Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 114 of 172
Found at i:38146202 original size:17 final size:14
Alignment explanation
Indices: 38146082--38146197 Score: 58
Period size: 15 Copynumber: 7.9 Consensus size: 14
38146072 AATACTAGAT
38146082 TTAAAATATATATA
1 TTAAAATATATATA
*
38146096 -TACAATATATAT-
1 TTAAAATATATATA
*
38146108 TAAAAATAGTAATAATA
1 TTAAAATA-T-AT-ATA
*
38146125 TAAAAATA-ACTAATA
1 TTAAAATATA-T-ATA
* * *
38146140 ATAACTATATATAAA
1 TTAA-AATATATATA
* *
38146155 TATATACATATATGTA
1 T-TA-AAATATATATA
38146171 TTAAAATATATATA
1 TTAAAATATATATA
38146185 TTAAAGATATATA
1 TTAAA-ATATATA
38146198 CATATATAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
13 16 0.21
14 16 0.21
15 20 0.26
16 16 0.21
17 10 0.13
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (14 bp):
TTAAAATATATATA
Found at i:38146204 original size:21 final size:20
Alignment explanation
Indices: 38146178--38146227 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
38146168 GTATTAAAAT
*
38146178 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
38146199 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
38146219 -TA-ATATTAA
1 ATATATATTAA
38146228 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:38146217 original size:37 final size:39
Alignment explanation
Indices: 38146154--38146227 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
38146144 CTATATATAA
* *
38146154 ATATATACATATATGTATTAAAATATA-T-ATATTAAAG
1 ATATATACATATATGAATAAAAATATACTAATATTAAAG
38146191 ATATATACATATAT-AATAAAACATATACTAATATTAA
1 ATATATACATATATGAATAAAA-ATATACTAATATTAA
38146228 TAATAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 5 0.16
37 19 0.59
38 1 0.03
39 7 0.22
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (39 bp):
ATATATACATATATGAATAAAAATATACTAATATTAAAG
Found at i:38146237 original size:15 final size:16
Alignment explanation
Indices: 38146219--38146263 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
38146209 AAACATATAC
38146219 TAATATTAATAATAA-
1 TAATATTAATAATAAT
38146234 TAATATTAA-AAGTAAT
1 TAATATTAATAA-TAAT
*
38146250 TAAT-TCAATAATAA
1 TAATATTAATAATAA
38146264 AGTAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 2 0.08
15 18 0.69
16 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
TAATATTAATAATAAT
Found at i:38146742 original size:29 final size:29
Alignment explanation
Indices: 38146710--38146765 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
38146700 AAAAAAAAAA
38146710 AAATTTCTTCCTTGTTTTCTCTGCAGGCT
1 AAATTTCTTCCTTGTTTTCTCTGCAGGCT
38146739 AAATTTCTTCCTTGTTTTCTCTGCAGG
1 AAATTTCTTCCTTGTTTTCTCTGCAGG
38146766 TCCAGGTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.48
Consensus pattern (29 bp):
AAATTTCTTCCTTGTTTTCTCTGCAGGCT
Found at i:38148146 original size:77 final size:77
Alignment explanation
Indices: 38148019--38148373 Score: 694
Period size: 77 Copynumber: 4.6 Consensus size: 77
38148009 CGAACTTAGT
38148019 GTGTGACCT-AGGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTG
1 GTGTGACCTGAGG-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTG
38148083 GAAATACCTCGGC
65 GAAATACCTCGGC
38148096 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
1 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
38148161 AAATACCTCGGC
66 AAATACCTCGGC
38148173 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
1 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
38148238 AAATACCTCGGC
66 AAATACCTCGGC
38148250 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
1 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
38148315 AAATACCTCGGC
66 AAATACCTCGGC
38148327 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
38148374 GAAACACATA
Statistics
Matches: 277, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
77 274 0.99
78 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (77 bp):
GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACTGAAATTGG
AAATACCTCGGC
Found at i:38148479 original size:14 final size:14
Alignment explanation
Indices: 38148460--38148494 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
38148450 AGTTGATTTT
38148460 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
38148474 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
38148488 TTGAAAA
1 TTGAAAA
38148495 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:38148846 original size:13 final size:14
Alignment explanation
Indices: 38148812--38148859 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
38148802 TGTTTTTTTT
38148812 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
38148826 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
* *
38148840 TT-TAAAACAGAAT
1 TTGAAAAACAGAAA
38148853 TTGAAAA
1 TTGAAAA
38148860 GACCTTGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.60, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:38149022 original size:15 final size:16
Alignment explanation
Indices: 38148994--38149028 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
38148984 TTTTTTTTTT
*
38148994 AAAAAGACATAAATTG
1 AAAAAGACAGAAATTG
38149010 AAAAA-ACAGAAATTG
1 AAAAAGACAGAAATTG
38149025 AAAA
1 AAAA
38149029 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAAGACAGAAATTG
Found at i:38149078 original size:94 final size:91
Alignment explanation
Indices: 38148300--38149474 Score: 1112
Period size: 87 Copynumber: 13.0 Consensus size: 91
38148290 GATTTTTTTT
* * *
38148300 AAAAACTGAAATTGGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
38148365 TTGA----TTTTTGAAACACATAAATTG
64 TTGATTTTTTTTTAAAAGACATAAATTG
* * * * * *
38148389 AAAAGCAAAAATTGAAAATACCTCAGTGTGTCCGGAGGCTTAACTCACCTCTCGCAGTATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
38148454 GA--TTTTTTGAAAAG-CAGAAATTG
66 GATTTTTTTTTAAAAGACATAAATTG
* *
38148477 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
38148542 GA----TTTTTGAAACACATAAATTG
66 GATTTTTTTTTAAAAGACATAAATTG
* * *
38148564 AAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
38148629 GA----TTTTTGAAACACATAAATTG
66 GATTTTTTTTTAAAAGACATAAATTG
* * *
38148651 AAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
38148716 GA----TTTTTGAAACACATAAATTG
66 GATTTTTTTTTAAAAGACATAAATTG
* * *
38148738 AAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
38148803 GTTTTTTTTTTGAAAA-ACAGAAATTG
66 GATTTTTTTTT-AAAAGACATAAATTG
* * ** * * * * * *
38148829 AAAAACAGAAATTTAAAACAGAATTTGAAAAGACCTTGGCATGTGGCCCGAGACTCAACTCACCT
1 AAAAACAGAAA-TTGAAA-A-TACCT---CAG--CGTGTCCTGAGGCTC-A-A--C---TCACCT
* * * * *
38148894 CTAGCAGTATGAGTTGA---TTTTTGAAAA-ACAGAAATTA
51 CTCGCAATATGAGTTGATTTTTTTTTAAAAGACATAAATTG
** *** * * * * * * *
38148931 AAAATACCTCAGCGTG----T-CCT--GAG-G--CTCA-ACTCACCTCTCGCAATAT-G-AGT-T
1 AAAA-A-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC-C--TCTCGCAATAT
*
38148982 GA-TT--TTTTTTTTAAAAAGACATAAATTG
61 GAGTTGATTTTTTTTTAAAAGACATAAATTG
38149010 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
38149075 TGATTTTTTTTTTAAAAAGACATAAATTG
65 TGA-TTTTTTTTT-AAAAGACATAAATTG
38149104 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
38149169 TGATTTTTTTTTTAAAAAGACATAAATTG
65 TGA-TTTTTTTTT-AAAAGACATAAATTG
38149198 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
38149263 TGATTTTTTTTTTAAAAAGACATAAATTG
65 TGA-TTTTTTTTT-AAAAGACATAAATTG
38149292 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
38149357 TGA--TTTTTTT-GAA-ACATAAATTG
65 TGATTTTTTTTTAAAAGACATAAATTG
* * *
38149380 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
38149445 TTGA-TTTTTTTTAAAA-ACAGAATTTG
64 TTGATTTTTTTTTAAAAGACATAAATTG
38149471 AAAA
1 AAAA
38149475 TACCTCGGCA
Statistics
Matches: 944, Mismatches: 86, Indels: 110
0.83 0.08 0.10
Matches are distributed among these distances:
77 2 0.00
78 19 0.02
79 13 0.01
80 5 0.01
81 3 0.00
82 1 0.00
83 3 0.00
84 1 0.00
85 4 0.00
86 11 0.01
87 310 0.33
88 87 0.09
89 80 0.08
90 9 0.01
91 45 0.05
92 8 0.01
93 9 0.01
94 273 0.29
96 1 0.00
97 2 0.00
99 9 0.01
100 1 0.00
101 1 0.00
102 17 0.02
103 8 0.01
104 2 0.00
106 20 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTTAAAAGACATAAATTG
Found at i:38149116 original size:15 final size:16
Alignment explanation
Indices: 38149088--38149122 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
38149078 TTTTTTTTTT
*
38149088 AAAAAGACATAAATTG
1 AAAAAGACAGAAATTG
38149104 AAAAA-ACAGAAATTG
1 AAAAAGACAGAAATTG
38149119 AAAA
1 AAAA
38149123 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAAGACAGAAATTG
Found at i:38149146 original size:188 final size:188
Alignment explanation
Indices: 38148917--38149456 Score: 968
Period size: 188 Copynumber: 2.9 Consensus size: 188
38148907 TTGATTTTTG
*
38148917 AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
38148982 GATTTTTTTTTTAAAAAGACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGA
66 GATTTTTTTTTTAAAAAGACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGA
38149047 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAAGACATAAATTGA
131 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAAGACATAAATTGA
38149105 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
38149170 GATTTTTTTTTTAAAAAGACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGA
66 GATTTTTTTTTTAAAAAGACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGA
38149235 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAAGACATAAATTGA
131 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAAGACATAAATTGA
38149293 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
38149358 GA---TTTTTTT--GAA-ACATAAATTG-AAAAACAGAAATTGAAAATACCTCAACATGTAACCC
66 GATTTTTTTTTTAAAAAGACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCT
38149416 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
129 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
38149457 AAAAACAGAA
Statistics
Matches: 345, Mismatches: 5, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
181 29 0.08
182 10 0.03
183 45 0.13
185 7 0.02
188 254 0.74
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (188 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTTTAAAAAGACATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAAGACATAAATTGA
Found at i:38149210 original size:15 final size:16
Alignment explanation
Indices: 38149182--38149216 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
38149172 TTTTTTTTTT
*
38149182 AAAAAGACATAAATTG
1 AAAAAGACAGAAATTG
38149198 AAAAA-ACAGAAATTG
1 AAAAAGACAGAAATTG
38149213 AAAA
1 AAAA
38149217 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAAGACAGAAATTG
Found at i:38149304 original size:15 final size:16
Alignment explanation
Indices: 38149276--38149310 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
38149266 TTTTTTTTTT
*
38149276 AAAAAGACATAAATTG
1 AAAAAGACAGAAATTG
38149292 AAAAA-ACAGAAATTG
1 AAAAAGACAGAAATTG
38149307 AAAA
1 AAAA
38149311 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAAGACAGAAATTG
Found at i:38149391 original size:14 final size:14
Alignment explanation
Indices: 38149368--38149397 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38149358 GATTTTTTTG
*
38149368 AAACATAAATTGAA
1 AAACAGAAATTGAA
38149382 AAACAGAAATTGAA
1 AAACAGAAATTGAA
38149396 AA
1 AA
38149398 TACCTCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:38149507 original size:77 final size:77
Alignment explanation
Indices: 38149377--38149771 Score: 643
Period size: 77 Copynumber: 5.2 Consensus size: 77
38149367 GAAACATAAA
* ** *
38149377 TTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
38149442 GAGTTGATTTTT
66 GAGTTGATTTTT
* *
38149454 TTTAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
38149519 GAGTTGATTTTT
66 GAGTTGATTTTT
* *
38149531 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
38149596 GAGTTGATTTTT
66 GAGTTGATTTTT
* *
38149608 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAACAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
38149673 GAGTTGATTTTT
66 GAGTTGATTTTT
* * * *
38149685 TTGAAAAATAGAATTTG-AAATACCTCGGCATGTAACCCGAGGCTCAACTCATCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
38149749 GAGTTGA--TTT
66 GAGTTGATTTTT
38149759 TTGAAAAACAGAA
1 TTGAAAAACAGAA
38149772 ATTAAAACAT
Statistics
Matches: 299, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
74 15 0.05
76 49 0.16
77 235 0.79
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (77 bp):
TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTT
Found at i:38149657 original size:154 final size:154
Alignment explanation
Indices: 38149293--38149771 Score: 671
Period size: 154 Copynumber: 3.1 Consensus size: 154
38149283 CATAAATTGA
* * *
38149293 AAAAACAGAAATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* **
38149356 TTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCGAGGC
66 TTGA---TTTT------T---TTGAAAAACAGAATTTGAAAATACCTCGGCATGTAACCCGAGGC
*
38149421 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
119 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
38149457 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAG
1 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
38149522 TTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTTAACTCACCTC
66 TTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTAACCCGAGGCTCAACTCACCTC
38149587 TCGCAATATGAGTTGATTTTTTTG
131 TCGCAATATGAGTTGATTTTTTTG
*
38149611 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAACATGAG
1 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
38149676 TTGATTTTTTTGAAAAATAGAATTTG-AAATACCTCGGCATGTAACCCGAGGCTCAACTCATCTC
66 TTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTAACCCGAGGCTCAACTCACCTC
*
38149740 TCACAATATGAGTTGA--TTTTTG
131 TCGCAATATGAGTTGATTTTTTTG
38149762 AAAAACAGAA
1 AAAAACAGAA
38149772 ATTAAAACAT
Statistics
Matches: 292, Mismatches: 21, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
151 16 0.05
153 49 0.17
154 160 0.55
157 1 0.00
163 4 0.01
164 25 0.09
166 37 0.13
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (154 bp):
AAAAACAGAATTTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTAACCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTG
Found at i:38158598 original size:21 final size:21
Alignment explanation
Indices: 38158572--38158620 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
38158562 AGCACGCGTA
38158572 GCTTTTTCCTTTTCTTT-CTTT
1 GCTTTTTCC-TTTCTTTGCTTT
38158593 GCTTTTT-CTTTCTTTGCTTT
1 GCTTTTTCCTTTCTTTGCTTT
*
38158613 -CTCTTTCC
1 GCTTTTTCC
38158621 AGAATTCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.48
20 6 0.24
21 7 0.28
ACGTcount: A:0.00, C:0.27, G:0.06, T:0.67
Consensus pattern (21 bp):
GCTTTTTCCTTTCTTTGCTTT
Found at i:38158601 original size:15 final size:15
Alignment explanation
Indices: 38158581--38158619 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
38158571 AGCTTTTTCC
38158581 TTTTCTTTCTTTGCT
1 TTTTCTTTCTTTGCT
38158596 TTTTCTTTCTTTGCT
1 TTTTCTTTCTTTGCT
*
38158611 TTCTCTTTC
1 TTTTCTTTC
38158620 CAGAATTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (15 bp):
TTTTCTTTCTTTGCT
Found at i:38161829 original size:21 final size:21
Alignment explanation
Indices: 38161805--38161860 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
38161795 AATAGTAGTG
*
38161805 AACATATATATATATATATAA
1 AACATATATATATAGATATAA
*
38161826 AACATATA-ATACTAGATTTAA
1 AACATATATATA-TAGATATAA
*
38161847 AAAATATATATATA
1 AACATATATATATA
38161861 CAATATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
AACATATATATATAGATATAA
Found at i:38161942 original size:14 final size:15
Alignment explanation
Indices: 38161925--38161960 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
38161915 AAATATATAC
*
38161925 ATATATGTATTAAA-
1 ATATATATATTAAAG
38161939 ATATATATATTAAAG
1 ATATATATATTAAAG
38161954 ATATATA
1 ATATATA
38161961 CATATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATATATATTAAAG
Found at i:38161967 original size:21 final size:20
Alignment explanation
Indices: 38161941--38161990 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
38161931 GTATTAAAAT
*
38161941 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
38161962 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
38161982 -TA-ATATTAA
1 ATATATATTAA
38161991 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:38161980 original size:37 final size:39
Alignment explanation
Indices: 38161917--38161990 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
38161907 CGATATATAA
* *
38161917 ATATATACATATATGTATTAAAATATA-T-ATATTAAAG
1 ATATATACATATATGAATAAAAATATACTAATATTAAAG
38161954 ATATATACATATAT-AATAAAACATATACTAATATTAA
1 ATATATACATATATGAATAAAA-ATATACTAATATTAA
38161991 TAATAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 5 0.16
37 19 0.59
38 1 0.03
39 7 0.22
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (39 bp):
ATATATACATATATGAATAAAAATATACTAATATTAAAG
Found at i:38163851 original size:17 final size:17
Alignment explanation
Indices: 38163810--38163852 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
38163800 TATAATAATA
* *
38163810 ATAATTAATTTTAAGAT
1 ATAATTATTTTTAAAAT
38163827 ATATATTATTTTTAAAAT
1 ATA-ATTATTTTTAAAAT
38163845 ATAATTAT
1 ATAATTAT
38163853 ATGTTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATAATTATTTTTAAAAT
Found at i:38179778 original size:6 final size:6
Alignment explanation
Indices: 38179767--38179792 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38179757 AGTTGTAAAG
38179767 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
38179793 ATTTATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:38181740 original size:18 final size:18
Alignment explanation
Indices: 38181719--38181757 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38181709 GATTGAGAGT
