCATAA
5931761 CAATTTACAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (59 bp):
ATGAATTCATCCATTCCCTGAAGTGAATACAACATCATTTAATAATGATGGCCATAATA
Found at i:5931925 original size:23 final size:23
Alignment explanation
Indices: 5931895--5931940 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5931885 CTACAATCCA
5931895 CTAGAAGTGGATAACCCATCATG
1 CTAGAAGTGGATAACCCATCATG
5931918 CTAGAAGTGGATAACCCATCATG
1 CTAGAAGTGGATAACCCATCATG
5931941 TGTGAATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
CTAGAAGTGGATAACCCATCATG
Found at i:5936300 original size:15 final size:14
Alignment explanation
Indices: 5936274--5936303 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
5936264 TCTTTTAGAT
5936274 TTATTTTATAATAA
1 TTATTTTATAATAA
5936288 TTATTTATATAATAA
1 TTATTT-TATAATAA
5936303 T
1 T
5936304 AGTCTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTTTATAATAA
Found at i:5936706 original size:13 final size:13
Alignment explanation
Indices: 5936688--5936721 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
5936678 TGAAAACAAA
*
5936688 TATATTTATTCAT
1 TATATTTATTAAT
5936701 TATATTTATTAAT
1 TATATTTATTAAT
5936714 TATTATTT
1 TA-TATTT
5936722 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TATATTTATTAAT
Found at i:5938062 original size:93 final size:95
Alignment explanation
Indices: 5937886--5938094 Score: 253
Period size: 94 Copynumber: 2.2 Consensus size: 95
5937876 ATGAAGTGAT
* * * * * * *
5937886 GAGTTAAATAAATTTTTTATTCAATTGTGCATTCGCCAGAGGATTCGCCTTGGTTTGACCTTATT
1 GAGTTAAATAAATTCTTTATTCAATTATGCATTCACCAGAGGATTCACCTTGATCTGACCTTATC
** *
5937951 TCAATTGTGGTATCTCTCATGAAAAG-CTC
66 TCAAGCGTGCTATCTCTCATGAAAAGTCTC
*
5937980 GAGTTAGATAAATTCTTTATTCAATTATGCATTCACCA-AGGATTCACCTTGATCTGACCTTATC
1 GAGTTAAATAAATTCTTTATTCAATTATGCATTCACCAGAGGATTCACCTTGATCTGACCTTATC
* * *
5938044 TCGAGCGTGCTATTTCTCATGAGAAGTCTC
66 TCAAGCGTGCTATCTCTCATGAAAAGTCTC
*
5938074 -ATGTTAAATAAGTTCTTTATT
1 GA-GTTAAATAAATTCTTTATT
5938095 GAATCATAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 43 0.44
94 54 0.56
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (95 bp):
GAGTTAAATAAATTCTTTATTCAATTATGCATTCACCAGAGGATTCACCTTGATCTGACCTTATC
TCAAGCGTGCTATCTCTCATGAAAAGTCTC
Found at i:5938470 original size:95 final size:95
Alignment explanation
Indices: 5938371--5938608 Score: 248
Period size: 95 Copynumber: 2.5 Consensus size: 95
5938361 GCGATTGTGG
** *
5938371 TATCTCTCATGAGAAATCTCGAA-TTAGATAAGTTTTTTATTTAATTGTACAGTCATTAGAGGAT
1 TATCTCTCATGAGAAATCTC-AAGTTAGATAAGTTTTTTATTTAATTGTACAGTCACGAGAGAAT
** * *
5938435 TTACCTTGATCTGA-CTTTAACTTGATCGTGA
65 CCACCTTGATCTGATC-CTAACTTAATCGTGA
* * * * *
5938466 TATCTCTCATGA-AAAGTTTCAAGTTGGATAAGTTTTTTATTCAATTGTGCATTCACGAGAGAAT
1 TATCTCTCATGAGAAA-TCTCAAGTTAGATAAGTTTTTTATTTAATTGTACAGTCACGAGAGAAT
* * * *
5938530 CCACCTTGGTTTGATCCTATCTTAATTGTGA
65 CCACCTTGATCTGATCCTAACTTAATCGTGA
* * * *
5938561 TATCTGTTATTAGAAATCTCAAGTTAGATAAGTTATTTATTTAATTGT
1 TATCTCTCATGAGAAATCTCAAGTTAGATAAGTTTTTTATTTAATTGT
5938609 GATGTCTCGA
Statistics
Matches: 116, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
94 5 0.04
95 107 0.92
96 4 0.03
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (95 bp):
TATCTCTCATGAGAAATCTCAAGTTAGATAAGTTTTTTATTTAATTGTACAGTCACGAGAGAATC
CACCTTGATCTGATCCTAACTTAATCGTGA
Found at i:5938636 original size:36 final size:36
Alignment explanation
Indices: 5938577--5938645 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
5938567 TTATTAGAAA
* *
5938577 TCTCAAGTTAGATAAGTTATTTATTTAATTGTGATG
1 TCTCAAGTTACATAAATTATTTATTTAATTGTGATG
* *
5938613 TCTCGAGTTACATAAATTCTTTATTTAATTGTG
1 TCTCAAGTTACATAAATTATTTATTTAATTGTG
5938646 CATTTGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (36 bp):
TCTCAAGTTACATAAATTATTTATTTAATTGTGATG
Found at i:5942411 original size:12 final size:12
Alignment explanation
Indices: 5942396--5942420 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5942386 TACGACGAAA
5942396 AAGAAGAAGACG
1 AAGAAGAAGACG
5942408 AAGAAGAAGACG
1 AAGAAGAAGACG
5942420 A
1 A
5942421 CAACGACGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.32, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGACG
Found at i:5956330 original size:86 final size:86
Alignment explanation
Indices: 5956185--5956357 Score: 337
Period size: 86 Copynumber: 2.0 Consensus size: 86
5956175 CATGGTCTGG
*
5956185 ATCAACTAGGAAAAATAGACATGGGAGAGCTCTTTCCAACAATAACTTGCTCAATTTCCAGTAAG
1 ATCAACTAGGAAAAATAGACATGGGAGAGCTCTTTCCAACAATAACTTGCCCAATTTCCAGTAAG
5956250 ATTCAGACTTTACTTCAGTGC
66 ATTCAGACTTTACTTCAGTGC
5956271 ATCAACTAGGAAAAATAGACATGGGAGAGCTCTTTCCAACAATAACTTGCCCAATTTCCAGTAAG
1 ATCAACTAGGAAAAATAGACATGGGAGAGCTCTTTCCAACAATAACTTGCCCAATTTCCAGTAAG
5956336 ATTCAGACTTTACTTCAGTGC
66 ATTCAGACTTTACTTCAGTGC
5956357 A
1 A
5956358 AATGATAGAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (86 bp):
ATCAACTAGGAAAAATAGACATGGGAGAGCTCTTTCCAACAATAACTTGCCCAATTTCCAGTAAG
ATTCAGACTTTACTTCAGTGC
Found at i:5960526 original size:23 final size:23
Alignment explanation
Indices: 5960472--5960518 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
5960462 TTTTTTATTA
* *
5960472 ATTAATGTATGAATTAATAAATT
1 ATTAATTTATCAATTAATAAATT
5960495 ATTAATTTATCAATTAA-AAATT
1 ATTAATTTATCAATTAATAAATT
5960517 AT
1 AT
5960519 CTCATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
ATTAATTTATCAATTAATAAATT
Found at i:5961936 original size:14 final size:16
Alignment explanation
Indices: 5961901--5961934 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
5961891 AATAACTTTG
5961901 AAATAAAAAAGAGTAAA
1 AAAT-AAAAAGAGTAAA
5961918 AAATAAAAAGA-TAAA
1 AAATAAAAAGAGTAAA
5961933 AA
1 AA
5961935 TACCCTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATAAAAAGAGTAAA
Found at i:5962035 original size:39 final size:41
Alignment explanation
Indices: 5961947--5962041 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
5961937 CCCTTTATTG
** *
5961947 TATATATGATTATTTTATTTTTATTTTATAAATATTATGAT
1 TATATATTTTTATTTTATTTTTATTTTATAAATATTATAAT
*
5961988 TATTTA-TTTTATTTTA-TTTTATCTTT-TAAATATTAATAAT
1 TATATATTTTTATTTTATTTTTAT-TTTATAAATATT-ATAAT
5962028 T-TATATTTTTATTT
1 TATATATTTTTATTT
5962042 AAAATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
39 17 0.37
40 24 0.52
41 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (41 bp):
TATATATTTTTATTTTATTTTTATTTTATAAATATTATAAT
Found at i:5962047 original size:28 final size:28
Alignment explanation
Indices: 5961998--5962053 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5961988 TATTTATTTT
