Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_pilon, whole genome shotgun sequence
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: 1111368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:7241 original size:81 final size:81
Alignment explanation
Indices: 7102--7266 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
7092 GTGACACAGA
* *
7102 TGGATTTGGTGTTTTAAGAGAGTCCAATGGGTTAACAATTTGGTGTATGTTTTCAATGTCAGGTG
1 TGGATTTGGTGTTTTAAGAGAGTCCAATGGGTTAACAATTTGGAGTATGTTTTAAATGTCAGGTG
*
7167 TGGTAGTGGTGTTAGG
66 CGGTAGTGGTGTTAGG
** * ***
7183 TGGATTTGGTGTTTTTGGAGAGTCTAATGGGTTAATGGTTTGGAGTATGTTTTAAATGTCAGGTG
1 TGGATTTGGTGTTTTAAGAGAGTCCAATGGGTTAACAATTTGGAGTATGTTTTAAATGTCAGGTG
7248 CGGTAGTGGTGTTAGG
66 CGGTAGTGGTGTTAGG
7264 TGG
1 TGG
7267 TCATGTTTCG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.19, C:0.05, G:0.36, T:0.40
Consensus pattern (81 bp):
TGGATTTGGTGTTTTAAGAGAGTCCAATGGGTTAACAATTTGGAGTATGTTTTAAATGTCAGGTG
CGGTAGTGGTGTTAGG
Found at i:24914 original size:8 final size:8
Alignment explanation
Indices: 24901--24925 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24891 GCAATATGTT
24901 TGTGTGTA
1 TGTGTGTA
24909 TGTGTGTA
1 TGTGTGTA
24917 TGTGTGTA
1 TGTGTGTA
24925 T
1 T
24926 AATAAGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (8 bp):
TGTGTGTA
Found at i:27320 original size:2 final size:2
Alignment explanation
Indices: 27315--27340 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27305 AACGAGAGAA
27315 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27341 TTGTGTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27399 original size:21 final size:22
Alignment explanation
Indices: 27349--27404 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
27339 ATTTGTGTTC
*
27349 ATTTATTTAT-TTTATTTTTGA
1 ATTTATTTATATTTATATTTGA
** *
27370 ATTCGTTTATATTTA-ATTTGT
1 ATTTATTTATATTTATATTTGA
*
27391 ATTTATTTAAATTT
1 ATTTATTTATATTT
27405 TTAATATAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
ATTTATTTATATTTATATTTGA
Found at i:27489 original size:23 final size:23
Alignment explanation
Indices: 27462--27506 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
27452 TTGTTCGTTC
*
27462 ATTTAACGTTCATGAATATATTT
1 ATTTAACGTTCATAAATATATTT
* *
27485 ATTTAACTTTCGTAAATATATT
1 ATTTAACGTTCATAAATATATT
27507 CGTTTAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (23 bp):
ATTTAACGTTCATAAATATATTT
Found at i:30826 original size:24 final size:25
Alignment explanation
Indices: 30799--30883 Score: 106
Period size: 24 Copynumber: 3.6 Consensus size: 25
30789 CAAAAATTAG
30799 AACAGAAATT-AGAGAAGAAATCAT
1 AACAGAAATTCAGAGAAGAAATCAT
*
30823 AACA-AAATTCAGAGCAGAAATCAT
1 AACAGAAATTCAGAGAAGAAATCAT
* * *
30847 AACAG-AATTCAGACAAAAAATCAG
1 AACAGAAATTCAGAGAAGAAATCAT
30871 AACAGAAA-TCAGA
1 AACAGAAATTCAGA
30884 TAAAATATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
23 5 0.09
24 46 0.87
25 2 0.04
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (25 bp):
AACAGAAATTCAGAGAAGAAATCAT
Found at i:30880 original size:12 final size:12
Alignment explanation
Indices: 30792--30883 Score: 73
Period size: 12 Copynumber: 7.7 Consensus size: 12
30782 GATATATCAA
*
30792 AAATTAGAACAG
1 AAATCAGAACAG
*
30804 AAATTAGAGA-AG
1 AAATCAGA-ACAG
*
30816 AAATCATAACA-
1 AAATCAGAACAG
*
30827 AAATTCAGAGCAG
1 AAA-TCAGAACAG
*
30840 AAATCATAACAG
1 AAATCAGAACAG
* *
30852 AATTCAG-ACAAA
1 AAATCAGAAC-AG
30864 AAATCAGAACAG
1 AAATCAGAACAG
30876 AAATCAGA
1 AAATCAGA
30884 TAAAATATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
11 6 0.10
12 51 0.81
13 6 0.10
ACGTcount: A:0.58, C:0.13, G:0.14, T:0.15
Consensus pattern (12 bp):
AAATCAGAACAG
Found at i:30888 original size:24 final size:24
Alignment explanation
Indices: 30790--30888 Score: 92
Period size: 24 Copynumber: 4.1 Consensus size: 24
30780 CAGATATATC
* *
30790 AAAAATTAGAACAGAAATTAGAGA
1 AAAAATCAGAACAGAAATCAGAGA
* * *
30814 AGAAATCATAACA-AAATTCAGAGC
1 AAAAATCAGAACAGAAA-TCAGAGA
* * * *
30838 AGAAATCATAACAGAATTCAGACA
1 AAAAATCAGAACAGAAATCAGAGA
*
30862 AAAAATCAGAACAGAAATCAGATA
1 AAAAATCAGAACAGAAATCAGAGA
30886 AAA
1 AAA
30889 TATTCATATG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 3 0.05
24 56 0.92
25 2 0.03
ACGTcount: A:0.60, C:0.12, G:0.13, T:0.15
Consensus pattern (24 bp):
AAAAATCAGAACAGAAATCAGAGA
Found at i:32784 original size:21 final size:21
Alignment explanation
Indices: 32760--32929 Score: 133
Period size: 21 Copynumber: 8.0 Consensus size: 21
32750 AGTCGAGGGT
*
32760 TATATGTGGTCCTTCGTGACA
1 TATATGTGGTCCTTCGGGACA
** * *
32781 TATATGTAATCCTTTGGAACA
1 TATATGTGGTCCTTCGGGACA
* *
32802 TATATGTGGTTCTTTGGGACA
1 TATATGTGGTCCTTCGGGACA
* * * * *
32823 CATATTTGGTCCTTTGGAATA
1 TATATGTGGTCCTTCGGGACA
* *** **
32844 TATATATGGTCCTTAAAAAGATT
1 TATATGTGGTCCTT--CGGGACA
32867 TATATGTGGTCCTTCGGGACA
1 TATATGTGGTCCTTCGGGACA
*
32888 TATATTTGGTCCTTCGGGACA
1 TATATGTGGTCCTTCGGGACA
* *
32909 TATATGAGGTCCTTAGGGACA
1 TATATGTGGTCCTTCGGGACA
32930 ATTTTATATA
Statistics
Matches: 116, Mismatches: 31, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
21 101 0.87
23 15 0.13
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (21 bp):
TATATGTGGTCCTTCGGGACA
Found at i:32886 original size:65 final size:65
Alignment explanation
Indices: 32802--32923 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 65
32792 CTTTGGAACA
* * * *
32802 TATATGTGGTTCTTTGGGACACATATTTGGTCCTTTGGAATATATAT-ATGGTCCTTAAAAAGAT
1 TATATGTGGTCCTTCGGGACACATATTTGGTCCTTCGGAACATATATGA-GGTCCTTAAAAAGAT
32866 T
65 T
* *
32867 TATATGTGGTCCTTCGGGACATATATTTGGTCCTTCGGGACATATATGAGGTCCTTA
1 TATATGTGGTCCTTCGGGACACATATTTGGTCCTTCGGAACATATATGAGGTCCTTA
32924 GGGACAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
65 49 0.98
66 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (65 bp):
TATATGTGGTCCTTCGGGACACATATTTGGTCCTTCGGAACATATATGAGGTCCTTAAAAAGATT
Found at i:38403 original size:19 final size:20
Alignment explanation
Indices: 38365--38415 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
38355 ATATTCAAGG
38365 AGTATCGATACCTAAGGGGT
1 AGTATCGATACCTAAGGGGT
38385 AGTATCGA-ACCTACA-GGGT
1 AGTATCGATACCTA-AGGGGT
38404 AGTATCGATACC
1 AGTATCGATACC
38416 AATGGTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (20 bp):
AGTATCGATACCTAAGGGGT
Found at i:39264 original size:21 final size:21
Alignment explanation
Indices: 39131--39298 Score: 104
Period size: 21 Copynumber: 7.9 Consensus size: 21
39121 AGTTGAGGGT
* *
39131 TATATGTGATCCTTCGGGACA
1 TATATGTGGTCCTTTGGGACA
** * *
39152 TATATGTAATCATTTGGAACA
1 TATATGTGGTCCTTTGGGACA
* ** * *
39173 TTTATGCAGTTCTTTAGGACA
1 TATATGTGGTCCTTTGGGACA
* * * * *
39194 CATATTTGGTCATTTGGAATA
1 TATATGTGGTCCTTTGGGACA
* *
39215 TATATGTGGCCCTTAAGGAGA-A
1 TATATGTGGTCCTT-TGG-GACA
39237 TTATATGTGGTCCTTTGGGACA
1 -TATATGTGGTCCTTTGGGACA
*
39259 TATATGTGGTCCTTCGGGACA
1 TATATGTGGTCCTTTGGGACA
* * *
39280 TATAAGAGGTCCTTAGGGA
1 TATATGTGGTCCTTTGGGA
39299 TAATTTTATA
Statistics
Matches: 110, Mismatches: 33, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
21 90 0.82
22 6 0.05
23 14 0.13
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (21 bp):
TATATGTGGTCCTTTGGGACA
Found at i:40040 original size:27 final size:29
Alignment explanation
Indices: 40010--40075 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
40000 TCGACAACTA
* *
40010 CACCA-CCACACTTACA-CTTTCT-TTCCT
1 CACCACCCAC-CTCACACCTTTCTCTGCCT
40037 CACCACCCACCTCACACCTTTCTCTGCCT
1 CACCACCCACCTCACACCTTTCTCTGCCT
40066 CACCATCCCA
1 CACCA-CCCA
40076 TTTACTCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 10 0.30
28 10 0.30
29 9 0.27
30 4 0.12
ACGTcount: A:0.21, C:0.52, G:0.02, T:0.26
Consensus pattern (29 bp):
CACCACCCACCTCACACCTTTCTCTGCCT
Found at i:44713 original size:16 final size:16
Alignment explanation
Indices: 44692--44740 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
44682 GACCCGACCC
44692 GTTGACTGTTGACCGA
1 GTTGACTGTTGACCGA
* *
44708 GTTGACAGTTGACCGTC
1 GTTGACTGTTGACCG-A
*
44725 GTTGATTGTTGACCGA
1 GTTGACTGTTGACCGA
44741 CCGTTGACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (16 bp):
GTTGACTGTTGACCGA
Found at i:47150 original size:31 final size:31
Alignment explanation
Indices: 47115--47286 Score: 143
Period size: 31 Copynumber: 5.5 Consensus size: 31
47105 ACCTAATGTG
*
47115 ACTCTTGGGTAGGCTCTACGGCCCTGAGATC
1 ACTCTTGGGTAGGCTCTGCGGCCCTGAGATC
*
47146 ACTCTTGGGTAGG-TCCTGCGGCCCTGGGAT-
1 ACTCTTGGGTAGGCT-CTGCGGCCCTGAGATC
** * * *
47176 TTTCCTTGGGTAGGCCCCGTGGCCCTGAGATC
1 ACT-CTTGGGTAGGCTCTGCGGCCCTGAGATC
* * * *
47208 ATTCTTGTGTAGGCCCTGTGGCCCTGAGATC
1 ACTCTTGGGTAGGCTCTGCGGCCCTGAGATC
** * * *
47239 TTTCTTGGGTAGGCT-TCGTGGCCCTAAGAAC
1 ACTCTTGGGTAGGCTCT-GCGGCCCTGAGATC
*
47270 TCTCTTGGGTAGGCTCT
1 ACTCTTGGGTAGGCTCT
47287 CAGGCCCCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
30 3 0.03
31 112 0.95
32 3 0.03
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.30
Consensus pattern (31 bp):
ACTCTTGGGTAGGCTCTGCGGCCCTGAGATC
Found at i:47189 original size:62 final size:62
Alignment explanation
Indices: 47117--47283 Score: 183
Period size: 62 Copynumber: 2.7 Consensus size: 62
47107 CTAATGTGAC
* * *
47117 TCTTGGGTAGGCTCTACGGCCCTGAGATCACTCTTGGGTAGGTCCTGCGGCCCTGGGAT-TT
1 TCTTGGGTAGGCTCCACGGCCCTGAGATCACTCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
* ** * * *
47178 TCCTTGGGTAGGCCCCGTGGCCCTGAGATCATTCTTGTGTAGGCCCTGTGGCCCTGAGATCTT
1 T-CTTGGGTAGGCTCCACGGCCCTGAGATCACTCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
* ** * * *
47241 TCTTGGGTAGGCTTCGTGGCCCTAAGAACTCTCTTGGGTAGGC
1 TCTTGGGTAGGCTCCACGGCCCTGAGATCACTCTTGGGTAGGC
47284 TCTCAGGCCC
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
61 1 0.01
62 84 0.95
63 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (62 bp):
TCTTGGGTAGGCTCCACGGCCCTGAGATCACTCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
Found at i:47293 original size:31 final size:31
Alignment explanation
Indices: 47227--47298 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
47217 TAGGCCCTGT
* * * *
47227 GGCCCTGAGATCTTTCTTGGGTAGGCTTCGT
1 GGCCCTAAGAACTCTCTTGGGTAGGCTTCGA
47258 GGCCCTAAGAACTCTCTTGGGTAGGCTCTC-A
1 GGCCCTAAGAACTCTCTTGGGTAGGCT-TCGA
*
47289 GGCCCCAAGA
1 GGCCCTAAGA
47299 TGCTCCATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (31 bp):
GGCCCTAAGAACTCTCTTGGGTAGGCTTCGA
Found at i:49908 original size:340 final size:340
Alignment explanation
Indices: 49288--49967 Score: 1245
Period size: 340 Copynumber: 2.0 Consensus size: 340
49278 AAATTGAGGT
* *
49288 AATACATTATTACATTTTCATGCTTTATGGAACATGTTGGTATTGGTAAATGCATGAATGGAAAT
1 AATACATTACTACATTTTCATGCTTTATGGAACATGTTGGTATTGGTAAATGCATGAATGAAAAT
* *
49353 GTTTGGTTTCATCTGTGTAATTAATTAATTTCTATACTCGATCTGAATTCAGTAAAAATTCAGTA
66 GTTTGGTTTCATCTGTGTAATTAATTAATTTCTACACTCGATCCGAATTCAGTAAAAATTCAGTA
49418 ACTGAATATGGCTCAGATGATTAAAATAAGAAACTAGATGACCATTAGAATTAAAGTACAAGTTT
131 ACTGAATATGGCTCAGATGATTAAAATAAGAAACTAGATGACCATTAGAATTAAAGTACAAGTTT
*
49483 TGTGATTAAGGGAAAAAACAATTAGCTCCTGGATCTGTAAATTATAATTTATATCATTAAAAGTT
196 TGTGATTAAGGGAAAAAACAATTAGCTCATGGATCTGTAAATTATAATTTATATCATTAAAAGTT
49548 AAATATCAAAGGTACTTGGATGAGAATATTTCGGTTAGGTGAAATTACAAAAATACCCTTATGTT
261 AAATATCAAAGGTACTTGGATGAGAATATTTCGGTTAGGTGAAATTACAAAAATACCCTTATGTT
*
49613 GTAAAAAGATAAGGA
326 GTAAAAAGACAAGGA
49628 AATACATTACTATC-TTTTCATGCTTTATGGAACATGTTGGTATTGGTAAATGCATGAATGAAAA
1 AATACATTACTA-CATTTTCATGCTTTATGGAACATGTTGGTATTGGTAAATGCATGAATGAAAA
*
49692 TGTTTGGTTTCATCTGTGTAGTTAATTAATTTCTACACTCGATCCGAATTCAGTAAAAATTCAGT
65 TGTTTGGTTTCATCTGTGTAATTAATTAATTTCTACACTCGATCCGAATTCAGTAAAAATTCAGT
* * *
49757 AACTTAATATGGCTTAGATGATTAAAATAAGAAACTAGATGACCGTTAGAATTAAAGTACAAGTT
130 AACTGAATATGGCTCAGATGATTAAAATAAGAAACTAGATGACCATTAGAATTAAAGTACAAGTT
*
49822 TTGTGATTAAGGGAAAAAACAATTAGCTCATGGTTCTGTAAATTATAATTTATATCATTAAAAGT
195 TTGTGATTAAGGGAAAAAACAATTAGCTCATGGATCTGTAAATTATAATTTATATCATTAAAAGT
