Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 64 of 444
Found at i:15216728 original size:23 final size:23
Alignment explanation
Indices: 15216708--15216752 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
15216698 ATATTTATTT
15216708 ATTACATACATAAATAATTATAA
1 ATTACATACATAAATAATTATAA
*
15216731 ATTGCATACATAAATAATTATA
1 ATTACATACATAAATAATTATA
15216753 TTTATCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTACATACATAAATAATTATAA
Found at i:15216867 original size:29 final size:30
Alignment explanation
Indices: 15216813--15216870 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
15216803 GATTAAACCG
* *
15216813 AAATTAAAGTTTCACGTGTATAATTGCACC
1 AAATTAAAGTTTCACGTATACAATTGCACC
*
15216843 AAATTAAAG-TTCATGTATACAATTGCAC
1 AAATTAAAGTTTCACGTATACAATTGCAC
15216871 ATTAAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCACGTATACAATTGCACC
Found at i:15216895 original size:29 final size:27
Alignment explanation
Indices: 15216829--15216895 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
15216819 AAGTTTCACG
* *
15216829 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTGCACCAAATCAAAGTTAA
*
15216856 TGTATACAATTGCACATTAAATCAAAGTTAA
1 TGTAT--AATTGCAC--CAAATCAAAGTTAA
15216887 TGTATAATT
1 TGTATAATT
15216896 TTGATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAGTTAA
Found at i:15217048 original size:63 final size:62
Alignment explanation
Indices: 15216964--15217099 Score: 175
Period size: 63 Copynumber: 2.2 Consensus size: 62
15216954 TTTAGTAAAT
* **
15216964 TAATACAAACTAGTATCTAAATATTAATTTGG-AAAAAAGTAATGTTAAATAATTACAATATC
1 TAATACAAATTAGTATCTAAATATTAATTTGGTAAAAAA-TAAACTTAAATAATTACAATATC
* * * * *
15217026 TAAATATAAATTAGTATTTAAATATTAGTTTGGTAAAAAATAAACTTAAATAATTGCATTATC
1 T-AATACAAATTAGTATCTAAATATTAATTTGGTAAAAAATAAACTTAAATAATTACAATATC
15217089 TAATACAAATT
1 TAATACAAATT
15217100 GAGCAGTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 10 0.16
63 47 0.75
64 6 0.10
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (62 bp):
TAATACAAATTAGTATCTAAATATTAATTTGGTAAAAAATAAACTTAAATAATTACAATATC
Found at i:15219388 original size:48 final size:47
Alignment explanation
Indices: 15219272--15219400 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
15219262 ATACGATAAG
* * * * * *
15219272 TACCTATACCATGGCCCATAGCCAACTCAAGGTAACTTATCCTGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
*
15219319 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCCCCGAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCAT-CCCGAAA
* * *
15219367 TACCTATGCCATGGCCTGTAGCAAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
15219401 TCACTCGCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 36 0.51
48 35 0.49
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
Found at i:15224302 original size:20 final size:21
Alignment explanation
Indices: 15224263--15224302 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15224253 GTGTCCCCTA
15224263 TTTTTGGAAAACTTTACTAAG
1 TTTTTGGAAAACTTTACTAAG
* *
15224284 TTTTTTGAAAA-TTTCCTAA
1 TTTTTGGAAAACTTTACTAA
15224303 ATTATCGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTTTGGAAAACTTTACTAAG
Found at i:15227173 original size:18 final size:18
Alignment explanation
Indices: 15227139--15227184 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15227129 TGATATACAT
*
15227139 AACATATATAAAAAAATAA
1 AACATA-ATATAAAAATAA
15227158 TAA-ATAATATAAAAATAA
1 -AACATAATATAAAAATAA
15227176 AACATAATA
1 AACATAATA
15227185 AAGATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 17 0.71
19 3 0.12
20 2 0.08
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
AACATAATATAAAAATAA
Found at i:15227193 original size:25 final size:24
Alignment explanation
Indices: 15227149--15227201 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
15227139 AACATATATA
*
15227149 AAAAAATAATAAATAATATAAAAAT
1 AAAAAATAATAAAGAATAT-AAAAT
* * *
15227174 AAAACATAATAAAGATTATATAAT
1 AAAAAATAATAAAGAATATAAAAT
15227198 AAAA
1 AAAA
15227202 TGTAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAAATAATAAAGAATATAAAAT
Found at i:15227374 original size:36 final size:34
Alignment explanation
Indices: 15227328--15227434 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 34
15227318 TAAAAGAGAT
15227328 GTAAAATAATATTTAAGAAAAATAATACATAATAA
1 GTAAAATAATATTTAAGAAAAATAATAC-TAATAA
* ** *
15227363 GTAATAATAATATGTAATTAAAATAATACTTATAA
1 GTAA-AATAATATTTAAGAAAAATAATACTAATAA
* *
15227398 -TAAAATAAT-TTTATA-ATATATAATA-TAA-AA
1 GTAAAATAATATTTA-AGAAAAATAATACTAATAA
15227428 GTAAAAT
1 GTAAAAT
15227435 TAAAATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 10 0.17
33 7 0.12
34 3 0.05
35 9 0.15
36 21 0.35
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (34 bp):
GTAAAATAATATTTAAGAAAAATAATACTAATAA
Found at i:15227413 original size:16 final size:17
Alignment explanation
Indices: 15227329--15227415 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
15227319 AAAAGAGATG
15227329 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
* *
15227344 GAAAAATAATACATAATAA
1 -TAAAATAATAC-TTATAA
*
15227363 GTAATAATAATA-TGTA-AT
1 -TAA-AATAATACT-TATAA
15227381 TAAAATAATACTTATAA
1 TAAAATAATACTTATAA
*
15227398 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
15227414 TA
1 TA
15227416 TATAATATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
16 26 0.46
17 14 0.25
18 3 0.05
19 7 0.12
20 7 0.12
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:15227422 original size:54 final size:53
Alignment explanation
Indices: 15227356--15227458 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 53
15227346 AAAATAATAC
* * **
15227356 ATAATAAGTAATAATAATATGT-AATTAAAATAATACTTATAATAAAATAATTTT
1 ATAATAAGTAAT-ATAA-AAGTAAATTAAAATAAAACAAATAATAAAATAATTTT
15227410 ATAATATA-TAATATAAAAGTAAAATTAAAATAAAACAAATAATAAAATA
1 ATAATA-AGTAATATAAAAGT-AAATTAAAATAAAACAAATAATAAAATA
15227459 TATATATAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
52 3 0.07
53 4 0.10
54 34 0.81
55 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (53 bp):
ATAATAAGTAATATAAAAGTAAATTAAAATAAAACAAATAATAAAATAATTTT
Found at i:15229370 original size:119 final size:119
Alignment explanation
Indices: 15229009--15229599 Score: 947
Period size: 119 Copynumber: 5.0 Consensus size: 119
15228999 CTTGAGTTTG
* * * *
15229009 TTTGAGAACATTTGAGAGTCATATCTG-TAATGTCCTCGATTTGTTCCTTGTAGACACAAGAATA
1 TTTGAGAACGTCTGAGAGTCAAATCTGCT-ATGTCCTCGATTTGTTCCTTGTAAACACAAGAATA
*
15229073 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * *
15229128 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTTCTTGTAAACACCAG-ATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
15229192 CAAATCATCTTGGATCTGCTTTAGTATAAATATCTGAAGGTTAGATCT-CTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGC-TATA
*
15229246 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
15229311 CAAATCATTTTGGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
15229365 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
15229430 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * *
15229484 TTTGACAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACTCAATAAAAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
15229549 CAAATCATCTTGGATCTGCTTCAGCATAAATATCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
15229600 GTCTTCAATT
Statistics
Matches: 440, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
117 1 0.00
118 112 0.25
119 325 0.74
120 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:15237565 original size:19 final size:19
Alignment explanation
Indices: 15237541--15237579 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15237531 TATAACCTTA
*
15237541 AATGCATATGATATG-ATGT
1 AATGCAAATG-TATGAATGT
15237560 AATGCAAATGTATGAATGT
1 AATGCAAATGTATGAATGT
15237579 A
1 A
15237580 GCAAAGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (19 bp):
AATGCAAATGTATGAATGT
Found at i:15241565 original size:18 final size:18
Alignment explanation
Indices: 15241531--15241576 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15241521 TGATATACAT
*
15241531 AACATATATAAAAAAATAA
1 AACATA-ATATAAAAATAA
15241550 TAA-ATAATATAAAAATAA
1 -AACATAATATAAAAATAA
15241568 AACATAATA
1 AACATAATA
15241577 AAGATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 17 0.71
19 3 0.12
20 2 0.08
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
AACATAATATAAAAATAA
Found at i:15241585 original size:25 final size:24
Alignment explanation
Indices: 15241541--15241593 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
15241531 AACATATATA
*
15241541 AAAAAATAATAAATAATATAAAAAT
1 AAAAAATAATAAAGAATAT-AAAAT
* * *
15241566 AAAACATAATAAAGATTATATAAT
1 AAAAAATAATAAAGAATATAAAAT
15241590 AAAA
1 AAAA
15241594 TGTAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAAATAATAAAGAATATAAAAT
Found at i:15241746 original size:3 final size:3
Alignment explanation
Indices: 15241740--15241798 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
15241730 ATTTAAGAAA
* *
15241740 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AAAT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT
15241788 AAT AA- AAT AAT
1 AAT AAT AAT AAT
15241799 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 10 0.22
5 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15241753 original size:7 final size:6
Alignment explanation
Indices: 15241740--15241798 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
15241730 ATTTAAGAAA
* *
15241740 AATAAT ACATAAT AAGTAAT AATAAT ATATAAAT AA-AAT AATACT TATAAT
1 AATAAT A-ATAAT AA-TAAT AATAAT A-AT-AAT AATAAT AATAAT AATAAT
15241791 AA-AAT AAT
1 AATAAT AAT
15241799 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 10 0.23
6 14 0.33
7 15 0.35
8 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (6 bp):
AATAAT
Found at i:15241766 original size:36 final size:34
Alignment explanation
Indices: 15241720--15241826 Score: 109
Period size: 36 Copynumber: 3.2 Consensus size: 34
15241710 TAAAAGAGAT
15241720 GTAAAATAATATTTAAGA-AAAATAATACATAATAA
1 GTAAAATAATATTTAA-ATAAAATAATAC-TAATAA
* *
15241755 GTAATAATAATATATAAATAAAATAATACTTATAA
1 GTAA-AATAATATTTAAATAAAATAATACTAATAA
*
15241790 -TAAAATAAT-TTTATAAT-ATATAATA-TAA-AA
1 GTAAAATAATATTTA-AATAAAATAATACTAATAA
15241820 GTAAAAT
1 GTAAAAT
15241827 TAAAATAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 10 0.16
33 9 0.14
34 3 0.05
35 10 0.16
36 21 0.33
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (34 bp):
GTAAAATAATATTTAAATAAAATAATACTAATAA
Found at i:15241805 original size:16 final size:17
Alignment explanation
Indices: 15241721--15241807 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 17
15241711 AAAAGAGATG