* *
5961998 ATTTTATTTTATCTTTTAAATATTAATA
1 ATTTTATTTTATATTTAAAATATTAATA
5962026 ATTTATATTTT-TATTTAAAATATTAATA
1 ATTT-TATTTTATATTTAAAATATTAATA
5962054 CTTGATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTATTTTATATTTAAAATATTAATA
Found at i:5962078 original size:82 final size:82
Alignment explanation
Indices: 5961986--5962250 Score: 292
Period size: 82 Copynumber: 3.2 Consensus size: 82
5961976 AAATATTATG
*
5961986 ATTATTTATTTTATTTTATTTTATCTTTTAAATATTAATAATTTATATTTTTATTTAAAATATTA
1 ATTA-TTATTTTATTTAATTTTATCTTTTAAATATTAATAATTTATATTTTTATTTAAAATATTA
5962051 ATACTTGATTATTTAAAT
65 ATACTTGATTATTTAAAT
* * ** *
5962069 ATTATTATTTTATGTATAATTTAATC-ATT-AATATT-ATAAAATACTATTATTTTATTTATAAT
1 ATTATTATTTTAT-T-TAATTTTATCTTTTAAATATTAATAATTTA-TA-T-TTTTATTTAAAAT
**
5962131 -TTAAATA-TT-ATTATGATTATTT
61 ATT-AATACTTGATTAT--TTAAAT
* * *
5962153 ATGT-TTATTTAATTTAATTTTATCTTTTAAATGTTAATAATTTTTATTTTTATTTAAAATATTA
1 AT-TATTATTTTATTTAATTTTATCTTTTAAATATTAATAATTTATATTTTTATTTAAAATATTA
5962217 ATACTTGATTATTTAAAT
65 ATACTTGATTATTTAAAT
5962235 ATTATTATTTTATTTA
1 ATTATTATTTTATTTA
5962251 TAATTTAATC
Statistics
Matches: 147, Mismatches: 19, Indels: 33
0.74 0.10 0.17
Matches are distributed among these distances:
81 7 0.05
82 64 0.44
83 20 0.14
84 50 0.34
85 6 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (82 bp):
ATTATTATTTTATTTAATTTTATCTTTTAAATATTAATAATTTATATTTTTATTTAAAATATTAA
TACTTGATTATTTAAAT
Found at i:5962111 original size:42 final size:42
Alignment explanation
Indices: 5962065--5962300 Score: 179
Period size: 42 Copynumber: 5.7 Consensus size: 42
5962055 TTGATTATTT
*
5962065 AAATATTATTATTTTATGTATAATTTAATCATTAATATTATA
1 AAATATTATTATTTTATTTATAATTTAATCATTAATATTATA
* * * *
5962107 AAATACTATTATTTTATTTATAATTTAAAT-ATTATTATGATT
1 AAATATTATTATTTTATTTATAATTT-AATCATTAATATTATA
** * * *
5962149 ATTTATGT-TTA-TTTAATT-TAATTTTATCTTTTAA-ATGT-TA
1 AAATAT-TATTATTTTATTTATAATTTAATC-ATTAATAT-TATA
* *
5962189 ATAAT-TT-TTATTTTTATTTAAAATATTAAT-ACTTGATTATT-T-
1 A-AATATTATTA-TTTTATTTATAAT-TTAATCA-TT-AATATTATA
5962231 AAATATTATTATTTTATTTATAATTTAATCATTAATATTATA
1 AAATATTATTATTTTATTTATAATTTAATCATTAATATTATA
* * *
5962273 AAATACTAATATTCTATTTATAATTTAA
1 AAATATTATTATTTTATTTATAATTTAA
5962301 ATATTATTAT
Statistics
Matches: 150, Mismatches: 26, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
39 6 0.04
40 16 0.11
41 27 0.18
42 85 0.57
43 14 0.09
44 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (42 bp):
AAATATTATTATTTTATTTATAATTTAATCATTAATATTATA
Found at i:5962178 original size:166 final size:164
Alignment explanation
Indices: 5961955--5962360 Score: 646
Period size: 166 Copynumber: 2.5 Consensus size: 164
5961945 TGTATATATG
* *
5961955 ATTATTTTATTTTTATTTTATAA-A-TATTATGATTATTTAT-TTTA--T-TTTATTTTATCTTT
1 ATTATTTTATTTATAATTTA-AATATTATTATGATTATTTATGTTTATTTATTTATTTTATCTTT
5962014 TAAATATTAATAATTTATATTTTTATTTAAAATATTAATACTTGATTATTTAAATATTATTATTT
65 TAAATATTAATAATTTATATTTTTATTTAAAATATTAATACTTGATTATTTAAATATTATTATTT
5962079 TATGTATAATTTAATCATTAATATTATAAAATACT
130 TATGTATAATTTAATCATTAATATTATAAAATACT
5962114 ATTATTTTATTTATAATTTAAATATTATTATGATTATTTATGTTTATTTAATTTAATTTTATCTT
1 ATTATTTTATTTATAATTTAAATATTATTATGATTATTTATGTTTATTT-ATTT-ATTTTATCTT
* *
5962179 TTAAATGTTAATAATTTTTATTTTTATTTAAAATATTAATACTTGATTATTTAAATATTATTATT
64 TTAAATATTAATAATTTATATTTTTATTTAAAATATTAATACTTGATTATTTAAATATTATTATT
*
5962244 TTATTTATAATTTAATCATTAATATTATAAAATACT
129 TTATGTATAATTTAATCATTAATATTATAAAATACT
* *
5962280 AATATTCTATTTATAATTTAAATATTATTATGATTATTTATGTTTATTTTATTTCATTTTAT-TT
1 ATTATTTTATTTATAATTTAAATATTATTATGATTATTTATGTTTA-TTTATTT-ATTTTATCTT
5962344 TTAAAATATTAATAATT
64 TT-AAATATTAATAATT
5962361 GGTAATCTAA
Statistics
Matches: 228, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
158 2 0.01
159 19 0.08
160 16 0.07
161 4 0.02
163 1 0.00
165 7 0.03
166 176 0.77
167 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (164 bp):
ATTATTTTATTTATAATTTAAATATTATTATGATTATTTATGTTTATTTATTTATTTTATCTTTT
AAATATTAATAATTTATATTTTTATTTAAAATATTAATACTTGATTATTTAAATATTATTATTTT
ATGTATAATTTAATCATTAATATTATAAAATACT
Found at i:5962247 original size:48 final size:47
Alignment explanation
Indices: 5962178--5962402 Score: 164
Period size: 48 Copynumber: 4.8 Consensus size: 47
5962168 AATTTTATCT
* *
5962178 TTTAAATGTTAATAATTTTTATTT-TTATTTAAAATATTAATACTTGATTA
1 TTTAAATATTAAT-A-TTTTATTTATAATTT-AAATATTAATA-TTGATTA
*
5962228 TTTAAATATTATTATTTTATTTATAATTT-AATCATTAATATT-A-TA
1 TTTAAATATTAATATTTTATTTATAATTTAAAT-ATTAATATTGATTA
* * *
5962273 ---AAATACTAATATTCTATTTATAATTTAAATATTATTA-TGATTA
1 TTTAAATATTAATATTTTATTTATAATTTAAATATTAATATTGATTA
** * * * * *
5962316 TTTATGT-TTATTTTATTTCATTT-TATTTTTAAAATATTAATAATTGGTAA
1 TTTAAATATTA--ATATTTTATTTATA-ATTT-AAATATTAAT-ATTGATTA
*
5962366 TCTAAATATTAATATTTTATTTATAATTTAAATATTA
1 TTTAAATATTAATATTTTATTTATAATTTAAATATTA
5962403 TTGTGATTAA
Statistics
Matches: 136, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
41 1 0.01
42 30 0.22
43 5 0.04
45 4 0.03
46 5 0.04
47 16 0.12
48 32 0.24
49 19 0.14
50 21 0.15
51 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (47 bp):
TTTAAATATTAATATTTTATTTATAATTTAAATATTAATATTGATTA
Found at i:5962557 original size:15 final size:16
Alignment explanation
Indices: 5962539--5962580 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
5962529 CTTTTTTCCC
*
5962539 TTAATAATTTAAAA-A
1 TTAATATTTTAAAATA
5962554 TTAATATTTTAAAATA
1 TTAATATTTTAAAATA
5962570 TTAATATTTTA
1 TTAATATTTTA
5962581 TTTATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATATTTTAAAATA
Found at i:5962603 original size:16 final size:16
Alignment explanation
Indices: 5962582--5962612 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5962572 AATATTTTAT
*
5962582 TTATAATTTAAATATA
1 TTATAATTAAAATATA
5962598 TTATAATTAAAATAT
1 TTATAATTAAAATAT
5962613 GAAAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATTAAAATATA
Found at i:5977164 original size:19 final size:19
Alignment explanation
Indices: 5977129--5977167 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5977119 GTTTGGGAGT
5977129 GGAGGGGAAGAGAGAGAGA
1 GGAGGGGAAGAGAGAGAGA
*
5977148 GGAGGAGGAGGAG-GAGAGA
1 GGAGG-GGAAGAGAGAGAGA
5977167 G
1 G
5977168 TTGGGGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (19 bp):
GGAGGGGAAGAGAGAGAGA
Found at i:5977300 original size:2 final size:2
Alignment explanation
Indices: 5977293--5977344 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
5977283 TCTATTGCAA