* *
38181719 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
38181737 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
38181755 GAA
1 GAA
38181758 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:38199460 original size:10 final size:10
Alignment explanation
Indices: 38199445--38199469 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38199435 GGTTGTAAGC
38199445 TTATATATAT
1 TTATATATAT
38199455 TTATATATAT
1 TTATATATAT
38199465 TTATA
1 TTATA
38199470 AATGCTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATAT
Found at i:38202064 original size:11 final size:12
Alignment explanation
Indices: 38202044--38202070 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38202034 CACTTTTGCC
38202044 TTTTCTTTTTTT
1 TTTTCTTTTTTT
38202056 TTTTCTTTTTTT
1 TTTTCTTTTTTT
38202068 TTT
1 TTT
38202071 GTTTCATGCT
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:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:38202581 original size:7 final size:7
Alignment explanation
Indices: 38202571--38202595 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38202561 TTTAAAAGAT
38202571 AAAAATA
1 AAAAATA
38202578 AAAAATA
1 AAAAATA
38202585 AAAAATA
1 AAAAATA
38202592 AAAA
1 AAAA
38202596 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:38208511 original size:29 final size:29
Alignment explanation
Indices: 38208469--38208530 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
38208459 TACCAAGCTG
38208469 ACAAACCTCACAAACATTCCCACTAACCT
1 ACAAACCTCACAAACATTCCCACTAACCT
*
38208498 ACAAAGCTCACAAACATTCCCACTAACCT
1 ACAAACCTCACAAACATTCCCACTAACCT
38208527 -CAAA
1 ACAAA
38208531 TTTTGAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.16
Consensus pattern (29 bp):
ACAAACCTCACAAACATTCCCACTAACCT
Found at i:38211795 original size:5 final size:5
Alignment explanation
Indices: 38211785--38211816 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
38211775 TTGTGTGTTC
38211785 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
38211817 TTCACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:38211799 original size:9 final size:9
Alignment explanation
Indices: 38211785--38211815 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
38211775 TTGTGTGTTC
38211785 TTTATTTTA
1 TTTATTTTA
38211794 TTTATTTTA
1 TTTATTTTA
38211803 TTTTATTTTA
1 -TTTATTTTA
38211813 TTT
1 TTT
38211816 TTTCACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:38216236 original size:9 final size:9
Alignment explanation
Indices: 38216222--38216255 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
38216212 AATTTGTGTG
38216222 TTATTTATT
1 TTATTTATT
38216231 TTATTTATT
1 TTATTTATT
38216240 TTATTATATT
1 TTATT-TATT
38216250 TTATTT
1 TTATTT
38216256 TTTCACAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTATT
Found at i:38218923 original size:20 final size:20
Alignment explanation
Indices: 38218859--38218923 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 20
38218849 CATAATTGTG
*
38218859 AAATTATAACAAAATAGCGAAAA
1 AAATAATAA-AAAA-AGC-AAAA
* * * *
38218882 AAAAAAGAAAATAA-CAAGA
1 AAATAATAAAAAAAGCAAAA
38218901 AAATAATAAAAAAAGCAAAA
1 AAATAATAAAAAAAGCAAAA
38218921 AAA
1 AAA
38218924 AAACAATTTT
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
19 14 0.44
20 8 0.25
21 1 0.03
22 3 0.09
23 6 0.19
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.11
Consensus pattern (20 bp):
AAATAATAAAAAAAGCAAAA
Found at i:38234816 original size:51 final size:51
Alignment explanation
Indices: 38234690--38234820 Score: 158
Period size: 53 Copynumber: 2.5 Consensus size: 51
38234680 GTGTTTTTTA
* ** * **
38234690 AAAAAAATA-TTTTTAAGGGTGGAAAGAGGGAGATGGAGTGGCACCAGTAT
1 AAAAAAATATTTTTTAAGGGTAGAGGGAGAGAGATGGAGCAGCACCAGTAT
38234740 AACAAAAATTATTTTTTAAGGGTAGAGGGAGAGAGATGG-GCAGCACCAGTATT
1 AA-AAAAA-TATTTTTTAAGGGTAGAGGGAGAGAGATGGAGCAGCACCAGTA-T
*
38234793 AAAAAAATATTTTTTAAAGGTAGAGGGA
1 AAAAAAATATTTTTTAAGGGTAGAGGGA
38234821 AAGAATCGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
50 2 0.03
51 25 0.36
52 17 0.24
53 26 0.37
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.24
Consensus pattern (51 bp):
AAAAAAATATTTTTTAAGGGTAGAGGGAGAGAGATGGAGCAGCACCAGTAT
Found at i:38234962 original size:32 final size:33
Alignment explanation
Indices: 38234916--38235002 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
38234906 TAAATGGTGA
* *
38234916 AGGGTGAGAAAGAGGCGGCATT-A-GGTAAGTGG
1 AGGGTGAGAGAGAGGCGGCATTAATGG-AAGTAG
* **
38234948 GGGGTGAGAGAGAGGCAACATTAATGGAAGTAG
1 AGGGTGAGAGAGAGGCGGCATTAATGGAAGTAG
38234981 AGGGTGAGAGAGAGGCGGCATT
1 AGGGTGAGAGAGAGGCGGCATT
38235003 GGTGGAGGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
32 18 0.40
33 25 0.56
34 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.46, T:0.15
Consensus pattern (33 bp):
AGGGTGAGAGAGAGGCGGCATTAATGGAAGTAG
Found at i:38239037 original size:28 final size:26
Alignment explanation
Indices: 38238999--38239067 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 26
38238989 GATGAACTGT
* *
38238999 ACAATTAATAACATGGATGTAGTAAA
1 ACAATTAATAACATGAAGGTAGTAAA
* *
38239025 ACGATTAAAATAACATGAAGGTAGTAAC
1 ACAATT--AATAACATGAAGGTAGTAAA
38239053 ACAATTAATAACATG
1 ACAATTAATAACATG
38239068 TATTGAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.39
28 22 0.61
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (26 bp):
ACAATTAATAACATGAAGGTAGTAAA
Found at i:38240456 original size:18 final size:18
Alignment explanation
Indices: 38240433--38240480 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
38240423 ATTTTAGAAA
38240433 TATGGGCCCACATGCCCG
1 TATGGGCCCACATGCCCG
* *
38240451 TATGGGCCCACACGCTCG
1 TATGGGCCCACATGCCCG
*
38240469 TGT-GGCCCACAT
1 TATGGGCCCACAT
38240481 CCCCAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.17, C:0.38, G:0.27, T:0.19
Consensus pattern (18 bp):
TATGGGCCCACATGCCCG
Found at i:38242422 original size:20 final size:20
Alignment explanation
Indices: 38242380--38242423 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
38242370 AACAACGTAA
* *
38242380 TTTTGAAGAATTACTATTTT
1 TTTTGAAGAATTACTAATAT
38242400 TTTTGAAGAATTACTAATAT
1 TTTTGAAGAATTACTAATAT
38242420 TTTT
1 TTTT
38242424 ACACATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTGAAGAATTACTAATAT
Found at i:38242572 original size:76 final size:76
Alignment explanation
Indices: 38242488--38242790 Score: 466
Period size: 76 Copynumber: 4.0 Consensus size: 76
38242478 AATAAAATTT
* * *
38242488 TTTTATTATGTAACATATATTCAACATTTGTAAAATGTAATTCTTTTACCATAATAATCCAAAAA
1 TTTTATTATGTAACAGATATTCAACATTTGTAAAATGTAGTTCTTTTACCACAATAATCCAAAAA
*
38242553 AAGTAATTAAA
66 AATTAATTAAA
* * *
38242564 TTTTATTATGTAACAGATATTCAACATTTGTAAAATATAGTTTTTTTTCCACAATAATCCAAAAA
1 TTTTATTATGTAACAGATATTCAACATTTGTAAAATGTAGTTCTTTTACCACAATAATCCAAAAA
38242629 AATTAATTAAA
66 AATTAATTAAA
* * * *
38242640 TTTTATTAAGTAACCGGTATTCAACATTTGTAAAATGTAGTTCTTTTACCACAATAATCTAAAAA
1 TTTTATTATGTAACAGATATTCAACATTTGTAAAATGTAGTTCTTTTACCACAATAATCCAAAAA
38242705 AATTAATTAAA
66 AATTAATTAAA
* * *
38242716 TTTTATTATGTAACAAATATTCAACATTTGTAAAATGTAGTTCTTTTACAATAATAATCCAAAAA
1 TTTTATTATGTAACAGATATTCAACATTTGTAAAATGTAGTTCTTTTACCACAATAATCCAAAAA
38242781 AA--AATTAAA
66 AATTAATTAAA
38242790 T
1 T
38242791 ACCAAAATGG
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
74 8 0.04
76 198 0.96
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (76 bp):
TTTTATTATGTAACAGATATTCAACATTTGTAAAATGTAGTTCTTTTACCACAATAATCCAAAAA
AATTAATTAAA
Found at i:38243642 original size:56 final size:55
Alignment explanation
Indices: 38243553--38243660 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
38243543 GTATCCATTG
* *
38243553 GATGATAAATCATCCCTTTTAATTTGAATAGTGCTTATAAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAAAAGTGCTTATAAATAATT-AATTTGTAA
*
38243609 GATGATAAATCATCACTTTTAATTTGAAAAGTGCTTATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAAAAGTGCTTATAAATAATTAATTTG
38243661 CAATCTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 6 0.12
56 43 0.88
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAAAAGTGCTTATAAATAATTAATTTGTAA
Found at i:38248777 original size:15 final size:16
Alignment explanation
Indices: 38248741--38248777 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
38248731 CTCTCTTTCT
*
38248741 ACAAAATATAAAATAA
1 ACAAAATATAAAAAAA
38248757 AC-AAATA-AAAAAAA
1 ACAAAATATAAAAAAA
38248771 ACAAAAT
1 ACAAAAT
38248778 TCACATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 9 0.47
16 2 0.11
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (16 bp):
ACAAAATATAAAAAAA
Found at i:38251172 original size:33 final size:33
Alignment explanation
Indices: 38251110--38251216 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
38251100 ACTGTTGGGA
* *
38251110 AGGGTGATGTTAAAAGGGTAGAAGT-TGATGAGG
1 AGGGTGATGATGAAAGGGTAGAA-TCTGATGAGG
