Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 41 of 325
Found at i:10121868 original size:23 final size:23
Alignment explanation
Indices: 10121808--10121869 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
10121798 CAAATAGGGT
*
10121808 CTTTGTGGCGTATTCCGTAATGC
1 CTTTGTGGCATATTCCGTAATGC
* * * *
10121831 CTTAGTTGCAGATTCTGTAATGC
1 CTTTGTGGCATATTCCGTAATGC
10121854 CTTTGTGGCATATTCC
1 CTTTGTGGCATATTCC
10121870 AAAATTTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (23 bp):
CTTTGTGGCATATTCCGTAATGC
Found at i:10124304 original size:52 final size:54
Alignment explanation
Indices: 10124240--10124380 Score: 171
Period size: 52 Copynumber: 2.7 Consensus size: 54
10124230 GATATTTATG
*
10124240 CCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGCAATGTGAT-ACGTG-TT
1 CCCGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATAACGTGATT
* * * * * * *
10124292 CCCGTATAAGACCATAGTTGGGCCAAGGCATCAGTATAATGTGATAATGTGATT
1 CCCGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATAACGTGATT
* *
10124346 -CCGTATAAGACCATATCTAGGATATGGCATCGGTA
1 CCCGTATAAGACCATAGCTAGGCTATGGCATCGGTA
10124381 TGATATGTGA
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 38 0.53
53 32 0.44
54 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (54 bp):
CCCGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATAACGTGATT
Found at i:10134494 original size:40 final size:39
Alignment explanation
Indices: 10134449--10134533 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 39
10134439 CAATTAAATC
*
10134449 GATGAGCGATGGGCGCAATTGGATTACTTCAATTTGTCT
1 GATGAGCGATGGGCGCAATTGGATTACTTCAAATTGTCT
* * *
10134488 GAATGAGCTATGGGTGCAGTTGGATTACTTCAAATTGTCT
1 G-ATGAGCGATGGGCGCAATTGGATTACTTCAAATTGTCT
10134528 GATGAG
1 GATGAG
10134534 GCACTGGGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 6 0.15
40 35 0.85
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (39 bp):
GATGAGCGATGGGCGCAATTGGATTACTTCAAATTGTCT
Found at i:10138428 original size:47 final size:47
Alignment explanation
Indices: 10138359--10138451 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
10138349 ATCTATGGCT
10138359 CAGTTTCAACCAATCAGTCTTTGTAACGTTCTTTACAAGGTATCACG
1 CAGTTTCAACCAATCAGTCTTTGTAACGTTCTTTACAAGGTATCACG
10138406 CAGTTTCAACCAATCAGTCTTTGTAACGTTCTTTACAAGGTATCAC
1 CAGTTTCAACCAATCAGTCTTTGTAACGTTCTTTACAAGGTATCAC
10138452 AAAAATTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (47 bp):
CAGTTTCAACCAATCAGTCTTTGTAACGTTCTTTACAAGGTATCACG
Found at i:10139191 original size:11 final size:11
Alignment explanation
Indices: 10139177--10139221 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
10139167 AGATAAATAT
10139177 TATTTTATTAA
1 TATTTTATTAA
*
10139188 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
10139201 TATTTTATTAT
1 TATTTTATTAA
10139212 TATTTTATTA
1 TATTTTATTA
10139222 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:10141421 original size:46 final size:46
Alignment explanation
Indices: 10141363--10141483 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 46
10141353 ATGAAATGTG
*
10141363 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
* *
10141409 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * *
10141455 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
10141484 TCACGTCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.07
46 62 0.93
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:10144840 original size:6 final size:6
Alignment explanation
Indices: 10144831--10144866 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
10144821 TTGGCATAAA
*
10144831 GAAAAT GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC
1 GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC
10144867 AAATCCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.67, C:0.14, G:0.17, T:0.03
Consensus pattern (6 bp):
GAAAAC
Found at i:10145967 original size:25 final size:25
Alignment explanation
Indices: 10145933--10145982 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10145923 CACTGAGATG
10145933 ATTGTAAAATTGCGGGACCAAGCTC
1 ATTGTAAAATTGCGGGACCAAGCTC
10145958 ATTGTAAAATTGCGGGACCAAGCTC
1 ATTGTAAAATTGCGGGACCAAGCTC
10145983 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
ATTGTAAAATTGCGGGACCAAGCTC
Found at i:10149338 original size:25 final size:22
Alignment explanation
Indices: 10149304--10149355 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 22
10149294 TGCTAACTGT
10149304 CTTTATAAGAAAGAACTGTGATGC
1 CTTT-TAA-AAAGAACTGTGATGC
10149328 CTTTT-AAAAGAACTGTGATGC
1 CTTTTAAAAAGAACTGTGATGC
10149349 CTTTTAA
1 CTTTTAA
10149356 CTTCATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 20 0.74
22 2 0.07
23 1 0.04
24 4 0.15
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (22 bp):
CTTTTAAAAAGAACTGTGATGC
Found at i:10149339 original size:21 final size:21
Alignment explanation
Indices: 10149313--10149355 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10149303 TCTTTATAAG
10149313 AAAGAACTGTGATGCCTTTTA
1 AAAGAACTGTGATGCCTTTTA
10149334 AAAGAACTGTGATGCCTTTTA
1 AAAGAACTGTGATGCCTTTTA
10149355 A
1 A
10149356 CTTCATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
AAAGAACTGTGATGCCTTTTA
Found at i:10152683 original size:16 final size:18
Alignment explanation
Indices: 10152659--10152691 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10152649 TTTTCTTGAA
10152659 AAATAATTT-TAAAAAAG
1 AAATAATTTATAAAAAAG
10152676 AAAT-ATTTATAAAAAA
1 AAATAATTTATAAAAAA
10152692 ACTTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATAATTTATAAAAAAG
Found at i:10161217 original size:26 final size:26
Alignment explanation
Indices: 10161188--10161323 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
10161178 TGGTACAAAT
* *
10161188 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
10161214 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10161240 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
10161266 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
10161292 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10161318 TGATAA
1 TGATAA
10161324 CAATTTCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:10163044 original size:27 final size:26
Alignment explanation
Indices: 10162940--10163052 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
10162930 TGGAGGAAGC
* * *
10162940 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTAGTGGCTCTGCCAC-ATTATCT
*
10162967 GATCTAGTGGCTCTGCCACATATATCT
1 GTTCTAGTGGCTCTGCCACAT-TATCT
10162994 GTTCTAGTGGCTCTGCCACAATTATCT
1 GTTCTAGTGGCTCTGCCAC-ATTATCT
* * *
10163021 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTAGTGGCTCTGCCACATTATCT
10163048 GTTCT
1 GTTCT
10163053 GGCAGCCATG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.05
27 55 0.73
28 16 0.21
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (26 bp):
GTTCTAGTGGCTCTGCCACATTATCT
Found at i:10163047 original size:54 final size:54
Alignment explanation
Indices: 10162940--10163052 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
10162930 TGGAGGAAGC
* *
10162940 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTAGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* * * *
10162994 GTTCTAGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTAGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
10163048 GTTCT
1 GTTCT
10163053 GGCAGCCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
GTTCTAGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:10166755 original size:28 final size:27
Alignment explanation
Indices: 10166724--10166853 Score: 118
Period size: 28 Copynumber: 4.7 Consensus size: 27
10166714 GTATGAGTTT
10166724 GCAGGGACATTCCTCCAAGTATTAGCTC
1 GCAGGGACATTCCTCCAAGTATTAG-TC
*
10166752 GCAGGTG-CATTCCTCCAAGTATGAGTC
1 GCAGG-GACATTCCTCCAAGTATTAGTC
* *
10166779 AGTAGGGACATTTCTCCAAGTATTAGTCC
1 -GCAGGGACATTCCTCCAAGTATTAGT-C
* * * *
10166808 ACAGGGAAATTCCTTCAAGTATGAGTCC
1 GCAGGGACATTCCTCCAAGTATTAGT-C
* * *
10166836 ACAAGGACATTCATCCAA
1 GCAGGGACATTCCTCCAA
10166854 ATAGGAGTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.04
28 79 0.94
29 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
GCAGGGACATTCCTCCAAGTATTAGTC
Found at i:10166797 original size:56 final size:56
Alignment explanation
Indices: 10166711--10166853 Score: 157
Period size: 56 Copynumber: 2.6 Consensus size: 56
10166701 CCTCAAGTTA
** * *
10166711 CAAGTATGAGTTTGCAGGGACATTCCTCCAAGTATTAG-CTCGCAGGTG-CATTCCTC
1 CAAGTATGAGTCAGCAGGGACATTCCTCCAAGTATTAGTC-CACAGG-GAAATTCCTC
* * *
10166767 CAAGTATGAGTCAGTAGGGACATTTCTCCAAGTATTAGTCCACAGGGAAATTCCTT
1 CAAGTATGAGTCAGCAGGGACATTCCTCCAAGTATTAGTCCACAGGGAAATTCCTC
* *
10166823 CAAGTATGAGTCCA-CAAGGACATTCATCCAA
1 CAAGTATGAGT-CAGCAGGGACATTCCTCCAA
10166854 ATAGGAGTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 1 0.01
56 69 0.95
57 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (56 bp):
CAAGTATGAGTCAGCAGGGACATTCCTCCAAGTATTAGTCCACAGGGAAATTCCTC
Found at i:10166861 original size:28 final size:28
Alignment explanation
Indices: 10166803--10166862 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
10166793 TCCAAGTATT
* * * * *
10166803 AGTCCACAGGGAAATTCCTTCAAGTATG
1 AGTCCACAAGGAAATTCATCCAAATAGG
*
10166831 AGTCCACAAGGACATTCATCCAAATAGG
1 AGTCCACAAGGAAATTCATCCAAATAGG
10166859 AGTC
1 AGTC
