Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 37 of 190
Found at i:10555202 original size:16 final size:17
Alignment explanation
Indices: 10555161--10555202 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10555151 CTCAAGTTAA
*
10555161 AAATTTGTTTAAGTTCG
1 AAATTTTTTTAAGTTCG
*
10555178 AAATATTTTTAAGTTC-
1 AAATTTTTTTAAGTTCG
10555194 AAATTTTTT
1 AAATTTTTT
10555203 CAAAACTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (17 bp):
AAATTTTTTTAAGTTCG
Found at i:10557972 original size:291 final size:291
Alignment explanation
Indices: 10557440--10557989 Score: 843
Period size: 291 Copynumber: 1.9 Consensus size: 291
10557430 ACTCAGTTCT
*
10557440 TCATTGATTTGTTGGTCATTGACTATTTCTTCAGTATCTGAATCGAAATATGAATTTGTATTGTT
1 TCATTGATTTGTTGGTCATTGACTATTTCTTCAGTAACTGAATCGAAATATGAATTTGTATTGTT
* * *
10557505 GACATAAGCGAGGTTGCTACAATGTGTCAATAGAAGTACCCACTCCCATTACTACTACGACAAAA
66 GACATAAGCAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTCCCATCACTACTACGACAAAA
* * * * *
10557570 CAACTTGTCTGTTTTGAAATATTGACAATTTATTGAAATAAATCTTTGGATTGTGATGATGTCGT
131 CAACTTGTATGCTTTAAAAGATTGACAATTTATTGAAATAAATCTTTGGATTGTGATGATATCGT
* * * **
10557635 GGAAAAATCTAATCCCATAGATGAAAATTACTTCACTTGAAGAAACATATCTTAAGAATCAGATA
196 GGAAAAATATAATCCCATAGATGAAAATTAATTCACATGAAGAAACATATCCAAAGAATCAGATA
10557700 TCCTAAAAAATATCTAACATTTAAGATATAC
261 TCCTAAAAAATATCTAACATTTAAGATATAC
*
10557731 TCATTGATTTGTTGGTCATTGACTATTTCTT-TGATAACTGAATCGAAATATGAATTTGTATTGT
1 TCATTGATTTGTTGGTCATTGACTATTTCTTCAG-TAACTGAATCGAAATATGAATTTGTATTGT
* * * * *
10557795 TGACATATGTAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTTCTATCACTACTATGACAAA
65 TGACATAAGCAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTCCCATCACTACTACGACAAA
*
10557860 ATAACTTGTATGCTTTAAAAGATTGACAATTTATTGAAATAAATCTTTGGATTGTGATGATATCG
130 ACAACTTGTATGCTTTAAAAGATTGACAATTTATTGAAATAAATCTTTGGATTGTGATGATATCG
** * *
10557925 TGGAATGATATAATCCCATCA-ATGAAGATTAATTCACATGGAGAAACATATCCAAAGAATCAGA
195 TGGAAAAATATAATCCCAT-AGATGAAAATTAATTCACATGAAGAAACATATCCAAAGAATCAGA
10557989 T
259 T
10557990 CAGATCGATT
Statistics
Matches: 232, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
290 1 0.00
291 230 0.99
292 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (291 bp):
TCATTGATTTGTTGGTCATTGACTATTTCTTCAGTAACTGAATCGAAATATGAATTTGTATTGTT
GACATAAGCAAAGTTGCTACAATGTGTCAATAGAAGTACCCACTCCCATCACTACTACGACAAAA
CAACTTGTATGCTTTAAAAGATTGACAATTTATTGAAATAAATCTTTGGATTGTGATGATATCGT
GGAAAAATATAATCCCATAGATGAAAATTAATTCACATGAAGAAACATATCCAAAGAATCAGATA
TCCTAAAAAATATCTAACATTTAAGATATAC
Found at i:10559308 original size:22 final size:23
Alignment explanation
Indices: 10559266--10559308 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10559256 ATATTTGAAT
*
10559266 TTTTTATATTCAATAGCAAATCA
1 TTTTTATATTCAATAACAAATCA
*
10559289 TTTTT-TATTCAATAATAAAT
1 TTTTTATATTCAATAACAAAT
10559309 GTATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTTTATATTCAATAACAAATCA
Found at i:10563712 original size:19 final size:19
Alignment explanation
Indices: 10563690--10563730 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10563680 TGAGAGGTAG
*
10563690 TTTC-TTTATTCTTTTTTTA
1 TTTCGTTTATT-TTATTTTA
10563709 TTTCGTTTATTTTATTTTA
1 TTTCGTTTATTTTATTTTA
10563728 TTT
1 TTT
10563731 TATTTTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTCGTTTATTTTATTTTA
Found at i:10564632 original size:8 final size:7
Alignment explanation
Indices: 10564612--10564668 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 7
10564602 ATTTATTCCT
10564612 TTATTTA
1 TTATTTA
10564619 TATATTTCA
1 T-TATTT-A
10564628 TTA-TTA
1 TTATTTA
10564634 TTA-TTA
1 TTATTTA
10564640 TTA-TTA
1 TTATTTA
10564646 TTA-TTA
1 TTATTTA
10564652 TTA-TTA
1 TTATTTA
10564658 TTA-TTA
1 TTATTTA
10564664 TTATT
1 TTATT
10564669 AGTGTTTAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
6 34 0.72
7 4 0.09
8 7 0.15
9 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:10564635 original size:3 final size:3
Alignment explanation
Indices: 10564627--10564669 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10564617 TATATATTTC
10564627 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10564670 GTGTTTAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10565206 original size:131 final size:131
Alignment explanation
Indices: 10564972--10565243 Score: 481
Period size: 131 Copynumber: 2.1 Consensus size: 131
10564962 AAAAATCTTG
*
10564972 AAAATAAAGGCAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGCAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTAGGTTTCGA
* *
10565037 TTTTTCTTGCGTTGAATCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
10565102 A
131 A
* * *
10565103 AAAATAAAGGCAATGTTCCGTATTTGGAAATTCGAGAAGTTGTGCCCTAACTTACTAGGTTTCGA
1 AAAATAAAGGCAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTAGGTTTCGA
10565168 TTTTTCTCGCGTTGAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
10565233 A
131 A
*
10565234 AAAACAAAGG
1 AAAATAAAGG
10565244 TGAGCTTATT
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (131 bp):
AAAATAAAGGCAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTAGGTTTCGA
TTTTTCTCGCGTTGAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
A
Found at i:10565802 original size:19 final size:18
Alignment explanation
Indices: 10565769--10565808 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10565759 CTTTCATTTC
*
10565769 ATTTTTATGGTTTGCATT
1 ATTTTGATGGTTTGCATT
*
10565787 ATTTTGATGTGTTTGCTTT
1 ATTTTGATG-GTTTGCATT
10565806 ATT
1 ATT
10565809 GGTTCGAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.05, G:0.17, T:0.62
Consensus pattern (18 bp):
ATTTTGATGGTTTGCATT
Found at i:10570910 original size:44 final size:43
Alignment explanation
Indices: 10570799--10571457 Score: 201
Period size: 44 Copynumber: 14.7 Consensus size: 43
10570789 CATCATGGCA
* **
10570799 AATCTTATCTCCCTAAAGTTGCAGTGGAGC-AGATTGAAGCCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAA-ATAC
*
10570842 TAATCTTA-CCCCCTGAAGTTGCAGT-GAGGCAAG-TTGAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGA-GCAAGATTGAAA-TAC
* * *
10570885 AAGTCTTATCTCCCTGAAGTTGCAGTGGAAC-AGACTAAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAA-ATA-C
* *
10570930 AAACATTATCTCCCTGAAGTTGCAGTGGAGC-AGGTTGAAGATAC
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAA-ATAC
* *
10570974 AAGTCTTATCTCCCTGAAGTTGCA--GGAG-TAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAA-ATA-C
* * * * *
10571017 GAATCTTATTTCCCTGAAGTCGCAATAGAAC-AGATTAAAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATT---G----AAA-TAC
** * * * * *
10571068 AGATCTTATCTCTTTGAAATTGTAGTAGAGC-AGA-TCATAT-C
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAATAC
** * *
10571109 AAGTCTTATCTCCCTGAAGTAACAGTGGAAC-AGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAA-ATA-C
* * ** ** * *
10571154 GAATTTTATTTCCCTGAAGTCACAGCAGAACAGATTGAAGCTGTAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-A--G-A-TTG-AAA-TAC
* * * * * *
10571205 GGATCTTATCTCTCTAAAGTTGCAGTAGAGCAA-A-TCATAT-C
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAATAC
*
10571246 AAACCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGACCGACTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTG-A-A---A-TAC
* * *
10571295 AAATCTTATCTCCCTGAAGTTGCAGTAGAG-AAGA-TCAAAGCCAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAA--TAC
* * * * * *
10571339 GAACCTTATCTCTCTGAAGTTGCAGTAGAAC-AGGTTGAAGTAAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAAT-AC
* ** * *
10571383 AAACCTTATCTCCCTGAAGTTGCAGTAAAGC-AGGTTGAAGCTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAA-ATAC
* *
10571427 TAATCCTATCTTCCTGAAGTTGCAGTGGAGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGC
10571458 GGATTAAAAC
Statistics
Matches: 472, Mismatches: 88, Indels: 110
0.70 0.13 0.16
Matches are distributed among these distances:
40 2 0.00
41 52 0.11
42 23 0.05
43 59 0.12
44 152 0.32
45 75 0.16
46 4 0.01
47 3 0.01
48 3 0.01
49 33 0.07
50 4 0.01
51 54 0.11
52 8 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAATAC
Found at i:10570975 original size:89 final size:89
Alignment explanation
Indices: 10570801--10571036 Score: 288
Period size: 87 Copynumber: 2.7 Consensus size: 89
10570791 TCATGGCAAA
* * ** * *
10570801 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAATCTTA-CCCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGC
10570864 AGTGAGGCAAGTTGAAATTACAAG
66 AGTGAGGCAAGTTGAAATTACAAG
* * *
10570888 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGC-AAACATTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC-TTATCTCCCTGAAGTTG
*
10570952 CAGTG-GAGCAGGTTGAAGA-TACAAG
65 CAGTGAG-GCAAGTTGAA-ATTACAAG
* *
10570977 TCTTATCTCCCTGAAGTTGCA--GGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGAAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGT
10571037 CGCAATAGAA
Statistics
Matches: 129, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
87 67 0.52
88 8 0.06
89 53 0.41
90 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGC
AGTGAGGCAAGTTGAAATTACAAG
Found at i:10571024 original size:132 final size:132
Alignment explanation
Indices: 10570803--10571056 Score: 304
Period size: 132 Copynumber: 1.9 Consensus size: 132
10570793 ATGGCAAATC
*
10570803 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAATCTTACCCCCTGAAGTTGCAGTG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTACCCCCTGAAGTTGCAGTG
* * * *
10570868 AGGCAAGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAA
66 AGGCAAGCTGAAATTACAAGTCTTATCTCCCTGAAGTCGCAATAGAACAGACTAAAGATAGCAAA
10570933 CA
131 CA
* * * *
10570935 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAC-AAGTCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACTAA-TCTTA-CCCCCTGAAGTTGCAG
* * *
10570999 -GA-G-TAGACTGAAGA-TAGCGAA-TCTTATTTCCCTGAAGTCGCAATAGAACAGATTAAAG
64 TGAGGCAAG-CTGAA-ATTA-C-AAGTCTTATCTCCCTGAAGTCGCAATAGAACAGACTAAAG
10571057 CTATAAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
130 2 0.02
131 9 0.09
132 76 0.73
133 17 0.16
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (132 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTACCCCCTGAAGTTGCAGTG
AGGCAAGCTGAAATTACAAGTCTTATCTCCCTGAAGTCGCAATAGAACAGACTAAAGATAGCAAA