*
5977293 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5977333 -T AT GA- AT AT AT A
1 AT AT -AT AT AT AT A
5977345 AACAATAGGC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
1 4 0.09
2 38 0.88
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5981223 original size:15 final size:16
Alignment explanation
Indices: 5981194--5981226 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5981184 CTTAAATGTG
5981194 TATTAGATATGAAATA
1 TATTAGATATGAAATA
*
5981210 TATTA-ATATTAAATA
1 TATTAGATATGAAATA
5981225 TA
1 TA
5981227 AACACTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
TATTAGATATGAAATA
Found at i:5981423 original size:20 final size:19
Alignment explanation
Indices: 5981376--5981426 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
5981366 TTAATACAGA
*
5981376 TAAATTAAAATATTTATAAT
1 TAAATTTAAA-ATTTATAAT
*
5981396 TAAA-TTAAAATTTACTATT
1 TAAATTTAAAATTTA-TAAT
5981415 TAAATTTAAAAT
1 TAAATTTAAAAT
5981427 CAATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTTAAAATTTATAAT
Found at i:6009082 original size:12 final size:12
Alignment explanation
Indices: 6009065--6009091 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6009055 ACTCATCAAT
6009065 GAAGAACGTAAC
1 GAAGAACGTAAC
6009077 GAAGAACGTAAC
1 GAAGAACGTAAC
6009089 GAA
1 GAA
6009092 ATACGCATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.26, T:0.07
Consensus pattern (12 bp):
GAAGAACGTAAC
Found at i:6013551 original size:25 final size:25
Alignment explanation
Indices: 6013523--6013577 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
6013513 TTTCAAAATC
* *
6013523 AAAATAATTTAGTCTTTTGATTTTG
1 AAAATAATTTAGTCTCTTGATTTTA
6013548 AAAATAATTTAGTCTCTTGATTTTA
1 AAAATAATTTAGTCTCTTGATTTTA
6013573 AAAAT
1 AAAAT
6013578 TACTTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (25 bp):
AAAATAATTTAGTCTCTTGATTTTA
Found at i:6014416 original size:19 final size:18
Alignment explanation
Indices: 6014390--6014427 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
6014380 TTAGATTTAC
6014390 AAAAAAAATTATAAAAAT
1 AAAAAAAATTATAAAAAT
*
6014408 AAAATAAAATTATACAAAT
1 AAAA-AAAATTATAAAAAT
6014427 A
1 A
6014428 CTTACAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAAAATTATAAAAAT
Found at i:6021740 original size:21 final size:21
Alignment explanation
Indices: 6021715--6021757 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6021705 TGGAGTTTAG
6021715 AACTCCGACTATATATATAGA
1 AACTCCGACTATATATATAGA
6021736 AACTCCGACTATATATATAGA
1 AACTCCGACTATATATATAGA
6021757 A
1 A
6021758 TAATTGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (21 bp):
AACTCCGACTATATATATAGA
Found at i:6050909 original size:17 final size:17
Alignment explanation
Indices: 6050887--6050922 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6050877 AGGTAAATTT
*
6050887 TATATAATATATACTTA
1 TATATAATATATACATA
*
6050904 TATATATTATATACATA
1 TATATAATATATACATA
6050921 TA
1 TA
6050923 GTTTGCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATAATATATACATA
Found at i:6065439 original size:14 final size:14
Alignment explanation
Indices: 6065420--6065551 Score: 79
Period size: 14 Copynumber: 9.1 Consensus size: 14
6065410 AATTTTTATA
*
6065420 TAATATTATCTTTT
1 TAATATTATATTTT
6065434 TAATATTATATTTT
1 TAATATTATATTTT
*
6065448 TTATATT-TATTATT
1 TAATATTATATT-TT
*
6065462 ATAATTTTATATATTT
1 -TAATATTATAT-TTT
* * * ** *
6065478 TTATTTTTTAAATA
1 TAATATTATATTTT
*
6065492 TAATATTATCTTTT
1 TAATATTATATTTT
6065506 TAATATTATATTTTT
1 TAATATTATA-TTTT
*
6065521 TTATATT-TATTATT
1 TAATATTATATT-TT
*
6065535 ATAATTTTATATATTT
1 -TAATATTATAT-TTT
6065551 T
1 T
6065552 TATTTTTAAA
Statistics
Matches: 89, Mismatches: 20, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
13 6 0.07
14 42 0.47
15 29 0.33
16 10 0.11
17 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATATTATATTTT
Found at i:6065439 original size:19 final size:18
Alignment explanation
Indices: 6065398--6065573 Score: 93
Period size: 19 Copynumber: 9.9 Consensus size: 18
6065388 CAAATGTAAG
*
6065398 TTTAATAT-A-ATTAATT
1 TTTAATATAATATTATTT
6065414 TTT-ATATAATATTATCTT
1 TTTAATATAATATTAT-TT
6065432 TTTAATAT--TA-TATTT
1 TTTAATATAATATTATTT
* * *
6065447 TTTATATTTATTATTATAAT
1 TTTA-ATATAATATTAT-TT
* *
6065467 TTT-ATATATTTTTATTT
1 TTTAATATAATATTATTT
6065484 TTTAAATATAATATTATCTT
1 TTT-AATATAATATTAT-TT
*
6065504 TTTAATATTATA-T-TTT
1 TTTAATATAATATTATTT
* * *
6065520 TTTATATTTATTATTATAAT
1 TTTA-ATATAATATTAT-TT
* *
6065540 TTT-ATATATTTTTATTT
1 TTTAATATAATATTATTT
*
6065557 TTAAAATATAATATTAT
1 TT-TAATATAATATTAT
6065574 ATATTAAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
15 10 0.08
16 16 0.13
17 19 0.15
18 29 0.24
19 36 0.29
20 13 0.11
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAATATAATATTATTT
Found at i:6065492 original size:53 final size:50
Alignment explanation
Indices: 6065398--6065534 Score: 130
Period size: 53 Copynumber: 2.6 Consensus size: 50
6065388 CAAATGTAAG
* * * * * *
6065398 TTTAATATAATTAATTTTTATATAATATTATCTTTTTAATATTATATTTTTTAT
1 TTTAATATTA-TAA-TTTTATATATTTTTAT-TTTTTAATATAATATTATCT-T
*
6065452 ATTTATTATTATAATTTTATATATTTTTATTTTTTAAATATAATATTATCTT
1 -TTTAATATTATAATTTTATATATTTTTATTTTTT-AATATAATATTATCTT
* *
6065504 TTTAATATTATATTTTTTTATATTTATTATT
1 TTTAATATTATAATTTTATATATTT-TTATT
6065535 ATAATTTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
51 22 0.31
52 11 0.16
53 26 0.37
54 3 0.04
55 8 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (50 bp):
TTTAATATTATAATTTTATATATTTTTATTTTTTAATATAATATTATCTT
Found at i:6065493 original size:29 final size:29
Alignment explanation
Indices: 6065434--6065517 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
6065424 ATTATCTTTT
*
6065434 TAATATTATATTTTTTATATTTATTATTA
1 TAATATTATATTTTTTATATTTATTAATA
*
6065463 TAATTTTATATATTTTTAT-TTT-TTAAATA
1 TAATATTATAT-TTTTTATATTTATT-AATA
* *
6065492 TAATATTATCTTTTTAATATTATATT
1 TAATATTATATTTTTTATATT-TATT
6065518 TTTTTATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
28 8 0.18
29 27 0.60
30 8 0.18
31 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TAATATTATATTTTTTATATTTATTAATA
Found at i:6065526 original size:29 final size:29
Alignment explanation
Indices: 6065506--6065574 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 29
6065496 ATTATCTTTT
*
6065506 TAATATTATATTTTTTTATATTTATTATTA
1 TAATATTATA-ATTTTTATATTTATTATTA
* * * *
6065536 TAATTTTATATATTTTTATTTTTA-AAATA
1 TAATATTATA-ATTTTTATATTTATTATTA
6065565 TAATATTATA
1 TAATATTATA
