Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 2 of 144
Found at i:231490 original size:1 final size:1
Alignment explanation
Indices: 231480--231556 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
231470 TTCATCTTGA
* * ** * * * * * *
231480 TTTTTCTTTTTCTTTTTTTGCTTTTTGTTTTTTTGTTTTTTGTTTTTTTTGTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
231545 TTTTATTTTTTT
1 TTTTTTTTTTTT
231557 CAGGCATAAT
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:231504 original size:8 final size:7
Alignment explanation
Indices: 231480--231555 Score: 66
Period size: 7 Copynumber: 10.7 Consensus size: 7
231470 TTCATCTTGA
*
231480 TTTTTCT
1 TTTTTGT
231487 TTTTCT-T
1 TTTT-TGT
*
231494 TTTTTGC
1 TTTTTGT
231501 TTTTTGTT
1 TTTTTG-T
231509 TTTTTGT
1 TTTTTGT
231516 TTTTTGT
1 TTTTTGT
231523 TTTTT-T
1 TTTTTGT
*
231529 TGTTTGT
1 TTTTTGT
*
231536 TTTTTTT
1 TTTTTGT
*
231543 TGTTTTAT
1 T-TTTTGT
231551 TTTTT
1 TTTTT
231556 TCAGGCATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
6 6 0.10
7 39 0.67
8 13 0.22
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (7 bp):
TTTTTGT
Found at i:231504 original size:14 final size:13
Alignment explanation
Indices: 231480--231556 Score: 73
Period size: 14 Copynumber: 5.3 Consensus size: 13
231470 TTCATCTTGA
*
231480 TTTTTCTTTTTCTT
1 TTTTTGTTTTT-TT
231494 TTTTTGCTTTTTGTT
1 TTTTTG-TTTTT-TT
231509 TTTTTGTTTTTTGTTT
1 TTTTTG--TTTT-TTT
231525 TTTTTGTTTGTTTT
1 TTTTTGTTT-TTTT
231539 TTTTTGTTTTATTT
1 TTTTTGTTTT-TTT
231553 TTTT
1 TTTT
231557 CAGGCATAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.02
14 27 0.49
15 14 0.25
16 12 0.22
17 1 0.02
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:231526 original size:30 final size:27
Alignment explanation
Indices: 231480--231556 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
231470 TTCATCTTGA
* * *
231480 TTTTTCTTTTTCTTTTTTTGCTTTTTGTT
1 TTTTTTTTTTTATTTTTTT--TGTTTGTT
*
231509 TTTTTGTTTTTTGTTTTTTTTGTTTGTT
1 TTTTT-TTTTTTATTTTTTTTGTTTGTT
231537 TTTTTTTGTTTTATTTTTTT
1 TTTTTTT-TTTTATTTTTTT
231557 CAGGCATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.05
28 23 0.55
29 5 0.12
30 12 0.29
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (27 bp):
TTTTTTTTTTTATTTTTTTTGTTTGTT
Found at i:240997 original size:67 final size:67
Alignment explanation
Indices: 240899--241034 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
240889 CAAAAATAGG
240899 TGTTGATTCCAAAATGGCCCCATACTTGGGCGTTTCATTTATCAAAAGAGTCCGTTACAAAAAGT
1 TGTTGATTCCAAAATGGCCCCATACTTGGGCGTTTCATTTATCAAAAGAGTCCGTTACAAAAAGT
240964 TT
66 TT
*
240966 TGTTGATTCCAAAATGGCCCCATACTTGGGCGTTTCATTTATCAAAAGAGTCTGTTACAAAAAGT
1 TGTTGATTCCAAAATGGCCCCATACTTGGGCGTTTCATTTATCAAAAGAGTCCGTTACAAAAAGT
241031 TT
66 TT
241033 TG
1 TG
241035 CCATATTAGC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (67 bp):
TGTTGATTCCAAAATGGCCCCATACTTGGGCGTTTCATTTATCAAAAGAGTCCGTTACAAAAAGT
TT
Found at i:243901 original size:11 final size:11
Alignment explanation
Indices: 243887--243944 Score: 59
Period size: 10 Copynumber: 5.3 Consensus size: 11
243877 TTTTTTTTAA
243887 TTTTTTTCTCT
1 TTTTTTTCTCT
243898 TTTTCTTCTCTCT
1 TTTT-TT-TCTCT
*
243911 TTTTCTTC-CT
1 TTTTTTTCTCT
243921 TTTTTTT-TCT
1 TTTTTTTCTCT
243931 TTTTCTTTC-CT
1 TTTT-TTTCTCT
243942 TTT
1 TTT
243945 CTCCTTCTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 14 0.35
11 14 0.35
12 3 0.08
13 9 0.22
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:243931 original size:14 final size:13
Alignment explanation
Indices: 243893--243930 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
243883 TTAATTTTTT
243893 TCTCTTTTTCTTC
1 TCTCTTTTTCTTC
243906 TCTCTTTTTCTTC
1 TCTCTTTTTCTTC
*
243919 -CT-TTTTTTTTC
1 TCTCTTTTTCTTC
243930 T
1 T
243931 TTTTCTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTCTTTTTCTTC
Found at i:244570 original size:30 final size:29
Alignment explanation
Indices: 244532--244664 Score: 115
Period size: 30 Copynumber: 4.4 Consensus size: 29
244522 ATAGGGCTAC
*
244532 AATGTAATTTATGGAAAGTTAAGGGGTCAA
1 AATGTAATTTATGGAAAGTT-TGGGGTCAA
* * * *
244562 AGTGTAATTTAAAGAAAATTTTGGGGTCAA
1 AATGTAATTT-ATGGAAAGTTTGGGGTCAA
*
244592 AATGTAATTTATAGAAAAGTTTGGGGTCAA
1 AATGTAATTTAT-GGAAAGTTTGGGGTCAA
* * * * *
244622 AATATAATTTTTGAAAAGATTAGAGG-CTAA
1 AATGTAATTTATGGAAAG-TTTGGGGTC-AA
244652 AATGTAATTTATG
1 AATGTAATTTATG
244665 TTTTTTTGAG
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
29 8 0.09
30 70 0.82
31 7 0.08
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
AATGTAATTTATGGAAAGTTTGGGGTCAA
Found at i:244722 original size:7 final size:7
Alignment explanation
Indices: 244712--244754 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
244702 TTAAAACAGA
244712 AAATAAT
1 AAATAAT
*
244719 AAATAAA
1 AAATAAT
244726 AAATAAAAT
1 AAAT--AAT
244735 AAATAAT
1 AAATAAT
244742 AAATAAT
1 AAATAAT
244749 AAATAA
1 AAATAA
244755 AAGCTAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 26 0.81
9 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATAAT
Found at i:244725 original size:4 final size:4
Alignment explanation
Indices: 244712--244755 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
244702 TTAAAACAGA
244712 AAAT -AAT AAAT AAA- AAAT AAAAT AAAT -AAT AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAA
244756 AGCTAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 12 0.34
4 19 0.54
5 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:244738 original size:23 final size:23
Alignment explanation
Indices: 244712--244756 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
244702 TTAAAACAGA
244712 AAATAATAAATAAAAAATAAAAT
1 AAATAATAAATAAAAAATAAAAT
*
244735 AAATAATAAATAATAAATAAAA
1 AAATAATAAATAAAAAATAAAA
244757 GCTAAAACAA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAATAAATAAAAAATAAAAT
Found at i:247287 original size:21 final size:19
Alignment explanation
Indices: 247237--247291 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
247227 CTAGAAAATT
*
247237 TTTAATTTTTT-AACTTTC
1 TTTAATTTTTTAAAATTTC
*
247255 TTTATATATTTTAAGAATTTC
1 TTTA-ATTTTTTAA-AATTTC
247276 TTATAATTTTTTAAAA
1 TT-TAATTTTTTAAAA
247292 AATATAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.13
19 6 0.20
20 3 0.10
21 15 0.50
22 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAATTTTTTAAAATTTC
Found at i:247369 original size:19 final size:19
Alignment explanation
Indices: 247320--247384 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
247310 TTTATAAATA
* * *
247320 TTTTGAAATTTAAAAATTA
1 TTTTGAAATTTTAAATTTT
* *
247339 TTTTGAATTTTTGAATTTT
1 TTTTGAAATTTTAAATTTT
*
247358 TTTTGAAATTTTTTAATTTT
1 TTTTGAAA-TTTTAAATTTT
247378 TTGTTGA
1 TT-TTGA
247385 GAGAGACCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
19 21 0.57
20 12 0.32
21 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (19 bp):
TTTTGAAATTTTAAATTTT
Found at i:247369 original size:20 final size:20
Alignment explanation
Indices: 247339--247384 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
247329 TTAAAAATTA
247339 TTTTG-AATTTTTGAATTTT
1 TTTTGAAATTTTTGAATTTT
*
247358 TTTTGAAATTTTTTAATTTT
1 TTTTGAAATTTTTGAATTTT
247378 TTGTTGA
1 TT-TTGA
247385 GAGAGACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (20 bp):
TTTTGAAATTTTTGAATTTT
Found at i:249138 original size:9 final size:9
Alignment explanation
Indices: 249124--249166 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
249114 TTTGGTTAAA
249124 AATTACCCG
1 AATTACCCG
249133 AATTACCCG
1 AATTACCCG
*
249142 AATTAACCG
1 AATTACCCG
*
249151 AATTAACCG
1 AATTACCCG
249160 AATTACC
1 AATTACC
249167 GAAAAATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:255222 original size:21 final size:19
Alignment explanation
Indices: 255190--255237 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
255180 AATTTTTAAT
* *
255190 TTTTTAACTTTCTTTATATA
1 TTTTTAAATTTC-TTATAAA
255210 TTTTTAGAATTTCTTATAAA
1 TTTTTA-AATTTCTTATAAA
255230 TTTTTAAA
1 TTTTTAAA
255238 AAATATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.72
21 5 0.20
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTAAATTTCTTATAAA
Found at i:255244 original size:35 final size:36
Alignment explanation
Indices: 255211--255284 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
255201 CTTTATATAT
255211 TTTTAGAATTTCTTATAAAT-TTTTAAAAAATATAAA
1 TTTT-GAATTTCTTATAAATATTTTAAAAAATATAAA
* * * *
255247 TTTTGGATTTTTTATAAATATTTTGAAAATTA-AAA
1 TTTTGAATTTCTTATAAATATTTTAAAAAATATAAA
255282 TTT
1 TTT
255285 ATTTTGAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 19 0.58
36 14 0.42
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (36 bp):
TTTTGAATTTCTTATAAATATTTTAAAAAATATAAA
Found at i:255250 original size:37 final size:36
Alignment explanation
Indices: 255204--255308 Score: 97
Period size: 39 Copynumber: 2.8 Consensus size: 36
255194 TAACTTTCTT
* *
255204 TATATATTTTTAGAATTTCTTATAAATTTTTAAAAAA
1 TATAAATTTTT-GAATTTTTTATAAATTTTTAAAAAA
* * *
255241 TATAAA-TTTTGGATTTTTTATAAATATTTTGAAAAT
1 TATAAATTTTTGAATTTTTTATAAAT-TTTTAAAAAA
*
255277 TA-AAATTTATTTTGAATTTTTTAAAAATTTTT
1 TATAAA--T-TTTTGAATTTTTTATAAATTTTT
255309 GTTGAGAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
35 16 0.29
36 14 0.25
37 5 0.09
38 4 0.07
39 17 0.30
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (36 bp):
TATAAATTTTTGAATTTTTTATAAATTTTTAAAAAA
Found at i:261712 original size:20 final size:19
Alignment explanation
Indices: 261684--261735 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
261674 ATGTTCATTC
261684 ATTTATTTATTTATATGTCT
1 ATTTATTTATTTATA-GTCT
* * *
261704 ATTTTTTTATGTTTTAGTTT
1 ATTTATTTAT-TTATAGTCT
261724 ATTTATTTATTT
1 ATTTATTTATTT
261736 GTTATTGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.07
20 21 0.78
21 4 0.15
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTATTTATTTATAGTCT
Found at i:262195 original size:105 final size:106
Alignment explanation
Indices: 261888--262291 Score: 505
Period size: 105 Copynumber: 3.8 Consensus size: 106
261878 TAAGAAAATA
* * *
261888 TTTTGTGTTTGGAAATTCT-AGAAAATGTGCCCTAATGTGCTGGGTTTCGATTTTTTTTTCGTTC