*
38251143 AGGGTGATGATGAAGGGGTAGAATCTGATG-GTG
1 AGGGTGATGATGAAAGGGTAGAATCTGATGAG-G
* *
38251176 AAGGTGAT-CTGGAAAGGGTAGAATCTG-TGAGG
1 AGGGTGATGAT-GAAAGGGTAGAATCTGATGAGG
*
38251208 AGGATGATG
1 AGGGTGATG
38251217 TAAGAGGGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
32 12 0.20
33 49 0.80
ACGTcount: A:0.31, C:0.03, G:0.43, T:0.23
Consensus pattern (33 bp):
AGGGTGATGATGAAAGGGTAGAATCTGATGAGG
Found at i:38251424 original size:51 final size:51
Alignment explanation
Indices: 38251359--38251503 Score: 220
Period size: 51 Copynumber: 2.8 Consensus size: 51
38251349 CTGCTGATGA
*
38251359 ATATGTTGGTGATTTTGCAACATCAGATGGAATGGATAATGTTGCTAGTAG
1 ATATGTTGGTGATTTTGCAACATCAGATGGAATGGATAATGTTGCTACTAG
* *
38251410 ATATGTTGGTGATTTTGCAACATCAGAT-GAAGGAGATAATGTTGCTACTGG
1 ATATGTTGGTGATTTTGCAACATCAGATGGAATG-GATAATGTTGCTACTAG
* * *
38251461 ATATGTTAGTGATTTTGCAACATCATATGGAGTGGATAATGTT
1 ATATGTTGGTGATTTTGCAACATCAGATGGAATGGATAATGTT
38251504 ACTATTGCAA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 4 0.05
51 78 0.92
52 3 0.04
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (51 bp):
ATATGTTGGTGATTTTGCAACATCAGATGGAATGGATAATGTTGCTACTAG
Found at i:38253118 original size:23 final size:23
Alignment explanation
Indices: 38253092--38253138 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38253082 TGAAGTTATC
38253092 AATATACAATGGACCTAAGTCAA
1 AATATACAATGGACCTAAGTCAA
38253115 AATATACAATGGACCTAAGTCAA
1 AATATACAATGGACCTAAGTCAA
38253138 A
1 A
38253139 GGATATGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (23 bp):
AATATACAATGGACCTAAGTCAA
Found at i:38259391 original size:16 final size:16
Alignment explanation
Indices: 38259372--38259435 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
38259362 AAATGTTATA
38259372 GATTTAGGGATTTTAC
1 GATTTAGGGATTTTAC
*
38259388 GATTTAGAGG-TTTCAC
1 GATTTAG-GGATTTTAC
*
38259404 GATTTAGGGAATTTGAC
1 GATTTAGGG-ATTTTAC
*
38259421 GAATTAGGGATTTTA
1 GATTTAGGGATTTTA
38259436 GTATTTGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.05
16 24 0.59
17 15 0.37
ACGTcount: A:0.28, C:0.06, G:0.27, T:0.39
Consensus pattern (16 bp):
GATTTAGGGATTTTAC
Found at i:38259478 original size:10 final size:10
Alignment explanation
Indices: 38259463--38259490 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
38259453 TGAATTTGAG
38259463 GATTTGAGAT
1 GATTTGAGAT
38259473 GATTTGAGAT
1 GATTTGAGAT
38259483 GATTTGAG
1 GATTTGAG
38259491 GGATTTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (10 bp):
GATTTGAGAT
Found at i:38263788 original size:71 final size:71
Alignment explanation
Indices: 38263641--38263800 Score: 221
Period size: 71 Copynumber: 2.3 Consensus size: 71
38263631 TTGGTATCGG
* * * * * * *
38263641 TAGAACTCATCAAAGTATCAATAGAAGTGCAGGGGATGCTGAACTTTGGCTACTAACTTGACTTG
1 TAGAAGTCCTCAAGGTATCAATAGAAATGCAAGAGATGCTGAACTTTGGCTACTAACTTAACTTG
*
38263706 TTTCGG
66 TTTCGA
**
38263712 TAGAAGTCCTCAAGGTATCAATAGAAATGCAAGAGATGCTGAACTTTGGCTACTGGCTTAACTTG
1 TAGAAGTCCTCAAGGTATCAATAGAAATGCAAGAGATGCTGAACTTTGGCTACTAACTTAACTTG
38263777 TTTCGA
66 TTTCGA
*
38263783 TAGAAGTCCTCACGGTAT
1 TAGAAGTCCTCAAGGTAT
38263801 TAGTAGCGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (71 bp):
TAGAAGTCCTCAAGGTATCAATAGAAATGCAAGAGATGCTGAACTTTGGCTACTAACTTAACTTG
TTTCGA
Found at i:38268574 original size:6 final size:6
Alignment explanation
Indices: 38268565--38268618 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
38268555 TAAGTCTAAG
* *
38268565 AAAATA AAAATAA AACAACTA AAAATA AAAATA AAGATA AAAATA AATATA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
38268616 AAA
1 AAA
38268619 CAAATAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 30 0.73
7 5 0.12
8 5 0.12
9 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:38270169 original size:34 final size:33
Alignment explanation
Indices: 38270131--38270196 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
38270121 GGAATAAATA
38270131 AATTAAATAA-AAAAGAAGAAGAATAAAACTAATT
1 AATTAAATAATAAAAGAA-AAGAATAAAA-TAATT
* * *
38270165 AATTAATTAATTAAAGAAAATAATAAAATAAT
1 AATTAAATAATAAAAGAAAAGAATAAAATAAT
38270197 AAAATGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.14
34 18 0.64
35 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (33 bp):
AATTAAATAATAAAAGAAAAGAATAAAATAATT
Found at i:38270192 original size:8 final size:8
Alignment explanation
Indices: 38270181--38270215 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
38270171 TTAATTAAAG
38270181 AAAATAAT
1 AAAATAAT
38270189 AAAATAAT
1 AAAATAAT
*
38270197 AAAATGAT
1 AAAATAAT
38270205 AAAATAAT
1 AAAATAAT
38270213 AAA
1 AAA
38270216 GAATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:38275226 original size:46 final size:46
Alignment explanation
Indices: 38275148--38275364 Score: 220
Period size: 46 Copynumber: 4.7 Consensus size: 46
38275138 TTATCTTCGA
* * * * * *
38275148 CATGATGCCATAGTGTCTTCCAACTATGGTTTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
** * * *
38275194 CATGTTTACATGGTATCTTTCAACCATGGTTTTATTCATTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
* *
38275240 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCGTTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
* * **
38275286 CAT-TTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCTCAT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
* * * * * *
38275331 CATATTGTCATAGTATCTTTCAACTATAGTCTTA
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTA
38275365 CATATCTGAA
Statistics
Matches: 145, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 39 0.27
46 106 0.73
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
Found at i:38275297 original size:45 final size:46
Alignment explanation
Indices: 38275148--38275325 Score: 223
Period size: 46 Copynumber: 3.9 Consensus size: 46
38275138 TTATCTTCGA
* * * * * **
38275148 CATGATGCCATAGTGTCTTCCAACTATGGTTTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
** * *
38275194 CATGTTTACATGGTATCTTTCAACCATGGTTTTATTCATTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
*
38275240 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCGTTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
* *
38275286 CAT-TTGCCATGGTATCTTTCAATCATGGTCTTATTCATTT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTT
38275326 CTCATCATAT
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 34 0.30
46 81 0.70
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
Found at i:38275347 original size:91 final size:92
Alignment explanation
Indices: 38275153--38275364 Score: 255
Period size: 91 Copynumber: 2.3 Consensus size: 92
38275143 TTCGACATGA
* * *
38275153 TGCCATAGTGTCTTCCAACTATGGTTTTATTCATTTCCTGTCATGTTTACATGGTATCTTTCAAC
1 TGCCATAGTATCTTCCAACTATGGTCTTATTCATTTCCTGTCATGTTGACATGGTATCTTTCAAC
* * ** *
38275218 CATGGTTTTATTCATTTTTTGTCATGT
66 CATGGTCTTATTCATTTCTCATCATAT
* * * ** * *
38275245 TGCCATGGTATCTTCCAACCATGGTCTTATTCGTTTTTTGTCAT-TTGCCATGGTATCTTTCAAT
1 TGCCATAGTATCTTCCAACTATGGTCTTATTCATTTCCTGTCATGTTGACATGGTATCTTTCAAC
38275309 CATGGTCTTATTCATTTCTCATCATAT
66 CATGGTCTTATTCATTTCTCATCATAT
* * *
38275336 TGTCATAGTATCTTTCAACTATAGTCTTA
1 TGCCATAGTATCTTCCAACTATGGTCTTA
38275365 CATATCTGAA
Statistics
Matches: 100, Mismatches: 20, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
91 63 0.63
92 37 0.37
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (92 bp):
TGCCATAGTATCTTCCAACTATGGTCTTATTCATTTCCTGTCATGTTGACATGGTATCTTTCAAC
CATGGTCTTATTCATTTCTCATCATAT
Found at i:38277184 original size:11 final size:11
Alignment explanation
Indices: 38277168--38277223 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
38277158 CTTTATATAC
38277168 TAATAAAATAA
1 TAATAAAATAA
38277179 TAATAAAATAA
1 TAATAAAATAA
* **
38277190 TAA-AATATCT
1 TAATAAAATAA
* *
38277200 TATTAAAATAT
1 TAATAAAATAA
38277211 TAATAAAATAA
1 TAATAAAATAA
38277222 TA
1 TA
38277224 TTTATCTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 6 0.17
11 30 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:38281369 original size:21 final size:21
Alignment explanation
Indices: 38281345--38281386 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38281335 TGGAGCAAAT
38281345 AACATAAAAAAATAT-TTTAAA
1 AACA-AAAAAAATATATTTAAA
* *
38281366 AACAAAACATATATATTTAAA
1 AACAAAAAAAATATATTTAAA
38281387 GGTGATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAAAAAAATATATTTAAA
Found at i:38287721 original size:39 final size:39
Alignment explanation
Indices: 38287665--38287808 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
38287655 CCAACATAAT
*
38287665 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
38287704 TGCCTTCGGGACATAGCCCGGATATAACACCAGCGCGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
38287743 TGCCTTCGGAACTTAGCCCGGATATAACACCAGTACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
