Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 14 of 199
Found at i:5900541 original size:41 final size:41
Alignment explanation
Indices: 5900496--5900637 Score: 212
Period size: 41 Copynumber: 3.5 Consensus size: 41
5900486 AGGCTAAGCG
5900496 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
*
5900537 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
* * * *
5900578 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
* * *
5900619 TCTAGCAGTCTATGTGCCG
1 CCTAGCAGGCTACGTGCCG
5900638 TTGAATCTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
Found at i:5923930 original size:30 final size:30
Alignment explanation
Indices: 5923894--5923958 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
5923884 GGCTAAATAG
5923894 TTTGTTTCGGTTCTTGCCTGTATTACATTA
1 TTTGTTTCGGTTCTTGCCTGTATTACATTA
*
5923924 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGGTTCTTGCCTGTATTACATTA
5923954 TTTGT
1 TTTGT
5923959 GGGAGTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.11, C:0.15, G:0.18, T:0.55
Consensus pattern (30 bp):
TTTGTTTCGGTTCTTGCCTGTATTACATTA
Found at i:5926788 original size:29 final size:30
Alignment explanation
Indices: 5926729--5926786 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5926719 TCCGAGCCTT
*
5926729 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5926759 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5926787 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5927016 original size:13 final size:13
Alignment explanation
Indices: 5926998--5927029 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5926988 TTTCCAGCAA
5926998 TTATGAATTTATT
1 TTATGAATTTATT
5927011 TTATGAATTTATT
1 TTATGAATTTATT
*
5927024 TGATGA
1 TTATGA
5927030 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:5927242 original size:50 final size:50
Alignment explanation
Indices: 5927184--5927370 Score: 268
Period size: 50 Copynumber: 3.7 Consensus size: 50
5927174 TTAAGATCAT
*
5927184 GAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
* * *
5927234 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
* * *
5927284 GAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCAC
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GAC
**
5927334 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
5927371 TTTGGCATGT
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 91 0.75
51 29 0.24
ACGTcount: A:0.26, C:0.25, G:0.31, T:0.19
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
Found at i:5927292 original size:100 final size:101
Alignment explanation
Indices: 5927182--5927377 Score: 315
Period size: 100 Copynumber: 2.0 Consensus size: 101
5927172 CCTTAAGATC
* * * **
5927182 ATGAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGGTCCCA
1 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATCCCA
5927245 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
65 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
5927282 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAACATCCCAT
1 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAACATCCCAT
*
5927347 GTAAGACCATGTCTGGGACATGGCTTTGGCA
66 GTAAGACCATGTCTGGGACATGGCGTTGGCA
5927378 TGTTATTATC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
99 1 0.01
100 50 0.57
101 37 0.42
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.20
Consensus pattern (101 bp):
ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAACATCCCAT
GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:5931776 original size:92 final size:91
Alignment explanation
Indices: 5931619--5931827 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
5931609 TTGATTTTAG
* * *
5931619 TAAATTCATATAAGAACATTTTATTATTAACAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
5931684 ATTTAAT-ATTAATTATTTTAATTTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
5931711 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
5931775 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
5931803 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
5931828 GTTATAATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 70 0.69
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:5931790 original size:24 final size:25
Alignment explanation
Indices: 5931755--5931802 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
5931745 TTATGAAATT
5931755 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
5931779 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
5931803 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:5931957 original size:66 final size:61
Alignment explanation
Indices: 5931881--5932103 Score: 171
Period size: 66 Copynumber: 3.6 Consensus size: 61
5931871 AAATATATTT
5931881 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-A-TATCATATATTATGATTTGAGTAAATT-ATATAA
5931946 G
61 G
* * * * **
5931947 AATATTAATTATTAAGAATTTTA-TTAA-ATTATATATT-TTAATT-A-T-AA-TATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAATATCATATATTATGATTTGAGTAAATTATATAAG
*
5932001 AATAATAATTATGTT-AATTTATATTTTACAATATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTT--AATATCATATATTATGATTTGAGTAAATT-ATATA
5932065 AG
60 AG
* *
5932067 AATATTAATTATTAAGAATTTTA-TTAA-ATTATATATT
1 AATATTAATTATTTA-AATTTTATTTAATATCATATATT
5932104 TTAATTATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 39
0.69 0.09 0.22
Matches are distributed among these distances:
53 5 0.04
54 13 0.10
55 5 0.04
56 3 0.02
57 2 0.02
58 3 0.02
59 10 0.08
60 8 0.06
61 19 0.15
62 3 0.02
63 3 0.02
64 6 0.05
65 7 0.06
66 32 0.26
67 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (61 bp):
AATATTAATTATTTAAATTTTATTTAATATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:5931981 original size:120 final size:120
Alignment explanation
Indices: 5931843--5932135 Score: 475
Period size: 120 Copynumber: 2.4 Consensus size: 120
5931833 AATTATTTTA
* * *
5931843 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
5931905 TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
63 TTTACAATATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
5931963 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
5932028 ACAATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAATATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
*
5932083 AATTTTATTAAATTATATATTTTAATTATAATACATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
5932136 TAAATATTAT
Statistics
Matches: 163, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 6 0.04
120 155 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAATATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
Found at i:5932003 original size:15 final size:15
Alignment explanation
Indices: 5931968--5932019 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
5931958 TTAAGAATTT
*
5931968 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5931982 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5931996 TATTTAATAATAAT-
1 TATTTAATTATAATA
5932010 TATGTTAATT
1 TAT-TTAATT
5932020 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5932234 original size:157 final size:157
Alignment explanation
Indices: 5932072--5932381 Score: 566
Period size: 157 Copynumber: 2.0 Consensus size: 157
5932062 ATAAGAATAT
*
5932072 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATACATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTT
* * *
5932137 AAATATTATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
5932202 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
*
5932229 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTT
5932294 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
5932359 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
5932382 ATGCTAAGGG
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 147 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:5932269 original size:18 final size:17
Alignment explanation
Indices: 5932241--5932275 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5932231 ATTATTAAGA
*
5932241 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5932258 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5932276 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5932535 original size:16 final size:16
Alignment explanation
Indices: 5932514--5932544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5932504 TTGCTATTAC
5932514 ACCTCTAATCCAATAT
1 ACCTCTAATCCAATAT
*
5932530 ACCTCTAATCTAATA
1 ACCTCTAATCCAATA
5932545 CAACGAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
ACCTCTAATCCAATAT
Found at i:5935226 original size:19 final size:19
Alignment explanation
Indices: 5935202--5935239 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5935192 TGGAATGGGA
5935202 TGGGATGGGAGTGGGTCCT
1 TGGGATGGGAGTGGGTCCT
5935221 TGGGATGGGAGTGGGTCCT
1 TGGGATGGGAGTGGGTCCT
5935240 GTTTAAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.53, T:0.26
Consensus pattern (19 bp):
TGGGATGGGAGTGGGTCCT
Found at i:5936839 original size:26 final size:26
Alignment explanation
Indices: 5936810--5936867 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
5936800 TCTGACACTA
*
5936810 GCCAATTAAATTGG-CGCACCAAAGGT
