Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015036.1 Kokia drynarioides strain JFW-HI SEQ_130080, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 520311
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 696 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:10529 original size:33 final size:32
Alignment explanation
Indices: 10483--10565 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 32
10473 GTCATATGCG
** **
10483 TTAGCACCAGGCTGTGCAGGTTGGCCGTATGGA
1 TTAGCACTTGGCTGTGC-GGTTGGCCGTACAGA
* * *
10516 TTAGCACTTGGCTGTATCGGTTGGCTGTACATA
1 TTAGCACTTGGCTGT-GCGGTTGGCCGTACAGA
*
10549 TTAGCACTTGACTGTGC
1 TTAGCACTTGGCTGTGC
10566 CTGTTGACCA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
32 1 0.03
33 38 0.95
34 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.31
Consensus pattern (32 bp):
TTAGCACTTGGCTGTGCGGTTGGCCGTACAGA
Found at i:17458 original size:26 final size:27
Alignment explanation
Indices: 17429--17479 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
17419 CCTATTTATT
17429 AAATAAATATATAAATAAT-TTTTCTA
1 AAATAAATATATAAATAATCTTTTCTA
*
17455 AAATATATATATAAATAATCTTTTC
1 AAATAAATATATAAATAATCTTTTC
17480 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATAAATATATAAATAATCTTTTCTA
Found at i:18626 original size:30 final size:30
Alignment explanation
Indices: 18568--18645 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
18558 GTAATATAAC
*
18568 ATTTGGTACCTTAACTTAACACTTTTTTTTA
1 ATTTGGTA-CTAAACTTAACACTTTTTTTTA
* *
18599 TTTTGGTATCTAAACTTGACA-TTTTTTTTA
1 ATTTGGTA-CTAAACTTAACACTTTTTTTTA
*
18629 AGTTGGTACTTAAACTT
1 ATTTGGTAC-TAAACTT
18646 TTTGGGATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.03
30 22 0.55
31 17 0.43
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (30 bp):
ATTTGGTACTAAACTTAACACTTTTTTTTA
Found at i:30989 original size:48 final size:48
Alignment explanation
Indices: 30937--31380 Score: 344
Period size: 48 Copynumber: 9.2 Consensus size: 48
30927 GAGGTGAGTG
* * * * *
30937 GTAGTAGTATGGAGGAGGTGGTGAGGGAGATGGAGGAGGTGGAGATTT
1 GTAGTAGTATGGTGGAGGTGGAGAGGGAGATGGTGGTGGTGGGGATTT
* *
30985 GTAGTAGTATGGTGGTGGTGGAGAGTGGA-CTGGTGGTGG-GGGAGATTT
1 GTAGTAGTATGGTGGAGGTGGAGAG-GGAGATGGTGGTGGTGGG-GATTT
* * * * * * *
31033 GTAGTAGTATGGGGGAGGAGGAGATGGTGATGGTGGAGGAGGGGAGTT
1 GTAGTAGTATGGTGGAGGTGGAGAGGGAGATGGTGGTGGTGGGGATTT
* * * **** * * *
31081 GTAGTGGTA-GGTAGGTGCTGGAGCTTTCA-CTGGAGGTGGTGGTGATTT
1 GTAGTAGTATGGT-GGAGGTGGAG-AGGGAGATGGTGGTGGTGGGGATTT
* *
31129 GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGGGATTT
1 GTAGTAGTATGGTGGAGGTGGAGAGGGAGATGGTGGTGGTGGGGATTT
* ** *
31177 GTAGTAGTATGGTGGGGGAAGAGAGTGGA-CTGGTGGTGGTGGGGATTT
1 GTAGTAGTATGGTGGAGGTGGAGAG-GGAGATGGTGGTGGTGGGGATTT
* * * * * *
31225 GTAGTAGTATGGTGGAGGAGGAGATGGCGATGGTGGAGGAGGGGACTT
1 GTAGTAGTATGGTGGAGGTGGAGAGGGAGATGGTGGTGGTGGGGATTT
* * * * *
31273 GTAATAGTATGGTGGTGGTGGAGAATGGA-TTGGTGGTGGTGGGGACTT
1 GTAGTAGTATGGTGGAGGTGGAG-AGGGAGATGGTGGTGGTGGGGATTT
* * * * * * *
31321 GTAATAATATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGATTT
1 GTAGTAGTATGGTGGAGGTGGAGAGGGAGATGGTGGTGGTGGGGATTT
31369 GTAG-ATGTATGG
1 GTAGTA-GTATGG
31381 GGGCTCCTCT
Statistics
Matches: 311, Mismatches: 72, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
47 14 0.05
48 280 0.90
49 17 0.05
ACGTcount: A:0.21, C:0.02, G:0.50, T:0.27
Consensus pattern (48 bp):
GTAGTAGTATGGTGGAGGTGGAGAGGGAGATGGTGGTGGTGGGGATTT
Found at i:31040 original size:96 final size:96
Alignment explanation
Indices: 30937--31380 Score: 507
Period size: 96 Copynumber: 4.6 Consensus size: 96
30927 GAGGTGAGTG
* * * * * * *
30937 GTAGTAGTATGGAGGAGGTGGTGAGGGAGATGGAGGAGGTGGAGATTTGTAGTAGTATGGTGGTG
1 GTAGTAGTATGGTGGAGGAGGAGATGGAGATGGTGGAGGAGGGGATTTGTAGTAGTATGGTGGTG
31002 GTGGAGAGTGGACTGGTGGTGG-GGGAGATTT
66 GTGGAGAGTGGACTGGTGGTGGTGGG-GATTT
* * * *
31033 GTAGTAGTATGGGGGAGGAGGAGATGGTGATGGTGGAGGAGGGGAGTTGTAGTGGTA-GGTAGGT
1 GTAGTAGTATGGTGGAGGAGGAGATGGAGATGGTGGAGGAGGGGATTTGTAGTAGTATGGT-GGT
* ** ** * *
31097 GCTGGAGCTTTCACTGGAGGTGGTGGTGATTT
65 GGTGGAGAGTGGACTGGTGGTGGTGGGGATTT
* * * * * *
31129 GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGGG
1 GTAGTAGTATGGTGGAGGAGGAGATGGAGATGGTGGAGGAGGGGATTTGTAGTAGTATGGTGGTG
**
31194 GAAGAGAGTGGACTGGTGGTGGTGGGGATTT
66 GTGGAGAGTGGACTGGTGGTGGTGGGGATTT
* * *
31225 GTAGTAGTATGGTGGAGGAGGAGATGGCGATGGTGGAGGAGGGGACTTGTAATAGTATGGTGGTG
1 GTAGTAGTATGGTGGAGGAGGAGATGGAGATGGTGGAGGAGGGGATTTGTAGTAGTATGGTGGTG
* * *
31290 GTGGAGAATGGATTGGTGGTGGTGGGGACTT
66 GTGGAGAGTGGACTGGTGGTGGTGGGGATTT
* * * * *
31321 GTAATAATATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGATTTGTAG-ATGTATGG
1 GTAGTAGTATGGTGGAGGAGGAGATGGAGATGGTGGAGGAGGGGATTTGTAGTA-GTATGG
31381 GGGCTCCTCT
Statistics
Matches: 287, Mismatches: 57, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
95 4 0.01
96 278 0.97
97 5 0.02
ACGTcount: A:0.21, C:0.02, G:0.50, T:0.27
Consensus pattern (96 bp):
GTAGTAGTATGGTGGAGGAGGAGATGGAGATGGTGGAGGAGGGGATTTGTAGTAGTATGGTGGTG
GTGGAGAGTGGACTGGTGGTGGTGGGGATTT
Found at i:31131 original size:144 final size:143
Alignment explanation
Indices: 30919--31380 Score: 445
Period size: 144 Copynumber: 3.2 Consensus size: 143
30909 GTGATTTCAT
* * * * * ** * * *
30919 TGGTGGGGGAGGTGAGTGGTAGTAGTATGGAGGAGGTGGTGAGGGAGATGGAGGAGGTGGAGATT
1 TGGTGGTGGAGGGGATTTGTAGTAGTATGGTGGAGCAGGAGATGGCGATGGAGGAGGTGGAGATT
30984 TGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGG-GGGAGATTTGTAGTAGTATGGGGG
66 TGTAGTAGTATGGTGGTGGTGGAGAGTGGA-TGGTGGTGGTGGG-GATTTGTAGTAGTATGGGGG
31048 AGGAGGAGATGGTGA
129 AGGAGGAGATGGTGA
* * * * * * ** * *
31063 TGGTGGAGGAGGGGAGTTGTAGTGGTA-GGTAGGTGCTGGAGCTTTC-ACTGGAGGTGGTGGTGA
1 TGGTGGTGGAGGGGATTTGTAGTAGTATGGT-GGAGCAGGAGATGGCGA-TGGAGGAGGTGGAGA
* *
31126 TTTGTAGTAGTATGGTGGAGGTGGTGAAG-GAGATGGTGGTGGTGGGGATTTGTAGTAGTATGGT
64 TTTGTAGTAGTATGGTGGTGGTGGAG-AGTG-GATGGTGGTGGTGGGGATTTGTAGTAGTATGG-
*
31190 GGG-GGAAGAGA--GTGGA
126 GGGAGGAGGAGATGGT-GA
* * * * * *
31206 CTGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGCGATGGTGGAGGAGGGGAC
1 -TGGTGGTGGAGGGGATTTGTAGTAGTATGGTGGAGCAGGAGATGGCGATGGAGGAGGTGGAGAT