CA
Found at i:10571163 original size:137 final size:137
Alignment explanation
Indices: 10570973--10571286 Score: 445
Period size: 137 Copynumber: 2.3 Consensus size: 137
10570963 GTTGAAGATA
*
10570973 CAAGTCTTATCTCCCTGAAGTTGCA--GGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
10571036 TCGCAATAGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTTTGAAA-TTGTAGTAGAGCA
66 TCACAACAGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCT-AAAGTTGCAGTAGAGCA
*
10571100 GATCATAT
130 AATCATAT
** * *
10571108 CAAGTCTTATCTCCCTGAAGTAACAGTGGAACAGACTGAAGATAGCGAATTTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
10571173 TCACAGCAGAACAGATTGAAGCTGTAAATTACGGATCTTATCTCTCTAAAGTTGCAGTAGAGCAA
66 TCACAACAGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAA
10571238 ATCATAT
131 ATCATAT
** *
10571245 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
10571287 CCGACTACAA
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
135 23 0.15
136 3 0.02
137 130 0.83
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (137 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TCACAACAGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAA
ATCATAT
Found at i:10572263 original size:5 final size:5
Alignment explanation
Indices: 10572253--10572285 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
10572243 TTTTTTTTCG
10572253 TTATT TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTATT TTA
10572286 AAGGAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:10573209 original size:3 final size:3
Alignment explanation
Indices: 10573201--10573237 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10573191 TATATATTTC
10573201 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10573238 GTGTTTAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10573778 original size:131 final size:131
Alignment explanation
Indices: 10573541--10573813 Score: 510
Period size: 131 Copynumber: 2.1 Consensus size: 131
10573531 GAAAATCTTG
* *
10573541 AAAATAAAGGCAATATTCTGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGCAACATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
10573606 TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTATTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTATTAAAACTAAAATAAATGTGTTTTAAAT
10573671 A
131 A
10573672 AAAATAAAGGCAACATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGCAACATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
*
10573737 TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTATTAAAACTAAAATAAATGTGTTTTAAAT
10573802 A
131 A
*
10573803 AAAACAAAGGC
1 AAAATAAAGGC
10573814 GAGCTTATTG
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 138 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (131 bp):
AAAATAAAGGCAACATTCCGTATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTATTAAAACTAAAATAAATGTGTTTTAAAT
A
Found at i:10582783 original size:14 final size:14
Alignment explanation
Indices: 10582764--10582803 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
10582754 GTCACTACAC
10582764 TTTTCTTTTTATTT-
1 TTTTCTTTTT-TTTA
10582778 TTTTCTTTTTTTTA
1 TTTTCTTTTTTTTA
10582792 TTTTACTTTTTT
1 TTTT-CTTTTTT
10582804 CTTCTTCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 14 0.58
15 7 0.29
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTCTTTTTTTTA
Found at i:10583320 original size:2 final size:2
Alignment explanation
Indices: 10583309--10583354 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
10583299 CCCCTACTCA
10583309 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10583350 AT AT A
1 AT AT A
10583355 AAAGTTTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10586434 original size:19 final size:19
Alignment explanation
Indices: 10586393--10586432 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10586383 TCCAAAAAGA
*
10586393 TTATACTTTTTAAAATTAAT
1 TTATA-TTTTTAAAATAAAT
10586413 TTATATTTTTAAAA-AAAT
1 TTATATTTTTAAAATAAAT
10586431 TT
1 TT
10586433 TAAATTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATATTTTTAAAATAAAT
Found at i:10588373 original size:40 final size:38
Alignment explanation
Indices: 10588311--10588405 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 38
10588301 CGTTTGGACA
* *
10588311 AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
1 AAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTT
10588349 ACATAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTT
1 A-A-AAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTT
10588389 AAAAAAGCGCCGCTAAA
1 AAAAAA-CGCCGCTAAA
10588406 AACCTAAGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
38 5 0.10
39 12 0.23
40 35 0.67
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (38 bp):
AAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTT
Found at i:10588501 original size:41 final size:41
Alignment explanation
Indices: 10588439--10588629 Score: 292
Period size: 41 Copynumber: 4.7 Consensus size: 41
10588429 CCTTTCAGGG
* *
10588439 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* *
10588480 CTTTAGCGGCGTTTTTGAAAAAGCGTCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * *
10588521 CTTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATGCTTAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * *
10588562 CTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAAAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
10588603 CTTTAGCGGCGTTTTTGAAAAAGCGCC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCC
10588630 ACAAAAATAT
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 139 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:10588908 original size:14 final size:14
Alignment explanation
Indices: 10588889--10588925 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10588879 GGGCTTAATA
*
10588889 TATATGGTTTAGGG
1 TATATGGTTTAAGG
10588903 TATATGGTTTAAGG
1 TATATGGTTTAAGG
*
10588917 TATGTGGTT
1 TATATGGTT
10588926 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAAGG
Found at i:10589002 original size:14 final size:15
Alignment explanation
Indices: 10588974--10589006 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10588964 AAGGTTTATA
10588974 GATTATGGAATTAGG
1 GATTATGGAATTAGG
10588989 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
10589003 GATT
1 GATT
10589007 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:10589175 original size:7 final size:7
Alignment explanation
Indices: 10589139--10589186 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
10589129 TATTAAATAA
10589139 GGTTTAG
1 GGTTTAG
*
10589146 GGGTTAG
1 GGTTTAG
* *
10589153 GGATTCG
1 GGTTTAG
10589160 GG-TTAG
1 GGTTTAG
10589166 GGTTTAG
1 GGTTTAG
*
10589173 GGTTTAA
1 GGTTTAG
10589180 GGTTTAG
1 GGTTTAG
10589187 ATTAATTAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:10589175 original size:13 final size:13
Alignment explanation
Indices: 10589139--10589186 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
10589129 TATTAAATAA
10589139 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
* *
10589153 GGATTCGGGTTAG
1 GGTTTAGGGTTAG
*
10589166 GGTTTAGGGTTTAA
1 GGTTTAGGG-TTAG
10589180 GGTTTAG
1 GGTTTAG
10589187 ATTAATTAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 14 0.50
14 14 0.50
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.38
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:10589183 original size:20 final size:20
Alignment explanation
Indices: 10589136--10589183 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
10589126 TTATATTAAA
10589136 TAAGGTTTAGGGGTTAGGGAT
1 TAAGG-TTAGGGGTTAGGGAT
** * *
10589157 TCGGGTTAGGGTTTAGGGTT
1 TAAGGTTAGGGGTTAGGGAT
10589177 TAAGGTT
1 TAAGGTT
10589184 TAGATTAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.19, C:0.02, G:0.42, T:0.38
Consensus pattern (20 bp):
TAAGGTTAGGGGTTAGGGAT
Found at i:10589244 original size:14 final size:14
Alignment explanation
Indices: 10589225--10589270 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
10589215 TAAATAAGGT
*
10589225 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
10589239 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
*
10589253 TTAGGGGTTAAGAG
1 TTAGGGGTTAGGAG
10589267 TTAG
1 TTAG
10589271 TGATTTGGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:10589248 original size:7 final size:7
Alignment explanation
Indices: 10589225--10589262 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
10589215 TAAATAAGGT
10589225 TTAGGGG
1 TTAGGGG
**
10589232 TTAGTAG
1 TTAGGGG
10589239 TTAGGGG
1 TTAGGGG
10589246 TTAGGGG
1 TTAGGGG
10589253 TTAGGGG
1 TTAGGGG
10589260 TTA
1 TTA
10589263 AGAGTTAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:10589269 original size:21 final size:21
Alignment explanation
Indices: 10589225--10589270 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10589215 TAAATAAGGT
* * *
10589225 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGGAGTTAAGAG
*
10589246 TTAGGGGTTAGGGGTTAAGAG
1 TTAGGGGTTAGGAGTTAAGAG
10589267 TTAG
1 TTAG
10589271 TGATTTGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGGAGTTAAGAG
Found at i:10591970 original size:19 final size:19
Alignment explanation
Indices: 10591934--10591971 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10591924 TTTTTATAAG
*
10591934 GGTGTTTTTATTTTTTGTT
1 GGTGTTTTTATTTGTTGTT
10591953 GGTG-TTTTATGTTGTTGTT
1 GGTGTTTTTAT-TTGTTGTT
10591972 TCGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTATTTGTTGTT
Found at i:10598370 original size:46 final size:46
Alignment explanation
Indices: 10598299--10598483 Score: 325
Period size: 46 Copynumber: 4.0 Consensus size: 46
10598289 CATGGCAAAG
10598299 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
*
10598345 TGTAAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
10598391 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
10598437 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
10598483 T
1 T
10598484 ATAGCAATGT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 132 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:10601857 original size:26 final size:25
Alignment explanation
Indices: 10601821--10601886 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