15241721 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
*
15241736 GAAAAATAATAC--ATAA
1 -TAAAATAATACTTATAA
*
15241752 TAAGTAATAATAATATATAAA
1 TAA--AATAATACT-TAT-AA
15241773 TAAAATAATACTTATAA
1 TAAAATAATACTTATAA
*
15241790 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
15241806 TA
1 TA
15241808 TATAATATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
15 2 0.03
16 20 0.34
17 18 0.31
18 3 0.05
19 8 0.14
20 2 0.03
21 5 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:15253366 original size:43 final size:43
Alignment explanation
Indices: 15253305--15253398 Score: 188
Period size: 43 Copynumber: 2.2 Consensus size: 43
15253295 GCCTGGACAT
15253305 GGGCGTGTCTGATGGTCGTGTGAGCCACACGGGTTATACACAC
1 GGGCGTGTCTGATGGTCGTGTGAGCCACACGGGTTATACACAC
15253348 GGGCGTGTCTGATGGTCGTGTGAGCCACACGGGTTATACACAC
1 GGGCGTGTCTGATGGTCGTGTGAGCCACACGGGTTATACACAC
15253391 GGGCGTGT
1 GGGCGTGT
15253399 GGTCTGGCCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.17, C:0.22, G:0.37, T:0.23
Consensus pattern (43 bp):
GGGCGTGTCTGATGGTCGTGTGAGCCACACGGGTTATACACAC
Found at i:15264336 original size:24 final size:24
Alignment explanation
Indices: 15264309--15264356 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15264299 CGCAAGGGTT
15264309 TTTGGACATTAATTTTCACCCTAA
1 TTTGGACATTAATTTTCACCCTAA
15264333 TTTGGACATTAATTTTCACCCTAA
1 TTTGGACATTAATTTTCACCCTAA
15264357 CCCTAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (24 bp):
TTTGGACATTAATTTTCACCCTAA
Found at i:15269074 original size:122 final size:120
Alignment explanation
Indices: 15268859--15269080 Score: 338
Period size: 122 Copynumber: 1.8 Consensus size: 120
15268849 AATAACAATA
* * * *
15268859 AGAATGAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGGAATGTATG
1 AGAATAAGAATAGTAATGTAATGGGTATGAGGGTTTCCTAATCTCGATTTAACACGAAATATATG
15268924 ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATG
66 ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATG
* * * *
15268979 AGAATAAGCATAGTAATGTCATGGGTATG-GGGTTTCCTTAATAACTTGATTTAACATGAAATAT
1 AGAATAAGAATAGTAATGTAATGGGTATGAGGGTTTCC-TAAT--CTCGATTTAACACGAAATAT
15269043 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGAC
63 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGAC
15269081 TAGTAAGCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 7 0.08
120 30 0.33
122 54 0.59
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.30
Consensus pattern (120 bp):
AGAATAAGAATAGTAATGTAATGGGTATGAGGGTTTCCTAATCTCGATTTAACACGAAATATATG
ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATG
Found at i:15277835 original size:27 final size:27
Alignment explanation
Indices: 15277797--15277853 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
15277787 GAAGAGGAAA
15277797 TTCCTAATAGCATGCCTTTCAATGATG
1 TTCCTAATAGCATGCCTTTCAATGATG
*
15277824 TTCCTAATAGCATGTCTTTCAATGATG
1 TTCCTAATAGCATGCCTTTCAATGATG
15277851 TTC
1 TTC
15277854 TTAGTAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (27 bp):
TTCCTAATAGCATGCCTTTCAATGATG
Found at i:15278524 original size:17 final size:18
Alignment explanation
Indices: 15278504--15278543 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
15278494 TCATTTGTAC
15278504 TATTTAAACATTC-AAAT
1 TATTTAAACATTCAAAAT
15278521 TATTTAAACATTCAAAAT
1 TATTTAAACATTCAAAAT
15278539 TATTT
1 TATTT
15278544 TCCAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAAACATTCAAAAT
Found at i:15278959 original size:33 final size:33
Alignment explanation
Indices: 15278891--15279001 Score: 132
Period size: 33 Copynumber: 3.3 Consensus size: 33
15278881 TAAAAAAAAA
* *
15278891 TAAGGTTTAGAGTTTTAGTAAAAAAGTAATTAAAT
1 TAAGGTTTAGAGTTTTA--AATAAATTAATTAAAT
* *
15278926 TAAGTTTTAGGGTTTTAAATAAATTAATTAAAT
1 TAAGGTTTAGAGTTTTAAATAAATTAATTAAAT
* *
15278959 TATGGTTTAGAGTTTTTAATAAAATTAATTAAAT
1 TAAGGTTTAGAGTTTTAAAT-AAATTAATTAAAT
*
15278993 TCAGGTTTA
1 TAAGGTTTA
15279002 TTTAAAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 30 0.46
34 20 0.31
35 15 0.23
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.43
Consensus pattern (33 bp):
TAAGGTTTAGAGTTTTAAATAAATTAATTAAAT
Found at i:15279328 original size:125 final size:125
Alignment explanation
Indices: 15279105--15279500 Score: 544
Period size: 126 Copynumber: 3.2 Consensus size: 125
15279095 TTTTGTTTTT
* * * *
15279105 TTTTTCTACAGTAGTTTC-AGAAAAATTAATTTTGAGAAGATGGTTCTAAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTA-AAAAAATAATTTTGAGAAGACGGTTCTAAAAA-ATAGTGTCAAA
** * *
15279169 AATATTTCAAGCAGGATGTACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACACTC
64 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * *
15279230 CTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGGCGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAA
* * * * * *
15279295 ATGCTTCAAGCAAGATGCGCTGTCAGGAAAATTACTGAAAAAAGCTCCCATGTGGACGCTT
65 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
*
15279356 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAA
* * *
15279421 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAACTCTCACGTGGACGCTC
65 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
*
15279482 TTTTTATACAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
15279501 GCTTGGCCTT
Statistics
Matches: 237, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
125 81 0.34
126 156 0.66
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
Found at i:15283729 original size:24 final size:24
Alignment explanation
Indices: 15283702--15283752 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15283692 GCTGTTATAA
* *
15283702 AAAATTATA-AAATAAAAATTAATT
1 AAAATTACATAAATAAAAAAT-ATT
15283726 AAAATTACATAAATAAAAAATATT
1 AAAATTACATAAATAAAAAATATT
15283750 AAA
1 AAA
15283753 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACATAAATAAAAAATATT
Found at i:15283729 original size:25 final size:25
Alignment explanation
Indices: 15283701--15283752 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
15283691 AGCTGTTATA
* *
15283701 AAAAATTATA-AAATAAAAATTAATT
1 AAAAATTACATAAATAAAAAAT-ATT
15283726 -AAAATTACATAAATAAAAAATATT
1 AAAAATTACATAAATAAAAAATATT
15283750 AAA
1 AAA
15283753 TAATATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATTACATAAATAAAAAATATT
Found at i:15285798 original size:48 final size:45
Alignment explanation
Indices: 15285734--15285856 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 45
15285724 AGTGATAATT
*
15285734 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGTAAATT-TAA
1 TTAAA-TTTCAATACTATTCGAT-TTTT-TTAATTTATG-AAATTACAA
* * *
15285782 TTAAATTTGCAATACTATTTGATTTTTTTCATTTATGCAATTACAA
1 TTAAATTT-CAATACTATTCGATTTTTTTAATTTATGAAATTACAA
*
15285828 TTAAAATTTCAATACTGCTT-GATTTTTTT
1 TT-AAATTTCAATACT-ATTCGATTTTTTT
15285857 TTCATTTATG
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
45 4 0.06
46 29 0.44
47 15 0.23
48 18 0.27
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (45 bp):
TTAAATTTCAATACTATTCGATTTTTTTAATTTATGAAATTACAA
Found at i:15285830 original size:46 final size:45
Alignment explanation
Indices: 15285734--15285866 Score: 133
Period size: 48 Copynumber: 2.8 Consensus size: 45
15285724 AGTGATAATT
* * *
15285734 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGTAAATTTAA
1 TTAAA-TTTCAATACTATTTGAT-TTTT-TTCATTTATGTAAATTCAA
*
15285782 TTAAATTTGCAATACTATTTGATTTTTTTCATTTATG-CAATTACAA
1 TTAAATTT-CAATACTATTTGATTTTTTTCATTTATGTAAATT-CAA
**
15285828 TTAAAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TT-AAATTTCAATACTATTTGA--TTTTTTTCATTTATG
15285867 ATGTTTGCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
45 4 0.05
46 24 0.32
47 13 0.18
48 33 0.45
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.53
Consensus pattern (45 bp):
TTAAATTTCAATACTATTTGATTTTTTTCATTTATGTAAATTCAA
Found at i:15291170 original size:7 final size:7
Alignment explanation
Indices: 15291158--15291196 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
15291148 TTTCAGAACT
15291158 TTTAGGG
1 TTTAGGG
15291165 TTTAGGG
1 TTTAGGG
*
15291172 TTTAAGG
1 TTTAGGG
*
15291179 TTTAGGA
1 TTTAGGG
*
15291186 TTTAGAG
1 TTTAGGG
15291193 TTTA
1 TTTA
15291197 ACGCGAGACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:15291184 original size:21 final size:21
Alignment explanation
Indices: 15291158--15291197 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15291148 TTTCAGAACT
* *
15291158 TTTAGGGTTTAGGGTTTAAGG
1 TTTAGGATTTAGAGTTTAAGG
15291179 TTTAGGATTTAGAGTTTAA
1 TTTAGGATTTAGAGTTTAA
15291198 CGCGAGACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAGGATTTAGAGTTTAAGG
Found at i:15291656 original size:125 final size:126
Alignment explanation
Indices: 15291206--15291659 Score: 644
Period size: 126 Copynumber: 3.6 Consensus size: 126
15291196 AACGCGAGAC
15291206 CTTTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
1 CTTTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
* * *
15291271 AACGTCGACTCAGGCTCATTTTTCTGTGAACTACTGTAGCAAAAGAGAGTCCACGTGGAAG
66 AACATCGACTCAGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
*
15291332 CTTTTTTCAGAACTTTTGCTGACAATGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
1 CTTTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
* *
15291397 AACGTCGACTCAGGCTCATTTTTCTGCGAACTACT-TCAGCAAAAGAGCATCCACGTGGAAG
66 AACATCGACTCAGGCTCATTTTTCTGCGAACTACTGT-AGCAAAAGAGCGTCCACGTGGAAG
* * * * *
15291458 CTTTTTTCACAACTTTTGTTGACAGTGCATCTTGCTTGAAGCGTTTTTGACACTATCTGTTCAGA
1 CTTTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
* ** * * *
15291523 AACATCTACTCAGATTTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAG
66 AACATCGACTCAGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
* * ** * *
15291584 -TTTTTTCCAGAAATTTT-CTGACACTGCATCCTATTTGAAGCATTTTCAACACTATTTGTTCAG
1 CTTTTTT-CAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAG
* *
15291647 AAATATCTACTCA
65 AAACATCGACTCA
15291660 AAATTATTCT
Statistics
Matches: 295, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
125 56 0.19
126 238 0.81
127 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (126 bp):
CTTTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGA
AACATCGACTCAGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
Found at i:15292229 original size:19 final size:19
Alignment explanation
Indices: 15292207--15292256 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 19
15292197 ACGATTATGT
15292207 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
15292226 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
15292242 ATCAATTAACCCTAA
1 ATCAATTAACCCTAA
15292257 ACCCTTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 15 0.54
17 1 0.04
18 1 0.04
19 11 0.39