* * * * * *
31271 TTGTAATAGTATGGTGGTGGTGGAGAATGGATTGGTGGTGGTGGGGACTTGTAATAATATGGTGG
65 TTGTAGTAGTATGGTGGTGGTGGAGAGTGGA-TGGTGGTGGTGGGGATTTGTAGTAGTATGGGGG
31336 AGGAGGAGATGGTGA
129 AGGAGGAGATGGTGA
*
31351 TGGTGGTGGAGGAGATTTGTAG-ATGTATGG
1 TGGTGGTGGAGGGGATTTGTAGTA-GTATGG
31381 GGGCTCCTCT
Statistics
Matches: 258, Mismatches: 44, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
142 2 0.01
143 11 0.04
144 227 0.88
145 16 0.06
146 2 0.01
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (143 bp):
TGGTGGTGGAGGGGATTTGTAGTAGTATGGTGGAGCAGGAGATGGCGATGGAGGAGGTGGAGATT
TGTAGTAGTATGGTGGTGGTGGAGAGTGGATGGTGGTGGTGGGGATTTGTAGTAGTATGGGGGAG
GAGGAGATGGTGA
Found at i:31203 original size:192 final size:192
Alignment explanation
Indices: 30937--31380 Score: 579
Period size: 192 Copynumber: 2.3 Consensus size: 192
30927 GAGGTGAGTG
* * * * *
30937 GTAGTAGTATGGAGGAGGTGGTGAGGGAGATGGAGGAGGTGGAGATTTGTAGTAGTATGGTGGTG
1 GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGGG
** *
31002 GTGGAGAGTGGACTGGTGGTGG-GGGAGATTTGTAGTAGTATGGGGGAGGAGGAGATGGTGATGG
66 GAAGAGAGTGGACTGGTGGTGGTGGG-GATTTGTAGTAGTATGGGGGAGGAGGAGATGGCGATGG
* * * ** * * *
31066 TGGAGGAGGGGAGTTGTAGTGGTA-GGTAGGTGCTGGAGCTTTCACTGGAGGTGGTGGTGATTT
130 TGGAGGAGGGGACTTGTAATAGTATGGT-GGTGCTGGAGAATGCACTGGAGGTGGTGGGGACTT
*
31129 GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGGG
1 GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGGG
*
31194 GAAGAGAGTGGACTGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGCGATGGT
66 GAAGAGAGTGGACTGGTGGTGGTGGGGATTTGTAGTAGTATGGGGGAGGAGGAGATGGCGATGGT
* * * *
31259 GGAGGAGGGGACTTGTAATAGTATGGTGGTGGTGGAGAATGGATTGGTGGTGGTGGGGACTT
131 GGAGGAGGGGACTTGTAATAGTATGGTGGTGCTGGAGAATGCACTGGAGGTGGTGGGGACTT
* * * * * * *
31321 GTAATAATATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGATTTGTAG-ATGTATGG
1 GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGAGATTTGTAGTA-GTATGG
31381 GGGCTCCTCT
Statistics
Matches: 219, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
191 1 0.00
192 212 0.97
193 6 0.03
ACGTcount: A:0.21, C:0.02, G:0.50, T:0.27
Consensus pattern (192 bp):
GTAGTAGTATGGTGGAGGTGGTGAAGGAGATGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGGG
GAAGAGAGTGGACTGGTGGTGGTGGGGATTTGTAGTAGTATGGGGGAGGAGGAGATGGCGATGGT
GGAGGAGGGGACTTGTAATAGTATGGTGGTGCTGGAGAATGCACTGGAGGTGGTGGGGACTT
Found at i:31333 original size:27 final size:27
Alignment explanation
Indices: 31254--31335 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
31244 GGAGATGGCG
* * *
31254 ATGGTGGAGGAGGGGACTTGTAATAGT
1 ATGGTGGTGGTGGGGACTTGTAATAAT
*
31281 ATGGTGGTGGT--GGA---G-AATGGAT
1 ATGGTGGTGGTGGGGACTTGTAAT-AAT
31303 -TGGTGGTGGTGGGGACTTGTAATAAT
1 ATGGTGGTGGTGGGGACTTGTAATAAT
31329 ATGGTGG
1 ATGGTGG
31336 AGGAGGAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
21 13 0.31
22 2 0.05
23 3 0.07
25 3 0.07
26 3 0.07
27 18 0.43
ACGTcount: A:0.22, C:0.02, G:0.46, T:0.29
Consensus pattern (27 bp):
ATGGTGGTGGTGGGGACTTGTAATAAT
Found at i:31430 original size:30 final size:30
Alignment explanation
Indices: 31396--31456 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31386 CCTCTACGTG
31396 TTTTGGTGGTGGTGGGGACTTGTAATAGTA
1 TTTTGGTGGTGGTGGGGACTTGTAATAGTA
31426 TTTTGGTGGTGGTGGGGACTTGTAATAGTA
1 TTTTGGTGGTGGTGGGGACTTGTAATAGTA
31456 T
1 T
31457 GGTGGAGGTN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.39, T:0.41
Consensus pattern (30 bp):
TTTTGGTGGTGGTGGGGACTTGTAATAGTA
Found at i:31830 original size:96 final size:96
Alignment explanation
Indices: 31666--31912 Score: 338
Period size: 96 Copynumber: 2.6 Consensus size: 96
31656 NNNNNNNNNN
* *
31666 TTTGTAGTAGTATGGGGGCTCCTCTACATGCTTTGGTGGTGGTGGGGATTTGTAGTAGTATGGTG
1 TTTGTAGTAGTATGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGTG
*
31731 GTGGAGGAGA-TG-GCGATGGTGGAGGAGGAGA
66 GTGGAGGAGAGTGAAC--TGGTGGAGGAGGAGA
*
31762 TTTGTAGTAGTATGGGGGCTGCTCTTCATG-TTTCGGTGGTGGTGGGGACTTGTAGTAGTATGGT
1 TTTGTAGTAGTATGGGGGCTGCTCTACATGCTTT-GGTGGTGGTGGGGACTTGTAGTAGTATGGT
* * * *
31826 GGTGGTGGAGAGTGAACTGGTGGTGGTGGGGA
65 GGTGGAGGAGAGTGAACTGGTGGAGGAGGAGA
* * * *
31858 CTTGTAATAGTACGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGAGACTTGTAG
1 TTTGTAGTAGTATGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGGGACTTGTAG
31913 ACATAAGTGG
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
95 3 0.02
96 125 0.93
97 5 0.04
98 1 0.01
ACGTcount: A:0.16, C:0.09, G:0.43, T:0.32
Consensus pattern (96 bp):
TTTGTAGTAGTATGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGTG
GTGGAGGAGAGTGAACTGGTGGAGGAGGAGA
Found at i:31895 original size:48 final size:48
Alignment explanation
Indices: 31667--31912 Score: 210
Period size: 48 Copynumber: 5.1 Consensus size: 48
31657 NNNNNNNNNT
* *
31667 TTGTAGTAGTATGGGGGCTCCTCTACATGCTTTGGTGGTGGTGGGGAT
1 TTGTAGTAGTATGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGGGAC
* **** * ** * * * *
31715 TTGTAGTAGTATGGTGG-TGGAGGAGATGGCGATGGTGGAGGAGGAGAT
1 TTGTAGTAGTATGGGGGCTGCTCTACAT-GCTTTGGTGGTGGTGGGGAC
*
31763 TTGTAGTAGTATGGGGGCTGCTCTTCATG-TTTCGGTGGTGGTGGGGAC
1 TTGTAGTAGTATGGGGGCTGCTCTACATGCTTT-GGTGGTGGTGGGGAC
* * ** * ***
31811 TTGTAGTAGTATGGTGG-TGGTGGAGAGTGAACTGGTGGTGGTGGGGAC
1 TTGTAGTAGTATGGGGGCTGCTCTACA-TGCTTTGGTGGTGGTGGGGAC
* * *
31859 TTGTAATAGTACGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGAGAC
1 TTGTAGTAGTATGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGGGAC
31907 TTGTAG
1 TTGTAG
31913 ACATAAGTGG
Statistics
Matches: 147, Mismatches: 45, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
47 9 0.06
48 128 0.87
49 10 0.07
ACGTcount: A:0.16, C:0.09, G:0.43, T:0.32
Consensus pattern (48 bp):
TTGTAGTAGTATGGGGGCTGCTCTACATGCTTTGGTGGTGGTGGGGAC
Found at i:32028 original size:36 final size:36
Alignment explanation
Indices: 31952--32040 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
31942 ATAGTACACA
* * * *
31952 GGTGGTGGAGGTGACTTGTAAACATAAGCCGGCGAT
1 GGTGGAGGTGGTGACTTGTAAACATAAGCCGGAGAC
** *
31988 GGTGGAGGTGGTGACTTGTAAACATAAGTGGGAGCC
1 GGTGGAGGTGGTGACTTGTAAACATAAGCCGGAGAC