1 GCCAAATAAATTGGTCGCACC-AAGGT
* *
5936836 GCCAAATAAATTGGTGGCACCATGGT
1 GCCAAATAAATTGGTCGCACCAAGGT
5936862 GCCAAA
1 GCCAAA
5936868 GGAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
GCCAAATAAATTGGTCGCACCAAGGT
Found at i:5936966 original size:19 final size:19
Alignment explanation
Indices: 5936939--5937008 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
5936929 TCAATTTATT
*
5936939 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
5936958 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
5936976 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
5936995 TTTTAATTTAATAA
1 TTTTAATTTAATAA
5937009 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:5936987 original size:37 final size:37
Alignment explanation
Indices: 5936944--5937014 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
5936934 TTATTTTTTT
5936944 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
5936981 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
5937015 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:5937464 original size:28 final size:29
Alignment explanation
Indices: 5937424--5937491 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
5937414 TACACATTTT
5937424 TTTTGGTAAAT-AAAAAAAAGTTGTAATA
1 TTTTGGTAAATAAAAAAAAAGTTGTAATA
5937452 TTTTGGTAAATAAAAAAAAAGTTGTAATA
1 TTTTGGTAAATAAAAAAAAAGTTGTAATA
*
5937481 TTTTAGTAAAT
1 TTTTGGTAAAT
5937492 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.29
29 27 0.71
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (29 bp):
TTTTGGTAAATAAAAAAAAAGTTGTAATA
Found at i:5938059 original size:17 final size:17
Alignment explanation
Indices: 5938037--5938070 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5938027 GATTATATTA
5938037 TGTTAAA-ATAATCATAT
1 TGTTAAATATAAT-ATAT
5938054 TGTTAAATATAATATAT
1 TGTTAAATATAATATAT
5938071 ATTTCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TGTTAAATATAATATAT
Found at i:5945802 original size:20 final size:22
Alignment explanation
Indices: 5945760--5945807 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
5945750 TCGGTTAAGT
*
5945760 AGAAAAGTGGAAAGATAGAAGG
1 AGAAAAGTGGAAAAATAGAAGG
5945782 AGAAAA-TGGAAAAAT-GAAGG
1 AGAAAAGTGGAAAAATAGAAGG
*
5945802 AAAAAA
1 AGAAAA
5945808 AATTGATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.08
Consensus pattern (22 bp):
AGAAAAGTGGAAAAATAGAAGG
Found at i:5945808 original size:21 final size:21
Alignment explanation
Indices: 5945762--5945807 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5945752 GGTTAAGTAG
* *
5945762 AAAAGTGGAAAGATAGAAGGA
1 AAAAATGGAAAAATAGAAGGA
*
5945783 GAAAATGGAAAAAT-GAAGGA
1 AAAAATGGAAAAATAGAAGGA
5945803 AAAAA
1 AAAAA
5945808 AATTGATTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.28, T:0.09
Consensus pattern (21 bp):
AAAAATGGAAAAATAGAAGGA
Found at i:5945842 original size:16 final size:15
Alignment explanation
Indices: 5945821--5945850 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5945811 TGATTGGTAA
5945821 GAAAGAAAAGTAGAAG
1 GAAAGAAAA-TAGAAG
5945837 GAAAGAAAATAGAA
1 GAAAGAAAATAGAA
5945851 AAGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
GAAAGAAAATAGAAG
Found at i:5954699 original size:11 final size:11
Alignment explanation
Indices: 5954685--5954727 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
5954675 AAATACCTCT
5954685 AAAATAATAAC
1 AAAATAATAAC
*
5954696 AAAATTAATAAT
1 AAAA-TAATAAC
5954708 AAAATAATAAC
1 AAAATAATAAC
*
5954719 AACATAATA
1 AAAATAATA
5954728 GTACCAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:5959509 original size:25 final size:25
Alignment explanation
Indices: 5959462--5959508 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5959452 TTTGGTGGTC
*
5959462 AAATCATGCTTTTAACGCCAAAAGG
1 AAATCACGCTTTTAACGCCAAAAGG
*
5959487 AAATCACGTTTTTAAC-CCAAAA
1 AAATCACGCTTTTAACGCCAAAA
5959509 ACCCTCGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.26
Consensus pattern (25 bp):
AAATCACGCTTTTAACGCCAAAAGG
Found at i:5964890 original size:23 final size:23
Alignment explanation
Indices: 5964864--5964955 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
5964854 GGACTCACCA
*
5964864 CAGCTTGTATGAGCTTAGCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
5964887 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
5964910 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
* *
5964935 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
5964956 ATCATGGCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.05
23 31 0.56
24 2 0.04
25 6 0.11
26 11 0.20
27 2 0.04
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:5964955 original size:26 final size:23
Alignment explanation
Indices: 5964874--5964955 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
5964864 CAGCTTGTAT
* * **
5964874 GAGCTTAGCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCGATA
5964897 GAGCTTACCGTTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGATA
5964920 GAGCTTACCGTTTATCAGCTCGGA-A
1 GAGCTTACCG-TT-TCAGCTC-GATA
5964945 TGAGCTTACCG
1 -GAGCTTACCG
5964956 ATCATGGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 29 0.57
24 2 0.04
25 8 0.16
26 12 0.24
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:5968193 original size:12 final size:12
Alignment explanation
Indices: 5968176--5968201 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5968166 ACCCCCTACC
5968176 CGTATCCGTTGT
1 CGTATCCGTTGT
5968188 CGTATCCGTTGT
1 CGTATCCGTTGT
5968200 CG
1 CG
5968202 GAATAGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.27, T:0.38
Consensus pattern (12 bp):
CGTATCCGTTGT
Found at i:5969184 original size:67 final size:67
Alignment explanation
Indices: 5969067--5969193 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
5969057 CAATTCAGAA
* * *
5969067 AGCACACTCCTGCGAACCTCATTTATTATAGCAGGATTACTAGTCTAGGCTAAATCCCCTACAAG
1 AGCACACTCCCGCGAACCTCATTTATTACAGCAGGATTACCAGTCTAGGCTAAATCCCCTACAAG
5969132 AG
66 AG
* *
5969134 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGT-TCAGGCTAAATCCCCT
1 AGCACACTCCCGCGAACCTCATTTATTACAGCAGGATTACCAGTCT-AGGCTAAATCCCCT
5969194 GTAATATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 1 0.02
67 53 0.98
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (67 bp):
AGCACACTCCCGCGAACCTCATTTATTACAGCAGGATTACCAGTCTAGGCTAAATCCCCTACAAG
AG
Found at i:5972465 original size:37 final size:36
Alignment explanation
Indices: 5972415--5972523 Score: 140
Period size: 37 Copynumber: 3.2 Consensus size: 36
5972405 GGCTGAATGC
*
5972415 ACATAT-TCACTTATACCCACCTATGCCGAATGCAT
1 ACATATATCACTTATATCCACCTATGCCGAATGCAT
*
5972450 ACATATATACACTTATATCTACCTATGCCGAATGCAT
1 ACATATAT-CACTTATATCCACCTATGCCGAATGCAT
*
5972487 ACA-A-AT-A--TATATCCACCTATGCCGAATGCCT
1 ACATATATCACTTATATCCACCTATGCCGAATGCAT
5972518 ACATAT
1 ACATAT
5972524 GCACACATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
31 25 0.38
32 1 0.02
33 1 0.02
35 8 0.12
36 2 0.03
37 29 0.44
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (36 bp):
ACATATATCACTTATATCCACCTATGCCGAATGCAT
Found at i:5972851 original size:82 final size:82
Alignment explanation
Indices: 5972714--5972876 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
5972704 TCATATTAGG
*
5972714 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
5972779 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
5972796 ATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
5972861 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
5972877 ATTCACCAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:5972883 original size:41 final size:41
Alignment explanation
Indices: 5972713--5972876 Score: 265
Period size: 41 Copynumber: 4.0 Consensus size: 41
5972703 ATCATATTAG
* *
5972713 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
*
5972754 GATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
* * *
5972795 TATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
*
5972836 GATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
5972877 ATTCACCAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
Found at i:5973138 original size:15 final size:17
Alignment explanation
Indices: 5973097--5973140 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
5973087 TTGTTCGATC
5973097 CACATATATATATTACA
1 CACATATATATATTACA
*
5973114 CACATATATATATT-CG
1 CACATATATATATTACA
5973130 CACAT-TATATA
1 CACATATATATA
5973141 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:5976707 original size:24 final size:22
Alignment explanation
Indices: 5976680--5976724 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
5976670 ATTATTCCAC
5976680 CCTTAAAATATTTACACTATTTAT
1 CCTTAAAAT-TTTACA-TATTTAT
* *
5976704 CCTTCAAATTTTTCATATTTA
1 CCTTAAAATTTTACATATTTA
5976725 CATTTTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (22 bp):
CCTTAAAATTTTACATATTTAT
Found at i:5977631 original size:43 final size:42
Alignment explanation
Indices: 5977516--5977643 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 42
5977506 ATAGGATTCT
* * *
5977516 GTTATGTGTTATCATGTAAGACCACGCCTGGGACGTTGGCATT
1 GTTATGTGTTA-CATGTAAGACCACGTCTGAGACGTTGGCATC
*** *
5977559 GACCTGTGCTTACGTGTAAGACC-CTGTCTGAGACAG-TGGCATC