6065575 TATTAAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TAATATTATAATTTTTATATTTATTATTA
Found at i:6065529 original size:22 final size:22
Alignment explanation
Indices: 6065507--6065550 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6065497 TTATCTTTTT
* *
6065507 AATATTATATTTTTTTATATTT
1 AATATTATAATTTTATATATTT
*
6065529 ATTATTATAATTTTATATATTT
1 AATATTATAATTTTATATATTT
6065551 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
AATATTATAATTTTATATATTT
Found at i:6065549 original size:73 final size:73
Alignment explanation
Indices: 6065417--6065592 Score: 300
Period size: 73 Copynumber: 2.4 Consensus size: 73
6065407 ATTAATTTTT
6065417 ATATAATATTATCTTTTTAATATTATA-TTTTTTATATTTATTATTATAATTTTATATATTTTTA
1 ATATAATATTATCTTTTTAATATTATATTTTTTTATATTTATTATTATAATTTTATATATTTTTA
*
6065481 TTTTTTAA
66 TTTTTAAA
6065489 ATATAATATTATCTTTTTAATATTATATTTTTTTATATTTATTATTATAATTTTATATATTTTTA
1 ATATAATATTATCTTTTTAATATTATATTTTTTTATATTTATTATTATAATTTTATATATTTTTA
6065554 TTTTTAAA
66 TTTTTAAA
* * * *
6065562 ATATAATATTATATATTAAATATTTTATTTT
1 ATATAATATTATCTTTTTAATATTATATTTT
6065593 AATTTTTTTA
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 27 0.28
73 71 0.72
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (73 bp):
ATATAATATTATCTTTTTAATATTATATTTTTTTATATTTATTATTATAATTTTATATATTTTTA
TTTTTAAA
Found at i:6065612 original size:73 final size:73
Alignment explanation
Indices: 6065417--6065612 Score: 209
Period size: 73 Copynumber: 2.7 Consensus size: 73
6065407 ATTAATTTTT
* * * ** **
6065417 ATATAATATTATCTTTTTAATATTATA-TTTTTTATATTTATTATTATAATTTTATATATTTTTA
1 ATATAATATTATATATTAAATATTATATTTTTTTATATTTAAAAAAATAATTTTATATATTTTTA
*
6065481 TTTTTTAA
66 TTTTTAAA
* * * ** **
6065489 ATATAATATTATCTTTTTAATATTATATTTTTTTATATTTATTATTATAATTTTATATATTTTTA
1 ATATAATATTATATATTAAATATTATATTTTTTTATATTTAAAAAAATAATTTTATATATTTTTA
6065554 TTTTTAAA
66 TTTTTAAA
*
6065562 ATATAATATTATATATTAAATATTTTATTTTAATTT-T-TTTAAAAAAATAAT
1 ATATAATATTATATATTAAATATTATATTTT--TTTATATTTAAAAAAATAAT
6065613 ATAAATTTTA
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
72 27 0.24
73 81 0.72
74 1 0.01
75 3 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (73 bp):
ATATAATATTATATATTAAATATTATATTTTTTTATATTTAAAAAAATAATTTTATATATTTTTA
TTTTTAAA
Found at i:6066644 original size:48 final size:48
Alignment explanation
Indices: 6066545--6066645 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
6066535 GCAATATAGG
** * * *
6066545 AGGG-TAAGAGGGTGTTACAGAATCTACCCAGAAAGGATTTCAGAACC
1 AGGGATAAGAGGGTGTTACAGAATCTACCCAGAAAAAATGTCAAAACA
6066592 AGGGATAAGAGGGTGTTACAGAATCTACCCAGAAAAAATGTCAAAACA
1 AGGGATAAGAGGGTGTTACAGAATCTACCCAGAAAAAATGTCAAAACA
6066640 AGGGAT
1 AGGGAT
6066646 CGTTCCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 4 0.08
48 44 0.92
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.18
Consensus pattern (48 bp):
AGGGATAAGAGGGTGTTACAGAATCTACCCAGAAAAAATGTCAAAACA
Found at i:6067857 original size:66 final size:66
Alignment explanation
Indices: 6067750--6067950 Score: 312
Period size: 66 Copynumber: 3.0 Consensus size: 66
6067740 TAGTATTTCT
* * * * ** *
6067750 TGACCAAGTAATTGATGCTAGGAGTAAGATTAATGCTAGTGATGAAGTAACTGATGATTCAAGTG
1 TGACCAAGTAATTGATGCTTGGAGTGAGAGTAATGCCAGTGATGAAACAACTGACGATTCAAGTG
6067815 A
66 A
*
6067816 TGACCAAGTAGTTGATGCTTGGAGTGAGAGTAATGCCAGTGATGAAACAACTGACGATTCAAGTG
1 TGACCAAGTAATTGATGCTTGGAGTGAGAGTAATGCCAGTGATGAAACAACTGACGATTCAAGTG
6067881 A
66 A
* *
6067882 TGACCAAGCAATTGATGCTTGGAGTGAGAGTAATGCCAGCGATGAAACAACTGACGATTCAAGTG
1 TGACCAAGTAATTGATGCTTGGAGTGAGAGTAATGCCAGTGATGAAACAACTGACGATTCAAGTG
6067947 A
66 A
6067948 TGA
1 TGA
6067951 TGAAGAAGAT
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 124 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (66 bp):
TGACCAAGTAATTGATGCTTGGAGTGAGAGTAATGCCAGTGATGAAACAACTGACGATTCAAGTG
A
Found at i:6069390 original size:63 final size:63
Alignment explanation
Indices: 6069291--6069412 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
6069281 GGTCTTGGAG
* * **
6069291 TGTAATTTAATTTAAATCCTTATATTTGATTATATAATTAAGATTGGGATTCAATTTGATTGT
1 TGTAATCTAATTTAAATCCTTAGATTTGATTATATAATTAAGATTGACATTCAATTTGATTGT
* **
6069354 TGTAATCTGATTTAAATTTTTAGATTTGATTATATAATTAAGATTGACATTCAATTTGA
1 TGTAATCTAATTTAAATCCTTAGATTTGATTATATAATTAAGATTGACATTCAATTTGA
6069413 ATATATTATC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (63 bp):
TGTAATCTAATTTAAATCCTTAGATTTGATTATATAATTAAGATTGACATTCAATTTGATTGT
Found at i:6080362 original size:11 final size:11
Alignment explanation
Indices: 6080346--6080376 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6080336 TATATATTTA
6080346 TAATTAATTAT
1 TAATTAATTAT
6080357 TAATTAATTAT
1 TAATTAATTAT
6080368 T-ATTAATTA
1 TAATTAATTA
6080377 ATATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTAATTAT
Found at i:6080369 original size:14 final size:15
Alignment explanation
Indices: 6080346--6080383 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
6080336 TATATATTTA
6080346 TAATTAATTATTAAT
1 TAATTAATTATTAAT
6080361 TAATT-ATTATTAAT
1 TAATTAATTATTAAT
6080375 TAATATAAT
1 TAAT-TAAT
6080384 ATTTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.62
15 6 0.29
16 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTAATTATTAAT
Found at i:6080391 original size:25 final size:25
Alignment explanation
Indices: 6080346--6080393 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6080336 TATATATTTA
*
6080346 TAATTAATTATTAATTAATTATTAT
1 TAATTAATTAATAATTAATTATTAT
*
6080371 TAATTAATATAAT-ATTTATTATT
1 TAATTAAT-TAATAATTAATTATT
6080394 TTTATATCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TAATTAATTAATAATTAATTATTAT
Found at i:6081101 original size:2 final size:2
Alignment explanation
Indices: 6081094--6081123 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6081084 GGTTATAATC
6081094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6081124 TCAAGCTGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6085358 original size:67 final size:67
Alignment explanation
Indices: 6085278--6085440 Score: 272
Period size: 67 Copynumber: 2.4 Consensus size: 67
6085268 CAATTATAAA
* *
6085278 AATTCAACCAGTAGTAAAGGTATGATCTATCTTATTTGAGTTCCAACTAGTATCTGTAAACCTAT
1 AATTCAACCAGTAGTAAAGGTATGATCCATCCTATTTGAGTTCCAACTAGTATCTGTAAACCTAT
6085343 CT
66 CT
* * *
6085345 AATTCAACTAGTAGTAGAGGTATGATCCATCCTATTTGAGTTCCAACTAGTATTTGTAAACCTAT
1 AATTCAACCAGTAGTAAAGGTATGATCCATCCTATTTGAGTTCCAACTAGTATCTGTAAACCTAT
6085410 CT
66 CT