*
32024 GGTGGAGGTGGAGACTT
1 GGTGGAGGTGGTGACTT
32041 ATAGTAGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.24, C:0.11, G:0.43, T:0.22
Consensus pattern (36 bp):
GGTGGAGGTGGTGACTTGTAAACATAAGCCGGAGAC
Found at i:32097 original size:150 final size:148
Alignment explanation
Indices: 31925--32304 Score: 607
Period size: 150 Copynumber: 2.5 Consensus size: 148
31915 ATAAGTGGGA
* * * *
31925 GGTGGTGGTGATTTGTAATAGTACACAGGTGGTGGAGGTGACTTGTAAACATAAGCCGGCGATGG
1 GGTGGTGGAGACTTGTAGTAGTACACAGGAGGTGGAGGTGACTTGTAAACATAAG-CGG-GATGG
31990 TGGAGGTGGTGACTTGTAAACATAAGTGGGAGCCGGTGGAGGTGGAGACTTATAGTAGTATGGGG
64 TGGAGGTGGTGACTTGTAAACATAAGTGGGAGCCGGTGGAGGTGGAGACTTATAGTAGTATGGGG
*
32055 GCTGTTCCTCATGCTTTGGT
129 GCTGCTCCTCATGCTTTGGT
* *
32075 GGTGGTGGAGACTTGTAGTAGTACACGGGAGGTGGAGGTGACTTGTAAATATAAGTCGGTGATGG
1 GGTGGTGGAGACTTGTAGTAGTACACAGGAGGTGGAGGTGACTTGTAAACATAAG-CGG-GATGG
32140 TGGAGGTGGTGACTTGTAAACATAAGTGGGAGCCGGTGGAGGTGGAGACTTATAGTAGTATGGGG
64 TGGAGGTGGTGACTTGTAAACATAAGTGGGAGCCGGTGGAGGTGGAGACTTATAGTAGTATGGGG
*
32205 GCTGCTCCTGATGCTTTGGT
129 GCTGCTCCTCATGCTTTGGT
* *
32225 GGTGGTGGAGACTTGTAGTAGTACGCAGGAGGTGGAGGTGACTTGTAAACATAAGTGGGAGTCGG
1 GGTGGTGGAGACTTGTAGTAGTACACAGGAGGTGGAGGTGACTTGTAAACATAAGCGGGA-T-GG
*
32290 TGGAGGTGGAGACTT
64 TGGAGGTGGTGACTT
32305 ATAGTAGGAC
Statistics
Matches: 213, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
148 2 0.01
149 3 0.01
150 208 0.98
ACGTcount: A:0.22, C:0.10, G:0.41, T:0.27
Consensus pattern (148 bp):
GGTGGTGGAGACTTGTAGTAGTACACAGGAGGTGGAGGTGACTTGTAAACATAAGCGGGATGGTG
GAGGTGGTGACTTGTAAACATAAGTGGGAGCCGGTGGAGGTGGAGACTTATAGTAGTATGGGGGC
TGCTCCTCATGCTTTGGT
Found at i:32156 original size:36 final size:36
Alignment explanation
Indices: 32111--32190 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
32101 GGGAGGTGGA
* * *
32111 GGTGACTTGTAAATATAAGTCGGTGATGGTGGAGGT
1 GGTGACTTGTAAACATAAGTCGGAGACGGTGGAGGT
* *
32147 GGTGACTTGTAAACATAAGTGGGAGCCGGTGGAGGT
1 GGTGACTTGTAAACATAAGTCGGAGACGGTGGAGGT
*
32183 GGAGACTT
1 GGTGACTT
32191 ATAGTAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.25, C:0.09, G:0.40, T:0.26
Consensus pattern (36 bp):
GGTGACTTGTAAACATAAGTCGGAGACGGTGGAGGT
Found at i:33275 original size:12 final size:12
Alignment explanation
Indices: 33254--33288 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
33244 GAGCGGATGT
33254 GGGTGGGGGTGA
1 GGGTGGGGGTGA
*
33266 GGGTGAGGGTGA
1 GGGTGGGGGTGA
33278 GGGTGGGGGTG
1 GGGTGGGGGTG
33289 GGGATAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.74, T:0.17
Consensus pattern (12 bp):
GGGTGGGGGTGA
Found at i:33291 original size:6 final size:6
Alignment explanation
Indices: 33254--33288 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33244 GAGCGGATGT
* *
33254 GGGTGG GGGTGA GGGTGA GGGTGA GGGTGG GGGTG
1 GGGTGA GGGTGA GGGTGA GGGTGA GGGTGA GGGTG
33289 GGGATAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.09, C:0.00, G:0.74, T:0.17
Consensus pattern (6 bp):
GGGTGA
Found at i:33376 original size:24 final size:24
Alignment explanation
Indices: 33349--33427 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
33339 ACTTCACTGG
33349 TGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGAGATTTGTAGTAGTA
* * *
33373 TGGTGGT-GAGACGTAATGT-GGAG-G
1 TGGTGGTGGAGA--T-TTGTAGTAGTA
33397 TGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGAGATTTGTAGTAGTA
33421 TGGTGGT
1 TGGTGGT
33428 TGTTCTTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 3 0.07
23 8 0.19
24 21 0.49
25 8 0.19
26 3 0.07
ACGTcount: A:0.19, C:0.01, G:0.46, T:0.34
Consensus pattern (24 bp):
TGGTGGTGGAGATTTGTAGTAGTA
Found at i:33504 original size:48 final size:48
Alignment explanation
Indices: 33350--33756 Score: 359
Period size: 48 Copynumber: 8.4 Consensus size: 48
33340 CTTCACTGGT
* * ** * *
33350 GGTGGTGGAGATTTGTAGTAGTATGGTGGTGAGACGTAAT-GTGGA-GGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTG-GTGGTGATGGT-GATGGA
* * * ** * * * *
33398 GGTGGTGGAGATTTGTAGTAGTATGGTGGTTGTTCTTCATGCTTTGGTGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGG-TGGTGGTGATG--GTGATGGA
* * *
33449 GGTGGTGGAGATTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * *
33497 GGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGTGAGGGTGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* *
33545 GGTGGAGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGAAGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * * *
33593 GGCGGTGGGGACTTGTAATAGTATGGAGGAGGTGGTGATGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * * * ** * * * *
33641 GGAGGAGGTGACTTGTAGTAGTATGGTGGTTGTTCTTCATGCTTTGGTGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGG-TGGTGGTGATG--GTGATGGA
*
33692 GGTGGTGGGGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
33740 GGTGGTGGAGACTTGTA
1 GGTGGTGGAGACTTGTA
33757 TTCATAATGC
Statistics
Matches: 289, Mismatches: 62, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
48 206 0.71
49 8 0.03
50 14 0.05
51 61 0.21
ACGTcount: A:0.18, C:0.03, G:0.47, T:0.31
Consensus pattern (48 bp):
GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
Found at i:33795 original size:45 final size:46
Alignment explanation
Indices: 33729--33849 Score: 154
Period size: 45 Copynumber: 2.6 Consensus size: 46
33719 GGTGGTGGTG
* * *
33729 ATGGTGATGGAGGTGGTGGAGACTTGTATTCATAATGCTTCTCCT-
1 ATGGTGGTGGTGGTGGTGGAGACTTGTATTCATAAGGCTTCTCCTC
* * *
33774 TTGGTGGTGGTGGTGGAGGAGACTTGTATTCGTAAGGCTTCTCCTC
1 ATGGTGGTGGTGGTGGTGGAGACTTGTATTCATAAGGCTTCTCCTC
*
33820 ATGCTTTGGTGGTGGTGGTGGAGACTTGTA
1 ATG--GTGGTGGTGGTGGTGGAGACTTGTA
33850 CACATATGGA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 39 0.61
46 2 0.03
48 23 0.36
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (46 bp):
ATGGTGGTGGTGGTGGTGGAGACTTGTATTCATAAGGCTTCTCCTC
Found at i:33882 original size:48 final size:48
Alignment explanation
Indices: 33830--33963 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
33820 ATGCTTTGGT
* * *
33830 GGTGGTGGTGGAGACTTGTACACATATGGAGGTGGAGGAGAAGGTGAA
1 GGTGGTGGTGGAGACTTGTACACATAAGGAGGCGGAGGAGAAGGAGAA
* * *