49887 TAAATATCAAAGGTACTTGGATGAGAATATTTCGGTTAGGTGAAATTACAAAAATACCCTTATGT
260 TAAATATCAAAGGTACTTGGATGAGAATATTTCGGTTAGGTGAAATTACAAAAATACCCTTATGT
49952 TGTAAAAAGACAAGGA
325 TGTAAAAAGACAAGGA
49968 TTGTCCCTGG
Statistics
Matches: 328, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
340 327 1.00
341 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (340 bp):
AATACATTACTACATTTTCATGCTTTATGGAACATGTTGGTATTGGTAAATGCATGAATGAAAAT
GTTTGGTTTCATCTGTGTAATTAATTAATTTCTACACTCGATCCGAATTCAGTAAAAATTCAGTA
ACTGAATATGGCTCAGATGATTAAAATAAGAAACTAGATGACCATTAGAATTAAAGTACAAGTTT
TGTGATTAAGGGAAAAAACAATTAGCTCATGGATCTGTAAATTATAATTTATATCATTAAAAGTT
AAATATCAAAGGTACTTGGATGAGAATATTTCGGTTAGGTGAAATTACAAAAATACCCTTATGTT
GTAAAAAGACAAGGA
Found at i:51817 original size:31 final size:31
Alignment explanation
Indices: 51751--51918 Score: 146
Period size: 31 Copynumber: 5.5 Consensus size: 31
51741 CTAATGTGAC
* *
51751 TCTTGGATAGGCTTTGC-GCCCTGAGATCAT
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * *
51781 TCTTGGGTAGGCTCTGCGACCCTGGGAT-TT
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * *
51811 TCCTT-GGTAGGCCCCGTGGCCCTGAGATCAT
1 T-CTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * *
51842 TCTTGTGTAGGCCCTGCGGCCCTGAGATCTT
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * * * *
51873 TCTTGGGTAGGCTCCGTGGTCCTAAGAAC-T
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
51903 CTCTTGGGTAGGCTCT
1 -TCTTGGGTAGGCTCT
51919 CACGCCCCAA
Statistics
Matches: 110, Mismatches: 23, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
30 39 0.35
31 71 0.65
ACGTcount: A:0.12, C:0.26, G:0.30, T:0.32
Consensus pattern (31 bp):
TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
Found at i:51833 original size:61 final size:62
Alignment explanation
Indices: 51768--51918 Score: 191
Period size: 61 Copynumber: 2.5 Consensus size: 62
51758 TAGGCTTTGC
*
51768 GCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGGGAT-TTTCCTT-GGTAGGCCCCGTG
1 GCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGAGATCTTT-CTTGGGTAGGCCCCGTG
* * * *
51829 GCCCTGAGATCATTCTTGTGTAGGCCCTGCGGCCCTGAGATCTTTCTTGGGTAGGCTCCGTG
1 GCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGAGATCTTTCTTGGGTAGGCCCCGTG
* * *
51891 GTCCTAAGAAC-TCTCTTGGGTAGGCTCT
1 GCCCTGAGATCAT-TCTTGGGTAGGCTCT
51919 CACGCCCCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
61 41 0.53
62 36 0.47
ACGTcount: A:0.13, C:0.27, G:0.30, T:0.30
Consensus pattern (62 bp):
GCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGAGATCTTTCTTGGGTAGGCCCCGTG
Found at i:53620 original size:16 final size:16
Alignment explanation
Indices: 53599--53630 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53589 TGACCCGACC
53599 CGACTGTCCGACCCAT
1 CGACTGTCCGACCCAT
53615 CGACTGTCCGACCCAT
1 CGACTGTCCGACCCAT
53631 TGACCGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (16 bp):
CGACTGTCCGACCCAT
Found at i:56119 original size:31 final size:31
Alignment explanation
Indices: 56077--56246 Score: 164
Period size: 31 Copynumber: 5.5 Consensus size: 31
56067 CTAATGTGAC
* *
56077 TCTTGGATAGGCTTTGCGGCCCTGAGATCAT
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * *
56108 TCTTGGGTAGGCTCTGCGACCCTGGGAT-TT
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * *
56138 TCCTTGGGTAGGCCCCGTGGCCCTGAGATCAT
1 T-CTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * *
56170 TCTTGTGTAGGCCCTGCGGCCCTGAGATCTT
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
* * * * *
56201 TCTTGGGTAGGCTCCGTGGTCCTAAGAAC-T
1 TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
56231 CTCTTGGGTAGGCTCT
1 -TCTTGGGTAGGCTCT
56247 CACGCCCCAA
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
30 3 0.03
31 108 0.96
32 2 0.02
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (31 bp):
TCTTGGGTAGGCTCTGCGGCCCTGAGATCAT
Found at i:56160 original size:62 final size:62
Alignment explanation
Indices: 56094--56246 Score: 202
Period size: 62 Copynumber: 2.5 Consensus size: 62
56084 TAGGCTTTGC
*
56094 GGCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGGGAT-TTTCCTTGGGTAGGCCCCGT
1 GGCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGAGATCTTT-CTTGGGTAGGCCCCGT
* * * *
56156 GGCCCTGAGATCATTCTTGTGTAGGCCCTGCGGCCCTGAGATCTTTCTTGGGTAGGCTCCGT
1 GGCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGAGATCTTTCTTGGGTAGGCCCCGT
* * *
56218 GGTCCTAAGAAC-TCTCTTGGGTAGGCTCT
1 GGCCCTGAGATCAT-TCTTGGGTAGGCTCT
56247 CACGCCCCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
61 1 0.01
62 75 0.95
63 3 0.04
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.30
Consensus pattern (62 bp):
GGCCCTGAGATCATTCTTGGGTAGGCTCTGCGACCCTGAGATCTTTCTTGGGTAGGCCCCGT
Found at i:57949 original size:16 final size:16
Alignment explanation
Indices: 57928--57959 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57918 TGACCCGACC
57928 CGACTGTCCGACCCAT
1 CGACTGTCCGACCCAT
57944 CGACTGTCCGACCCAT
1 CGACTGTCCGACCCAT
57960 TGACCGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (16 bp):
CGACTGTCCGACCCAT
Found at i:62899 original size:23 final size:23
Alignment explanation
Indices: 62873--62930 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
62863 ATAAAGTTCA
*
62873 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
62896 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
62919 ATAATAAAATAG
1 ATAATATAATAG
62931 ACATTTAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:62992 original size:87 final size:87
Alignment explanation
Indices: 62846--63007 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
62836 ATGTTATATT
* *
62846 ATTTAACCGAAAATATCATAAAGTTCAATAATATATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATCATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
62911 GCGCTTATATAATAAAATAGAC
66 GCGCTTATATAATAAAATAGAC
* * * *
62933 ATTTAACCGGAAATATTATCAAGTACAATAACGTATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATCATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
62998 GCGCTTATAT
66 GCGCTTATAT
63008 TGACCTATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (87 bp):
ATTTAACCGAAAATATCATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGAC
Found at i:62995 original size:23 final size:23
Alignment explanation
Indices: 62960--63007 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
62950 ATCAAGTACA
*
62960 ATAACGTATTAGGTAGCGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
*
62983 ATAATGTAATAGGTAGCGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
63006 AT
1 AT
63008 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (23 bp):
ATAACGTAATAGGTAGCGCTTAT
Found at i:63527 original size:201 final size:197
Alignment explanation
Indices: 63002--63527 Score: 660
Period size: 198 Copynumber: 2.6 Consensus size: 197
62992 TAGGTAGCGC
* * * * *
63002 TTATATTGACCTATTTTCTAACT-AAACCGGTTTATTTATACCGGTAACATTGTAAATTTACCTA
1 TTATGTTGACCTATTCTCTCA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* *
63066 TTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTTAAATGTATCGACACTTT
* * *
63131 ATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCAACACATATTTAAAAAGTGTCGA
129 ATGCGCGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCAACACAAATTCAAAAAGTGTCGA
63196 TACA
194 TACA
*
63200 TTCTGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
1 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
63265 TACATCATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTT--TAAATGTATCGACACTTT
* * ** * * * *
63330 ATGTGCGCACCTCATTTGGGCATTCATTCTGGACAGTAGGTATCGACACAAATTCCACAAGTGTC
129 ATGCGCGCACCTC-GTTGGGCATTCATTCTGGA-AAAAAGTATCAACACAAATTCAAAAAGTGTC
63395 GATACA
192 GATACA
* * * * * * ** * *
63401 TTATGTTTACCTGTTTTGTGAT-TAACCGGTATATTTATATTGGTTACATTGAAAAATTACCTAT
1 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * *
63465 TACATTATAATTTTTGGATTTCGATGTTTTTGGAATCGATACTTTTGGTAAATGTATCGACAC
66 TACATTATAATTATCGG-TTTCGATGTTTTTGGGATCGATACTTTT--TAAATGTATCGACAC
63528 ATATGTTTAC
Statistics
Matches: 285, Mismatches: 37, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
197 4 0.01
198 96 0.34
199 29 0.10
200 69 0.24
201 87 0.31
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (197 bp):
TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTAAATGTATCGACACTTTAT
GCGCGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCAACACAAATTCAAAAAGTGTCGATA
CA
Found at i:66286 original size:19 final size:19
Alignment explanation
Indices: 66262--66306 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
66252 CATTCACATT
66262 CAAAATTATAAATCGTATA
1 CAAAATTATAAATCGTATA
* *
66281 CAAAATTATGAATTGTATA
1 CAAAATTATAAATCGTATA
66300 CAAAATT
1 CAAAATT
66307 TCCTCTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
CAAAATTATAAATCGTATA
Found at i:67402 original size:21 final size:21
Alignment explanation
Indices: 67360--67402 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
67350 TTTCTGGGCT
*
67360 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
67381 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
67402 A
1 A
67403 CGAATATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:67453 original size:19 final size:19
Alignment explanation
Indices: 67429--67465 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67419 GAACGCTAGA
*
67429 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
67448 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
67466 TAATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:68130 original size:103 final size:103
Alignment explanation
Indices: 67951--68168 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
67941 GTAGAGGGTC
* * *
67951 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACCTAC
1 TATGTGGTCCTTCGCGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
68016 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
*
68054 TATGTGGTCTTTCGCGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGCGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
68119 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
68157 TATGTGGTCCTT
1 TATGTGGTCCTT
68169 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.39
Consensus pattern (103 bp):
TATGTGGTCCTTCGCGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:68215 original size:23 final size:23
Alignment explanation
Indices: 68185--68236 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
68175 ATTATTATAT
*
68185 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTAAGC
* *
68208 GGCACTCCGGTGTAATTCTAAGT
1 GGCACTCCGGTGCAATTCTAAGC
68231 GGCACT
1 GGCACT
68237 TAGTTTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTAAGC
Found at i:74329 original size:21 final size:21
Alignment explanation
Indices: 74287--74329 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74277 TTTCTGGGCT
*
74287 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
74308 AGGGGAATTGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
74329 A
1 A
74330 ACGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:74382 original size:20 final size:20
Alignment explanation
Indices: 74357--74395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74347 AAACGCTAGA
*
74357 GGGGAATCGATACCCCCATG
1 GGGGAACCGATACCCCCATG
*
74377 GGGGAACCGATTCCCCCAT
1 GGGGAACCGATACCCCCAT
74396 AATAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.15
Consensus pattern (20 bp):
GGGGAACCGATACCCCCATG
Found at i:75056 original size:103 final size:103
Alignment explanation
Indices: 74872--75089 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
74862 GTAGAGGGTC
* *
74872 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAGGTATGGTGAGACACCTAC
1 TATGTGGTCCTTCGCGACATATATGTATTCTTTGGAACATGTGTAAGGTATGGTGAGACACATAC
*
74937 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * *
74975 TATGTGGTCTTTCGCGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGCGACATATATGTATTCTTTGGAACATGTGTAAGGTATGGTGAGACACATAC