*
6085412 AATTCAACCAATAGTAAAGGTATGATCCA
1 AATTCAACCAGTAGTAAAGGTATGATCCA
6085441 ATAGCAGAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 88 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (67 bp):
AATTCAACCAGTAGTAAAGGTATGATCCATCCTATTTGAGTTCCAACTAGTATCTGTAAACCTAT
CT
Found at i:6085443 original size:19 final size:19
Alignment explanation
Indices: 6085419--6085459 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6085409 TCTAATTCAA
*
6085419 CCAATAGTAAAGGTATGAT
1 CCAATAGCAAAGGTATGAT
*
6085438 CCAATAGCAGAGGTATGAT
1 CCAATAGCAAAGGTATGAT
6085457 CCA
1 CCA
6085460 TCCTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (19 bp):
CCAATAGCAAAGGTATGAT
Found at i:6097970 original size:47 final size:47
Alignment explanation
Indices: 6097899--6098012 Score: 210
Period size: 47 Copynumber: 2.4 Consensus size: 47
6097889 GCTTGTTAGC
6097899 TTGTATAAATGTCTGTGATCGTCTGGTAAATTTAGTTGCTTTAAGTT
1 TTGTATAAATGTCTGTGATCGTCTGGTAAATTTAGTTGCTTTAAGTT
* *
6097946 TTGTATAAATGTCTGTGATTGTCTGGTAAATTTTGTTGCTTTAAGTT
1 TTGTATAAATGTCTGTGATCGTCTGGTAAATTTAGTTGCTTTAAGTT
6097993 TTGTATAAATGTCTGTGATC
1 TTGTATAAATGTCTGTGATC
6098013 CTTTTGACGG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (47 bp):
TTGTATAAATGTCTGTGATCGTCTGGTAAATTTAGTTGCTTTAAGTT
Found at i:6116508 original size:2 final size:2
Alignment explanation
Indices: 6116501--6116529 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6116491 AAATAAATAA
6116501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6116530 GAAATGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6117492 original size:23 final size:25
Alignment explanation
Indices: 6117452--6117498 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
6117442 TTTAGATTCT
*
6117452 AAAATCCTATCCCAATTT-CATTGG
1 AAAATCCTATCACAATTTACATTGG
*
6117476 AAAAT-CTATCACTATTTACATTG
1 AAAATCCTATCACAATTTACATTG
6117499 TAAATACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (25 bp):
AAAATCCTATCACAATTTACATTGG
Found at i:6123238 original size:6 final size:6
Alignment explanation
Indices: 6123227--6123259 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6123217 TGCAAAGACA
6123227 GCTTTG GCTTTG GCTTTG GCTTTG GCTTTG GCT
1 GCTTTG GCTTTG GCTTTG GCTTTG GCTTTG GCT
6123260 GTTCCGGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.48
Consensus pattern (6 bp):
GCTTTG
Found at i:6125914 original size:149 final size:152
Alignment explanation
Indices: 6125739--6126018 Score: 467
Period size: 153 Copynumber: 1.9 Consensus size: 152
6125729 ATATATATAA
* * *
6125739 AGAGGGAGAGTGAAGTTAAAGATGTATGTTTTTCTTTCTTCTTTTTTC-GAA-AAAAA-GCAAAG
1 AGAGAGAGAGAGAAGTTAAAGATGTATGTTTTTCTTTCTTCTTTTTTCAAAACAAAAAGGCAAAG
*
6125801 ACATAAAAAGGAAATTATACTTAGGGTATAATATACCTTGCTAATGCATTTTTAGTAATTTACTA
66 ACATAAAAAGGAAATTATACTTACGGTATAATATACCTTGCTAATGCATTTTTAGTAATTTACTA
6125866 ATATAGATAGATAGATAGAAAG
131 ATATAGATAGATAGATAGAAAG
*
6125888 AGAGAGAGAGAGAAGTTAAAGGTGTATGTTTTTCTTTCTTCTTTTTTCAAAAACAAAAAGGCAAA
1 AGAGAGAGAGAGAAGTTAAAGATGTATGTTTTTCTTTCTTCTTTTTTC-AAAACAAAAAGGCAAA
* *
6125953 GACATAAAAAGGAAATTATACTTACGGTATAATATGCCTTGCTAATGTATTTTTAGTAATTTACT
65 GACATAAAAAGGAAATTATACTTACGGTATAATATACCTTGCTAATGCATTTTTAGTAATTTACT
6126018 A
130 A
6126019 TTTATATAAT
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
149 45 0.38
151 2 0.02
152 5 0.04
153 68 0.57
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (152 bp):
AGAGAGAGAGAGAAGTTAAAGATGTATGTTTTTCTTTCTTCTTTTTTCAAAACAAAAAGGCAAAG
ACATAAAAAGGAAATTATACTTACGGTATAATATACCTTGCTAATGCATTTTTAGTAATTTACTA
ATATAGATAGATAGATAGAAAG
Found at i:6130150 original size:2 final size:2
Alignment explanation
Indices: 6130143--6130185 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
6130133 TTTCTTTTAT
* * *
6130143 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6130185 T
1 T
6130186 CCCCTCCCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6132999 original size:20 final size:22
Alignment explanation
Indices: 6132970--6133015 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
6132960 TATTTACTTA
*
6132970 AAATTTAATT-TAAAAATTT-T
1 AAATTCAATTATAAAAATTTAT
6132990 AAATTCAATTCATAAAAATTTAT
1 AAATTCAATT-ATAAAAATTTAT
6133013 AAA
1 AAA
6133016 AAATTAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
22 9 0.41
23 4 0.18
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTCAATTATAAAAATTTAT
Found at i:6135492 original size:20 final size:20
Alignment explanation
Indices: 6135457--6135498 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6135447 GTAAAGTTTA
6135457 TGTAATTTTTGCATTGT-GT
1 TGTAATTTTTGCATTGTAGT
6135476 TGTAATGTTTTAG-ATTGTAGT
1 TGTAAT-TTTT-GCATTGTAGT
6135497 TG
1 TG
6135499 GGTAAGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.19, C:0.02, G:0.24, T:0.55
Consensus pattern (20 bp):
TGTAATTTTTGCATTGTAGT
Found at i:6154329 original size:27 final size:27
Alignment explanation
Indices: 6154291--6154355 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
6154281 AAGGTGTAGG
* * *
6154291 AAGAGGTCTAA-TCGGACCACGTCTGCC
1 AAGAGGTTTAATTC-GACCACCTCCGCC
6154318 AAGAGGTTTAATTCGACCACCTCCGCC
1 AAGAGGTTTAATTCGACCACCTCCGCC
* *
6154345 AGGAGGCTTAA
1 AAGAGGTTTAA
6154356 ATTGATCAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (27 bp):
AAGAGGTTTAATTCGACCACCTCCGCC
Found at i:6157756 original size:2 final size:2
Alignment explanation
Indices: 6157749--6157781 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6157739 TTATCTTGAG
6157749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6157782 CACACACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6163497 original size:45 final size:45
Alignment explanation
Indices: 6163417--6163704 Score: 267
Period size: 45 Copynumber: 6.4 Consensus size: 45
6163407 AATTACACAC
* * * *
6163417 TAGGATGTTACACACCATGTACAGAAACGTATGACACGTCATAGT
1 TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAGT
* * * * *
6163462 TAAGTTGTTATACATCATATACAAAAACGTGTGACACGCCATGGT
1 TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAGT
* * * * *
6163507 TAGGATGTTACATACCATGTACAAAAACATGTGACACGTCATGGT
1 TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAGT
* * * * *
6163552 TAGGATGTTACACGCCATGTACAAAAACATGTTACACACCAT-GAT
1 TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAG-T
* * * * *
6163597 TAGGTTGTTACACGCTATGTACAAAAATGTATAACACGCCATAGT
1 TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAGT
* * * * * *
6163642 TAAGTTGTTACACGCCATGTAC--AAACATGTTACACACCATGGT
1 TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAGT
*
6163685 TAGGTTGTTACACGCCATGT
1 TAGGTTGTTACACACCATGT
6163705 TTAGGTTGTT
Statistics
Matches: 203, Mismatches: 38, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
43 34 0.17
44 1 0.00
45 167 0.82
46 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (45 bp):
TAGGTTGTTACACACCATGTACAAAAACGTGTGACACGCCATAGT
Found at i:6163575 original size:90 final size:90
Alignment explanation
Indices: 6163417--6163704 Score: 355
Period size: 90 Copynumber: 3.2 Consensus size: 90
6163407 AATTACACAC
* * ** *
6163417 TAGGATGTTACACACCATGTACAGAAACGTATGACACGTCATAGTTAAGTTGTTATACATCATAT
1 TAGGATGTTACACACCATGTACAAAAACGTATGACACGTCATAGTTAAGTTGTTACACGCCATGT
* * *
6163482 ACAAAAACGTGTGACACGCCATGGT
66 ACAAAAACATGTTACACACCATGGT
* * * * * *
6163507 TAGGATGTTACATACCATGTACAAAAACATGTGACACGTCATGGTTAGGATGTTACACGCCATGT
1 TAGGATGTTACACACCATGTACAAAAACGTATGACACGTCATAGTTAAGTTGTTACACGCCATGT
*
6163572 ACAAAAACATGTTACACACCATGAT
66 ACAAAAACATGTTACACACCATGGT
* * * * * *
6163597 TAGGTTGTTACACGCTATGTACAAAAATGTATAACACGCCATAGTTAAGTTGTTACACGCCATGT
1 TAGGATGTTACACACCATGTACAAAAACGTATGACACGTCATAGTTAAGTTGTTACACGCCATGT
6163662 AC--AAACATGTTACACACCATGGT
66 ACAAAAACATGTTACACACCATGGT
* *
6163685 TAGGTTGTTACACGCCATGT
1 TAGGATGTTACACACCATGT
6163705 TTAGGTTGTT
Statistics
Matches: 169, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
88 39 0.23
90 130 0.77
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (90 bp):
TAGGATGTTACACACCATGTACAAAAACGTATGACACGTCATAGTTAAGTTGTTACACGCCATGT
ACAAAAACATGTTACACACCATGGT
Found at i:6163656 original size:21 final size:20
Alignment explanation
Indices: 6163630--6163749 Score: 123
Period size: 21 Copynumber: 5.7 Consensus size: 20
6163620 AAAATGTATA
6163630 ACACGCCATAGTTAAGTTGTT
1 ACACGCCAT-GTTAAGTTGTT
* **
6163651 ACACGCCATGTACAAACATGTT
1 ACACGCCATGT--TAAGTTGTT
* *
6163673 ACACACCATGGTTAGGTTGTT
1 ACACGCCAT-GTTAAGTTGTT
*
6163694 ACACGCCATGTTTAGGTTGTT
1 ACACGCCATG-TTAAGTTGTT
*
6163715 ACACGCCATGGTTAGGTTGTT
1 ACACGCCAT-GTTAAGTTGTT
6163736 ACACGCCATGTTAA
1 ACACGCCATGTTAA
6163750 AAAAAATACT
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.08
21 60 0.71
22 15 0.18
23 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (20 bp):
ACACGCCATGTTAAGTTGTT
Found at i:6163728 original size:42 final size:42
Alignment explanation
Indices: 6163486--6163750 Score: 233
Period size: 45 Copynumber: 6.1 Consensus size: 42
6163476 TCATATACAA
* * * ** *
6163486 AAACGTGTGACACGCCATGGTTAGGATGTTACATACCATGTACAA
1 AAACATGTTACACGCCATGGTTAGGTTGTTACACGCCATGT---T
* * * *
6163531 AAACATGTGACACGTCATGGTTAGGATGTTACACGCCATGTACAA
1 AAACATGTTACACGCCATGGTTAGGTTGTTACACGCCATGT---T
* * * *
6163576 AAACATGTTACACACCATGATTAGGTTGTTACACGCTATGTAC
1 AAACATGTTACACGCCATGGTTAGGTTGTTACACGCCATGT-T
* * * *
6163619 AAAAATGTATAACACGCCATAGTTAAGTTGTTACACGCCATGTAC
1 AAACATGT-T-ACACGCCATGGTTAGGTTGTTACACGCCATGT-T
*
6163664 AAACATGTTACACACCATGGTTAGGTTGTTACACGCCATGTT
1 AAACATGTTACACGCCATGGTTAGGTTGTTACACGCCATGTT
* ***
6163706 TAGGTTGTTACACGCCATGGTTAGGTTGTTACACGCCATGTT
1 AAACATGTTACACGCCATGGTTAGGTTGTTACACGCCATGTT
6163748 AAA
1 AAA
6163751 AAAAATACTG
Statistics
Matches: 189, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
42 38 0.20
43 37 0.20
44 2 0.01
45 112 0.59
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
AAACATGTTACACGCCATGGTTAGGTTGTTACACGCCATGTT
Found at i:6163764 original size:30 final size:29
Alignment explanation
Indices: 6163730--6163907 Score: 119
Period size: 30 Copynumber: 6.3 Consensus size: 29
6163720 CCATGGTTAG
6163730 GTTGTTACACGCCATGTTAAAAAAAATACT
1 GTTGTTACACGCCATGTTAAAAAAAATA-T
*
6163760 GTTGTTACACGCCATG-TACAAAAACA-A-
1 GTTGTTACACGCCATGTTA-AAAAAAATAT
*
6163787 ---GTTACACGTCATGATT-AAAAAAA-A-
1 GTTGTTACACGCCATG-TTAAAAAAAATAT
*
6163811 GTTGTTACACACCATGTTAAAAAAAAAATACT
1 GTTGTTACACGCCATGTT--AAAAAAAATA-T
* * * *
6163843 GTTATTACACACCATGTTGAAAAATAT-T
1 GTTGTTACACGCCATGTTAAAAAAAATAT
* * * *
6163871 GTTGTTACACGTCATATTCAAAAACAT-T
1 GTTGTTACACGCCATGTTAAAAAAAATAT
6163899 -TTGTTACAC
1 GTTGTTACAC
6163908 TTTAATGCCT
Statistics
Matches: 122, Mismatches: 14, Indels: 27
0.75 0.09 0.17
Matches are distributed among these distances:
24 19 0.16
26 3 0.02
27 20 0.16
28 23 0.19
29 10 0.08
30 30 0.25
32 17 0.14
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (29 bp):
GTTGTTACACGCCATGTTAAAAAAAATAT
Found at i:6163837 original size:54 final size:53
Alignment explanation
Indices: 6163733--6163835 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 53
6163723 TGGTTAGGTT
* *
6163733 GTTACACGCCATGTTAAAAAAAATACTGTTGTTACACGCCATGTACAAAAACAA
1 GTTACACGCCATGTTAAAAAAAATAC-GTTGTTACACACCATGTAAAAAAACAA
*
6163787 GTTACACGTCATGATT-AAAAAAA-A-GTTGTTACACACCATGTTAAAAAAA
1 GTTACACGCCATG-TTAAAAAAAATACGTTGTTACACACCATG-TAAAAAAA
6163836 AAATACTGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
51 15 0.34
52 7 0.16
53 1 0.02
54 19 0.43
55 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (53 bp):
GTTACACGCCATGTTAAAAAAAATACGTTGTTACACACCATGTAAAAAAACAA
Found at i:6163893 original size:28 final size:28
Alignment explanation
Indices: 6163834--6163907 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
6163824 ATGTTAAAAA
* * * *
6163834 AAAAATACTGTTATTACACACCATGTTG
1 AAAAATATTGTTGTTACACACCATATTC
**
6163862 AAAAATATTGTTGTTACACGTCATATTC
1 AAAAATATTGTTGTTACACACCATATTC
*
6163890 AAAAACATT-TTGTTACAC
1 AAAAATATTGTTGTTACAC
6163908 TTTAATGCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.35
Consensus pattern (28 bp):
AAAAATATTGTTGTTACACACCATATTC
Found at i:6166403 original size:18 final size:17
Alignment explanation
Indices: 6166343--6166482 Score: 88
Period size: 17 Copynumber: 8.1 Consensus size: 17
6166333 TCCGCGGTTT
*
6166343 CCCCCGCGCCGCGCC-CC
1 CCCCCCCGCC-CGCCGCC
* * *
6166360 CCCACCCGCCGGCCGCA
1 CCCCCCCGCCCGCCGCC
* * *
6166377 GCCCACCGCCCGGCGCC
1 CCCCCCCGCCCGCCGCC
* *
6166394 CCCCCGCCGCGCGCCCCC
1 CCCCC-CCGCCCGCCGCC
*
6166412 GCCCCCACCCCCGCGCCGCC
1 -CCCCC-CCGCC-CGCCGCC
* *
6166432 CCGCCCC-CCCGGC-CC
1 CCCCCCCGCCCGCCGCC
*
6166447 CCCCCCCGCCCCCCGCC
1 CCCCCCCGCCCGCCGCC
6166464 CCGCCCCCGCCCGCCGCC
1 CC-CCCCCGCCCGCCGCC
6166482 C
1 C
6166483 GCGCTTCCAA
Statistics
Matches: 91, Mismatches: 25, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
15 8 0.09
16 10 0.11
17 29 0.32
18 26 0.29
19 12 0.13
20 6 0.07
ACGTcount: A:0.03, C:0.76, G:0.21, T:0.00
Consensus pattern (17 bp):
CCCCCCCGCCCGCCGCC
Found at i:6166408 original size:22 final size:21
Alignment explanation