38287782 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
38287809 ATCTCACACA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:38294144 original size:71 final size:71
Alignment explanation
Indices: 38294028--38294165 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
38294018 TACATGCCAT
*
38294028 TATCAAAGTTTAATTACTAGAGTACCGAATATGCTTAGATAGTGTGGACGACTTCGACTTTGAGA
1 TATCAAAGTTTAACTACTAGAGTACCGAATATGCTTAGATAGTGTGGACGACTTCGACTTTGAGA
38294093 TCTCCA
66 TCTCCA
38294099 TATCAAAGTTTAACTACTAGAGTACCGAATATGCTTAGATAGTGTGGACGACTTCGACTTTGAGA
1 TATCAAAGTTTAACTACTAGAGTACCGAATATGCTTAGATAGTGTGGACGACTTCGACTTTGAGA
38294164 TC
66 TC
38294166 CCCGAGACCG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (71 bp):
TATCAAAGTTTAACTACTAGAGTACCGAATATGCTTAGATAGTGTGGACGACTTCGACTTTGAGA
TCTCCA
Found at i:38294825 original size:39 final size:39
Alignment explanation
Indices: 38294769--38294912 Score: 261
Period size: 39 Copynumber: 3.7 Consensus size: 39
38294759 CCAACATAAT
38294769 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
38294808 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
38294847 TGCCTTCGGAACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
38294886 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
38294913 ATCTCACACA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:38304069 original size:24 final size:24
Alignment explanation
Indices: 38304042--38304094 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
38304032 TTTAATGAAT
* * * *
38304042 TAGTTTGCACATACTTGATAAAGC
1 TAGTTCGCACATACATGACAAAAC
*
38304066 TAGTTCGCATATACATGACAAAAC
1 TAGTTCGCACATACATGACAAAAC
38304090 TAGTT
1 TAGTT
38304095 AGCGCATGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (24 bp):
TAGTTCGCACATACATGACAAAAC
Found at i:38307632 original size:41 final size:42
Alignment explanation
Indices: 38307586--38307667 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
38307576 TTGGTACCTG
38307586 AACTTAACAC-TTTTTCTTAATTTGGAACTTAAACTTGACAA
1 AACTTAACACTTTTTTCTTAATTTGGAACTTAAACTTGACAA
* *
38307627 AACTTAACACTTTTTTCTTATTTTGGTACTTAAACTTGACA
1 AACTTAACACTTTTTTCTTAATTTGGAACTTAAACTTGACA
38307668 CTTTTTCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (42 bp):
AACTTAACACTTTTTTCTTAATTTGGAACTTAAACTTGACAA
Found at i:38307684 original size:31 final size:32
Alignment explanation
Indices: 38307626--38307694 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
38307616 AAACTTGACA
* **
38307626 AAACTTAACACTTTTTTCTTATTTTGGTACTT
1 AAACTTAACACTTTTTTCATAAGTTGGTACTT
*
38307658 AAACTTGACAC-TTTTTCATAAGTTGGTACTT
1 AAACTTAACACTTTTTTCATAAGTTGGTACTT
38307689 AAACTT
1 AAACTT
38307695 TTTGGGGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 23 0.70
32 10 0.30
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (32 bp):
AAACTTAACACTTTTTTCATAAGTTGGTACTT
Found at i:38309152 original size:21 final size:22
Alignment explanation
Indices: 38309119--38309160 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38309109 AAAAATGAAT
*
38309119 TTTTTCGTGTAAAAACTCAAGC
1 TTTTTCGTATAAAAACTCAAGC
*
38309141 TTTTTC-TATAAAATCTCAAG
1 TTTTTCGTATAAAAACTCAAG
38309161 TAACTCCCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTTTCGTATAAAAACTCAAGC
Found at i:38312346 original size:21 final size:22
Alignment explanation
Indices: 38312322--38312362 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38312312 TAAATCTCTG
* *
38312322 GGGTTTAAGG-TCTAGATTTTA
1 GGGTTCAAGGTTCAAGATTTTA
38312343 GGGTTCAAGGTTCAAGATTT
1 GGGTTCAAGGTTCAAGATTT
38312363 AAGGTCGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (22 bp):
GGGTTCAAGGTTCAAGATTTTA
Found at i:38312363 original size:21 final size:21
Alignment explanation
Indices: 38312322--38312393 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 21
38312312 TAAATCTCTG
* *
38312322 GGGTTTAAGG-TCTAGATTTTA
1 GGGTTCAAGGTTCAAGA-TTTA
38312343 GGGTTCAAGGTTCAAGATTTA
1 GGGTTCAAGGTTCAAGATTTA
* *
38312364 AGG-TCGAGAGTTCAATG-TTTA
1 GGGTTCAAG-GTTCAA-GATTTA
*
38312385 GGGTCCAAG
1 GGGTTCAAG
38312394 ATTTAAGGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.10
21 27 0.68
22 9 0.22
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (21 bp):
GGGTTCAAGGTTCAAGATTTA
Found at i:38312426 original size:21 final size:22
Alignment explanation
Indices: 38312370--38312426 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
38312360 TTTAAGGTCG
*
38312370 AGAGTTCAATGTTT-AGGGTCCA
1 AGAGTT-AAGGTTTAAGGGTCCA
*
38312392 AGATTTAAGG-TTAAGGGTCCA
1 AGAGTTAAGGTTTAAGGGTCCA
*
38312413 A-AGTTGAGGTTTAA
1 AGAGTTAAGGTTTAA
38312427 AAAAATTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGTTAAGGTTTAAGGGTCCA
Found at i:38316869 original size:19 final size:21
Alignment explanation
Indices: 38316831--38316874 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
38316821 TAAAATATAA
* *
38316831 ATTTTGAATTTTTTATAAA-T
1 ATTTTAAATTTTTGATAAATT
38316851 ATTTTAAATTTTTGA-AAATT
1 ATTTTAAATTTTTGATAAATT
38316871 ATTT
1 ATTT
38316875 CGATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTAAATTTTTGATAAATT
Found at i:38327358 original size:37 final size:37
Alignment explanation
Indices: 38327317--38327389 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
38327307 AAAACGGTAA
38327317 GATTTACTC-AGTTAAGCTCCATTCAGTATAATAGTAT
1 GATTTACTCGA-TTAAGCTCCATTCAGTATAATAGTAT
* * **
38327354 GATTTGCTCGATTGAGCTTTATTCAGTATAATAGTA
1 GATTTACTCGATTAAGCTCCATTCAGTATAATAGTA
38327390 AGAGTTGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (37 bp):
GATTTACTCGATTAAGCTCCATTCAGTATAATAGTAT
Found at i:38330274 original size:30 final size:30
Alignment explanation
Indices: 38330240--38330302 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
38330230 ACTTAACAAG
*
38330240 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
38330270 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
38330300 CAA
1 CAA
38330303 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:38332269 original size:24 final size:25
Alignment explanation
Indices: 38332237--38332285 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
38332227 ATGTATGAAA
*
38332237 TGAATGATTTT-TTGAATAATTTAG
1 TGAATGATTTTAGTGAATAATTTAG
38332261 TGAATGATTTTAAGTGAATAATTTA
1 TGAATGATTTT-AGTGAATAATTTA
38332286 AAGTAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TGAATGATTTTAGTGAATAATTTAG
Found at i:38332278 original size:14 final size:14
Alignment explanation
Indices: 38332249--38332289 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
38332239 AATGATTTTT
38332249 TGAATAATTT--AG
1 TGAATAATTTAAAG
* *
38332261 TGAATGATTTTAAG
1 TGAATAATTTAAAG
38332275 TGAATAATTTAAAG
1 TGAATAATTTAAAG
38332289 T
1 T
38332290 AAGAAAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 9 0.38
14 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (14 bp):
TGAATAATTTAAAG
Found at i:38333480 original size:21 final size:21
Alignment explanation
Indices: 38333455--38333522 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
38333445 ACAATATATC
38333455 GATACATGC-AAGAAATGTATT
1 GATACAT-CTAAGAAATGTATT
* ***
38333476 GATACCTCTAAGGTGTGTATT
1 GATACATCTAAGAAATGTATT
*
38333497 GATACATCTAAGAAATGTATC
1 GATACATCTAAGAAATGTATT
38333518 GATAC
1 GATAC
38333523 CTTACCCACA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 1 0.03
21 36 0.97
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (21 bp):
GATACATCTAAGAAATGTATT
Found at i:38336148 original size:28 final size:28
Alignment explanation
Indices: 38336108--38336164 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38336098 TTCACTCATA
*
38336108 GGAATGAAGTTACCTGTTGGAATTAGTC
1 GGAATAAAGTTACCTGTTGGAATTAGTC
38336136 GGAATAAAGTTACCTGTTGGAATTAGTC
1 GGAATAAAGTTACCTGTTGGAATTAGTC
38336164 G
1 G
38336165 CTACAAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.32
Consensus pattern (28 bp):
GGAATAAAGTTACCTGTTGGAATTAGTC
Found at i:38338581 original size:69 final size:69
Alignment explanation
Indices: 38338470--38338608 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
38338460 TTGTCTGGAA
* *
38338470 AGGATAAAACATGAAAGTTGTTTATATTGGCACTCATGAGCCTCTCCCCATTGGGTATATTCTAA
1 AGGATAAAACATGAAAGCTGTTTATATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
38338535 TATC
66 TATC
*
38338539 AGGATAAAACATGAAAGCTGTTTGTATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
1 AGGATAAAACATGAAAGCTGTTTATATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
38338604 TATC
66 TATC
38338608 A
1 A
38338609 CCTAGCAGAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (69 bp):
AGGATAAAACATGAAAGCTGTTTATATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
TATC
Found at i:38351619 original size:25 final size:25
Alignment explanation
Indices: 38351587--38351639 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
38351577 ATCTATAAAG
*
38351587 AACTCCACTTCTTTATCCGATAGTA
1 AACTCCACTTCTCTATCCGATAGTA