1 TTTTGCGTTTGGAAATT-TGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--TTTTTCTCGTTC
* *
261952 GACCAAATAGCAAAATATCCTATTAAAATTTCAAAGTAAGGCAATG
63 GACCAAATAGCCAAATATCCTTTTAAAATTTC-AA-TAAGGCAATG
* * *
261998 TTTTGCGTTTGGAAATCTGAGAAAACGTGTCCTAATGTGCTGGGTTTCGATTTTTTTTCGTTCGA
1 TTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTTCTCGTTCGA
* * * *
262063 CCAAATAGCTAAATATCCTTTTAAATTTTC-A-AAGGTAATT
65 CCAAATAGCCAAATATCCTTTTAAAATTTCAATAAGGCAATG
* * * *
262103 TTTTGCATTTGGAGATTTGAGAAAACATGCCCTAATGTGCTGGGTTTTGA-TTTTCTCGTTCGAC
1 TTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGAC
*
262167 CAAATAGCCAAATATCCTTTTAATAATTTCAAAATAAGACAATG
66 CAAATAGCCAAATATCCTTTTAA-AATTTC--AATAAGGCAATG
* * *
262211 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGA--TTTCTCGTTGGAC
1 TTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGAC
262274 CAAATAGCCAAATATCCT
66 CAAATAGCCAAATATCCT
262292 CTTATATCTT
Statistics
Matches: 260, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
103 35 0.13
104 5 0.02
105 51 0.20
107 32 0.12
108 50 0.19
109 43 0.17
110 44 0.17
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (106 bp):
TTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGAC
CAAATAGCCAAATATCCTTTTAAAATTTCAATAAGGCAATG
Found at i:262322 original size:108 final size:103
Alignment explanation
Indices: 261888--262298 Score: 441
Period size: 109 Copynumber: 3.9 Consensus size: 103
261878 TAAGAAAATA
* * * *
261888 TTTTGTGTTTGGAAATTCTAGAAAATGTGCCCTAATGTGCTGGGTTTCGATTTTTTTTTCGTTCG
1 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA---TTTTCTCGTTCG
* * * * *
261953 ACCAAATAGCAAAATATCCTATTAAAATTTCAAAGTAAGGCAATG
63 ACCAAATAGCCAAATATCCTTTTATATTTTCAAAGT-A---ATTG
* *
261998 TTTTGCGTTTGGAAA-TCTGAGAAAACGTGTCCTAATGTGCTGGGTTTCGATTTTTTTTCGTTCG
1 TTTTGCGTTTGGAAATTC-GAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--TTTTCTCGTTCG
* *
262062 ACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGGTAATT-
63 ACCAAATAGCCAAATATCCTTTTATATTTTCAAA-GTAATTG
* * * * *
262103 TTTTGCATTTGGAGATTTGAGAAAACATGCCCTAATGTGCTGGGTTTTGATTTTCTCGTTCGACC
1 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCGACC
* * *
262168 AAATAGCCAAATATCCTTTTAATAATTTCAAAATAAGACAATG
66 AAATAGCCAAATATCCTTTT-ATATTTTCAAAGT---A-ATTG
* *
262211 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGA-TTTCTCGTTGGACC
1 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCGACC
*
262275 AAATAGCCAAATATCCTCTTATAT
66 AAATAGCCAAATATCCTTTTATAT
262299 CTTAATCCAC
Statistics
Matches: 263, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
103 34 0.13
104 9 0.03
105 42 0.16
106 7 0.03
107 34 0.13
108 44 0.17
109 48 0.18
110 45 0.17
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (103 bp):
TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCGACC
AAATAGCCAAATATCCTTTTATATTTTCAAAGTAATTG
Found at i:262833 original size:50 final size:51
Alignment explanation
Indices: 262730--262842 Score: 174
Period size: 50 Copynumber: 2.2 Consensus size: 51
262720 GGCCAGACAA
262730 TGGCCGGCACCACCATTATGTAAATTTTTTTTTTACATTTTGGGCTGTCAT
1 TGGCCGGCACCACCATTATGTAAATTTTTTTTTTACATTTTGGGCTGTCAT
* * * *
262781 TGGCCGACACCACCTTTTTGTAAA-TTTTTTTTTACATTTTGGGCTGTTAT
1 TGGCCGGCACCACCATTATGTAAATTTTTTTTTTACATTTTGGGCTGTCAT
*
262831 TGGTCGGCACCA
1 TGGCCGGCACCA
262843 GTATAGGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
50 35 0.62
51 21 0.38
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (51 bp):
TGGCCGGCACCACCATTATGTAAATTTTTTTTTTACATTTTGGGCTGTCAT
Found at i:262860 original size:50 final size:50
Alignment explanation
Indices: 262756--262862 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
262746 TATGTAAATT
* ** * *
262756 TTTTTTTTACATTTTGGGCTGTCATTGGCCGACACCACCTTTTTGTAAAT
1 TTTTTTTTACATTTTGGGCTGTCATTGGCCGACACCACCTATAGGAAAAA
* * * *
262806 TTTTTTTTACATTTTGGGCTGTTATTGGTCGGCACCA-GTATAGGAAGAAA
1 TTTTTTTTACATTTTGGGCTGTCATTGGCCGACACCACCTATAGGAA-AAA
262856 TTTTTTT
1 TTTTTTT
262863 AAAAAAATTG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 4 0.09
50 43 0.91
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.47
Consensus pattern (50 bp):
TTTTTTTTACATTTTGGGCTGTCATTGGCCGACACCACCTATAGGAAAAA
Found at i:263014 original size:110 final size:106
Alignment explanation
Indices: 262872--263435 Score: 398
Period size: 110 Copynumber: 5.2 Consensus size: 106
262862 TAAAAAAATT
* *
262872 GTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAAATTAACATTTTGAAATGTCAT
1 GTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAAATTTACATTTTGAACTGTCAT
*
262937 TGGCCGGCACCAGTATACGAAAAAATAAAAAAAAATTGTTTTTTG
66 TGGCCGACACCAGTATACGAAAAAATAAAAAAAAA----TTTTTG
* ** ** *
262982 GTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTATTTTATTTTTACATTTTGAAT
1 GTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAA----A--AAAAATTTACATTTTGAAC
* *** * * *
263047 TGTCATTGGTCGGTTCCAGTAAACAAAAAAAT-AAAAAAAATTTATG
60 TGTCATTGGCCGACACCAGTATACGAAAAAATAAAAAAAAATTTTTG
* ****** ** *
263093 GT-G-GG-TTGCCAATGGCCGGCGCCACCTTTATGT-AATTTTTTTTTACATTTTGGGCTATCAT
1 GTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAAATTTACATTTTGAACTGTCAT
** *
263154 CAGCCGACACCAGTATACGAAAGAATTTAAAAAAAAATTTGTTTTG
66 TGGCCGACACCAGTATACGAAA-AA-ATAAAAAAAAA--T-TTTTG
* **
263200 GTGGTGGCCTGGCC-ATGGCCGGCACCACCTTTATGTAAAAAAAAA--TACATTTTGGGCTGTCA
1 GTGGTGG-CTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAAATTTACATTTTGAACTGTCA
* *
263262 TTGGCCGACACTAGTATACGAAAAAATTTTAAAAAAAA--TTT-
65 TTGGCCGACACCAGTATACGAAAAAA--TAAAAAAAAATTTTTG
* * * * **
263303 GTGGTAGCTTGCCAATGGCTGACACCACCTTTATGTAAAAAAATATTTTTTTTTACATTTTGGGC
1 GTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAA-A-----ATTTACATTTTGAAC
* ***
263368 TGTCATTGGCCGGCACCAGTATTTTAAAAAATTGAAAAAAAAA--TTTG
60 TGTCATTGGCCGACACCAGTATACGAAAAAA-T-AAAAAAAAATTTTTG
*
263415 GTGGTGGCCTGCCAATGGCCG
1 GTGGTGGCTTGCCAATGGCCG
263436 TCATTAAACT
Statistics
Matches: 365, Mismatches: 59, Indels: 58
0.76 0.12 0.12
Matches are distributed among these distances:
101 34 0.09
102 7 0.02
103 34 0.09
104 12 0.03
106 1 0.00
107 8 0.02
108 29 0.08
109 49 0.13
110 62 0.17
111 62 0.17
112 18 0.05
114 1 0.00
115 8 0.02
116 40 0.11
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (106 bp):
GTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAAATTTACATTTTGAACTGTCAT
TGGCCGACACCAGTATACGAAAAAATAAAAAAAAATTTTTG
Found at i:263354 original size:218 final size:219
Alignment explanation
Indices: 262813--263435 Score: 606
Period size: 218 Copynumber: 2.9 Consensus size: 219
262803 AATTTTTTTT
* * * *
262813 TACATTTTGGGCTGTTATTGGTCGGCACCAGTATAGGAAGAAATTTTTTTAAAAAAA-TTGTGGT
1 TACATTTTGGGCTGTCATTGGTCGGCACCAGTATACGAA-AAA-ATTTTAAAAAAAATTTGTGGT
* * ***
262877 GGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAA-A---ATTAACATTTTGAAATGTCATT
64 GGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATATTTTTTTACATTTTGGGCTGTCATT
* *
262938 GGCCGGCACCAGTATACGAAAAA-ATAAAAAAAAATTGTTTTTTGGTGGTGGCCTGCCAATGGCC
129 GGCCGGCACCAGTATACGAAAAATTTAAAAAAAAATT-TGTTTTGGTGGTGGCCTGCCAATGGCC
****
263002 GGCACCACCTTTATGTAAATTTTATTTTATTTT
193 GGCACCACCTTTATGTAAA---TA---TAAAAA
*** ** * * *
263035 TACATTTTGAATTGTCATTGGTCGGTTCCAGTAAAC-AAAAAA--ATAAAAAAAATTTATGGTGG
1 TACATTTTGGGCTGTCATTGGTCGGCACCAGTATACGAAAAAATTTTAAAAAAAATTTGTGGTGG
* * * * **
263097 GTTGCCAATGGCCGGCGCCACCTTTATGT-----AATTTTTTTTTACATTTTGGGCTATCATCAG
66 CTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATATTTTTTTACATTTTGGGCTGTCATTGG
*
263157 CCGACACCAGTATACGAAAGAATTTAAAAAAAAATTTGTTTTGGTGGTGGCCTGGCC-ATGGCCG
131 CCGGCACCAGTATACGAAA-AATTTAAAAAAAAATTTGTTTTGGTGGTGGCCT-GCCAATGGCCG
263221 GCACCACCTTTATGTAAA-A-AAAAA
194 GCACCACCTTTATGTAAATATAAAAA
* * * *
263245 TACATTTTGGGCTGTCATTGGCCGACACTAGTATACGAAAAAATTTTAAAAAAAATTTGTGGTAG
1 TACATTTTGGGCTGTCATTGGTCGGCACCAGTATACGAAAAAATTTTAAAAAAAATTTGTGGTGG
* *
263310 CTTGCCAATGGCTGACACCACCTTTATGTAAAAAAATATTTTTTTTTACATTTTGGGCTGTCATT
66 CTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATA--TTTTTTTACATTTTGGGCTGTCATT
*** *
263375 GGCCGGCACCAGTATTTTAAAAAATTGAAAAAAAAA-----TTTGGTGGTGGCCTGCCAATGGCC
129 GGCCGGCACCAGTA-TACGAAAAATTTAAAAAAAAATTTGTTTTGGTGGTGGCCTGCCAATGGCC
263435 G
193 G
263436 TCATTAAACT
Statistics
Matches: 326, Mismatches: 55, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
210 28 0.09
211 6 0.02
213 44 0.13
214 4 0.01
215 21 0.06
217 42 0.13
218 81 0.25
219 15 0.05
220 51 0.16
221 6 0.02
222 28 0.09
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (219 bp):
TACATTTTGGGCTGTCATTGGTCGGCACCAGTATACGAAAAAATTTTAAAAAAAATTTGTGGTGG
CTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATATTTTTTTACATTTTGGGCTGTCATTGG
CCGGCACCAGTATACGAAAAATTTAAAAAAAAATTTGTTTTGGTGGTGGCCTGCCAATGGCCGGC
ACCACCTTTATGTAAATATAAAAA
Found at i:264238 original size:52 final size:53
Alignment explanation
Indices: 264166--264267 Score: 172
Period size: 52 Copynumber: 1.9 Consensus size: 53
264156 ATTAACAGGA
*
264166 AAAAATAAAAAGAAATATTTACAGAATAATTTTAAA-TAATTAAATAATTATTT
1 AAAAATAAAAAGAAATATTTACAGAATAATTTTAAATTAAGTAAA-AATTATTT
264219 AAAAAT-AAAAGAAATATTTACAGAATAATTTTAAATTAAGTAAAAATTA
1 AAAAATAAAAAGAAATATTTACAGAATAATTTTAAATTAAGTAAAAATTA
264268 ATAGAAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 34 0.72
53 13 0.28
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (53 bp):
AAAAATAAAAAGAAATATTTACAGAATAATTTTAAATTAAGTAAAAATTATTT
Found at i:265608 original size:218 final size:217
Alignment explanation
Indices: 265212--265984 Score: 957
Period size: 215 Copynumber: 3.6 Consensus size: 217
265202 AATTGGCAAA
*
265212 CCACCACC-AATTTTTTTT--AATTTTTTCGTATACTAGTGCTGGCCAATGACAGCCCAAAATGT
1 CCACCACCAAATTTTTTTTAAAATTTTTTCGTATACTGGTGCTGGCCAATGACAGCCCAAAATGT
** * *
265274 AAAATAAAAA--A-AATTTACATAAAGTTGGTGCCGACCATTGGCAGGCCACCACC-AAATTTTT
66 AAAA-AAAAATTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTT
** *
265335 TTTTTATTTTTTCGTATACTGGTGCCGGCCAATGACAGTTCAAAATGTAAAATTTTTTTACATAA
130 TTTAAATTTTTTCGTATACTGGTGCCGGCCAATGACAGCTCAAAATGTAAAATTTTTTTACATAA
265400 AGGTGGTGCCGGCCATTTGCAGG
195 AGGTGGTGCCGGCCATTTGCAGG