10166863 TATATTATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (28 bp):
AGTCCACAAGGAAATTCATCCAAATAGG
Found at i:10166884 original size:41 final size:41
Alignment explanation
Indices: 10166827--10166908 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
10166817 TTCCTTCAAG
10166827 TATGAGTCCACAAGGACATTCATCCAAATAGGAGTCTATAT
1 TATGAGTCCACAAGGACATTCATCCAAATAGGAGTCTATAT
10166868 TATGAGTCCACAAGGACATTCATCCAAATAGGAGTCTATAT
1 TATGAGTCCACAAGGACATTCATCCAAATAGGAGTCTATAT
10166909 GGACTATCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (41 bp):
TATGAGTCCACAAGGACATTCATCCAAATAGGAGTCTATAT
Found at i:10166930 original size:28 final size:29
Alignment explanation
Indices: 10166899--10166959 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
10166889 ATCCAAATAG
* * *
10166899 GAGTCTATATGGACTATC-TTTCAAGCAA
1 GAGTCCATATAGACTAACTTTTCAAGCAA
*
10166927 GAGTCCGTATAGACTAACTTTTCAAGCAA
1 GAGTCCATATAGACTAACTTTTCAAGCAA
10166956 GAGT
1 GAGT
10166960 TTGCATGAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (29 bp):
GAGTCCATATAGACTAACTTTTCAAGCAA
Found at i:10167025 original size:29 final size:29
Alignment explanation
Indices: 10166917--10167026 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 29
10166907 ATGGACTATC
* *
10166917 TTTCAAGCAAGAGTCCGTATAG-ACTAACT
1 TTTCAAGAAAGAGTCTGTA-AGAACTAACT
* * * *
10166946 TTTCAAGCAAGAGTTTGCATGAACTAACT
1 TTTCAAGAAAGAGTCTGTAAGAACTAACT
10166975 TTTCAAGAAAG-GATCTGT-AGAATCTAAC-
1 TTTCAAGAAAGAG-TCTGTAAGAA-CTAACT
10167003 TTTCAAGAAAGAGTCTGTAAGAAC
1 TTTCAAGAAAGAGTCTGTAAGAAC
10167027 AAATTGTGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 22 0.32
29 46 0.68
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (29 bp):
TTTCAAGAAAGAGTCTGTAAGAACTAACT
Found at i:10167083 original size:29 final size:29
Alignment explanation
Indices: 10167035--10167268 Score: 306
Period size: 29 Copynumber: 8.1 Consensus size: 29
10167025 ACAAATTGTG
* * * * *
10167035 AGTATGCATCAGCATATATGGGTTCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
* *
10167064 AGTATGAATCTGTATGTATGAGTTCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
* *
10167093 AGTATGAATCTGCATATATGGGTCCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
*
10167122 AGTATGAATCTGCATGTATGAGTTCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
*
10167151 AGTATGAATCTGCATGTATGAGTCCACTA
1 AGTATGAATCTGCATGTATGAGTCCACCA
* * * * *
10167180 AGTATAAATCCGTATGTATAAGTTCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
**
10167209 AGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
10167238 AGTATGAATCTGCATGTATGAGTCCACCA
1 AGTATGAATCTGCATGTATGAGTCCACCA
10167267 AG
1 AG
10167269 CCTTTGTGCT
Statistics
Matches: 178, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 178 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (29 bp):
AGTATGAATCTGCATGTATGAGTCCACCA
Found at i:10167142 original size:14 final size:14
Alignment explanation
Indices: 10167123--10167171 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10167113 GGTCCACCAA
10167123 GTATGAATCTGCAT
1 GTATGAATCTGCAT
* ** *
10167137 GTATGAGTTCACCAA
1 GTATGA-ATCTGCAT
10167152 GTATGAATCTGCAT
1 GTATGAATCTGCAT
10167166 GTATGA
1 GTATGA
10167172 GTCCACTAAG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (14 bp):
GTATGAATCTGCAT
Found at i:10169261 original size:2 final size:2
Alignment explanation
Indices: 10169250--10169298 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
10169240 ATTAAGTTAT
10169250 TA TA TA -A 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
10169291 TA TA TA TA
1 TA TA TA TA
10169299 AAAGAAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10169374 original size:20 final size:18
Alignment explanation
Indices: 10169349--10169389 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
10169339 AAAAGCCGGG
10169349 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAG-AAGAAAGG-GA
10169369 AAAGAAAGAAGAAAGGGA
1 AAAGAAAGAAGAAAGGGA
10169387 AAA
1 AAA
10169390 TTGAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGGA
Found at i:10170511 original size:53 final size:53
Alignment explanation
Indices: 10170421--10170542 Score: 190
Period size: 53 Copynumber: 2.3 Consensus size: 53
10170411 CTACTATTAC
* *
10170421 TGTTACCGTTACTGTTTCGAATTTGTTTCGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
* * *
10170474 TGTTACTGTTACTGTTTCGGATTTGTTCCGATTAGGTACTCTGTGTACCGTAC
1 TGTTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
*
10170527 TGCTACTGTTACTGTT
1 TGTTACTGTTACTGTT
10170543 ACTGTTCCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.43
Consensus pattern (53 bp):
TGTTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
Found at i:10170686 original size:19 final size:19
Alignment explanation
Indices: 10170664--10170715 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
10170654 AAAGATCGAC
10170664 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
10170683 TGTTACTGTAT-ATCTAAT
1 TGTTACTGAATAATTTAAT
*
10170701 TTTTACTGAATAATT
1 TGTTACTGAATAATT
10170716 GACTGTTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:10170724 original size:18 final size:18
Alignment explanation
Indices: 10170662--10170731 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
10170652 GGAAAGATCG
10170662 ACTGTTACTGAATAATTTA
1 ACTGTTACTGAATAA-TTA
* *
10170681 ATTGTTACTGTAT-ATCTA
1 ACTGTTACTGAATAAT-TA
* * *
10170699 ATTTTTACTGAATAATTG
1 ACTGTTACTGAATAATTA
*
10170717 ACTGTTACTGGATAA
1 ACTGTTACTGAATAA
10170732 CCGATTAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (18 bp):
ACTGTTACTGAATAATTA
Found at i:10170769 original size:18 final size:18
Alignment explanation
Indices: 10170748--10170811 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
10170738 AGTTGATTGA
10170748 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* *
10170766 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
10170784 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
*
10170802 TACTAAATAA
1 TACTGAATAA
10170812 TTAATTGTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:10170792 original size:36 final size:36
Alignment explanation
Indices: 10170740--10170820 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
10170730 AACCGATTAG
* * * *
10170740 TTGATTGATACTGAATAACTGATTATTACTGAATAA
1 TTGATTGTTACCGAATAACTGACTATTACTAAATAA
10170776 TTGATTGTTACCGAATAACTGACTATTACTAAATAA
1 TTGATTGTTACCGAATAACTGACTATTACTAAATAA
*
10170812 TTAATTGTT
1 TTGATTGTT
10170821 CTGATTGACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (36 bp):
TTGATTGTTACCGAATAACTGACTATTACTAAATAA
Found at i:10187160 original size:100 final size:100
Alignment explanation
Indices: 10187040--10187239 Score: 303
Period size: 100 Copynumber: 2.0 Consensus size: 100
10187030 CCTTGTTCAG
* *
10187040 TGAGTTACACGAGTGAGGACACAGGCTAGAACATGGCCGTGTGTCCCTAGTTCAATTGTTACACG
1 TGAGTTACACGAGTGAGGACACAGGCTAGAACACGGCCGTGTGTCCCTAGTTCAATTGTTACAAG
*
10187105 GCCTAGGCTATGTCACACATCCTGGTCACACGGCC
66 GCCTAGGCTATGTCACACATCCTGGCCACACGGCC
* * * * *
10187140 TGAGTTACATG-GTTGAGGACATAGGCTGGAACACGGCTGTGTGTCCCTAGTTCGATTGTTACAA
1 TGAGTTACACGAG-TGAGGACACAGGCTAGAACACGGCCGTGTGTCCCTAGTTCAATTGTTACAA
*
10187204 GGCCTGGGCTATGTCACACATCCTGGCCACACGGCC
65 GGCCTAGGCTATGTCACACATCCTGGCCACACGGCC
10187240 GTGTGACCCC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 1 0.01
100 89 0.99
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (100 bp):
TGAGTTACACGAGTGAGGACACAGGCTAGAACACGGCCGTGTGTCCCTAGTTCAATTGTTACAAG
GCCTAGGCTATGTCACACATCCTGGCCACACGGCC
Found at i:10189815 original size:38 final size:38
Alignment explanation
Indices: 10189772--10189844 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
10189762 CTTTACCACA
*
10189772 TAAACTTCTCATCGAAGCATTCATCATCAATACTTAAC
1 TAAACTTCTCATCAAAGCATTCATCATCAATACTTAAC
10189810 TAAACTTCTCATCAAAGCATTCATCATCAATACTT
1 TAAACTTCTCATCAAAGCATTCATCATCAATACTT
10189845 CAAGCATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (38 bp):
TAAACTTCTCATCAAAGCATTCATCATCAATACTTAAC
Found at i:10191522 original size:20 final size:21
Alignment explanation
Indices: 10191485--10191542 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
10191475 CTTATATATT
10191485 TTAATTATAACTAATAAACATTAA
1 TTAATTA-AACT--TAAACATTAA
* *
10191509 TT-ATTTAACTTAAACTTTAA
1 TTAATTAAACTTAAACATTAA
10191529 TTAATTAAACTTAA
1 TTAATTAAACTTAA
10191543 TTGTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.37
21 10 0.33
22 4 0.13
23 3 0.10
24 2 0.07
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATTAAACTTAAACATTAA
Found at i:10195042 original size:22 final size:22
Alignment explanation
Indices: 10195017--10195097 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
10195007 CATCTTACAA
10195017 CATATCATAGCATATAAGATTT
1 CATATCATAGCATATAAGATTT
* * *
10195039 CATAACA-A-AATATAA-CTTAT
1 CATATCATAGCATATAAGATT-T
*
10195059 AACATATCATAGCATATCAGATTT
1 --CATATCATAGCATATAAGATTT
**
10195083 CATATCGGAGCATAT
1 CATATCATAGCATAT
10195098 CTTATAACAT
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
19 2 0.05
20 7 0.16
21 1 0.02
22 25 0.57
23 1 0.02
24 6 0.14
25 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (22 bp):
CATATCATAGCATATAAGATTT
Found at i:10195102 original size:44 final size:44
Alignment explanation
Indices: 10194991--10195113 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