33878 GGTGGTGGTGGAGATTTGTACACATAAGGCGGCGGTGGAGAAGGAGAA
1 GGTGGTGGTGGAGACTTGTACACATAAGGAGGCGGAGGAGAAGGAGAA
* * * * * *
33926 GGCGGTGGTGGTGACTTATACTCATAAGGCGGAGGAGG
1 GGTGGTGGTGGAGACTTGTACACATAAGGAGGCGGAGG
33964 TGATGCATAA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.25, C:0.09, G:0.46, T:0.20
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTACACATAAGGAGGCGGAGGAGAAGGAGAA
Found at i:37114 original size:22 final size:24
Alignment explanation
Indices: 37086--37130 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37076 GATTAAAATA
*
37086 ATAAAA-T-TACATTTTAACTCTT
1 ATAAAATTATACAATTTAACTCTT
37108 ATAAAATTATACAATTTAACTCT
1 ATAAAATTATACAATTTAACTCT
37131 AACCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 1 0.05
24 13 0.65
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAAAATTATACAATTTAACTCTT
Found at i:41463 original size:7 final size:7
Alignment explanation
Indices: 41451--41480 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
41441 TATTATTAAT
41451 TGCAATG
1 TGCAATG
41458 TGCAATG
1 TGCAATG
41465 TGCAATG
1 TGCAATG
41472 TGCAATG
1 TGCAATG
41479 TG
1 TG
41481 AGTATTCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (7 bp):
TGCAATG
Found at i:52737 original size:26 final size:25
Alignment explanation
Indices: 52681--52730 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
52671 GTAAAATTGT
52681 ATTTTGACTTTAAAAAATTTATTTCA
1 ATTTTGACTTTAAAAAA-TTATTTCA
52707 ATTTTGATCTTTAAAAGAA-TATTT
1 ATTTTGA-CTTTAAAA-AATTATTT
52731 GATTTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.55
27 8 0.36
28 2 0.09
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (25 bp):
ATTTTGACTTTAAAAAATTATTTCA
Found at i:58043 original size:31 final size:31
Alignment explanation
Indices: 57978--58043 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
57968 ATTACAAAAG
* **
57978 GTCATCGAACTATTCGAAATGTTTCATTTTA
1 GTCATCGAACTATTCGAAATGTTTCACTCAA
*
58009 GTCATCGAACTATTC-AAATGTTTTTACTCAA
1 GTCATCGAACTATTCGAAATG-TTTCACTCAA
58040 GTCA
1 GTCA
58044 CTGGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (31 bp):
GTCATCGAACTATTCGAAATGTTTCACTCAA
Found at i:60322 original size:13 final size:13
Alignment explanation
Indices: 60306--60334 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
60296 TTGTTAATGT
60306 TTTGTTACCCAAC
1 TTTGTTACCCAAC
60319 TTTGTTACCCAAC
1 TTTGTTACCCAAC
60332 TTT
1 TTT
60335 ATGGTTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (13 bp):
TTTGTTACCCAAC
Found at i:74253 original size:49 final size:49
Alignment explanation
Indices: 74195--74294 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
74185 TCTGATCAAG
74195 ATGATGTTACGGATTAATCGGATAACAACTCAATTTAAAAAAAGAAAAC
1 ATGATGTTACGGATTAATCGGATAACAACTCAATTTAAAAAAAGAAAAC
74244 ATGATGTTACGGATTAATCGGATAACAACTCAATTTAAAAAAAGAAAAC
1 ATGATGTTACGGATTAATCGGATAACAACTCAATTTAAAAAAAGAAAAC
74293 AT
1 AT
74295 CTTCATTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (49 bp):
ATGATGTTACGGATTAATCGGATAACAACTCAATTTAAAAAAAGAAAAC
Found at i:77559 original size:29 final size:29
Alignment explanation
Indices: 77515--77785 Score: 163
Period size: 30 Copynumber: 9.1 Consensus size: 29
77505 GTACTTGAAT
*
77515 TTTCCACAAATCACATTTTAACCCCTAAAC
1 TTTCCA-AAATTACATTTTAACCCCTAAAC
* **
77545 TTTCCAAAATTACATTTTGACCTTTAAAC
1 TTTCCAAAATTACATTTTAACCCCTAAAC
* * * *
77574 ATTTCCAAAATTGCATTTTGA-GCCTCGAAC
1 -TTTCCAAAATTACATTTTAACCCCT-AAAC
**
77604 TTTTCCAAAATTGTATTTTAACCACCCTAAAC
1 -TTTCCAAAATTACATTTTAA-C-CCCTAAAC
** * * *
77636 TTTTCCAAAATTGTATTTTTA-CCTTGAAC
1 -TTTCCAAAATTACATTTTAACCCCTAAAC
* * *
77665 TTTCTTCAAATTTACATTTTTACCTC-AAAC
1 TTTC--CAAAATTACATTTTAACCCCTAAAC
* *
77695 TTTCCTAAAATCACATTTTAACCACTAAAC
1 TTTCC-AAAATTACATTTTAACCCCTAAAC
* *
77725 TTTCTCAAAATCACATTTTAACCCC-GAAC
1 TTTC-CAAAATTACATTTTAACCCCTAAAC
* * * * *
77754 TTTTCTAAAGTTATATTTTACCCCCAAAAC
1 -TTTCCAAAATTACATTTTAACCCCTAAAC
77784 TT
1 TT
77786 CATTTTTCGG
Statistics
Matches: 193, Mismatches: 35, Indels: 27
0.76 0.14 0.11
Matches are distributed among these distances:
28 5 0.03
29 61 0.32
30 99 0.51
31 2 0.01
32 23 0.12
33 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (29 bp):
TTTCCAAAATTACATTTTAACCCCTAAAC
Found at i:77632 original size:91 final size:89
Alignment explanation
Indices: 77522--77743 Score: 231
Period size: 91 Copynumber: 2.5 Consensus size: 89
77512 AATTTTCCAC
77522 AAATCACATTTTAA-C-CCCTAAACTTTCCAAAATTACATTTTGACCTTTAAACATTTC-CAAAA
1 AAATCACATTTTAACCACCCTAAACTTTCCAAAATTACATTTTGACC-TTAAAC-TTTCTCAAAA
* *
77584 TTGCATTTTGAGCCTCGAACTTTTCC-A
64 TTACATTTTGA-CCTCAAAC-TTTCCTA
*** ** * * *
77611 AAATTGTATTTTAACCACCCTAAACTTTTCCAAAATTGTATTTTTACCTTGAACTTTCTTCAAAT
1 AAATCACATTTTAACCACCCTAAAC-TTTCCAAAATTACATTTTGACCTTAAACTTTC-TCAAAA
*
77676 TTACATTTTTACCTCAAACTTTCCTA
64 TTACATTTTGACCTCAAACTTTCCTA
*
77702 AAATCACATTTTAACCA--CTAAACTTTCTCAAAATCACATTTT
1 AAATCACATTTTAACCACCCTAAACTTTC-CAAAATTACATTTT
77744 AACCCCGAAC
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
88 4 0.04
89 28 0.26
90 10 0.09
91 35 0.32
92 32 0.29
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (89 bp):
AAATCACATTTTAACCACCCTAAACTTTCCAAAATTACATTTTGACCTTAAACTTTCTCAAAATT
ACATTTTGACCTCAAACTTTCCTA
Found at i:77784 original size:59 final size:60
Alignment explanation
Indices: 77662--77785 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 60
77652 TTTTACCTTG
* * * * *
77662 AACTTTCTTCAAATTTACATTTTTACCTCAAACTTTCCTAAAATCACATTTTAACCACTA
1 AACTTTCTTCAAAATCACATTTTAACCCCAAACTTTCCTAAAATCACATTTTAACCACAA
* * * * * * *
77722 AACTTTC-TCAAAATCACATTTTAACCCCGAACTTTTCTAAAGTTATATTTTACCCCCAA
1 AACTTTCTTCAAAATCACATTTTAACCCCAAACTTTCCTAAAATCACATTTTAACCACAA
77781 AACTT
1 AACTT
77786 CATTTTTCGG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
59 45 0.87
60 7 0.13
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (60 bp):
AACTTTCTTCAAAATCACATTTTAACCCCAAACTTTCCTAAAATCACATTTTAACCACAA
Found at i:78397 original size:12 final size:12
Alignment explanation
Indices: 78380--78417 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
78370 TTTGACTTTC
78380 AAAAATATAAGA