*
265423 CCACCACCGAATTTTTTTTAAAAATTTTTTCGTATACTGGTG-TCGGCCAATGACAGCCCAAAAT
1 CCACCACCAAATTTTTTTT-AAAATTTTTTCGTATACTGGTGCT-GGCCAATGACAGCCCAAAAT
*
265487 GTAAAAAAAAAACTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTT
64 GT-AAAAAAAAATTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTT
* * * * *
265552 TTTTTAAATTTTTTCGTATATTGGTGCCGGCTAATGACAGCCCAAAATGTAAATTTTTTTTATAT
128 TTTTTAAATTTTTTCGTATACTGGTGCCGGCCAATGACAGCTCAAAATGTAAAATTTTTTTACAT
*
265617 AAAGGTGGTGCCGACCA-TTGCCAGG
193 AAAGGTGGTGCCGGCCATTTG-CAGG
* ****** * * **
265642 TCACCA-CAAAAAAAAATTAAAA-GTTTTCATATACTGGTGCAAGCCAATGACAGCCCAAAATGT
1 CCACCACCAAATTTTTTTTAAAATTTTTTCGTATACTGGTGCTGGCCAATGACAGCCCAAAATGT
*
265705 AAAAAAAAATTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAAGCCACCACCAAAA-TTTTT
66 AAAAAAAAATTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTT
* * ****
265769 TTAAATTTTTTCGTATACTGATGCCGGCCAATGACAACTCAAAATGTAAAAAAAAAATTTACATA
131 TTAAATTTTTTCGTATACTGGTGCCGGCCAATGACAGCTCAAAATGT--AAAATTTTTTTACATA
* *
265834 AAGGTGGTGCCGGCCATTGGCAAG
194 AAGGTGGTGCCGGCCATTTGCAGG
* * * *
265858 CCACCACCAAATTTTTTTTTAAATTTTTTCGTACACTGGTGCTGGCCAATGACAACCCAAAAAGT
1 CCACCACCAAATTTTTTTTAAAATTTTTTCGTATACTGGTGCTGGCCAATGACAGCCCAAAATGT
*** * * *
265923 ---AAATTTTTGTTTTTTACATAAAGGTGGTGCCGGCTA-TGCCAGGCCACCACCAAAATTTTTT
66 AAAAAAAAATTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTT
265984 T
131 T
265985 CCCTGTATAC
Statistics
Matches: 480, Mismatches: 64, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
211 8 0.02
212 10 0.02
214 65 0.14
215 140 0.29
216 73 0.15
217 16 0.03
218 80 0.17
219 88 0.18
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (217 bp):
CCACCACCAAATTTTTTTTAAAATTTTTTCGTATACTGGTGCTGGCCAATGACAGCCCAAAATGT
AAAAAAAAATTATTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTT
TTAAATTTTTTCGTATACTGGTGCCGGCCAATGACAGCTCAAAATGTAAAATTTTTTTACATAAA
GGTGGTGCCGGCCATTTGCAGG
Found at i:267218 original size:24 final size:24
Alignment explanation
Indices: 267191--267242 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
267181 TTAGTAAGTC
*
267191 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
267215 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
267239 AAAT
1 AAAT
267243 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:269224 original size:26 final size:26
Alignment explanation
Indices: 269176--269225 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
269166 TAATTAATGC
**
269176 AATTAAAAATTAAATATTTAAAATTT
1 AATTAAAAATTAAATATGCAAAATTT
* *
269202 AATTAAATATTAAATGTGCAAAAT
1 AATTAAAAATTAAATATGCAAAAT
269226 CACACATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (26 bp):
AATTAAAAATTAAATATGCAAAATTT
Found at i:272274 original size:29 final size:31
Alignment explanation
Indices: 272207--272276 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
272197 TTAAATTAGT
* *
272207 AATGGTAAAATTGTACTTTGATCCTCTCAAA
1 AATGATAAAATTGTAATTTGATCCTCTCAAA
* *
272238 AATGATAAAATT-TAATTTGAT-CTTTTAAA
1 AATGATAAAATTGTAATTTGATCCTCTCAAA
*
272267 AATTATAAAA
1 AATGATAAAA
272277 AACTAACTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 15 0.44
30 8 0.24
31 11 0.32
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (31 bp):
AATGATAAAATTGTAATTTGATCCTCTCAAA
Found at i:274411 original size:21 final size:22
Alignment explanation
Indices: 274385--274428 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
274375 TATTTATGAT
*
274385 TTGACTCCATTGTTCAT-GGAC
1 TTGACTCCATTATTCATAGGAC
274406 TTGACTCCATTATTCATAGGAC
1 TTGACTCCATTATTCATAGGAC
274428 T
1 T
274429 AATCTCTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (22 bp):
TTGACTCCATTATTCATAGGAC
Found at i:277434 original size:13 final size:13
Alignment explanation
Indices: 277416--277441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
277406 TGTTGAGTTC
277416 TTTAGTTAATTAT
1 TTTAGTTAATTAT
277429 TTTAGTTAATTAT
1 TTTAGTTAATTAT
277442 AGTTTAAATA
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:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTAGTTAATTAT
Found at i:282465 original size:30 final size:28
Alignment explanation
Indices: 282424--282505 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 28
282414 TTTTAAGATT
* *
282424 TTTATTATTTTTTCTAATTTTTACTAAAA
1 TTTAATATTTTTT-TAATTTTTAATAAAA
282453 TTTAAATATTTTTTTATATTTTTAATAAAA
1 TTT-AATATTTTTTTA-ATTTTTAATAAAA
* *
282483 TTTAATAATTTTTATAAATTTTA
1 TTTAAT-ATTTTTTTAATTTTTA
282506 TTGAATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 14 0.30
30 32 0.70
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTAATATTTTTTTAATTTTTAATAAAA
Found at i:282494 original size:19 final size:20
Alignment explanation
Indices: 282472--282515 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
282462 TTTTTTATAT
282472 TTTTAATAAAATTTAAT-AA
1 TTTTAATAAAATTTAATGAA
* * *
282491 TTTTTATAAATTTTATTGAA
1 TTTTAATAAAATTTAATGAA
282511 TTTTA
1 TTTTA
282516 TTTGTTATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTAATAAAATTTAATGAA
Found at i:285569 original size:74 final size:73
Alignment explanation
Indices: 285446--285582 Score: 179
Period size: 73 Copynumber: 1.9 Consensus size: 73
285436 CTTGTTTAGT
285446 AGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTGGCG
1 AGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTGGCG
285511 TTTGGAGA
66 TTTGGAGA
* * * * * *
285519 AGCGTCGCTAAATTTCTTAACCAAAACT-CAGCGTTTTGGTCTTG-ATGTATACTATAGTTAGTG
1 AGCGCCGCAAAATATCTTAACCAAAA-TGCAGAG-TTTGGTCTTGTA-GTATACTAGAATTAGTG
285582 G
63 G
285583 TGCTTACTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
73 28 0.51
74 27 0.49
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (73 bp):
AGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTGGCG
TTTGGAGA
Found at i:285624 original size:188 final size:189
Alignment explanation
Indices: 285274--285626 Score: 426
Period size: 188 Copynumber: 1.9 Consensus size: 189
285264 CCATATATGA
* * ** *
285274 TAACCAAAACGCAGAGTTTTGATCTTGATGTAGATTAGATTTAGTGGCGTTTATTAGAAGTGCCG
1 TAACCAAAACGCAGAGTTTTGATCTTGATGTAGACTAGAATTAGTGGCGTTTAGGAGAAGCGCCG
285339 CAAAAAATCTTAACCAAAACGCAGCATTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAG
66 CAAAAAATCTTAACCAAAACGCAGCATTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAG
**
285404 AAAAATGCCGCTAAAGCGTAACATTAGCGGCGCTTGTTTAGTAGCGCCGCAAAATATCT
131 AAAAATGCCGCTAAAGAATAACATTAGCGGCGCTTGTTTAGTAGCGCCGCAAAATATCT
* * * *
285463 TAACCAAAATGCAGAG-TTTGGTCTTG-TAGTATACTAGAATTAGTGGCGTTT-GGAGAAGCGTC
1 TAACCAAAACGCAGAGTTTTGATCTTGAT-GTAGACTAGAATTAGTGGCGTTTAGGAGAAGCGCC
* ** * * * * * * *
285525 GCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAGTTAGTGGTGCTTAC
65 GCAAAAAATCTTAACCAAAACGCAGCATTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTA-
* * **
285590 TAG-AAAATGCCGCTAAATAATAGTATTAGCGGCGCTT
128 GAGAAAAATGCCGCTAAAGAATAACATTAGCGGCGCTT
285627 TGAGATAACC
Statistics
Matches: 136, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
187 58 0.43
188 61 0.45
189 17 0.12
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (189 bp):
TAACCAAAACGCAGAGTTTTGATCTTGATGTAGACTAGAATTAGTGGCGTTTAGGAGAAGCGCCG
CAAAAAATCTTAACCAAAACGCAGCATTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAG
AAAAATGCCGCTAAAGAATAACATTAGCGGCGCTTGTTTAGTAGCGCCGCAAAATATCT
Found at i:285905 original size:115 final size:114
Alignment explanation
Indices: 285515--285905 Score: 337
Period size: 115 Copynumber: 3.4 Consensus size: 114
285505 GTGGCGTTTG
* * * * * *
285515 GAGAAGCGTCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAGTTAG
1 GAGAAGCGCCGCAAAATATCTTAACCAAAACGCA-CGTTTTGGTCTTGATGTATACTAGAATTAG
* * ** * **
285580 TGGTGCTTACTAGAAAAT-GCCGCTAAATAATAGTATTAGCGGCGCTTTGA
65 TGGCGCTTACGAG-AAATCGCCGCTAAAGCATACTATTAGCGGCGCTTTTT
* * * * * * * ** *
285630 GATAACCGCTGTAAGATATGC--ACACCAAAGCGCA-GAGTTTGGTCTTGGGGTATATTAGAATT
1 GAGAAGCGCCGCAAAATAT-CTTA-ACCAAAACGCACG-TTTTGGTCTTGATGTATACTAGAATT
* * *
285692 AGTGGCGCTTATG-GATAAACGCCGCAAAAGCATACTATTAGCGGCGCGTTTTT
63 AGTGGCGCTTACGAGA-AATCGCCGCTAAAGCATACTATTAGCGGCGC-TTTTT
* * * **
285745 -AGAAGCGCCGCAAAATATATTAACCAAAACACTGCGTTTAAGTCTTGATGTATACTAGAATTAG
1 GAGAAGCGCCGCAAAATATCTTAACCAAAACGC-ACGTTTTGGTCTTGATGTATACTAGAATTAG
* *
285809 TGGCG-TTCACGAGAAATCGCCGCTAAAGCATATTATTAACGGCGCTTTTT
65 TGGCGCTT-ACGAGAAATCGCCGCTAAAGCATACTATTAGCGGCGCTTTTT
*
285859 GGGAAGCGCCGCAAAATATCTTAACCAAAACGCACAGTTTTGGTCTT
1 GAGAAGCGCCGCAAAATATCTTAACCAAAACGCAC-GTTTTGGTCTT
285906 AACCATGCAT
Statistics
Matches: 210, Mismatches: 52, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
112 1 0.00
113 4 0.02
114 83 0.40
115 118 0.56
116 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (114 bp):
GAGAAGCGCCGCAAAATATCTTAACCAAAACGCACGTTTTGGTCTTGATGTATACTAGAATTAGT
GGCGCTTACGAGAAATCGCCGCTAAAGCATACTATTAGCGGCGCTTTTT
Found at i:286230 original size:7 final size:7
Alignment explanation
Indices: 286215--286271 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
286205 TCATTATGGT
*
286215 GTTTTGG
1 GTTTAGG
286222 GTTTAGG
1 GTTTAGG
*
286229 GTTTAAGA
1 GTTT-AGG
*
286237 GTTTGGG
1 GTTTAGG
*
286244 GTTTAAG
1 GTTTAGG
*
286251 ATTTAGG
1 GTTTAGG
*
286258 GTTTGGG
1 GTTTAGG
286265 GTTTAGG
1 GTTTAGG
286272 CTGCTTTAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:286243 original size:21 final size:21
Alignment explanation
Indices: 286215--286271 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
286205 TCATTATGGT
* *
286215 GTTTTGGGTTTAGGGTTTAAGA
1 GTTTGGGGTTTAGGATTT-AGA
* *
286237 GTTTGGGGTTTAAGATTTAGG
1 GTTTGGGGTTTAGGATTTAGA
286258 GTTTGGGGTTTAGG
1 GTTTGGGGTTTAGG
286272 CTGCTTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (21 bp):
GTTTGGGGTTTAGGATTTAGA
Found at i:286261 original size:14 final size:15
Alignment explanation
Indices: 286222--286261 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
286212 GGTGTTTTGG
286222 GTTTAGGGTTTAAGA
1 GTTTAGGGTTTAAGA
*
286237 GTTTGGGGTTTAAGA
1 GTTTAGGGTTTAAGA
286252 -TTTAGGGTTT
1 GTTTAGGGTTT
286262 GGGGTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (15 bp):
GTTTAGGGTTTAAGA
Found at i:287518 original size:44 final size:44