75040 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
75078 TATGTGGTCCTT
1 TATGTGGTCCTT
75090 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGCGACATATATGTATTCTTTGGAACATGTGTAAGGTATGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:75139 original size:23 final size:23
Alignment explanation
Indices: 75106--75173 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
75096 ATTATTATAT
75106 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
75129 GGCACTCCGGTGCAATTCTAAGT
1 GGCACTACGGTGCAATTCTACGC
*
75152 GGCACTTA-GGTGCAATTATACG
1 GGCAC-TACGGTGCAATTCTACG
75174 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 37 0.97
24 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:77571 original size:397 final size:397
Alignment explanation
Indices: 76958--79094 Score: 2733
Period size: 397 Copynumber: 5.4 Consensus size: 397
76948 GAGTAATTTA
* * * **
76958 AAAAAGTATCGACACAACTTTAAAAAGTGTCGACACATTATGTAGACCTATTTTCTAATTAACTA
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
77023 GTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATATTTATCGGT-TTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATC-GTATTCGATGTTT
* * * * *
77087 ATGGGATCAATACTTTTTATAAATGTATCGACTCTTTATTCGTACACCCCGTTGGGCATTCTTTC
130 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACA-CCTGTTGGGCATTCATTC
** * * * *
77152 TGGTCAAATCGTATCAACACAAATTTAAAAACTGTCGATACATTATGTAGGCCTCTTTTCTAATT
194 TGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
* * * * *
77217 AATCGGTATATTTCTACTGGTTACATTGTAAAGTT-ACCTATTACATTATAATTATCGGT-TTCA
259 AACCGGTATATTTCTACCGGTTACATTGGAAA-TTGACCTATTACATTATAATTATC-TTATTCG
* * * *
77280 ATATTTTTGGGAT-GATAATTTTTATAAATGTATCGACACTTCATGCGTGCACTCTTTTAGGCAT
322 ATGTTTTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCAT
77344 TCATTCTGGAC
387 TCATTCTGGAC
* * * * * *
77355 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACTTATTTTCTAAGTAACCA
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
77420 GTATATTTCTACCGGTTACATTGTAAAGTTGCCCATTATATTATAATTATCGGT-TTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATC-GTATTCGATGTTT
** * * * *
77484 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCATACACTCTTTTTGGCATTCATTC
130 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACAC-CTGTTGGGCATTCATTC
* ** * *
77548 TGGACAAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAAT
194 TGGTC-AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAAT
* *
77613 TAACCGGTATATTTCTACCGG-TACATTGTAAAGTT-A-CTCATTACATTATAATTATCGGT-TT
258 TAACCGGTATATTTCTACCGGTTACATTGGAAA-TTGACCT-ATTACATTATAATTATC-TTATT
* * *
77674 CGATGTTTTTGGGATCGATACA-ATTT-TAAATGTATCGACACTTTATACGTGCACTCTTTTAGG
320 CGATGTTTTTGGGATCGATA-ATTTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGG
77737 CATTCATTCTGGAC
384 CATTCATTCTGGAC
* * *
77751 AAAAACGTATCGACACAAATTCCACAAA-TGTCGATACATGATATAGACCTATTTTCTAATTAAC
1 AAAAA-GTATCGACACAAATT-CAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAAC
* *
77815 TGGTATATTTCTACCAGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGT-TTCGATGT
64 CGGTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATC-GTATTCGATGT
** *
77879 TTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATTCGTCCACCTCGTTGGGCATTCAT
128 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACACCT-GTTGGGCATTCAT
* * *
77943 TCTGGTCAAAACGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTACACCTATTTTCTAA
192 TCTGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAA
* **
78008 TTAATCAATATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCG
257 TTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCG
** *
78073 ATGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCAC-CTCGTTGGGCA
322 ATGTTTTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATTCGTGCACTCT-GTTAGGCA
*
78137 TTCATTCTGGTC
386 TTCATTCTGGAC
* * * *
78149 AAAACGAATCGACACAAATTCAAAAAGTTTCGATACATTATGTAGACCTAATTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
78214 ATATATTTCTACCGGTTACATTGGAAA-TTGACCTATTACATTATAATTATCTTATTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAAGTT-ACCTATTACATTATAATTATCGTATTCGATGTTT
* * *
78278 TTAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGGTATTCATTC
130 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACACCT-GTTGGGCATTCATTC
*
78343 TGGTCAAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
194 TGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
* *
78408 AACCGGTATATTTCTACCAGTTACATTGGAAATTGACCTATTACATTGTAATTATCTTATTCGAT
259 AACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGAT
* * *
78473 GTTTTTGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTT-GGTCAT
324 GTTTTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATTCGTGCA-CTCTGTTAGG-CAT
* *
78537 TCATTATAGAC
387 TCATTCTGGAC
* * *
78548 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACTG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
78612 GTATATATCTACCGATTAC-TT-TAGAAATTGACCTATTACATTATAATTATCTTATTCGATGTT
66 GTATATTTCTACCGGTTACATTGTA-AAGTT-ACCTATTACATTATAATTATCGTATTCGATGTT
* * * *
78675 TTTGGGATCGATACTTTTTATAAATGTATCGGCACTTTATTCTTGCACCTTGGTTGGTCATTCAT
129 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACACC-T-GTTGGGCATTCAT
*** * *
78740 TCTTAACAAAAAGTATCGACAC-AATTTAAAAAGTATCGATATATTATGTAGACCTATTTTCTAA
192 TCTGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAA
* * * *
78804 TTAACCGGTATATTTCTACTGGTTACATTAGAAATTGACCTATTATATTATAATTATCTTATTTG
257 TTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCG
* * *
78869 ATGTTTTTGGGATCGAT-ACTTTTATAAATATATCGACACTTTATTCGTGCAC-CTCGGTAGGTC
322 ATGTTTTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATTCGTGCACTCT-GTTAGG-C
78932 ATTCATTCTGGTA-
385 ATTCATTCTGG-AC
* * * * *
78945 AAAAAGTATCGACA-TAATTTAAAAAATATCGATATATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * * *
79009 GTATATATCTACTGATTACATTGTAAATTTACCTATTACATTATAATTATCTTATTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGTATTCGATGTTTT
*
79074 TGGGATCGATACTTTTAATAA
131 TGGGATCGATACTTTTTATAA
79095 GGTGGTGTTT
Statistics
Matches: 1554, Mismatches: 155, Indels: 62
0.88 0.09 0.04
Matches are distributed among these distances:
395 4 0.00
396 232 0.15
397 723 0.47
398 534 0.34
399 60 0.04
400 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (397 bp):
AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGTATTCGATGTTTT
TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACACCTGTTGGGCATTCATTCTG
GTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAA
CCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGT
TTTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCAT
TCTGGAC
Found at i:77940 original size:199 final size:199
Alignment explanation
Indices: 76958--79090 Score: 2722
Period size: 199 Copynumber: 10.7 Consensus size: 199
76948 GAGTAATTTA
* * **
76958 AAAAAGTATCGACACAACTTTAAAAAGTGTCGACACATTATGTAGACCTATTTTCTAATTAACTA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
77023 GTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATATTTATCGGT-TTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC-TTATTCGATGTTT
* * * * * * *
77087 ATGGGATCAATACTTTTTATAAATGTATCGACTCTTTATTCGTACACC-CCGTTGGGCATTCTTT
129 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATT
*
77151 CTGGTC
194 CTGGAC
** * * * * *
77157 AAATCGTATCAACACAAATTTAAAAACTGTCGATACATTATGTAGGCCTCTTTTCTAATTAATCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
77222 GTATATTTCTACTGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGT-TTCAATATTT
66 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC-TTATTCGATGTTT
* * * *
77286 TTGGGAT-GATA-ATTTTTATAAATGTATCGACACTTCATGCGTGCA-CTCTTTTAGGCATTCAT
129 TTGGGATCGATACA-TTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCAT
77348 TCTGGAC
193 TCTGGAC
** * * * * *
77355 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACTTATTTTCTAAGTAACCA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
77420 GTATATTTCTACCGGTTACATTGTAAAGTTGCCCATTATATTATAATTATCGGT-TTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC-TTATTCGATGTTT
* * * * * *
77484 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCATACA-CTCTTTTTGGCATTCATT
129 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATT
77547 CTGGAC
194 CTGGAC
** * *
77553 AAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACC
1 -AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
*
77618 GGTATATTTCTACCGG-TACATTGTAAAGTTA-CTCATTACATTATAATTATCGGT-TTCGATGT
65 GGTATATTTCTACCGGTTACATTGTAAA-TTACCT-ATTACATTATAATTATC-TTATTCGATGT
* * * *
77680 TTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATACGTGCA-CTCTTTTAGGCATTCA
127 TTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCA
77743 TTCTGGAC
192 TTCTGGAC
* * * *
77751 AAAAACGTATCGACACAAATTCCACAAA-TGTCGATACATGATATAGACCTATTTTCTAATTAAC
1 AAAAA-GTATCGACACAAATT-TAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAAC
* * *
77815 TGGTATATTTCTACCAGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGT-TTCGATGT
64 CGGTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATC-TTATTCGATGT
* *
77879 TTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATTCGTCCACCTC-GTTGGGCATTCA
127 TTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCA
*
77942 TTCTGGTC
192 TTCTGGAC
* * * * *
77950 AAAACGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTACACCTATTTTCTAATTAATCA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
78015 ATATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
*
78080 TGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTC-GTTGGGCATTCATTC
130 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATTC
*
78144 TGGTC
195 TGGAC
* * * * *
78149 AAAACGAATCGACACAAATTCAAAAAGTTTCGATACATTATGTAGACCTAATTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
78214 ATATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
* * *
78279 TAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTC-GTTGGGTATTCATTC
130 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATTC
*
78343 TGGTC
195 TGGAC
*
78348 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
78413 GTATATTTCTACCAGTTACATTGGAAATTGACCTATTACATTGTAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTTT
* * * * *
78478 TGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGTCATTCATTA
130 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATTC
*
78543 TAGAC
195 TGGAC
* *
78548 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACTG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
78612 GTATATATCTACCGATTACTTTAG-AAATTGACCTATTACATTATAATTATCTTATTCGATGTTT
66 GTATATTTCTACCGGTTACATT-GTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTT
* * * *
78676 TTGGGATCGATACTTTTTATAAATGTATCGGCACTTTATTCTTGCACCT-TGGTTGGTCATTCAT
129 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCT-GTTGGGCATTCAT
**
78740 TCTTAAC
193 TCTGGAC
* *
78747 AAAAAGTATCGACAC-AATTTAAAAAGTATCGATATATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
78811 GTATATTTCTACTGGTTACATTAG-AAATTGACCTATTATATTATAATTATCTTATTTGATGTTT
66 GTATATTTCTACCGGTTACATT-GTAAATT-ACCTATTACATTATAATTATCTTATTCGATGTTT
* * * *
78875 TTGGGATCGATAC-TTTTATAAATATATCGACACTTTATTCGTGCACCTCGGTAGGTCATTCATT
129 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATT
78939 CTGGTA-
194 CTGG-AC
* * * *
78945 AAAAAGTATCGACA-TAATTTAAAAAATATCGATATATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
79009 GTATATATCTACTGATTACATTGTAAATTTACCTATTACATTATAATTATCTTATTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAA-TTACCTATTACATTATAATTATCTTATTCGATGTTTT
79074 TGGGATCGATAC-TTTTA
130 TGGGATCGATACATTTTA
79091 ATAAGGTGGT
Statistics
Matches: 1759, Mismatches: 152, Indels: 47
0.90 0.08 0.02
Matches are distributed among these distances:
197 15 0.01
198 684 0.39
199 1024 0.58