10194981 AATATAATAT
* * *
10194991 ATTTCATATTGAAGCACATCTTACAACATATCATAGCATATAAG
1 ATTTCATATCGAAGCATATCTTATAACATATCATAGCATATAAG
* * ** * *
10195035 ATTTCATAACAAAATATAACTTATAACATATCATAGCATATCAG
1 ATTTCATATCGAAGCATATCTTATAACATATCATAGCATATAAG
* *
10195079 ATTTCATATCGGAGCATATCTTATAACATAGCATA
1 ATTTCATATCGAAGCATATCTTATAACATATCATA
10195114 TCCTACCTTC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (44 bp):
ATTTCATATCGAAGCATATCTTATAACATATCATAGCATATAAG
Found at i:10195108 original size:22 final size:22
Alignment explanation
Indices: 10195054--10195108 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
10195044 CAAAATATAA
*
10195054 CTTATAACATATCATAGCATAT
1 CTTATAACATATCAGAGCATAT
** ** *
10195076 CAGATTTCATATCGGAGCATAT
1 CTTATAACATATCAGAGCATAT
10195098 CTTATAACATA
1 CTTATAACATA
10195109 GCATATCCTA
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (22 bp):
CTTATAACATATCAGAGCATAT
Found at i:10196176 original size:279 final size:279
Alignment explanation
Indices: 10195640--10196197 Score: 1030
Period size: 279 Copynumber: 2.0 Consensus size: 279
10195630 TTTGGAATGA
10195640 GTTATGATATTAAAGACCCGTCCCATCATTTAATAAATGACATATATTTATATAAAGGGAAATGA
1 GTTATGATATTAAAGACCCGTCCCATCATTTAATAAATGACATATATTTATATAAAGGGAAATGA
10195705 TAACATATTTAAATTATATTGAATAGATTTTAATTAAAAAAAAGGAAATGATGGGACGGGTCTTT
66 TAACATATTTAAATTATATTGAATAGATTTTAATTAAAAAAAAGGAAATGATGGGACGGGTCTTT
*
10195770 AGGCCTTGGTGTATAGATGGTCGGCTTCAATTAATGGCCAGTTTCAGGCCTATTTATCGGTGAAT
131 AGGCCTTGGTGTATAGATGGTCGGCTTCAATTAATGGCCAGTTTCAGGCCTATTTATCGGTAAAT
*
10195835 TTTTTTAATTTTTTTATTTGATAAAATGGATGTCGGTCATGAGTGTACCGACACTTAAAAAATTA
196 TTTTTTAATTTTTTTATTTGATAAAATGGATGTCGGTCATGAGTGTACCAACACTTAAAAAA-TA
10195900 GTTTTTATCTTAAAAAGTGG
260 GTTTTTATCTTAAAAAGTGG
* *
10195920 GTTATGATATTAAAGACCCGTCTCATCATTTAATACATGACATATATTTATATAAAGGGAAATGA
1 GTTATGATATTAAAGACCCGTCCCATCATTTAATAAATGACATATATTTATATAAAGGGAAATGA
10195985 TAACATATTTAAATTATATTGAATAGATTTTAATT-AAAAAAAGGAAATGATGGGACGGGTCTTT
66 TAACATATTTAAATTATATTGAATAGATTTTAATTAAAAAAAAGGAAATGATGGGACGGGTCTTT
* *
10196049 AGGCCTTGGTGTATAGATGGTCGGCTTCAATTAATGGCCGGTTTTAGGCCTATTTATCGGTAAAT
131 AGGCCTTGGTGTATAGATGGTCGGCTTCAATTAATGGCCAGTTTCAGGCCTATTTATCGGTAAAT
10196114 TTTTTTAA-TTTTTTATTTGATAAAATGGATGTCGGTCATGAGTGTACCAACACTTAAAAAAATA
196 TTTTTTAATTTTTTTATTTGATAAAATGGATGTCGGTCATGAGTGTACCAACACTT-AAAAAATA
10196178 GTTTTTATCTTAAAAAGTGG
260 GTTTTTATCTTAAAAAGTGG
10196198 TGTCGGCCAC
Statistics
Matches: 271, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
278 68 0.25
279 105 0.39
280 98 0.36
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (279 bp):
GTTATGATATTAAAGACCCGTCCCATCATTTAATAAATGACATATATTTATATAAAGGGAAATGA
TAACATATTTAAATTATATTGAATAGATTTTAATTAAAAAAAAGGAAATGATGGGACGGGTCTTT
AGGCCTTGGTGTATAGATGGTCGGCTTCAATTAATGGCCAGTTTCAGGCCTATTTATCGGTAAAT
TTTTTTAATTTTTTTATTTGATAAAATGGATGTCGGTCATGAGTGTACCAACACTTAAAAAATAG
TTTTTATCTTAAAAAGTGG
Found at i:10197260 original size:30 final size:30
Alignment explanation
Indices: 10197216--10197283 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
10197206 TTAAATTTTA
10197216 TAAATAATTAATATTT-AT-TACTTAAAAATAT
1 TAAA-AATTAATATTTCATATA-TT-AAAATAT
* *
10197247 TTAAAATTTATATTTCATATATTAAAATAT
1 TAAAAATTAATATTTCATATATTAAAATAT
10197277 TAAAAAT
1 TAAAAAT
10197284 AAATTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 23 0.72
31 7 0.22
32 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAAATTAATATTTCATATATTAAAATAT
Found at i:10197482 original size:13 final size:13
Alignment explanation
Indices: 10197466--10197504 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10197456 TAAATTAAAC
10197466 TTTTCAAAAATAT
1 TTTTCAAAAATAT
*
10197479 TTTTC-ACAATAT
1 TTTTCAAAAATAT
*
10197491 TTTTTAAAAATAT
1 TTTTCAAAAATAT
10197504 T
1 T
10197505 ACTAAACTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTTCAAAAATAT
Found at i:10198743 original size:12 final size:12
Alignment explanation
Indices: 10198721--10198749 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10198711 TAAATGCCTT
10198721 TAAAA-TAATAA
1 TAAAATTAATAA
10198732 TAAAATTAATAA
1 TAAAATTAATAA
10198744 TAAAAT
1 TAAAAT
10198750 AAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:10198945 original size:18 final size:18
Alignment explanation
Indices: 10198922--10198965 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
10198912 GCTTTACTCG
*
10198922 TTTTTTAAACTAATTTTA
1 TTTTTTAAACTAAATTTA
*
10198940 TTTTTT-ATCTAAATTTA
1 TTTTTTAAACTAAATTTA
10198957 TTTTTTAAA
1 TTTTTTAAA
10198966 TTTATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTAAACTAAATTTA
Found at i:10199274 original size:22 final size:22
Alignment explanation
Indices: 10199233--10199276 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10199223 GGGAAGACAA
* *
10199233 GACATAGCATCTGTTATGAAAG
1 GACATAGCAACAGTTATGAAAG
*
10199255 GACATAGCAACAGTTGTGAAAG
1 GACATAGCAACAGTTATGAAAG
10199277 ACTCTAGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (22 bp):
GACATAGCAACAGTTATGAAAG
Found at i:10203947 original size:23 final size:23
Alignment explanation
Indices: 10203917--10203960 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10203907 TTGGGATGCC
10203917 AAATACACATCCTATCCTAAATT
1 AAATACACATCCTATCCTAAATT
* *
10203940 AAATACACGTCTTATCCTAAA
1 AAATACACATCCTATCCTAAA
10203961 GTTTATTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATACACATCCTATCCTAAATT
Found at i:10205965 original size:53 final size:48
Alignment explanation
Indices: 10205870--10206011 Score: 142
Period size: 47 Copynumber: 2.9 Consensus size: 48
10205860 CTATGGCAAC
* * ** *
10205870 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGAGAG
1 ATGTGATATGTG-CTTCTGTATAAGACCATATTTGGGATATGGCA-T--AG-G
* *
10205923 ATGTGATTATGTGCTTCTGTATAAGACTATATTTGGGATATGGCATCGG
1 ATGTGA-TATGTGCTTCTGTATAAGACCATATTTGGGATATGGCATAGG
* *
10205972 -TGTGATATATGCTACTGTATAAGACCATATTTGGGATATG
1 ATGTGATATGTGCTTCTGTATAAGACCATATTTGGGATATG
10206012 ACATCAGTGA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
47 32 0.41
48 5 0.06
49 1 0.01
50 1 0.01
52 1 0.01
53 32 0.41
54 6 0.08
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (48 bp):
ATGTGATATGTGCTTCTGTATAAGACCATATTTGGGATATGGCATAGG
Found at i:10205994 original size:47 final size:47
Alignment explanation
Indices: 10205924--10206025 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 47
10205914 ATTGGAGAGA
* * * * *
10205924 TGTGATTATGTGCTTCTGTATAAGACTATATTTGGGATATGGCATCGG
1 TGTGA-TATATGCTACTGTATAAGACCATATTTGGGATATGACATCAG
10205972 TGTGATATATGCTACTGTATAAGACCATATTTGGGATATGACATCAG
1 TGTGATATATGCTACTGTATAAGACCATATTTGGGATATGACATCAG
*
10206019 TGAGATA
1 TGTGATA
10206026 AGTGATTCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 43 0.90
48 5 0.10
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (47 bp):
TGTGATATATGCTACTGTATAAGACCATATTTGGGATATGACATCAG
Found at i:10219048 original size:39 final size:38
Alignment explanation
Indices: 10218964--10219203 Score: 309
Period size: 39 Copynumber: 6.1 Consensus size: 38
10218954 CAAATCCAAT
* * *
10218964 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* * *
10219004 TACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* *
10219043 CACCAGCACAATTGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACAA-AGCCTTCGGGACTTAGCCCGGATATAA
*
10219082 CACCAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAA
*
10219121 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* *
10219160 CACCAGTACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
10219199 CACCA
1 CACCA
10219204 TTATAAAGTC
Statistics
Matches: 184, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
39 150 0.82
40 34 0.18
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:10219176 original size:117 final size:117
Alignment explanation
Indices: 10218991--10219203 Score: 340
Period size: 117 Copynumber: 1.8 Consensus size: 117
10218981 CGGGACTTTA
*
10218991 AGCCCGGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCACAATT
1 AGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCACAATT
*
10219056 GCCTTCGGGGCTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
66 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
* * * *
10219108 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACACCAGTACGAA
1 AGCCCGGATATAACACCAGCAC-AAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCAC-AA
10219172 -TGCCTTCGGGACTTAGCCCGGATATAACACCA
64 TTGCCTTCGGGACTTAGCCCGGATATAACACCA
10219204 TTATAAAGTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
117 74 0.84
118 14 0.16
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (117 bp):
AGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCACAATT
GCCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
Found at i:10219309 original size:28 final size:28
Alignment explanation
Indices: 10219276--10219342 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
10219266 ATTTAATCAT
* *
10219276 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
10219304 TCAATATCTCGCACATTATGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
10219332 TCAATATTTCG
1 TCAATATTTCG
10219343 TGCACTGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:10222759 original size:9 final size:9
Alignment explanation