Alignment explanation
Indices: 287455--287545 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
287445 GTTGAATAAT
287455 CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
1 CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
* * *
287499 CTTCTTGTCGAATTTCTTGAAATCCCAAATCCCTAAATCGCCTC
1 CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
287543 CTT
1 CTT
287546 TCTCCTTCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.34
Consensus pattern (44 bp):
CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
Found at i:289240 original size:9 final size:9
Alignment explanation
Indices: 289219--289275 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
289209 TTAAAGTTCA
289219 AATTT-CAT
1 AATTTACAT
*
289227 AATTTACGT
1 AATTTACAT
289236 AATTTACAT
1 AATTTACAT
*
289245 AACTTACAT
1 AATTTACAT
289254 AA-TT-CAT
1 AATTTACAT
*
289261 AACTTACAT
1 AATTTACAT
289270 AATTTA
1 AATTTA
289276 AATTTATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
7 5 0.12
8 9 0.21
9 28 0.67
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (9 bp):
AATTTACAT
Found at i:289263 original size:16 final size:16
Alignment explanation
Indices: 289222--289273 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
289212 AAGTTCAAAT
* *
289222 TTCATAATTTACGTAA
1 TTCATAACTTACATAA
289238 TTTACATAACTTACATAA
1 -TT-CATAACTTACATAA
289256 TTCATAACTTACATAA
1 TTCATAACTTACATAA
289272 TT
1 TT
289274 TAAATTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 16 0.50
17 4 0.12
18 12 0.38
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:289407 original size:23 final size:22
Alignment explanation
Indices: 289357--289420 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
289347 TTAAAAATTG
289357 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
289380 CTACATACATAAACTTACAT---
1 ATACATACAT-AACTTACATAAC
*
289400 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
289421 TTAAATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 2 0.06
22 5 0.15
23 13 0.38
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:290544 original size:21 final size:21
Alignment explanation
Indices: 290511--290577 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
290501 AACTTAAAGT
*
290511 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
290532 AGCA-GCTGCAGCGAGGGAAGC
1 AG-AGGCTGCAGCGAGGGAAGC
*
290553 AGAGGCTGCAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
290574 AGAG
1 AGAG
290578 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.46, T:0.03
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGC
Found at i:290957 original size:42 final size:42
Alignment explanation
Indices: 290903--291094 Score: 224
Period size: 42 Copynumber: 4.6 Consensus size: 42
290893 AAAAGCGCAA
* * * *
290903 CTAAAGAACATGTTCTTTAGTGGCGTTTAGAAAGAAACACCG
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCG
* *
290945 CTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACGCCG
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCG
* * * *
290987 CTAAAGACCATGTTCTTTAGAGGCGCTTATAAAAAAACATCT
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCG
* **
291029 CTAAAGACCATGTTCTTTAGCGGCGCTTA-AGGAAAAATGCCG
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAACACCG
* * *
291071 CTAAAGAACATGATCTTTTGCGGC
1 CTAAAGACCATGTTCTTTAGCGGC
291095 ATTTTTCTCT
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 1 0.01
42 127 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCG
Found at i:291044 original size:84 final size:84
Alignment explanation
Indices: 290903--291088 Score: 257
Period size: 84 Copynumber: 2.2 Consensus size: 84
290893 AAAAGCGCAA
* * *
290903 CTAAAGAACATGTTCTTTAGTGGCGTTTAGAAAGAAACACCGCTAAAGACCATGTTCTTTAGCGA
1 CTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAGACCATGTTCTTTAGCGA
290968 CGCTT-AGAAAAAAACGCCG
66 CGCTTAAG-AAAAAACGCCG
* * * * *
290987 CTAAAGACCATGTTCTTTAGAGGCGCTTATAAAAAAACATCTCTAAAGACCATGTTCTTTAGCGG
1 CTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAGACCATGTTCTTTAGCGA
* *
291052 CGCTTAAGGAAAAATGCCG
66 CGCTTAAGAAAAAACGCCG
*
291071 CTAAAGAACATGATCTTT
1 CTAAAGAACATGTTCTTT
291089 TGCGGCATTT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 87 0.98
85 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (84 bp):
CTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAGACCATGTTCTTTAGCGA
CGCTTAAGAAAAAACGCCG
Found at i:292959 original size:22 final size:19
Alignment explanation
Indices: 292932--292982 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
292922 TAAAAAATCC
292932 ATTTTTTAAATTATTATCAAT
1 ATTTTTTAAA-T-TTATCAAT
*
292953 ATGTTTTAAATTTATCAAT
1 ATTTTTTAAATTTATCAAT
292972 ATTATTTTAAA
1 ATT-TTTTAAA
292983 ATATATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 8 0.30
21 9 0.33
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAATTTATCAAT
Found at i:294262 original size:30 final size:31
Alignment explanation
Indices: 294228--294291 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
294218 TCCATATTTA
294228 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
294258 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
294289 TGG
1 TGG
294292 CATAAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:294268 original size:15 final size:16
Alignment explanation
Indices: 294226--294276 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
294216 CATCCATATT
294226 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
294242 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
294257 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
294272 TATGG
1 TATGG
294277 GTATCGAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:297713 original size:18 final size:18
Alignment explanation
Indices: 297682--297721 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
297672 ATAAAGTTCT
297682 TAAATATATAAAGGTATA
1 TAAATATATAAAGGTATA
297700 TAAATCATAT-AAGGTATA
1 TAAAT-ATATAAAGGTATA
297718 -AAAT
1 TAAAT
297722 GTAGTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (18 bp):
TAAATATATAAAGGTATA
Found at i:301272 original size:25 final size:25
Alignment explanation
Indices: 301238--301288 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
301228 ATATTTATGG
301238 AAAGTCAAAGATATGGGAATCAAAT
1 AAAGTCAAAGATATGGGAATCAAAT
*
301263 AAAGTCAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATGGGAATCAAAT
301288 A
1 A
301289 TAGGAAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.22
Consensus pattern (25 bp):
AAAGTCAAAGATATGGGAATCAAAT
Found at i:301299 original size:30 final size:27
Alignment explanation
Indices: 301234--301313 Score: 110
Period size: 30 Copynumber: 2.9 Consensus size: 27
301224 ATCCATATTT
*
301234 ATGGAAAGTCAAAGATATGGGAATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
301261 AT--AAAGTCAAAGATATGGGTATCAAA
1 ATGGAAAGTCAAAGATATGGGTATC-AA
301287 TATAGGAAAGTCAAAGATATGGGTATC
1 -AT-GGAAAGTCAAAGATATGGGTATC
301314 GAGATATTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 20 0.43
26 2 0.04
27 4 0.09
30 21 0.45
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.23
Consensus pattern (27 bp):
ATGGAAAGTCAAAGATATGGGTATCAA
Found at i:301475 original size:2 final size:2
Alignment explanation
Indices: 301468--301514 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
301458 AAGGCATTTT
* * *
301468 TC TC TC TC TC TT TC TC TC TC TC TC TC TC CC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
301510 TC TC T
1 TC TC T
301515 TTATAAATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:301627 original size:2 final size:2
Alignment explanation
Indices: 301620--301666 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
301610 AAGGCATTTT
* * *
301620 TC TC TC TC TC TT TC TC TC TC TC TC TC TC CC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
301662 TC TC T
1 TC TC T
301667 TTATAAATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:301680 original size:152 final size:153
Alignment explanation
Indices: 301440--301743 Score: 583
Period size: 152 Copynumber: 2.0 Consensus size: 153
301430 TGTATCTCAT
301440 ATTTGCCATTCTCTACTTAAGGCATTTTTCTCTCTCTCTTTCTCTCTCTCTCTCTCCCCCTCTCT
1 ATTTGCCATTCTCTACTTAAGGCATTTTTCTCTCTCTCTTTCTCTCTCTCTCTCTCCCCCTCTCT
301505 CTCTCTCTCTTTATAAATTCTCACTTGTATTTTGGAGTGAAATATATTTGGTAG-GCCCGAGGAC
66 CTCTCTCTCTTTATAAATTCTCACTTGTATTTTGGAGTGAAATATATTTGGTAGTGCCCGAGGAC
* *
301569 GTAGGCAAAATTTGCTGAACCTC
131 GTAGGAAAAATTCGCTGAACCTC
301592 ATTTGCCATTCTCTACTTAAGGCATTTTTCTCTCTCTCTTTCTCTCTCTCTCTCTCCCCCTCTCT
1 ATTTGCCATTCTCTACTTAAGGCATTTTTCTCTCTCTCTTTCTCTCTCTCTCTCTCCCCCTCTCT
301657 CTCTCTCTCTTTATAAATTCTCACTTGTATTTTGGAGTGAAATATATTTGGTAGTGCCCGAGGAC
66 CTCTCTCTCTTTATAAATTCTCACTTGTATTTTGGAGTGAAATATATTTGGTAGTGCCCGAGGAC
301722 GTAGGAAAAATTCGCTGAACCT
131 GTAGGAAAAATTCGCTGAACCT
301744 TGTTAAATTC
Statistics
Matches: 149, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
152 119 0.80
153 30 0.20
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (153 bp):
ATTTGCCATTCTCTACTTAAGGCATTTTTCTCTCTCTCTTTCTCTCTCTCTCTCTCCCCCTCTCT
CTCTCTCTCTTTATAAATTCTCACTTGTATTTTGGAGTGAAATATATTTGGTAGTGCCCGAGGAC
GTAGGAAAAATTCGCTGAACCTC
Found at i:312883 original size:29 final size:30
Alignment explanation
Indices: 312827--312884 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
312817 CGTTTTGCTG
** * *
312827 GAAAAAGTTTAAAATTAATTTTAGAAAAAT
1 GAAAAAGTTTAAAAGAAATTTAAAAAAAAT
312857 GAAAAAG-TTAAAAGAAATTTAAAAAAAA
1 GAAAAAGTTTAAAAGAAATTTAAAAAAAA
312885 AGTGATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (30 bp):
GAAAAAGTTTAAAAGAAATTTAAAAAAAAT
Found at i:316947 original size:15 final size:15
Alignment explanation
Indices: 316924--316959 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
316914 AATGCAAATG
316924 ACAAT-ATAACAATA
1 ACAATAATAACAATA
*
316938 ACAATAATAACAATC
1 ACAATAATAACAATA
316953 ACAATAA
1 ACAATAA
316960 ATATAACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (15 bp):
ACAATAATAACAATA
Found at i:324567 original size:49 final size:48
Alignment explanation
Indices: 324511--324616 Score: 187
Period size: 49 Copynumber: 2.2 Consensus size: 48