1 AAAAATATAAGA
78392 AAAAATATAA-A
1 AAAAATATAAGA
*
78403 ATAAA-ATAAGA
1 AAAAATATAAGA
78414 AAAA
1 AAAA
78418 TACGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 4 0.17
11 9 0.39
12 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAATATAAGA
Found at i:79712 original size:211 final size:208
Alignment explanation
Indices: 79317--80401 Score: 1030
Period size: 211 Copynumber: 5.2 Consensus size: 208
79307 GCTTCATCTC
* * *** *
79317 TTGGTCTACTTCTCTGTATCTTATCAAGAAGATAACCATTTCATTGTTTTGATCCACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGT
* * * * * *
79382 ATCTCAT-AAGGAAGATGGATTT-GCTCTACTTCTCTATAACTCATCAGTAAGATGACCGCTTTA
66 ATCTCATCAA-GAAGACGGATTTGGTTC-ACTTCTCTACATCTCATCAGGAAGATGACCACTTTA
** * * * * *
79445 TTGTTTTGACCCATTTCTTTGTATCTCAT-AAGGAAGATGGGGGTTTGAAATTTCACTCAAATTG
129 TTCCTTTGACCCACTTCTCTGTATCTCATCAA-GAAGAT-GGGGTTCGAAGTTTCACTCACATTG
* * *
79509 AGTTTCGCTTTATTGTT
192 AGCTTCGCTTCATTGAT
* *
79526 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGTCTCATTTATTTTAATCCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCA-TTGTTTTAATCCACTTCTCTG
** * * *
79591 TATCTCATCAAGAAGACGGATTTTGGTTCACTTCTCTGTATCTCATCAAGAAGATGACCTCATTA
65 TATCTCATCAAGAAGACGGA-TTTGGTTCACTTCTCTACATCTCATCAGGAAGATGACCACTTTA
* * * ** *
79656 TTCCTTTGTCACACTCCTCAATATC-CTATCAAGAAGATGCGGGTTCGACGTTTCACTCACATTG
129 TTCCTTTGACCCACTTCTCTGTATCTC-ATCAAGAAGATG-GGGTTCGAAGTTTCACTCACATTG
*
79720 AGCTTCGCTTCATCGAT
192 AGCTTCGCTTCATTGAT
* * ** * *** * *
79737 TTGGTCTAGTTCTCTATATCTCATCTGGAAGTTGACCGCCTCACTTGTTTTAATCTGTTTCTTTA
1 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCA-TTGTTTTAATCCACTTCTCTG
* * * * * *
79802 TATCTTATCAAGAAGACAGATTTGGTCCACTTCTTTACATCTCGTCAGGAAGAAGACCACTTTAT
65 TATCTCATCAAGAAGACGGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGACCACTTTAT
* ** * * * * *
79867 TACTTCAACCCATTTTTTTGTATTTCATCAGGAAGATGGGGTTCGAAGTTTCACTCACATTGAGC
130 TCCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTCGAAGTTTCACTCACATTGAGC
* *
79932 TTCGTTTCATCGAT
195 TTCGCTTCATTGAT
* **** *
79946 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCACTTGTTTTAATATGTTTCTCTA
1 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCA-TTGTTTTAATCCACTTCTCTG
* * * * * *
80011 TATCTCATCAAGAAGACGAATCTGGTTCAATTCCCTGCATCTCATCAGGAAGATTACCACTTTAT
65 TATCTCATCAAGAAGACGGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGACCACTTTAT
* * * * * * * * **
80076 TGCTTCGACCTACTTTTCTGTATCTTATCAGGAATATAGGGGTTTCGAAGCTTCACTCGTATTGA
130 TCCTTTGACCCACTTCTCTGTATCTCATCAAGAAGAT-GGGG-TTCGAAGTTTCACTCACATTGA
* *
80141 ACTTTGCTTCATTTGAT
193 GCTTCGCTTCA-TTGAT
* * * * *
80158 TTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTGATCCACCTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGT
* * * *
80223 ATCTCATC-AGAAAGATGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGATCACTTTA-
66 ATCTCATCAAG-AAGACGGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGACCACTTTAT
* ** **
80286 TCGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGAGTTTTAAAGTTTCACTCGTATTGA
130 TC-CTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGG-GGTTCGAAGTTTCACTCACATTGA
** *
80351 GCTTCTATTCATTGTT
193 GCTTCGCTTCATTGAT
* * *
80367 TTGGTCTGCTTCTCTGTATCTCATTAGGAAGATGA
1 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGA
80402 ACTTTTAAAG
Statistics
Matches: 718, Mismatches: 144, Indels: 28
0.81 0.16 0.03
Matches are distributed among these distances:
209 252 0.35
210 131 0.18
211 286 0.40
212 49 0.07
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (208 bp):
TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGT
ATCTCATCAAGAAGACGGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGACCACTTTATT
CCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTCGAAGTTTCACTCACATTGAGCT
TCGCTTCATTGAT
Found at i:80133 original size:420 final size:420
Alignment explanation
Indices: 79317--80401 Score: 1070
Period size: 420 Copynumber: 2.6 Consensus size: 420
79307 GCTTCATCTC
* * * *** * * * *
79317 TTGGTCTACTTCTCTGTATCTTATCAAGAAGATAACCATTTCATTGTTTTGATCCACTTCTCTGT
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATTTTAATCCACCTCTCTAT
* * * * * * * * * * * * *
79382 ATCTCATAAGGAAGATGGATTTGCTCTACTTCTCTATAACTCATCAGTAAGATGACCGCTTTATT
66 ATCTCATCAGAAAGAAGAATTTGGTCCACTTCTCTACATCTCGTCAGGAAGAAGACCACTTTATC
** ** * * *
79447 GTTTTGACCCATTTCTTTGTATCTCATAAGGAAGATGGGGGTTTGAAATTTCACTCAAATTGAGT
131 ACTTCAACCCATTTCTTTGTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCAAATTGAGC
** *
79512 TTCGCTTT-ATTGTTTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGTCTCATTTATTT
195 TTCG-TTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCACTTATTT
* * * * * * *
79576 TAATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTTGGTTCACTTCTCTGTATCTCATCAAG
259 TAATACACTTCTCTATATCTCATCAAGAAGACGGAATCTGGTTCAATTCCCTGCATCTCATCAAG
* * * *
79641 AAGATGACCTCATTATTCCTTTGTCACACTCCTCAATATCCTATCAAGAAGATGCGGGTTCGACG
324 AAGATGACCACATTATTCCTTCGACACACTCCTCAATATCCTATCAAGAAGATGCGGGTTCGAAG
* *
79706 TTTCACTCACATTGAGCTTCGCTTCA-TCGAT
389 CTTCACTCACATTGAACTTCGCTTCATTCGAT
* ** * * **** *
79737 TTGGTCTAGTTCTCTATATCTCATCTGGAAGTTGACCGCCTCACTTGTTTTAATCTGTTTCTTTA
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCGCCTCA-TTATTTTAATCCACCTCTCTA
* *
79802 TATCTTATCA-AGAAGACAG-ATTTGGTCCACTTCTTTACATCTCGTCAGGAAGAAGACCACTTT
65 TATCTCATCAGA-AAGA-AGAATTTGGTCCACTTCTCTACATCTCGTCAGGAAGAAGACCACTTT
* * * * *
79865 ATTACTTCAACCCATTTTTTTGTATTTCATCAGGAAGATGGGGTTCGAAGTTTCACTCACATTGA
128 ATCACTTCAACCCATTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCAAATTGA
* * *
79930 GCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCACTTGTT
193 GCTTCGTTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCACTTATT
*** *
79995 TTAATATGTTTCTCTATATCTCATCAAGAAGAC-GAATCTGGTTCAATTCCCTGCATCTCATCAG
258 TTAATACACTTCTCTATATCTCATCAAGAAGACGGAATCTGGTTCAATTCCCTGCATCTCATCAA
* * * ** ** * * *
80059 GAAGATTACCACTTTATTGCTTCGAC-CTACTTTTCTGTATCTTATCAGGAATATAG-GGGTTTC
323 GAAGATGACCACATTATTCCTTCGACAC-ACTCCTCAATATCCTATCAAGAAGAT-GCGGG-TTC
** * *
80122 GAAGCTTCACTCGTATTGAACTTTGCTTCATTTGAT