10601811 ATGAAATACA
*
10601821 TCTTTGCATTCATTTTTGAGCCAA-TAT
1 TCTTT-CATTC-TTTTTGA-ACAATTAT
*
10601848 TCTTTCATTCTTTTTGAATAATTAT
1 TCTTTCATTCTTTTTGAACAATTAT
10601873 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
10601887 GGACTTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 24 0.67
26 5 0.14
27 5 0.14
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.58
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAACAATTAT
Found at i:10605327 original size:132 final size:131
Alignment explanation
Indices: 10605013--10605528 Score: 621
Period size: 132 Copynumber: 3.9 Consensus size: 131
10605003 GGAGTAGGTT
* * *
10605013 GATGGCGGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTAAAGCCGGTAATTCTA-TCTCCC
1 GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAATTCTACT-TCCC
* * * ** ** *
10605077 TGGGCAGCAGTGGAATAGATTGAAGATTAT-AGACCTTACATCTCTCGGTTGCAGTGGAGCAG--
65 TAGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTACATCCCTAAGCAGTAGTGGAGCAGAT
**
10605139 GTT
129 GAA
* *
10605142 GATGGAGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCT
1 GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCT
* * ** * *
10605207 -GAGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCTAATTAGTAGCGGAGTAGATC
66 AG-GCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACATCCCTAAGCAGTAGTGGAGCAGAT-
10605271 GAA
129 GAA
* * *
10605274 GATGGCGGATTTTACCTCCCTGTGATTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT
1 GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCT
* *
10605339 AGGTAACAGTGGAATAGATTGAAGATTTCAGATCTTATC-TCCCTAAGCAGTAGTGGAGCAGATA
66 AGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA-CATCCCTAAGCAGTAGTGGAGCAGAT-
*
10605403 AAA
129 GAA
* * * * *
10605406 AATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGAACATTGAAGCCAGTACTTCTACTTCCCT
1 GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCT
* * *
10605471 AGGAAGCAGTGGAATAGATTGAAGATTTCAGAACTTATATCCCTAAGCAGTAGTGGAG
66 AGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACATCCCTAAGCAGTAGTGGAG
10605529 TAGGTTGAAT
Statistics
Matches: 341, Mismatches: 37, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
128 2 0.01
129 107 0.31
130 1 0.00
132 229 0.67
133 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (131 bp):
GATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCT
AGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTACATCCCTAAGCAGTAGTGGAGCAGATGA
A
Found at i:10605627 original size:50 final size:49
Alignment explanation
Indices: 10605567--10605711 Score: 157
Period size: 50 Copynumber: 2.9 Consensus size: 49
10605557 GTAGTAGAAC
* * * *
10605567 AGATTCAAGCCACAACGGTGAATCTTGCTTCCTCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCC-CGACATTGCAGTGAAAA
* * * *
10605617 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCC-GAC-ATTGCAGTGAAAA
* *
10605667 AGATTAAAGCCACAACGACGAATCTTGTTTCCCCGACATTGCAGT
1 AGATTAAAGCCACAACGGCGAATCTTGCTT-CCCGACATTGCAGT
10605712 CAGATAGAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
49 2 0.03
50 73 0.92
51 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGCGAATCTTGCTTCCCGACATTGCAGTGAAAA
Found at i:10605881 original size:43 final size:44
Alignment explanation
Indices: 10605810--10605979 Score: 175
Period size: 43 Copynumber: 3.9 Consensus size: 44
10605800 TAGATTGCAT
*
10605810 CAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGTAAG
1 CAGGTCTTATCTCCCTGAAGATACAGTGGAGCAGACTGAGTAAG
* * * * *
10605854 CAGGTCTTATC-CCTTGAAGATGCAGTGGGGTAGACTGAAG-ATG
1 CAGGTCTTATCTCCCTGAAGATACAGTGGAGCAGACTG-AGTAAG
* * * * *
10605897 ACAGATTTTATCTCCGTGAGGTTACAGTGGAGCAGACTGAGTAAG
1 -CAGGTCTTATCTCCCTGAAGATACAGTGGAGCAGACTGAGTAAG
* * *
10605942 CAGGTCTTATC-CCCTGAAGATGCAGTGGGGTAGACTGA
1 CAGGTCTTATCTCCCTGAAGATACAGTGGAGCAGACTGA
10605980 AGATGGCAGA
Statistics
Matches: 99, Mismatches: 23, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
43 44 0.44
44 33 0.33
45 22 0.22
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
CAGGTCTTATCTCCCTGAAGATACAGTGGAGCAGACTGAGTAAG
Found at i:10605924 original size:88 final size:88
Alignment explanation
Indices: 10605816--10606016 Score: 339
Period size: 88 Copynumber: 2.3 Consensus size: 88
10605806 GCATCAGGTC
* *
10605816 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCTTGAAGATGCAGTG
1 TTATCTCCCTGAGGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCTGAAGATGCAGTG
10605881 GGGTAGACTGAAGATGACAGATT
66 GGGTAGACTGAAGATGACAGATT
*
10605904 TTATCTCCGTGAGGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCTGAAGATGCAGTG
1 TTATCTCCCTGAGGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCTGAAGATGCAGTG
*
10605969 GGGTAGACTGAAGATGGCAGATT
66 GGGTAGACTGAAGATGACAGATT
* * *
10605992 TTACCTCCCCGAGATTACAGTGGAG
1 TTATCTCCCTGAGGTTACAGTGGAG
10606017 TAGATTGAAG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 105 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (88 bp):
TTATCTCCCTGAGGTTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCTGAAGATGCAGTG
GGGTAGACTGAAGATGACAGATT
Found at i:10606040 original size:88 final size:88
Alignment explanation
Indices: 10605830--10606040 Score: 253
Period size: 88 Copynumber: 2.4 Consensus size: 88
10605820 CTCCCTGAAG
* ** * *
10605830 TTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCTTGAAGATGCAGTGGGGTAGACTGAAGA
1 TTACAGTGGAGCAGACTGAGCAAGCAAATATTATCCCCTGAAGATGCAGTGGGGTAGACTGAAGA
* ** *
10605895 TGACAGATTTTATCTCCGTGAGG
66 TGACAGATTTTACCTCCCCGAGA
* ** *
10605918 TTACAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCTGAAGATGCAGTGGGGTAGACTGAAGA
1 TTACAGTGGAGCAGACTGAGCAAGCAAATATTATCCCCTGAAGATGCAGTGGGGTAGACTGAAGA
*
10605983 TGGCAGATTTTACCTCCCCGAGA
66 TGACAGATTTTACCTCCCCGAGA
* * *
10606006 TTACAGTGGAGTAGATTGAAGCCA-CAAATATTATC
1 TTACAGTGGAGCAGACTG-AGCAAGCAAATATTATC
10606041 TCTCCGACGT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 106 0.97
89 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (88 bp):
TTACAGTGGAGCAGACTGAGCAAGCAAATATTATCCCCTGAAGATGCAGTGGGGTAGACTGAAGA
TGACAGATTTTACCTCCCCGAGA
Found at i:10607984 original size:13 final size:14
Alignment explanation
Indices: 10607952--10607990 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
10607942 TTTTATAGGC
10607952 TGAAAAT-AAA-AA
1 TGAAAATAAAATAA
10607964 TGAAAATAAAATAA
1 TGAAAATAAAATAA
10607978 T-AAAATAAAATAA
1 TGAAAATAAAATAA
10607991 AAATACAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 15 0.60
14 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
TGAAAATAAAATAA
Found at i:10610351 original size:5 final size:6
Alignment explanation
Indices: 10610333--10610359 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10610323 CAATAAAAAA
10610333 TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTA
10610360 CGTATATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:10611583 original size:21 final size:21
Alignment explanation
Indices: 10611545--10611584 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10611535 TTAAAAATCA
**
10611545 ATTTAATTTCTTTAAATTATT
1 ATTTAATTGATTTAAATTATT
*
10611566 ATTTAATTGATTTTAATTA
1 ATTTAATTGATTTAAATTA
10611585 AATAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTAATTGATTTAAATTATT
Found at i:10611739 original size:16 final size:17
Alignment explanation
Indices: 10611720--10611751 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10611710 AAATGAGTTA
10611720 GAAAA-TAATTTAATTG
1 GAAAATTAATTTAATTG
10611736 GAAAATTAATTTAATT
1 GAAAATTAATTTAATT
10611752 AATATTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
GAAAATTAATTTAATTG
Found at i:10613492 original size:47 final size:47
Alignment explanation
Indices: 10613439--10613534 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
10613429 GCAAAATCTC
*
10613439 GTCTTTTACTTTCTGTTTGGCATGATTGGCTGGATCAGCTCTTACGA
1 GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
10613486 GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
1 GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
10613533 GT
1 GT
10613535 TTCTGTTCAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.43
Consensus pattern (47 bp):
GTCTTTTACTTTCTGTTTGGCATGATTGGCTAGATCAGCTCTTACGA
Found at i:10613546 original size:21 final size:21
Alignment explanation
Indices: 10613520--10613575 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
10613510 ATTGGCTAGA
*
10613520 TCAGCTCTTACGAG-TTTCTGT
1 TCAGCTCTTACGAGCTCT-TGT
10613541 TCAGCTCTTACGAGCTCTTGT
1 TCAGCTCTTACGAGCTCTTGT
10613562 TCAGCT-TT-CGAGCT
1 TCAGCTCTTACGAGCT
10613576 TCTATTGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 23 0.70
22 2 0.06
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTCTTGT
Found at i:10615727 original size:2 final size:2
Alignment explanation
Indices: 10615717--10615748 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10615707 ATATATAAGC
10615717 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10615749 AACTGGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10618189 original size:43 final size:42
Alignment explanation
Indices: 10618128--10618284 Score: 170
Period size: 42 Copynumber: 3.6 Consensus size: 42
10618118 CTATGCCTAG
*
10618128 ATGGTAAGCAAATATTATACGAATAAAACAAATATTTCTTAAC
1 ATGGTAAACAAATATTATACGAATAAAA-AAATATTTCTTAAC
* * * *
10618171 ATGGTAAATAAATATTATACGAGTAAAAAAATATTCCTTAAG
1 ATGGTAAACAAATATTATACGAATAAAAAAATATTTCTTAAC
* * *
10618213 ATGGTAAACAAATATTATGCGAGTATAAAAAAATATTTTTTTTTAAG
1 ATGGTAAACAAATATTATACGA--ATAAAAAAATA---TTTCTTAAC
* *
10618260 ATGCTAGACAAATATTATACGAATA
1 ATGGTAAACAAATATTATACGAATA
10618285 TTATACCAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.33
43 25 0.26
44 10 0.10
45 3 0.03
47 26 0.27
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (42 bp):
ATGGTAAACAAATATTATACGAATAAAAAAATATTTCTTAAC
Found at i:10618219 original size:23 final size:22
Alignment explanation
Indices: 10618151--10618228 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
10618141 ATTATACGAA
*
10618151 TAAAACAAATATTTCTTAACATGG
1 TAAAA-AAATA-TTCTTAAGATGG
* * *
10618175 TAAATAAATATT-ATACGA--G
1 TAAAAAAATATTCTTAAGATGG
10618194 TAAAAAAATATTCCTTAAGATGG
1 TAAAAAAATATT-CTTAAGATGG
*
10618217 TAAACAAATATT
1 TAAAAAAATATT