Indices: 10222745--10222769 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10222735 GAAATATTTA
10222745 TTTTAATAT
1 TTTTAATAT
10222754 TTTTAATAT
1 TTTTAATAT
10222763 TTTTAAT
1 TTTTAAT
10222770 GTATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:10229644 original size:59 final size:58
Alignment explanation
Indices: 10229570--10230169 Score: 798
Period size: 59 Copynumber: 10.3 Consensus size: 58
10229560 AAAAGCTGGG
* *
10229570 TCATATTTCATAATAATTATACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAATTT-TGATTAATTAAATAAATAA
* * *
10229629 TTATATTTCATAATAATTTTATGAATAATTAATTATTTTTTATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTTGATTAATTAAATAAATAA
* * *
10229687 TCATATTTCATAATAATTATACGAATAATTAATTAATTTCTGATTAAATAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAATTT-TGATTAATTAAATAAATAA
* *
10229746 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTTTATTAATTACATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTTGATTAATTAAATAAATAA
* * * * *
10229804 TCATATTTCAAAATAATTCTATAAATAATTTATTAATTTTTGATTAATTAAATAAATAT
1 TCATATTTCATAATAATTTTATGAATAATTAATTAA-TTTTGATTAATTAAATAAATAA
**
10229863 TCATATTTCATAATAATTTTATGAATAATTAATTAATCTTTGTACAAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAAT-TTTG-ATTAATTAAATAAATAA
** * * * *
10229923 TCATATTTCATAATAATAATATGAATCATTAATTAATTTTAAAATAAATAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTT-GATTAATTAAATAAATAA
* * * * *
10229982 TCATATTTTATAATAATTTTATGAAT-ATTATTTAATTTTTAATTAATTAATTAATTAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAA-TTTTGATTAATTAAATAAATAA
* *
10230040 TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTCG----ATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTT-GATTAATTAAATAAATAA
*
10230095 TCATATTTCATAATAATTTTATGAAT-ATTATTTAATTTTTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTAA-TTTTGATTAATTAAATAAATAA
10230153 TCATATTTCATAATAAT
1 TCATATTTCATAATAAT
10230170 GATAATCATA
Statistics
Matches: 473, Mismatches: 55, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
54 9 0.02
55 39 0.08
58 181 0.38
59 196 0.41
60 48 0.10
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (58 bp):
TCATATTTCATAATAATTTTATGAATAATTAATTAATTTTGATTAATTAAATAAATAA
Found at i:10229727 original size:117 final size:117
Alignment explanation
Indices: 10229570--10230169 Score: 847
Period size: 117 Copynumber: 5.1 Consensus size: 117
10229560 AAAAGCTGGG
* *
10229570 TCATATTTCATAATAATTATACGAATAATTAATTAATTTCTGATTAATTAAATAAATAATTATAT
1 TCATATTTCATAATAATTATATGAATAATTAATTAATTT-TGATTAATTAAATAAATAATCATAT
10229635 TTCATAATAATTTTATGAATAATTAATT-ATTTTTTATTAATTAAATAAATAA
65 TTCATAATAATTTTATGAATAATTAATTAATTTTTTATTAATTAAATAAATAA
* *
10229687 TCATATTTCATAATAATTATACGAATAATTAATTAATTTCTGATTAAATAAATAAATAATCATAT
1 TCATATTTCATAATAATTATATGAATAATTAATTAATTT-TGATTAATTAAATAAATAATCATAT
*
10229752 TTCATAATAATTTTATGAATAATTAATTAA-TTTTTATTAATTACATAAATAA
65 TTCATAATAATTTTATGAATAATTAATTAATTTTTTATTAATTAAATAAATAA
* * * * *
10229804 TCATATTTCAAAATAATTCTATAAATAATTTATTAATTTTTGATTAATTAAATAAATATTCATAT
1 TCATATTTCATAATAATTATATGAATAATTAATTAA-TTTTGATTAATTAAATAAATAATCATAT
* **
10229869 TTCATAATAATTTTATGAATAATTAATTAATCTTTGTACAAATTAAATAAATAA
65 TTCATAATAATTTTATGAATAATTAATTAAT-TTTTTATTAATTAAATAAATAA
* * * * *
10229923 TCATATTTCATAATAATAATATGAATCATTAATTAATTTTAAAATAAATAAATAAATAATCATAT
1 TCATATTTCATAATAATTATATGAATAATTAATTAATTTT-GATTAATTAAATAAATAATCATAT
* * * * *
10229988 TTTATAATAATTTTATGAAT-ATTATTTAATTTTTAATTAATTAATTAATTAA
65 TTCATAATAATTTTATGAATAATTAATTAATTTTTTATTAATTAAATAAATAA
* *
10230040 TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTCG----ATTAAATAAATAATCATAT
1 TCATATTTCATAATAATTATATGAATAATTAATTAATTTT-GATTAATTAAATAAATAATCATAT
* *
10230101 TTCATAATAATTTTATGAAT-ATTATTTAATTTTTGATTAATTAAATAAATAA
65 TTCATAATAATTTTATGAATAATTAATTAATTTTTTATTAATTAAATAAATAA
10230153 TCATATTTCATAATAAT
1 TCATATTTCATAATAAT
10230170 GATAATCATA
Statistics
Matches: 434, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
113 82 0.19
117 248 0.57
118 17 0.04
119 87 0.20
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (117 bp):
TCATATTTCATAATAATTATATGAATAATTAATTAATTTTGATTAATTAAATAAATAATCATATT
TCATAATAATTTTATGAATAATTAATTAATTTTTTATTAATTAAATAAATAA
Found at i:10230007 original size:236 final size:235
Alignment explanation
Indices: 10229570--10230169 Score: 889
Period size: 236 Copynumber: 2.6 Consensus size: 235
10229560 AAAAGCTGGG
* * * *
10229570 TCATATTTCATAATAATTATACGAATAATTAATTAATTTCTGATTAATTAAATAAATAATT-ATA
1 TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTTGATTAATTAAATAAAT-ATTCATA
*
10229634 TTTCATAATAATTTTATGAATAATTAATT-ATTTTTTATTAATTAAATAAATAATCATATTTCAT
65 TTTCATAATAATTTTATGAATAATTAATTAATTTTGTATTAATTAAATAAATAATCATATTTCAT
* * *
10229698 AATAATTATACGAATAATTAATTAATTTCTGATTAAATAAATAAATAATCATATTTCATAATAAT
130 AATAATAATACGAATAATTAATTAATTTCTAAATAAATAAATAAATAATCATATTTCATAATAAT
10229763 TTTATGAATAATTAATTAATTTTT-ATTAATTACA-TAAATAA
195 TTTATGAAT-ATTAATTAATTTTTAATTAATTA-ATTAAATAA
* *
10229804 TCATATTTCAAAATAATTCTATAAATAATTTATTAATTTTTGATTAATTAAATAAATATTCATAT
1 TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTTGATTAATTAAATAAATATTCATAT
**
10229869 TTCATAATAATTTTATGAATAATTAATTAATCTTTGTACAAATTAAATAAATAATCATATTTCAT
66 TTCATAATAATTTTATGAATAATTAATTAAT-TTTGTATTAATTAAATAAATAATCATATTTCAT
* * *
10229934 AATAATAATATGAATCATTAATTAATTT-TAAAATAAATAAATAAATAATCATATTTTATAATAA
130 AATAATAATACGAATAATTAATTAATTTCT-AAATAAATAAATAAATAATCATATTTCATAATAA
* *
10229998 TTTTATGAATATTATTTAATTTTTAATTAATTAATTAATTAA
194 TTTTATGAATATTAATTAATTTTTAATTAATTAATTAAATAA
* *
10230040 TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTCG----ATTAAATAAATAATCATAT
1 TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTTGATTAATTAAATAAATATTCATAT
*
10230101 TTCATAATAATTTTATGAAT-ATTATTTAATTTT-TGATTAATTAAATAAATAATCATATTTCAT
66 TTCATAATAATTTTATGAATAATTAATTAATTTTGT-ATTAATTAAATAAATAATCATATTTCAT
10230164 AATAAT
130 AATAAT
10230170 GATAATCATA
Statistics
Matches: 335, Mismatches: 24, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
229 1 0.00
230 35 0.10
231 9 0.03
232 38 0.11
233 3 0.01
234 83 0.25
235 17 0.05
236 149 0.44
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (235 bp):
TCATATTTCAAAATAATTCTATGAATAATTAATTAATTTTTGATTAATTAAATAAATATTCATAT
TTCATAATAATTTTATGAATAATTAATTAATTTTGTATTAATTAAATAAATAATCATATTTCATA
ATAATAATACGAATAATTAATTAATTTCTAAATAAATAAATAAATAATCATATTTCATAATAATT
TTATGAATATTAATTAATTTTTAATTAATTAATTAAATAA
Found at i:10235935 original size:66 final size:66
Alignment explanation
Indices: 10235837--10235970 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 66
10235827 ACAAATTGCT
* * * * * *
10235837 CAACTTAAAGCGGAGGCAGTATCGAGAGAAGCAGACGC-TCAAAGAAAATGTGATGAACTCCAGC
1 CAACTTAAAGCAGAGACAATATCGAGAGAAGCAGACGCAACAAA-AAAATATGACGAACTCCAGC
10235901 TA
65 TA
* *
10235903 CAACTTAAAGCAGAGACAAT-TGCGAGGGAAGCAGAGGCAACAAAAAAATATGACGAACTCCAGC
1 CAACTTAAAGCAGAGACAATAT-CGAGAGAAGCAGACGCAACAAAAAAATATGACGAACTCCAGC
10235967 TA
65 TA
10235969 CA
1 CA
10235971 GCTTCAGAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 53 0.91
67 4 0.07
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (66 bp):
CAACTTAAAGCAGAGACAATATCGAGAGAAGCAGACGCAACAAAAAAATATGACGAACTCCAGCT
A
Found at i:10237128 original size:3 final size:3
Alignment explanation
Indices: 10237113--10237150 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
10237103 TTTTATGCAA
*
10237113 AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
10237151 AAAAATGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10238352 original size:20 final size:21
Alignment explanation
Indices: 10238327--10238365 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10238317 TTATTGAAAG
*
10238327 TTAAAAA-GAAATAAAATTTT
1 TTAAAAATAAAATAAAATTTT
10238347 TTAAAAATAAAATAAAATT
1 TTAAAAATAAAATAAAATT
10238366 ATTAACACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
TTAAAAATAAAATAAAATTTT
Found at i:10238599 original size:23 final size:23
Alignment explanation
Indices: 10238573--10238633 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
10238563 AATCAAAATT
10238573 AAAATAAAATAAAAAGATATCGC
1 AAAATAAAATAAAAAGATATCGC
* * *
10238596 AAAATAAAGTAAAAAGATATTGT
1 AAAATAAAATAAAAAGATATCGC
*
10238619 AAAACAAAATAAAAA
1 AAAATAAAATAAAAA
10238634 AAAAAGAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (23 bp):
AAAATAAAATAAAAAGATATCGC
Found at i:10239060 original size:79 final size:79
Alignment explanation
Indices: 10238889--10239051 Score: 317
Period size: 79 Copynumber: 2.1 Consensus size: 79
10238879 TAAAGAACTA
10238889 AGAAAATATTAAGAATAGTTCGATCTCACAAACTTGTAGAATCAAACTTTGAATATTACTTTGAC
1 AGAAAATATTAAGAATAGTTCGATCTCACAAACTTGTAGAATCAAACTTTGAATATTACTTTGAC
10238954 TAGAAAAGAAGTTT
66 TAGAAAAGAAGTTT
*
10238968 AGAAAATATTAAGAATAGTTTGATCTCACAAACTTGTAGAATCAAACTTTGAATATTACTTTGAC
1 AGAAAATATTAAGAATAGTTCGATCTCACAAACTTGTAGAATCAAACTTTGAATATTACTTTGAC
10239033 TAGAAAAGAAGTTT
66 TAGAAAAGAAGTTT
10239047 AGAAA
1 AGAAA
10239052 CCTATAAGAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (79 bp):
AGAAAATATTAAGAATAGTTCGATCTCACAAACTTGTAGAATCAAACTTTGAATATTACTTTGAC
TAGAAAAGAAGTTT
Found at i:10239794 original size:2 final size:2
Alignment explanation
Indices: 10239787--10239828 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