385 GAAGCTTCACTCACATTGAACTTCGCTTCATTCGAT
* * * * *
80158 TTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTGATCCACCTCTCTGT
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATTTTAATCCACCTCTCTAT
* * * *
80223 ATCTCATCAGAAAGATGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGATCACTTTATC
66 ATCTCATCAGAAAGAAGAATTTGGTCCACTTCTCTACATCTCGTCAGGAAGAAGACCACTTTATC
* ** * * * * * **
80288 GCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGAGTTTTAAAGTTTCACTCGTATTGAGC
131 ACTTCAACCCATTTCTTTGTATCTCATCAGGAAGATGG-GGTTTGAAGTTTCACTCAAATTGAGC
* * *
80353 TTC-TATTCATTGTTTTGGTCTGCTTCTCTGTATCTCATTAGGAAGATGA
195 TTCGT-TTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGA
80402 ACTTTTAAAG
Statistics
Matches: 536, Mismatches: 117, Indels: 23
0.79 0.17 0.03
Matches are distributed among these distances:
418 1 0.00
419 71 0.13
420 265 0.49
421 198 0.37
422 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (420 bp):
TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATTTTAATCCACCTCTCTAT
ATCTCATCAGAAAGAAGAATTTGGTCCACTTCTCTACATCTCGTCAGGAAGAAGACCACTTTATC
ACTTCAACCCATTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCAAATTGAGCT
TCGTTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCACTTATTTTA
ATACACTTCTCTATATCTCATCAAGAAGACGGAATCTGGTTCAATTCCCTGCATCTCATCAAGAA
GATGACCACATTATTCCTTCGACACACTCCTCAATATCCTATCAAGAAGATGCGGGTTCGAAGCT
TCACTCACATTGAACTTCGCTTCATTCGAT
Found at i:81337 original size:36 final size:35
Alignment explanation
Indices: 81285--81354 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
81275 TTTGGTTTCA
* * *
81285 AGACGCCCTTTTCGGGTTTTCATCTCGATCTTTTTT
1 AGACACCCTTTGCGGGTTTTCATCTAGAT-TTTTTT
81321 AGACACCCTTTGCGGGTTTTCATCTAGATTTTTT
1 AGACACCCTTTGCGGGTTTTCATCTAGATTTTTT
81355 CCTTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 5 0.16
36 26 0.84
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (35 bp):
AGACACCCTTTGCGGGTTTTCATCTAGATTTTTTT
Found at i:84742 original size:15 final size:15
Alignment explanation
Indices: 84722--84755 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
84712 ATGCTCTAAG
84722 TTATCGACACTCATA
1 TTATCGACACTCATA
* *
84737 TTATCGGCACTCATG
1 TTATCGACACTCATA
84752 TTAT
1 TTAT
84756 TGATTACTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (15 bp):
TTATCGACACTCATA
Found at i:89911 original size:23 final size:23
Alignment explanation
Indices: 89786--89912 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 23
89776 ACACTAGTGC
* *
89786 GCTCTTTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
* *
89809 GCTCTCTGTTATTATCAATGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
89834 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* ** * *
89857 GCACTCTAATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
89880 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
89903 GCTCTCTGTT
1 GCTCTCTGTT
89913 GCCCAGCACT
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
23 64 0.77
24 1 0.01
25 15 0.18
26 3 0.04
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.45
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:96253 original size:16 final size:17
Alignment explanation
Indices: 96232--96267 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
96222 CTTGAATTAG
96232 TATTATAC-TTTAATCA
1 TATTATACATTTAATCA
96248 TATTATACATTTAATCA
1 TATTATACATTTAATCA
96265 TAT
1 TAT
96268 AAAATACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTATACATTTAATCA
Found at i:102906 original size:16 final size:17
Alignment explanation
Indices: 102881--102917 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
102871 CTTTTTGTAA
102881 ATTT-AAAATTTAGT-T
1 ATTTAAAAATTTAGTCT
102896 ATTTAAAAATTTAGTCT
1 ATTTAAAAATTTAGTCT
102913 ATTTA
1 ATTTA
102918 TTTTTTGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTTAAAAATTTAGTCT
Found at i:103357 original size:40 final size:40
Alignment explanation
Indices: 103302--103425 Score: 248
Period size: 40 Copynumber: 3.1 Consensus size: 40
103292 AGTCTTTTGT
103302 GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
1 GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
103342 GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
1 GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
103382 GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
1 GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
103422 GGTT
1 GGTT
103426 TATTTTCTAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.48
Consensus pattern (40 bp):
GGTTAGTATATTTCTTTACTATAATTATGAGCTTGATTAG
Found at i:105041 original size:16 final size:16
Alignment explanation
Indices: 104992--105043 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
104982 AATTAAACCT
104992 AAATAATTAATTATCA
1 AAATAATTAATTATCA
*
105008 AAAT-A-TAA-TATAA
1 AAATAATTAATTATCA
105021 AAATAATTAATTATCA
1 AAATAATTAATTATCA
105037 AAATAAT
1 AAATAAT
105044 ATCCGCATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
15 4 0.13
16 15 0.48
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATTAATTATCA
Found at i:106341 original size:18 final size:18
Alignment explanation
Indices: 106320--106356 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
106310 GCTTAGGATT
* *
106320 AGGCTCGGGCTCAAGCTC
1 AGGCTCAGGCTCAAACTC
106338 AGGCTCAGGCTCAAACTC
1 AGGCTCAGGCTCAAACTC
106356 A
1 A
106357 AACTTGAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGCTCAGGCTCAAACTC
Found at i:110797 original size:9 final size:9
Alignment explanation
Indices: 110783--110813 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
110773 CCTAAGTTTA
*
110783 TATTATTAT
1 TATTATAAT
110792 TATTATAAT
1 TATTATAAT
110801 TATTATAAT
1 TATTATAAT
110810 TATT
1 TATT
110814 TTGAGCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTATAAT
Found at i:113353 original size:65 final size:65
Alignment explanation
Indices: 113251--113458 Score: 172
Period size: 65 Copynumber: 3.2 Consensus size: 65
113241 TGTTATCGTT
* * * * * *
113251 TCACTAGTTTCCT-ACCGGATCAAGTGGATAACCCATATGATATTTGGACTCGGTTATACACATC
1 TCACTAGTTTCTTAACGGGA-CGAGTGGACAACCCATATGATATTTGGACTCGGTTATAAATATC