10618229 ATGCGAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
19 12 0.29
21 7 0.17
22 2 0.05
23 17 0.40
24 4 0.10
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (22 bp):
TAAAAAAATATTCTTAAGATGG
Found at i:10618456 original size:43 final size:45
Alignment explanation
Indices: 10618320--10618471 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 45
10618310 CATCGACTAA
* *
10618320 TAAACAAATATTATAC-A-AATAGAAACAAAATATCTCTTCATATGC
1 TAAACAAATATTATACGATACTA-AAA-AAAATATATCTTCATATGC
* * * *
10618365 TAAACAAATATTTTACGAATACTAAAAAAAAAAAATCATCA-ACTGC
1 TAAACAAATATTATACG-ATACTAAAAAAAATATATCTTCATA-TGC
* * * *
10618411 TAAACAAAAATAATACGA-A-TAACAAAAATATTTCTTCATATGC
1 TAAACAAATATTATACGATACTAAAAAAAATATATCTTCATATGC
10618454 TAAACAAATATTATACGA
1 TAAACAAATATTATACGA
10618472 CTGTGGCAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
43 33 0.38
44 2 0.02
45 17 0.20
46 27 0.31
47 4 0.05
48 3 0.03
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (45 bp):
TAAACAAATATTATACGATACTAAAAAAAATATATCTTCATATGC
Found at i:10625699 original size:5 final size:5
Alignment explanation
Indices: 10625689--10625734 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
10625679 AAAATTACAC
* *
10625689 ATTTT ATTTT ATTTT ATTTT -TCTT CTTTCT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT-T ATTTT ATTTT ATTTT A
10625735 CAGGCAGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.81
6 4 0.11
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:10629970 original size:61 final size:60
Alignment explanation
Indices: 10629901--10630362 Score: 363
Period size: 61 Copynumber: 7.6 Consensus size: 60
10629891 GTGTTTATAG
*
10629901 TTATACATTGTCGAAATTGATTTGCATATGGATATA-AGTTGCCGAATTGATTTGTATATGA
1 TTATACATTG-CGAAATTGATTTGTATATGGATATACA-TTGCCGAATTGATTTGTATATGA
* * * * ** *
10629962 TTGTACATTGCTGAAATTAATTTATATATGGTTATACATTGTTGAATTGAATTGTATATGGA
1 TTATACATTGC-GAAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATAT-GA
* * * * * *
10630024 -TATA-AGTTGCCG-AATTAATTTGTATAT-GATTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACA-TTG-CGAAATTGATTTGTATATGGA-TATACATTGCCG-AATTGATTTGTATATGA
* *
10630084 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCGAATTGATTTGTATATGA
1 TTATACATTG-CGAAATTGATTTGTATATGGATATACA-TTGCCGAATTGATTTGTATATGA
* * * * ** * *
10630145 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAGTTGTAT-GGA
1 TTATACATTGC-GAAATTGATTTGTATATGGATATACATTGCCG-AATTGATTTGTATATGA
** *
10630206 -TATA-AGTTGCCG-AATTGATTCATATAT-GATTATACATTGCCGAATTTAATTTGTATATGA
1 TTATACA-TTG-CGAAATTGATTTGTATATGGA-TATACATTGCCGAA-TTGATTTGTATATGA
* * *
10630266 TTATACATTGCCAAACTTGATTCGTATATGGTTATACATTGCCGAATTGATTTGTATATAGA
1 TTATACATTGCGAAA-TTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATAT-GA
* * * *
10630328 -TATACATTGCCGAATTTGGTTCGTATATGAATATA
1 TTATACATTG-CGAAATTGATTTGTATATGGATATA
10630363 TATATATTGC
Statistics
Matches: 320, Mismatches: 54, Indels: 54
0.75 0.13 0.13
Matches are distributed among these distances:
58 3 0.01
59 32 0.10
60 38 0.12
61 172 0.54
62 72 0.22
63 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (60 bp):
TTATACATTGCGAAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGA
Found at i:10629991 original size:31 final size:31
Alignment explanation
Indices: 10629901--10630337 Score: 320
Period size: 31 Copynumber: 14.4 Consensus size: 31
10629891 GTGTTTATAG
* *
10629901 TTATACATTG-TCGAAATTGATTTGCATATGGA
1 TTATACATTGCT-GAAATTAATTTGTATAT-GA
* *
10629933 -TATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
10629962 TTGTACATTGCTGAAATTAATTTATATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
*
10629993 TTATACATTGTTG-AATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
*
10630024 -TATA-AGTTGCCG-AATTAATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
10630053 TTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
*
10630084 TTATACATTGTTGAAATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
* *
10630116 -TATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
10630145 TTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * * *
10630176 TTATACATTGTTGAAATTGAGTTGTAT-GGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * **
10630206 -TATA-AGTTGCCG-AATTGATTCATATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* *
10630235 TTATACATTGCCGAATTTAATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * * *
10630266 TTATACATTGC-CAAACTTGATTCGTATATGG
1 TTATACATTGCTGAAA-TTAATTTGTATATGA
* *
10630297 TTATACATTGCCG-AATTGATTTGTATATAGA
1 TTATACATTGCTGAAATTAATTTGTATAT-GA
10630328 -TATACATTGC
1 TTATACATTGC
10630338 CGAATTTGGT
Statistics
Matches: 326, Mismatches: 52, Indels: 56
0.75 0.12 0.13
Matches are distributed among these distances:
28 11 0.03
29 20 0.06
30 120 0.37
31 172 0.53
32 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGA
Found at i:10629998 original size:92 final size:92
Alignment explanation
Indices: 10629900--10630337 Score: 620
Period size: 92 Copynumber: 4.8 Consensus size: 92
10629890 AGTGTTTATA
* * * *
10629900 GTTATACATTGTCGAAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
10629965 TACATTGCTGAAATTAATTTATATATG
66 TACATTGCTGAAATTAATTTGTACATG
*
10629992 GTTATACATTGTTG-AATTGAATTGTATATGGATATAAGTTGCCGAATTAATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
*
10630056 TATATTGCTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTACATG
10630083 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
*
10630148 TATATTGCTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTACATG
* **
10630175 GTTATACATTGTTGAAATTGAGTTG--TATGGATATAAGTTGCCGAATTGATTCATATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* * *
10630238 TACATTGCCGAATTTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTACATG
* ** *
10630265 ATTATACATTG-CCAAACTTG-ATTCGTATATGGTTATACA-TTGCCGAATTGATTTGTATATAG
1 GTTATACATTGTTGAAA-TTGAATT-GTATATGGATATA-AGTTGCCGAATTGATTTGTATAT-G
10630327 A-TATACATTGC
62 ATTATACATTGC
10630338 CGAATTTGGT
Statistics
Matches: 316, Mismatches: 23, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
89 5 0.02
90 73 0.23
91 84 0.27
92 151 0.48
93 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (92 bp):
GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
TACATTGCTGAAATTAATTTGTACATG
Found at i:10637168 original size:48 final size:48
Alignment explanation
Indices: 10637107--10637205 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 48
10637097 TATTTCTCTC
*
10637107 TTTATTTCTTCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
1 TTTATTTCATCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
* * *
10637155 TTTATTTCATCTCCCATTTGTCTCTTTTTTCTGTCATTTTTCATTTAT
1 TTTATTTCATCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
10637203 TTT
1 TTT
10637206 TCCCCCTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.11, C:0.23, G:0.03, T:0.63
Consensus pattern (48 bp):
TTTATTTCATCTCCCATTCGTCTCTCTTTTCTCTCATTTTTCATTTAT
Found at i:10639244 original size:3 final size:3
Alignment explanation
Indices: 10639236--10639266 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10639226 ATTGTGGCTA
10639236 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
10639267 TACAAGTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:10646083 original size:45 final size:44
Alignment explanation
Indices: 10646032--10646122 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 44
10646022 GGATTAGAAG
*
10646032 TGTAATGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
10646077 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
10646121 TG
1 TG
10646123 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:10646308 original size:18 final size:17
Alignment explanation
Indices: 10646287--10646321 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10646277 TTATTATTAA
*
10646287 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10646305 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10646322 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10646458 original size:16 final size:16
Alignment explanation
Indices: 10646421--10646462 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10646411 TTAATCATAT
*
10646421 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10646437 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10646452 TTAAAATATAT
1 TTAAAATATAT
10646463 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10646464 original size:154 final size:156
Alignment explanation
Indices: 10646181--10646487 Score: 555
Period size: 154 Copynumber: 2.0 Consensus size: 156
10646171 CCCTTAGTAT
* *
10646181 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTAGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTA-TATTATCAA
*
10646246 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
65 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
10646311 TTTAATAAAATTCTTAATAATTAGCAG
130 TTTAATAAAATTCTTAATAATTAGCAG
*
10646338 AAATTTGTTTTAGTAAATTATTATTATTATTGTTATTTAAATTTTAATAAGATTA-A-TATCAAT
1 AAATTTGTTTTAGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATATTATCAAT
10646401 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAAT
66 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAAT
10646466 TTAATAAAATTCTTAATAATTA
131 TTAATAAAATTCTTAATAATTA
10646488 ATATTCTTAT
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 93 0.64
155 1 0.01
157 52 0.36
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (156 bp):
AAATTTGTTTTAGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATATTATCAAT
AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAAT
TTAATAAAATTCTTAATAATTAGCAG
Found at i:10646469 original size:14 final size:15
Alignment explanation
Indices: 10646430--10646471 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10646420 TTTAAACATA
*
10646430 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10646445 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10646459 A-TATAATTTAATA
1 ATTATAATTAAATA
10646472 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10646558 original size:120 final size:121
Alignment explanation
Indices: 10646419--10646716 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 121
10646409 ATTTAATCAT
*