10239777 ATTAACTTTA
*
10239787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10239829 GGTGGATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10240557 original size:3 final size:3
Alignment explanation
Indices: 10240549--10240598 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10240539 TAGTGTATAT
10240549 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
10240597 TT
1 TT
10240599 TGCGTAGTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:10241098 original size:172 final size:173
Alignment explanation
Indices: 10240712--10241099 Score: 546
Period size: 172 Copynumber: 2.2 Consensus size: 173
10240702 TTAAATTTCA
* ** * *
10240712 AAATGGGTCGTTTGCTACAAATTGGTAAGGTGTTCTATTTTGGTAATTTATTATGTTTTTTGGAT
1 AAATGGGTCGTTTGTTACAAATTGGTAAGGTGACCCATTTTGGCAATTTATTATGTTTTTTGGAT
* **
10240777 TATTGGGGTAAAAAGGTCAAGAAACAGTGTATGGTACAACATTTTTACCTAGGTAATATAAAAAA
66 TATTGGGGTAAAAAGGTCAAGAAACAGTGTATGGTACAACAATTTTACCTAAATAATATAAAAAA
* ** * *
10240842 ATAATTAAATATCAAAATGGGTGACCTTACAAATTAATTACCG
131 ATAATTAAATACCAAAATGGACGACATTACAAATTAAGTACCG
* * * *
10240885 AAATGAGTCGTTTGTTACAAATTGGTAAGGTGACTCATTTTGGCATTTTATTATTTTTTTTTGGA
1 AAATGGGTCGTTTGTTACAAATTGGTAAGGTGACCCATTTTGGCAATTTATTA-TGTTTTTTGGA
** *
10240950 TTATTGGGGTAAAAAGGTCAAGAAATGGTGTATGGTACAACAATTTTACCTAAATAAT-T-TAAA
65 TTATTGGGGTAAAAAGGTCAAGAAACAGTGTATGGTACAACAATTTTACCTAAATAATATAAAAA
*
10241013 AATAATTAAATACCAAAATGGACGACATTACAAATTAAGTACTG
130 AATAATTAAATACCAAAATGGACGACATTACAAATTAAGTACCG
* *
10241057 AAATGGGTCGTTTGTTACAAATTGGTAAGATAACCCATTTTGG
1 AAATGGGTCGTTTGTTACAAATTGGTAAGGTGACCCATTTTGG
10241100 TACATATCTG
Statistics
Matches: 189, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
172 80 0.42
173 46 0.24
174 63 0.33
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (173 bp):
AAATGGGTCGTTTGTTACAAATTGGTAAGGTGACCCATTTTGGCAATTTATTATGTTTTTTGGAT
TATTGGGGTAAAAAGGTCAAGAAACAGTGTATGGTACAACAATTTTACCTAAATAATATAAAAAA
ATAATTAAATACCAAAATGGACGACATTACAAATTAAGTACCG
Found at i:10241767 original size:28 final size:28
Alignment explanation
Indices: 10241726--10241783 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
10241716 CGGATGTAAG
* *
10241726 TACAGTGTTTGAACCAGCAACCCTTTAC
1 TACAGTGTTCGAACCAGAAACCCTTTAC
*
10241754 TACAGTGTTCGAACCCGAAACCCTTTAC
1 TACAGTGTTCGAACCAGAAACCCTTTAC
10241782 TA
1 TA
10241784 TGACTTACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
TACAGTGTTCGAACCAGAAACCCTTTAC
Found at i:10248344 original size:12 final size:12
Alignment explanation
Indices: 10248322--10248351 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10248312 TGTATTTCAA
10248322 TTCTT-AAATTT
1 TTCTTAAAATTT
10248333 TTCTTAAAATTT
1 TTCTTAAAATTT
10248345 TTCTTAA
1 TTCTTAA
10248352 GGAAATATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (12 bp):
TTCTTAAAATTT
Found at i:10249434 original size:2 final size:2
Alignment explanation
Indices: 10249427--10249451 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10249417 ACATACATAC
10249427 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 A
10249452 AACACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10250120 original size:18 final size:18
Alignment explanation
Indices: 10250099--10250156 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
10250089 ATACCTCTAA
10250099 AATAATAAAAAAATTAAC
1 AATAATAAAAAAATTAAC
*
10250117 AATAA-AACAAGAATTATAC
1 AATAATAA-AAAAATTA-AC
*
10250136 AAT-ATACAAACAA-TAAC
1 AATAATA-AAAAAATTAAC
10250153 AATA
1 AATA
10250157 TAGTAGCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 7 0.21
18 15 0.45
19 10 0.30
20 1 0.03
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAATAAAAAAATTAAC
Found at i:10258330 original size:18 final size:18
Alignment explanation
Indices: 10258307--10258343 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10258297 CCCAGAAGAG
10258307 GTTCAGGTACCTGAAAAT
1 GTTCAGGTACCTGAAAAT
10258325 GTTCAGGTACCTGAAAAT
1 GTTCAGGTACCTGAAAAT
10258343 G
1 G
10258344 ATGATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (18 bp):
GTTCAGGTACCTGAAAAT
Found at i:10258883 original size:18 final size:18
Alignment explanation
Indices: 10258855--10258898 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10258845 ACTGAAATTT
10258855 ATATGAAAATCCCAGAAGG
1 ATAT-AAAATCCCAGAAGG
* **
10258874 ATTTAAAATCCTTGAAGG
1 ATATAAAATCCCAGAAGG
10258892 ATATAAA
1 ATATAAA
10258899 GTTTCCTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:10269846 original size:20 final size:21
Alignment explanation
Indices: 10269823--10269879 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
10269813 TGCAAAGGAG
10269823 TTATCAATATATCTAATA-AT
1 TTATCAATATATCTAATAGAT
* *
10269843 TTATCAATATTTTTAA-AGAT
1 TTATCAATATATCTAATAGAT
* *
10269863 TTACCAAAATATCTAAT
1 TTATCAATATATCTAAT
10269880 GTTTAACAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (21 bp):
TTATCAATATATCTAATAGAT
Found at i:10277184 original size:13 final size:13
Alignment explanation
Indices: 10277166--10277198 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10277156 TCTACAGCAT
*
10277166 ATGATGAATACCC
1 ATGATGAAGACCC
10277179 ATGATGAAGACCC
1 ATGATGAAGACCC
10277192 ATGATGA
1 ATGATGA
10277199 GGCCAGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (13 bp):
ATGATGAAGACCC
Found at i:10282681 original size:17 final size:17
Alignment explanation
Indices: 10282659--10282691 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10282649 AATAAAAATG
10282659 TAAATAA-AACATATAAA
1 TAAATAATAACA-ATAAA
10282676 TAAATAATAACAATAA
1 TAAATAATAACAATAA
10282692 TGAAAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAATAACAATAAA
Found at i:10282709 original size:3 final size:3
Alignment explanation
Indices: 10282678--10282730 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
10282668 CATATAAATA
* *
10282678 AAT AAT AAC AAT AAT GAA- AGAT TAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
10282724 AAT AAT A
1 AAT AAT A
10282731 GAAATAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 1 0.02
3 40 0.93
4 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10289218 original size:2 final size:2
Alignment explanation
Indices: 10289211--10289240 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10289201 ATATGTGCAA
*
10289211 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10289241 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10289648 original size:22 final size:22
Alignment explanation
Indices: 10289597--10289656 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
10289587 ATGTATATAT
10289597 AAAGAAAGAA-AAAAAACAATAC
1 AAAG-AAGAAGAAAAAACAATAC
* *
10289619 AAAAAAGAAGAAAAAA-AATTC
1 AAAGAAGAAGAAAAAACAATAC
*
10289640 GAAAGAAGAGGAAAAAA
1 -AAAGAAGAAGAAAAAA
10289657 GAAAAAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (22 bp):
AAAGAAGAAGAAAAAACAATAC
Found at i:10289930 original size:18 final size:18
Alignment explanation
Indices: 10289903--10289964 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
10289893 GGTTTTTTTA
*
10289903 TTTTTTTTTTTGGTTAGG
1 TTTTTCTTTTTGGTTAGG
** *
10289921 TTTTTCTTTTTTCTT--C
1 TTTTTCTTTTTGGTTAGG
10289937 TTTTT-TTTTTGGTTAGG
1 TTTTTCTTTTTGGTTAGG
10289954 TTTTTCTTTTT
1 TTTTTCTTTTT
10289965 TTTTTTTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 5 0.15
18 17 0.50
ACGTcount: A:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (18 bp):
TTTTTCTTTTTGGTTAGG
Found at i:10289941 original size:33 final size:31
Alignment explanation
Indices: 10289895--10289973 Score: 131
Period size: 33 Copynumber: 2.5 Consensus size: 31
10289885 GGTGGCTAGG
10289895 TTTTTTTATTTTTTTTTTTGGTTAGGTTTTTC
1 TTTTTTT-TTTTTTTTTTTGGTTAGGTTTTTC
10289927 TTTTTTCTTCTTTTTTTTTTGGTTAGGTTTTTC
1 TTTTTT-TT-TTTTTTTTTTGGTTAGGTTTTTC
10289960 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
10289974 GGATTAGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
31 6 0.13
32 9 0.20
33 30 0.67
ACGTcount: A:0.04, C:0.05, G:0.10, T:0.81
Consensus pattern (31 bp):
TTTTTTTTTTTTTTTTTTGGTTAGGTTTTTC
Found at i:10290787 original size:30 final size:30
Alignment explanation
Indices: 10290751--10290812 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
10290741 TTTTGAAAAA
10290751 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
10290781 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
10290811 CA
1 CA
10290813 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:10290930 original size:14 final size:14
Alignment explanation
Indices: 10290907--10290941 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10290897 TGAGTTGATT
10290907 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
10290920 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
10290934 TTTGAAAA
1 TTTGAAAA
10290942 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:10291015 original size:165 final size:163
Alignment explanation
Indices: 10290671--10291076 Score: 439
Period size: 165 Copynumber: 2.5 Consensus size: 163
10290661 TTGACTCTCT
*
10290671 AAAAATAGACATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
10290736 TTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCTCGCAGAAATTAAAAAGCTCAAC
66 TTGATTTTTGAAAAACAGAAATTAAAAGACACAACTAAAATCTCGCAGAAATTAAAAAGCTCAAC
*
10290801 TCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA
131 TCACATCTCGCAATATGAGTTGAATTTTTTTG--A
* * *
10290836 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * * *
10290901 TTGATTTTTG-AAAACAGAATTTGAAAA-ACAGATTTTGAAAATAC-CTC-GACATGTAACCCGA
66 TTGATTTTTGAAAAACAGAAATT-AAAAGACACA-ACT-AAAAT-CTCGCAGAAAT-TAA---AA
* *
10290962 GGCTCAACTCACATCTCGCAATGTGAGTTG-ATTTTTTTG-
123 AGCTCAACTCACATCTCGCAATATGAGTTGAATTTTTTTGA
* * * * * *
10291001 AAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATAT
1 AAAAATAGAAATTG--AAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATAT
10291065 GAGTTGATTTTT
63 GAGTTGATTTTT
10291077 TTGAAAGATA
Statistics
Matches: 204, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
164 14 0.07
165 92 0.45
166 8 0.04
167 51 0.25
168 11 0.05
169 28 0.14
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (163 bp):
AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAACAGAAATTAAAAGACACAACTAAAATCTCGCAGAAATTAAAAAGCTCAAC
TCACATCTCGCAATATGAGTTGAATTTTTTTGA
Found at i:10291242 original size:72 final size:73
Alignment explanation
Indices: 10290959--10291491 Score: 381
Period size: 72 Copynumber: 6.8 Consensus size: 73
10290949 ACATGTAACC
* * * *
10290959 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
10291024 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
10291037 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
10291102 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
10291115 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
10291180 ACGTGTCT
66 GCGTGTCT
* ** * * *
10291188 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
10291252 GCGTGTCC
66 GCGTGTCT
*
10291260 CGAGGCTCAACTCACCTCTCGCAAT-TGAGTTGATTTTTTTTTTTTTTTGAAATGCAGAAATTGA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---------TTTTTTGAAA-ACAGAAATTG-
** ** *
10291324 AAAATGGAAATTGAAAATACCTCGACGTGTGAT
55 ---A---AAA-T--ACCT-CAGC---GTGT-CT
* * *
10291357 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
10291422 CAGCGTGTC-
64 CAGCGTGTCT
* *
10291431 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
10291492 ACGGAAATTG
Statistics
Matches: 364, Mismatches: 56, Indels: 73
0.74 0.11 0.15
Matches are distributed among these distances:
71 8 0.02
72 56 0.15
73 29 0.08
74 43 0.12
75 32 0.09
76 14 0.04
77 41 0.11
78 5 0.01
79 51 0.14
80 2 0.01
81 8 0.02
82 10 0.03
83 2 0.01
86 2 0.01
89 2 0.01
90 10 0.03
91 9 0.02
92 2 0.01
93 2 0.01
96 4 0.01
97 1 0.00
98 24 0.07
99 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:10291453 original size:74 final size:75
Alignment explanation
Indices: 10291330--10291491 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
10291320 TTGAAAAATG
*
10291330 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
10291395 TTTTGACAACA
65 TTTTGACAACA
* * *
10291406 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
10291469 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
10291481 AAAATTGAAAA
1 GAAATTGAAAA
10291492 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:10291618 original size:74 final size:75
Alignment explanation
Indices: 10291495--10291637 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
10291485 TTGAAAAACG
* *
10291495 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTC-GAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
10291560 TTTTGACAACA
65 TTTTGACAACA
* * * *
10291571 GAAATTGAAATTACCTC-AGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCGAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
10291635 TTT
66 TTT
10291638 TTGAAAGACA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 45 0.74
76 16 0.26
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:10291721 original size:167 final size:165
Alignment explanation
Indices: 10291156--10291801 Score: 878
Period size: 165 Copynumber: 3.9 Consensus size: 165
10291146 TGATTTTTTG
* * * ** * *
10291156 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
10291219 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
10291283 AT-TGAGTTGATTTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA------TTTTTTTTTGAAA-GCAAAAATTGA
* *
10291324 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
10291389 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
10291454 AATATGAGTTGA--TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTGAAA-GCAAAAATTGA
* * *
10291489 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
10291554 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
10291619 AATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGA
130 AATATGAGTTGATTTTTTTTTGAAAG-CAAAAATTGA
* *
10291656 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *** * *
10291721 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGC
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
10291783 AATATGAGTTGATTTTTTT
130 AATATGAGTTGATTTTTTT
10291802 GACAACAGAA
Statistics
Matches: 438, Mismatches: 31, Indels: 22
0.89 0.06 0.04
Matches are distributed among these distances:
164 41 0.09
165 176 0.40
166 7 0.02
167 89 0.20
168 27 0.06
170 30 0.07
172 60 0.14
173 8 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTGAAAGCAAAAATTGA
Found at i:10292071 original size:72 final size:71
Alignment explanation
Indices: 10291684--10292102 Score: 293
Period size: 72 Copynumber: 5.9 Consensus size: 71
10291674 ACCTCGGCGT
* * * *
10291684 GTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAA-ACAAAAATTGAAAATA
10291749 CCTCAGC
65 CCTCAGC
* ** * * * *
10291756 GTG-CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAAT
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---AATTAAAAACAAAAATTGAAAA
10291820 TACCTCAGC
63 TACCTCAGC
* * ** * *
10291829 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAA-
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAAA-CAAAAATTGAAAAT
*** *
10291892 GGTTCAAC
64 ACCTCAGC
* *** * ** * * * * * *
10291900 CT-ACCTCTCGCAATATGAGTTGA-TTCTTG-AACA--ACG-T-AAATTGAAAACAGAAATTGAA
1 GTGA-C-C-CG-AGGCTCAACTCACCTCTCGCAATATGA-GTTGAAATTAAAAACAAAAATTGAA
10291958 AATACCTCAGC
61 AATACCTCAGC
*
10291969 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAA-ACAAAAATTGAAAATA
10292034 CCTCAGC
65 CCTCAGC
* * **
10292041 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAAACAAAAATTGAAAA
10292103 GGCTTAACTC
Statistics
Matches: 264, Mismatches: 61, Indels: 45
0.71 0.16 0.12
Matches are distributed among these distances:
66 5 0.02
67 12 0.05
68 12 0.05
69 10 0.04
70 5 0.02
71 55 0.21
72 83 0.31
73 39 0.15
74 43 0.16
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (71 bp):
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAACAAAAATTGAAAATAC
CTCAGC
Found at i:10292245 original size:71 final size:71
Alignment explanation
Indices: 10292102--10292365 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
10292092 AAAAATTAAA
* * * * *
10292102 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
10292165 GCCCCG
66 GCCCCG
* *
10292171 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
10292236 GTCTTG
66 GCCCCG
* * *
10292242 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
10292305 TGCCCCG
65 TGCCCCG
*
10292312 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
10292366 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:10292323 original size:70 final size:69
Alignment explanation
Indices: 10292102--10292365 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
10292092 AAAAATTAAA
* ** * * *
10292102 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
10292167 CCCG
66 CCCG
* * *
10292171 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
10292236 GTCTTG
64 GCCCCG
* *
10292242 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
10292307 CCCCG
65 CCCCG
*
10292312 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
10292366 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:10292348 original size:263 final size:257
Alignment explanation
Indices: 10291940--10292532 Score: 1042
Period size: 257 Copynumber: 2.3 Consensus size: 257
10291930 ACAACGTAAA
* * * * * *
10291940 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
10292005 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
10292070 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
10292135 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
10292200 TGATT
253 TGATT
10292205 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
10292270 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
10292335 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
10292400 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
10292462 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
10292527 TTGATT
66 TTGATT
10292533 TTCCTTGAAA
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 130 0.41
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:10300096 original size:18 final size:17
Alignment explanation
Indices: 10300070--10300130 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
10300060 GGTTTTTTTA
10300070 TTTTTTTTTTGGTTAGG
1 TTTTTTTTTTGGTTAGG
** *
10300087 TTTTTCTTTTTTCTT--C
1 TTTTT-TTTTTGGTTAGG
10300103 TTTTTTTTTTGGTTAGG
1 TTTTTTTTTTGGTTAGG
10300120 TTTTTCTTTTT
1 TTTTT-TTTTT
10300131 TTTTTTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 10 0.29
18 12 0.35
ACGTcount: A:0.03, C:0.07, G:0.13, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTGGTTAGG
Found at i:10300096 original size:20 final size:19
Alignment explanation
Indices: 10300070--10300131 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 19
10300060 GGTTTTTTTA
10300070 TTTT-TTTTTTGGTTAGGT
1 TTTTCTTTTTTGGTTAGGT
* *
10300088 TTTTCTTTTTT-CTT---C
1 TTTTCTTTTTTGGTTAGGT
10300103 TTTT-TTTTTTGGTTAGGT
1 TTTTCTTTTTTGGTTAGGT
10300121 TTTTCTTTTTT
1 TTTTCTTTTTT
10300132 TTTTTTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
18 10 0.29
19 12 0.35
ACGTcount: A:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (19 bp):
TTTTCTTTTTTGGTTAGGT
Found at i:10300107 original size:33 final size:31
Alignment explanation
Indices: 10300062--10300139 Score: 129
Period size: 33 Copynumber: 2.5 Consensus size: 31
10300052 GGTGGCTAGG
*
10300062 TTTTTTTATTTTTTTTTTGGTTAGGTTTTTC
1 TTTTTTTTTTTTTTTTTTGGTTAGGTTTTTC
10300093 TTTTTTCTTCTTTTTTTTTTGGTTAGGTTTTTC
1 TTTTTT-TT-TTTTTTTTTTGGTTAGGTTTTTC
10300126 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
10300140 AGGTTTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
31 12 0.27
32 3 0.07
33 29 0.66
ACGTcount: A:0.04, C:0.05, G:0.10, T:0.81
Consensus pattern (31 bp):
TTTTTTTTTTTTTTTTTTGGTTAGGTTTTTC
Found at i:10300130 original size:23 final size:23
Alignment explanation
Indices: 10300100--10300147 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
10300090 TTCTTTTTTC
10300100 TTCTTTTTTTTTTGGTTAGGTTT
1 TTCTTTTTTTTTTGGTTAGGTTT
**
10300123 TTCTTTTTTTTTTTTTTAGGTTT
1 TTCTTTTTTTTTTGGTTAGGTTT
10300146 TT
1 TT
10300148 TTTGGGGGCT
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:0.04, C:0.04, G:0.12, T:0.79
Consensus pattern (23 bp):
TTCTTTTTTTTTTGGTTAGGTTT
Found at i:10300191 original size:21 final size:22
Alignment explanation
Indices: 10300157--10300201 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
10300147 TTTTGGGGGC
*
10300157 TTAATGGGCTTTTG-AATTGGGT
1 TTAATAGGCTTTTGTAA-TGGGT
10300179 TTAATAGG-TTTTGTAATGGGT
1 TTAATAGGCTTTTGTAATGGGT
10300200 TT
1 TT
10300202 GGGTAGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (22 bp):
TTAATAGGCTTTTGTAATGGGT
Found at i:10300439 original size:64 final size:64
Alignment explanation
Indices: 10300366--10300576 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
10300356 CTGGGCCAGA
*
10300366 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
10300430 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
10300492 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
10300503 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
10300567 GCCCATTTCA
1 GCCCATTTCA
10300577 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:10300578 original size:137 final size:137
Alignment explanation
Indices: 10300332--10300618 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
10300322 TATTGGGCCT
**
10300332 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10300397 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
10300462 CATATGC
131 CATATGC
10300469 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10300534 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
10300599 CATATGC
131 CATATGC
10300606 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10300619 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:10300902 original size:25 final size:27
Alignment explanation
Indices: 10300865--10300917 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
10300855 TCAAACATGC
10300865 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
10300891 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
10300917 A
1 A
10300918 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:10302435 original size:26 final size:26
Alignment explanation
Indices: 10302397--10302506 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
10302387 CATGATATTC
10302397 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10302423 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10302449 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10302475 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10302501 TTATCA
1 TTATCA
10302507 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10302475 original size:52 final size:52
Alignment explanation
Indices: 10302397--10302506 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
10302387 CATGATATTC
10302397 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
10302449 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
10302501 TTATCA
1 TTATCA
10302507 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:10302953 original size:5 final size:5
Alignment explanation
Indices: 10302943--10302979 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
10302933 AATTTGTCTC
10302943 TCTTT TCTTT TCTTTT TCTTT TCTTT T-TTT T-TTT TCT
1 TCTTT TCTTT TC-TTT TCTTT TCTTT TCTTT TCTTT TCT
10302980 GTTACATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.27
5 17 0.57
6 5 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TCTTT
Found at i:10302975 original size:11 final size:11
Alignment explanation
Indices: 10302945--10302974 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10302935 TTTGTCTCTC
10302945 TTTTCTTTTCT
1 TTTTCTTTTCT
10302956 TTTTCTTTTCT
1 TTTTCTTTTCT
10302967 TTTT-TTTT
1 TTTTCTTTT
10302975 TTTCTGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:10302975 original size:16 final size:16
Alignment explanation
Indices: 10302943--10302974 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10302933 AATTTGTCTC
10302943 TCTTTTCTTTTCTTTT
1 TCTTTTCTTTTCTTTT
10302959 TCTTTTCTTTT-TTTT
1 TCTTTTCTTTTCTTTT
10302974 T
1 T
10302975 TTTCTGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TCTTTTCTTTTCTTTT
Found at i:10303365 original size:2 final size:2
Alignment explanation
Indices: 10303360--10303389 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
10303350 AAAAAAAAAA
10303360 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
10303390 GTACCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10305760 original size:93 final size:93
Alignment explanation
Indices: 10305632--10305802 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
10305622 GCCCATAAGT
* * *
10305632 GAACTCGGACTCAACTCAATGAGCTAGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10305697 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
10305725 GAACTCGGACTCAACTCAACGAGTTCA-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCT-AGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
10305789 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
10305803 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:10305796 original size:46 final size:45
Alignment explanation
Indices: 10305624--10305793 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
10305614 TGTAACCCGC
* *
10305624 CCATAAGTGAACTCGGACTCAACTCAATGAGCT-AGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCA--GCATTCGCAT
* *
10305670 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGCATTCGC-A--T
* *** *
10305716 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAG-CATTCGCAT
10305763 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
10305794 TTCGGATGCT
Statistics
Matches: 101, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 60 0.59
47 30 0.30
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGCATTCGCAT
Found at i:10305818 original size:46 final size:45
Alignment explanation
Indices: 10305675--10305818 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
10305665 CGCATCCATA
*
10305675 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* * *
10305724 --CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
10305767 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
10305814 AGTGA
1 AGTGA
10305819 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 2 0.03
45 1 0.01
46 31 0.40
47 26 0.33
48 6 0.08
49 2 0.03
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:10307547 original size:30 final size:30
Alignment explanation
Indices: 10307503--10307592 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
10307493 CAAAGATAAC
10307503 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
10307532 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
10307562 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
10307592 A
1 A
10307593 GATACTATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 40 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:10307551 original size:15 final size:15
Alignment explanation
Indices: 10307503--10307582 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
10307493 CAAAGATAAC
*
10307503 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
10307517 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
10307532 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
10307547 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
10307562 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
10307577 AAGAAA
1 AAGAAA
10307583 CCCAAGATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:10307591 original size:15 final size:15
Alignment explanation
Indices: 10307514--10307592 Score: 81
Period size: 15 Copynumber: 5.3 Consensus size: 15
10307504 AGAAAACCGA
10307514 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