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:15292379 original size:31 final size:30
Alignment explanation
Indices: 15292344--15292419 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 30
15292334 AAACCCTAAA
15292344 AACCCTAAAACCTTAAAACATAAAAAACCCT
1 AACCCTAAAACCTTAAAACA-AAAAAACCCT
*
15292375 AACCCT-AAA--TT-ATA-AAAAAAACCCT
1 AACCCTAAAACCTTAAAACAAAAAAACCCT
*
15292400 AACCCTAAAAACCCTAAAAC
1 AACCCT-AAAACCTTAAAAC
15292420 CCTAACGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
25 16 0.44
26 1 0.03
27 5 0.14
28 2 0.06
29 1 0.03
30 5 0.14
31 6 0.17
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (30 bp):
AACCCTAAAACCTTAAAACAAAAAAACCCT
Found at i:15292418 original size:25 final size:24
Alignment explanation
Indices: 15292334--15292433 Score: 71
Period size: 25 Copynumber: 4.2 Consensus size: 24
15292324 ATTTTTTTAT
* * *
15292334 AAACCCTAAAAACCCTAAAACCTTA
1 AAACCATAAAAACCCT-AACCCTAA
15292359 AAA-CATAAAAAACCCTAACCCTAA
1 AAACCAT-AAAAACCCTAACCCTAA
* ** *
15292383 ATTATAAAAAAAACCCTAACCCTAA
1 A-AACCATAAAAACCCTAACCCTAA
* *
15292408 AAACCCT-AAAACCCTAA-CGTAA
1 AAACCATAAAAACCCTAACCCTAA
15292430 AAAC
1 AAAC
15292434 GGGCAAAACA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
22 8 0.13
23 10 0.17
24 10 0.17
25 31 0.52
26 1 0.02
ACGTcount: A:0.55, C:0.29, G:0.01, T:0.15
Consensus pattern (24 bp):
AAACCATAAAAACCCTAACCCTAA
Found at i:15295663 original size:18 final size:18
Alignment explanation
Indices: 15295621--15295680 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
15295611 TCTTTTTCAA
*
15295621 ATATAAAATTTAAAAAATT
1 ATATAAAATAT-AAAAATT
*
15295640 GT-TAAAATATAAAAATT
1 ATATAAAATATAAAAATT
* *
15295657 ATATAAAAGATAAAGAAAT
1 ATATAAAATATAAA-AATT
15295676 ATATA
1 ATATA
15295681 TACATAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.24
18 17 0.50
19 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATAAAATATAAAAATT
Found at i:15295761 original size:9 final size:10
Alignment explanation
Indices: 15295738--15295770 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15295728 AGAAATTTTA
15295738 AAAAATATAT
1 AAAAATATAT
15295748 AAAAATA-AT
1 AAAAATATAT
15295757 GAAAAATATAT
1 -AAAAATATAT
15295768 AAA
1 AAA
15295771 TAATCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
AAAAATATAT
Found at i:15295771 original size:18 final size:19
Alignment explanation
Indices: 15295738--15295774 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
15295728 AGAAATTTTA
15295738 AAAAATATATAAAAATAATG
1 AAAAATATAT-AAAATAATG
15295758 AAAAATATAT-AAATAAT
1 AAAAATATATAAAATAAT
15295775 CTAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAATATATAAAATAATG
Found at i:15295796 original size:19 final size:19
Alignment explanation
Indices: 15295760--15295812 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 19
15295750 AAATAATGAA
*
15295760 AAATATATAAAT-AA-TCT
1 AAATATATATATAAACTCT
15295777 AAATATATATATAAACTCT
1 AAATATATATATAAACTCT
*
15295796 AAAAATTATATATAAAC
1 AAATA-TATATATAAAC
15295813 ATTGAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 11 0.35
18 2 0.06
19 7 0.23
20 11 0.35
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATATATATAAACTCT
Found at i:15297614 original size:40 final size:40
Alignment explanation
Indices: 15297561--15297694 Score: 100
Period size: 37 Copynumber: 3.4 Consensus size: 40
15297551 CTAGTTTGGT
*
15297561 ACCCAGTACCTCATCGGATAATTCGAAGTAATAAGTTGAC
1 ACCCAGTGCCTCATCGGATAATTCGAAGTAATAAGTTGAC
* * * * *
15297601 ACCCAGTGTCTCATTGGCT-ATACCG-A--AATAAGTTGGC
1 ACCCAGTGCCTCATCGGATAAT-TCGAAGTAATAAGTTGAC
* **
15297638 ACCCAATGCCTCATCAAATTAA-TCTGAAGTAAT-AGATTGAC
1 ACCCAGTGCCTCATCGGA-TAATTC-GAAGTAATAAG-TTGAC
*
15297679 ACCCAGTGTCTCATCG
1 ACCCAGTGCCTCATCG
15297695 ACTCGAAGTC
Statistics
Matches: 69, Mismatches: 17, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
37 23 0.33
38 2 0.03
39 5 0.07
40 19 0.28
41 20 0.29
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
ACCCAGTGCCTCATCGGATAATTCGAAGTAATAAGTTGAC
Found at i:15299598 original size:16 final size:17
Alignment explanation
Indices: 15299558--15299595 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
15299548 TGATTTTCCA
15299558 TATAATTTTTTATATTT
1 TATAATTTTTTATATTT
15299575 TATAATTTTTT-TATGTT
1 TATAATTTTTTATAT-TT
15299592 TATA
1 TATA
15299596 TTTGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TATAATTTTTTATATTT
Found at i:15301284 original size:26 final size:26
Alignment explanation
Indices: 15301236--15301285 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
15301226 TAATACGGCG
* *
15301236 TTAAAAATACATACATCATATAGTTA
1 TTAAAAATACATACATAAGATAGTTA
* *
15301262 TTAAAAATATATATATAAGATAGT
1 TTAAAAATACATACATAAGATAGT
15301286 ACAAAAACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (26 bp):
TTAAAAATACATACATAAGATAGTTA
Found at i:15301446 original size:24 final size:24
Alignment explanation
Indices: 15301388--15301446 Score: 57
Period size: 26 Copynumber: 2.3 Consensus size: 24
15301378 AAAAGGATAG
*
15301388 ATATATAATATAGTATGAAAAATAT
1 ATATATAAGATAG-ATGAAAAATAT
*
15301413 ATGTACATAAGATA-ATGTAAAAATAT
1 A--TATATAAGATAGATG-AAAAATAT
15301439 ATATATAA
1 ATATATAA
15301447 CTAATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
26 9 0.32
27 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (24 bp):
ATATATAAGATAGATGAAAAATAT
Found at i:15301666 original size:24 final size:26
Alignment explanation
Indices: 15301637--15301699 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
15301627 ATATACGAAG
*
15301637 CAATTTAAAGTAGA-TAATATA-AA-A
1 CAATTTAAAATA-ATTAATATATAACA
15301661 CAATTTAAAATAATTAATATATAACA
1 CAATTTAAAATAATTAATATATAACA
*
15301687 TAATTTAAAATAA
1 CAATTTAAAATAA
15301700 AATAAAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (26 bp):
CAATTTAAAATAATTAATATATAACA
Found at i:15301961 original size:29 final size:28
Alignment explanation
Indices: 15301929--15302025 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 28
15301919 AAAAATTTTA
*
15301929 AAATAACAGTATGT-AAAGATTTAAGAAAT
1 AAATAA-AGTATATGAAAGATTTAA-AAAT
*
15301958 AAATAATGTATATGAAAGATTTAAAAAT
1 AAATAAAGTATATGAAAGATTTAAAAAT
* * *
15301986 GACAGTAAA-TATAT-AAAAATTT-AAAAC
1 -A-AATAAAGTATATGAAAGATTTAAAAAT
*
15302013 AAATAATGTATAT
1 AAATAAAGTATAT
15302026 ATGTATAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
25 4 0.07
26 6 0.11
27 4 0.07
28 16 0.29
29 22 0.39
30 4 0.07
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (28 bp):
AAATAAAGTATATGAAAGATTTAAAAAT
Found at i:15303927 original size:13 final size:13
Alignment explanation
Indices: 15303896--15303929 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
15303886 TAATTTTTGA
*
15303896 TAAAAACAGAATT
1 TAAAAATAGAATT
15303909 TGAAAAATAGAATT
1 T-AAAAATAGAATT
15303923 TAAAAAT
1 TAAAAAT
15303930 TCCTCAGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (13 bp):
TAAAAATAGAATT
Found at i:15304031 original size:88 final size:89
Alignment explanation
Indices: 15303857--15304050 Score: 259
Period size: 88 Copynumber: 2.2 Consensus size: 89
15303847 ATATGACCCT
* * * *
15303857 AGGCTTAACTCACCTCTCGCAATATGAGTTAATTTTTGATAAAAACAGAATTTGAAAAATAGAAT
1 AGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTG--AAAAACAGAATTTGAAAAACAGAAA
*
15303922 TTAAAAATTCCTCAGCATGTGA-CTCG
64 TTAAAAATACCTCAGCATGTGAGC-CG
* *
15303948 AGGCTCAACTCACTTCTCACAATATGAGTTAATTTTTG-AAAACATGAA-TTGAAGAACAGAAAT
1 AGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGAAAAACA-GAATTTGAAAAACAGAAAT
15304011 TAAAAATACCTCAGCATGTGAGCCG
65 TAAAAATACCTCAGCATGTGAGCCG
*
15304036 AGACTCAACTCACCT
1 AGGCTCAACTCACCT
15304051 GATTTTTTTA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
88 53 0.58
89 4 0.04
91 35 0.38
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGAAAAACAGAATTTGAAAAACAGAAATT
AAAAATACCTCAGCATGTGAGCCG
Found at i:15304144 original size:148 final size:150
Alignment explanation
Indices: 15303925--15304815 Score: 596
Period size: 161 Copynumber: 5.5 Consensus size: 150
15303915 ATAGAATTTA
* * * *
15303925 AAAATTCCTCAGCATGTGA-CTCGAGGCTCAACTCACTTCTCACAATATGAGTTAATTTTTGAAA
1 AAAATACCTCAGCA--TGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
15303989 ACATGAATTGAAGAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGACTCAACTCACCTG-A
63 ACATGAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGACTCAACTCACCTGAA
15304053 TT-TTTTTATGAAACATAAATTG
128 TTATTTTTATGAAACATAAATTG
* *
15304075 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTGAAAATA
1 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
* * *
15304140 TGAATTGAAAAACAAAAATTAAAAATACCTCAGCATGTGAGCCGAGGTTCAACTCACCTCTCGCA
66 TGAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTGAGCCGA-G----ACTCAACTCAC-C-
* *
15304205 ATATGAATTGATTTTTTTGAAACATGAATTG
124 ---TGAATT-ATTTTTATGAAACATAAATTG
15304236 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
1 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
* *
15304301 TGAATTGAAAAACAGAAATTGAAAATACCTCAGCATGT---CCTGAGACTCAACTCACCTCTCAC
66 TGAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTGAGCC-GAGACTCAACTCA-C-CT--G
* *
15304363 AATATGAGTTGATTTTTTAAAAACAGAAATTAAAAACAGAAATTG
126 AAT-T-A--T--TTTTAT-GAAAC----A-T--------AAATTG
* * *
15304408 AAAATACCTC-GACATGAGAGCC-GAGGCTCAACTCACTTCTCACAATATGAGTTGACTTTTAGA
1 AAAATACCTCAG-CAT--GA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-
** * * * * ** *
15304471 AAAACAAAAATT-AAAAATA-AATTTTAAAAATACCTCGGCCTGTGCCCCGAGGCTCAACTCACC
60 AAAACATGAATTGAAAAACAGAA-ATTAAAAATACCTCAGCATGTGAGCCGAGACTCAACTCA-C
* ******
15304534 TCTCGCAATATGAGTTGATTTTTTTCTTTTTTTTTTGAAACATAAATTG
123 -CT-G----A--A-TT-A---TTTT-TATGAAACAT-AA------ATTG
* * *
15304583 AAAATAACTTAGCATGACCTGAGGCTCAACTCACCTCTCGCAAATATGCGTTGATTTTTGAAAAC
1 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGC-AATATGAGTTGATTTTTGAAAAC
* * * *
15304648 ATGAATTGAAAAACAAAAATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCAC
65 ATGAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGACTCAACTCA-----C-C
* *
15304713 AATATGAGTTGATTTTTTTGAAACATAAATTG
124 ----TGAATT-ATTTTTATGAAACATAAATTG
15304745 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
1 AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
15304810 TGAATT
66 TGAATT
15304816 AAAGATACCT
Statistics
Matches: 596, Mismatches: 70, Indels: 139
0.74 0.09 0.17
Matches are distributed among these distances:
148 86 0.14
149 3 0.01
150 13 0.02
151 1 0.00
153 12 0.02
154 12 0.02
155 2 0.00
156 1 0.00
158 11 0.02
159 9 0.02
161 146 0.24
162 43 0.07
163 1 0.00
164 1 0.00
168 2 0.00
169 7 0.01
170 4 0.01
171 1 0.00
172 30 0.05
173 68 0.11
174 48 0.08
175 45 0.08
176 13 0.02
177 19 0.03
178 2 0.00
180 2 0.00
181 4 0.01
182 7 0.01