10646419 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
10646484 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGACACTATAAAAGA-AA
*
10646541 A-TT-AACATAATTATTATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
10646604 ATTAATATTCTTATATGGATTTACTCAAATCATAATATATGACACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGACACTATAAAAGAAA
* *
10646660 ATTTGAA-ATAATTAATATTAAATATATTATAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
10646717 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 158 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGACACTATAAAAGAAA
Found at i:10646589 original size:14 final size:14
Alignment explanation
Indices: 10646531--10646586 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
10646521 TATGATACTG
10646531 TAAAATA-TA-AAT
1 TAAAATATTATAAT
* *
10646543 TAACATAATTATTAT
1 TAAAAT-ATTATAAT
10646558 TAAAAATATTATAAT
1 T-AAAATATTATAAT
10646573 TAAAATA-TATAAT
1 TAAAATATTATAAT
10646586 T
1 T
10646587 TAATAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 5 0.14
13 8 0.22
14 8 0.22
15 11 0.31
16 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:10646826 original size:101 final size:93
Alignment explanation
Indices: 10646659--10646939 Score: 279
Period size: 91 Copynumber: 3.0 Consensus size: 93
10646649 TATAAAAGAA
* * *
10646659 AATTTGAAATAATTAATATTAAATAT-ATTATAATTAA-AATATATGATTTAATAAAATT-TAAA
1 AATTTAAAATAATTAATATTAAATATAATT-TAA-TAATAATATATAATTTCATAAAATTCT---
* * * *
10646721 ATAATTATAACTAATAAATTATATTTTATGAATTTGTAT
61 -T-A--ATAA-T-ATAAATTTTATTATATGAATTTATAC
* *
10646760 AATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAAT
*
10646824 -A-ATAAATTTTCTTATATGAATTTATAC
65 AATATAAATTTTATTATATGAATTTATAC
* *
10646851 AATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
* *
10646916 ATA-AAATGTTCTTATATGAATTTA
66 ATATAAATTTTATTATATGAATTTA
10646940 CTAAAATCAA
Statistics
Matches: 158, Mismatches: 15, Indels: 23
0.81 0.08 0.12
Matches are distributed among these distances:
91 77 0.49
92 24 0.15
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 6 0.04
101 42 0.27
102 4 0.03
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (93 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
ATATAAATTTTATTATATGAATTTATAC
Found at i:10646827 original size:91 final size:91
Alignment explanation
Indices: 10646732--10646939 Score: 285
Period size: 91 Copynumber: 2.3 Consensus size: 91
10646722 TAATTATAAC
* * * *
10646732 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
10646796 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
10646823 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10646888 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
10646914 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
10646940 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 82 0.78
92 22 0.21
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:10650162 original size:23 final size:23
Alignment explanation
Indices: 10650135--10650207 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
10650125 TTATATTAAT
10650135 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
* * * ***
10650158 ATTATAT-TTC-AATTAAAAAT-
1 ATTATATAATCAAAATGATTTTA
10650178 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
10650201 ATTATAT
1 ATTATAT
10650208 TTTAATATAC
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 7 0.20
21 7 0.20
22 7 0.20
23 14 0.40
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (23 bp):
ATTATATAATCAAAATGATTTTA
Found at i:10651035 original size:2 final size:2
Alignment explanation
Indices: 10651028--10651054 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10651018 TTTCACTTCA
10651028 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10651055 GCTGAATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10651452 original size:116 final size:116
Alignment explanation
Indices: 10651248--10651545 Score: 587
Period size: 116 Copynumber: 2.6 Consensus size: 116
10651238 GGTGTTAATT
10651248 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
1 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
10651313 TATCAGTGAGCAAACATTTCAAAGCATTCAAAGTTGAAGTAGTAACAGCAC
66 TATCAGTGAGCAAACATTTCAAAGCATTCAAAGTTGAAGTAGTAACAGCAC
10651364 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
1 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
*
10651429 TATCAGTGAGCAAACATTTCAAAGCATTCAAAGTTGAAGTAGTACCAGCAC
66 TATCAGTGAGCAAACATTTCAAAGCATTCAAAGTTGAAGTAGTAACAGCAC
10651480 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
1 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
10651545 T
66 T
10651546 CAAAGCATTC
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 181 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (116 bp):
CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCACCATTTCAAACATT
TATCAGTGAGCAAACATTTCAAAGCATTCAAAGTTGAAGTAGTAACAGCAC
Found at i:10652546 original size:22 final size:22
Alignment explanation
Indices: 10652508--10652551 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10652498 CAAGTTAGTG
* *
10652508 GAAAAAGAATCAATATATTATT
1 GAAAAAGAATAAATATAATATT
10652530 GAAAAA-AATAAAGTATAATATT
1 GAAAAAGAATAAA-TATAATATT
10652552 AAATTTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
GAAAAAGAATAAATATAATATT
Found at i:10652781 original size:18 final size:18
Alignment explanation
Indices: 10652753--10652795 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
10652743 TGTCTTCAAC
*
10652753 AAATAATTCAAAAATTATA
1 AAAT-ATTCAAAAAATATA
10652772 AAATATTCAAAAAATATA
1 AAATATTCAAAAAATATA
10652790 AAATAT
1 AAATAT
10652796 AAAAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATTCAAAAAATATA
Found at i:10652800 original size:26 final size:27
Alignment explanation
Indices: 10652763--10652813 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
10652753 AAATAATTCA
*
10652763 AAAATTATAAAATATTCAA-AAAATAT
1 AAAATTATAAAAAATTCAAGAAAATAT
10652789 AAAA-TATAAAAAAATTCAAGAAAAT
1 AAAATTAT-AAAAAATTCAAGAAAAT
10652814 TAGCAAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 14 0.64
27 5 0.23
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAATTATAAAAAATTCAAGAAAATAT
Found at i:10652801 original size:18 final size:18
Alignment explanation
Indices: 10652762--10652802 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10652752 CAAATAATTC
* **
10652762 AAAAATTATAAAATATTC
1 AAAAAATATAAAATATAA
10652780 AAAAAATATAAAATATAA
1 AAAAAATATAAAATATAA
10652798 AAAAA
1 AAAAA
10652803 TTCAAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAAATATAA
Found at i:10655383 original size:20 final size:20
Alignment explanation
Indices: 10655360--10655397 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10655350 AATACATCAA
10655360 AATA-ATAAAATTTACAAACC
1 AATACATAAAA-TTACAAACC
*
10655380 AATACCTAAAATTACAAA
1 AATACATAAAATTACAAA
10655398 GTCAAAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AATACATAAAATTACAAACC
Found at i:10659238 original size:12 final size:13
Alignment explanation
Indices: 10659214--10659238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10659204 AGATGAGTTT
10659214 AAAATTAGAAAAA
1 AAAATTAGAAAAA
10659227 AAAATTAGAAAA
1 AAAATTAGAAAA
10659239 TCTAAAAAAT
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:0.08, T:0.16
Consensus pattern (13 bp):
AAAATTAGAAAAA
Found at i:10660208 original size:126 final size:126
Alignment explanation
Indices: 10659809--10660377 Score: 707
Period size: 126 Copynumber: 4.5 Consensus size: 126
10659799 GATAAAATCA
* * * * * * * * *
10659809 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTTGCGCCTACGTGTACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
10659874 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGT-TAAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* * * * *
10659934 AAGCAGGATGCTTTATGAGAAGAATTTATGAAATCCCGCCCTCGTGGACGTGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
10659999 TGGTCCTGGAAGAAATAATTTCGAGTTTACGTTTTTGAACAAATAGTTTAAAAAAACGCTTC
66 AGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* * * * *
10660061 AAGTAGGATGCTTTATAAGAAGAATTTGTGAAGTCGTGCCCACGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
10660126 AGGTCCTGAAAAAATAATTTTGAATTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGT-
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCT-TC
* ** *
10660187 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCACTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * *
10660251 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGTAAATAGTAT--AAAATCGCTTC
65 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* *
10660311 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
10660376 AG
66 AG
10660378 CATGTTTAGG
Statistics
Matches: 381, Mismatches: 57, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
123 3 0.01
124 65 0.17
125 58 0.15
126 176 0.46
127 79 0.21
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
Found at i:10663595 original size:22 final size:22
Alignment explanation
Indices: 10663552--10663818 Score: 281
Period size: 22 Copynumber: 12.1 Consensus size: 22
10663542 TCAAATTAGA
10663552 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
10663573 TTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10663595 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
10663616 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
10663637 TTTAGGTTAAGGGTTTATGGAT
1 TTTAAGTTAAGGGTTTAGGGTT
10663659 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
10663681 TTAAAGTTAATAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
10663702 TTTAGGCTAAGGGGTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10663724 TTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
10663746 TTTAGGTTAAAGATTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
10663768 TTTAATTTAAGGGTTAGGGTTAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTT
* *
10663795 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
10663817 TT
1 TT
10663819 GTCAATTAAA
Statistics
Matches: 201, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
21 67 0.33
22 113 0.56
23 1 0.00
26 1 0.00
27 19 0.09
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:10663605 original size:43 final size:43