Indices: 6166390--6166475 Score: 76
Period size: 22 Copynumber: 4.2 Consensus size: 21
6166380 CACCGCCCGG
6166390 CGCCCCCCCGCCGCG-CGCCCC
1 CGCCCCCCCGCCGCGCCG-CCC
*
6166411 CGCCCCCACCCCCGCGCCGCCC
1 CGCCCCC-CCGCCGCGCCGCCC
*
6166433 CGCCCCCCCGGCC-C-CCCCCC
1 CGCCCCCCC-GCCGCGCCGCCC
*
6166453 CG-CCCCCCGCCCCG-C-CCC
1 CGCCCCCCCGCCGCGCCGCCC
6166471 CGCCC
1 CGCCC
6166476 GCCGCCCGCG
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
18 8 0.14
19 10 0.18
20 7 0.12
21 10 0.18
22 19 0.34
23 2 0.04
ACGTcount: A:0.01, C:0.80, G:0.19, T:0.00
Consensus pattern (21 bp):
CGCCCCCCCGCCGCGCCGCCC
Found at i:6166422 original size:25 final size:25
Alignment explanation
Indices: 6166394--6166482 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 25
6166384 GCCCGGCGCC
*
6166394 CCCCCGCCGCGCGCCCCCGCCCCCA
1 CCCCCGCCGCGCGCCCCCGCCCCCG
*
6166419 CCCCCG-CGC-CGCCCCGCCCCCCCGG
1 CCCCCGCCGCGCGCCCC-CGCCCCC-G
* *
6166444 CCCCCCCCCCGC-CCCCCG-CCCCG
1 CCCCCGCCGCGCGCCCCCGCCCCCG
6166467 CCCCCGCC-CGCCGCCC
1 CCCCCGCCGCG-CGCCC
6166483 GCGCTTCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
22 2 0.04
23 15 0.29
24 16 0.31
25 12 0.23
26 6 0.12
27 1 0.02
ACGTcount: A:0.01, C:0.80, G:0.19, T:0.00
Consensus pattern (25 bp):
CCCCCGCCGCGCGCCCCCGCCCCCG
Found at i:6166441 original size:30 final size:28
Alignment explanation
Indices: 6166392--6166465 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 28
6166382 CCGCCCGGCG
* *
6166392 CCCCC-CCGCCGCGCGCCCCCGCCCCCAC
1 CCCCCGCCGCCCCGCCCCCCCGCCCCC-C
*
6166420 CCCCGCGCCGCCCCGCCCCCCCGGCCCCC
1 CCCC-CGCCGCCCCGCCCCCCCGCCCCCC
6166449 CCCCCGCC-CCCCGCCCC
1 CCCCCGCCGCCCCGCCCC
6166466 GCCCCCGCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.22
28 8 0.20
29 6 0.15
30 18 0.44
ACGTcount: A:0.01, C:0.81, G:0.18, T:0.00
Consensus pattern (28 bp):
CCCCCGCCGCCCCGCCCCCCCGCCCCCC
Found at i:6166476 original size:22 final size:22
Alignment explanation
Indices: 6166394--6166484 Score: 83
Period size: 25 Copynumber: 3.8 Consensus size: 22
6166384 GCCCGGCGCC
*
6166394 CCCCCGCCGCGCGCCCCCGCCCCCA
1 CCCCCGCC-CGC-CCCCCG-CCCCG
*
6166419 CCCCCGCGCCGCCCCGCCCCCCCGG
1 CCCCCGC-CCGCCCC-CCGCCCC-G
*
6166444 CCCCCCCCCCGCCCCCCGCCCCG
1 -CCCCCGCCCGCCCCCCGCCCCG
*
6166467 CCCCCGCCCGCCGCCCGC
1 CCCCCGCCCGCCCCCCGC
6166485 GCTTCCAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
22 16 0.29
23 1 0.02
24 13 0.23
25 19 0.34
26 7 0.12
ACGTcount: A:0.01, C:0.79, G:0.20, T:0.00
Consensus pattern (22 bp):
CCCCCGCCCGCCCCCCGCCCCG
Found at i:6166693 original size:19 final size:19
Alignment explanation
Indices: 6166649--6166695 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
6166639 AGCGCCCGGG
* *
6166649 GCGCCG-GCCCCGGAGGGG
1 GCGCCGCGCCCCCGAGGGC
6166667 GCCGGCCGCGCCCCCGAGGGC
1 G-C-GCCGCGCCCCCGAGGGC
6166688 GCGCCGCG
1 GCGCCGCG
6166696 GGGGCGCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 7 0.29
20 5 0.21
21 11 0.46
ACGTcount: A:0.04, C:0.47, G:0.49, T:0.00
Consensus pattern (19 bp):
GCGCCGCGCCCCCGAGGGC
Found at i:6167523 original size:23 final size:23
Alignment explanation
Indices: 6167471--6167525 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
6167461 GCAAGCCAGC
* *
6167471 GCGCCGCGGCGGGCCCACCGCCG
1 GCGCGGCGCCGGGCCCACCGCCG
*
6167494 GCGCGGCGCCGGGCCCAACCGCGG
1 GCGCGGCGCCGGGCCC-ACCGCCG
6167518 GC-CGGCGC
1 GCGCGGCGC
6167526 GGACGGGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.05, C:0.49, G:0.45, T:0.00
Consensus pattern (23 bp):
GCGCGGCGCCGGGCCCACCGCCG
Found at i:6167675 original size:19 final size:19
Alignment explanation
Indices: 6167627--6167679 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
6167617 GGGCCCGGCG
*
6167627 GCCCG-GGCCCCGCGAGAGC
1 GCCCGCGGCCCCGCG-CAGC
* *
6167646 GCCCCCCGCCCCGCGCAGC
1 GCCCGCGGCCCCGCGCAGC
6167665 GCCCGCGG-CCCGCGC
1 GCCCGCGGCCCCGCGC
6167680 GGCCGCCAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 7 0.25
19 13 0.46
20 8 0.29
ACGTcount: A:0.06, C:0.58, G:0.36, T:0.00
Consensus pattern (19 bp):
GCCCGCGGCCCCGCGCAGC
Found at i:6168038 original size:10 final size:11
Alignment explanation
Indices: 6168024--6168053 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
6168014 CGTGCCGGCG
6168024 AGGCGCGGCCC
1 AGGCGCGGCCC
6168035 -GGCGCGGCCC
1 AGGCGCGGCCC
6168045 AGGCGCGGC
1 AGGCGCGGC
6168054 GCGCCGCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.43, G:0.50, T:0.00
Consensus pattern (11 bp):
AGGCGCGGCCC
Found at i:6168714 original size:16 final size:15
Alignment explanation
Indices: 6168682--6168752 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
6168672 GGGGAGATCG
6168682 GCGCGCGGCCGCCGC
1 GCGCGCGGCCGCCGC
* *
6168697 GCGCGCCGGCGGCGGC
1 GCGCG-CGGCCGCCGC
6168713 GCGCG-GGCCG-CGC
1 GCGCGCGGCCGCCGC
* *
6168726 -CGGGCGGGCGCCAGC
1 GCGCGCGGCCGCC-GC
6168741 GCGCGCGCGCCG
1 GCGCGCG-GCCG
6168753 GGGCCGGACC
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
12 3 0.07
13 6 0.14
14 5 0.12
15 7 0.17
16 18 0.43
17 3 0.07
ACGTcount: A:0.01, C:0.46, G:0.52, T:0.00
Consensus pattern (15 bp):
GCGCGCGGCCGCCGC
Found at i:6169037 original size:15 final size:15
Alignment explanation
Indices: 6169017--6169045 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6169007 GGAGGCGTCC
6169017 GCCGCCGGCGCGCGG
1 GCCGCCGGCGCGCGG
6169032 GCCGCCGGCGCGCG
1 GCCGCCGGCGCGCG
6169046 CAGTGTCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.52, T:0.00
Consensus pattern (15 bp):
GCCGCCGGCGCGCGG
Found at i:6169216 original size:21 final size:21
Alignment explanation
Indices: 6169177--6169238 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
6169167 ACCGCCCGTC
* *
6169177 CGCG-GCGGCCGTCGGCGGCG
1 CGCGCGCGGCCGGCGACGGCG
*
6169197 CGCGCGCGGCCGGCGCCGGC-
1 CGCGCGCGGCCGGCGACGGCG
*
6169217 CCCGCGGCGGCCGGCGACGGCG
1 CGCGC-GCGGCCGGCGACGGCG
6169239 ACGAGGGCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.02, C:0.45, G:0.52, T:0.02
Consensus pattern (21 bp):
CGCGCGCGGCCGGCGACGGCG
Found at i:6169780 original size:2 final size:2
Alignment explanation
Indices: 6169773--6169799 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6169763 TATACATTGG
6169773 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6169800 GCTCTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6177138 original size:28 final size:28
Alignment explanation
Indices: 6177106--6177166 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
6177096 GATAATCGGT
*
6177106 AAAGATTTGGAAA-GCCACTTGAATGTGA
1 AAAGATTT-GAAACGCCACTTGAATGCGA
*