113315 G
65 G
* * * * * * * ** * *
113316 TCACTAGTTTCTTAACGGGTCGGGTTGATAGCTCATATG-TGACTTGGACTCTATTGT-GATATC
1 TCACTAGTTTCTTAACGGGACGAGTGGACAACCCATATGAT-ATTTGGACTCGGTTATAAATATC
*
113379 A
65 G
* * *
113380 TCACTAGTTATGTT-TCGGGACGAGTGGACAACCCATATGATATTCGGACTCGGTTATAAATATC
1 TCACTAGTT-TCTTAACGGGACGAGTGGACAACCCATATGATATTTGGACTCGGTTATAAATATC
113444 G
65 G
113445 TCACTAGTTTCTTA
1 TCACTAGTTTCTTA
113459 CTGAGTTGGG
Statistics
Matches: 106, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
64 46 0.43
65 56 0.53
66 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (65 bp):
TCACTAGTTTCTTAACGGGACGAGTGGACAACCCATATGATATTTGGACTCGGTTATAAATATCG
Found at i:113514 original size:129 final size:129
Alignment explanation
Indices: 113273--113517 Score: 314
Period size: 129 Copynumber: 1.9 Consensus size: 129
113263 TACCGGATCA
* * * *
113273 AGTGGATAACCCATATGATATTTGGACTCGGTTATACACATCGTCACTAGTTTCTTAACGGGTCG
1 AGTGGACAACCCATATGATATTCGGACTCGGTTATAAACATCGTCACTAGTTTCTTAACGAGTCG
* * * * *
113338 GGTTGATAGCTCATATGTGACTTGGACTCTATTGTGATATCATCACTAGTTATGTTTCGGGACG
66 GGTGGATAACCCATATGTCACTTGGACTCTATTGTGATATCACCACTAGTTATGTTTCGGGACG
* *
113402 AGTGGACAACCCATATGATATTCGGACTCGGTTATAAATATCGTCACTAGTTTCTT-ACTGAGTT
1 AGTGGACAACCCATATGATATTCGGACTCGGTTATAAACATCGTCACTAGTTTCTTAAC-GAGTC
* * * **
113466 GGGTGGATAACCCA-ATGTCATTTGGATTCTGTTGTGAATATTGCCACTAGTT
65 GGGTGGATAACCCATATGTCACTTGGACTCTATTGTG-ATATCACCACTAGTT
113518 TCCTCTACGT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
128 20 0.20
129 78 0.80
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (129 bp):
AGTGGACAACCCATATGATATTCGGACTCGGTTATAAACATCGTCACTAGTTTCTTAACGAGTCG
GGTGGATAACCCATATGTCACTTGGACTCTATTGTGATATCACCACTAGTTATGTTTCGGGACG
Found at i:114070 original size:16 final size:17
Alignment explanation
Indices: 114049--114083 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
114039 ATTATGAACT
*
114049 TAATAAATATA-TTTGA
1 TAATAAATAAATTTTGA
114065 TAATAAATAAATTTTGA
1 TAATAAATAAATTTTGA
114082 TA
1 TA
114084 TAATAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TAATAAATAAATTTTGA
Found at i:115416 original size:20 final size:21
Alignment explanation
Indices: 115388--115426 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
115378 TTGGTGTAAG
115388 TCTTCCTTTTTTTT-TTTTTA
1 TCTTCCTTTTTTTTGTTTTTA
*
115408 TCTTTCTTTTTTTTGTTTT
1 TCTTCCTTTTTTTTGTTTT
115427 CATTAAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (21 bp):
TCTTCCTTTTTTTTGTTTTTA
Found at i:121721 original size:21 final size:22
Alignment explanation
Indices: 121682--121731 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
121672 TGTGAATTTT
*
121682 TTATTT-TTTAAAATATAGTTA
1 TTATTTATTTAAAATATAGTAA
* *
121703 TT-TTTATTTAATATTTAGTAA
1 TTATTTATTTAAAATATAGTAA
121724 TTATTTAT
1 TTATTTAT
121732 ATTTTTCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.67
22 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATTTATTTAAAATATAGTAA
Found at i:127057 original size:158 final size:158
Alignment explanation
Indices: 126769--127086 Score: 584
Period size: 158 Copynumber: 2.0 Consensus size: 158
126759 ACAAGTGTAA
126769 CAAAATAAAATCTCAAGTAACAAATAAAATACTAAATAAACCATGAACAATTATTGTCTTAGGTT
1 CAAAATAAAATCTCAAGTAACAAATAAAATACTAAATAAACCATGAACAATTATTGTCTTAGGTT
*
126834 TCTGCATGTCCTATGTTTTCATTCTGCAAATTGTATTTAGTTTATAAATGTTTCACATGGATTTT
66 TCTGCATATCCTATGTTTTCATTCTGCAAATTGTATTTAGTTTATAAATGTTTCACATGGATTTT
126899 GACAGAAATAACATTTATGTATATGCAG
131 GACAGAAATAACATTTATGTATATGCAG
*
126927 CAAAATAAAATCTCAAGTAACGAATAAAATACTAAATAAACCATGAACAATTATCT-TCTTAGGT
1 CAAAATAAAATCTCAAGTAACAAATAAAATACTAAATAAACCATGAACAATTAT-TGTCTTAGGT
126991 TTCTGCATATCCTATGTTTTCATTCTGCAAATTGTATTTAGTTTATAAATGTTTCACATGGATTT
65 TTCTGCATATCCTATGTTTTCATTCTGCAAATTGTATTTAGTTTATAAATGTTTCACATGGATTT
* *
127056 TGACAGAAATAACATTTATTTATTTGCAG
130 TGACAGAAATAACATTTATGTATATGCAG
127085 CA
1 CA
127087 TCTCGAAAAA
Statistics
Matches: 155, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
158 154 0.99
159 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (158 bp):
CAAAATAAAATCTCAAGTAACAAATAAAATACTAAATAAACCATGAACAATTATTGTCTTAGGTT
TCTGCATATCCTATGTTTTCATTCTGCAAATTGTATTTAGTTTATAAATGTTTCACATGGATTTT
GACAGAAATAACATTTATGTATATGCAG
Found at i:136153 original size:21 final size:21
Alignment explanation
Indices: 136099--136153 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
136089 CTCTCGACAG
*
136099 GTTAAAATTTTCGAAACATCT
1 GTTAAAATTTTCTAAACATCT
136120 GTTAAAA-TTTCTAAACATCT
1 GTTAAAATTTTCTAAACATCT
136140 GTTAAAATTTTCTA
1 GTTAAAATTTTCTA
136154 GTAATTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (21 bp):
GTTAAAATTTTCTAAACATCT
Found at i:136574 original size:2 final size:2
Alignment explanation
Indices: 136567--136597 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
136557 AAGTTGCAGG
136567 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
136598 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:145276 original size:21 final size:20
Alignment explanation
Indices: 145250--145307 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 20
145240 TATTAATTTG
* *
145250 ATTTTAATTTTAATTTTTTA
1 ATTTTAATTTTAATTTATCA
145270 ATCTTTAAATTTATATATTTATCA
1 AT-TTT-AATTT-TA-ATTTATCA
145294 ATTTT-ATTTTAATT
1 ATTTTAATTTTAATT
145308 CTTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 5 0.16
23 5 0.16
24 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTAATTTTAATTTATCA
Found at i:148843 original size:7 final size:7
Alignment explanation
Indices: 148831--148860 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
148821 TTATTGATTT
148831 TTTTTAA
1 TTTTTAA
148838 TTTTTAA
1 TTTTTAA
148845 TTTTTAA
1 TTTTTAA
148852 TTTTTAA
1 TTTTTAA
148859 TT
1 TT
148861 ATTTCATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:153256 original size:23 final size:23
Alignment explanation
Indices: 153222--153307 Score: 104
Period size: 23 Copynumber: 3.7 Consensus size: 23
153212 ACGCTAGCGC
*
153222 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTATTTCGCACTTCGTGT
*
153245 GCTTACTATTTCGCACTTCATGT