1 GTTATGTG-TTACATGTAAGACCAC-GTCTGAGAC-GTTGGCATC
*
5977602 GTTATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTTATGTG-TTACATGTAAGACCACGTCTGAGACGTTGGCAT
5977644 TGTACGATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
42 2 0.03
43 60 0.90
44 5 0.07
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
GTTATGTGTTACATGTAAGACCACGTCTGAGACGTTGGCATC
Found at i:5978142 original size:17 final size:17
Alignment explanation
Indices: 5978105--5978152 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
5978095 GAATTTAGAA
*
5978105 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
5978121 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
5978138 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
5978153 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:5979495 original size:46 final size:46
Alignment explanation
Indices: 5979374--5979504 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
5979364 CATGGCAAAG
** *
5979374 TGTGAAACA-TAGGTATGGTATTTCAGCAAAGAAAACCATGCTGAGT
1 TGTGAAA-AGTAGGTATGGTATTTCAGTGAAGAAAACCATGATGAGT
* * * *
5979420 TGTGAAAAGTAGGCATGTTGTTTCAGTGAAGAAAACTAT-ATAGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATGAT-GAGT
*
5979466 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCAT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCAT
5979505 ACTAAGTTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
45 2 0.03
46 69 0.97
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATGATGAGT
Found at i:5983711 original size:8 final size:7
Alignment explanation
Indices: 5983684--5983708 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5983674 TCACCTTTAT
5983684 AAAAGAA
1 AAAAGAA
5983691 AAAAGAA
1 AAAAGAA
5983698 AAAAGAA
1 AAAAGAA
5983705 AAAA
1 AAAA
5983709 AGATCTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:5986583 original size:16 final size:16
Alignment explanation
Indices: 5986546--5986585 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
5986536 TTAATAAAAT
* *
5986546 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
5986562 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
5986578 TAAAATTA
1 TAAAATTA
5986586 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:5986585 original size:22 final size:22
Alignment explanation
Indices: 5986518--5986570 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
5986508 TAATTAAAAT
* * *
5986518 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
5986540 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
5986562 TAAAATTAA
1 TAAAATTAA
5986571 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:5986664 original size:59 final size:59
Alignment explanation
Indices: 5986596--5986735 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
5986586 TCAAATTATT
*
5986596 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
5986655 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
5986714 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
5986736 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:5986729 original size:9 final size:9
Alignment explanation
Indices: 5986717--5986744 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5986707 TTTATCAAAT
5986717 TATTAATTG
1 TATTAATTG
5986726 TATTAATTG
1 TATTAATTG
5986735 TATTAATTG
1 TATTAATTG
5986744 T
1 T
5986745 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:5986888 original size:23 final size:24
Alignment explanation
Indices: 5986841--5986886 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
5986831 AAATAAACTT
5986841 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
5986865 AAAATAAAAAA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
5986887 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:6000504 original size:21 final size:22
Alignment explanation
Indices: 6000458--6000504 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
6000448 TCAAGCAAAA
* *
6000458 AAAATCCTAAAAAGGAATAATG
1 AAAATCCTAAAAAAGAAAAATG
*
6000480 -AAATCC-AAAAAATAAAAATG
1 AAAATCCTAAAAAAGAAAAATG
6000500 AAAAT
1 AAAAT
6000505 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAATCCTAAAAAAGAAAAATG
Found at i:6000890 original size:25 final size:25
Alignment explanation
Indices: 6000845--6000901 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
6000835 TTTCTTTTTC
* *
6000845 CCATTTTATATTTTTAATATTATAT
1 CCATTTTATATTATTAATATTACAT
*
6000870 CCATTTTAT-TATATTATTATTACAT
1 CCATTTTATAT-TATTAATATTACAT
*
6000895 ACATTTT
1 CCATTTT
6000902 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (25 bp):
CCATTTTATATTATTAATATTACAT
Found at i:6001132 original size:18 final size:18
Alignment explanation
Indices: 6001109--6001148 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6001099 ATTTTATATT
6001109 ATAAATTATCAAA-AATAA
1 ATAAATT-TCAAATAATAA
*
6001127 ATAAATTTTAAATAATAA
1 ATAAATTTCAAATAATAA
6001145 ATAA
1 ATAA
6001149 TAAAACTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAATTTCAAATAATAA
Found at i:6004150 original size:3 final size:3
Alignment explanation
Indices: 6004142--6004173 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6004132 GACACTGATG
*
6004142 CTC CTC CTC CTC CTC CTC CTA CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
6004174 GCTGCTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:6007830 original size:101 final size:101
Alignment explanation
Indices: 6007642--6008048 Score: 494
Period size: 101 Copynumber: 4.0 Consensus size: 101
6007632 AATTTATCCA
* * * ** * *
6007642 TTACATTCGTAGTGTCATAACCCAGTTATAATCTTATCATCAAAATGTCATAACCCAGTTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
6007707 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
6007743 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATTATCAGAATG-CTATAGCCCAGCTATGG
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTC-ATAGCCCAGCTATGG
* * * *
6007807 TTTTACATATAAACGCTGTCATGG-CCTAACCATGGTT
65 TCTTACATATAAACACTGCCATGGTCC-AACCATGGTC
* * * * * * *
6007844 TTAAGTTCACAGTTCCATAACCCAGTTATGGTCTTATCATCAGAATGCCAAAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
* *
6007909 CTTACATACAAACACTGCCATAGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * * * *
6007945 TTACGTTCATAGTGCTATAACTCAGTTATGGACTTTTCATTAAAATGTCATAGCCCAGCTATGAT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
* * * *
6008010 TTTACATTTAAACATTGCCATGGTCCAATCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
6008046 TTA
1 TTA
6008049 TCCATCAATT
Statistics
Matches: 258, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
100 3 0.01
101 252 0.98
102 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:6008003 original size:202 final size:202
Alignment explanation
Indices: 6007657--6008022 Score: 549
Period size: 202 Copynumber: 1.8 Consensus size: 202
6007647 TTCGTAGTGT
* * *
6007657 CATAACCCAGTTATAATCTTATCATCAAAATGTCATAACCCAGTTATGGTCTTACATATAAACAC
1 CATAACCCAGTTATAATCTTATCATCAAAATGCCATAACCCAGCTATGGTCTTACATACAAACAC
* * *
6007722 TGCCATGGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATTATCAGA
66 TGCCATAGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGACTTATTATCAAA
*
6007787 ATGCTATAGCCCAGCTATGGTTTTACATATAAACGCTGTCATGGCCTAACCATGGTTTTAAGTTC
131 ATGCTATAGCCCAGCTATGATTTTACATATAAACGCTGTCATGGCCTAACCATGGTTTTAAGTTC
6007852 ACAGTTC
196 ACAGTTC
** * *
6007859 CATAACCCAGTTATGGTCTTATCATCAGAATGCCA-AAGCCTAGCTATGGTCTTACATACAAACA
1 CATAACCCAGTTATAATCTTATCATCAAAATGCCATAA-CCCAGCTATGGTCTTACATACAAACA
* * *
6007923 CTGCCATAGTCCAACCATGGTCTTACGTTCATAGTGCTATAACTCAGTTATGGACTT-TTCATTA
65 CTGCCATAGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGACTTATT-ATCA
*
6007987 AAATG-TCATAGCCCAGCTATGATTTTACATTTAAAC
129 AAATGCT-ATAGCCCAGCTATGATTTTACATATAAAC
6008023 ATTGCCATGG
Statistics
Matches: 146, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
201 5 0.03
202 141 0.97
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (202 bp):
CATAACCCAGTTATAATCTTATCATCAAAATGCCATAACCCAGCTATGGTCTTACATACAAACAC
TGCCATAGTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGACTTATTATCAAA
ATGCTATAGCCCAGCTATGATTTTACATATAAACGCTGTCATGGCCTAACCATGGTTTTAAGTTC
ACAGTTC
Found at i:6010727 original size:25 final size:24
Alignment explanation
Indices: 6010684--6010736 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
6010674 AAATTCAAAC
6010684 GAGCCATATCAGGAAGCTCATAAA
1 GAGCCATATCAGGAAGCTCATAAA
* *
6010708 GAGCCTATATCGGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
6010733 GAGC
1 GAGC
6010737 TGCGGTCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:6011104 original size:23 final size:22
Alignment explanation
Indices: 6011038--6011096 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
6011028 GACATTTATG
*
6011038 CAATTCACACATATACAACATT
1 CAATTCAAACATATACAACATT
*
6011060 CAATTCGAACATATACGAACATT
1 CAATTCAAACATATAC-AACATT
6011083 CAATTCAAACATAT
1 CAATTCAAACATAT
6011097 TCAAACATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (22 bp):
CAATTCAAACATATACAACATT
Found at i:6011117 original size:32 final size:33
Alignment explanation
Indices: 6011062--6011127 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
6011052 ACAACATTCA
*