200 36 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGTAAATTACCTATTACATTATAATTATCTTATTCGATGTTTTT
GGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCTGTTGGGCATTCATTCT
GGAC
Found at i:79315 original size:31 final size:31
Alignment explanation
Indices: 79279--79337 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
79269 AACTTAAAAG
*
79279 AGTTTTGCAATACTAAAATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
* *
79310 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
79338 CTATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:79386 original size:22 final size:22
Alignment explanation
Indices: 79361--79812 Score: 635
Period size: 22 Copynumber: 20.6 Consensus size: 22
79351 ATAATAAATT
*
79361 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
79383 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
79405 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
79427 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* **
79449 TTTTAAAAGAAAAT-TTTCCATA
1 TTTTAAAA-TAAATCAATCCATA
*
79471 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
79493 TTTTAAAATAAAAT-TATTCATA
1 TTTTAAAAT-AAATCAATCCATA
79515 TTTT-AAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
79536 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
79558 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* * *
79580 TTTTAAAATAATTTATTCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
79602 TTTTAAAATAATTTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
79624 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
79646 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
79668 TTTTAAAATAAATCAATCTACA
1 TTTTAAAATAAATCAATCCATA
**
79690 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
79712 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
79734 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
79756 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
79778 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
79800 TTTTAAAATAAAT
1 TTTTAAAATAAAT
79813 TTCAAAATAG
Statistics
Matches: 387, Mismatches: 34, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.01
21 26 0.07
22 341 0.88
23 16 0.04
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:81353 original size:18 final size:18
Alignment explanation
Indices: 81330--81366 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
81320 CAAAATTTAT
81330 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
81348 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
81366 A
1 A
81367 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:83942 original size:18 final size:17
Alignment explanation
Indices: 83919--83975 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
83909 TAATTTGATC
83919 AGAAGAAGCGATTGGTTG
1 AGAAGAAGCG-TTGGTTG
83937 AGAAGAAG-GTTGTCGTTG
1 AGAAGAAGCGTTG--GTTG
83955 AGAAG-AGC-TTGGTTG
1 AGAAGAAGCGTTGGTTG
83970 AGAAGA
1 AGAAGA
83976 GCTTTGAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 6 0.17
18 17 0.49
ACGTcount: A:0.33, C:0.05, G:0.39, T:0.23
Consensus pattern (17 bp):
AGAAGAAGCGTTGGTTG
Found at i:83969 original size:15 final size:15
Alignment explanation
Indices: 83930--83979 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
83920 GAAGAAGCGA
*
83930 TTGGTTGAGAAGAAGG
1 TTGGTTGAGAAG-AGC
83946 TTGTCGTTGAGAAGAGC
1 TTG--GTTGAGAAGAGC
83963 TTGGTTGAGAAGAGC
1 TTGGTTGAGAAGAGC
83978 TT
1 TT
83980 TGAGAAAGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 14 0.45
16 3 0.10
17 5 0.16
18 9 0.29
ACGTcount: A:0.26, C:0.06, G:0.38, T:0.30
Consensus pattern (15 bp):
TTGGTTGAGAAGAGC
Found at i:84077 original size:23 final size:23
Alignment explanation
Indices: 84047--84094 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
84037 GTTACATTGG
*
84047 AACACAAACACATTAACGACAAA
1 AACACAAACACATTAACGAAAAA
*
84070 AACACAAACACATTAAGGAAAAA
1 AACACAAACACATTAACGAAAAA
84093 AA
1 AA
84095 GAGTCCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.21, G:0.06, T:0.08
Consensus pattern (23 bp):
AACACAAACACATTAACGAAAAA
Found at i:84890 original size:201 final size:201
Alignment explanation
Indices: 84303--85067 Score: 1130
Period size: 200 Copynumber: 3.8 Consensus size: 201
84293 GTGAAATTTT
* * * *
84303 AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCTATTCTCTCTTAAAACA
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * *
84368 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTT
* *
84433 TTGGGATCTATA-GTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
131 TTGGGATCGATACG-TTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
84497 TCTGGAC
195 TCTGGAC
* * * *
84504 AAAAAGTATCGACACGAACTTAAAAAGTTTCGATACATTATGTAGACCTATTCTCTCTTAAAACT
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * *
84569 GATATATTTATACC-ACTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCAAAGTTT
66 GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTT
* * *
84633 TTGGGATCGATAC-TTTTCATAAATGTATCGATACTTTATACGTGCACCTAGTTTGGGCTTTCAT
131 TTGGGATCGATACGTTTT-ATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
84697 TCTGGAC
195 TCTGGAC
84704 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCAT-ATAAAAC
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTC-TCATAAAAC
*
84768 CGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTAATGTT
65 CGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTT
* *
84833 TTTGGGATCGATACGTTTTATAAATGTATTGACACTTTATGTGTGCACCTAGTTTGGGCATTCAT
130 TTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
*
84898 TATGGAC
195 TCTGGAC
* * * *
84905 AAAACA-TATCGACAC-AA-TTCCACAAGTGTCGATACATTATGTAGACCTATACTCACATAAAA
1 AAAA-AGTATCGACACAAACTT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
* * * *
84967 CCGGTATATTTATACCGGTTATATTGAAAAATTACCTATTACATTATAAGTATGGGTTTCGATGT
64 CCGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGT
* *
85032 TTTTGGGATCGATACTTTTTGTAAATGTATCGACAC
129 TTTTGGGATCGATACGTTTTATAAATGTATCGACAC
85068 ATATGTTTAC
Statistics
Matches: 512, Mismatches: 44, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
199 6 0.01
200 309 0.60
201 192 0.38
202 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (201 bp):
AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTT
TTGGGATCGATACGTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
CTGGAC
Found at i:85046 original size:401 final size:401
Alignment explanation
Indices: 84303--85064 Score: 1174
Period size: 401 Copynumber: 1.9 Consensus size: 401
84293 GTGAAATTTT
* * *
84303 AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCTATTCTCTCTTAAAACA
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACA
* *
84368 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
66 AGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTT
*
84433 TTGGGATCTATAGTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
131 TTGGGATCGATAGTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
* * * * *
84498 CTGGACAAAAAGTATCGACACGAACTTAAAAAGTTTCGATACATTATGTAGACCTATTCTCTCTT
196 ATGGACAAAAAGTATCGACACGAACTTAAAAAGTGTCGATACATTATGTAGACCTATACTCACAT
* *
84563 AAAACTGATATATTTATACCACTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCAA
261 AAAACCGATATATTTATACCACTACATTGAAAAATTACCTATTACATTATAAGTATGAGTTTCAA
84628 AGTTTTTGGGATCGATACTTTTCATAAATGTATCGATACTTTATACGTGCACCTAGTTTGGGCTT
326 AGTTTTTGGGATCGATACTTTTCATAAATGTATCGATACTTTATACGTGCACCTAGTTTGGGCTT
84693 TCATTCTGGAC
391 TCATTCTGGAC
84704 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCAT-ATAAAAC
1 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTC-TCATAAAAC
** *
84768 CGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTAATGTT
65 AAGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTT
** *
84833 TTTGGGATCGATACG-TTTTATAAATGTATTGACACTTTATGTGTGCACCTAGTTTGGGCATTCA
130 TTTGGGATCGATA-GTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCA
* *
84897 TTATGGACAAAACA-TATCGACAC-AA-TTCCACAAGTGTCGATACATTATGTAGACCTATACTC
194 TTATGGACAAAA-AGTATCGACACGAACTT-AAAAAGTGTCGATACATTATGTAGACCTATACTC
* ** * *
84959 ACATAAAACCGGTATATTTATACCGGTTATATTGAAAAATTACCTATTACATTATAAGTATGGGT
257 ACATAAAACCGATATATTTATACC-ACTACATTGAAAAATTACCTATTACATTATAAGTATGAGT
* * **
85024 TTCGATGTTTTTGGGATCGATACTTTTTGTAAATGTATCGA
321 TTCAAAGTTTTTGGGATCGATACTTTTCATAAATGTATCGA
85065 CACATATGTT
Statistics
Matches: 326, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
399 2 0.01
400 52 0.16
401 269 0.83
402 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (401 bp):
AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACA
AGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTT
TTGGGATCGATAGTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
ATGGACAAAAAGTATCGACACGAACTTAAAAAGTGTCGATACATTATGTAGACCTATACTCACAT
AAAACCGATATATTTATACCACTACATTGAAAAATTACCTATTACATTATAAGTATGAGTTTCAA
AGTTTTTGGGATCGATACTTTTCATAAATGTATCGATACTTTATACGTGCACCTAGTTTGGGCTT
TCATTCTGGAC
Found at i:86050 original size:64 final size:63
Alignment explanation
Indices: 85909--86052 Score: 148
Period size: 64 Copynumber: 2.3 Consensus size: 63
85899 GAAAAAGTCT
* * * * *
85909 GGGTGCATCGATGCATGGCTTATGCATCGGTGCATAAAATCAATTCGATGTTTTAATATATAT
1 GGGTGCATCGATGCATGGCTTATGCATCGGTACACAAAAGCAATTCGATGTTTTAATAAATAA
* * * * *
85972 GGAGTGTATTGATGCATGG-TATGTGTATCGGTACACAAAAGCCATTCGATG-TTTAATTAAAAT
1 GG-GTGCATCGATGCATGGCT-TATGCATCGGTACACAAAAGCAATTCGATGTTTTAA-T-AAAT
86035 AA
62 AA
86037 GGGTGCATCGATGCAT
1 GGGTGCATCGATGCAT
86053 TGATTCATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
63 8 0.12
64 51 0.78
65 6 0.09
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (63 bp):
GGGTGCATCGATGCATGGCTTATGCATCGGTACACAAAAGCAATTCGATGTTTTAATAAATAA
Found at i:88370 original size:19 final size:20
Alignment explanation
Indices: 88332--88370 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
88322 GTGGAATGTG
* *
88332 ATGATGTTTTGCATGATTTA
1 ATGATGTTTAGCAGGATTTA
88352 ATGATG-TTAGCAGGATTTA
1 ATGATGTTTAGCAGGATTTA
88371 GAGAAGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (20 bp):
ATGATGTTTAGCAGGATTTA
Found at i:88591 original size:21 final size:21
Alignment explanation
Indices: 88567--88630 Score: 51
Period size: 24 Copynumber: 2.9 Consensus size: 21
88557 TCGGTGCATC
88567 TTCATGATGTATCGATGCACA
1 TTCATGATGTATCGATGCACA
* *
88588 TTCAAAGGGAT-TCATCGATGCACT
1 TTC--A-TGATGT-ATCGATGCACA
88612 TTCAT-AGTGTATCGATGCA
1 TTCATGA-TGTATCGATGCA
88631 TTATGTACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 2 0.06
23 2 0.06
24 16 0.47
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (21 bp):
TTCATGATGTATCGATGCACA
Found at i:94969 original size:23 final size:21
Alignment explanation
Indices: 94924--94969 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
94914 AGATAACATG
* *
94924 ATGTATATATTTTATATCTTA
1 ATGTATAAATTTTATATCATA
94945 ATGTATAAATATTTATATTCATA
1 ATGTATAAAT-TTTATA-TCATA
94968 AT
1 AT
94970 ATTTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
ATGTATAAATTTTATATCATA
Found at i:95006 original size:22 final size:23
Alignment explanation
Indices: 94978--95082 Score: 79
Period size: 25 Copynumber: 4.3 Consensus size: 23
94968 ATATTTTATA
94978 TATATTAACTTAAAAATAT-TTT
1 TATATTAACTTAAAAATATATTT
* *
95000 TATATTAACTTATTATATATATTT
1 TATATTAACTTA-AAAATATATTT
*
95024 TATTATTAACTTAATTTAAAAATATTT
1 TA-TATTAACTTAA---AAATATATTT
* *
95051 TAT-TTTATTTGAAAATATATATTT
1 TATATTAACTT-AAAA-ATATATTT
*
95075 TATGTTAA
1 TATATTAA
95083 AATTTATTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
22 12 0.18
23 7 0.11
24 15 0.23
25 18 0.28
26 3 0.05
27 10 0.15
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (23 bp):
TATATTAACTTAAAAATATATTT
Found at i:95048 original size:27 final size:26
Alignment explanation
Indices: 94967--95054 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 26
94957 TTATATTCAT
94967 AATATTTTA-TA-TATA-TTAACTTAAA
1 AATATTTTATTATTA-ACTTAA-TTAAA
*
94992 AATATTTT-TATATTAACTT-ATTATA