* *
38351612 AACTCCACTTCTCTATCCGGTGGTA
1 AACTCCACTTCTCTATCCGATAGTA
38351637 AAC
1 AAC
38351640 CAGGTAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (25 bp):
AACTCCACTTCTCTATCCGATAGTA
Found at i:38356548 original size:30 final size:31
Alignment explanation
Indices: 38356491--38356548 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
38356481 TTGGGATGGA
* *
38356491 AAGGAAGTAAAAGTTTTGGGGGGAAAGTGGG
1 AAGGAAGTAAAAGTTTTGAGGGAAAAGTGGG
*
38356522 AAGG-AGTAAAAGTTTTTAGGGAAAAGT
1 AAGGAAGTAAAAGTTTTGAGGGAAAAGT
38356549 AAAAAGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
AAGGAAGTAAAAGTTTTGAGGGAAAAGTGGG
Found at i:38357799 original size:17 final size:17
Alignment explanation
Indices: 38357773--38357806 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38357763 TTTGCACTTT
*
38357773 CCATTTATGAATCTAAA
1 CCATTCATGAATCTAAA
38357790 CCATTCATGAATCTAAA
1 CCATTCATGAATCTAAA
38357807 GAATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
CCATTCATGAATCTAAA
Found at i:38367940 original size:23 final size:22
Alignment explanation
Indices: 38367913--38367977 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
38367903 AACAAAATTT
*
38367913 TAATATTTTATATTTATCTCAAA
1 TAATATTTTATATTTAT-TAAAA
*
38367936 TAATATATTATATTT-TTAAAA
1 TAATATTTTATATTTATTAAAA
38367957 TAA-ATTTT-TATTTATTTAAAA
1 TAATATTTTATATTTA-TTAAAA
38367978 ATAAGAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 13 0.35
22 1 0.03
23 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATATTTTATATTTATTAAAA
Found at i:38369537 original size:20 final size:20
Alignment explanation
Indices: 38369514--38369552 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38369504 AAACTTTCTT
* *
38369514 GTTTTAAGTAGTTATTTCAA
1 GTTTTAAATAATTATTTCAA
38369534 GTTTTAAATAATTATTTCA
1 GTTTTAAATAATTATTTCA
38369553 TATATCACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
GTTTTAAATAATTATTTCAA
Found at i:38373633 original size:13 final size:13
Alignment explanation
Indices: 38373615--38373657 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
38373605 AATTTTAAAT
38373615 TATTTAGTGATAA
1 TATTTAGTGATAA
*
38373628 TATTTA--GA-AT
1 TATTTAGTGATAA
38373638 TATTTAGTGATAA
1 TATTTAGTGATAA
38373651 TATTTAG
1 TATTTAG
38373658 AAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:38373638 original size:23 final size:23
Alignment explanation
Indices: 38373608--38373659 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
38373598 TAGTTTAAAT
38373608 TTTA-AATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
38373630 TTTAGAATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
38373653 TTTAGAA
1 TTTAGAA
38373660 AAAATCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (23 bp):
TTTAGAATTATTTAGTGATAATA
Found at i:38374630 original size:5 final size:6
Alignment explanation
Indices: 38374612--38374636 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38374602 TTTAAACCCC
38374612 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
38374637 CAGCATTTCT
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:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:38376935 original size:24 final size:24
Alignment explanation
Indices: 38376908--38376956 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
38376898 ATGTACAAAG
*
38376908 ATTGATGTTCGTAGTGGAACCCTC
1 ATTGATGTTCGTAGTAGAACCCTC
38376932 ATTGATGTTCGTAGTAGAACCCTC
1 ATTGATGTTCGTAGTAGAACCCTC
38376956 A
1 A
38376957 CTATGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (24 bp):
ATTGATGTTCGTAGTAGAACCCTC
Found at i:38379305 original size:153 final size:153
Alignment explanation
Indices: 38379122--38379443 Score: 644
Period size: 153 Copynumber: 2.1 Consensus size: 153
38379112 TACTTTTTAT
38379122 CAAAATTTTACTCCCCAAAACCCTCAAAACTTTTTATTTTTCCCCAAAATTTTTACTCCCTCCCA
1 CAAAATTTTACTCCCCAAAACCCTCAAAACTTTTTATTTTTCCCCAAAATTTTTACTCCCTCCCA
38379187 CTTTCCCCCTAAACCTTTTACTCCCTTCCCATCCCACCTCTCATCTACCCCAAACCCATCCCCCC
66 CTTTCCCCCTAAACCTTTTACTCCCTTCCCATCCCACCTCTCATCTACCCCAAACCCATCCCCCC
38379252 AATTTTTTTTAATATTTTCCCTC
131 AATTTTTTTTAATATTTTCCCTC
38379275 CAAAATTTTACTCCCCAAAACCCTCAAAACTTTTTATTTTTCCCCAAAATTTTTACTCCCTCCCA
1 CAAAATTTTACTCCCCAAAACCCTCAAAACTTTTTATTTTTCCCCAAAATTTTTACTCCCTCCCA
38379340 CTTTCCCCCTAAACCTTTTACTCCCTTCCCATCCCACCTCTCATCTACCCCAAACCCATCCCCCC
66 CTTTCCCCCTAAACCTTTTACTCCCTTCCCATCCCACCTCTCATCTACCCCAAACCCATCCCCCC
38379405 AATTTTTTTTAATATTTTCCCTC
131 AATTTTTTTTAATATTTTCCCTC
38379428 CAAAATTTTACTCCCC
1 CAAAATTTTACTCCCC
38379444 CATTTACTTT
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 169 1.00
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (153 bp):
CAAAATTTTACTCCCCAAAACCCTCAAAACTTTTTATTTTTCCCCAAAATTTTTACTCCCTCCCA
CTTTCCCCCTAAACCTTTTACTCCCTTCCCATCCCACCTCTCATCTACCCCAAACCCATCCCCCC
AATTTTTTTTAATATTTTCCCTC
Found at i:38380495 original size:13 final size:13
Alignment explanation
Indices: 38380477--38380531 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
38380467 AATTTTGAAT
38380477 TATTTAGTGATAA
1 TATTTAGTGATAA
*
38380490 TATTTAGTAATAA
1 TATTTAGTGATAA
38380503 TATTTAG-GAT--
1 TATTTAGTGATAA
* *
38380513 TATTTAATTATAA
1 TATTTAGTGATAA
38380526 TATTTA
1 TATTTA
38380532 AAAAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 25 0.71
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:38382587 original size:30 final size:30
Alignment explanation
Indices: 38382515--38382599 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
38382505 GGATGTGGAG
* * * * * *
38382515 CTTCTACAGGCGACAGTGCAGGTGATGGCA
1 CTTCTACGGGTGACGGTGCCGGTGACGACA
*
38382545 CTTCTACGGGTGACGGTGCTGGTGACGACA
1 CTTCTACGGGTGACGGTGCCGGTGACGACA
*
38382575 CTTCTA-GTGGTGATGGTGCCGGTGA
1 CTTCTACG-GGTGACGGTGCCGGTGA
38382600 TTTGATTCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 45 0.98
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.25
Consensus pattern (30 bp):
CTTCTACGGGTGACGGTGCCGGTGACGACA
Found at i:38385157 original size:30 final size:30
Alignment explanation
Indices: 38385121--38385205 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
38385111 GGATGTGGAG
* *
38385121 CTTCTACAGGCGATGGTGCAGGTGAGGGCA
1 CTTCTACAGGTGATGGTGCAGGTGAGGACA
* * *
38385151 CTTCTACAGGTGACGGTGCTGGTGATGACA
1 CTTCTACAGGTGATGGTGCAGGTGAGGACA
** *
38385181 CTTGGACAGGTGATGGTGCCGGTGA
1 CTTCTACAGGTGATGGTGCAGGTGA
38385206 TGGAGATGGT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.24
Consensus pattern (30 bp):
CTTCTACAGGTGATGGTGCAGGTGAGGACA
Found at i:38387300 original size:10 final size:11
Alignment explanation
Indices: 38387281--38387305 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38387271 GATAAATACG
38387281 AAAACAAAAAA
1 AAAACAAAAAA
38387292 AAAACAAAAAA
1 AAAACAAAAAA
38387303 AAA
1 AAA
38387306 GAACATATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:38387568 original size:20 final size:21
Alignment explanation
Indices: 38387540--38387579 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
38387530 CTCTTTTCTC
38387540 TTTTCTCTTTT-TGTTTTTTTG
1 TTTTCTCTTTTCT-TTTTTTTG
38387561 TTTT-TCTTTTCTTTTTTTT
1 TTTTCTCTTTTCTTTTTTTT
38387580 AAATACAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (21 bp):
TTTTCTCTTTTCTTTTTTTTG
Found at i:38388172 original size:7 final size:7
Alignment explanation
Indices: 38388152--38388185 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
38388142 TTTATTGCGT
38388152 TTTATTA
1 TTTATTA
38388159 GTTTATTA
1 -TTTATTA
38388167 TTTATTA
1 TTTATTA
*
38388174 TTTATAA
1 TTTATTA
38388181 TTTAT
1 TTTAT
38388186 ACCCCTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:38388290 original size:19 final size:19
Alignment explanation
Indices: 38388268--38388317 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
38388258 TACAAACTAT
*
38388268 TTTATTATTTATTTATTTA
1 TTTATTACTTATTTATTTA
*
38388287 TTTATTACTTCTTTATTT-
1 TTTATTACTTATTTATTTA
38388305 TTATATATACTTA
1 TT-TAT-TACTTA
38388318 AAAATTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.08
19 19 0.73
20 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTACTTATTTATTTA
Found at i:38388379 original size:26 final size:27
Alignment explanation
Indices: 38388345--38388396 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
38388335 ATTCTTTTGT
*
38388345 TTGTGCATTTTTA-TTTATTTATTATTA
1 TTGTGCATTATTATTTTATTT-TTATTA
38388372 TTGT-CATTATTATTTTATTTTTATT
1 TTGTGCATTATTATTTTATTTTTATT
38388397 CTTTTGTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (27 bp):
TTGTGCATTATTATTTTATTTTTATTA
Found at i:38388391 original size:31 final size:29
Alignment explanation
Indices: 38388353--38388430 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
38388343 GTTTGTGCAT
38388353 TTTTATTTATTTATTATTATTG-TCATTATTA
1 TTTTA-TTATTTATT-TTATTGTTC-TTATTA
*
38388384 TTTTATT-TTTATTCTT-TTGTTCTTGTTA
1 TTTTATTATTTATT-TTATTGTTCTTATTA
*