6011062 ATTCGAACATATACGAACATTCAATTCAAACAT
1 ATTCAAACATATACGAACATTCAATTCAAACAT
6011095 ATTCAAACATATAC-AACATTCAATTCAAACAT
1 ATTCAAACATATACGAACATTCAATTCAAACAT
6011127 A
1 A
6011128 ATTTAGTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.27
Consensus pattern (33 bp):
ATTCAAACATATACGAACATTCAATTCAAACAT
Found at i:6028030 original size:18 final size:18
Alignment explanation
Indices: 6028007--6028046 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6027997 TATAATTTTA
*
6028007 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
6028025 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
6028043 AAAA
1 AAAA
6028047 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:6028173 original size:30 final size:30
Alignment explanation
Indices: 6028129--6028191 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
6028119 ACTTAACAAG
*
6028129 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
6028159 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
6028189 CAA
1 CAA
6028192 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:6030390 original size:19 final size:20
Alignment explanation
Indices: 6030346--6030390 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6030336 TACAATTTTG
6030346 TTTTAATAATAAAATTTTAA
1 TTTTAATAATAAAATTTTAA
** *
6030366 CATTAAT-ATTAAATTTTAA
1 TTTTAATAATAAAATTTTAA
6030385 TTTTAA
1 TTTTAA
6030391 ATGATTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAATAATAAAATTTTAA
Found at i:6036684 original size:20 final size:20
Alignment explanation
Indices: 6036659--6036698 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6036649 AGTAACAATC
6036659 ACTCACTGGAGACACAGACT
1 ACTCACTGGAGACACAGACT
6036679 ACTCACTGGAGACACAGACT
1 ACTCACTGGAGACACAGACT
6036699 GTGATGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.15
Consensus pattern (20 bp):
ACTCACTGGAGACACAGACT
Found at i:6038145 original size:42 final size:42
Alignment explanation
Indices: 6038099--6038178 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
6038089 CGCCTCCAGT
* *
6038099 TGGGCGCA-CTTTCTGCATAGTTAGCAGAAAAGCTCGTCCAAC
1 TGGGCG-AGCTTTCTGAATAATTAGCAGAAAAGCTCGTCCAAC
* *
6038141 TGGGCGAGCTTTCTGAATAATTGGCAGGAAAGCTCGTC
1 TGGGCGAGCTTTCTGAATAATTAGCAGAAAAGCTCGTC
6038179 TAGCTGGACG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (42 bp):
TGGGCGAGCTTTCTGAATAATTAGCAGAAAAGCTCGTCCAAC
Found at i:6051148 original size:15 final size:15
Alignment explanation
Indices: 6051128--6051160 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6051118 TAATAAAATA
6051128 ATTATTTAAATTTAT
1 ATTATTTAAATTTAT
*
6051143 ATTATTTATATTTAT
1 ATTATTTAAATTTAT
6051158 ATT
1 ATT
6051161 TGCCATTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTAAATTTAT
Found at i:6052488 original size:25 final size:26
Alignment explanation
Indices: 6052451--6052509 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
6052441 AATCAAGTTA
* *
6052451 AGTGAAATTAAATTCGAGTCGAATTG
1 AGTGAAATGAAATTCGAGTCGAATCG
*
6052477 AGT-AAATGAAATTTGAGTCGAATCG
1 AGTGAAATGAAATTCGAGTCGAATCG
6052502 AGTGAAAT
1 AGTGAAAT
6052510 TGTTCGAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (26 bp):
AGTGAAATGAAATTCGAGTCGAATCG
Found at i:6052766 original size:18 final size:19
Alignment explanation
Indices: 6052745--6052781 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6052735 ATCTTGAATT
*
6052745 TTTTATAAA-TATTTTGAA
1 TTTTAAAAACTATTTTGAA
6052763 TTTTAAAAACTATTTTGAA
1 TTTTAAAAACTATTTTGAA
6052782 ATTATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAAAAACTATTTTGAA
Found at i:6053291 original size:11 final size:11
Alignment explanation
Indices: 6053275--6053299 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6053265 TAAGTTATTG
6053275 AATTAAAAAAT
1 AATTAAAAAAT
6053286 AATTAAAAAAT
1 AATTAAAAAAT
6053297 AAT
1 AAT
6053300 AGTTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAAAAAAT
Found at i:6056724 original size:32 final size:32
Alignment explanation
Indices: 6056674--6056745 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
6056664 AAAATACCCT
*
6056674 AATAATAATAAATCAAATAAGCCAAATTTTAA
1 AATAATAATAAATAAAATAAGCCAAATTTTAA
6056706 AATAA-AATAAAATAAAATAAGCCAAATTTT-A
1 AATAATAAT-AAATAAAATAAGCCAAATTTTAA
6056737 AATAATAAT
1 AATAATAAT
6056746 TTTATAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (32 bp):
AATAATAATAAATAAAATAAGCCAAATTTTAA
Found at i:6058375 original size:50 final size:50
Alignment explanation
Indices: 6058251--6058499 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
6058241 GATAATAACA
* * ** * *
6058251 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
6058302 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6058352 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6058402 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
6058457 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6058500 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:6058429 original size:100 final size:104
Alignment explanation
Indices: 6058250--6058499 Score: 366
Period size: 100 Copynumber: 2.4 Consensus size: 104
6058240 TGATAATAAC
**
6058250 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
*
6058315 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTATAGGGGACCTCTCAATCTTAAGG
* *
6058352 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
6058415 TCCCAGACATGGTCTTATAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTATAGGGGACCTCTCA--ATCTTAAGG
* *
6058457 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
6058500 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.01
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTATAGGGGACCTCTCAATCTTAAGG
Found at i:6058615 original size:13 final size:13
Alignment explanation
Indices: 6058594--6058625 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6058584 GCTTGGATCA
*
6058594 TCATCAAATAAAT
1 TCATAAAATAAAT
6058607 TCATAAAATAAAT
1 TCATAAAATAAAT
6058620 TCATAA
1 TCATAA
6058626 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6059825 original size:22 final size:22
Alignment explanation
Indices: 6059797--6059841 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6059787 TTCATTTTCA
*
6059797 ATTATTTTAACATTTTTTAAAT
1 ATTATTTTAACATATTTTAAAT
* *
6059819 ATTATTTTATCGTATTTTAAAT
1 ATTATTTTAACATATTTTAAAT
6059841 A
1 A
6059842 CATATCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTATTTTAACATATTTTAAAT
Found at i:6072931 original size:15 final size:15
Alignment explanation
Indices: 6072919--6072949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6072909 TGAAATTAAG
6072919 ATAATAAAAATTATA
1 ATAATAAAAATTATA
*
6072934 ATGATAAAAATTATA
1 ATAATAAAAATTATA
6072949 A
1 A
6072950 GTATTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAATAAAAATTATA
Found at i:6078689 original size:16 final size:16
Alignment explanation
Indices: 6078651--6078690 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6078641 GATTCGTCAA
*
6078651 AAAAT-ATAATACATT
1 AAAATAATAATAAATT
6078666 ACAAATAATAATAAATT
1 A-AAATAATAATAAATT
6078683 AAAATAAT
1 AAAATAAT
6078691 TTCCTTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 11 0.50
17 10 0.45
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAATAATAAATT
Found at i:6089429 original size:432 final size:432
Alignment explanation
Indices: 6088624--6089493 Score: 1706
Period size: 432 Copynumber: 2.0 Consensus size: 432
6088614 GCACTGGTTT
6088624 TCTATTTCTTGATGTATTTGTAGATCAATTTTGGTATTCATTCTTTCTACCTTCTAGAGTTTAGG
1 TCTATTTCTTGATGTATTTGTAGATCAATTTTGGTATTCATTCTTTCTACCTTCTAGAGTTTAGG
6088689 TTAAGGACTGACATATAGAGAAATTGACTATAAAGTCATTATTTAGATAATCTCCTTTTTTTTTT
66 TTAAGGACTGACATATAGAGAAATTGACTATAAAGTCATTATTTAGATAATCTCC-TTTTTTTTT
6088754 TTAAATAAAAATAACCAGTTGACCTGCCGGGTTTTTTGTCCTGGTTATTTTTTATTATTGTTTTA
130 TTAAATAAAAATAACCAGTTGACCTGCCGGGTTTTTTGTCCTGGTTATTTTTTATTATTGTTTTA
6088819 TGAATTCTTTTATTTAATTATTGTTGAAACGGTGGTCTAACTGGTTCAGTACTTACAATATTGAT
195 TGAATTCTTTTATTTAATTATTGTTGAAACGGTGGTCTAACTGGTTCAGTACTTACAATATTGAT
6088884 GTGGAAAGTGATTGGGACAGGCTGTTTTTGCTTAAGTGTACTTTATCATAACAAATAATTCCTGT
260 GTGGAAAGTGATTGGGACAGGCTGTTTTTGCTTAAGTGTACTTTATCATAACAAATAATTCCTGT
6088949 AAGCTACTTGGAAATCATGACATAAGAATTATTTAGATCAAGATGCTAATATCTGACTCTTGTGG
325 AAGCTACTTGGAAATCATGACATAAGAATTATTTAGATCAAGATGCTAATATCTGACTCTTGTGG
6089014 GTAACAGAATGATCTTGTTCCTATTCGGATCTTGATTTTGTTCA
390 GTAACAGAATGATCTTGTTCCTATTCGGATC-TGATTTTGTTCA
6089058 TCTATTTCTTGATGTATTTGTAGATCAATTTTGGTATTCATTCTTTCTACCTTCTAGAGTTTAGG
1 TCTATTTCTTGATGTATTTGTAGATCAATTTTGGTATTCATTCTTTCTACCTTCTAGAGTTTAGG
6089123 TTAAGGACTGACATATAGAGAAATTGACTATAAAGTCATTATTTAGATAATCTCC-TTTTTTTTT
66 TTAAGGACTGACATATAGAGAAATTGACTATAAAGTCATTATTTAGATAATCTCCTTTTTTTTTT
6089187 TAAATAAAAATAACCAGTTGACCTGCCGGGTTTTTTGTCCTGGTTATTTTTTATTATTGTTTTAT
131 TAAATAAAAATAACCAGTTGACCTGCCGGGTTTTTTGTCCTGGTTATTTTTTATTATTGTTTTAT
*
6089252 GAATTCTTTTATTTAATTATTGTTGAACCGGTGGTCTAACTGGTTCAGTACTTACAATATTGATG
196 GAATTCTTTTATTTAATTATTGTTGAAACGGTGGTCTAACTGGTTCAGTACTTACAATATTGATG
6089317 TGGAAAGTGATTGGGACAGGCTGTTTTTGCTTAAGTGTACTTTATCATAACAAATAATTCCTGTA
261 TGGAAAGTGATTGGGACAGGCTGTTTTTGCTTAAGTGTACTTTATCATAACAAATAATTCCTGTA