Alignment explanation
Indices: 10663552--10663788 Score: 287
Period size: 43 Copynumber: 5.5 Consensus size: 43
10663542 TCAAATTAGA
* *
10663552 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
10663595 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
10663637 TTTAGGTTAAGGGTTTATGGATTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* ** * * * *
10663681 TTAAAGTTAATAGTTAGGGTTTTTAGGCTAAGGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
10663724 TTTAAGTTAAGGGTTTAGAGTTTTTAGGTTAAAGATTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
10663768 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
10663789 AGGGTTTTTA
Statistics
Matches: 163, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
42 18 0.11
43 92 0.56
44 53 0.33
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:10663783 original size:65 final size:64
Alignment explanation
Indices: 10663552--10663818 Score: 270
Period size: 65 Copynumber: 4.0 Consensus size: 64
10663542 TCAAATTAGA
* * *
10663552 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTA-GAGTTTTAAAGTTAAGGG-TTAGGGT
1 TTTAAGTTAA-AGTTAGGGTTTTTAAGTTAAGGGTTTAGGA-TTTTTAAGTTAAGGGTTTAGGGT
10663615 T
64 T
* *
10663616 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGA-TTTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAA-AGTTAGGGTTTTTAAGTTAAGGGTTTA-GGATTTTTAAGTTAAGGGTTTAGGGT
10663680 T
64 T
* * * * *
10663681 TTAAAGTTAATAGTTAGGGTTTTTAGGCTAAGGGGTTAGGATTTTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAA-AGTTAGGGTTTTTAAGTTAAGGGTTTAGGATTTTTAAGTTAAGGGTTTAGGGTT
* * * *
10663746 TTTAGGTTAAAGATTTAGGGTTTTTAATTTAAGGGTTAGGGTTAGGGTTTTTAGGTTAAGGGTTT
1 TTTAAGTTAAAG--TTAGGGTTTTTAAGTTAAGGG-T----TTAGGATTTTTAAGTTAAGGGTTT
*
10663811 AAGGTT
59 AGGGTT
10663817 TT
1 TT
10663819 GTCAATTAAA
Statistics
Matches: 173, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
64 54 0.31
65 71 0.41
66 20 0.12
71 28 0.16
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.44
Consensus pattern (64 bp):
TTTAAGTTAAAGTTAGGGTTTTTAAGTTAAGGGTTTAGGATTTTTAAGTTAAGGGTTTAGGGTT
Found at i:10664382 original size:18 final size:18
Alignment explanation
Indices: 10664356--10664397 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10664346 GACTCGAAAA
* *
10664356 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
10664374 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
10664392 AGGAAA
1 AGGAAA
10664398 TGCTCCTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.29, T:0.17
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:10665231 original size:20 final size:20
Alignment explanation
Indices: 10665194--10665231 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10665184 TTTATTTTTA
*
10665194 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
10665214 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
10665232 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:10666209 original size:51 final size:51
Alignment explanation
Indices: 10666165--10666262 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
10666155 AATTATTTAA
*
10666165 AAATAGGGATTTAAGTGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
10666216 AAATATGGATTTGAGAGAAATTTTGAAGGAACTTGAGAGCAGATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
10666263 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.26, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:10666238 original size:11 final size:11
Alignment explanation
Indices: 10666224--10666300 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
10666214 ATAAATATGG
10666224 ATTTGAGAGAA
1 ATTTGAGAGAA
*
10666235 ATTTTGA-AGGA
1 A-TTTGAGAGAA
* *
10666246 ACTTGAGAGCAG
1 ATTTGAGAG-AA
10666258 A-TTGAGAGGAA
1 ATTTGAGA-GAA
10666269 ATTT-AGAAGAA
1 ATTTGAG-AGAA
10666280 A-TTGAGAGGAA
1 ATTTGAGA-GAA
10666291 ATTTGAGAGA
1 ATTTGAGAGA
10666301 TGATTAGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
10 7 0.13
11 29 0.56
12 16 0.31
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:10666267 original size:22 final size:21
Alignment explanation
Indices: 10666226--10666300 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
10666216 AAATATGGAT
*
10666226 TTGAGAGAAATTTTGA-AGGAAC
1 TTGAGAGAAA--TTGAGAGGAAA
*
10666248 TTGAGAGCAGATTGAGAGGAAA
1 TTGAGAG-AAATTGAGAGGAAA
*
10666270 TTTAGAAGAAATTGAGAGGAAA
1 TTGAG-AGAAATTGAGAGGAAA
10666292 TTTGAGAGA
1 -TTGAGAGA
10666301 TGATTAGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.09
22 32 0.73
23 8 0.18
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.24
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGGAAA
Found at i:10669263 original size:5 final size:5
Alignment explanation
Indices: 10669253--10669277 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10669243 TATTGTTAAT
10669253 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
10669278 TTCTAACGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:10670797 original size:22 final size:22
Alignment explanation
Indices: 10670772--10670814 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10670762 TATTCAAATA
10670772 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
10670794 ATAATATTTAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
10670815 AATATTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:10670854 original size:22 final size:22
Alignment explanation
Indices: 10670821--10670879 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
10670811 GCAAAATATT
*
10670821 AAAAA-AAGAAAATACG-AAGAA
1 AAAAATAAAAAAATA-GTAAGAA
10670842 AAAAATAAAAAAATAGTAAGAA
1 AAAAATAAAAAAATAGTAAGAA
**
10670864 AGTAATAAAAAAATAG
1 AAAAATAAAAAAATAG
10670880 CAGTTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.18
22 27 0.82
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAAAATAGTAAGAA
Found at i:10671674 original size:38 final size:39
Alignment explanation
Indices: 10671623--10671725 Score: 142
Period size: 38 Copynumber: 2.7 Consensus size: 39
10671613 ATGTTGGTTG
*
10671623 TGATTTTGATTTTGCTGTTAATGCTGTTAATGG-TGT-T
1 TGATTTTAATTTTGCTGTTAATGCTGTTAATGGTTGTGT
10671660 CTGATTTTAATTTTGCTGTTAATGCTGTTAATGGTTGTGT
1 -TGATTTTAATTTTGCTGTTAATGCTGTTAATGGTTGTGT
* *
10671700 T--TTTTATTTTTGCTGTTAATGGTGTT
1 TGATTTTAATTTTGCTGTTAATGCTGTT
10671726 CTGTTAATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
37 23 0.38
38 32 0.53
39 4 0.07
40 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.22, T:0.56
Consensus pattern (39 bp):
TGATTTTAATTTTGCTGTTAATGCTGTTAATGGTTGTGT
Found at i:10676085 original size:18 final size:18
Alignment explanation
Indices: 10676062--10676096 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10676052 TTGCAAAAAG
* *
10676062 GACGATGAGGACGATGAC
1 GACGATAAGAACGATGAC
10676080 GACGATAAGAACGATGA
1 GACGATAAGAACGATGA
10676097 TGATGATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.14, G:0.34, T:0.11
Consensus pattern (18 bp):
GACGATAAGAACGATGAC
Found at i:10676975 original size:25 final size:25
Alignment explanation
Indices: 10676941--10676988 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10676931 TTAAGATTTG
10676941 ATTGTTTGTAATTAAATTCAAATTA
1 ATTGTTTGTAATTAAATTCAAATTA
10676966 ATTGTTTGTAATTAAATTCAAAT
1 ATTGTTTGTAATTAAATTCAAAT
10676989 AAGTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTGTTTGTAATTAAATTCAAATTA
Found at i:10677081 original size:16 final size:16
Alignment explanation
Indices: 10677060--10677093 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10677050 ATATAAATTC
10677060 AATAACAATTAATTTT
1 AATAACAATTAATTTT
*
10677076 AATAACAATTAGTTTT
1 AATAACAATTAATTTT
10677092 AA
1 AA
10677094 CTTTTAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:10679237 original size:4 final size:4
Alignment explanation
Indices: 10679228--10679268 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
10679218 TTTACTTCAG
10679228 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
10679269 CTGTGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:10682085 original size:40 final size:41
Alignment explanation
Indices: 10682033--10682169 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 41
10682023 AATTTATAAT
* * *
10682033 ACTTTTCCCACAAA-CACTATAGAACATGACCTTTCGCGGC
1 ACTTTTACCACAAACCACTAAAGAACATGACCTTTAGCGGC
* * *
10682073 ACTTTTATCACAAGCACCGCTAAAGAACATGACTTTTAGCGGC
1 ACTTTTACCACAA--ACCACTAAAGAACATGACCTTTAGCGGC
* *
10682116 ACTTTTACCACAAACGCCACTAGAGAACATGACCTTTAGTGGC
1 ACTTTTACCACAAA--CCACTAAAGAACATGACCTTTAGCGGC
*
10682159 GCTTTTTACCA
1 AC-TTTTACCA
10682170 AAAAAACCGC
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
40 11 0.14
41 1 0.01
42 1 0.01
43 58 0.73
44 8 0.10
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (41 bp):
ACTTTTACCACAAACCACTAAAGAACATGACCTTTAGCGGC
Found at i:10682100 original size:43 final size:43
Alignment explanation
Indices: 10682047--10682183 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 43
10682037 TTCCCACAAA
* * * *
10682047 CACTATAGAACATGACCTTTCGCGGCACTTTTATCACAAGCAC
1 CACTAAAGAACATGACCTTTAGCGGCACTTTTACCACAAACAC
* * *
10682090 CGCTAAAGAACATGACTTTTAGCGGCACTTTTACCACAAACGC
1 CACTAAAGAACATGACCTTTAGCGGCACTTTTACCACAAACAC
* * * * *
10682133 CACTAGAGAACATGACCTTTAGTGGCGCTTTTTACCAAAAAAAC
1 CACTAAAGAACATGACCTTTAGCGGCAC-TTTTACCACAAACAC
*
10682177 CGCTAAA
1 CACTAAA
10682184 AGTCATGTTC
Statistics
Matches: 76, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 59 0.78
44 17 0.22
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
CACTAAAGAACATGACCTTTAGCGGCACTTTTACCACAAACAC
Found at i:10682605 original size:66 final size:66
Alignment explanation
Indices: 10682496--10682633 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 66
10682486 TCATATTCTG
* * **
10682496 AAGTTGTAGCTAGAGTTCGTCATATTTTCTGTTTGCTTATGCTTCCCTCGTTGCTGCCTCCGCTT
1 AAGTTGTAACTAGAGTTCGTCATATTTTCTGTTAGCTTATGCTTCCCTCAATGCTGCCTCCGCTT
10682561 T
66 T
* * * **
10682562 AAGTTGTAACTGGAGTTCTTCATATTTTCT-TTAAGCCTT-TGCTTCTCTCAATGCTTTCTCCGC
1 AAGTTGTAACTAGAGTTCGTCATATTTTCTGTT-AG-CTTATGCTTCCCTCAATGCTGCCTCCGC
10682625 TTT
64 TTT
10682628 AAGTTG
1 AAGTTG
10682634 AGCAATTTGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
65 2 0.03
66 56 0.92
67 3 0.05
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (66 bp):