1 AATATTTTAT-TATTAACTTAATTAAA
*
95017 TATATTTTATTATTAACTTAATTTAAA
1 AATATTTTATTATTAACTTAA-TTAAA
95044 AATATTTTATT
1 AATATTTTATT
95055 TTATTTGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 28 0.54
26 6 0.12
27 18 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATTTTATTATTAACTTAATTAAA
Found at i:95075 original size:19 final size:20
Alignment explanation
Indices: 95037--95084 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
95027 TATTAACTTA
*
95037 ATTTAAAAATATTTTATTTT
1 ATTTAAAAATATTATATTTT
*
95057 ATTTGAAAATA-TATATTTT
1 ATTTAAAAATATTATATTTT
95076 ATGTTAAAA
1 AT-TTAAAA
95085 TTTATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTAAAAATATTATATTTT
Found at i:96343 original size:23 final size:23
Alignment explanation
Indices: 96296--96345 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
96286 AATAACATAT
**
96296 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
96319 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
96342 TAGG
1 TAGG
96346 CATTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:97037 original size:200 final size:198
Alignment explanation
Indices: 96449--97139 Score: 944
Period size: 200 Copynumber: 3.5 Consensus size: 198
96439 AAACCGGTTT
* * * * *
96449 ATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTAACGGTTTCGATATTTTTGGG
1 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
*
96514 ATCGATA-TAATTTTAAATGTATCGACACTTTATG-GATGCACCTTGTTGGGCATTCATTCTGGA
66 ATCGATACT-ATTTTAAATGTATCGACACTTTATGCG-TGCACCTT-TTGGTCATTCATTCTGGA
* * *
96577 -AAAAAGTATCGACACAAACTT-AAAAAGTGTCGATACATTATGTAGA-ACTATTTTCTCATAAA
128 CAAAAAGTATCGACAC-AAGTTCCACAAGTGTCGATACATTATGTAGACA-TATTTTCTCATAAA
* *
96639 ACCGGTAT
191 ACCGATAA
* * * * *
96647 ATTTCTATCGGGTACATTGGAAATTTACATATTACATTGTAATTATCGGTTTCGATGTTTTTGGG
1 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* *
96712 ATCGATACAATTTTAAATGTATCAACACTTTATGCGTGCACCCTGTTTGGT-ATTCATTCTGGAC
66 ATCGATACTATTTTAAATGTATCGACACTTTATGCGTGCA-CCT-TTTGGTCATTCATTCTGGAC
* * * *
96776 AAAAAGTATTGACATAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTTTCATAAAACC
129 AAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACC
96841 GATAA
194 GATAA
* * * *
96846 ATTTCTACCGGTTTCAATGTAAATTTACGTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
1 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* * *
96911 ATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGAACCATTTTGGTCATTCATTGTGGAC
66 ATCGATACTATTT-TAAATGTATCGACACTTTATGCGTGCACC-TTTTGGTCATTCATTCTGGAC
*
96976 AACAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACC
129 AAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACC
97041 GATAA
194 GATAA
* *
97046 ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
1 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* *
97111 ATCAATACTTTTTATAAATGTATCGACAC
66 ATCGATACTATTT-TAAATGTATCGACAC
97140 ATATTTAGGT
Statistics
Matches: 439, Mismatches: 44, Indels: 18
0.88 0.09 0.04
Matches are distributed among these distances:
198 107 0.24
199 139 0.32
200 193 0.44
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
ATCGATACTATTTTAAATGTATCGACACTTTATGCGTGCACCTTTTGGTCATTCATTCTGGACAA
AAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGA
TAA
Found at i:99647 original size:19 final size:19
Alignment explanation
Indices: 99623--99670 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
99613 TTACATTCAC
99623 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
99642 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
99661 ATACAAAATT
1 ATACAAAATT
99671 TCCTCTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:101976 original size:198 final size:198
Alignment explanation
Indices: 101287--101993 Score: 964
Period size: 195 Copynumber: 3.6 Consensus size: 198
101277 TATAACTTTA
** * * * *
101287 AAAAGTGTCGATACATTATCCAGACCTATTTTATAATTAACCGGTATTTTTCTACTGGTTACATT
1 AAAAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATT
* * **
101352 GGAAATTGACCTATTACATTATAATTATATTATTCGATGTTTATGGGATCGATACTTTTTATAAA
66 GGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTT-TAAA
* * * * *
101417 TGTATCGACACTTTATTCGTGCA-CCTCAGTTGGTCATTTATTCTGGACAAAAAGAATCGACAC-
130 TGTATCGACACTTTATGCGTGCACCCT-TGTAGG-CATTTATTCTGGACAACAAGTATCGACACA
**
101480 AATTTA
193 AATTCC
* * *
101486 AAAAGTGTCGATACATTATGTAGACCTATT-TTTGAATTAACTGGTATATTTCTACCGATTACAT
1 AAAAGTGTCGATACATTATGTAGACCTATTATCT-AATTAACCGGTATATTTCTACCGGTTACAT
* *
101550 TGTAAAGTT-ACCTATTATATTATAATTAT-TGGT-TTCGATGTTTTTGGGATCGATACAATTTT
65 TGGAAA-TTGACCTATTACATTATAATTATCT--TATTCGATGTTTTTGGGATCGATACAATTTT
* * * * * *
101612 AAATGTATCAATACTTTATGTGTGCACCCTTTTAGGCATTCATTCT-GACAACAAGTATCGGCAC
127 AAATGTATCGACACTTTATGCGTGCACCCTTGTAGGCATTTATTCTGGACAACAAGTATCGACAC
101676 AAATTCC
192 AAATTCC
*
101683 AAAAGTGTCGATACATTATGTA-A-ATATTATCTAATTAACCGGTATATTTCTACCGGTTACATT
1 AAAAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATT
101746 GGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAAT
66 GGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAAT
*
101811 GTATCGACACTTTATGCGTGCACCCTTGTAGGCATTTATTCTGGATAACAAGTATCGACACAAAT
131 GTATCGACACTTTATGCGTGCACCCTTGTAGGCATTTATTCTGGACAACAAGTATCGACACAAAT
101876 TCC
196 TCC
* ** *
101879 ACAAGCATCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATATCTACCGGTTACATT
1 AAAAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATT
* *
101944 GTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATC
66 GGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATC
101994 TAGATTTTTA
Statistics
Matches: 450, Mismatches: 45, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
194 3 0.01
195 126 0.28
196 61 0.14
197 36 0.08
198 115 0.26
199 106 0.24
200 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
AAAAGTGTCGATACATTATGTAGACCTATTATCTAATTAACCGGTATATTTCTACCGGTTACATT
GGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTTTGGGATCGATACAATTTTAAAT
GTATCGACACTTTATGCGTGCACCCTTGTAGGCATTTATTCTGGACAACAAGTATCGACACAAAT
TCC
Found at i:103276 original size:18 final size:18
Alignment explanation
Indices: 103253--103289 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
103243 CGAAATTTAT
103253 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
103271 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
103289 A
1 A
103290 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:104701 original size:12 final size:12
Alignment explanation
Indices: 104684--104721 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
104674 ACTTGTTTGA
*
104684 ATCATCATCATC
1 ATCATCATCTTC
104696 ATCATCATCTTC
1 ATCATCATCTTC
*
104708 ATCGTCATCTTC
1 ATCATCATCTTC
104720 AT
1 AT
104722 TGACCGCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:106478 original size:30 final size:30
Alignment explanation
Indices: 106444--106510 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
106434 TCGGGATCTA
106444 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
106474 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
106504 TGGATAG
1 TGGATAG
106511 GTCCTTCGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:118711 original size:30 final size:30
Alignment explanation
Indices: 118637--118711 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
118627 GGTTCTTCGG
* *
118637 GACCTATGGATAGTCACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
118667 GACCTCTGGATAGTTATCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
118697 GACCTCTGGATAGTT
1 GACCTCTGGATAGTT
118712 CCTTCGGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:121358 original size:200 final size:200
Alignment explanation
Indices: 121015--121982 Score: 1406
Period size: 200 Copynumber: 4.8 Consensus size: 200
121005 TTTAAAATTA
* ** * **
121015 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTACTTTCTCATAAAACC-GATAA
1 TATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTGTTTTCTCAT-AAACCAG-TAA
* * * **
121079 ATGTT-TACCGGTTACATTGTAAATTTACCTATTGCATTATAATTATGTGTTTCGATATTTTTCA
64 AT-TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
* *
121143 GATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCA-CCCTTTTGGGAATTCATTCTGG
128 GATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTGG
*
121207 ACAACAAG
193 ACAAAAAG
* * * *
121215 TATCGACACAAGTTCCACATTGTTTCGATACATTATGTAGACCTATTTTTTCATAAACCAGTAAA
1 TATCGACACAAGTTCCACA-AGTGTCGATACATTATGTAGACCTGTTTTCTCATAAACCAGTAAA
*
121280 TTTTTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
65 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
*
121345 TCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCA-CCCTTTTGGGCATTCATTCTAGAC
130 TCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTGGAC
*
121409 AAAACG
195 AAAAAG
* * *
121415 TATCGACACAAGTTCCACAAGTGTCGATATATTATGTAAACCTGTTTTGTCATAAACCAGTAAAT
1 TATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTGTTTTCTCATAAACCAGTAAAT
* ** * *
121480 TTCTATCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-TATTTTGATATTTTTGGGAT
66 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGAT
* *
121544 CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTATGGACA
131 CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTGGACA
121609 AAAAG
196 AAAAG
* * * * *
121614 TATCGACACAATTTCCACAAGTGTCGATATATTATGTAGACATGTTTTCTTATAAACCGGTAAAT
1 TATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTGTTTTCTCATAAACCAGTAAAT
* * * *
121679 TTCTACTGGTTCCATTGTAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGAT
66 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGAT
*
121744 CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTGGCCA
131 CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTGGACA
121809 AAAAG
196 AAAAG
* * *
121814 TATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTGTTCTCTCATAAAACCGGTATA
1 TATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTGTTTTCTCAT-AAACCAGTAAA
* * *
121879 TTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
65 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* * *
121944 TGGATACCTTTTATAAATATATCGACACTTTATGCGTGC
130 TCGATACTTTTTATAAATGTATCGACACTTTATGCGTGC
121983 CTATTCTCTC
Statistics
Matches: 698, Mismatches: 64, Indels: 11
0.90 0.08 0.01
Matches are distributed among these distances:
198 54 0.08
199 210 0.30
200 297 0.43
201 137 0.20
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (200 bp):
TATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTGTTTTCTCATAAACCAGTAAAT
TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGAT
CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTGGACA
AAAAG
Found at i:122282 original size:18 final size:20
Alignment explanation
Indices: 122227--122276 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
122217 TTACATTCAC
* *
122227 ATACAAAATTATAAATC-GT
1 ATACAAAATTATAAACCTAT
122246 ATACAAAATTATAAACCTAT
1 ATACAAAATTATAAACCTAT
122266 ATACAAAATTA
1 ATACAAAATTA
122277 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (20 bp):
ATACAAAATTATAAACCTAT
Found at i:123861 original size:18 final size:18
Alignment explanation
Indices: 123838--123876 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
123828 TCCTCCTCAT
*
123838 TTCCTCTATCTTCTCTTC
1 TTCCTCCATCTTCTCTTC
*
123856 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTCTCTTC
123874 TTC
1 TTC
123877 ATATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTCTCTTC
Found at i:126930 original size:179 final size:178
Alignment explanation
Indices: 126546--126933 Score: 607
Period size: 180 Copynumber: 2.2 Consensus size: 178
126536 TACGTCTACT
*
126546 TATTAATGTATCGACACTTTCAACATATCTGGTAGAGATTTACCGATTTTGTCATTTATAGATCG
1 TATTAATGTATCGACACTTTCAACATATCTGGTAGAGATTTACCGATTTTGTCATTTATAGACCG
* *
126611 GTTTTATCATTTTTTTACCTGTTATATTGTTATGGATCGATATAATTTTATAAAATATCGACACT
66 ATTTTATCATTTTTTTACCTATTATA-T-TTATGGATCGATATAATTTTATAAAATATCGACACT