6089382 AGCTACTTGGAAATCATGACATAAGAATTATTTAGATCAAGATGCTAATATCTGACTCTTGTGGG
326 AGCTACTTGGAAATCATGACATAAGAATTATTTAGATCAAGATGCTAATATCTGACTCTTGTGGG
6089447 TAACAGAATGATCTTGTTCCTATTCGGATCTGATTTTGTTCA
391 TAACAGAATGATCTTGTTCCTATTCGGATCTGATTTTGTTCA
6089489 TCTAT
1 TCTAT
6089494 CTTGGTTAAT
Statistics
Matches: 435, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
431 17 0.04
432 298 0.69
434 120 0.28
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (432 bp):
TCTATTTCTTGATGTATTTGTAGATCAATTTTGGTATTCATTCTTTCTACCTTCTAGAGTTTAGG
TTAAGGACTGACATATAGAGAAATTGACTATAAAGTCATTATTTAGATAATCTCCTTTTTTTTTT
TAAATAAAAATAACCAGTTGACCTGCCGGGTTTTTTGTCCTGGTTATTTTTTATTATTGTTTTAT
GAATTCTTTTATTTAATTATTGTTGAAACGGTGGTCTAACTGGTTCAGTACTTACAATATTGATG
TGGAAAGTGATTGGGACAGGCTGTTTTTGCTTAAGTGTACTTTATCATAACAAATAATTCCTGTA
AGCTACTTGGAAATCATGACATAAGAATTATTTAGATCAAGATGCTAATATCTGACTCTTGTGGG
TAACAGAATGATCTTGTTCCTATTCGGATCTGATTTTGTTCA
Found at i:6090649 original size:13 final size:13
Alignment explanation
Indices: 6090631--6090668 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
6090621 TTCTTCATTA
6090631 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
6090644 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
6090657 CTTTTGAAAAGT
1 CTTTTGAAAAGT
6090669 TTGGTTTAAA
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:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:6096986 original size:17 final size:18
Alignment explanation
Indices: 6096951--6096990 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6096941 ATTTTACACA
*
6096951 TAAATAAATACCTTTACC
1 TAAATAAATACCTTAACC
*
6096969 TAAATAAA-CCCTTAACC
1 TAAATAAATACCTTAACC
6096986 TAAAT
1 TAAAT
6096991 CATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAATAAATACCTTAACC
Found at i:6101710 original size:20 final size:19
Alignment explanation
Indices: 6101667--6101711 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6101657 AATGGATATC
*
6101667 TTTAATAAATATAATTTCA
1 TTTATTAAATATAATTTCA
* *
6101686 CTTATTAAATATTATTTTCA
1 TTTATTAAATA-TAATTTCA
6101706 TTTATT
1 TTTATT
6101712 TTATTATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATTAAATATAATTTCA
Found at i:6104053 original size:115 final size:115
Alignment explanation
Indices: 6103763--6104668 Score: 861
Period size: 115 Copynumber: 7.8 Consensus size: 115
6103753 TTACCATCCT
* * * *
6103763 GCGCCGCAAAATCTC-AAGACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTA-ACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGC
* * * *
6103827 GATTATGAGAAAACGCCGCTAAAGCA-AGTATTAGCGGCGCATTGTG-GAAA
65 GCTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAG-AA
* ** * * * * *
6103877 GCACCGCAAAA-ATCTTAATGAAAACGCATCGTTTTGGTCTCGCTGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* *
6103941 CTTACGAAAAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTTGAGAA
66 CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
* * *
6103991 GCGCCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* * ** *
6104056 -TTCACTAGAAAACGCCGCTAAAGCATAGTATTTGCGGCGC-TTCTAAAAAA
66 CTT-ACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTT-TTGAGAA
* * * * * * *
6104106 GCGCCGCAAAATATCCTAACCAAAATGCACCGTTTTGGTCTTGGTGTATATTACAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * *
6104171 CTTACGGGAAAACACCGTTAAAGCATAATATTAGCGGCG-TTTTGTGAGAA
66 CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTT-TGAGAA
* * *
6104221 GAGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-GGTCTTGAGGTATACTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * * * *
6104285 C-AAAGGGAAAACGCCGTTAACGCATACTATTAGCGGCGCGTTTGGAGAA
66 CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
* * *
6104334 GCGCCGTAAAATTTCTTAACCAAAACGCAGCGTTTTCAGCGTTTTGGTCTTGATGTATACTATAA
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCG-TTT-A-------GGTCTTGATGTATACTAGAA
* * * *
6104399 TTAGTTGCGCATACTG-GAAAACGCCGCTAAATCATAGTATTAGCGGCGC--TTTGCAAAAA
57 TTAGTGGCGCTTAC-GAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTG--AGAA
* * * * * * * *
6104458 GCACCGCAAAATATGC-TCACCGAAACGTAGAGTTT-GGCCTTGAGGTATATTAGAATTAGTGGC
1 GCGCCGCAAAATAT-CTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGC
* * * * * *
6104521 GCTTATGGGAACACGCTGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAA
65 GCTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
* * * * *
6104572 GTGCCGCAAAATATATTAACCAAAATGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
*
6104637 -TTCACGAGAAAACACCGCTAAAGCATAGTATT
66 CTT-ACGAGAAAACGCCGCTAAAGCATAGTATT
6104669 GAAGCGCCGG
Statistics
Matches: 640, Mismatches: 121, Indels: 61
0.78 0.15 0.07
Matches are distributed among these distances:
113 132 0.21
114 163 0.25
115 248 0.39
116 6 0.01
122 3 0.00
123 30 0.05
124 56 0.09
125 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (115 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
Found at i:6104442 original size:237 final size:233
Alignment explanation
Indices: 6103781--6104606 Score: 778
Period size: 237 Copynumber: 3.6 Consensus size: 233
6103771 AAATCTCAAG
** * * *
6103781 ACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG-ATTATGAGAAAACGCCG
1 ACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA--AAGGGAAAACGCCG
* * * * **
6103845 CTAAAGCA-AGTATTAGCGGCGCATTGTGGA-AAGCACCGCAAAA-ATCTTAATGAAAA--C-GC
63 CTAAAGCATACTATTAGCGGCGCGTT-TAGAGAAGCGCCGCAAAATATCTTAACCAAAATGCAGC
* * * * *
6103904 --AT-CGTTTTGGTCTCGCTGTATATTAGAATTAGTGGCGCTTACGAAAAAACGCCGCTAAAGCA
127 GTTTCCGTTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTACG-GAAAACGCCGCTAAAGCA
* * *
6103966 TACTATTAGCGGCGCGTTT-TGAGAAGCGCCGCAAAATATATTA
191 TAATATTAGCGGCGC-TTTGTGAGAAGAGCCGCAAAATATCTTA
* * * * *
6104009 ACCAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTTCACTA--GAAAACGCC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATACTAGAATTAGTGGCG--CA-AAGGGAAAACGCC
* * * * *
6104072 GCTAAAGCATAGTATTTGCGGCGC-TTCTAAAAAAGCGCCGCAAAATATCCTAACCAAAATGCA-
62 GCTAAAGCATACTATTAGCGGCGCGTT-TAGAGAAGCGCCGCAAAATATCTTAACCAAAATGCAG
* * *
6104135 -----CCGTTTTGGTCTTGGTGTATATTACAATTAGTGGCGCTTACGGGAAAACACCGTTAAAGC
126 CGTTTCCGTTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTAC-GGAAAACGCCGCTAAAGC
*
6104195 ATAATATTAGCGGCGTTTTGTGAGAAGAGCCGCAAAATATCTTA
190 ATAATATTAGCGGCGCTTTGTGAGAAGAGCCGCAAAATATCTTA
*
6104239 ACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGTTA
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGCTA
* * * * *
6104304 ACGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGTAAAATTTCTTAACCAAAACGCAGCGTTT
66 AAGCATACTATTAGCGGCGCGTTTAGAGAAGCGCCGCAAAATATCTTAACCAAAATGCAGCG-TT
* * * * *
6104369 TCAGCGTTTTGGTCTTGATGTATACTATAATTAGTTGCGCATACTGGAAAACGCCGCTAAATCAT
130 TC--CGTTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTAC-GGAAAACGCCGCTAAAGCAT
* ** * *
6104434 AGTATTAGCGGCGCTTTGCAAAAAGCA-CCGCAAAATATGC-TC
192 AATATTAGCGGCGCTTTGTGAGAAG-AGCCGCAAAATAT-CTTA
* * * * * * * *
6104476 ACCGAAACGTAGAGTTTGGCCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAACACGCTGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGGGAAAACGCCGCT
* * * *
6104541 AAAGCATACTATTAGCGGCGTGTTTTGAGAAGTGCCGCAAAATATATTAACCAAAATGCAGCGTT
65 AAAGCATACTATTAGCGGCGCGTTTAGAGAAGCGCCGCAAAATATCTTAACCAAAATGCAGCGTT
6104606 T
130 T
6104607 AAGTCTTGAT
Statistics
Matches: 498, Mismatches: 72, Indels: 47
0.81 0.12 0.08
Matches are distributed among these distances:
226 1 0.00
227 5 0.01
228 120 0.24
229 56 0.11
230 113 0.23
231 2 0.00
232 1 0.00
235 1 0.00
237 130 0.26
238 69 0.14
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (233 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGCTA
AAGCATACTATTAGCGGCGCGTTTAGAGAAGCGCCGCAAAATATCTTAACCAAAATGCAGCGTTT
CCGTTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTACGGAAAACGCCGCTAAAGCATAATA
TTAGCGGCGCTTTGTGAGAAGAGCCGCAAAATATCTTA
Found at i:6104484 original size:124 final size:123
Alignment explanation
Indices: 6104253--6104606 Score: 295
Period size: 114 Copynumber: 2.9 Consensus size: 123
6104243 AAACGCAGAG
* *
6104253 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGTTAACGCATACTATTAG
1 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGCTAAAGCATACTATTAG
* * * * *
6104318 CGGCGCGTTTGGAGAAGCGCCGTAAAATTTCTTAACCAAAACGCAGCGTTTTCAGCGT
66 CGGCGCGTTTGAAAAAGCACCGCAAAATTGCTTAACCAAAACGCAGCGTTTTCAGCGT
* * * ** * *
6104376 TTTGGTCTTGATGTATACTATAATTAGTTGCGCATACTGGAAAACGCCGCTAAATCATAGTATTA
1 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA-AAGGGAAAACGCCGCTAAAGCATACTATTA
* * *
6104441 GCGGCGC-TTTGCAAAAAGCACCGCAAAATATGC-TCACC-GAA---A-CG---T-AGAG-
65 GCGGCGCGTTTG-AAAAAGCACCGCAAAAT-TGCTTAACCAAAACGCAGCGTTTTCAGCGT
* * * * * *
6104490 TTTGGCCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAACACGCTGCTAAAGCATACTATTA
1 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGGGAAAACGCCGCTAAAGCATACTATTA
* * ** * *
6104555 GCGGCGTGTTTTG-AGAAGTGCCGCAAAATAT-ATTAACCAAAATGCAGCGTTT
65 GCGGCGCG-TTTGAAAAAGCACCGCAAAAT-TGCTTAACCAAAACGCAGCGTTT
6104607 AAGTCTTGAT
Statistics
Matches: 180, Mismatches: 36, Indels: 31
0.73 0.15 0.13
Matches are distributed among these distances:
114 77 0.43
115 5 0.03
116 5 0.03
118 1 0.01