6177134 AAAGATTTGAAACGCCACTTGGATGCGA
1 AAAGATTTGAAACGCCACTTGAATGCGA
6177162 AAAGA
1 AAAGA
6177167 AAGGAAGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (28 bp):
AAAGATTTGAAACGCCACTTGAATGCGA
Found at i:6178213 original size:27 final size:28
Alignment explanation
Indices: 6178160--6178213 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
6178150 TTTAACTCAA
6178160 AATAAAAATATTAAAATTTAATTAAATGT
1 AATAAAAATA-TAAAATTTAATTAAATGT
* *
6178189 AATAAAAATA-AAATTTTATTTAAAT
1 AATAAAAATATAAAATTTAATTAAAT
6178214 TTTTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
29 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAAATTTAATTAAATGT
Found at i:6186342 original size:2 final size:2
Alignment explanation
Indices: 6186335--6186372 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6186325 AAAGGATACT
6186335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6186373 ACACTATGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6186883 original size:2 final size:2
Alignment explanation
Indices: 6186876--6186906 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6186866 AAAAGAAATA
6186876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6186907 AGTTTCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6187362 original size:2 final size:2
Alignment explanation
Indices: 6187349--6187384 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6187339 CTTGAATACA
* *
6187349 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6187385 TCAATTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6187730 original size:115 final size:114
Alignment explanation
Indices: 6187610--6187839 Score: 406
Period size: 115 Copynumber: 2.0 Consensus size: 114
6187600 ACTCAATCTA
* * *
6187610 TGCTTCTAAGAATTTGTCATTTGCAAATAGGAAAAAATAAACAGTTGAATATCTTAACACATATC
1 TGCTTCTAAAAATTTATCATTTGCAAATAGGAAAAAATAAACAGTTAAATATCTTAACACATATC
6187675 TAGATAATTTAAGAGATAATAGTTATGAGTAAATGGTGAATAAGAAAATC
66 TAGATAATTTAAGAGATAATAGTTA-GAGTAAATGGTGAATAAGAAAATC
6187725 TGCTTCTAAAAATTTATCATTTGCAAATAGGAAAAAATAAACAGTTAAATATCTTAACACATATC
1 TGCTTCTAAAAATTTATCATTTGCAAATAGGAAAAAATAAACAGTTAAATATCTTAACACATATC
* *
6187790 TAGATAATTTAAGAGGTAGTAGTTAGAGTAAATGGTGAATAAGAAAATC
66 TAGATAATTTAAGAGATAATAGTTAGAGTAAATGGTGAATAAGAAAATC
6187839 T
1 T
6187840 AGCACCAAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
114 25 0.23
115 85 0.77
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (114 bp):
TGCTTCTAAAAATTTATCATTTGCAAATAGGAAAAAATAAACAGTTAAATATCTTAACACATATC
TAGATAATTTAAGAGATAATAGTTAGAGTAAATGGTGAATAAGAAAATC
Found at i:6189402 original size:117 final size:117
Alignment explanation
Indices: 6189194--6189422 Score: 327
Period size: 117 Copynumber: 2.0 Consensus size: 117
6189184 ATACATTAAT
* * * * * *
6189194 GAAGGTTTTGGTAAGCTTTGATACCATTTGTCATATATTTACATTTACAATTGAAAAGTATATTT
1 GAAGGTTTGGGTAAGCTTTGATACCACTTATCATATATTGACAATTACAATTGAAAAATATATTT
* *
6189259 GTAGATTCTGATATCATTTATCTTGACTCTAATATATTTCATGAAAGAGTTC
66 GTAGATTCTGATACCACTTATCTTGACTCTAATATATTTCATGAAAGAGTTC
*
6189311 GAAGGTTTGGGT-AGGTTCTGATACCACTTATCATATATTGACAATTACAATTGAAAAATATATT
1 GAAGGTTTGGGTAAGCTT-TGATACCACTTATCATATATTGACAATTACAATTGAAAAATATATT
* *
6189375 TGTA-AGTTCTGATACCACTTATGTTGACTCTAATATATTTTATGAAAG
65 TGTAGA-TTCTGATACCACTTATCTTGACTCTAATATATTTCATGAAAG
6189423 GATCTTACAT
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
116 5 0.05
117 94 0.95
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (117 bp):
GAAGGTTTGGGTAAGCTTTGATACCACTTATCATATATTGACAATTACAATTGAAAAATATATTT
GTAGATTCTGATACCACTTATCTTGACTCTAATATATTTCATGAAAGAGTTC
Found at i:6190241 original size:12 final size:12
Alignment explanation
Indices: 6190218--6190250 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
6190208 AAGTATTATT
6190218 TTTTTTAGTTTTA
1 TTTTTTA-TTTTA
6190231 TTTTTTATTTTA
1 TTTTTTATTTTA
6190243 TTTTTTAT
1 TTTTTTAT
6190251 CATTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:6191932 original size:17 final size:19
Alignment explanation
Indices: 6191901--6191939 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6191891 AAGTTTTTAA
*
6191901 TTTAAATAATTTTTAAT-T
1 TTTAAATAATATTTAATCT
6191919 TTTAAA-AATATTTAATCT
1 TTTAAATAATATTTAATCT
6191937 TTT
1 TTT
6191940 TATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAAATAATATTTAATCT
Found at i:6192597 original size:17 final size:18
Alignment explanation
Indices: 6192575--6192616 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6192565 GCGACGGCTC
6192575 CCTCTTTCCTTC-CCTCT
1 CCTCTTTCCTTCTCCTCT
* *
6192592 CCTCTTTTCTTCTCTTCT
1 CCTCTTTCCTTCTCCTCT
6192610 CC-CTTTC
1 CCTCTTTC
6192617 TCGTGCCGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (18 bp):
CCTCTTTCCTTCTCCTCT
Found at i:6196920 original size:66 final size:65
Alignment explanation
Indices: 6196850--6196985 Score: 209
Period size: 66 Copynumber: 2.1 Consensus size: 65
6196840 TAATTTATTG
*
6196850 ATTAAATAATTAATCAATATATGTATTAAATTCAATGTTTTGAAAAAAAAATAAATTCAATATTT
1 ATTAAATAATTAATCAATACATGTATTAAATTCAATGTTTTG-AAAAAAAATAAATTCAATATTT
6196915 T
65 T
* * * *
6196916 ATTAATTAATTAATCAATACATGTATTAAGTTTAATGTTTTGAAAAAAAATAAATTCAATGTTTT
1 ATTAAATAATTAATCAATACATGTATTAAATTCAATGTTTTGAAAAAAAATAAATTCAATATTTT
*
6196981 GTTAA
1 ATTAA
6196986 TAAATTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
65 26 0.41
66 38 0.59
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (65 bp):
ATTAAATAATTAATCAATACATGTATTAAATTCAATGTTTTGAAAAAAAATAAATTCAATATTTT
Found at i:6197057 original size:124 final size:124
Alignment explanation
Indices: 6196917--6197163 Score: 413
Period size: 124 Copynumber: 2.0 Consensus size: 124
6196907 CAATATTTTA
* *
6196917 TTAATTAATTAATCAATACATGTATTAAGTTTAATGTTTTGAAAAAAAATAAATTCAATGTTTTG
1 TTAACTAATTAATCAATACATGTATTAAGTTTAATGTTTGGAAAAAAAATAAATTCAATGTTTTG
** *
6196982 TTAATAAATTTATTTTAATTAATGTGAAAATTTTCAATACATGTATTAAGTTCAATGTG
66 TTAATAAATTTATTTTAATTAACATGAAAATTTTCAATACATGCATTAAGTTCAATGTG
*
6197041 TTAACTAATTAATCAATACATGTATTAAGTTTAATGTTTGGAAAATAAATAAATTCAATGTTTTG
1 TTAACTAATTAATCAATACATGTATTAAGTTTAATGTTTGGAAAAAAAATAAATTCAATGTTTTG
* * *
6197106 TTAATAAATTTATTTTAATTAACATGAAATTTTTCAATATATGCATTAAGTTTAATGT
66 TTAATAAATTTATTTTAATTAACATGAAAATTTTCAATACATGCATTAAGTTCAATGT
6197164 TTTGAAAAAA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 114 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (124 bp):
TTAACTAATTAATCAATACATGTATTAAGTTTAATGTTTGGAAAAAAAATAAATTCAATGTTTTG
TTAATAAATTTATTTTAATTAACATGAAAATTTTCAATACATGCATTAAGTTCAATGTG
Done.