AAGTTGTAACTAGAGTTCGTCATATTTTCTGTTAGCTTATGCTTCCCTCAATGCTGCCTCCGCTT
T
Found at i:10686832 original size:29 final size:29
Alignment explanation
Indices: 10686790--10686846 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
10686780 AATAAGTGGC
10686790 TGTATATAAATGTCAATATCATTCTCGGT
1 TGTATATAAATGTCAATATCATTCTCGGT
10686819 TGTATATAAATGTCAATATCATTCTCGG
1 TGTATATAAATGTCAATATCATTCTCGG
10686847 GACCTTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (29 bp):
TGTATATAAATGTCAATATCATTCTCGGT
Found at i:10689147 original size:2 final size:2
Alignment explanation
Indices: 10689140--10689170 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10689130 TTAATTCTTT
10689140 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10689171 TGTTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10691189 original size:9 final size:9
Alignment explanation
Indices: 10691175--10691200 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10691165 TGATATATAT
10691175 TTATGTAAG
1 TTATGTAAG
10691184 TTATGTAAG
1 TTATGTAAG
10691193 TTATGTAA
1 TTATGTAA
10691201 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10691755 original size:25 final size:25
Alignment explanation
Indices: 10691727--10691774 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10691717 GGACAAGATT
10691727 TTGTTAAATGAAATAATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
*
10691752 TTGTTAACTGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
10691775 TGAGCCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:10695142 original size:755 final size:756
Alignment explanation
Indices: 10693890--10695259 Score: 2296
Period size: 755 Copynumber: 1.8 Consensus size: 756
10693880 GTAATATTTA
*
10693890 AAAGAATTAGATAAAATTTGAAATTTTTGTATAATTTCTTATGTAAGAAAACAAAAATAAAAAAT
1 AAAGAATTAGATAAAATTTGAAATTTTTATATAATTTCTTATGTAAGAAAAC-AAAATAAAAAAT
10693955 TTCAAAATATGAAAAAGAAAACAAAAAAGCATTAAAAGAATTTTTCTCTTTTATACTTATATATT
65 TTCAAAATATGAAAAAGAAAACAAAAAAGCATTAAAAGAATTTTTCTCTTTTATACTTATATATT
* *
10694020 CTTTTAATAGTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTTCTCTAGAT
130 CTTTCAATAGTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTTCTCTAGAG
* * * *
10694085 ATGCATGGGTTAGCAATTTTTTTTAATTTTAATATATATATAAAGTTTATCTATTATCTCTTAAA
195 ATGCATGAGTTAACAATTTTTTTTAATTTTAATATACATATAAAGTTTATCCATTATCTCTTAAA
10694150 TAATTTAAAATATAATGATAATTTTAATATATTAAAATTATCTCTTTTACAATTATATAAGAAAT
260 TAATTTAAAATATAATGATAATTTTAATATATTAAAATTATCTCTTTTACAATTATATAAGAAAT
10694215 TAATTAATATATAAATTAAAAAAAATCAATCAATCATATACCCAAAAAAACTTTAAAATAATTTT
325 TAATTAATATATAAATT--AAAAAATCAATCAATCATATACCCAAAAAAACTTTAAAATAATTTT
10694280 AAATAATAGTATTTTAATTTTTTTCATTTTTAACATATATTTTTCTATGTTTTTACTTTCAAATT
388 AAATAATAGTATTTTAATTTTTTTCATTTTTAACATATATTTTTCTATGTTTTTACTTTCAAATT
* * *
10694345 TTTTCTACTGTGTCATTAATTTTTTTTGAAGATTTTAAATATTAGATTAAAAATAATTTTATTTT
453 TTTTCTACTGTGTCATTAAATTTTTTTGAAGATTTTAAATATTAAATTAAAAATAAATTTATTTT
10694410 AATTAATATAAAGAAACTAATTAAATAATAAATAGAAGAGGATGAAAGAGTGCATGAGTTGTTGA
518 AATTAATATAAAGAAACTAATTAAATAATAAATAG-A-A-GA-G---GA-TGCATGAGTTGTTGA
*
10694475 AAAAAATACATGATGGGCACTTGGATGATGGGTGAGAAATTTTTTATTTAAAATAAAATGATTTT
575 AAAAAATACATGATGGGCACTTGGATGATGGGTCAGAAATTTTTTATTTAAAATAAAATGATTTT
10694540 TTGCGGCATTTGCTATTGCTTACCTTTTGCAGCGTTTTTCTCATAAACGCCGCTACTGCTTGACT
640 TTGCGGCATTTGCTATTGCTTACCTTTTGCAGCGTTTTTCTCATAAACGCCGCTACTGCTTGACT
10694605 TTTTTAATGAGAAATTTTTATATTGAATTATTATATCTTTCATATCAGTTTT
705 TTTTTAATGAGAAATTTTTATATTGAATTATTATATCTTTCATATCAGTTTT
* *
10694657 AAAGAATTAGATAAAATTTGAAATTTTTATATAATTTTTTATGTAAGAAAAC-AAA-AAAAATTT
1 AAAGAATTAGATAAAATTTGAAATTTTTATATAATTTCTTATGTAAGAAAACAAAATAAAAAATT
**** *
10694720 TCAAAATATGAAAAA-AAAACAAAAAAGC-TTCAAATTTTTTTTTTCTCTTTTGA-A-TTTTATA
66 TCAAAATATGAAAAAGAAAACAAAAAAGCATT-AAA-AGAATTTTTCTCTTTT-ATACTTATATA
* *
10694781 TTCTTTCAATATTTTAGGAAATTTAAATAATTTTTTCAATTTACTAATTAATTTTGTTTCTCTAG
128 TTCTTTCAATAGTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTTCTCTAG
10694846 AGATGCATGAGTTAACAA-TTTTTTTAATTTT-A-ATACATATAAAGTTTATCCATTATCTCTTA
193 AGATGCATGAGTTAACAATTTTTTTTAATTTTAATATACATATAAAGTTTATCCATTATCTCTTA
*
10694908 AATAATTTAAACTATAATGATAATTTTAATATATTAAAATTATCTCTTTTACAATTATATAAGAA
258 AATAATTTAAAATATAATGATAATTTTAATATATTAAAATTATCTCTTTTACAATTATATAAGAA
* * *
10694973 ATTAATTAATATATAAATT-AAAAA-CAATCAGTCATATACTCAAAAAAA-TTTAAAATTATTTT
323 ATTAATTAATATATAAATTAAAAAATCAATCAATCATATACCCAAAAAAACTTTAAAATAATTTT
10695035 AAATAATAGTATTTTAATTTTTTTCATTTTTAACATATATTTTTCTATGTTTTTACTTTCAAATT
388 AAATAATAGTATTTTAATTTTTTTCATTTTTAACATATATTTTTCTATGTTTTTACTTTCAAATT
*
10695100 TTTTCTACTGTGTCATTAAATTTTTTTGAAGATTTTAAATATTAAATTAAATATAAATTTATTTT
453 TTTTCTACTGTGTCATTAAATTTTTTTGAAGATTTTAAATATTAAATTAAAAATAAATTTATTTT
*
10695165 AATTAATATAAAGAAACTAATTAAATAATAAATAGAAGAGGATGCATGAGTTGTTGAAAAGAATA
518 AATTAATATAAAGAAACTAATTAAATAATAAATAGAAGAGGATGCATGAGTTGTTGAAAAAAATA
10695230 CATGATGGGCACTTGGATGATGGGTCAGAA
583 CATGATGGGCACTTGGATGATGGGTCAGAA
10695260 TACAGGGAGC
Statistics
Matches: 574, Mismatches: 26, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
747 51 0.09
748 2 0.00
751 1 0.00
752 2 0.00
753 1 0.00
754 1 0.00
755 174 0.30
756 22 0.04
757 5 0.01
760 111 0.19
761 1 0.00
762 15 0.03
763 99 0.17
764 35 0.06
765 4 0.01
767 50 0.09
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (756 bp):
AAAGAATTAGATAAAATTTGAAATTTTTATATAATTTCTTATGTAAGAAAACAAAATAAAAAATT
TCAAAATATGAAAAAGAAAACAAAAAAGCATTAAAAGAATTTTTCTCTTTTATACTTATATATTC
TTTCAATAGTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTTCTCTAGAGA
TGCATGAGTTAACAATTTTTTTTAATTTTAATATACATATAAAGTTTATCCATTATCTCTTAAAT
AATTTAAAATATAATGATAATTTTAATATATTAAAATTATCTCTTTTACAATTATATAAGAAATT
AATTAATATATAAATTAAAAAATCAATCAATCATATACCCAAAAAAACTTTAAAATAATTTTAAA
TAATAGTATTTTAATTTTTTTCATTTTTAACATATATTTTTCTATGTTTTTACTTTCAAATTTTT
TCTACTGTGTCATTAAATTTTTTTGAAGATTTTAAATATTAAATTAAAAATAAATTTATTTTAAT
TAATATAAAGAAACTAATTAAATAATAAATAGAAGAGGATGCATGAGTTGTTGAAAAAAATACAT
GATGGGCACTTGGATGATGGGTCAGAAATTTTTTATTTAAAATAAAATGATTTTTTGCGGCATTT
GCTATTGCTTACCTTTTGCAGCGTTTTTCTCATAAACGCCGCTACTGCTTGACTTTTTTAATGAG
AAATTTTTATATTGAATTATTATATCTTTCATATCAGTTTT
Found at i:10695443 original size:41 final size:41
Alignment explanation
Indices: 10695311--10695451 Score: 174
Period size: 41 Copynumber: 3.4 Consensus size: 41
10695301 ATTTTTTGCT
* * *
10695311 ACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTATTACTTG
1 ACCTTTTGCGGCATTTTTCTCATAAACGCCGCTACTGCTTG
* *
10695352 ACCTTTTGCGGCGTTTTTCGCATAAACGCCGCTACTGCTTG
1 ACCTTTTGCGGCATTTTTCTCATAAACGCCGCTACTGCTTG
* * * *
10695393 ACCTTTTGTGGCATTTTTCTCATAAAAGCTGCTACTGCTTT
1 ACCTTTTGCGGCATTTTTCTCATAAACGCCGCTACTGCTTG
* * *
10695434 ACCTATTGTGACATTTTT
1 ACCTTTTGCGGCATTTTT
10695452 TTGTTAGCGC
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
ACCTTTTGCGGCATTTTTCTCATAAACGCCGCTACTGCTTG
Found at i:10697232 original size:20 final size:19
Alignment explanation
Indices: 10697203--10697259 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
10697193 GTTAACATCC
* *
10697203 ATTAATTTTAAGTGATTTTT
1 ATTAA-TTTAAGTAATTTTG
*
10697223 ATTAAGTTTAATTAATTTTG
1 ATTAA-TTTAAGTAATTTTG
10697243 ATTAATTTAAGTTAATT
1 ATTAATTTAAG-TAATT
10697260 AGGTGATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (19 bp):
ATTAATTTAAGTAATTTTG
Found at i:10697737 original size:20 final size:21
Alignment explanation
Indices: 10697708--10697752 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
10697698 TGAAATTGGT
*
10697708 TTTAACACCAAAGCTCAAAA-
1 TTTAAAACCAAAGCTCAAAAC
*
10697728 TTTAAAACCAAAGCTTAAAAC
1 TTTAAAACCAAAGCTCAAAAC
10697749 TTTA
1 TTTA
10697753 GGGGTATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (21 bp):
TTTAAAACCAAAGCTCAAAAC
Found at i:10698116 original size:43 final size:43
Alignment explanation
Indices: 10698049--10698133 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
10698039 GTGAGAGTTG
*
10698049 GACTAAATTGTAAAGAAACATTTATATGTGTTAAAAGGTGCTC
1 GACTAAATTGTAAAGAAACATTTATATGTGTTAAAAAGTGCTC
** *
10698092 GACTAAATTGTAAAGAAATGTTTATATGTTTTAAAAAGTGCT
1 GACTAAATTGTAAAGAAACATTTATATGTGTTAAAAAGTGCT
10698134 TGGGTGAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (43 bp):
GACTAAATTGTAAAGAAACATTTATATGTGTTAAAAAGTGCTC
Found at i:10700289 original size:25 final size:25
Alignment explanation
Indices: 10700260--10700311 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10700250 AGCATTTAAA
10700260 GTTATTTTTATTAGTTTTTGCATTG
1 GTTATTTTTATTAGTTTTTGCATTG
10700285 GTTATTTTTATTAGTTTTTGCATTG
1 GTTATTTTTATTAGTTTTTGCATTG
10700310 GT
1 GT
10700312 GTTAGGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.04, G:0.17, T:0.63
Consensus pattern (25 bp):
GTTATTTTTATTAGTTTTTGCATTG
Found at i:10704719 original size:20 final size:20
Alignment explanation
Indices: 10704685--10704726 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10704675 AACTATTTAA
** *
10704685 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
10704705 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
10704725 AT
1 AT
10704727 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:10709470 original size:3 final size:3
Alignment explanation
Indices: 10709462--10709486 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10709452 TTATAGAATG
10709462 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
10709487 AACTCTCTTA
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):
ATA
Found at i:10710278 original size:12 final size:12
Alignment explanation
Indices: 10710261--10710286 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10710251 CAAAACAGGC
10710261 TTTTAGCGGCGT
1 TTTTAGCGGCGT
10710273 TTTTAGCGGCGT
1 TTTTAGCGGCGT
10710285 TT
1 TT
10710287 GAATAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:10710521 original size:41 final size:41
Alignment explanation
Indices: 10710464--10710708 Score: 391
Period size: 41 Copynumber: 6.0 Consensus size: 41
10710454 GTTTTCTGGG
10710464 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
** *
10710505 CTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGGTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
*