10307529 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
10307543 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
10307558 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
10307574 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
10307589 ATAA
1 ATAA
10307593 GATACTATGC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 46 0.87
16 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.16, T:0.11
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:10310570 original size:46 final size:45
Alignment explanation
Indices: 10310503--10310674 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 45
10310493 AACCCGCCCA
*
10310503 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCC
*
10310548 GTAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC
1 -TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCATC-C
* * * *
10310599 T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCC
*
10310641 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 -TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
10310675 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 59 0.56
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCC
Found at i:10310623 original size:93 final size:93
Alignment explanation
Indices: 10310508--10310678 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10310498 GCCCATAAGT
* * *
10310508 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10310573 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
10310601 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
10310666 CGAGTTCGGATGC
66 CGAGCTCGGATGC
10310679 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:10310694 original size:46 final size:46
Alignment explanation
Indices: 10310505--10310694 Score: 121
Period size: 46 Copynumber: 4.1 Consensus size: 46
10310495 CCCGCCCATA
* *
10310505 AGTGAACTCAGACTCAACTCAACGAGCTCGG--GCATTC--GCATCCGT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC--TCAACCATCC-T
10310550 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * * *
10310600 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC-G-GATGCTCAACCATCCT
*
10310644 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
10310690 AGTGA
1 AGTGA
10310695 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 61 0.54
47 28 0.25
48 3 0.03
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:10329065 original size:25 final size:25
Alignment explanation
Indices: 10329032--10329091 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
10329022 TAGCTCTCAT
*
10329032 GAGCATCCCGATATATGGCCCTCT-C
1 GAGCTTCCCGATATATGGCCCT-TGC
* **
10329057 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGATATATGGCCCTTGC
10329082 GAGCTTCCCG
1 GAGCTTCCCG
10329092 TTAATAGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCCCTTGC
Found at i:10329294 original size:24 final size:24
Alignment explanation
Indices: 10329259--10329304 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10329249 ATAAGCTATC
* *
10329259 CAAAGCTTCCCGTTATTGGCTCTT
1 CAAAGCTACCCGTTATTAGCTCTT
10329283 CAAAGCTACCCGTTATTAGCTC
1 CAAAGCTACCCGTTATTAGCTC
10329305 ACATGAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (24 bp):
CAAAGCTACCCGTTATTAGCTCTT
Found at i:10335141 original size:24 final size:23
Alignment explanation
Indices: 10335095--10335142 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
10335085 CTAAAAACTA
*
10335095 AACCCTAAAACCTAAAAATAAAT
1 AACCCTAAAACCTAAAAACAAAT
* *
10335118 AACCCTCAAAACGTAAACACAAAT
1 AACCCT-AAAACCTAAAAACAAAT
10335142 A
1 A
10335143 TTCTCCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.58, C:0.25, G:0.02, T:0.15
Consensus pattern (23 bp):
AACCCTAAAACCTAAAAACAAAT
Found at i:10341161 original size:26 final size:26
Alignment explanation
Indices: 10341124--10341259 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
10341114 TAATACAAAT
* *
10341124 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10341150 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
10341176 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10341202 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10341228 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
10341254 TGATAA
1 TGATAA
10341260 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:10343286 original size:136 final size:136
Alignment explanation
Indices: 10343041--10343325 Score: 534
Period size: 136 Copynumber: 2.1 Consensus size: 136
10343031 GAGTAGTCTC
10343041 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
10343106 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
10343171 CTGTTA
131 CTGTTA
10343177 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
10343242 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAATACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
10343307 CTGTTA
131 CTGTTA
**
10343313 CCTGAATGGGCTT
1 CCCAAATGGGCTT
10343326 AGGCCCAATA
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
CTGTTA
Found at i:10346054 original size:47 final size:47
Alignment explanation
Indices: 10345945--10346055 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
10345935 CCGGGATAAG
* *
10345945 CACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
10345992 CACAAAGTACTTCATCGGAACAAATCTGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
10346039 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
10346056 AATCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:10354910 original size:17 final size:16
Alignment explanation
Indices: 10354888--10354924 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
10354878 TTACTATATA
*
10354888 TTTTTAAAAAGTTAATT
1 TTTTTAAAAA-ATAATT
10354905 TTTTTAAAAAATAATT
1 TTTTTAAAAAATAATT
10354921 TTTT
1 TTTT
10354925 AACTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTTAAAAAATAATT
Found at i:10354913 original size:16 final size:16
Alignment explanation
Indices: 10354888--10354926 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10354878 TTACTATATA
**
10354888 TTTTTAAAAAGTTAAT
1 TTTTTAAAAAAATAAT
*
10354904 TTTTTTAAAAAATAAT
1 TTTTTAAAAAAATAAT
10354920 TTTTTAA
1 TTTTTAA
10354927 CTATTTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTTTAAAAAAATAAT
Found at i:10356858 original size:16 final size:17
Alignment explanation
Indices: 10356827--10356859 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10356817 CATAAGTATA
10356827 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
10356844 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
10356860 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:10357411 original size:92 final size:93
Alignment explanation
Indices: 10357140--10357404 Score: 379
Period size: 93 Copynumber: 2.9 Consensus size: 93
10357130 TTATCTTTGA
* * * **
10357140 CATGATGCCATGGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTT
* *
10357205 TCAACCATGTTCTTATTCATTTTCCCGT
66 TCAACCATGGTCTTATTCATTTTCCCAT
* * * *
10357233 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTACCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTT
*
10357298 TCAACCATGGTCTTATTCATTTT-CTAT
66 TCAACCATGGTCTTATTCATTTTCCCAT
* * * *
10357325 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACACATTTCATATCATGTTGCCATAGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTT
10357390 TCAACCATGGTCTTA
66 TCAACCATGGTCTTA
10357405 CACATTTCAT
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
92 74 0.49
93 78 0.51
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (93 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTTCCCAT
Found at i:10357412 original size:46 final size:46
Alignment explanation
Indices: 10357140--10357416 Score: 340
Period size: 46 Copynumber: 6.0 Consensus size: 46
10357130 TTATCTTTGA
* * * ** *
10357140 CATGATGCCATGGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * ***
10357186 CATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* *
10357233 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
10357279 CACGCTACCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* *
10357325 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
10357371 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
10357417 TAGAGAGCAC
Statistics
Matches: 205, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
45 4 0.02
46 155 0.76
47 46 0.22
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:10359446 original size:2 final size:2
Alignment explanation
Indices: 10359441--10359472 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10359431 TTTCTTTTTC
*
10359441 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10359473 GTATTTATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10361556 original size:25 final size:25
Alignment explanation
Indices: 10361506--10361594 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
10361496 ATTCATGTAT
*
10361506 GCTCATACGAGCTGTA-AACGAGAA
1 GCTCATACGAGCTGTATAACGGGAA
* * *
10361530 GCTCTTCCGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGTATAACGGGAA
* * *
10361555 GCTCATGCAAGTTGTATAACGGGAA
1 GCTCATACGAGCTGTATAACGGGAA
10361580 GCTCATACGAGCTGT
1 GCTCATACGAGCTGT
10361595 GGTGTGTCCG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 13 0.25
25 39 0.75
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCTGTATAACGGGAA
Done.