183 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (150 bp):
AAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
TGAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGACTCAACTCACCTGAATTA
TTTTTATGAAACATAAATTG
Found at i:15304165 original size:86 final size:87
Alignment explanation
Indices: 15304063--15304239 Score: 243
Period size: 88 Copynumber: 2.0 Consensus size: 87
15304053 TTTTTTTATG
* * **
15304063 AAACATAAATTGAAAATACCTCAGCA-TGA-CCTGAGGCTCAACTCACCTCTCGCAATATGCGTT
1 AAACAAAAATTAAAAATACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAATT
*
15304126 GA-TTTTTGAAAATATGAATTGAA
65 GATTTTTTG-AAACATGAATTGAA
*
15304149 AAACAAAAATTAAAAATACCTCAGCATGTGAGCCGAGGTTCAACTCACCTCTCGCAATATGAATT
1 AAACAAAAATTAAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAATT
15304214 GATTTTTTTGAAACATGAATTGAA
65 GA-TTTTTTGAAACATGAATTGAA
15304238 AA
1 AA
15304240 TACCTCAGCA
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
86 24 0.30
88 33 0.41
89 17 0.21
90 6 0.08
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (87 bp):
AAACAAAAATTAAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
ATTTTTTGAAACATGAATTGAA
Found at i:15304237 original size:161 final size:161
Alignment explanation
Indices: 15304054--15304815 Score: 924
Period size: 161 Copynumber: 4.6 Consensus size: 161
15304044 CTCACCTGAT
15304054 TTTTTTATGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTT-TGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAAT
* *
15304119 ATGCGTTGATTTTTGAAAATATGAATTGAAAAACAAAAATTAAAAATACCTCAGCATGTGAGCCG
65 ATGAGTTGATTTTTGAAAACATGAATTGAAAAACAAAAATTAAAAATACCTCAGCATGTGAGCCG
* * *
15304184 AGGTTCAACTCACCTCTCGCAATATGAATTGA
130 AGGCTCAACTCACCTCTCACAATATGAGTTGA
*
15304216 TTTTTTTGAAACATGAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTTTGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATA
* *
15304281 TGAGTTGATTTTTGAAAACATGAATTGAAAAACAGAAATTGAAAATACCTCAGCATGT---CCTG
66 TGAGTTGATTTTTGAAAACATGAATTGAAAAACAAAAATTAAAAATACCTCAGCATGTGAGCC-G
*
15304343 AGACTCAACTCACCTCTCACAATATGAGTTGA
130 AGGCTCAACTCACCTCTCACAATATGAGTTGA
* *
15304375 TTTTTTAAAAACAGAAATTAAAAACAGAAATTGAAAATACCTC-GACATGAGAGCC-GAGGCTCA
1 -TTTTT-----------TT-GAAACATAAATTGAAAATACCTCAG-CAT--GA-CCTGAGGCTCA
* * * ** * **
15304438 ACTCACTTCTCACAATATGAGTTGACTTTTAGAAAAACAAAAATT-AAAAATAAATTTTAAAAAT
49 ACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACATGAATTGAAAAACAAAAATTAAAAAT
* * ** *
15304502 ACCTCGGCCTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
112 ACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
* *
15304552 TTTTTTTCTTTTTTTTTTGAAACATAAATTGAAAATAACTTAGCATGACCTGAGGCTCAACTCAC
1 -----------TTTTTTTGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCAC
* * *
15304617 CTCTCGCAAATATGCGTTGATTTTTGAAAACATGAATTGAAAAACAAAAATTGAAAACACCTCAG
55 CTCTCGC-AATATGAGTTGATTTTTGAAAACATGAATTGAAAAACAAAAATTAAAAATACCTCAG
15304682 CATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
119 CATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
15304725 TTTTTTTGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTTTGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATA
15304790 TGAGTTGATTTTTGAAAACATGAATT
66 TGAGTTGATTTTTGAAAACATGAATT
15304816 AAAGATACCT
Statistics
Matches: 514, Mismatches: 49, Indels: 75
0.81 0.08 0.12
Matches are distributed among these distances:
158 2 0.00
159 29 0.06
160 5 0.01
161 141 0.27
162 65 0.13
171 3 0.01
172 35 0.07
173 85 0.17
174 44 0.09
175 53 0.10
176 13 0.03
177 31 0.06
178 2 0.00
187 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (161 bp):
TTTTTTTGAAACATAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAACATGAATTGAAAAACAAAAATTAAAAATACCTCAGCATGTGAGCCGA
GGCTCAACTCACCTCTCACAATATGAGTTGA
Found at i:15304281 original size:73 final size:73
Alignment explanation
Indices: 15304156--15304311 Score: 228
Period size: 73 Copynumber: 2.1 Consensus size: 73
15304146 GAAAAACAAA
* *
15304156 AATTAAAAATACCTCAGCATGTGAGCCGAGGTTCAACTCACCTCTCGCAATATGAATTGATTTTT
1 AATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA--TTT
15304221 TTG-AAACATG
63 TTGAAAACATG
*
15304231 AATTGAAAATACCTCAGCA-TGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTT
15304294 GAAAACATG
65 GAAAACATG
15304303 AATTGAAAA
1 AATTGAAAA
15304312 ACAGAAATTG
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
71 6 0.08
72 18 0.24
73 34 0.45
75 18 0.24
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (73 bp):
AATTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG
AAAACATG
Found at i:15304397 original size:13 final size:13
Alignment explanation
Indices: 15304379--15304411 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15304369 AGTTGATTTT
15304379 TTAAAAACAGAAA
1 TTAAAAACAGAAA
15304392 TTAAAAACAGAAA
1 TTAAAAACAGAAA
*
15304405 TTGAAAA
1 TTAAAAA
15304412 TACCTCGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (13 bp):
TTAAAAACAGAAA
Found at i:15304507 original size:89 final size:86
Alignment explanation
Indices: 15304231--15304729 Score: 413
Period size: 86 Copynumber: 5.7 Consensus size: 86
15304221 TTGAAACATG
* * *
15304231 AATTGAAAATACCTC-AGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCGA-CATGGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
**
15304295 -AAAACATGAATTGAAAAACAGA
65 AAAAACAAAAATT-AAAAACAGA
* * * *
15304317 AATTGAAAATACCTC-AGCATGTCCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCGA-CATGGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
*
15304381 AAAAACAGAAATTAAAAACAGA
65 AAAAACAAAAATTAAAAACAGA
* *
15304403 AATTGAAAATACCTCGACATGAGAGCCGAGGCTCAACTCACTTCTCACAATATGAGTTGACTTTT
1 AATTGAAAATACCTCGACATG-G-CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTT
* *
15304468 AGAAAAACAAAAATTAAAAATA-A
63 TGAAAAACAAAAATTAAAAACAGA
* * * * *
15304491 ATTTTAAAAATACCTCGGCCTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-ATTGAAAATACCTCGACATG-G-CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
********** ** *
15304556 T--TTCTTTTTTTTTTGAAACATA
63 TGAAAAACAAAAATTAAAAACAGA
* * * * * *
15304578 AATTGAAAATAACT-TAGCATGACCTGAGGCTCAACTCACCTCTCGCAAATATGCGTTGATTTTT
1 AATTGAAAATACCTCGA-CATGGCCCGAGGCTCAACTCACCTCTCAC-AATATGAGTTGATTTTT
** *
15304642 G-AAAACATGAATTGAAAAACAAA
64 GAAAAACAAAAATT-AAAAACAGA
* *
15304665 AATTGAAAACACCTC-AGCATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AATTGAAAATACCTCGA-CATG-G-CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
15304729 T
63 T
15304730 TTGAAACATA
Statistics
Matches: 333, Mismatches: 66, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
84 23 0.07
85 16 0.05
86 110 0.33
87 37 0.11
88 54 0.16
89 93 0.28
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (86 bp):
AATTGAAAATACCTCGACATGGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGA
AAAACAAAAATTAAAAACAGA
Found at i:15304700 original size:262 final size:262
Alignment explanation
Indices: 15304256--15304729 Score: 668
Period size: 262 Copynumber: 1.8 Consensus size: 262
15304246 AGCATGACCT
15304256 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTGAAAAACAGAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTG-AAAACAGAAATT
* *
15304321 GAAAATACCTCAGCATGTCCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAA
65 GAAAATAACTCAGCATGACCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAA
* * *
15304386 CAGAAATTAAAAACAGAAATTGAAAATACCTCGACATGAGAGCCGAGGCTCAACTCACTTCTCAC
130 CAGAAATTAAAAACAAAAATTGAAAACACCTCGACATGAGAGCCGAGGCTCAACTCACCTCTCAC
15304451 AATATGAGTTGACTTTTAGAAAAACAAAAATTAAAAATAAATTTTAAAAATACCTCGGCCTGTGC
195 AATATGAGTTGACTTTTAGAAAAACAAAAATTAAAAATAAATTTTAAAAATACCTCGGCCTGTGC
15304516 CCC
260 CCC
******* *** *
15304519 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCTTTTTTTTTTG-AAACATAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTGAAAACAGAAATTG
* * * * *
15304583 AAAATAACTTAGCATGACCTGAGGCTCAACTCACCTCTCGCAAATATGCGTTGA-TTTTTGAAAA
66 AAAATAACTCAGCATGACCTGAGACTCAACTCACCTCTCAC-AATATGAGTTGATTTTTTAAAAA
*
15304647 CATG-AATTGAAAAACAAAAATTGAAAACACCTC-AGCATGTGAGCCGAGGCTCAACTCACCTCT
130 CA-GAAATT-AAAAACAAAAATTGAAAACACCTCGA-CATGAGAGCCGAGGCTCAACTCACCTCT
*
15304710 CACAATATGAGTTGATTTTT
192 CACAATATGAGTTGACTTTT
15304730 TTGAAACATA
Statistics
Matches: 184, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
261 63 0.34
262 79 0.43
263 42 0.23
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (262 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTGAAAACAGAAATTG
AAAATAACTCAGCATGACCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAAC
AGAAATTAAAAACAAAAATTGAAAACACCTCGACATGAGAGCCGAGGCTCAACTCACCTCTCACA
ATATGAGTTGACTTTTAGAAAAACAAAAATTAAAAATAAATTTTAAAAATACCTCGGCCTGTGCC
CC
Found at i:15304730 original size:89 final size:89
Alignment explanation
Indices: 15304231--15304748 Score: 523
Period size: 89 Copynumber: 5.9 Consensus size: 89
15304221 TTGAAACATG
*
15304231 AATTGAAAATACCTCAGCA--TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
*
15304293 TGAAAACATGAATTGAAAAACAGA
66 TGAAAACATGAATTGAAAAACAAA
*
15304317 AATTGAAAATACCTCAGCATGT--CCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
* *
15304380 TAAAAACA-GAAATT-AAAAACAGA
66 TGAAAACATG-AATTGAAAAACAAA
* * *
15304403 AATTGAAAATACCTC-GACATGAGAGCC-GAGGCTCAACTCACTTCTCACAATATGAGTTGACTT
1 AATTGAAAATACCTCAG-CATGTGA-CCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
* ** *
15304466 TTAGAAAAACAAAAATT-AAAAATAAA
64 TTTG-AAAACATGAATTGAAAAACAAA
** * * * * * *
15304492 TTTTAAAAATACCTCGGCCTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
****** *** *
15304557 T-TCTTTTTTTTTTG--AAACATA
66 TGAAAACATGAATTGAAAAACAAA
* * * *
15304578 AATTGAAAATAACTTAGCA--TGACCTGAGGCTCAACTCACCTCTCGCAAATATGCGTTGA-TTT
1 AATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCAC-AATATGAGTTGATTTT
15304640 TTGAAAACATGAATTGAAAAACAAA
65 TTGAAAACATGAATTGAAAAACAAA
*
15304665 AATTGAAAACACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AATTGAAAATACCTCAGCATGTGA-CCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTT
*
15304729 TTTG-AAACATAAATTGAAAA
64 TTTGAAAACATGAATTGAAAA
15304749 TACCTCAGCA
Statistics
Matches: 350, Mismatches: 60, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
84 30 0.09
85 16 0.05
86 99 0.28
87 39 0.11
88 49 0.14
89 108 0.31
90 9 0.03
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (89 bp):
AATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
TGAAAACATGAATTGAAAAACAAA
Found at i:15304791 original size:73 final size:73
Alignment explanation
Indices: 15304657--15304828 Score: 235
Period size: 73 Copynumber: 2.3 Consensus size: 73
15304647 CATGAATTGA
* *
15304657 AAAACAAAAATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAAACATAAATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGT
15304722 TGATTTTTTTG
65 TGA--TTTTTG
*
15304733 -AAACATAAATTGAAAATACCTCAGCA-TGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACATAAATTGAAAATACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCACAATATGAGT
15304795 TGATTTTTG
65 TGATTTTTG
*
15304804 AAAACATGAATT-AAAGATACCTCAG
1 AAAACATAAATTGAAA-ATACCTCAG
15304829 AGTACCAAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
71 9 0.10
72 21 0.24
73 35 0.39
75 24 0.27
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (73 bp):
AAAACATAAATTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTT
GATTTTTG
Found at i:15307258 original size:46 final size:44
Alignment explanation
Indices: 15307115--15307258 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
15307105 CCCGCCCATA
* * *
15307115 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
15307164 --CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
15307207 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
15307254 AGTGA
1 AGTGA
15307259 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.43
47 26 0.35
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:15309091 original size:14 final size:15
Alignment explanation
Indices: 15309068--15309100 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
15309058 GACCTCTCCA
15309068 TTTTCTTTTCTTTCT
1 TTTTCTTTTCTTTCT
15309083 TTTTC-TTTCTTTCT
1 TTTTCTTTTCTTTCT
15309097 TTTT
1 TTTT
15309101 TTGCTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTCTTTCT
Found at i:15314311 original size:24 final size:26
Alignment explanation
Indices: 15314282--15314344 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
15314272 ATATACGAAG
*
15314282 CAATTTAAAGTAGA-TAATATA-AA-A
1 CAATTTAAAATA-ATTAATATATAACA
15314306 CAATTTAAAATAATTAATATATAACA
1 CAATTTAAAATAATTAATATATAACA
*
15314332 TAATTTAAAATAA
1 CAATTTAAAATAA
15314345 AATAAAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (26 bp):
CAATTTAAAATAATTAATATATAACA
Found at i:15314606 original size:29 final size:28
Alignment explanation
Indices: 15314574--15314670 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 28
15314564 AAGAATTTTA
*
15314574 AAATAACAGTATGT-AAAGATTTAAGAAAT
1 AAATAA-AGTATATGAAAGATTTAA-AAAT
*
15314603 AAATAATGTATATGAAAGATTTAAAAAT
1 AAATAAAGTATATGAAAGATTTAAAAAT
* * *
15314631 GACAGTAAA-TATAT-AAAAATTT-AAAAC
1 -A-AATAAAGTATATGAAAGATTTAAAAAT
*
15314658 AAATAATGTATAT
1 AAATAAAGTATAT
15314671 ATGTATAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
25 4 0.07
26 6 0.11
27 4 0.07
28 16 0.29
29 22 0.39
30 4 0.07
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (28 bp):
AAATAAAGTATATGAAAGATTTAAAAAT
Found at i:15315681 original size:27 final size:28
Alignment explanation
Indices: 15315633--15315704 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 28
15315623 TAAAATAGGA
* *
15315633 AAAATAATATATTTGGTAATAATAATAT
1 AAAATAATATATATGGTAATAAAAATAT
*
15315661 AAAATAATA-ATAT-GTACATAAAAATAC
1 AAAATAATATATATGGTA-ATAAAAATAT
*
15315688 ATATATATATATATATG
1 A-AAATA-ATATATATG
15315705 CATATAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
26 3 0.09
27 12 0.34
28 13 0.37
29 3 0.09
30 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAATAATATATATGGTAATAAAAATAT
Found at i:15316605 original size:37 final size:36
Alignment explanation
Indices: 15316499--15316605 Score: 121
Period size: 35 Copynumber: 3.0 Consensus size: 36
15316489 GGTGGCTAGG
*
15316499 TTTTT-TTATTTTTTTTTTTTT-GGTTAGGTTTTTCT
1 TTTTTCTTTTTTTTTTTTTTTTGGGTTAGGTTTTT-T
* ****
15316534 TTTTTCTTCTTTTTTTTTGGGGGGGTTAGG-TTTTT
1 TTTTTCTTTTTTTTTTTTTTTTGGGTTAGGTTTTTT
*
15316569 CTTTTCTTTTTTTTTTTTTTTTGGGTTAGGTTTTTT
1 TTTTTCTTTTTTTTTTTTTTTTGGGTTAGGTTTTTT
15316605 T
1 T
15316606 GGGGGGCTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
35 30 0.53
36 20 0.35
37 7 0.12
ACGTcount: A:0.04, C:0.05, G:0.17, T:0.75
Consensus pattern (36 bp):
TTTTTCTTTTTTTTTTTTTTTTGGGTTAGGTTTTTT
Found at i:15317766 original size:26 final size:26
Alignment explanation
Indices: 15317730--15317839 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
15317720 TGGTACAAAT
15317730 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
15317756 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* * *
15317782 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
15317808 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
15317834 TGATAA
1 TGATAA
15317840 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 75 0.96
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:15319350 original size:26 final size:26
Alignment explanation
Indices: 15319321--15319373 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15319311 TTTACAGTTT
*
15319321 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
15319347 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
15319373 T
1 T
15319374 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:15324099 original size:9 final size:9
Alignment explanation
Indices: 15324074--15324104 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15324064 AAACTGTGAA
15324074 AAATAAAAT
1 AAATAAAAT
15324083 AGAATAAAAT
1 A-AATAAAAT
15324093 AAATAAAAT
1 AAATAAAAT
15324102 AAA
1 AAA
15324105 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:15328547 original size:9 final size:9
Alignment explanation
Indices: 15328522--15328552 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15328512 AATTTGTGAA
15328522 AAATAAAAT
1 AAATAAAAT
15328531 AGAATAAAAT
1 A-AATAAAAT
15328541 AAATAAAAT
1 AAATAAAAT
15328550 AAA
1 AAA
15328553 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:15330070 original size:25 final size:25
Alignment explanation
Indices: 15330036--15330096 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
15330026 ATAATTTACA
* *
15330036 ACAATAATATAAAATA-ATGATATGT
1 ACAAAAATATAAAATATA-CATATGT
*
15330061 ACAAAAATAT-ATATATACATATGT
1 ACAAAAATATAAAATATACATATGT
15330085 ACATAAAATATA
1 ACA-AAAATATA
15330097 CACTAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (25 bp):
ACAAAAATATAAAATATACATATGT
Found at i:15330231 original size:33 final size:33
Alignment explanation
Indices: 15330169--15330231 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
15330159 ACACAATATG
* * *
15330169 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
15330202 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
15330232 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:15330714 original size:12 final size:12
Alignment explanation
Indices: 15330697--15330726 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15330687 GGTGGTAGAC
15330697 AATGGGAGGAAA
1 AATGGGAGGAAA
15330709 AATGGGAGGAAA
1 AATGGGAGGAAA
15330721 AATGGG
1 AATGGG
15330727 GCAAGTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.10
Consensus pattern (12 bp):
AATGGGAGGAAA
Found at i:15330813 original size:34 final size:34
Alignment explanation
Indices: 15330764--15330855 Score: 141
Period size: 34 Copynumber: 2.7 Consensus size: 34
15330754 GGTTTTTTAG
*
15330764 TTTTTTTTTT-TGTTAGGTTTTTCTTTTTTCTTC
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTC
15330797 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTC
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTC
*
15330831 TTTTTTTTTGGGGGGTTAGGTTTTT
1 TTTTTTTTT--TGGGTTAGGTTTTT
15330856 TTTGGGAGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
33 10 0.19
34 31 0.57
36 13 0.24
ACGTcount: A:0.03, C:0.07, G:0.17, T:0.73
Consensus pattern (34 bp):
TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTC
Found at i:15331607 original size:88 final size:85
Alignment explanation
Indices: 15331491--15332101 Score: 345
Period size: 88 Copynumber: 7.1 Consensus size: 85
15331481 GACTCTCTAA
* *
15331491 AAACAGACATTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCT
1 AAACAGA-ATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCT
15331556 CGCAATATGAGTTGATTTTTTG
64 CGCAATATGAGTTGATTTTTTG
** * * * * * *
15331578 AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGGTTCAACTCACCT
1 AAACAGAA-TT-AAAAACAGATATTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCT
15331642 CTCGCAATATGAGTTGA-TTTTTG
62 CTCGCAATATGAGTTGATTTTTTG
** * * * ** *** *
15331665 AAAAACAGAAATTAAAAGACTCA-ACT-CAACT--CTCGCA-GAAATTAAAAAGCTCAACTCACC
1 --AAACAG-AATTAAAA-ACAGATATTGAAAATACCTCGCACGTGA-GCCAAGGCTCAACTCACC
15331725 TCTCGCAATATGAGTTGAATTTTTTTG
61 TCTCGCAATATGAGTTG-A-TTTTTTG
* * *
15331752 -AA-A-AA--AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTC
1 AAACAGAATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTC
15331812 GCAATATGAGTTGA-TTTTTG
65 GCAATATGAGTTGATTTTTTG
* * * * *
15331832 AAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACAT
1 -AAACAGAAT-T-AAAAACAGATATTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCT
*
15331897 CTCGCAATGTGAGTTGATTTTTTTG
62 CTCGCAATATGAGTTGA-TTTTTTG
* ** *** * *
15331922 -AA-A-AA-TATAAATTGA-A---AAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCT
1 AAACAGAATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCT
15331978 CGCAATATGAGTTGATTTTTTTTTG
64 CGCAATATGAGTTGA---TTTTTTG
* * * * *
15332003 AAAGGCAGAAATTGAAAAACGGAAATT-AAAATACCTCG-GCGTTTGA-CCTGAGGCTCAACTCG
1 AAA--CAG-AATT-AAAAACAGATATTGAAAATACCTCGCACG--TGAGCC-AAGGCTCAACTCA
* *
15332065 CCTCTCACAATACGAGTTGATTTTTTTG
59 CCTCTCGCAATATGAGTTGA-TTTTTTG
15332093 ACAACAGAA
1 A-AACAGAA
15332102 ATTGAAATTA
Statistics
Matches: 408, Mismatches: 66, Indels: 99
0.71 0.12 0.17
Matches are distributed among these distances:
78 3 0.01
79 50 0.12
80 11 0.03
81 10 0.02
82 8 0.02
83 43 0.11
84 38 0.09
85 6 0.01
86 3 0.01
87 28 0.07
88 126 0.31
89 17 0.04
90 20 0.05
91 5 0.01
92 40 0.10
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (85 bp):
AAACAGAATTAAAAACAGATATTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTG
Found at i:15331706 original size:30 final size:30
Alignment explanation
Indices: 15331670--15331731 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15331660 TTTTGAAAAA
15331670 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
15331700 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
15331730 CA
1 CA
15331732 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:15331972 original size:79 final size:77
Alignment explanation
Indices: 15331843--15332020 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 77
15331833 AAACAGAATC
** * * * *
15331843 TGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAATGT
1 TGAAAAACAGAAATTGAAAATACCTCAG-CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
15331907 GAGTTGATTTTTT
65 GAGTTGATTTTTT
* * * * *
15331920 TGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATA
1 TGAAAAACAGAAATTG--AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
15331985 TGAGTTGATTTTTTTT
64 TGAGTTGA--TTTTTT
**
15332001 TGAAAGGCAGAAATTGAAAA
1 TGAAAAACAGAAATTGAAAA
15332021 ACGGAAATTA
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
77 12 0.15
79 50 0.62
80 1 0.01
81 18 0.22
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTT
Found at i:15332003 original size:171 final size:166
Alignment explanation
Indices: 15331713--15332315 Score: 470
Period size: 171 Copynumber: 3.7 Consensus size: 166
15331703 AAATTAAAAA
* * * *
15331713 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAACAGAAATTGAAAATAG
1 GCTCAACTCACATCTCACAATACGAGTTG-ATTTTTTTG------AAAACAGAAATTGAAAATAC
* *
15331778 CTCAGCACGTGAGCC--AAGGCTCAACTCACTTCTCGCAATATGAGTTGA----TTTTTGAAA-A
59 CTCAG--CGTG-TCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGA
**
15331836 CAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAG
120 CAGAAAT-TGAAAAACAGAAATT-AAAATACCTCGACATGTGACCCGAG
* ** * *
15331884 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACATCTCACAATACGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCA
* * *
15331949 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAA
63 GCGTGT--CCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAA
* * * * *
15332014 TTGAAAAACGGAAATTAAAATACCTCGGCGTTTGACCTGAG
126 TTGAAAAACAGAAATTAAAATACCTCGACATGTGACCCGAG
* * * *
15332055 GCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
* *
15332120 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAAACAGAAATT---
66 TGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAA
**
15332179 -----G-----AAAATACCTC-AGCATGT--CTTGAG
131 AAACAGAAATTAAAATACCTCGA-CATGTGACCCGAG
** *
15332203 GCTCAACTCATTTCTCACAATATGAGTTGAATTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACATCTCACAATACGAGTTG-A-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
* * *
15332268 GCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
63 GC--GTG-TCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
15332316 GAAAAAGTAG
Statistics
Matches: 367, Mismatches: 43, Indels: 59
0.78 0.09 0.13
Matches are distributed among these distances:
148 30 0.08
149 1 0.00
150 23 0.06
151 22 0.06
153 35 0.10
154 2 0.01
155 1 0.00
156 1 0.00
163 18 0.05
165 15 0.04
166 35 0.10
167 40 0.11
168 17 0.05
170 19 0.05
171 90 0.25
172 15 0.04
173 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (166 bp):
GCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAA
AAACAGAAATTAAAATACCTCGACATGTGACCCGAG
Found at i:15332173 original size:74 final size:75
Alignment explanation
Indices: 15332014--15332315 Score: 369
Period size: 74 Copynumber: 4.0 Consensus size: 75
15332004 AAGGCAGAAA
* * * *
15332014 TTGAAAAACGGAAATT-AAAATACCTCGGCGTTTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCG--TGACCTGAGGCTCAACTCACCTCTCACAATAT
15332078 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * *
15332090 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGA
15332154 GTTGA-TTTT
66 GTTGATTTTT
* * * **
15332163 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGA
15332228 GTTGAATTTTTT
66 GTTG-A-TTTTT
* *
15332240 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCACAATA
*
15332304 TGAGCTGATTTT
63 TGAGTTGATTTT
15332316 GAAAAAGTAG
Statistics
Matches: 195, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
73 7 0.04
74 93 0.48
75 11 0.06
76 15 0.08
77 37 0.19
78 1 0.01
79 30 0.15
80 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTT
Found at i:15332315 original size:153 final size:148
Alignment explanation
Indices: 15332014--15332334 Score: 407
Period size: 151 Copynumber: 2.1 Consensus size: 148
15332004 AAGGCAGAAA
* * * *
15332014 TTGAAAAACGGAAATTAAAATACCTCGGCGTTTGACCTGAGGCTCAACTCGCCTCTCACAATACG
1 TTGAAAAACAGAAATTAAAATACCTCAGCG-ATGACCTGAGGCTCAACTCACCTCTCACAATACG
* * *
15332079 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCT
*
15332144 CGCAATATGAGTTGATTTT
130 CGCAATATGAGCTGATTTT
* * ** *
15332163 TTGAAAAACAGAAATTGAAAATACCTCAGC-ATGTCTTGAGGCTCAACTCATTTCTCACAATATG
1 TTGAAAAACAGAAATT-AAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTCACAATACG
15332227 AGTTGAATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTC
65 AGTTG-A-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTC
15332291 ACCTCTCGCAATATGAGCTGA--TT
124 ACCTCTCGCAATATGAGCTGATTTT
*
15332314 TTGAAAAAGTAGAAATTAAAA
1 TTGAAAAA-CAGAAATTAAAA
15332335 GGTTCAACCC
Statistics
Matches: 150, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
148 32 0.21
149 16 0.11
150 22 0.15
151 36 0.24
152 7 0.05
153 35 0.23
154 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (148 bp):
TTGAAAAACAGAAATTAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
GCAATATGAGCTGATTTT
Found at i:15332430 original size:73 final size:73
Alignment explanation
Indices: 15332338--15332527 Score: 224
Period size: 72 Copynumber: 2.6 Consensus size: 73
15332328 ATTAAAAGGT
* ** * * * *
15332338 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACTA-ACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAACACAAAAATTGAAAATACCTCAGCATG
* *
15332402 TACTGAGGC
65 CACCGAGGC
**
15332411 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCATGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACACAAAAATTGAAAATACCTCAGCATGC
*
15332475 CCCGAGGC
66 ACCGAGGC
* *
15332483 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-ACCAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACACAAAAAT
15332528 AAAAGGCTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
71 2 0.02
72 66 0.67
73 31 0.31
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACACAAAAATTGAAAATACCTCAGCATGC
ACCGAGGC
Found at i:15332687 original size:71 final size:71
Alignment explanation
Indices: 15332566--15332788 Score: 317
Period size: 70 Copynumber: 3.1 Consensus size: 71
15332556 GAGTCAATTT
*
15332566 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTC-TCTTCTCGCAATATGAGTTGATTTT
1 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATC-TCTCGCAATATGAGTTGATTTT
15332630 GAAAACA
65 GAAAACA
* * ** *
15332637 AAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTA
1 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTG
15332700 AAACACA
66 AAA-ACA
* * *
15332707 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTG
15332772 AAAAACA
66 -AAAACA
15332779 AAAATTAAAA
1 AAAATTAAAA
15332789 GGCTTAACTC
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
69 5 0.04
70 56 0.42
71 52 0.39
72 16 0.12
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (71 bp):
AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTG
AAAACA
Found at i:15332869 original size:257 final size:256
Alignment explanation
Indices: 15332338--15332955 Score: 1040
Period size: 257 Copynumber: 2.4 Consensus size: 256
15332328 ATTAAAAGGT
* * * * * * *
15332338 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACTAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACTTCTCGCAATATGAGTTGATT-TTGA-AAACAAAAATTAAAAATACCTCAACGTGT
*
15332403 AC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCT
64 -CTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG--ATTAAAACACAAAAATTGAAAATACCT
*
15332467 CAGCATGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAATAAAA
126 CAGCATGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATAAAA
*
15332532 GGCTTAACTCACCTCTCGCAGTATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGG
191 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGG
15332597 C
256 C
*
15332598 TCAACTCTCTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
1 TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
*
15332663 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCG
66 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCA
15332728 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCT
131 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAA-TAAAAGGCT
*
15332793 TAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGTCCCGAGGC
195 TAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGGC
* *
15332855 TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAAAACACCTCAACGTGTCT
1 TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
15332920 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
66 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
15332956 TTCCTTGAAA
Statistics
Matches: 340, Mismatches: 16, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
256 85 0.25
257 168 0.49
258 56 0.16
259 4 0.01
260 27 0.08
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (256 bp):
TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCT
TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCA
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATAAAAGGCTT
AACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGGC
Found at i:15337986 original size:12 final size:12
Alignment explanation
Indices: 15337966--15338001 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
15337956 TGGGATATGC
*
15337966 AATGTATGAATG
1 AATGCATGAATG
15337978 AATGCATGAATG
1 AATGCATGAATG
15337990 AATGCATGAATG
1 AATGCATGAATG
15338002 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:15339760 original size:37 final size:38
Alignment explanation
Indices: 15339660--15339761 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
15339650 ATATATTTGG
15339660 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
15339696 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
15339738 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
15339762 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:15340005 original size:33 final size:33
Alignment explanation
Indices: 15339943--15340005 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
15339933 ACACAATATG
* * *
15339943 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
15339976 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
15340006 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:15340483 original size:12 final size:12
Alignment explanation
Indices: 15340466--15340495 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15340456 GGTGGTAGAC
15340466 AATGGGAGGAAA
1 AATGGGAGGAAA
15340478 AATGGGAGGAAA
1 AATGGGAGGAAA
15340490 AATGGG
1 AATGGG
15340496 GCAAGTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.10
Consensus pattern (12 bp):
AATGGGAGGAAA
Found at i:15340812 original size:20 final size:20
Alignment explanation
Indices: 15340780--15340831 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
15340770 TAGGGAGAAT
* *
15340780 AAAG-AATAAAGAAAATATG
1 AAAGCAATAGAGAAAATAAG
**
15340799 AAAGCAATAGAGAATGTAAG
1 AAAGCAATAGAGAAAATAAG
15340819 -AAGCAATAGAGAA