126676 TTATAGGCTATTATTGCTCCTCTTTTAAATTCCAAAAATGTCGATACTTA
129 TTATAGGCTATTATTGCTCCTCTTTTAAATTCCAAAAATGTCGATACTTA
* * * *
126726 TATTAATGTATTGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTATAGACCG
1 TATTAATGTATCGACACTTTCAACATATCTGGTAGAGATTTACCGATTTTGTCATTTATAGACCG
* * * *
126791 ATTTTGTCATTTTTTTATCTATTATA-TTATGGATCGATATATTTTTATAAAGTATCGACACTTT
66 ATTTTATCATTTTTTTACCTATTATATTTATGGATCGATATAATTTTATAAAATATCGACACTTT
* **
126855 ATAGGTGTCATTATTGCTCCTCTTTTAAATTCCAAAGGTGTCGATACTTA
131 ATAGG-CT-ATTATTGCTCCTCTTTTAAATTCCAAAAATGTCGATACTTA
126905 TATTAATGTATCGACACTTTCAACATATC
1 TATTAATGTATCGACACTTTCAACATATC
126934 CACTTTACTG
Statistics
Matches: 191, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
177 41 0.21
178 1 0.01
179 67 0.35
180 82 0.43
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (178 bp):
TATTAATGTATCGACACTTTCAACATATCTGGTAGAGATTTACCGATTTTGTCATTTATAGACCG
ATTTTATCATTTTTTTACCTATTATATTTATGGATCGATATAATTTTATAAAATATCGACACTTT
ATAGGCTATTATTGCTCCTCTTTTAAATTCCAAAAATGTCGATACTTA
Found at i:128387 original size:23 final size:24
Alignment explanation
Indices: 128336--128390 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
128326 TCTAATCTCG
*
128336 CACCCCATAGAATTTCTATATATCC
1 CACCCC-TAGAATTTCTATATATCA
*
128361 CACCCCTAGAATTT-TATATTTCA
1 CACCCCTAGAATTTCTATATATCA
128384 CACCCCT
1 CACCCCT
128391 TAATATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 14 0.50
24 8 0.29
25 6 0.21
ACGTcount: A:0.29, C:0.35, G:0.04, T:0.33
Consensus pattern (24 bp):
CACCCCTAGAATTTCTATATATCA
Found at i:133680 original size:45 final size:42
Alignment explanation
Indices: 133606--133703 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 42
133596 TTGCATGAAT
** * *
133606 TCACATATACATATATATCATTTGATTCATGTCTTATTCTTATA
1 TCACATAT--ATATATATCATTTGATTCATCACTTAATCTCATA
*
133650 TCATCATATATATATATCATCTATGTTTCATCACTTAATCTCATA
1 TCA-CATATATATATATCAT-T-TGATTCATCACTTAATCTCATA
133695 TCACATATA
1 TCACATATA
133704 ACATGCTCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
43 11 0.24
44 10 0.22
45 25 0.54
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (42 bp):
TCACATATATATATATCATTTGATTCATCACTTAATCTCATA
Found at i:141275 original size:23 final size:23
Alignment explanation
Indices: 141249--141316 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
141239 CAATTCGGTT
141249 GGGTCAACTCGTTGACTTTGACC
1 GGGTCAACTCGTTGACTTTGACC
141272 GGGTCAACTCGTTGACTTTGACC
1 GGGTCAACTCGTTGACTTTGACC
*** *
141295 AATTCAACCCGTTGACTTTGAC
1 GGGTCAACTCGTTGACTTTGAC
141317 TTTAACTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (23 bp):
GGGTCAACTCGTTGACTTTGACC
Found at i:145518 original size:3 final size:3
Alignment explanation
Indices: 145497--145593 Score: 81
Period size: 3 Copynumber: 32.0 Consensus size: 3
145487 GGGTTATAAA
* *
145497 TAT TA- TAT TAT AAT AAT TAT TAT ATAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TAT TAT
* * * * * *
145543 TAT AAA TAT TA- TAT TAT AAT AAT TAT TAG TAT TAT TAT TAA TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
145591 TAT
1 TAT
145594 GTATATTAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.05
3 64 0.83
4 9 0.12
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:145542 original size:35 final size:37
Alignment explanation
Indices: 145497--145593 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 37
145487 GGGTTATAAA
*
145497 TATTA-TATTATAATAATTATTATA-TAT-TATTTAT
1 TATTATTATTATAATAATTATTATATTATATAATTAT
* *
145531 TATTATTATTATTATAAATATTATATTATAATAATTAT
1 TATTATTATTATAATAATTATTATATTAT-ATAATTAT
*
145569 TAGTATTATTATTAAT-ATTACTTAT
1 TATTATTATTA-TAATAATTA-TTAT
145594 GTATATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.10
35 17 0.33
36 3 0.06
38 19 0.37
39 7 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (37 bp):
TATTATTATTATAATAATTATTATATTATATAATTAT
Found at i:145545 original size:38 final size:38
Alignment explanation
Indices: 145497--145582 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
145487 GGGTTATAAA
* * *
145497 TATTA-TATTAT-AATAATTAT-TATATATTATTTATTAT
1 TATTATTATTATAAAT-ATTATAT-TATAATAATTATTAG
145534 TATTATTATTATAAATATTATATTATAATAATTATTAG
1 TATTATTATTATAAATATTATATTATAATAATTATTAG
145572 TATTATTATTA
1 TATTATTATTA
145583 ATATTACTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 5 0.12
38 34 0.79
39 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (38 bp):
TATTATTATTATAAATATTATATTATAATAATTATTAG
Found at i:147918 original size:49 final size:49
Alignment explanation
Indices: 147846--147942 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
147836 TGAACTCATT
147846 TTCTGGTAACGCAGACCTTCATTTGTTGTTTTGATTAAAAATTAATTTA
1 TTCTGGTAACGCAGACCTTCATTTGTTGTTTTGATTAAAAATTAATTTA
147895 TTCTGGTAACGCAGACCTTCATTTGTTGTTTTGATTAAAAATTAATTT
1 TTCTGGTAACGCAGACCTTCATTTGTTGTTTTGATTAAAAATTAATTT
147943 TTATTTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (49 bp):
TTCTGGTAACGCAGACCTTCATTTGTTGTTTTGATTAAAAATTAATTTA
Found at i:149326 original size:55 final size:55
Alignment explanation
Indices: 149242--149389 Score: 176
Period size: 55 Copynumber: 2.7 Consensus size: 55
149232 AAAGACATTC
* *
149242 AAATGATTCATGAAAAATGACATCCGATGAATGAAGAAATTTGAAACTGATTGAA
1 AAATGATTCATGAAAAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAA
* **
149297 AAATGATTCTTGAGGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAA
1 AAATGATTCATGAAAAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAA
* * *
149352 GACA-GA-TCTATGAAGAAA-GAGATTCGATGAATGAAGAA
1 -AAATGATTC-ATGAA-AAAGGACATCCGATGAATGAAGAA
149390 GTTTAAAGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
54 2 0.03
55 73 0.92
56 4 0.05
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (55 bp):
AAATGATTCATGAAAAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAA
Found at i:149824 original size:55 final size:55
Alignment explanation
Indices: 149764--149918 Score: 181
Period size: 55 Copynumber: 2.8 Consensus size: 55
149754 AAATACATTC
149764 AAATGATTCATGAAAAATGACATCCGATGAATGAAGAAATTTGAAACTGATTGAA-
1 AAATGATTCATGAAAAA-GACATCCGATGAATGAAGAAATTTGAAACTGATTGAAG
* * * *
149819 AAATGATTCTTGAGGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAG
1 AAATGATTCATGA-AAAAGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAG
* * * *
149875 ACA-GA-TCTATGAAGAAAGAGATTCGATGAATGAAGAAGTTTGAA
1 AAATGATTC-ATGAA-AAAGACATCCGATGAATGAAGAAATTTGAA
149919 GTTGAAGACT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
54 2 0.02
55 78 0.93
56 4 0.05
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.24
Consensus pattern (55 bp):
AAATGATTCATGAAAAAGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAG
Found at i:151014 original size:18 final size:18
Alignment explanation
Indices: 150993--151027 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
150983 ATATATATAT
*
150993 ATATATATGTATGTGTAC
1 ATATACATGTATGTGTAC
151011 ATATACATGTATGTGTA
1 ATATACATGTATGTGTA
151028 TCTGTGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
ATATACATGTATGTGTAC
Found at i:151037 original size:2 final size:2
Alignment explanation
Indices: 151030--151326 Score: 537
Period size: 2 Copynumber: 150.0 Consensus size: 2
151020 TATGTGTATC
151030 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
151072 TG TG TG TG TG TG TG TG TG TG -G TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
151113 TG TA TG TG TG T- TG TG TG TG TG GG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
151154 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
151196 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
151238 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
151280 TG TG TG TG TG TG TG T- TG TG TG TG TG TG TG TG TG TT TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
151321 TG TG TG
1 TG TG TG
151327 CGCGCGTGCG
Statistics
Matches: 284, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
1 3 0.01
2 281 0.99
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:151458 original size:12 final size:12
Alignment explanation
Indices: 151338--151456 Score: 195
Period size: 12 Copynumber: 10.0 Consensus size: 12
151328 GCGCGTGCGC
151338 GTGTGCATATGT
1 GTGTGCATATGT
151350 GTGTGCATATGT
1 GTGTGCATATGT
151362 GTGTGCATATGT
1 GTGTGCATATGT
151374 G-GTGCATATGT
1 GTGTGCATATGT
151385 GTGTGCATATGT
1 GTGTGCATATGT
151397 GTGTGCATATGT
1 GTGTGCATATGT
*
151409 TTGTGCATATGT
1 GTGTGCATATGT
151421 GTGTGCATATGT
1 GTGTGCATATGT
*
151433 ATGTGCATATGT
1 GTGTGCATATGT
* *
151445 ATGTGTATATGT
1 GTGTGCATATGT
151457 ATATTCTTTT
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
11 11 0.11
12 91 0.89
ACGTcount: A:0.18, C:0.08, G:0.31, T:0.43
Consensus pattern (12 bp):
GTGTGCATATGT
Found at i:154706 original size:7 final size:7
Alignment explanation
Indices: 154696--154775 Score: 80
Period size: 7 Copynumber: 11.7 Consensus size: 7
154686 GGAAAAAAGG
154696 GAAAAAT
1 GAAAAAT
*
154703 GAAAAAGA
1 GAAAAA-T
*
154711 GAAAAAGG
1 GAAAAA-T
154719 GAAAAAT
1 GAAAAAT
154726 GAAAAGAT
1 GAAAA-AT
154734 GAAAAAT
1 GAAAAAT
154741 GAAAAA-
1 GAAAAAT
154747 -AAAAA-
1 GAAAAAT
154752 GAAAAAT
1 GAAAAAT
154759 GAAAAA-
1 GAAAAAT
154765 GAAAAA-
1 GAAAAAT
154771 GAAAA
1 GAAAA
154776 GAAAAGAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
5 5 0.08
6 16 0.24
7 25 0.38
8 20 0.30
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (7 bp):
GAAAAAT
Found at i:154707 original size:15 final size:14
Alignment explanation
Indices: 154696--154775 Score: 80
Period size: 15 Copynumber: 5.9 Consensus size: 14
154686 GGAAAAAAGG
*
154696 GAAAAATGAAAAAGA
1 GAAAAATGAAAAA-T
*
154711 GAAAAAGGGAAAAAT
1 GAAAAA-TGAAAAAT
154726 GAAAAGATGAAAAAT
1 GAAAA-ATGAAAAAT
154741 GAAAAA--AAAAA-
1 GAAAAATGAAAAAT
154752 GAAAAATGAAAAA-
1 GAAAAATGAAAAAT
154765 GAAAAA-GAAAA
1 GAAAAATGAAAA
154776 GAAAAGAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
11 6 0.10
12 10 0.17
13 11 0.19
14 1 0.02
15 23 0.40
16 7 0.12
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (14 bp):
GAAAAATGAAAAAT
Found at i:154715 original size:23 final size:23
Alignment explanation
Indices: 154689--154739 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
154679 AAAATGAGGA
154689 AAAAAGGGAAAAATGAAAAAGA-G
1 AAAAAGGGAAAAATG-AAAAGATG
154712 AAAAAGGGAAAAATGAAAAGATG
1 AAAAAGGGAAAAATGAAAAGATG
154735 AAAAA
1 AAAAA
154740 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (23 bp):
AAAAAGGGAAAAATGAAAAGATG
Found at i:154746 original size:23 final size:23
Alignment explanation
Indices: 154689--154747 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
154679 AAAATGAGGA
*
154689 AAAAAGGGAAAAATGAAAAAGAG
1 AAAAAGGAAAAAATGAAAAAGAG
*
154712 AAAAAGGGAAAAATG-AAAAGATG
1 AAAAAGGAAAAAATGAAAAAGA-G
*
154735 AAAAATGAAAAAA
1 AAAAAGGAAAAAA
154748 AAAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 6 0.18
23 27 0.82
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (23 bp):
AAAAAGGAAAAAATGAAAAAGAG
Found at i:154755 original size:11 final size:11
Alignment explanation
Indices: 154735--154831 Score: 59
Period size: 11 Copynumber: 8.4 Consensus size: 11
154725 TGAAAAGATG
*
154735 AAAAATGAAAA
1 AAAAAAGAAAA
154746 AAAAAAGAAAA
1 AAAAAAGAAAA
154757 ATGAAAAAGAAAA
1 A--AAAAAGAAAA
*
154770 AGAAAAGAAAA
1 AAAAAAGAAAA
* *
154781 GAAAAGAGAATGA
1 -AAAAAAGAA-AA
* ** **
154794 GAATGAGAATG
1 AAAAAAGAAAA
154805 AAAAAAGAAAA
1 AAAAAAGAAAA
*
154816 AAAATAGAATAA
1 AAAAAAGAA-AA
154828 AAAA
1 AAAA
154832 CATGTCTAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
11 34 0.52
12 20 0.30
13 12 0.18
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.07
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:154757 original size:19 final size:19
Alignment explanation
Indices: 154705--154775 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 19
154695 GGAAAAATGA
*
154705 AAAAGAGAAAAAGGGAAAAATG
1 AAAA-AGAAAAA-TGAAAAA-G
154727 AAAAGATGAAAAATGAAAAA-