38388412 TTTTATTATTTCTTTTATT
1 TTTTATTATTTATTTTATT
38388431 ATTTTTGGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
28 17 0.41
29 17 0.41
30 2 0.05
31 5 0.12
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (29 bp):
TTTTATTATTTATTTTATTGTTCTTATTA
Found at i:38392140 original size:19 final size:20
Alignment explanation
Indices: 38392104--38392143 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
38392094 CAATGTCGTA
*
38392104 TATGTAAAATATATTTGTTT
1 TATGTAAAATAGATTTGTTT
38392124 TATGTAAAA-AGATTTGTTT
1 TATGTAAAATAGATTTGTTT
38392143 T
1 T
38392144 GTAGTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (20 bp):
TATGTAAAATAGATTTGTTT
Found at i:38393514 original size:28 final size:29
Alignment explanation
Indices: 38393469--38393524 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
38393459 TAACCAGCCA
* * *
38393469 TCAAGGCCCATCAAGGAAAGAA-TCTAAC
1 TCAAGGCCAAACAAGGAAAAAACTCTAAC
*
38393497 TCAAGGCCAAACATGGAAAAAACTCTAA
1 TCAAGGCCAAACAAGGAAAAAACTCTAA
38393525 TTCACACTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.14
Consensus pattern (29 bp):
TCAAGGCCAAACAAGGAAAAAACTCTAAC
Found at i:38400309 original size:44 final size:44
Alignment explanation
Indices: 38400261--38400423 Score: 157
Period size: 44 Copynumber: 3.7 Consensus size: 44
38400251 AATCTTCCTA
* * * * *
38400261 AAGTTGCAGTAGAGTAAATTGAAGCCACAAGTCTTATCTCTCTG
1 AAGTTACAGTAGAGCAAATTGAAGCTACAAGTCTTTTTTCTCTG
* * *
38400305 AAGTTACAGTAGAGCAGATTGAGGCTACAAGT-TTTTTTCCCTG
1 AAGTTACAGTAGAGCAAATTGAAGCTACAAGTCTTTTTTCTCTG
** * * * *
38400348 AAGTTGTAGTGGAACAAATTGAAGTTACAAATCTTTTTTCTCTG
1 AAGTTACAGTAGAGCAAATTGAAGCTACAAGTCTTTTTTCTCTG
* * * *
38400392 AAGTTACAGTGGAACAGATTAAAGCTACAAGT
1 AAGTTACAGTAGAGCAAATTGAAGCTACAAGT
38400424 GACAAATCTT
Statistics
Matches: 95, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
43 32 0.34
44 63 0.66
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (44 bp):
AAGTTACAGTAGAGCAAATTGAAGCTACAAGTCTTTTTTCTCTG
Found at i:38400453 original size:51 final size:51
Alignment explanation
Indices: 38400369--38400474 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 51
38400359 GAACAAATTG
* * * * *
38400369 AAGTTACAAATCTTTTTTCTCTGAAGTTACAGTGGAACAGATTA-AAGCTAC
1 AAGTGACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGA-TACAAGCTAC
* * *
38400420 AAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATACAAGTTAC
1 AAGTGACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATACAAGCTAC
38400471 AAGT
1 AAGT
38400475 CTTATCTCCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.04
51 44 0.96
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (51 bp):
AAGTGACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATACAAGCTAC
Found at i:38400480 original size:44 final size:44
Alignment explanation
Indices: 38400417--38400505 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
38400407 AGATTAAAGC
* *
38400417 TACAAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
1 TACAAGTGACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGA
* * * *
38400461 TACAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTAGAGTAGA
1 TACAAGTGACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGA
38400505 T
1 T
38400506 TGAAACTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
TACAAGTGACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGA
Found at i:38400550 original size:42 final size:42
Alignment explanation
Indices: 38400487--38400590 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
38400477 TATCTCCCTG
38400487 AAGTTACAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
1 AAGTTACAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
* * *
38400529 AAGTTTCAGTAGAGTATATTGAAACTAAATCTTATACCTCTA
1 AAGTTACAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
*
38400571 AAGTTGCAGTAG-GTCAGATT
1 AAGTTACAGTAGAGT-AGATT
38400591 AAATCTACCA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (42 bp):
AAGTTACAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
Found at i:38400684 original size:44 final size:43
Alignment explanation
Indices: 38400611--38400717 Score: 101
Period size: 44 Copynumber: 2.4 Consensus size: 43
38400601 TGGCGAATCT
* ** * *
38400611 TATCTCCCTGAAGTGGCAGTGGAGCAGATT-AAAGCTTCGACTTTC
1 TATCT-CCTGAAGTTGCAGCAGAGCAGATTGAAA-CTAC-ACTTCC
*
38400656 -ATCTCCTTGAAGTTGCAGCAGAGTAGATTGAAACTACACTTCC
1 TATCTCC-TGAAGTTGCAGCAGAGCAGATTGAAACTACACTTCC
38400699 TATACTCCTGAAGTTGCAG
1 TAT-CTCCTGAAGTTGCAG
38400718 TGGGTTAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
43 7 0.13
44 38 0.73
45 7 0.13
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (43 bp):
TATCTCCTGAAGTTGCAGCAGAGCAGATTGAAACTACACTTCC
Found at i:38402403 original size:11 final size:11
Alignment explanation
Indices: 38402387--38402445 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 11
38402377 ATTATTGTCA
38402387 TTATTATTTTT
1 TTATTATTTTT
38402398 TTATTATTCTTT
1 TTATTATT-TTT
*
38402410 TT-TTCTTGTTATT
1 TTATT-AT-TT-TT
38402423 TTATTATTTCTT
1 TTATTATTT-TT
38402435 TTATTATTTTT
1 TTATTATTTTT
38402446 GGCACTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 12 0.30
12 20 0.50
13 6 0.15
14 2 0.05
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (11 bp):
TTATTATTTTT
Found at i:38402410 original size:14 final size:14
Alignment explanation
Indices: 38402367--38402430 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
38402357 TGCGTTTCTA
38402367 TTTATTTATTATTATT
1 TTTA-TTATTATT-TT
* *
38402383 GTCATTATTATTTT
1 TTTATTATTATTTT
*
38402397 TTTATTATTCTTTT
1 TTTATTATTATTTT
* *
38402411 TTTCTTGTTATTTT
1 TTTATTATTATTTT
*
38402425 ATTATT
1 TTTATT
38402431 TCTTTTATTA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 28 0.74
15 8 0.21
16 2 0.05
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTATTATTATTTT
Found at i:38404347 original size:43 final size:43
Alignment explanation
Indices: 38404277--38404383 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
38404267 TGTGATTTTG
* * * ** * * *
38404277 TGTAAGACCATGTCTAGGACACTGGCATCGGTATGAGATTACG
1 TGTAAGACCATATCTGGGATAGAGGCATCGATATGAGATAACA
* * *
38404320 TGTAAGACCCTATCTGGGATAGAGGCATCGATTTGTGATAACA
1 TGTAAGACCATATCTGGGATAGAGGCATCGATATGAGATAACA
*
38404363 TGTAAGACTATATCTGGGATA
1 TGTAAGACCATATCTGGGATA
38404384 TGGCATTGTA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATAGAGGCATCGATATGAGATAACA
Found at i:38407009 original size:40 final size:41
Alignment explanation
Indices: 38406959--38407076 Score: 134
Period size: 40 Copynumber: 2.9 Consensus size: 41
38406949 TTAGCGGTGA
38406959 TTTTAGAAAAACGTCGCTATAGATCGACCATTAGTGGCG-TT
1 TTTTA-AAAAACGTCGCTATAGATCGACCATTAGTGGCGCTT
* * * **
38407000 TTTTAAAAAACGCCGCTATGGGTCGACCATTAGCAGCGCTT
1 TTTTAAAAAACGTCGCTATAGATCGACCATTAGTGGCGCTT
* *
38407041 TCTT-AAAAACGTAGCTATA-AGTCGACCATTAGTGGC
1 TTTTAAAAAACGTCGCTATAGA-TCGACCATTAGTGGC
38407077 ACATTTTGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
40 53 0.84
41 10 0.16
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (41 bp):
TTTTAAAAAACGTCGCTATAGATCGACCATTAGTGGCGCTT
Found at i:38407089 original size:40 final size:39
Alignment explanation
Indices: 38406958--38407090 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 39
38406948 ATTAGCGGTG
*
38406958 ATTTTAGAAAAACGTCGCTATAGATCGACCATTAGTGGCGT
1 ATTTT-GAAAAACGTCGCTATAG-TCGACCATTAGTGGCGC
* * * * **
38406999 TTTTTAAAAAACGCCGCTATGGGTCGACCATTAGCAGCGC
1 ATTTTGAAAAACGTCGCTAT-AGTCGACCATTAGTGGCGC
* * *
38407039 -TTTCTTAAAAACGTAGCTATAAGTCGACCATTAGTGGCAC
1 ATTT-TGAAAAACGTCGCTAT-AGTCGACCATTAGTGGCGC
38407079 ATTTTGAAAAAC
1 ATTTTGAAAAAC
38407091 ACCGCAAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
39 3 0.04
40 62 0.85
41 8 0.11
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (39 bp):
ATTTTGAAAAACGTCGCTATAGTCGACCATTAGTGGCGC
Found at i:38407484 original size:15 final size:14
Alignment explanation
Indices: 38407464--38407500 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
38407454 ACTATTTTAA
38407464 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
38407478 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
38407493 GGTTTATG
1 GGTTTATG
38407501 ATTTAAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:38407586 original size:21 final size:21
Alignment explanation
Indices: 38407553--38407595 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38407543 AAGGGTTAGG
* *
38407553 GTTTTAAGGTTTATAGTTTAT
1 GTTTTAAGATTTAGAGTTTAT
* *
38407574 GTTTTATGATTTAGGGTTTAT
1 GTTTTAAGATTTAGAGTTTAT
38407595 G
1 G
38407596 GGATATGGGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (21 bp):
GTTTTAAGATTTAGAGTTTAT
Found at i:38408473 original size:28 final size:28
Alignment explanation
Indices: 38408433--38408496 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
38408423 AAACGGCGTC
38408433 GTTTTGATATAATCGCCACTAATTTTTA