119 4 0.02
120 1 0.01
123 37 0.21
124 48 0.27
125 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (123 bp):
TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGCTAAAGCATACTATTAG
CGGCGCGTTTGAAAAAGCACCGCAAAATTGCTTAACCAAAACGCAGCGTTTTCAGCGT
Found at i:6106022 original size:83 final size:86
Alignment explanation
Indices: 6105882--6106065 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 86
6105872 AACTTTTCCG
** * * *
6105882 AATGCGGCGCCGTTTCAGTGTTGGCAAAAATTTTATAGTGGCGTTTTAAAGGGAAACGCCACAA-
1 AATGCGGCGCCGTTTCAGTACTGGAAAAAATTTAATAGTGGCGTTTTAAAGGAAAACGCCACAAT
*
6105946 TAATTA-AT-TAAA-TTTCCC
66 TAATTATATATAAACTTCCCC
* * ** *
6105964 TATGCGGCGCCGTTTCTGTACTGGAAAATAATTTAATAGTGGCGTTTTTTTA-GAAAACGCCGCA
1 AATGCGGCGCCGTTTCAGTACTGGAAAA-AATTTAATAGTGGCG-TTTTAAAGGAAAACGCCACA
*
6106028 ATTATTTATATATAAACTTCCCC
64 ATTAATTATATATAAACTTCCCC
*
6106051 AATGCGGCGCTGTTT
1 AATGCGGCGCCGTTT
6106066 GTGAACTTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
82 23 0.28
83 25 0.30
84 10 0.12
85 2 0.02
86 4 0.05
87 18 0.22
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (86 bp):
AATGCGGCGCCGTTTCAGTACTGGAAAAAATTTAATAGTGGCGTTTTAAAGGAAAACGCCACAAT
TAATTATATATAAACTTCCCC
Found at i:6110085 original size:43 final size:43
Alignment explanation
Indices: 6110030--6110297 Score: 333
Period size: 43 Copynumber: 6.2 Consensus size: 43
6110020 AACAAACAAA
* * *
6110030 TAGCGGAGTTTGT-GAAAGAATGCCGCTAAAAGAGCATGATCTT
1 TAGCGGCGTTTGTGGAAAGAACGCCGCT-AAAGAACATGATCTT
* *
6110073 TAGCGGCATTTGTGGAAAGAACGCCACTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTT
* * * * *
6110116 TAGCGGCGTTTGTGAAAAGTACGCCGCTAAAGACCCTGACCTT
1 TAGCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTT
*
6110159 TAGCGGCGTTTGTGGAAAGAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTT
* * * * *
6110202 TAGCGGTGTTTGTAGAAAGAGCGTCGCTAAAGAACATAATCTT
1 TAGCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTT
* * *
6110245 TAGCGGCGTTTGTGGGAAA-AGCGCCGCTAAAAAACATGACCTT
1 TAGCGGCGTTTGT-GGAAAGAACGCCGCTAAAGAACATGATCTT
6110288 TAGCGGCGTT
1 TAGCGGCGTT
6110298 AATAAACGCC
Statistics
Matches: 195, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
43 179 0.92
44 16 0.08
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTT
Found at i:6114083 original size:9 final size:9
Alignment explanation
Indices: 6114069--6114096 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6114059 GATATGTGGC
6114069 AAAAAATAA
1 AAAAAATAA
6114078 AAAAAATAA
1 AAAAAATAA
6114087 AAAAAATAA
1 AAAAAATAA
6114096 A
1 A
6114097 TTAAAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:6114265 original size:19 final size:19
Alignment explanation
Indices: 6114203--6114291 Score: 92
Period size: 20 Copynumber: 4.7 Consensus size: 19
6114193 TTCTTACAAC
*
6114203 TTTATAAAATTTTAT-ATT
1 TTTATAATATTTTATAATT
* *
6114221 TCTCT-ATATTTTATAATT
1 TTTATAATATTTTATAATT
**
6114239 TTTAATAATATTTTACCATT
1 TTT-ATAATATTTTATAATT
*
6114259 TTTATAAAATTTTATAATT
1 TTTATAATATTTTATAATT
6114278 TTTATAAATATTTT
1 TTTAT-AATATTTT
6114292 TTACGATTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
17 8 0.14
18 8 0.14
19 19 0.34
20 21 0.38
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAATATTTTATAATT
Found at i:6114277 original size:8 final size:9
Alignment explanation
Indices: 6114229--6114284 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
6114219 TTTCTCTATA
6114229 TTTTATAAT
1 TTTTATAAT
6114238 TTTTAATAAT
1 TTTT-ATAAT
**
6114248 ATTTTACCAT
1 -TTTTATAAT
*
6114258 TTTTATAAAA
1 TTTTAT-AAT
6114268 TTTTATAAT
1 TTTTATAAT
6114277 TTTTATAA
1 TTTTATAA
6114285 ATATTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 19 0.50
10 15 0.39
11 4 0.11
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:6114321 original size:20 final size:19
Alignment explanation
Indices: 6114225--6114321 Score: 54
Period size: 20 Copynumber: 4.9 Consensus size: 19
6114215 TATATTTCTC
*
6114225 TATATTTTATAATTTTTA-A
1 TATATTTT-TTATTTTTATA
**
6114244 TAATATTTTACCATTTTTATA
1 T-ATATTTT-TTATTTTTATA
* *
6114265 -AAATTTTATAATTTTTATA
1 TATATTTT-TTATTTTTATA
* **
6114284 AATATTTTTTACGATTTATA
1 TATATTTTTTA-TTTTTATA
6114304 TATATTTTTCTATTTTTA
1 TATATTTTT-TATTTTTA
6114322 ACATTTGATT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 19 0.31
20 39 0.64
21 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (19 bp):
TATATTTTTTATTTTTATA
Found at i:6114519 original size:85 final size:88
Alignment explanation
Indices: 6114386--6114563 Score: 229
Period size: 86 Copynumber: 2.1 Consensus size: 88
6114376 AATTTTTAAT
* * *
6114386 AAAAATAGGGGTTTAATTACTTTTATTTGAAAAAGTTTCAGAGTC-TTTTTAT-ACATTTTGAAA
1 AAAAATAGGGATTTAATTACTTTTATTTGAAAAAGTTTAAGAGACTTTTTTATGA-ATTTTGAAA
* * *
6114449 GTTCAAGTACCCAATTAAGTG-AA
65 ATTCAAGTACCCAAATAAATGTAA
* *
6114472 AAAAATAGGGATTTAATTA-TTTTTTTTGAAAAGGTTTAAGAGACTTTTTTATGAATTTTGAAAA
1 AAAAATAGGGATTTAATTACTTTTATTTGAAAAAGTTTAAGAGACTTTTTTATGAATTTTGAAAA
* *
6114536 TTTAAGTACCTAAATAAATGTAA
66 TTCAAGTACCCAAATAAATGTAA
6114559 AAAAA
1 AAAAA
6114564 AGGACTTAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
85 21 0.27
86 50 0.63
87 8 0.10
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (88 bp):
AAAAATAGGGATTTAATTACTTTTATTTGAAAAAGTTTAAGAGACTTTTTTATGAATTTTGAAAA
TTCAAGTACCCAAATAAATGTAA
Found at i:6114581 original size:86 final size:86
Alignment explanation
Indices: 6114386--6114583 Score: 197
Period size: 86 Copynumber: 2.3 Consensus size: 86
6114376 AATTTTTAAT
** ** * * * *
6114386 AAAAATAGGGGTTTAATTACTTTTATTTGAAAAAGTTTCAGAGTCTTTTTATACATTTTGAAAGT
1 AAAAATAGGGACTTAAAAACTTTTTTTTGAAAAAGTTTAAGAGACTTTTTATACATTTTGAAAAT
* *
6114451 TCAAGTACCCAATTAAGTGAA
66 TCAAGTACCCAAATAAATGAA
* ** *
6114472 AAAAATAGGGATTTAATTA-TTTTTTTTGAAAAGGTTTAAGAGACTTTTTTATGA-ATTTTGAAA
1 AAAAATAGGGACTTAAAAACTTTTTTTTGAAAAAGTTTAAGAGAC-TTTTTAT-ACATTTTGAAA
* *
6114535 ATTTAAGTACCTAAATAAATGTAA
64 ATTCAAGTACCCAAATAAATG-AA
6114559 AAAAA-A-GGACTTAAAAACTTTTTTT
1 AAAAATAGGGACTTAAAAACTTTTTTT
6114584 AAAAATATGA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 29 0.31
86 58 0.61
87 8 0.08
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (86 bp):
AAAAATAGGGACTTAAAAACTTTTTTTTGAAAAAGTTTAAGAGACTTTTTATACATTTTGAAAAT
TCAAGTACCCAAATAAATGAA
Found at i:6119968 original size:21 final size:21
Alignment explanation
Indices: 6119943--6120003 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
6119933 TCATTATGTT
6119943 AAGCATAAAGTTCTGTCCCCA
1 AAGCATAAAGTTCTGTCCCCA
* * *
6119964 TAGCAT-TAGTTAACTGT--CAA
1 AAGCATAAAGTT--CTGTCCCCA
6119984 AAGCATAAAGTTCTGTCCCC
1 AAGCATAAAGTTCTGTCCCC
6120004 GTAGTACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
19 4 0.14
20 11 0.38
21 10 0.34
22 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
AAGCATAAAGTTCTGTCCCCA
Found at i:6126666 original size:134 final size:134
Alignment explanation
Indices: 6126426--6126697 Score: 517
Period size: 134 Copynumber: 2.0 Consensus size: 134
6126416 TGTCTGCTGA
*
6126426 AGAGTTGAAACTCAATAATTTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
1 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
*
6126491 TAGGAGGTTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
6126556 GAAC
131 GAAC
*
6126560 AGAGTTGAAACTCAATAATTTTATTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
1 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
6126625 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
6126690 GAAC
131 GAAC
6126694 AGAG
1 AGAG
6126698 GTACGCCTTC
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (134 bp):
AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
GAAC
Found at i:6161243 original size:18 final size:19
Alignment explanation
Indices: 6161220--6161261 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6161210 AATTTGTAGC
6161220 AAAAATATT-TTAAATTAA
1 AAAAATATTGTTAAATTAA
* *
6161238 AAAAATGTTGTTGAATTAA
1 AAAAATATTGTTAAATTAA
6161257 AAAAA
1 AAAAA
6161262 AGATAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAAATATTGTTAAATTAA
Found at i:6162432 original size:2 final size:2
Alignment explanation
Indices: 6162425--6162456 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6162415 TCAACTTCCA
6162425 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6162457 CATGGGGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6166158 original size:3 final size:3
Alignment explanation
Indices: 6166150--6166176 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6166140 AACTGAAGAA
6166150 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
6166177 TTGTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:6172854 original size:30 final size:30
Alignment explanation
Indices: 6172820--6172882 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
6172810 ATTTAACAAG
6172820 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAATAAAATTAA
** * *
6172850 CAAATGTCTTTAAGATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAATAAAATTAA
6172880 CAA
1 CAA
6172883 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAATAAAATTAA
Found at i:6173538 original size:21 final size:23
Alignment explanation
Indices: 6173514--6173561 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