1 AAAA-A-GAAAAATGAAAAAG
154747 AAAAAGAAAAATGAAAAAG
1 AAAAAGAAAAATGAAAAAG
154766 AAAAAGAAAA
1 AAAAAGAAAA
154776 GAAAAGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
18 13 0.28
19 11 0.24
20 4 0.09
22 12 0.26
23 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAATGAAAAAG
Found at i:156067 original size:37 final size:38
Alignment explanation
Indices: 156026--156223 Score: 287
Period size: 37 Copynumber: 5.3 Consensus size: 38
156016 TTCGACCTTC
* *
156026 GAAGCAAATCAAACTTAAGCCTTCA-TGAAAGAGTAGT
1 GAAGCAAATCAATCTTAAGCCTTCACCGAAAGAGTAGT
156063 GAAGCAAATCAATCTTAAGCCTTCACCG-AAGAGTAGT
1 GAAGCAAATCAATCTTAAGCCTTCACCGAAAGAGTAGT
*
156100 GAAGCAAATCAATCTTGAGCCTTCACCG-AAGAGTAGT
1 GAAGCAAATCAATCTTAAGCCTTCACCGAAAGAGTAGT
*
156137 GAAGCAAATCAATCTTCAGCCTTCACC-AAAGAGTAGT
1 GAAGCAAATCAATCTTAAGCCTTCACCGAAAGAGTAGT
* * * *
156174 GAAGCAAATCAATCTTGAGCCTTCACGGAAAGAATACT
1 GAAGCAAATCAATCTTAAGCCTTCACCGAAAGAGTAGT
156212 GAAGCAGAATCA
1 GAAGCA-AATCA
156224 TTTTCAGAAG
Statistics
Matches: 149, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
37 129 0.87
38 15 0.10
39 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (38 bp):
GAAGCAAATCAATCTTAAGCCTTCACCGAAAGAGTAGT
Found at i:156312 original size:55 final size:55
Alignment explanation
Indices: 156228--157257 Score: 1299
Period size: 55 Copynumber: 18.7 Consensus size: 55
156218 GAATCATTTT
* * *
156228 CAGAAGATTGTTCGAGTTCCATACTCCCTGAA-CTAAGAGGGAGCGAACCCGTTGA
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGC-AAGAGGGAGCGAACCCATTGG
* * * *
156283 CAGAAGATTGCTCAAGTTTTATACTCCCTGAAGCAAGAGGGAGCGAACTCATTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * * * * *
156338 TAGAAGATTGCTCGAGTTCCATACTCCCTAAAGCAAGAGGGAGTGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * * ** * * *
156393 CAGAAGATTTTTTGAGTTCCATACACCCTGAAGCAAGAGGGAATGAACTCGTTCG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * *
156448 TAGAAGATTTTTCGAGTTCCATACTCCCTGAAGCAAGAGGAAGCGAACCCATTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * * *
156503 AAGAAGATTGTTGGAGTTCTATACTCCCTGAAGTAAAAGGGAGCGAACCCATTCG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * ***
156558 CATAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGATGGAGCGAACATGTTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* ** * *
156613 AAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAATGAACCCGTTCG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * *
156668 TAGAAGATTGTTCGAGTTCTATACTCCCTGAATCAAGAGGGAGCAAACCCGTTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* *
156723 CAGAAGATTATTCGAGTTCCATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * *
156778 TAGAAGAATATTCGAGTTCCATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * * * *
156833 CGGAAGATTGATCGAGTTCTATACTCCCTTAAGCAAGAGAGAGCGAACCCGTTCG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * *
156888 CAGAAGATTGTTCGAGTTCTATACTCCTTGAA-CAAGAGAGAGCGAACCCATTCG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
*
156942 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGT
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * * * *
156997 TAGAAGAATATTTGAGTTCCATACTCCCTGAAGCAAGAGGGAGCGAACCCATTCG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * * *
157052 CAGAAGATTGTTCGAATTCTATACTCCCTGAAACAAGAGGGAGAGAACCCATTAG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
*
157107 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCGTTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
* * ** * * *
157162 TAGAAGAATAATCGAGTTCCATACTCCTTGAAGCAAGAGGGAGCGAACCCGTTGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
**
157217 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAATAAGAGGG
1 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGG
157258 TTCGAGTTCT
Statistics
Matches: 844, Mismatches: 129, Indels: 4
0.86 0.13 0.00
Matches are distributed among these distances:
54 52 0.06
55 791 0.94
56 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (55 bp):
CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCATTGG
Found at i:157318 original size:86 final size:86
Alignment explanation
Indices: 157173--157343 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 86
157163 AGAAGAATAA
* * * * * * * *
157173 TCGAGTTCCATACTCCTTGAAGCAAGAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTA
1 TCGAGTTCCATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGCAGAAGAATATTCGAGTTCCA
*
157238 TACTCCCTGAAATAAGAGGGT
66 TACTCCCTGAAACAAGAGGGT
* *
157259 TCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAATATTCGAGTTCCA
1 TCGAGTTCCATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGCAGAAGAATATTCGAGTTCCA
* *
157324 TACTGCCTGAAGCAAGAGGG
66 TACTCCCTGAAACAAGAGGG
157344 AGAAAACCCG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (86 bp):
TCGAGTTCCATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGCAGAAGAATATTCGAGTTCCA
TACTCCCTGAAACAAGAGGGT
Found at i:157352 original size:55 final size:55
Alignment explanation
Indices: 157257--157697 Score: 444
Period size: 55 Copynumber: 8.1 Consensus size: 55
157247 AAATAAGAGG
* * * * *
157257 GTTCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAAT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
* * * * *
157312 ATTCGAGTTCCATACTGCCTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAAT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
* * * * *
157367 GTTCGAGCTCTATACTCGCTGAATCAAGATGGAGCGAACCCGTTGGCAGAAGATT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
* * * * ** * *
157422 GTTCGAGTTCTATGCTCTCTGAAGCAAGA-GAAAACGAACCTATTGTCAGAATATT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGA-GAACCCGTTGGCAGAAGATT
* * * *
157477 ATTCGAGTTCCATACTCCCTGAAGCAAGAGGGAGTGAACCCGTTGGCAGAAGAAT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
* * * *
157532 GTT-GTA-TTCTATACTCCCTGAAGCAAGAGAGAGCGAACCCTTTGTCAGAAGATT
1 GTTCG-AGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
* * * * *
157586 ATTTGAGTTCTGTACTCCCTGAAGCAAGAGGGAGCA-AACCCGTAGGCAGAATATT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAG-AGAACCCGTTGGCAGAAGATT
* * * **
157641 GTTCGAGTTC--TACTCCCTGAAGCAAGAGGTAGTGAACCCGCTGGTTGAAGATT
1 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
157694 GTTC
1 GTTC
157698 AAAGAAGAGG
Statistics
Matches: 314, Mismatches: 65, Indels: 16
0.79 0.16 0.04
Matches are distributed among these distances:
53 39 0.12
54 48 0.15
55 225 0.72
56 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (55 bp):
GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAGAAGATT
Found at i:157370 original size:141 final size:141
Alignment explanation
Indices: 157116--157389 Score: 442
Period size: 141 Copynumber: 1.9 Consensus size: 141
157106 GCAGAAGATT
* * * *
157116 GTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGCGAACCCGTTGGTAGAAGAATAATCGAGTTC
1 GTTCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAATAATCGAGTTC
** * *
157181 CATACTCCTTGAAGCAAGAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATACTCCCT
66 CATACTCCTTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATGTTCGAGCTCTATACTCCCT
157246 GAAATAAGAGG
131 GAAATAAGAGG
*
157257 GTTCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAATATTCGAGTTC
1 GTTCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAATAATCGAGTTC
*
157322 CATACTGCC-TGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATGTTCGAGCTCTATACTCGC
66 CATACT-CCTTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATGTTCGAGCTCTATACTCCC
157386 TGAA
130 TGAA
157390 TCAAGATGGA
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
141 120 0.98
142 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (141 bp):
GTTCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAATAATCGAGTTC
CATACTCCTTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATGTTCGAGCTCTATACTCCCT
GAAATAAGAGG
Found at i:157403 original size:196 final size:196
Alignment explanation
Indices: 157061--157444 Score: 563
Period size: 196 Copynumber: 2.0 Consensus size: 196
157051 GCAGAAGATT
* * * *
157061 GTTCGAATTCTATACTCCCTGAAACAAGAGGGAGAGAACCCATTAGCAGAAGATTGTTCGAGTTC
1 GTTCGAATTCTATACTCCCTGAAACAAAAGAGAGAGAACCCATTAGCAGAAGAATATTCGAGTTC
* ** * *
157126 TATACTCCCTGAAGCAAGAGGGAGCGAACCCGTTGGTAGAAGAATAATCGAGTTCCATACTCCTT
66 CATACTCCCTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATAATCGAGCTCCATACTCCTT
157191 GAAGCAAGAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAATAAGAG
131 GAAGCAAGAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAATAAGAG
157256 G
196 G
* * * *
157257 GTTCGAGTTCTATACTCCCTGAAACAAAAGAGAGAGAACCCGTTGGTAGAAGAATATTCGAGTTC
1 GTTCGAATTCTATACTCCCTGAAACAAAAGAGAGAGAACCCATTAGCAGAAGAATATTCGAGTTC
* ** *
157322 CATACTGCCTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATGTTCGAGCTCTATACTCGC-
66 CATACTCCCTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATAATCGAGCTCCATACTC-CT
* * * *
157386 TGAATCAAGATGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATGCTCTCTGAA
130 TGAAGCAAGAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATACTCCCTGAA
157445 GCAAGAGAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
196 165 0.99
197 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (196 bp):
GTTCGAATTCTATACTCCCTGAAACAAAAGAGAGAGAACCCATTAGCAGAAGAATATTCGAGTTC
CATACTCCCTGAAGCAAGAGGGAGAAAACCCGTTGGCAGAAGAATAATCGAGCTCCATACTCCTT
GAAGCAAGAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAATAAGAG
G
Found at i:157872 original size:17 final size:18
Alignment explanation
Indices: 157847--157929 Score: 88
Period size: 17 Copynumber: 4.9 Consensus size: 18
157837 TGTCCGGGTT
*
157847 ATAAATATTA-TATTATA
1 ATAATTATTATTATTATA
157864 ATAATTATTATTATTAT-
1 ATAATTATTATTATTATA
*
157881 -T-ATTA-TATTATTATT
1 ATAATTATTATTATTATA
*
157896 ATAAATATTA-TATTATA
1 ATAATTATTATTATTATA
*
157913 ATAATTATTAGTATTAT
1 ATAATTATTATTATTAT
157930 TATTAATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
14 9 0.16
15 4 0.07
16 2 0.04
17 27 0.48
18 14 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
ATAATTATTATTATTATA
Found at i:157873 original size:3 final size:3
Alignment explanation
Indices: 157852--157945 Score: 86
Period size: 3 Copynumber: 32.0 Consensus size: 3
157842 GGGTTATAAA
* *
157852 TAT TA- TAT TAT AAT AAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
157898 AAA TAT TA- TAT TAT AAT AAT TAT TAG TAT TAT TAT TAA TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
157943 TAT
1 TAT
157946 ATTTATTACA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
2 6 0.08
3 66 0.88
4 3 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:157917 original size:49 final size:51
Alignment explanation
Indices: 157845--157945 Score: 179
Period size: 49 Copynumber: 2.0 Consensus size: 51
157835 TTTGTCCGGG
*
157845 TTATAAATATTATATTATAATAATTATTATTATTATTATT-ATATTA-TTA
1 TTATAAATATTATATTATAATAATTATTAGTATTATTATTAATATTACTTA
157894 TTATAAATATTATATTATAATAATTATTAGTATTATTATTAATATTACTTA
1 TTATAAATATTATATTATAATAATTATTAGTATTATTATTAATATTACTTA
157945 T
1 T
157946 ATTTATTACA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 39 0.80
50 6 0.12
51 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (51 bp):
TTATAAATATTATATTATAATAATTATTAGTATTATTATTAATATTACTTA
Found at i:160929 original size:29 final size:29
Alignment explanation
Indices: 160875--160930 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
160865 ATGCCTTATG
* *
160875 TATATATTATATGTATTCTAAGTATAATT
1 TATATATTATATATATTCAAAGTATAATT
*
160904 TATATTTTATATATATT-AAAGATATAA
1 TATATATTATATATATTCAAAG-TATAA
160931 ATTAGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (29 bp):
TATATATTATATATATTCAAAGTATAATT
Found at i:162604 original size:18 final size:18
Alignment explanation
Indices: 162581--162620 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
162571 ATATATAATT
162581 TTAATAATTTTAATTTAA
1 TTAATAATTTTAATTTAA