324501 ATTGAAATAT
*
324511 CAATACATAATGTGAAAGATACAATTCGTAATCTAAATACATATTGAGG
1 CAATACATAATGTGAAAGATACAATTCGTAATCGAAATACATATTGA-G
324560 CAATACATAATGTGAAAGATACAATTCGTAATCGAAATACATATTGAG
1 CAATACATAATGTGAAAGATACAATTCGTAATCGAAATACATATTGAG
324608 CAATA-ATAA
1 CAATACATAA
324617 ACAAGGGATA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
47 4 0.07
48 6 0.11
49 46 0.82
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (48 bp):
CAATACATAATGTGAAAGATACAATTCGTAATCGAAATACATATTGAG
Found at i:325205 original size:3 final size:3
Alignment explanation
Indices: 325197--325221 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
325187 TAAAAGGAGA
325197 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
325222 GGATTAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:325257 original size:6 final size:6
Alignment explanation
Indices: 325246--325293 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
325236 ATTGACATTC
* *
325246 AAAAAT AAAAAT AAAAAT AAAAAT AAAACATT ACAAAT AGAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAAAAT AAAA
325294 GGAAAAGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 31 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:326005 original size:13 final size:13
Alignment explanation
Indices: 325987--326011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
325977 AAATGAAAAG
325987 AAAATAAAAGGAA
1 AAAATAAAAGGAA
326000 AAAATAAAAGGA
1 AAAATAAAAGGA
326012 TCTCTTTTTC
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAAATAAAAGGAA
Found at i:326856 original size:44 final size:43
Alignment explanation
Indices: 326808--326907 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 43
326798 TTTTAATCCG
**
326808 CTCCACTGTAATTTCA-GGAAGATAGGATTAGTGGCTTCAATATA
1 CTCCACTGTAATTT-AGGGAAGA-AAAATTAGTGGCTTCAATATA
* * * * *
326852 CTCCATTGTAACCTTAGGGAGGAAAAATTATTGGCTTCAATGTA
1 CTCCACTGTAA-TTTAGGGAAGAAAAATTAGTGGCTTCAATATA
326896 CTCCACTGTAAT
1 CTCCACTGTAAT
326908 CACAGGGAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
44 38 0.84
45 7 0.16
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (43 bp):
CTCCACTGTAATTTAGGGAAGAAAAATTAGTGGCTTCAATATA
Found at i:326915 original size:44 final size:44
Alignment explanation
Indices: 326834--326924 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
326824 GGAAGATAGG
* **
326834 ATTAGTGGCTTCAATATACTCCATTGTAACCTTAGGGAGGAAAA
1 ATTAGTGGCTTCAATATACTCCACTGTAACCACAGGGAGGAAAA
* * * *
326878 ATTATTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAA
1 ATTAGTGGCTTCAATATACTCCACTGTAACCACAGGGAGGAAAA
326922 ATT
1 ATT
326925 CACCATCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (44 bp):
ATTAGTGGCTTCAATATACTCCACTGTAACCACAGGGAGGAAAA
Found at i:327051 original size:44 final size:43
Alignment explanation
Indices: 327003--327328 Score: 156
Period size: 44 Copynumber: 7.4 Consensus size: 43
326993 CGATGCAGGA
*
327003 AGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGGG
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTACAACCGAGGG
* * * * * * * * *
327047 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAA-TGCAGGA
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCACT-ACAACCG-AGGG
*
327091 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTACAACCGAGGG
* * * * * * * * * * * *
327135 AGGAAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAA-TGCAGGA
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCACT-ACAACCG-AGGG
* * *
327179 AGACAAGATCTCTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATCT-GTGTCTTCAACCAGCTCCACTACAACCGAGGG
* * * * * * * * * *
327223 AGGCAAGGTTTGTGTTTTCAATCTGCTTCGCTGTCAATAC-AGGA
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCACT-ACAA-CCGAGGG
* * * *
327267 AGAC-AGATCTCTTGTCTTCAACCAACTCCACTACAACCGAGAG
1 AGGCAAGATCT-GTGTCTTCAACCAGCTCCACTACAACCGAGGG
* *
327310 AGGCAAGGTTTGTGTCTTC
1 AGGCAAGATCTGTGTCTTC
327329 GATCTATTTT
Statistics
Matches: 190, Mismatches: 79, Indels: 27
0.64 0.27 0.09
Matches are distributed among these distances:
42 1 0.01
43 65 0.34
44 91 0.48
45 33 0.17
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTGTGTCTTCAACCAGCTCCACTACAACCGAGGG
Found at i:327087 original size:88 final size:88
Alignment explanation
Indices: 326940--327374 Score: 615
Period size: 88 Copynumber: 5.0 Consensus size: 88
326930 TCTTTGATCT
* * * * *
326940 GCTCCATTACAACCGAGGGAGGCAAGGCTTGTGTTTTCGATCTGCTTCGCCGTCGATGCAGGAAG
1 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
*
327005 GCAAGATCTGCTATCTTCAACCA
66 GCAAGATCTGCTGTCTTCAACCA
* * *
327028 GCTCCACTACAACCGAGGGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
*
327093 GCAAGATCTGTTGTCTTCAACCA
66 GCAAGATCTGCTGTCTTCAACCA
*
327116 GCTCCACTACAACCGAGAGAGGAAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
*
327181 ACAAGATCT-CTTGTCTTCAACCA
66 GCAAGATCTGC-TGTCTTCAACCA
* *
327204 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCAATCTGCTTCGCTGTCAATACAGGAAG
1 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
*
327269 AC-AGATCT-CTTGTCTTCAACCA
66 GCAAGATCTGC-TGTCTTCAACCA
* * ** * * **
327291 ACTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTATTTTGCTATCAATGTGGGAAG
1 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
*
327356 GCAAGATCTGCTATCTTCA
66 GCAAGATCTGCTGTCTTCA
327375 CTAATCTGTT
Statistics
Matches: 315, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
87 76 0.24
88 238 0.76
89 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAG
GCAAGATCTGCTGTCTTCAACCA
Found at i:328598 original size:7 final size:7
Alignment explanation
Indices: 328579--328629 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
328569 TTAACCTCTC
328579 CATTTTT
1 CATTTTT
328586 -ACTTTTT
1 CA-TTTTT
328593 CATTTTTTT
1 CA--TTTTT
328602 CATTTTT
1 CATTTTT
328609 CA-TTTT
1 CATTTTT
328615 CATTTTT
1 CATTTTT
328622 CATCTTTT
1 CAT-TTTT
328630 TTTTTTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 5 0.13
9 7 0.18
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:328618 original size:22 final size:23
Alignment explanation
Indices: 328579--328621 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
328569 TTAACCTCTC
*
328579 CATTTTTACTTTTTCATTTTTTT
1 CATTTTTACATTTTCATTTTTTT
328602 CATTTTT-CATTTTCATTTTT
1 CATTTTTACATTTTCATTTTT
328622 CATCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (23 bp):
CATTTTTACATTTTCATTTTTTT
Found at i:328629 original size:22 final size:22
Alignment explanation
Indices: 328579--328631 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
328569 TTAACCTCTC
* *
328579 CATTTTTACTTTTTCATTTTTTT
1 CATTTTT-CATTTTCATTTTTAT
328602 CATTTTTCATTTTCATTTTTCAT
1 CATTTTTCATTTTCATTTTT-AT
*
328625 CTTTTTT
1 CATTTTT
328632 TTTTGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (22 bp):
CATTTTTCATTTTCATTTTTAT
Found at i:328634 original size:13 final size:13
Alignment explanation
Indices: 328598--328624 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
328588 TTTTTCATTT
328598 TTTTCATTTTTCA
1 TTTTCATTTTTCA
328611 TTTTCATTTTTCA
1 TTTTCATTTTTCA
328624 T
1 T
328625 CTTTTTTTTT
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:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:329106 original size:23 final size:24
Alignment explanation
Indices: 329067--329126 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
329057 TGCTTTTGAC
*
329067 TTTGATTTTTTCTTTTTCATTTT-
1 TTTGATTTTTTTTTTTTCATTTTG
*
329090 TTTG-TTTTTTTTATTTTGATTTTG
1 TTTGATTTTTTTT-TTTTCATTTTG
*
329114 ATTGATTTTTTTT
1 TTTGATTTTTTTT
329127 GATTGAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 7 0.23
23 13 0.42
24 3 0.10
25 8 0.26
ACGTcount: A:0.10, C:0.03, G:0.08, T:0.78
Consensus pattern (24 bp):
TTTGATTTTTTTTTTTTCATTTTG
Found at i:335015 original size:13 final size:13
Alignment explanation
Indices: 334997--335023 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
334987 AAATGAAAAG
334997 AAAATAAAAGGAA
1 AAAATAAAAGGAA
335010 AAAATAAAAGGAA
1 AAAATAAAAGGAA
335023 A
1 A
335024 TCTCTCTTTC
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:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAATAAAAGGAA
Found at i:336032 original size:20 final size:21
Alignment explanation
Indices: 335985--336034 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
335975 TTTATTTTTC
* **
335985 TAATTTTTAATAACTTTTAAA
1 TAATTTTTATTAAAATTTAAA
336006 TAA-TTTTATTAAAATTT-AA
1 TAATTTTTATTAAAATTTAAA
336025 TAATTTTTAT
1 TAATTTTTAT
336035 ATCTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 17 0.68
21 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTTTTATTAAAATTTAAA
Found at i:338786 original size:29 final size:29
Alignment explanation
Indices: 338739--338794 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
338729 TTTTTTTCTT
*
338739 TTTAATAGTATAGAGACTAAATTGATCTA
1 TTTAATAATATAGAGACTAAATTGATCTA
*
338768 TTTAATAATATAG-GAACTAATTTGATC
1 TTTAATAATATAGAG-ACTAAATTGATC
338795 AAATCCGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (29 bp):
TTTAATAATATAGAGACTAAATTGATCTA
Found at i:342624 original size:7 final size:7
Alignment explanation
Indices: 342613--342717 Score: 111
Period size: 7 Copynumber: 15.0 Consensus size: 7
342603 TTCTTTTCAA
*
342613 CTCAATA
1 CTCAATT
*
342620 CTCAATC
1 CTCAATT
*
342627 CTCAATC
1 CTCAATT
*
342634 CTAAATT
1 CTCAATT
*
342641 CTCAATC
1 CTCAATT
342648 CTCAATT
1 CTCAATT
* *
342655 TTCATTT
1 CTCAATT
*
342662 CTCATTT
1 CTCAATT
*
342669 CTCAATC
1 CTCAATT
*
342676 CTCAATC
1 CTCAATT
342683 CTCAATT
1 CTCAATT
*
342690 CTTAATT
1 CTCAATT
342697 CTCAATT
1 CTCAATT
342704 CTCAATT
1 CTCAATT
342711 CTCAATT
1 CTCAATT
342718 AATTTTTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 84 1.00
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (7 bp):
CTCAATT
Found at i:345945 original size:8 final size:8
Alignment explanation
Indices: 345932--345956 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
345922 ATATATACTA
345932 AATAAAAT
1 AATAAAAT
345940 AATAAAAT
1 AATAAAAT
345948 AATAAAAT
1 AATAAAAT
345956 A
1 A
345957 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:349806 original size:25 final size:25