6173504 AGGTTACTGC
6173514 TTTTTGATGTTGTT-T-TCATTA
1 TTTTTGATGTTGTTATGTCATTA
*
6173535 TTTTTGTTGTTGTTATGTCATTA
1 TTTTTGATGTTGTTATGTCATTA
6173558 TTTT
1 TTTT
6173562 GGTATGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 13 0.54
22 1 0.04
23 10 0.42
ACGTcount: A:0.12, C:0.04, G:0.15, T:0.69
Consensus pattern (23 bp):
TTTTTGATGTTGTTATGTCATTA
Found at i:6176522 original size:189 final size:189
Alignment explanation
Indices: 6176202--6176581 Score: 724
Period size: 189 Copynumber: 2.0 Consensus size: 189
6176192 TTGGTGGTGT
* *
6176202 TGATCTTGGCTATTTTGGACTTTGAGGTGCTTTGGTACTCATGATTGACCTTCTTTGATCTGTGA
1 TGATCTTGGCTATTTTGGACTTTGAGGTGCTTTGGTACTCACGATCGACCTTCTTTGATCTGTGA
*
6176267 AAAAGGGTTGATGCATGGAGGTTGAGTTTGGCACTGTTAGATCTTTTAAAGGATATATATATAGC
66 AAAAGGGTTGATGCATGGAGGATGAGTTTGGCACTGTTAGATCTTTTAAAGGATATATATATAGC
6176332 TGAAGACTTTGCTCATTAACAAAGAATTTCTAAACCTAATTTACTTGAGTTGTTTATAG
131 TGAAGACTTTGCTCATTAACAAAGAATTTCTAAACCTAATTTACTTGAGTTGTTTATAG
6176391 TGATCTTGGCTATTTTGGACTTTGAGGTGCTTTGGTACTCACGATCGACCTTCTTTGATCTGTGA
1 TGATCTTGGCTATTTTGGACTTTGAGGTGCTTTGGTACTCACGATCGACCTTCTTTGATCTGTGA
*
6176456 AAAAGGGTTGATGCATTGAGGATGAGTTTGGCACTGTTAGATCTTTTAAAGGATATATATATAGC
66 AAAAGGGTTGATGCATGGAGGATGAGTTTGGCACTGTTAGATCTTTTAAAGGATATATATATAGC
6176521 TGAAGACTTTGCTCATTAACAAAGAATTTCTAAACCTAATTTACTTGAGTTGTTTATAG
131 TGAAGACTTTGCTCATTAACAAAGAATTTCTAAACCTAATTTACTTGAGTTGTTTATAG
6176580 TG
1 TG
6176582 TTCAAATGGG
Statistics
Matches: 187, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
189 187 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (189 bp):
TGATCTTGGCTATTTTGGACTTTGAGGTGCTTTGGTACTCACGATCGACCTTCTTTGATCTGTGA
AAAAGGGTTGATGCATGGAGGATGAGTTTGGCACTGTTAGATCTTTTAAAGGATATATATATAGC
TGAAGACTTTGCTCATTAACAAAGAATTTCTAAACCTAATTTACTTGAGTTGTTTATAG
Found at i:6190445 original size:46 final size:46
Alignment explanation
Indices: 6190378--6190765 Score: 498
Period size: 46 Copynumber: 8.6 Consensus size: 46
6190368 TTTGAGTACT
*
6190378 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
6190424 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGT-G--G---TAGCATTAGCTACACTTA
6190476 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* * *
6190522 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
6190568 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* * *
6190604 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* *
6190650 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* * *
6190696 TCTGATCAAGTGACAAAGTGATAAGTGATAGC-CTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
6190741 TCTGATC-AG-G-GACAAGTGATAAGTG
1 TCTGATCAAGTGAGA-AAGTGATAAGTG
6190766 ATCATATGTA
Statistics
Matches: 309, Mismatches: 16, Indels: 37
0.85 0.04 0.10
Matches are distributed among these distances:
36 28 0.09
38 1 0.00
39 1 0.00
40 4 0.01
42 5 0.02
43 15 0.05
44 3 0.01
45 18 0.06
46 186 0.60
47 1 0.00
49 2 0.01
51 1 0.00
52 44 0.14
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
Found at i:6190604 original size:36 final size:36
Alignment explanation
Indices: 6190558--6190630 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
6190548 GGTAGCTTTA
6190558 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
6190594 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
6190630 G
1 G
6190631 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:6190612 original size:82 final size:81
Alignment explanation
Indices: 6190512--6190765 Score: 314
Period size: 82 Copynumber: 3.0 Consensus size: 81
6190502 GGTAGCATTA
* * *
6190512 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAA
6190577 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
6190594 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAG-CTTAGCTACACTTATCTGATCAA
*
6190659 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
*
6190679 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCCTAGCTACACTTATCT
1 -G-C-TA--TA--CTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCT
* *
6190744 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
6190765 G
1 G
6190766 ATCATATGTA
Statistics
Matches: 152, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
82 74 0.49
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 4 0.03
91 20 0.13
92 34 0.22
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:6190699 original size:128 final size:128
Alignment explanation
Indices: 6190466--6190722 Score: 433
Period size: 128 Copynumber: 2.0 Consensus size: 128
6190456 ATTAGCATTA
*
6190466 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
6190531 GAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
6190594 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
* * * *
6190659 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGT
66 GAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
6190722 G
1 G
6190723 ATAGCCTAGC
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 120 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (128 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
GAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:6202259 original size:16 final size:16
Alignment explanation
Indices: 6202238--6202268 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6202228 AGACGCATGA
*
6202238 TCAAAATAGAAAAAAG
1 TCAAAAAAGAAAAAAG
6202254 TCAAAAAAGAAAAAA
1 TCAAAAAAGAAAAAA
6202269 AAACATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
TCAAAAAAGAAAAAAG
Found at i:6205862 original size:32 final size:30
Alignment explanation
Indices: 6205766--6205905 Score: 108
Period size: 31 Copynumber: 4.5 Consensus size: 30
6205756 TTAATATAAC
* * *
6205766 ATTTGGTACTTGAGCTTGGCACTTTTTCCTA
1 ATTTGGTAC-TAAACTTGACACTTTTTCCTA
* **
6205797 ATTTGGTACTTAAAATT---TTTTTTGGTCC-A
1 ATTTGGTAC-TAAACTTGACACTTTT--TCCTA
6205826 ATTTGGTATCTAAACTTGACACTTTTTTCCTA
1 ATTTGGTA-CTAAACTTGACAC-TTTTTCCTA
*
6205858 ATTTGGTACCTAAACTTGACACTTTTTCTTA
1 ATTTGGTA-CTAAACTTGACACTTTTTCCTA
*
6205889 AGTTGGTACTTAAACTT
1 ATTTGGTAC-TAAACTT
6205906 TTGGGGGTGC
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
28 4 0.04
29 15 0.17
30 5 0.06
31 39 0.44
32 22 0.25
33 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (30 bp):
ATTTGGTACTAAACTTGACACTTTTTCCTA
Found at i:6205895 original size:31 final size:32
Alignment explanation
Indices: 6205828--6205905 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 32
6205818 TTGGTCCAAT
* *
6205828 TTGGTATCTAAACTTGACACTTTTTTCCTAAT
1 TTGGTACCTAAACTTGACACTTTTTTCCTAAG
*
6205860 TTGGTACCTAAACTTGACAC-TTTTTCTTAAG
1 TTGGTACCTAAACTTGACACTTTTTTCCTAAG
*
6205891 TTGGTACTTAAACTT
1 TTGGTACCTAAACTT
6205906 TTGGGGGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.45
Consensus pattern (32 bp):
TTGGTACCTAAACTTGACACTTTTTTCCTAAG
Found at i:6217031 original size:16 final size:18
Alignment explanation
Indices: 6217004--6217036 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6216994 AACCCATGTT
6217004 TATAATTTTTTA-ATAAA
1 TATAATTTTTTACATAAA
6217021 TATAA-TTTTTACATAA
1 TATAATTTTTTACATAA
6217037 TATTTCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (18 bp):
TATAATTTTTTACATAAA
Found at i:6227288 original size:16 final size:16
Alignment explanation
Indices: 6227267--6227303 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
6227257 TTGGTTCGCT
6227267 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
6227283 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
6227299 GTAAT
1 GTAAT
6227304 AACAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:6227557 original size:18 final size:17
Alignment explanation
Indices: 6227536--6227570 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6227526 TTATTATTAA
*
6227536 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6227554 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6227571 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6227742 original size:47 final size:46
Alignment explanation
Indices: 6227673--6227931 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 46
6227663 TTAATTAAAA
*
6227673 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
6227720 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
6227765 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
6227811 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
6227856 TA-AT-AATGATATATAATTTCATAAA-ATTTTTTATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAATTATAATAATAAATTTTCT
6227902 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
6227932 ATATTAAATA
Statistics
Matches: 166, Mismatches: 23, Indels: 47
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 43 0.26
45 19 0.11
46 22 0.13
47 66 0.40
48 10 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:6227803 original size:91 final size:91
Alignment explanation
Indices: 6227707--6227969 Score: 481
Period size: 91 Copynumber: 2.9 Consensus size: 91
6227697 TAATTATAAC
* *
6227707 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
6227772 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
6227798 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
6227863 GATATATAATTTCATAAAATTTTTTA