1 GTTTTGATATAATCGCCACTAATTTTTA
38408461 GTTTTGATATAATCGCCACTAATTTTTA
1 GTTTTGATATAATCGCCACTAATTTTTA
38408489 GTTTTGAT
1 GTTTTGAT
38408497 TGAAACAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (28 bp):
GTTTTGATATAATCGCCACTAATTTTTA
Found at i:38408617 original size:72 final size:73
Alignment explanation
Indices: 38408513--38408662 Score: 178
Period size: 72 Copynumber: 2.1 Consensus size: 73
38408503 AAGGCTGTTT
* * *
38408513 TATTTCTCTCCCCCCAATTTCCTCTTCTTTCCCGATTTCATTTTCTTTCTCAGCCATTCTTAGCC
1 TATTTCTCTCCCCCCAATTTCCTCTTCTTTCCCAATTTCATTTTCTTTCTCAGCCATTCTCAACC
38408578 TGTTCCTC
66 TGTTCCTC
* * * * * *
38408586 TATTTCTCT-CCCCC-GTTTCCCTTTTCTTTCCCAATTTCCTTTTTTTTCTCGGCCTTTCTCAAC
1 TATTTCTCTCCCCCCAATTT-CCTCTTCTTTCCCAATTTCATTTTCTTTCTCAGCCATTCTCAAC
* *
38408649 TTGTTCTTC
65 CTGTTCCTC
38408658 TATTT
1 TATTT
38408663 TTTACCCGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
71 3 0.05
72 53 0.82
73 9 0.14
ACGTcount: A:0.09, C:0.35, G:0.05, T:0.51
Consensus pattern (73 bp):
TATTTCTCTCCCCCCAATTTCCTCTTCTTTCCCAATTTCATTTTCTTTCTCAGCCATTCTCAACC
TGTTCCTC
Found at i:38412595 original size:23 final size:23
Alignment explanation
Indices: 38412493--38412596 Score: 172
Period size: 23 Copynumber: 4.5 Consensus size: 23
38412483 TGGTTGCTGC
*
38412493 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
* *
38412516 TGTTTATATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
38412539 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
38412562 TATTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
38412585 TGTTTAAATGTT
1 TGTTTAAATGTT
38412597 CTTTGTTTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (23 bp):
TGTTTAAATGTTGTAAATTGAAG
Found at i:38414381 original size:22 final size:22
Alignment explanation
Indices: 38414351--38414392 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38414341 AGTCGCTATA
*
38414351 AATTATAGTGACTAGTTTTTAT
1 AATTATAGTGACTAATTTTTAT
*
38414373 AATTTTAGTGACTAATTTTT
1 AATTATAGTGACTAATTTTT
38414393 TTCTCCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (22 bp):
AATTATAGTGACTAATTTTTAT
Found at i:38415299 original size:26 final size:26
Alignment explanation
Indices: 38415270--38415377 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38415260 TGGTACAAAT
38415270 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38415296 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38415322 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38415348 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38415374 TGAT
1 TGAT
38415378 GGCATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38419175 original size:21 final size:21
Alignment explanation
Indices: 38419151--38419191 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38419141 TGTCACATTT
38419151 TCAAGCT-CTTCTTCGGGTTTA
1 TCAAGCTCCTT-TTCGGGTTTA
*
38419172 TCAATCTCCTTTTCGGGTTT
1 TCAAGCTCCTTTTCGGGTTT
38419192 CAATGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.46
Consensus pattern (21 bp):
TCAAGCTCCTTTTCGGGTTTA
Found at i:38419313 original size:93 final size:92
Alignment explanation
Indices: 38419132--38419635 Score: 357
Period size: 93 Copynumber: 5.3 Consensus size: 92
38419122 ATAGAAGATA
* *
38419132 ATAGCTTTTTGTCACATTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTCAATG
1 ATAG-TTTTTGTCACCTTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTCAATA
* * * * *
38419197 AAGATGATGGTCATTTTCGTTTAATTTT
65 AAGACGATAGTCACTTTCATTTAAGTTT
* * ** *
38419225 ATAGTTTTCTGTCACCTTTTAAAGCTCTTCTTTGGGTTTATCGGTCTTCTTTTCGGGTTTCAATA
1 ATAGTTTT-TGTCACCTTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTCAATA
*
38419290 AAGACGATAGTCGCTTTCATTTAAGTTT
65 AAGACGATAGTCACTTTCATTTAAGTTT
* * * ** *
38419318 ATACTATTTTGTTAACTTTTCAAGCTCTTCTTCTTCACGTTTACCAATCTCCTTTTCGGG-TTCT
1 ATAGT-TTTTGTCACCTTTTCAAG--C-TCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTC-
* * * * ** **
38419382 GATGAAGACGATAGCCATTTTTGTTTAAGAAT
61 AATAAAGACGATAGTCACTTTCATTTAAGTTT
* * * * * * * ** *
38419414 GTACCTTTCTGTCACATTTTCAGGCTCTTCTTCAGGTTTACCAATCTCCTTTTCAAG-TTCTGAT
1 ATA-GTTTTTGTCACCTTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTC-AAT
* * * **
38419478 GAAGACAATAGTCTCTTTTGTTTAAGTTT
64 AAAGACGATAGTCACTTTCATTTAAGTTT
* * ** * * *
38419507 ATACATTTTTGTTACCTTTTCAAGCTCTTCTTCTTCGGGTTTATTGATCTCCTTCTCGGGTTCCG
1 ATA-GTTTTTGTCACCTTTTCAAG--C-TCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTCA
* **
38419572 ATAACA-ACGGTAGTCACTTTTGTTTAAGTTT
62 ATAA-AGACGATAGTCACTTTCATTTAAGTTT
* *
38419603 ATAGTTTGCTGCCACCTTTTTCAAGCTCTTCTT
1 ATAGTTT-TTGTCACC-TTTTCAAGCTCTTCTT
38419636 TGGATTTCTT
Statistics
Matches: 327, Mismatches: 70, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
92 4 0.01
93 168 0.51
94 11 0.03
95 9 0.03
96 122 0.37
97 13 0.04
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (92 bp):
ATAGTTTTTGTCACCTTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTTCAATAA
AGACGATAGTCACTTTCATTTAAGTTT
Found at i:38423920 original size:115 final size:115
Alignment explanation
Indices: 38423746--38423977 Score: 437
Period size: 115 Copynumber: 2.0 Consensus size: 115
38423736 TAAATTTGCC
* * *
38423746 AATTTGGCTGCCATATGACTTGTTATGATGGAAATGAATATGCTAAGTTGGCAATTTTTTTATAG
1 AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
38423811 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
66 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
38423861 AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
1 AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
38423926 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
66 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
38423976 AA
1 AA
38423978 AGAGGATATA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (115 bp):
AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
Found at i:38427498 original size:133 final size:133
Alignment explanation
Indices: 38427267--38427533 Score: 525
Period size: 133 Copynumber: 2.0 Consensus size: 133
38427257 GCTTCAATTC
38427267 TATTACAAACCCTAGATCCAGATACCGAACTCATACACCACTAGCATGACACGAGTTTGCAGATG
1 TATTACAAACCCTAGATCCAGATACCGAACTCATACACCACTAGCATGACACGAGTTTGCAGATG
*
38427332 ATTCATACAATCACCCTTTCAATCAATCGCACGGCAATCAAGCCTAGTCATCAGTTCTTCTTCAC
66 ATTCATACAATCACCCTTTCAATCAATCACACGGCAATCAAGCCTAGTCATCAGTTCTTCTTCAC
38427397 ACT
131 ACT
38427400 TATTACAAACCCTAGATCCAGATACCGAACTCATACACCACTAGCATGACACGAGTTTGCAGATG
1 TATTACAAACCCTAGATCCAGATACCGAACTCATACACCACTAGCATGACACGAGTTTGCAGATG
38427465 ATTCATACAATCACCCTTTCAATCAATCACACGGCAATCAAGCCTAGTCATCAGTTCTTCTTCAC
66 ATTCATACAATCACCCTTTCAATCAATCACACGGCAATCAAGCCTAGTCATCAGTTCTTCTTCAC
38427530 ACT
131 ACT
38427533 T
1 T
38427534 TTGTACGAAA
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (133 bp):
TATTACAAACCCTAGATCCAGATACCGAACTCATACACCACTAGCATGACACGAGTTTGCAGATG
ATTCATACAATCACCCTTTCAATCAATCACACGGCAATCAAGCCTAGTCATCAGTTCTTCTTCAC
ACT
Found at i:38435290 original size:31 final size:31
Alignment explanation
Indices: 38435232--38435292 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
38435222 TTAACAACTC
* *
38435232 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAACAAAAACTTTTAAATAGTTT
*
38435263 AGTGACTTAAACGAAAA-TTTTCAAATAGTT
1 AGTGACTTAAACAAAAACTTTT-AAATAGTT
38435293 CAATGACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAACAAAAACTTTTAAATAGTTT
Found at i:38435343 original size:29 final size:29
Alignment explanation
Indices: 38435288--38435343 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
38435278 AATTTTCAAA
* * *
38435288 TAGTTCAATGACCAAATTGTAACTTTTTT
1 TAGTTCAATGACCAAAATGAAAATTTTTT
38435317 TAGTT-AAGTGACCAAAATGAAAATTTT
1 TAGTTCAA-TGACCAAAATGAAAATTTT
38435344 CTCATAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TAGTTCAATGACCAAAATGAAAATTTTTT
Found at i:38437972 original size:41 final size:41
Alignment explanation
Indices: 38437909--38438017 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
38437899 TTTCGGGACA
* *
38437909 TTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
38437950 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
38437991 TTAGCAGCGTTTTTGGAAAAGCGCCGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGC
38438018 AAAAACATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:38438408 original size:22 final size:21
Alignment explanation
Indices: 38438359--38438436 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
38438349 TATGATTTAG
*
38438359 AGTTTAAGGTTTA-AGAGTTACT
1 AGTTTAAGGTTTATGGA-TTA-T
*
38438381 ATTTTAAGGTTTATGGATTAT
1 AGTTTAAGGTTTATGGATTAT
* * *
38438402 GAGTTTAGGGGTTATGGTTTAT
1 -AGTTTAAGGTTTATGGATTAT
*
38438424 AGTTTATGGTTTA
1 AGTTTAAGGTTTA
38438437 AGATTTAGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 12 0.26
22 32 0.70
23 2 0.04
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (21 bp):
AGTTTAAGGTTTATGGATTAT
Done.