Alignment explanation
Indices: 349745--349929 Score: 82
Period size: 25 Copynumber: 7.5 Consensus size: 25
349735 ATTCAGGAAT
* *
349745 GCTCATACGAGCACATA-AACGGGAA
1 GCTCATAAGAGC-CATATAACGAGAA
*
349770 GCTC-TATCGAGCCATATAACGAGAA
1 GCTCATA-AGAGCCATATAACGAGAA
* *
349795 GCTCATAAGAGCCAGT-TATCGGGAA
1 GCTCATAAGAGCCA-TATAACGAGAA
* * *
349820 GCTC-TGAAAAGCTA-ATTATCGAGAA
1 GCTCAT-AAGAGCCATA-TAACGAGAA
*
349845 GCTCATAAGAGCC--ATAATGAGAA
1 GCTCATAAGAGCCATATAACGAGAA
** * * * *
349868 GCTCGCAATAACCATATAATGGGAA
1 GCTCATAAGAGCCATATAACGAGAA
* * *
349893 GCTC-TGGAGAGCCATATATC-AGGAC
1 GCTCAT-AAGAGCCATATAACGA-GAA
349918 GCTCATAAGAGC
1 GCTCATAAGAGC
349930 TGCGGTGTAT
Statistics
Matches: 122, Mismatches: 25, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
23 16 0.13
24 8 0.07
25 93 0.76
26 5 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (25 bp):
GCTCATAAGAGCCATATAACGAGAA
Found at i:351526 original size:109 final size:109
Alignment explanation
Indices: 351395--351663 Score: 416
Period size: 109 Copynumber: 2.5 Consensus size: 109
351385 AGCTCAGTAA
* * *
351395 GTTAGGGCACGATTTTCTCGAATTTTCTAAATATTG-AATATTGCCATT-ATTATTGAAAGTTTA
1 GTTAGGGCACG-TTTTCTCGAATTTTCCAAA-AGTGAAATATTACC-TTAATTATTGAAAGTTTA
351458 AAAGGGTATTTGGCCATTTGGTCGAACAAGAAATCGAAACCCAGCAC
63 AAAGGGTATTTGGCCATTTGGTCGAACAAGAAATCGAAACCCAGCAC
*
351505 GTTAGGGCACGTTTTCTCGAATTTTCCAAACGTGAAATATTACCTTAATTATTGAAAGTTTAAAA
1 GTTAGGGCACGTTTTCTCGAATTTTCCAAAAGTGAAATATTACCTTAATTATTGAAAGTTTAAAA
*
351570 GGGTATTTGGCCATTTGGTCGAACGAGAAATCGAAACCCAGCAC
66 GGGTATTTGGCCATTTGGTCGAACAAGAAATCGAAACCCAGCAC
* * * *
351614 GTTAGGGCACGTTTTCTCAAATTTTCCAAACGCGAAATATTGCCTTAATT
1 GTTAGGGCACGTTTTCTCGAATTTTCCAAAAGTGAAATATTACCTTAATT
351664 TAAAACTTTT
Statistics
Matches: 149, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
108 4 0.03
109 134 0.90
110 11 0.07
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (109 bp):
GTTAGGGCACGTTTTCTCGAATTTTCCAAAAGTGAAATATTACCTTAATTATTGAAAGTTTAAAA
GGGTATTTGGCCATTTGGTCGAACAAGAAATCGAAACCCAGCAC
Found at i:353398 original size:20 final size:21
Alignment explanation
Indices: 353373--353415 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
353363 GGGCTAAAAA
*
353373 TTGGGCCGTTTGTATTTT-TT
1 TTGGGCCGGTTGTATTTTATT
353393 TTGGGCCGGTTGTATTTTATT
1 TTGGGCCGGTTGTATTTTATT
353414 TT
1 TT
353416 CTTGGGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.07, C:0.09, G:0.26, T:0.58
Consensus pattern (21 bp):
TTGGGCCGGTTGTATTTTATT
Found at i:353872 original size:3 final size:3
Alignment explanation
Indices: 353864--353891 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
353854 ATTAATAGAG
353864 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
353892 ACACTATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:354241 original size:64 final size:64
Alignment explanation
Indices: 354167--354294 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
354157 ATTAAATACG
354167 AGATAACACAATATTAACAATACATGTTACTTTAAAAAATACATTGCTGCTATATTTAATTCAT
1 AGATAACACAATATTAACAATACATGTTACTTTAAAAAATACATTGCTGCTATATTTAATTCAT
354231 AGATAACACAATATTAACAATACATGTTACTTTAAAAAATACATTGCTGCTATATTTAATTCAT
1 AGATAACACAATATTAACAATACATGTTACTTTAAAAAATACATTGCTGCTATATTTAATTCAT
354295 TCATTAATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (64 bp):
AGATAACACAATATTAACAATACATGTTACTTTAAAAAATACATTGCTGCTATATTTAATTCAT
Found at i:355349 original size:5 final size:5
Alignment explanation
Indices: 355339--355364 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
355329 TTACTTGTGA
355339 AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT A
355365 TGGATAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:355565 original size:3 final size:3
Alignment explanation
Indices: 355557--355592 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
355547 GTATAAAAGT
355557 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
355593 GGAACCAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:373898 original size:24 final size:24
Alignment explanation
Indices: 373871--373920 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
373861 ACTGCAAATT
*
373871 AAAT-AAATTATTAAGAAACTATAA
1 AAATAAAAATATTAAGAAA-TATAA
*
373895 AAATAAAAATATTAATAAATATAA
1 AAATAAAAATATTAAGAAATATAA
373919 AA
1 AA
373921 TACAATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATAAAAATATTAAGAAATATAA
Found at i:378961 original size:253 final size:253
Alignment explanation
Indices: 378513--379006 Score: 961
Period size: 253 Copynumber: 2.0 Consensus size: 253
378503 CGTAACCTAC
378513 TCTTTGAATGGAGACCACTTACGTGTAGCTGGAAAATTGTATCCAACAGTCTTTGCAAATTAATG
1 TCTTTGAATGGAGACCACTTACGTGTAGCTGGAAAATTGTATCCAACAGTCTTTGCAAATTAATG
378578 AATTATTCTCAAATCAAATGCACTTATACTGGAACTTCAAGGAAAGTGTGACCAAATACTTTTCA
66 AATTATTCTCAAATCAAATGCACTTATACTGGAACTTCAAGGAAAGTGTGACCAAATACTTTTCA
378643 TTTGCTTCTCACTCAAACATCCTTTGTTTCTTTAAATCTTCATTCATTTCCCTCAAACAAAATAA
131 TTTGCTTCTCACTCAAACATCCTTTGTTTCTTTAAATCTTCATTCATTTCCCTCAAACAAAATAA
*
378708 CAACGCAAATGGGTTTTCACTTACCGCTTTACTTCATCCTCCTACTGTTCCCTTTATT
196 CAACCCAAATGGGTTTTCACTTACCGCTTTACTTCATCCTCCTACTGTTCCCTTTATT
*
378766 TCTTTGAATGGAGACCTCTTACGTGTAGCTGGAAAATTGTATCCAACAGTCTTTGCAAATTAATG
1 TCTTTGAATGGAGACCACTTACGTGTAGCTGGAAAATTGTATCCAACAGTCTTTGCAAATTAATG
378831 AATTATTCTCAAATCAAATGCACTTATACTGGAACTTCAAGGAAAGTGTGACCAAATACTTTTCA
66 AATTATTCTCAAATCAAATGCACTTATACTGGAACTTCAAGGAAAGTGTGACCAAATACTTTTCA
*
378896 TTTGCTTCTCACTCAAACATCCTTTGTTTCTTTAAATCTTCATTCATTTCCCTCAAACCAAATAA
131 TTTGCTTCTCACTCAAACATCCTTTGTTTCTTTAAATCTTCATTCATTTCCCTCAAACAAAATAA
378961 CAACCCAAATGGGTTTTCACTTACCGCTTTACTTCATCCTCCTACT
196 CAACCCAAATGGGTTTTCACTTACCGCTTTACTTCATCCTCCTACT
379007 CCTCTTCCTG
Statistics
Matches: 238, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 238 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (253 bp):
TCTTTGAATGGAGACCACTTACGTGTAGCTGGAAAATTGTATCCAACAGTCTTTGCAAATTAATG
AATTATTCTCAAATCAAATGCACTTATACTGGAACTTCAAGGAAAGTGTGACCAAATACTTTTCA
TTTGCTTCTCACTCAAACATCCTTTGTTTCTTTAAATCTTCATTCATTTCCCTCAAACAAAATAA
CAACCCAAATGGGTTTTCACTTACCGCTTTACTTCATCCTCCTACTGTTCCCTTTATT
Found at i:380489 original size:19 final size:20
Alignment explanation
Indices: 380465--380512 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
380455 TTTTTATAAA
380465 TATTTT-AAAATTTAAAAAT
1 TATTTTGAAAATTTAAAAAT
** *
380484 TATTTTGAATTTTTTAAAAT
1 TATTTTGAAAATTTAAAAAT
380504 TATTTTGAA
1 TATTTTGAA
380513 TTTTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTGAAAATTTAAAAAT
Found at i:380494 original size:10 final size:9
Alignment explanation
Indices: 380481--380528 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
380471 AAAATTTAAA
380481 AATTATTTTG
1 AATT-TTTTG
*
380491 AATTTTTTAA
1 AATTTTTT-G
380501 AATTATTTTG
1 AATT-TTTTG
*
380511 AATTTTTTT
1 AATTTTTTG
380520 AATTTTTTG
1 AATTTTTTG
380529 TTGAGAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
9 16 0.50
10 12 0.38
11 4 0.12
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (9 bp):
AATTTTTTG
Found at i:380504 original size:20 final size:20
Alignment explanation
Indices: 380479--380518 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
380469 TTAAAATTTA
380479 AAAATTATTTTGAATTTTTT
1 AAAATTATTTTGAATTTTTT
380499 AAAATTATTTTGAATTTTTT
1 AAAATTATTTTGAATTTTTT
380519 TAATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
AAAATTATTTTGAATTTTTT
Found at i:382630 original size:42 final size:41
Alignment explanation
Indices: 382564--382683 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 41
382554 AGCGTTTACA
* *
382564 AAAATAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTTGG
1 AAAA-AAACGCCGCTAAAGATCATGTTCTTTAACAGCGCTT-C
382607 AAAAAAACGCCGCTAAA-AGTCATGTTCTTTAACAGCGCTTC
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAACAGCGCTTC
* * * * *
382648 AAAAAAATGACACTAAAGATCAGGTTCTTTAGCAGC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAACAGC
382684 ACTTTATTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 30 0.44
42 34 0.50
43 4 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAACAGCGCTTC
Found at i:382664 original size:41 final size:42
Alignment explanation
Indices: 382577--382683 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 42
382567 ATAAACGCCG
* * * *
382577 CTAAAGATCATGTTCTTTAACGGCGCTTGGAAAAAAACGCCG
1 CTAAAGATCATGTTCTTTAACAGCGCTTGCAAAAAAACGACA
*
382619 CTAAA-AGTCATGTTCTTTAACAGCGCTT-CAAAAAAATGACA
1 CTAAAGA-TCATGTTCTTTAACAGCGCTTGCAAAAAAACGACA
* *
382660 CTAAAGATCAGGTTCTTTAGCAGC
1 CTAAAGATCATGTTCTTTAACAGC
382684 ACTTTATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
41 30 0.54
42 26 0.46
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (42 bp):
CTAAAGATCATGTTCTTTAACAGCGCTTGCAAAAAAACGACA
Found at i:383075 original size:21 final size:21
Alignment explanation
Indices: 383051--383102 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
383041 TTCTGCTCTG
* *
383051 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTTACTGCAGC
383072 CTCTGCTTCCCTTACTGCAGC
1 CTCTGCTTCCCTTACTGCAGC
*
383093 CGCTGCTTCC
1 CTCTGCTTCC
383103 ATCGTTGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTTACTGCAGC
Found at i:388614 original size:9 final size:9
Alignment explanation
Indices: 388600--388823 Score: 205
Period size: 9 Copynumber: 25.4 Consensus size: 9
388590 TTTTTATGTA
388600 TTATGTAAG
1 TTATGTAAG
388609 TTATGTACTAAG
1 TTATG---TAAG
*
388621 TTATGT--T
1 TTATGTAAG
388628 TTATGTAAG
1 TTATGTAAG
388637 TTATGTAAG
1 TTATGTAAG
388646 TTATGT-A-
1 TTATGTAAG
*
388653 TTATGTGAG
1 TTATGTAAG
388662 TTATGTAAG
1 TTATGTAAG
*
388671 TTATGGAAG
1 TTATGTAAG
* *
388680 TTATTTAAT
1 TTATGTAAG
388689 TTATGTAAG
1 TTATGTAAG
*
388698 TTTTGTAAG
1 TTATGTAAG
*
388707 TTATGTAGG
1 TTATGTAAG
*
388716 CTATGT-A-
1 TTATGTAAG
* *
388723 TTATCTAAA
1 TTATGTAAG
*
388732 TAATGTAAG
1 TTATGTAAG
*
388741 TTA-GGAAGG
1 TTATGTAA-G
388750 TTATGT-A-
1 TTATGTAAG
388757 TTATGTAAG
1 TTATGTAAG
*
388766 TTATTTAAG
1 TTATGTAAG
388775 TTATGTAAG
1 TTATGTAAG
* *
388784 TTATTTAAT
1 TTATGTAAG
388793 TTATGTAAG
1 TTATGTAAG
388802 TTATGTAAG