1 AAAGCAATAGAGAA
15340832 TGTACTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.62, C:0.04, G:0.21, T:0.13
Consensus pattern (20 bp):
AAAGCAATAGAGAAAATAAG
Found at i:15343284 original size:19 final size:19
Alignment explanation
Indices: 15343260--15343327 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
15343250 AATCTTTAAG
15343260 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15343279 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15343298 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15343315 GATATGCAATCTT
1 GATATGCAATCTT
15343328 GAAGATATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.36
19 30 0.64
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15343290 original size:36 final size:36
Alignment explanation
Indices: 15343250--15343335 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
15343240 ATGGAAATAT
15343250 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
15343286 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
15343322 AATCTTGAAGATAT
1 AATCTTTAAGATAT
15343336 TATCTTGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
33 6 0.14
34 1 0.02
35 2 0.05
36 28 0.64
37 1 0.02
38 6 0.14
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:15347087 original size:16 final size:16
Alignment explanation
Indices: 15347067--15347104 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15347057 TAGATTTAAC
15347067 AAATTTATTTAATAAT
1 AAATTTATTTAATAAT
* *
15347083 GAATTTATTTAGTAAT
1 AAATTTATTTAATAAT
15347099 AAATTT
1 AAATTT
15347105 GAAATATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
AAATTTATTTAATAAT
Found at i:15349988 original size:3 final size:3
Alignment explanation
Indices: 15349980--15350013 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15349970 GAATACTATT
15349980 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15350014 ATAAGGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15350133 original size:29 final size:29
Alignment explanation
Indices: 15350101--15350163 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
15350091 ATAATAAAAG
*
15350101 AAATAATAA-AATAACGAGAA-AAGAAATAA
1 AAATAA-AATAATAACGACAATAA-AAATAA
*
15350130 AAATAAAATAATAACGACAATAATAATAA
1 AAATAAAATAATAACGACAATAAAAATAA
15350159 AAATA
1 AAATA
15350164 CACAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 26 0.87
30 2 0.07
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.17
Consensus pattern (29 bp):
AAATAAAATAATAACGACAATAAAAATAA
Found at i:15351360 original size:18 final size:18
Alignment explanation
Indices: 15351339--15351376 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15351329 AAAAATTTGT
*
15351339 TAAAATATAAA-AATTATA
1 TAAAA-ATAAAGAAATATA
15351357 TAAAAATAAAGAAATATA
1 TAAAAATAAAGAAATATA
15351375 TA
1 TA
15351377 TACATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAATAAAGAAATATA
Found at i:15351362 original size:19 final size:21
Alignment explanation
Indices: 15351339--15351509 Score: 74
Period size: 19 Copynumber: 8.2 Consensus size: 21
15351329 AAAAATTTGT
15351339 TAAAATATAAAAAT-TATATA
1 TAAAATATAAAAATATATATA
15351359 -AAAATA-AAGAAATATATATA
1 TAAAATATAA-AAATATATATA
* * * * *
15351379 CATAATTTTAAAATGTATATAATTTT
1 TA-AAATATAAAA---ATAT-ATATA
15351405 TAAAATATAAAAATATA-A-A
1 TAAAATATAAAAATATATATA
* *
15351424 GAAAAT-TTAAAATATATATA
1 TAAAATATAAAAATATATATA
15351444 -AAAATAATGAAAAAGTATATA-A
1 TAAAAT-AT-AAAAA-TATATATA
* * * *
15351466 -ATAATCTATATATATATATA
1 TAAAATATAAAAATATATATA
* *
15351486 TAAACTCTAAAAAT-TATATA
1 TAAAATATAAAAATATATATA
15351506 TAAA
1 TAAA
15351510 CATTGAACAT
Statistics
Matches: 114, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
18 11 0.10
19 27 0.24
20 21 0.18
21 13 0.11
22 18 0.16
23 8 0.07
25 12 0.11
26 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAAATATAAAAATATATATA
Found at i:15351378 original size:20 final size:19
Alignment explanation
Indices: 15351340--15351505 Score: 59
Period size: 21 Copynumber: 8.0 Consensus size: 19
15351330 AAAATTTGTT
15351340 AAAATATAAAAATTATATA
1 AAAATATAAAAATTATATA
15351359 AAAATA-AAGAAATATATATA
1 AAAATATAA-AAAT-TATATA
* * *
15351379 CATAATTTTAAAATGTATATAA
1 -AAAATATAAAAAT-TATAT-A
*
15351401 TTTTTAAAATATAAAAA-TATAAA
1 -----AAAATATAAAAATTATATA
*
15351424 GAAAAT-TTAAAATATATATA
1 -AAAATATAAAAAT-TATATA
*
15351444 AAAATAATGAAAAAGTATATA
1 AAAAT-AT-AAAAATTATATA
* * *
15351465 AATAATCTATATATATATATA
1 AA-AATATAAAAAT-TATATA
* *
15351486 TAAACTCTAAAAATTATATA
1 -AAAATATAAAAATTATATA
15351506 TAAACATTGA
Statistics
Matches: 109, Mismatches: 21, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
18 7 0.06
19 20 0.18
20 20 0.18
21 37 0.34
22 11 0.10
23 1 0.01
24 4 0.04
26 9 0.08
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATATAAAAATTATATA
Found at i:15355620 original size:3 final size:3
Alignment explanation
Indices: 15355612--15355810 Score: 107
Period size: 3 Copynumber: 66.0 Consensus size: 3
15355602 AAAGACAATG
* *
15355612 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
15355660 ATA ATA GTA TTA ATA AGA ATA TTA ATA TTA GTG TTA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
15355708 ATA GTA ATA GAAA ATA AGA ATGA A-A ACA AT- ATA GCA ATA GTA ATA
1 ATA ATA ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
15355753 A-A AGTA AAA ATA ATG ATA ATA ATA ATG GTA GTA ATA AGCA GTA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
*
15355799 ATA ACA ATA ATA
1 ATA ATA ATA ATA
15355811 TATCTCGAGA
Statistics
Matches: 143, Mismatches: 46, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
2 6 0.04
3 130 0.91
4 7 0.05
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:15356624 original size:8 final size:8
Alignment explanation
Indices: 15356611--15356637 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15356601 GAGAAAGAAT
15356611 AAACATAC
1 AAACATAC
15356619 AAACATAC
1 AAACATAC
15356627 AAACATAC
1 AAACATAC
15356635 AAA
1 AAA
15356638 ATAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (8 bp):
AAACATAC
Found at i:15357020 original size:4 final size:4
Alignment explanation
Indices: 15356995--15357035 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
15356985 TACTAATTTA
15356995 AAAT GAAAT AATAT ATAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT AAAT AA
15357036 TAATGAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.68
5 10 0.29
6 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:15357044 original size:23 final size:23
Alignment explanation
Indices: 15356995--15357038 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15356985 TACTAATTTA
*
15356995 AAATGAAATAATATATAATAAAT
1 AAATGAAATAATAAATAATAAAT
15357018 AAAT-AAATAAATAAATAATAA
1 AAATGAAAT-AATAAATAATAA
15357039 TGAAATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATGAAATAATAAATAATAAAT
Found at i:15357307 original size:27 final size:27
Alignment explanation
Indices: 15357276--15357412 Score: 78
Period size: 25 Copynumber: 5.2 Consensus size: 27
15357266 TATATGTAAA
15357276 ATAATATATATAAATAATAATAAATAT
1 ATAATATATATAAATAATAATAAATAT
* *
15357303 ATAATATATGTGAA-AAT-ATAACA-AT
1 ATAATATATATAAATAATAATAA-ATAT
* *
15357328 AT-ATATATAAAAATGAT-ATAAA-AT
1 ATAATATATATAAATAATAATAAATAT
*
15357352 AATAAT-T-TGAGAAA-AATAATAAATA-
1 -ATAATATAT-ATAAATAATAATAAATAT
* * *
15357377 ATAATAATACATATAATAAAAATAACATTT
1 ATAAT-ATATATA-AATAATAATAA-ATAT
15357407 ATAATA
1 ATAATA
15357413 AAATAATCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
24 19 0.23
25 26 0.31
26 10 0.12
27 14 0.17
28 7 0.08
29 3 0.04
30 5 0.06
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
ATAATATATATAAATAATAATAAATAT
Found at i:15357400 original size:18 final size:18
Alignment explanation
Indices: 15357373--15357419 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
15357363 AAAAATAATA
*
15357373 AATAATAATAATACATAT
1 AATAAAAATAATACATAT
* **
15357391 AATAAAAATAACATTTAT
1 AATAAAAATAATACATAT
15357409 AAT-AAAATAAT
1 AATAAAAATAAT
15357420 CTTATAATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAAATAATACATAT
Found at i:15357494 original size:19 final size:18
Alignment explanation
Indices: 15357461--15357498 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
15357451 AATAAAACAA
*
15357461 ATAATAAATATATATAGG
1 ATAATAAATAAATATAGG
15357479 ATAATAAAATAAATATAGG
1 ATAAT-AAATAAATATAGG
15357498 A
1 A
15357499 CTAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
ATAATAAATAAATATAGG
Found at i:15359133 original size:83 final size:83
Alignment explanation
Indices: 15358993--15359402 Score: 651
Period size: 83 Copynumber: 4.9 Consensus size: 83
15358983 CGATTTGTGG
* * * * * * *
15358993 GGATGCCAAATCAACTTGAGTCTATTTTGAGAACATCTGCGAGTCAAATCTGCTACGTCCTTGAT
1 GGATGCCAAACCATCTTGAGTCT-GTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGAT
15359058 TTGTTCCTTGTAAGCACAA
65 TTGTTCCTTGTAAGCACAA
* *
15359077 GGATGCCAAACCATCTTAAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
15359142 TGTTCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
15359160 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
15359225 TGTTCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
*
15359243 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
*
15359308 TGTTCATTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
* * * *
15359326 GGATGCCAAACCATCTTTGA-TCTATTTGAGAACATTTGAAAGTCATATCTGCAATGTCCTCGAT
1 GGATGCCAAACCATC-TTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGAT
*
15359390 TTGTTTCTTGTAA
65 TTGTTCCTTGTAA
15359403 ACAAAAATAC
Statistics
Matches: 307, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
83 283 0.92
84 24 0.08
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
TGTTCCTTGTAAGCACAA
Found at i:15359584 original size:119 final size:118
Alignment explanation
Indices: 15359352--15359823 Score: 741
Period size: 119 Copynumber: 4.0 Consensus size: 118
15359342 TTGATCTATT
* * * *
15359352 TGAGAACATTTGAAAGTCATATCTGCAATGTCCTCGATTTGTTTCTTGTAAACA-AAAATACCAA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAAATACCAA
* * * *
15359416 ATCATCTTGGATCTGCTTCAGTATAAACATTTGAAGAT-TAGATCCGCTATATT
66 ATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAG-TCTAGATCTGCTATATC
*
15359469 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAA-AATACCA
* * *
15359534 AATCATCTTGGATCTACTTTAGTATAAATGTCTGAAGTCTAGATCTGCTATATC
65 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATATC
*
15359588 TGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAA-AATACCA
* *
15359653 AATCATCTTAGATCTGCTTCAGTATAAATGTCTGAAGTCTAGATCTGCTATATC
65 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATATC
* *