10710546 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCATGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* ** * *
10710587 CTTTAGCGGCGTTTTTTATAAAGCGCCGCGAGTGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
*
10710628 CTTTAGCGGCGTTTTTGTGGAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
*
10710669 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGG
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGG
10710709 GATTTAAAAT
Statistics
Matches: 183, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 183 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
Found at i:10711026 original size:14 final size:14
Alignment explanation
Indices: 10710889--10711027 Score: 68
Period size: 14 Copynumber: 9.9 Consensus size: 14
10710879 TATCACTATA
* *
10710889 GTTTAGGTTTTTTG
1 GTTTAGGGTTTATG
*
10710903 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
10710917 GTTTAGAGTTAAT-
1 GTTTAGGGTTTATG
* *
10710930 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
*
10710945 GTTTAGGGGTTATG
1 GTTTAGGGTTTATG
* * * *
10710959 ATTTATGGTTAAAAG
1 GTTTAGGGTT-TATG
* * *
10710974 G-CTGGGGTTTAAG
1 GTTTAGGGTTTATG
*
10710987 GTTTAAAGG-TTATG
1 GTTT-AGGGTTTATG
*
10711001 TGTTAAGGGTTTATG
1 -GTTTAGGGTTTATG
10711016 GTTTAGGGTTTA
1 GTTTAGGGTTTA
10711028 GATTATTTTC
Statistics
Matches: 89, Mismatches: 29, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
13 13 0.15
14 53 0.60
15 23 0.26
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:10711294 original size:14 final size:15
Alignment explanation
Indices: 10711267--10711305 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
10711257 AAATAATTAC
10711267 ATATGGATTTAGGGA
1 ATATGGATTTAGGGA
*
10711282 TTATGGA-TTAGGGA
1 ATATGGATTTAGGGA
10711296 ATATGG-TTTA
1 ATATGGATTTA
10711306 AGGGTTGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATATGGATTTAGGGA
Found at i:10711334 original size:7 final size:7
Alignment explanation
Indices: 10711324--10711354 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10711314 GATTTAAGGT
10711324 TTAGGGG
1 TTAGGGG
*
10711331 TTAGGAG
1 TTAGGGG
10711338 TTAGGGG
1 TTAGGGG
10711345 TTAGGGG
1 TTAGGGG
10711352 TTA
1 TTA
10711355 ATAGTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:10711348 original size:21 final size:21
Alignment explanation
Indices: 10711324--10711388 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
10711314 GATTTAAGGT
10711324 TTAGGGGTTAGGAGTTAGGGG
1 TTAGGGGTTAGGAGTTAGGGG
** *
10711345 TTAGGGGTTAATAGTTAGGGAT
1 TTAGGGGTTAGGAGTTAGGG-G
* * *
10711367 TTAGGGTTTAGGATTTAAGGG
1 TTAGGGGTTAGGAGTTAGGGG
10711388 T
1 T
10711389 CGGGTTAGGG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (21 bp):
TTAGGGGTTAGGAGTTAGGGG
Found at i:10711718 original size:17 final size:17
Alignment explanation
Indices: 10711698--10711734 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10711688 TTAAAAGATT
10711698 TATATAATTGATATGGA
1 TATATAATTGATATGGA
**
10711715 TATATTTTTGATATGGA
1 TATATAATTGATATGGA
10711732 TAT
1 TAT
10711735 TTGATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TATATAATTGATATGGA
Found at i:10711838 original size:14 final size:14
Alignment explanation
Indices: 10711819--10711846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10711809 TTATCAAAAT
10711819 TTTAAATAATATTA
1 TTTAAATAATATTA
10711833 TTTAAATAATATTA
1 TTTAAATAATATTA
10711847 ATAATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:10712209 original size:83 final size:83
Alignment explanation
Indices: 10711971--10712214 Score: 301
Period size: 83 Copynumber: 2.9 Consensus size: 83
10711961 TTTAAAAGTG
* * * * * *
10711971 AAATCATTAGCGGCGTTTGGTA-AAAAATGCCGCAAAAAATACATTTAAAATTTAACCAAACGGT
1 AAAT-ATTAGTGGCGTTTTGTATAAAAATGCCGCAAAAAATAAATTAAAAATTTAACAAAACGGC
*
10712035 ACCGTTTCATTGACGAATT
65 GCCGTTTCATTGACGAATT
* * * *
10712054 AAATATTAGTGGCGTTTTGTATACAAATGCCGCAAAAAATATATTAAGAATTTAATAAAACGGCG
1 AAATATTAGTGGCGTTTTGTATAAAAATGCCGCAAAAAATAAATTAAAAATTTAACAAAACGGCG
* *
10712119 CCATTTCATTGATGAATT
66 CCGTTTCATTGACGAATT
* * * *
10712137 AAATATTAGTGGCGTTTTCTATAAAAACGCCACAAAAAATAAATTAAAAATTTCACAAAACGGCG
1 AAATATTAGTGGCGTTTTGTATAAAAATGCCGCAAAAAATAAATTAAAAATTTAACAAAACGGCG
**
10712202 TTGTTTCATTGAC
66 CCGTTTCATTGAC
10712215 TAAATAAAGA
Statistics
Matches: 136, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
82 15 0.11
83 121 0.89
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (83 bp):
AAATATTAGTGGCGTTTTGTATAAAAATGCCGCAAAAAATAAATTAAAAATTTAACAAAACGGCG
CCGTTTCATTGACGAATT
Found at i:10716700 original size:43 final size:43
Alignment explanation
Indices: 10716639--10716725 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
10716629 GAGTTCCTTA
* * * **
10716639 CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATAATTTATTAC
*
10716682 CAAGATTTACTTGATTAAGAAAATGCATTGTATAATTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATAATTTATTAC
10716725 C
1 C
10716726 TTGCATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATAATTTATTAC
Found at i:10717140 original size:43 final size:43
Alignment explanation
Indices: 10717072--10717256 Score: 282
Period size: 43 Copynumber: 4.3 Consensus size: 43
10717062 ACGTCATGAC
* * *
10717072 CTATAACGGCGTTTGTGGGAGAAGCGCCACTAAAGGTAATGGT
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGGT
* **
10717115 CTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTAATGGT
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGGT
* *
10717158 CTATAGCGGCATTTGTGGG-AAAGCGCCGCTAAAGGTCATGGT
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGGT
*
10717200 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGT
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGGT
10717243 CTATAGCGGCGTTT
1 CTATAGCGGCGTTT
10717257 ATTTTTAAAA
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
42 40 0.31
43 89 0.69
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (43 bp):
CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGGT
Found at i:10717216 original size:85 final size:86
Alignment explanation
Indices: 10717072--10717252 Score: 283
Period size: 85 Copynumber: 2.1 Consensus size: 86
10717062 ACGTCATGAC
* * * *
10717072 CTATAACGGCGTTTGTGGGAGAAGCGCCACTAAAGGTAATGGTCTTTAGCGGCGTTTGTGATAAA
1 CTATAGCGGCATTTGTGGGAGAAGCGCCACTAAAGGTAATGGTCTATAGCGGCGTTTGTGAGAAA
10717137 AGCGCCGCTAAAGGTAATGGT
66 AGCGCCGCTAAAGGTAATGGT
* * *
10717158 CTATAGCGGCATTTGTGGGA-AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAA
1 CTATAGCGGCATTTGTGGGAGAAGCGCCACTAAAGGTAATGGTCTATAGCGGCGTTTGTGAGAAA
*
10717222 AGCGCCGCTAAAGGTCATGGT
66 AGCGCCGCTAAAGGTAATGGT
10717243 CTATAGCGGC
1 CTATAGCGGC
10717253 GTTTATTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 69 0.79
86 18 0.21
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (86 bp):
CTATAGCGGCATTTGTGGGAGAAGCGCCACTAAAGGTAATGGTCTATAGCGGCGTTTGTGAGAAA
AGCGCCGCTAAAGGTAATGGT
Found at i:10717616 original size:29 final size:32
Alignment explanation
Indices: 10717568--10717627 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
10717558 AATTTTGTGC
10717568 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
* *
10717600 AGGAA-ACAA-TT-GGGCTAGATTGAAGAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAA
10717628 GAAGCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.58
30 2 0.08
31 4 0.15
32 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.27, T:0.18
Consensus pattern (32 bp):
AGGAATACAATTTGGGGCTAAATAGAAGAAAA
Found at i:10719748 original size:33 final size:33
Alignment explanation
Indices: 10719708--10719775 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
10719698 AATTTACATT
*
10719708 TGAAAATTAAAAATTTATTTAATTTAAATTGAA
1 TGAAAATTAAAAACTTATTTAATTTAAATTGAA
10719741 TGAAAATTAAAAACTTATTTAATTTAAATTGAA
1 TGAAAATTAAAAACTTATTTAATTTAAATTGAA
10719774 TG
1 TG
10719776 GATATATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (33 bp):
TGAAAATTAAAAACTTATTTAATTTAAATTGAA
Found at i:10725843 original size:9 final size:8
Alignment explanation
Indices: 10725825--10725861 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
10725815 ATTTAGTTCC
10725825 TTTTTATT
1 TTTTTATT
10725833 TTTTTATT
1 TTTTTATT
10725841 TTTTTA-T
1 TTTTTATT
*
10725848 TATTTATT
1 TTTTTATT
10725856 TTTTTA
1 TTTTTA
10725862 ATTAAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:10725843 original size:15 final size:16
Alignment explanation
Indices: 10725825--10725861 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
10725815 ATTTAGTTCC
*
10725825 TTTTTATTTTTTTATT
1 TTTTTATTTATTTATT
10725841 TTTTTA-TTATTTATT
1 TTTTTATTTATTTATT
10725856 TTTTTA
1 TTTTTA
10725862 ATTAAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTATTTATT
Found at i:10728157 original size:120 final size:121
Alignment explanation
Indices: 10727943--10728190 Score: 444
Period size: 120 Copynumber: 2.1 Consensus size: 121
10727933 GTTTCTTGAT
* *
10727943 AAAATGGAGGATAATGCGGCTGTCCGAACTTGGTCTGAAACAACGCAGTAAAAGAAAGGTGATAG
1 AAAATAGAGGATAATGCGGCTGTCCGAACTTGGTCTGAAACAACGCAGTAAAAGAAAGGTGATAA
10728008 CTTGGCTGATGGATATATATCGGAATTATGGGATTTTACTCGCATCAGTGTAACTC
66 CTTGGCTGATGGATATATATCGGAATTATGGGATTTTACTCGCATCAGTGTAACTC
* *
10728064 AAAATAGAGGATAATGCGGTTGTCCGAACTTGGTCTGAAATAACG-AGTAAAAGAAAGGTGATAA
1 AAAATAGAGGATAATGCGGCTGTCCGAACTTGGTCTGAAACAACGCAGTAAAAGAAAGGTGATAA
*
10728128 CTTGGCTGATGGATATGTATCGGAATTATGGGATTTTACTCGCATCAGTGTAACTC
66 CTTGGCTGATGGATATATATCGGAATTATGGGATTTTACTCGCATCAGTGTAACTC
10728184 AAAATAG
1 AAAATAG
10728191 TTTGCAAGAG
Statistics
Matches: 122, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 80 0.66
121 42 0.34
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (121 bp):
AAAATAGAGGATAATGCGGCTGTCCGAACTTGGTCTGAAACAACGCAGTAAAAGAAAGGTGATAA
CTTGGCTGATGGATATATATCGGAATTATGGGATTTTACTCGCATCAGTGTAACTC
Found at i:10737717 original size:23 final size:25
Alignment explanation
Indices: 10737673--10737719 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
10737663 TGAATTTGTT
10737673 TGTTCTTGTAATACTTCATTCTTTGC
1 TGTTCTTGTAATACTT-ATTCTTTGC
10737699 TGTTCTTG-AATACTT-TTCTTT
1 TGTTCTTGTAATACTTATTCTTT
10737720 TCAAGACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
25 7 0.33
26 8 0.38
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (25 bp):
TGTTCTTGTAATACTTATTCTTTGC
Done.