1 TTATGTAAG
*
388811 TTATGTAAT
1 TTATGTAAG
388820 TTAT
1 TTAT
388824 ATATTAGGTT
Statistics
Matches: 173, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
7 22 0.13
8 7 0.04
9 134 0.77
10 1 0.01
12 9 0.05
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:388742 original size:61 final size:61
Alignment explanation
Indices: 388627--388743 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
388617 TAAGTTATGT
* * * *
388627 TTTATGTAAGTTATGTAAGTTATGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTTAA
1 TTTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGGAAGTTATTTAA
* *
388688 TTTATGTAAGTTTTGTAAGTTATGTAGGCTATGT-A-TTATCTAAATAATGTAAGTTA
1 TTTATGTAAGTTATGTAAGTTATGTA--CTATGTGAGTTATCTAAATAATGGAAGTTA
388744 GGAAGGTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 42 0.88
62 1 0.02
63 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (61 bp):
TTTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGGAAGTTATTTAA
Found at i:388753 original size:104 final size:104
Alignment explanation
Indices: 388630--388817 Score: 315
Period size: 104 Copynumber: 1.8 Consensus size: 104
388620 GTTATGTTTT
* *
388630 ATGTAAGTTATGTAAGTTATGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
1 ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
*
388695 AAGTTTTGTAAGTTATGTAGGCTATGTATTATCTAAATA
66 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
* *
388734 ATGTAAGTTA-GGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATG
1 ATGTAAGTTATGGAA-GTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATG
388798 TAAGTTATGTAAGTTATGTA
65 TAAGTTATGTAAGTTATGTA
388818 ATTTATATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 3 0.04
104 75 0.96
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (104 bp):
ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
Found at i:388872 original size:20 final size:20
Alignment explanation
Indices: 388849--388948 Score: 120
Period size: 20 Copynumber: 5.2 Consensus size: 20
388839 ATTAGAAATT
388849 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
388869 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
388889 TTA---TGA-ATTAGA-AAT
1 TTATCTTAATATTATATAAG
388904 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
*
388925 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
388945 TTAT
1 TTAT
388949 GTAATTCGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.06
16 6 0.09
17 2 0.03
19 2 0.03
20 49 0.74
21 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:388900 original size:56 final size:56
Alignment explanation
Indices: 388837--388984 Score: 251
Period size: 56 Copynumber: 2.6 Consensus size: 56
388827 TTAGGTTACG
388837 GAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTAT
1 GAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTAT
* *
388893 GAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTAT
1 GAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTAT
* *
388949 GTAATTCGAAATTTTATCTTAATATTGTATAAGTTA
1 G-AATTAGAAATTTTATCTTAATATTATATAAGTTA
388985 CCTAAAATGA
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 55 0.65
57 30 0.35
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.47
Consensus pattern (56 bp):
GAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTAT
Found at i:389079 original size:20 final size:20
Alignment explanation
Indices: 389056--389155 Score: 111
Period size: 20 Copynumber: 5.2 Consensus size: 20
389046 ATTAGAAATT
389056 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
389076 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
389096 TTA---TGA-ATTAGA-AAT
1 TTATCTTAATATTATATAAG
389111 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
* *
389132 TAATCTTAATATTATATATG
1 TTATCTTAATATTATATAAG
389152 TTAT
1 TTAT
389156 GTAATTCGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
15 4 0.06
16 6 0.09
17 2 0.03
19 2 0.03
20 48 0.74
21 3 0.05
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:389118 original size:56 final size:57
Alignment explanation
Indices: 389037--389194 Score: 264
Period size: 56 Copynumber: 2.8 Consensus size: 57
389027 ATATTAAACG
389037 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATA
* *
389094 AGTTATG-AATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATA
* * *
389150 TGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCT
389195 AAAAGAAGAA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 53 0.57
57 40 0.43
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (57 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATA
Found at i:389126 original size:207 final size:207
Alignment explanation
Indices: 388838--389309 Score: 910
Period size: 207 Copynumber: 2.3 Consensus size: 207
388828 TAGGTTACGG
388838 AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAATTAGAAA
1 AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAATTAGAAA
388903 TTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCT
66 TTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCT
388968 TAATATTGTATAAGTTACCTAAAATG-AGAAATTGATGTGTACTTACAAATTAGAAATTAATATT
131 TAATATTGTATAAGTTACCTAAAA-GAAGAAATTGATGTGTACTTACAAATTAGAAATTAATATT
389032 AAACGAGTTATGT
195 AAACGAGTTATGT
389045 AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAATTAGAAA
1 AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAATTAGAAA
*
389110 TTTGATCTTAATATTATATAAGTAATCTTAATATTATATATGTTATGTAATTCGAAATTTTATCT
66 TTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCT
*
389175 TAATATTGTATAAGTTATCTAAAAGAAGAAATTGATGTGTACTTACAAATTAGAAATTAATATTA
131 TAATATTGTATAAGTTACCTAAAAGAAGAAATTGATGTGTACTTACAAATTAGAAATTAATATTA
389240 AACGAGTTATGT
196 AACGAGTTATGT
389252 AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAA
1 AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAA
389310 GTGTCCTGCT
Statistics
Matches: 262, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
206 1 0.00
207 261 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (207 bp):
AATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTATATAAGTTATGAATTAGAAA
TTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCT
TAATATTGTATAAGTTACCTAAAAGAAGAAATTGATGTGTACTTACAAATTAGAAATTAATATTA
AACGAGTTATGT
Found at i:389286 original size:20 final size:20
Alignment explanation
Indices: 389263--389306 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
389253 ATTAGAAATT
389263 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
389283 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
389303 TTAT
1 TTAT
389307 GAAGTGTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:392663 original size:231 final size:232
Alignment explanation
Indices: 392164--392667 Score: 866
Period size: 231 Copynumber: 2.2 Consensus size: 232
392154 GTTTTAAGCA
* *
392164 AGCGCCACTAATAACAATGGAAAACTACGCAGTTTCCTTAAGTTATAATGCATCTTTGCAGCGTT
1 AGCGCCACTAATAACAATGGAAAACGACGCAGTTTCCTTAAGTTATAATGCATATTTGCAGCGTT
* *
392229 TATGAGAAGCGCCACTAAAAGCAACTATGTAAACGGCGCCGTTTCTTGTAATACCATTTGGATAT
66 TATGAGAAGCGCCACTAAAAGCAACTATGTAAACGGCGCCGTTTCTCGTAACACCATTTGGATAT
*
392294 TTGCGGCGTTTATACACAAGTGCCACTAAATATAAGGTCAAACGCAGTCGTTTAACTCAAACTCC
131 TTGCGGCGTTTATACACAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAACTCAAACTCC
* *
392359 TGTAAATTTTAAAATATATTTGTGGCATCTTGGGTGT
196 TGTAAATTTTAAAATATATTCGCGGCATCTTGGGTGT
* * *
392396 AGCACCACTAATAACAATGGAAAATGACGAAGTTTCCTTAAGTTATAATGCATATTTGCAGCGTT
1 AGCGCCACTAATAACAATGGAAAACGACGCAGTTTCCTTAAGTTATAATGCATATTTGCAGCGTT
*
392461 TATTAGAAGCGCCACTAAAAGCAACTATGTAAACGGCGCCGTTTCTCGTAACACCATTTGGAT-T
66 TATGAGAAGCGCCACTAAAAGCAACTATGTAAACGGCGCCGTTTCTCGTAACACCATTTGGATAT
* *
392525 TTTCGGCGTTTATACTCAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAACTCAAACTCC
131 TTGCGGCGTTTATACACAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAACTCAAACTCC
*
392590 TGTAAATTTTAAAATATATTCGCGGCGTCTTGGGTGT
196 TGTAAATTTTAAAATATATTCGCGGCATCTTGGGTGT
*
392627 AGCGCCACTAATAACAATGGAAAACGATGCAGTTTCCTTAA
1 AGCGCCACTAATAACAATGGAAAACGACGCAGTTTCCTTAA
392668 CAAAGAAAAC
Statistics
Matches: 254, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
231 134 0.53
232 120 0.47
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (232 bp):
AGCGCCACTAATAACAATGGAAAACGACGCAGTTTCCTTAAGTTATAATGCATATTTGCAGCGTT
TATGAGAAGCGCCACTAAAAGCAACTATGTAAACGGCGCCGTTTCTCGTAACACCATTTGGATAT
TTGCGGCGTTTATACACAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTAACTCAAACTCC
TGTAAATTTTAAAATATATTCGCGGCATCTTGGGTGT
Found at i:393141 original size:7 final size:7
Alignment explanation
Indices: 393129--393210 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
393119 AATTATCCTT
393129 AAACCCC
1 AAACCCC
393136 AAACCCC
1 AAACCCC
393143 TAAACCCC
1 -AAACCCC
*
393151 TAACCCC
1 AAACCCC
* * *
393158 GAACACT
1 AAACCCC
393165 AAACCCC
1 AAACCCC
*
393172 AAA-CTC
1 AAACCCC
393178 AAA-CCC
1 AAACCCC
* *
393184 TAATCCC
1 AAACCCC
* *
393191 TAATCCC
1 AAACCCC
393198 AAACCCC
1 AAACCCC
393205 AAACCC
1 AAACCC
393211 TTAAGTTCAA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
6 9 0.15
7 45 0.74
8 7 0.11
ACGTcount: A:0.40, C:0.49, G:0.01, T:0.10
Consensus pattern (7 bp):
AAACCCC
Found at i:393211 original size:20 final size:20
Alignment explanation
Indices: 393128--393211 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
393118 AAATTATCCT
393128 TAAACCCCAAACCCCTAAACCCC
1 TAAA-CCCAAACCCC-AAA-CCC
* * * *
393151 TAACCCCGAACACTAAACCC
1 TAAACCCAAACCCCAAACCC
* * * *
393171 CAAACTCAAACCCTAATCCC
1 TAAACCCAAACCCCAAACCC
*
393191 TAATCCCAAACCCCAAACCC
1 TAAACCCAAACCCCAAACCC
393211 T
1 T
393212 TAAGTTCAAA
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
20 33 0.72
21 3 0.07
22 7 0.15
23 3 0.07
ACGTcount: A:0.39, C:0.48, G:0.01, T:0.12
Consensus pattern (20 bp):
TAAACCCAAACCCCAAACCC
Found at i:394036 original size:114 final size:113
Alignment explanation
Indices: 393846--394182 Score: 417
Period size: 113 Copynumber: 3.0 Consensus size: 113
393836 CACTTCCTCA
* ** ** * * * * *
393846 AAAACGCCGCTAAAGGCCGGAGCATTAGCGGCGCTTTT-ATAAAAACGCTGCTAAAGGCCCAAAA