15359707 TGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACATATAAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACA-AAATACCA
15359772 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATA
65 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATA
15359824 CTGCGGCCTA
Statistics
Matches: 331, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
117 49 0.15
118 3 0.01
119 278 0.84
120 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (118 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAAATACCAA
ATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATATC
Found at i:15371329 original size:8 final size:8
Alignment explanation
Indices: 15371316--15371342 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15371306 GAGAAAGAAA
15371316 AAACATAC
1 AAACATAC
15371324 AAACATAC
1 AAACATAC
15371332 AAACATAC
1 AAACATAC
15371340 AAA
1 AAA
15371343 ATAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (8 bp):
AAACATAC
Found at i:15371725 original size:4 final size:4
Alignment explanation
Indices: 15371700--15371740 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
15371690 TATTAATTTA
15371700 AAAT GAAAT AATAT ATAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT AAAT AA
15371741 TAATGAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.68
5 10 0.29
6 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:15371726 original size:23 final size:23
Alignment explanation
Indices: 15371700--15371761 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
15371690 TATTAATTTA
15371700 AAATGAAATAATATATAATAAAT
1 AAATGAAATAATATATAATAAAT
15371723 AAAT-AAATAA-ATA-AAT-AAT
1 AAATGAAATAATATATAATAAAT
*
15371742 -AATGAAATGTATATATAATA
1 AAATGAAAT-AATATATAATA
15371762 TGAGTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
18 3 0.09
19 7 0.21
20 4 0.12
21 6 0.18
22 9 0.27
23 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (23 bp):
AAATGAAATAATATATAATAAAT
Found at i:15371910 original size:27 final size:28
Alignment explanation
Indices: 15371851--15371917 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
15371841 GTAATATGTG
* *
15371851 ATATATAATATATAAAAAATAATAAGTA
1 ATATATAATAAATAAAAAATAATAAATA
* *
15371879 ATATATAA-AAATAAAACATAATAAATG
1 ATATATAATAAATAAAAAATAATAAATA
*
15371906 TTATATAATAAA
1 ATATATAATAAA
15371918 GTATATGGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
ATATATAATAAATAAAAAATAATAAATA
Found at i:15372010 original size:27 final size:27
Alignment explanation
Indices: 15371979--15372113 Score: 76
Period size: 24 Copynumber: 5.2 Consensus size: 27
15371969 TATATGTAAA
15371979 ATAATATATATAAATAATAATAAATAT
1 ATAATATATATAAATAATAATAAATAT
* *
15372006 ATAATATATGTGAA-AAT-ATAACA-AT
1 ATAATATATATAAATAATAATAA-ATAT
* * *
15372031 AT-ATACATAAAAATGAT-ATAAATA-
1 ATAATATATATAAATAATAATAAATAT
*
15372055 ATAAT-T-TGAGAAA-AATAATAAATA-
1 ATAATATAT-ATAAATAATAATAAATAT
* *
15372079 ATAATAATACATATAATAA-AATAACATTT
1 ATAAT-ATATATA-AATAATAATAA-ATAT
15372108 ATAATA
1 ATAATA
15372114 AAATAATCTT
Statistics
Matches: 82, Mismatches: 13, Indels: 25
0.68 0.11 0.21
Matches are distributed among these distances:
23 3 0.04
24 26 0.32
25 17 0.21
26 7 0.09
27 19 0.23
28 5 0.06
29 5 0.06
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (27 bp):
ATAATATATATAAATAATAATAAATAT
Found at i:15372024 original size:39 final size:40
Alignment explanation
Indices: 15371981--15372096 Score: 94
Period size: 46 Copynumber: 2.8 Consensus size: 40
15371971 TATGTAAAAT
15371981 AATATATATAAATAATAATAAATATATAATAT-ATGTGA-A
1 AATATA-ATAAATAATAATAAATATATAATATAATGTGAGA
* *
15372020 AATATAA-CAATATATACATAAAAATGATATAAATAATAATTTGAGA
1 AATATAATAAATA-ATA-AT--AAAT-ATAT-AAT-ATAATGTGAGA
* *
15372066 AAAATAATAAATAATAATAATACATATAATA
1 AATATAATAAATAATAATAA-ATATATAATA
15372097 AAATAACATT
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
37 4 0.07
38 4 0.07
39 8 0.13
41 5 0.08
42 7 0.11
43 9 0.15
44 3 0.05
45 7 0.11
46 10 0.16
47 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (40 bp):
AATATAATAAATAATAATAAATATATAATATAATGTGAGA
Found at i:15372195 original size:19 final size:18
Alignment explanation
Indices: 15372162--15372199 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
15372152 AATAAAACAA
*
15372162 ATAATAAATATATATAGG
1 ATAATAAATAAATATAGG
15372180 ATAATAAAATAAATATAGG
1 ATAAT-AAATAAATATAGG
15372199 A
1 A
15372200 CTAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
ATAATAAATAAATATAGG
Found at i:15373818 original size:3 final size:3
Alignment explanation
Indices: 15373812--15374002 Score: 77
Period size: 3 Copynumber: 62.0 Consensus size: 3
15373802 ATATTAGTAG
* *
15373812 TAA TAA TAA TAA TAA GAAA TAA TAA TAA TAGA GAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * *
15373859 TATA TAC TAA TAA CAA CAA CAA T-A TGAA AAA TAGGA -AA TAA TAA TACA
1 TA-A TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA--A TAA TAA TAA TA-A
* ** * * * * *
15373907 CTCA TAA GGA TAG TAA TAGA TTAC CAA TAA TAA TAG TAA AAA TAA TAA
1 -TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *** *
15373955 TAA TAA T-A TAT TAA TAA GGG TAA TAA -AA -AA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15374000 TAA
1 TAA
15374003 ATATAGTAGT
Statistics
Matches: 138, Mismatches: 36, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
2 9 0.07
3 113 0.82
4 12 0.09
5 4 0.03
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:15373834 original size:13 final size:14
Alignment explanation
Indices: 15373816--15373855 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
15373806 TAGTAGTAAT
15373816 AATAATAATAAGA-
1 AATAATAATAAGAG
15373829 AATAATAATAATAGAG
1 AATAATAAT-A-AGAG
15373845 AATAATAATAA
1 AATAATAATAA
15373856 TAATATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 4 0.17
16 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (14 bp):
AATAATAATAAGAG
Found at i:15373834 original size:16 final size:17
Alignment explanation
Indices: 15373813--15373858 Score: 78
Period size: 16 Copynumber: 2.8 Consensus size: 17
15373803 TATTAGTAGT
15373813 AATAATAATAATAAGA-
1 AATAATAATAATAAGAG
15373829 AATAATAATAAT-AGAG
1 AATAATAATAATAAGAG
15373845 AATAATAATAATAA
1 AATAATAATAATAA
15373859 TATATACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.11
16 24 0.86
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (17 bp):
AATAATAATAATAAGAG
Found at i:15375222 original size:10 final size:9
Alignment explanation
Indices: 15375203--15375228 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15375193 TAATTTGGGC
15375203 TTTTTATTT
1 TTTTTATTT
15375212 TTTTTATTT
1 TTTTTATTT
15375221 TTTTTATT
1 TTTTTATT
15375229 GGGCCATTTG
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:15377458 original size:92 final size:90
Alignment explanation
Indices: 15377296--15377503 Score: 217
Period size: 91 Copynumber: 2.3 Consensus size: 90
15377286 CGGGCACTCC
* * * * * *
15377296 AGTTTGTGAATGAACGACAAGTG-TTGCAGGTTAATATGCTGCCAGTGGTTGTGAATACACAACG
1 AGTTTGTGGATAAACCACCAGTGTTTGAAGGTTAATATGCTGCCAGTAGTTGTGAATACACAACG
* * *
15377360 AGTTTGCAAATAAAAGTTGCCGGTAAA
66 AGTTTGCAAATAAAAGCTACCAGT--A
* *
15377387 AG-TTGTGGATAAACCACTAGTGTTTGAAGGTTAATATGCTG-CATGTAAGTTGTGAATGCACAA
1 AGTTTGTGGATAAACCACCAGTGTTTGAAGGTTAATATGCTGCCA-GT-AGTTGTGAATACACAA
* *
15377450 TGCA-TTTGCATATAAAAGCTACCAGTA
64 CG-AGTTTGCAAATAAAAGCTACCAGTA
*
15377477 TGTTTGTGGATAAACCACCAGTGTTTG
1 AGTTTGTGGATAAACCACCAGTGTTTG
15377504 TAGATAAATT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
90 20 0.20
91 44 0.45
92 33 0.34
93 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (90 bp):
AGTTTGTGGATAAACCACCAGTGTTTGAAGGTTAATATGCTGCCAGTAGTTGTGAATACACAACG
AGTTTGCAAATAAAAGCTACCAGTA
Found at i:15379240 original size:20 final size:19
Alignment explanation
Indices: 15379214--15379268 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
15379204 AATATTTTTT
15379214 ATAATTTTATACTTTTTAAA
1 ATAATTTTATA-TTTTTAAA
*
15379234 TTAATTTTA-ATTTTTAAA
1 ATAATTTTATATTTTTAAA
15379252 ATAATTTTTATATTTTT
1 ATAA-TTTTATATTTTT
15379269 TTGAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.35
19 6 0.19
20 14 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATTTTATATTTTTAAA
Found at i:15379260 original size:30 final size:30
Alignment explanation
Indices: 15379226--15379283 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15379216 AATTTTATAC
15379226 TTTTTAAATTAATTTT-AATTTTTAAAATAA
1 TTTTTAAATT-ATTTTGAATTTTTAAAATAA
* * *
15379256 TTTTTATATTTTTTTGAATTTTTTAAAT
1 TTTTTAAATTATTTTGAATTTTTAAAAT
15379284 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTTAAATTATTTTGAATTTTTAAAATAA
Found at i:15380706 original size:21 final size:21
Alignment explanation
Indices: 15380673--15380712 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15380663 TCTATATGTA
*
15380673 TATAATATATATATTGTTTGG
1 TATAATATATATATCGTTTGG
* *
15380694 TATATTATCTATATCGTTT
1 TATAATATATATATCGTTT
15380713 CGTTACTTTT
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:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TATAATATATATATCGTTTGG
Found at i:15380799 original size:15 final size:15
Alignment explanation
Indices: 15380779--15380827 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
15380769 TTTTGAATTG
15380779 TTGTATATTATGTTT
1 TTGTATATTATGTTT
15380794 TTGTATA-TATTGTTT
1 TTGTATATTA-TGTTT
*
15380809 TTAT-TATTAT-TTT
1 TTGTATATTATGTTT
*
15380822 ATGTAT
1 TTGTAT
15380828 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 5 0.18
14 6 0.21
15 17 0.61
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTGTATATTATGTTT
Found at i:15381072 original size:27 final size:27
Alignment explanation
Indices: 15380962--15381076 Score: 78
Period size: 27 Copynumber: 4.3 Consensus size: 27
15380952 GTATTTTATT
*
15380962 TATATAGTTTCTTTAAAATCT-TT-A-A
1 TATATATTTTCTTTAAAAT-TATTCATA
* * * *
15380987 TGTATATTTTCTTTTCAAA-TATGTTATG
1 TATATATTTTC-TTTAAAATTAT-TCATA
* * * * *
15381015 TAAATATTTTCTTCAAATTTATTCTTC
1 TATATATTTTCTTTAAAATTATTCATA
15381042 TATATATTTTCTTTAAAATTATTCATA
1 TATATATTTTCTTTAAAATTATTCATA
15381069 TATA-ATTT
1 TATATATTT
15381077 GGCTTTCTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 11
0.71 0.18 0.12
Matches are distributed among these distances:
24 1 0.01
25 10 0.15
26 11 0.16
27 33 0.49
28 12 0.18
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATATTTTCTTTAAAATTATTCATA
Found at i:15381159 original size:13 final size:13
Alignment explanation
Indices: 15381143--15381180 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
15381133 TATATATATA
15381143 TATTATTTTCATT
1 TATTATTTTCATT
*
15381156 TATTATTTTTATT
1 TATTATTTTCATT
15381169 TATTATTTTCAT
1 TATTATTTTCAT
15381181 ATAAATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTTTCATT
Done.