66 GATATATAATTTCATAAAATTCTTGA
6227889 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
6227954 GATATATAATTTCATA
66 GATATATAATTTCATA
6227970 TATGTTCTTA
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 167 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:6241840 original size:154 final size:154
Alignment explanation
Indices: 6241555--6241868 Score: 601
Period size: 154 Copynumber: 2.0 Consensus size: 154
6241545 AAACATTTTG
*
6241555 ATAGACTGTACAAAAAAAATTGCTTATTACTTTAACCAATAATTGATATACTGATCCCGAACAAC
1 ATAGGCTGTACAAAAAAAATTGCTTATTACTTTAACCAATAATTGATATACTGATCCCGAACAAC
6241620 CATTGACATACAAAAGTTAATGCTGCCAACACCCCAACCACTCTGCACTATCAGAGAAGAAAGAA
66 CATTGACATACAAAAGTTAATGCTGCCAACACCCCAACCACTCTGCACTATCAGAGAAGAAAGAA
6241685 CAGAGAGAAAGGTCCTAGATAGAC
131 CAGAGAGAAAGGTCCTAGATAGAC
*
6241709 ATAGGCTGTACAAAACAAATTGCTTATTACTTTAACCAATAATTGATATACTGATCCCGAACAAC
1 ATAGGCTGTACAAAAAAAATTGCTTATTACTTTAACCAATAATTGATATACTGATCCCGAACAAC
*
6241774 CATTGACATACAAAAGTTAATGCTGCCAACACCCCAACCACTCTGCATTATCAGAGAAGAAAGAA
66 CATTGACATACAAAAGTTAATGCTGCCAACACCCCAACCACTCTGCACTATCAGAGAAGAAAGAA
6241839 CAGAGAGAAAGGTCCTAGATAGAC
131 CAGAGAGAAAGGTCCTAGATAGAC
6241863 ATAGGC
1 ATAGGC
6241869 ATAAAAAAGT
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 157 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (154 bp):
ATAGGCTGTACAAAAAAAATTGCTTATTACTTTAACCAATAATTGATATACTGATCCCGAACAAC
CATTGACATACAAAAGTTAATGCTGCCAACACCCCAACCACTCTGCACTATCAGAGAAGAAAGAA
CAGAGAGAAAGGTCCTAGATAGAC
Found at i:6247928 original size:2 final size:2
Alignment explanation
Indices: 6247921--6247958 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6247911 TTTGATAGTA
6247921 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6247959 GAGCCTGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6252981 original size:23 final size:22
Alignment explanation
Indices: 6252955--6253010 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
6252945 TAGTTAAGAC
6252955 TAAAATTAAAAAAATTAAAAAA
1 TAAAATTAAAAAAATTAAAAAA
** *
6252977 TTAAAATTAATCAAATTAAAATA
1 -TAAAATTAAAAAAATTAAAAAA
6253000 TAAATATTAAA
1 TAAA-ATTAAA
6253011 TTCACAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATTAAAAAAATTAAAAAA
Found at i:6252998 original size:15 final size:14
Alignment explanation
Indices: 6252965--6253003 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6252955 TAAAATTAAA
6252965 AAAATTAAAAAATT
1 AAAATTAAAAAATT
*
6252979 AAAATTAATCAAATT
1 AAAATTAA-AAAATT
6252994 AAAATATAAA
1 AAAAT-TAAA
6253004 TATTAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 8 0.38
15 10 0.48
16 3 0.14
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:6258812 original size:15 final size:15
Alignment explanation
Indices: 6258773--6258814 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6258763 TTAAAATTTT
6258773 ATAA-ATTAAAAATA
1 ATAATATTAAAAATA
*
6258787 ATTATATTAAAAATAA
1 ATAATATTAAAAAT-A
6258803 ATAATA-TAAAAA
1 ATAATATTAAAAA
6258815 GTATTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATATTAAAAATA
Found at i:6275028 original size:21 final size:22
Alignment explanation
Indices: 6274999--6275045 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6274989 CAGAAGGAGT
*
6274999 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6275021 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6275042 GAGT
1 GAGT
6275046 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6278834 original size:3 final size:3
Alignment explanation
Indices: 6278826--6278859 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
6278816 GGCTTCTCTT
* *
6278826 TGA TGA TGA TGA CGA TGA CGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
6278860 CTTTTGTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:6288238 original size:5 final size:5
Alignment explanation
Indices: 6288228--6288286 Score: 109
Period size: 5 Copynumber: 11.6 Consensus size: 5
6288218 GTATTACTTA
6288228 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
6288278 ATTATT ATA
1 A-TATT ATA
6288287 ATAACAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 48 0.91
6 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:6288327 original size:14 final size:14
Alignment explanation
Indices: 6288289--6288333 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
6288279 TTATTATAAT
*
6288289 AACAAAAAGAAT-A
1 AACAAAAAAAATGA
*
6288302 AACAAAATAAATGA
1 AACAAAAAAAATGA
6288316 AACAAAAAAAATTGA
1 AACAAAAAAAA-TGA
6288331 AAC
1 AAC
6288334 GAAACACAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 10 0.37
14 11 0.41
15 6 0.22
ACGTcount: A:0.73, C:0.09, G:0.07, T:0.11
Consensus pattern (14 bp):
AACAAAAAAAATGA
Found at i:6288374 original size:12 final size:13
Alignment explanation
Indices: 6288357--6288385 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6288347 AAAGGAGAGA
6288357 AAAGAAAAAT-AG
1 AAAGAAAAATGAG
6288369 AAAGAAAAATGAG
1 AAAGAAAAATGAG
6288382 AAAG
1 AAAG
6288386 CTAGGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (13 bp):
AAAGAAAAATGAG
Found at i:6289318 original size:40 final size:39
Alignment explanation
Indices: 6289199--6289321 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 39
6289189 TTACAAGTCA
* *
6289199 ATGAGACACGGGGTGTCAATCTATTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAAT-TATTACTTCGGATT-ATCCG
* * * * * *
6289240 ATAAGGCACTAGGTGCCAA-T-TTACTTCGGTTTAGCCG
1 ATGAGACACTGGGTGTCAATTATTACTTCGGATTATCCG
*
6289277 ATGAGACACTGGGTGTCAACTTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAA-TTATTACTTCGGATTATCCG
6289317 ATGAG
1 ATGAG
6289322 GTACTGGATA
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
37 18 0.28
38 11 0.17
39 2 0.03
40 19 0.30
41 14 0.22
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAATTATTACTTCGGATTATCCG
Found at i:6308592 original size:21 final size:22
Alignment explanation
Indices: 6308563--6308603 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6308553 AATAAAGTTT
6308563 TATAGTATGTGTGTATGGTATA
1 TATAGTATGTGTGTATGGTATA
*
6308585 TATA-TATGTGTGTGTGGTA
1 TATAGTATGTGTGTATGGTA
6308604 ATTTAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (22 bp):
TATAGTATGTGTGTATGGTATA
Found at i:6312926 original size:61 final size:61
Alignment explanation
Indices: 6312741--6312933 Score: 222
Period size: 58 Copynumber: 3.3 Consensus size: 61
6312731 ATATTGTATT
* *
6312741 ATTTATATTTT-TTAAATGAAATAATATAGAAATACTCAAAATATTGCCTTATTTAAAAGA
1 ATTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTATTTAAAAGA
* * * * ** * *
6312801 ATTTATATTTTATT-AA--AAATATTAAAG-TATATT-ACAAT-TACT-TTATTCAAAACA
1 ATTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTATTTAAAAGA
*
6312855 ATGTTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTATTTAAAAGA
1 AT-TTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTATTTAAAAGA
6312917 ATTTATATTTTATTAAA
1 ATTTATATTTTATTAAA
6312934 ATATAAAAGT
Statistics
Matches: 104, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
54 12 0.12
55 12 0.12
56 6 0.06
57 4 0.04
58 18 0.17
59 5 0.05
60 17 0.16
61 18 0.17
62 12 0.12
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (61 bp):
ATTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTATTTAAAAGA
Found at i:6312993 original size:34 final size:35
Alignment explanation
Indices: 6312933--6313011 Score: 133
Period size: 34 Copynumber: 2.3 Consensus size: 35
6312923 ATTTTATTAA
6312933 AATATAAAAGTAAATTTCTATATTATTACATGAAAT
1 AATATAAAAG-AAATTTCTATATTATTACATGAAAT
*
6312969 AATATAAAAG-AATTTCTATTTTATTACATGAAAT
1 AATATAAAAGAAATTTCTATATTATTACATGAAAT
6313003 AATATAAAA
1 AATATAAAA
6313012 ATATTCAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 32 0.76
36 10 0.24
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (35 bp):
AATATAAAAGAAATTTCTATATTATTACATGAAAT
Found at i:6313158 original size:19 final size:20
Alignment explanation
Indices: 6313134--6313172 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6313124 TAGCTTCTAG
* *
6313134 TGGGGG-TTGTGGTTGCTCC
1 TGGGGGATTCTGGTTCCTCC
6313153 TGGGGGATTCTGGTTCCTCC
1 TGGGGGATTCTGGTTCCTCC
6313173 AGTAGGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.03, C:0.21, G:0.41, T:0.36
Consensus pattern (20 bp):
TGGGGGATTCTGGTTCCTCC
Found at i:6314088 original size:7 final size:7
Alignment explanation
Indices: 6314078--6314103 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6314068 TTATATACAT
6314078 AATACTA
1 AATACTA
6314085 AATACTA
1 AATACTA
6314092 AATACTA
1 AATACTA
6314099 AATAC
1 AATAC
6314104 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:6315164 original size:11 final size:11
Alignment explanation
Indices: 6315150--6315230 Score: 94
Period size: 11 Copynumber: 7.4 Consensus size: 11
6315140 GAGAGCTTTA
6315150 AGAGGAATTTG
1 AGAGGAATTTG
6315161 AGAGGAATTTG
1 AGAGGAATTTG
6315172 AGAGGAATTTG
1 AGAGGAATTTG
* *
6315183 AGAGAAATATG
1 AGAGGAATTTG
6315194 AGA-GAATATTGG
1 AGAGGAAT-TT-G
* *
6315206 AGAGAAATATG
1 AGAGGAATTTG
6315217 AGA-GAATTTG
1 AGAGGAATTTG
6315227 AGAG
1 AGAG
6315231 AAAGGATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
10 11 0.19
11 39 0.67
12 5 0.09
13 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Done.