* *
162599 TTAATAATTTTATTTTTA
1 TTAATAATTTTAATTTAA
162617 TTAA
1 TTAA
162621 AAATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAATAATTTTAATTTAA
Found at i:164533 original size:14 final size:14
Alignment explanation
Indices: 164494--164525 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
164484 AAATAATTAA
164494 AATAATATATCTTAT
1 AATAATATAT-TTAT
164509 AATAATATATTTAT
1 AATAATATATTTAT
164523 AAT
1 AAT
164526 TATTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AATAATATATTTAT
Found at i:164566 original size:28 final size:27
Alignment explanation
Indices: 164523--164591 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
164513 ATATATTTAT
* *
164523 AATTATTTATTATATTTTAAAAAATGA
1 AATTATATATTTTATTTTAAAAAATGA
* * *
164550 AATTAATATATTTTATTTTTAATAATTA
1 AATT-ATATATTTTATTTTAAAAAATGA
164578 AATTATATATTTTA
1 AATTATATATTTTA
164592 ATAATATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
AATTATATATTTTATTTTAAAAAATGA
Found at i:165398 original size:2 final size:2
Alignment explanation
Indices: 165391--165450 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
165381 TCTATCTATC
165391 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165433 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
165451 CACACAAACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:165484 original size:23 final size:23
Alignment explanation
Indices: 165454--165501 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
165444 ATATATACAC
165454 ACAAACCATAGTCTCAGTAATAA
1 ACAAACCATAGTCTCAGTAATAA
*
165477 ACAAACCATAGTCTTAGTAATAA
1 ACAAACCATAGTCTCAGTAATAA
165500 AC
1 AC
165502 GGGAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (23 bp):
ACAAACCATAGTCTCAGTAATAA
Found at i:165644 original size:2 final size:2
Alignment explanation
Indices: 165637--165667 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
165627 AAACATGCGC
165637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
165668 GATGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:175584 original size:15 final size:15
Alignment explanation
Indices: 175543--175613 Score: 72
Period size: 15 Copynumber: 4.8 Consensus size: 15
175533 GGTTTTTCGA
*
175543 AAAATGAATTATTGG
1 AAAATGAATTACTGG
** *
175558 AATTTGAGTTACTGG
1 AAAATGAATTACTGG
*
175573 AAAATAAATTACTGG
1 AAAATGAATTACTGG
**
175588 AATTTGAATTA-TGG
1 AAAATGAATTACTGG
175602 AAAATGAATTAC
1 AAAATGAATTAC
175614 ATTTATGGAA
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
14 12 0.29
15 30 0.71
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (15 bp):
AAAATGAATTACTGG
Found at i:175612 original size:29 final size:30
Alignment explanation
Indices: 175543--175613 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
175533 GGTTTTTCGA
* *
175543 AAAATGAATTATTGGAATTTGAGTTACTGG
1 AAAATGAATTACTGGAATTTGAATTACTGG
*
175573 AAAATAAATTACTGGAATTTGAATTA-TGG
1 AAAATGAATTACTGGAATTTGAATTACTGG
175602 AAAATGAATTAC
1 AAAATGAATTAC
175614 ATTTATGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 14 0.38
30 23 0.62
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (30 bp):
AAAATGAATTACTGGAATTTGAATTACTGG
Found at i:175858 original size:20 final size:21
Alignment explanation
Indices: 175833--175884 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
175823 TTTTCCCAAT
*
175833 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
175853 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
175874 TCGCAATGCGA
1 TCGCAATGCGA
175885 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:175897 original size:41 final size:41
Alignment explanation
Indices: 175852--175945 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
175842 GAATAAGTAA
** * *
175852 ATCGCAACGCGAAT-TGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATAT-ACAAAATCGCAACGAGATACTGACT
*
175893 ATCGCAATGC-AATAATACAAAATCGCAACGAGATACTGACT
1 ATCGCAACGCGAAT-ATACAAAATCGCAACGAGATACTGACT
*
175934 TTCGCAACGCGA
1 ATCGCAACGCGA
175946 TTCTGACTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
40 3 0.07
41 38 0.88
42 2 0.05
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATATACAAAATCGCAACGAGATACTGACT
Found at i:175898 original size:20 final size:20
Alignment explanation
Indices: 175873--175967 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
175863 AATTGGGAAA
*
175873 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
175893 ATCGCAATGCAATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
175914 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
175934 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
175954 TTCGCAACGCGATA
1 ATCGCAACGCGATA
175968 ATACATAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.73
21 12 0.20
22 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:176192 original size:21 final size:22
Alignment explanation
Indices: 176155--176197 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
176145 CACTCTCTCA
176155 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
176177 CCCATCT-CGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
176198 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:176500 original size:20 final size:20
Alignment explanation
Indices: 176441--176504 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
176431 GCGATTTTAG
*
176441 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
176461 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
176481 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
176501 TTTC
1 TTTC
176505 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:176695 original size:25 final size:24
Alignment explanation
Indices: 176641--176695 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
176631 TGTTTATTAT
* *
176641 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
176665 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
176691 TGTTT
1 TGTTT
176696 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:177844 original size:18 final size:18
Alignment explanation
Indices: 177823--177867 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
177813 TTCACTTCGG
*
177823 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
177841 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
177859 GAGCCATCA
1 GAGCCATCA
177868 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:178374 original size:20 final size:20
Alignment explanation
Indices: 178349--178394 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
178339 TAGTTTACTT
*
178349 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
178369 TCGCAACGCGGAAATGTCTA
1 TCGCAACACGAAAATGACTA
178389 TCGCAA
1 TCGCAA
178395 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:178403 original size:19 final size:20
Alignment explanation
Indices: 178360--178404 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
178350 CGCAACATGA
178360 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
178380 AAATGTCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
178399 AAATGA
1 AAATGA
178405 AAATAGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:178413 original size:19 final size:19
Alignment explanation
Indices: 178388--178484 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
178378 GGAAATGTCT
178388 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
178407 ATAGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
178421 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
178440 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
178454 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
178473 GTCGCAATGCGA
1 ATCGCAATGCGA
178485 TTTGTGATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.49
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:178427 original size:14 final size:14
Alignment explanation
Indices: 178404--178460 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
178394 ATGCGAAATG
*
178404 AAAATAGCAACGAC
1 AAAATCGCAACGAC
*
178418 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
178437 AAAATCGCAACGAC
1 AAAATCGCAACGAC
178451 AAAATCGCAA
1 AAAATCGCAA
178461 TGCGAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:178478 original size:33 final size:33
Alignment explanation
Indices: 178388--178479 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
178378 GGAAATGTCT
*
178388 ATCGCAATGCGAAATGAAAATAGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
178421 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
178454 ATCGCAATGCGAAATGAAAGTCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
178480 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:178515 original size:14 final size:14
Alignment explanation
Indices: 178496--178585 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
178486 TTGTGATTCG
178496 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
178510 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
178526 CGCATTGCAATTTTGT
1 CG--TTGCGATTTTGT
*
178542 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
178559 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
178575 CGTTGCGATTT
1 CGTTGCGATTT
178586 ACATTTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 25 0.41
15 3 0.05
16 12 0.20
17 4 0.07
18 11 0.18
19 6 0.10
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:178560 original size:33 final size:33
Alignment explanation
Indices: 178492--178602 Score: 188
Period size: 33 Copynumber: 3.4 Consensus size: 33
178482 CGATTTGTGA
*
178492 TTCGCGTTGCGATTTTGTCGTTGCGA-TTTCAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
*
178524 TTCGCATTGCAATTTTGTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
*
178557 TTCGCATTGCGATTTTGTCGTTGCGATTTACAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
178590 TTCGCATTGCGAT
1 TTCGCATTGCGAT
178603 AGCCATTTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 24 0.32
33 50 0.68
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
Found at i:178568 original size:19 final size:19
Alignment explanation
Indices: 178512--178602 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 19
178502 GATTTTGTCG
178512 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
178530 TTGC-AATTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
178544 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
178563 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
178577 TTGCGATTTACATTTCGCA
1 TTGCGATTTTCATTTCGCA
178596 TTGCGAT
1 TTGCGAT
178603 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 21
0.67 0.07 0.25
Matches are distributed among these distances:
14 10 0.18
15 6 0.11
16 8 0.14
17 9 0.16
18 10 0.18
19 13 0.23
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:178629 original size:20 final size:19
Alignment explanation
Indices: 178587--178642 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
178577 TTGCGATTTA
*
178587 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
* *
178606 CATTTCCGCGTTGTGATAGT
1 CATTT-CGCGTTGCGATAGC
178626 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
178643 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:179103 original size:41 final size:41
Alignment explanation
Indices: 179007--179094 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
178997 GACTCACCTG
* * *
179007 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
179049 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
179090 TCATC
1 TCATC
179095 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:180687 original size:14 final size:14
Alignment explanation
Indices: 180668--180721 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
180658 GAAACTGACT
180668 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
180682 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
180701 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
180715 ATCGCAA
1 ATCGCAA
180722 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Done.