1 AAAACGCTGCTAAAGGCAAGAGCATTAGCAACGATTTTCA-AAAAACGCCGCTACACGCCCAGAA
** *
393910 ACAAAGAAAACGGCGTCGTTGGCTTTAGGTTTTTTGCGGCGCTTTTCAG
65 ACTCAGAAAACGGCGTCGTTGGCTTTAGCTTTTTTGCGGCGCTTTTCAG
* * *
393959 AAAACG-TAGCTAAAGGCAAAGAGCATTAGCGACGATTTTCAAAAAATGCCGCTACACGCGCAGA
1 AAAACGCT-GCTAAAGGC-AAGAGCATTAGCAACGATTTTCAAAAAACGCCGCTACACGCCCAGA
* *
394023 AACTCAGAAAACGGCGTCGTTGGCCTTAGCTTTTTTGCGACGCTTTTCAG
64 AACTCAGAAAACGGCGTCGTTGGCTTTAGCTTTTTTGCGGCGCTTTTCAG
* * * *
394073 AAAATGCTGCTAAAGTCAAGAGCATTAGCAACGATTTTCAGAAAACGCCGCTACACTCCCAGAAA
1 AAAACGCTGCTAAAGGCAAGAGCATTAGCAACGATTTTCAAAAAACGCCGCTACACGCCCAGAAA
* *
394138 CTCAGAAAACGGCGTCGTTGGCTTCAGCTTTTTTGCGGTGCTTTT
66 CTCAGAAAACGGCGTCGTTGGCTTTAGCTTTTTTGCGGCGCTTTT
394183 TGTTAGAGTA
Statistics
Matches: 193, Mismatches: 27, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
113 99 0.51
114 92 0.48
115 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (113 bp):
AAAACGCTGCTAAAGGCAAGAGCATTAGCAACGATTTTCAAAAAACGCCGCTACACGCCCAGAAA
CTCAGAAAACGGCGTCGTTGGCTTTAGCTTTTTTGCGGCGCTTTTCAG
Found at i:396669 original size:29 final size:29
Alignment explanation
Indices: 396636--396692 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
396626 TTTGATTATT
*
396636 TTTAATAATATAA-GTACTAAATTGATCCA
1 TTTAATAATAGAATGT-CTAAATTGATCCA
*
396665 TTTAATAATAGAATGTCTAATTTGATCC
1 TTTAATAATAGAATGTCTAAATTGATCC
396693 GATCTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (29 bp):
TTTAATAATAGAATGTCTAAATTGATCCA
Found at i:397377 original size:18 final size:18
Alignment explanation
Indices: 397269--397537 Score: 159
Period size: 17 Copynumber: 15.0 Consensus size: 18
397259 CGGTCCCCCC
397269 CAAAAATTTTTCGTGTTTT
1 CAAAAA-TTTTCGTGTTTT
*
397288 CTAAAAA-CTTC-TGTGTTT
1 C-AAAAATTTTCGTGT-TTT
*
397306 CAAAAATTTTCGTATTTT
1 CAAAAATTTTCGTGTTTT
*
397324 -ATAAATTTTCGTG-TTT
1 CAAAAATTTTCGTGTTTT
* *
397340 CTAAAATTTTCGT-ATTT
1 CAAAAATTTTCGTGTTTT
*
397357 CAAAAATTTTCTTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
397375 C-AAATTTTTCGT-ATTT
1 CAAAAATTTTCGTGTTTT
*
397391 CAAAAATCCTT-GTGTTTT
1 CAAAAAT-TTTCGTGTTTT
*
397409 CAAAAATTTTGGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
397427 -GAAAATTTTCGTTTTTT
1 CAAAAATTTTCGTGTTTT
* *
397444 CAAAAAAAAAATCTCGTG-TTT
1 C----AAAAATTTTCGTGTTTT
* *
397465 CATAAATTTTCGTTTTTTT
1 CAAAAATTTTCG-TGTTTT
*
397484 TAAAAA-TTT-GTG-TTT
1 CAAAAATTTTCGTGTTTT
* *
397499 CCAAAATTCTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
*
397517 AAAAAAAATTTCTCGTGTTTT
1 --CAAAAATTT-TCGTGTTTT
397538 AATCGGATCA
Statistics
Matches: 189, Mismatches: 37, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
15 7 0.04
16 10 0.05
17 86 0.46
18 43 0.23
19 10 0.05
20 11 0.06
21 13 0.07
22 9 0.05
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:397531 original size:21 final size:20
Alignment explanation
Indices: 397501--397539 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
397491 TTGTGTTTCC
397501 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTTAAAA
397521 AAAATTTCTCGTGTTTTAA
1 AAAA-TTCTCGTGTTTTAA
397540 TCGGATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTAAAA
Found at i:401450 original size:20 final size:19
Alignment explanation
Indices: 401405--401453 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
401395 AAATTTTTAC
*
401405 TTTTTTAACTTTCTTTATA
1 TTTTTTAAATTTCTTTATA
401424 TATTTTTAGAATTTC-TTATAA
1 T-TTTTTA-AATTTCTTTAT-A
401445 TTTTTTAAA
1 TTTTTTAAA
401454 ATATATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 16 0.62
21 7 0.27
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTTAAATTTCTTTATA
Found at i:401522 original size:18 final size:19
Alignment explanation
Indices: 401457--401523 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 19
401447 TTTTAAAATA
*
401457 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
*
401475 TATAAATATTTTGAA-ATT
1 TATAAATATTTTGAATTTT
*
401493 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
*
401513 TTTAAA-ATTTT
1 TATAAATATTTT
401524 TGTTGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 19 0.47
19 15 0.38
20 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:401688 original size:14 final size:15
Alignment explanation
Indices: 401671--401709 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
401661 TGACTCTAAT
401671 AATTTGAATAACTC-
1 AATTTGAATAACTCA
*
401685 AATTTGATTAACTCGA
1 AATTTGAATAACTC-A
401701 AATTTGAAT
1 AATTTGAAT
401710 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (15 bp):
AATTTGAATAACTCA
Found at i:404147 original size:29 final size:29
Alignment explanation
Indices: 404114--404171 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
404104 TTTAATTATT
*
404114 TTTAATAATATAA-GTACTAAATTGATCCG
1 TTTAATAATAGAATGT-CTAAATTGATCCG
*
404143 TTTAATAATAGAATGTCTAATTTGATCCG
1 TTTAATAATAGAATGTCTAAATTGATCCG
404172 ATCTATATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (29 bp):
TTTAATAATAGAATGTCTAAATTGATCCG
Found at i:416458 original size:44 final size:43
Alignment explanation
Indices: 416348--416686 Score: 194
Period size: 44 Copynumber: 7.8 Consensus size: 43
416338 ATTATACAGG
* * ** * *
416348 TCTTATCTCCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA---GAGA
* * *
416394 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* * * *
416438 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* * * *
416482 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAGA
* * * * * *
416521 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAGCAGAGA
** * *
416562 TCTTAT-TCCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGA
1 TCTTATCT-CCCTGAGATTACAGTGGAGCAGATTAAAGCA---GAGA
* ** **
416608 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* *
416651 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAA
416687 ATAAAGGATT
Statistics
Matches: 230, Mismatches: 48, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
38 1 0.00
39 25 0.11
40 4 0.02
41 28 0.12
42 5 0.02
43 32 0.14
44 68 0.30
45 1 0.00
46 63 0.27
47 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAGA
Found at i:416761 original size:174 final size:170
Alignment explanation
Indices: 416435--416767 Score: 447
Period size: 174 Copynumber: 1.9 Consensus size: 170
416425 TTGAAGCCAG
* * *
416435 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTGATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTGATCCTATCTCCCTGAGATT
* * *
416500 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCCGAAGTTACAGCAGAGAAGATCACATCAAGTCT
*
416565 TATTCCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTC
131 TATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
*
416605 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTGATCCTATCTCCCTGAGA-T
* * * * *
416668 TACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCCGAGGTTACAGCAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCCGAAGTTACAGCAGAGAAGATCACATC
* *
416733 AAGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGAC
125 AAGTCTTATTCCCCTG-AGATTACAGTGGAACAGAC
416768 TGAAAACAAG
Statistics
Matches: 141, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
168 1 0.01
169 28 0.20
170 43 0.30
174 66 0.47
175 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTGATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCCGAAGTTACAGCAGAGAAGATCACATCAAGTCT
TATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
Found at i:417641 original size:15 final size:14
Alignment explanation
Indices: 417608--417642 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
417598 GTTACTATTG
417608 TTTTTTTTCTTTCAA
1 TTTTTTTTCTTTC-A
*
417623 TTTTATTTCTTTCA
1 TTTTTTTTCTTTCA
417637 TTTTTT
1 TTTTTT
417643 ACACAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTTCTTTCA
Found at i:418383 original size:11 final size:12
Alignment explanation
Indices: 418361--418394 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
418351 GATCATTTAT
418361 TTATTTATTATTA
1 TTATTTA-TATTA
418374 TTA-TTATATTA
1 TTATTTATATTA
418385 TTATTTATAT
1 TTATTTATAT
418395 ATATGTGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 9 0.45
13 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:418383 original size:14 final size:13
Alignment explanation
Indices: 418361--418392 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
418351 GATCATTTAT
418361 TTATTTATTATTA
1 TTATTTATTATTA
418374 TTA-TTA-TATTA
1 TTATTTATTATTA
418385 TTATTTAT
1 TTATTTAT
418393 ATATATGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.47
12 6 0.35
13 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:418395 original size:14 final size:14
Alignment explanation
Indices: 418357--418396 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
418347 TTTTGATCAT
*
418357 TTATTTATTTATTA
1 TTATTTATATATTA
418371 TTA-TTATTATATTA
1 TTATTTA-TATATTA
418385 TTATTTATATAT
1 TTATTTATATAT
418397 ATGTGCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTATATATTA
Found at i:418861 original size:17 final size:19
Alignment explanation
Indices: 418829--418875 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
418819 CTTAAATGTC
* *
418829 TTTATTCTTGTTTGTTTA-T
1 TTTATTATT-TTTGTTAACT
418848 TTT-TTATTTTTGTTAACT
1 TTTATTATTTTTGTTAACT
418866 TTTATTATTT
1 TTTATTATTT
418876 ACCATGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 8 0.33
19 9 0.38
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (19 bp):
TTTATTATTTTTGTTAACT
Found at i:429363 original size:21 final size:22
Alignment explanation
Indices: 429339--429382 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
429329 TGTTTATGAT
*
429339 TTGACTCCATTGTTCAT-GGAC
1 TTGACTCCATTATTCATAGGAC
429360 TTGACTCCATTATTCATAGGAC
1 TTGACTCCATTATTCATAGGAC
429382 T
1 T
429383 GACGCTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (22 bp):
TTGACTCCATTATTCATAGGAC
Found at i:433328 original size:11 final size:11
Alignment explanation
Indices: 433314--433341 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
433304 AAAAAGATGA
433314 AAAAAGAAAAG
1 AAAAAGAAAAG
433325 AAAAAGAAAAG
1 AAAAAGAAAAG
433336 AAAAAG
1 AAAAAG
433342 GAGAGGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Done.