1 GCTTACTATTTCGCACTTCGTGT
* *
153268 GCTTACTGTTTCGCACCTCGTGT
1 GCTTACTATTTCGCACTTCGTGT
153291 G-TCTACTTATTT-GCACT
1 GCT-TAC-TATTTCGCACT
153308 ATGTGCGCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.02
23 49 0.91
24 4 0.07
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.43
Consensus pattern (23 bp):
GCTTACTATTTCGCACTTCGTGT
Found at i:153321 original size:46 final size:48
Alignment explanation
Indices: 153220--153321 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 48
153210 GAACGCTAGC
*
153220 GCGCTTACTGTTTCGCACTTCGTGTGCTTACTATTTCGCACTTCATGT
1 GCGCTTACTGTTTCGCACCTCGTGTGCTTACTATTTCGCACTTCATGT
153268 --GCTTACTGTTTCGCACCTCGTGTG-TCTACTTATTT-GCAC-T-ATGT
1 GCGCTTACTGTTTCGCACCTCGTGTGCT-TAC-TATTTCGCACTTCATGT
*
153312 GCGCCTACTG
1 GCGCTTACTG
153322 ATTGCACTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
44 4 0.08
45 2 0.04
46 37 0.77
47 5 0.10
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.40
Consensus pattern (48 bp):
GCGCTTACTGTTTCGCACCTCGTGTGCTTACTATTTCGCACTTCATGT
Found at i:153329 original size:22 final size:22
Alignment explanation
Indices: 153301--153343 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
153291 GTCTACTTAT
153301 TTGCACTATGTGCGCCTACTGA
1 TTGCACTATGTGCGCCTACTGA
*
153323 TTGCACTATGTGTGCCTACTG
1 TTGCACTATGTGCGCCTACTG
153344 TTTCCCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (22 bp):
TTGCACTATGTGCGCCTACTGA
Found at i:153367 original size:25 final size:26
Alignment explanation
Indices: 153325--153422 Score: 171
Period size: 26 Copynumber: 3.8 Consensus size: 26
153315 CCTACTGATT
*
153325 GCACTATGTGTGCCTACTGTTT-CCCA
1 GCACT-TGTGTGCTTACTGTTTCCCCA
153351 GCACTTGTGTGCTTACTGTTTCCCCA
1 GCACTTGTGTGCTTACTGTTTCCCCA
153377 GCACTTGTGTGCTTACTGTTTCCCCA
1 GCACTTGTGTGCTTACTGTTTCCCCA
153403 GCACTTGTGTGCTTACTGTT
1 GCACTTGTGTGCTTACTGTT
153423 AAGTACTTCG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
25 15 0.21
26 55 0.79
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (26 bp):
GCACTTGTGTGCTTACTGTTTCCCCA
Found at i:158105 original size:2 final size:2
Alignment explanation
Indices: 158100--158163 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
158090 GGGACACAAG
158100 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
158142 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
158164 TAATGTATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158843 original size:89 final size:90
Alignment explanation
Indices: 158692--158867 Score: 327
Period size: 89 Copynumber: 2.0 Consensus size: 90
158682 ATCAGTTTAC
158692 TTTTTTATCTAATATATAAAAATTAATCTATTCATTTTTTTTATTAAAAGAGACAAAATACAATC
1 TTTTTTATCTAATATATAAAAATTAATCTATTCATTTTTTTTATTAAAAGAGACAAAATACAATC
*
158757 CAACGTTTAGTATTAAAACTTTTGT
66 CAACATTTAGTATTAAAACTTTTGT
158782 TTTTTTATCTAATATATAAAAATTAATCTATTCA-TTTTTTTATTAAAAGAGACAAAATACAATC
1 TTTTTTATCTAATATATAAAAATTAATCTATTCATTTTTTTTATTAAAAGAGACAAAATACAATC
*
158846 CAACATTTTGTATTAAAACTTT
66 CAACATTTAGTATTAAAACTTT
158868 CTTGTTACTT
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
89 50 0.60
90 34 0.40
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (90 bp):
TTTTTTATCTAATATATAAAAATTAATCTATTCATTTTTTTTATTAAAAGAGACAAAATACAATC
CAACATTTAGTATTAAAACTTTTGT
Found at i:160665 original size:16 final size:17
Alignment explanation
Indices: 160639--160671 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
160629 TTAGGCTGTT
160639 CAAGAAAAACTTTATTC
1 CAAGAAAAACTTTATTC
160656 CAAG-AAAACTTTATTC
1 CAAGAAAAACTTTATTC
160672 TCAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (17 bp):
CAAGAAAAACTTTATTC
Found at i:160800 original size:33 final size:33
Alignment explanation
Indices: 160763--160829 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
160753 TCGAAAGTAT
160763 GAAGCATGCACTGCATTATCGACTGGCAAAACA
1 GAAGCATGCACTGCATTATCGACTGGCAAAACA
160796 GAAGCATGCACTGCATTATCGACTGGCAAAACA
1 GAAGCATGCACTGCATTATCGACTGGCAAAACA
160829 G
1 G
160830 CATAACAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (33 bp):
GAAGCATGCACTGCATTATCGACTGGCAAAACA
Found at i:162459 original size:3 final size:3
Alignment explanation
Indices: 162447--162489 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
162437 TTTTTCTGTC
162447 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
162490 TCTTATTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:168980 original size:29 final size:29
Alignment explanation
Indices: 168920--168984 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
168910 TAGAGACATG
* * **
168920 ATCAAATTAATCCCTTTATTATTAAATGA
1 ATCAAATTAATCCATGTATTATTAAAAAA
*
168949 ATCAATTTAATCCATGTATTATTAAAAAA
1 ATCAAATTAATCCATGTATTATTAAAAAA
168978 ATCAAAT
1 ATCAAAT
168985 AAAGTCAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.38
Consensus pattern (29 bp):
ATCAAATTAATCCATGTATTATTAAAAAA
Found at i:172930 original size:24 final size:24
Alignment explanation
Indices: 172883--172933 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
172873 GCAGTTAAAT
*
172883 TCTGTTTATTTGTTTCAATTAAAC
1 TCTGTTTATTTGTTTCAATCAAAC
* *
172907 TCTGTTTATTTGTTTGAGTCAAAC
1 TCTGTTTATTTGTTTCAATCAAAC
172931 TCT
1 TCT
172934 TATTAGTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.53
Consensus pattern (24 bp):
TCTGTTTATTTGTTTCAATCAAAC
Found at i:174874 original size:24 final size:24
Alignment explanation
Indices: 174843--174922 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
174833 AGAAATAATC
* * *
174843 TTTCAATTAAATTTTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
174867 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
*
174891 TTTCAATTAAACTCTATTTAGTTG
1 TTTCAATTAAACTCTATTTATTTG
*
174915 TTTGAATT
1 TTTCAATT
174923 TAGCCTATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:178279 original size:18 final size:19
Alignment explanation
Indices: 178253--178288 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
178243 TAAAAAAATT
178253 AATTCATAATTATAATTTA
1 AATTCATAATTATAATTTA
178272 AATT-ATAATTATAATTT
1 AATTCATAATTATAATTT
178289 TTTTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTCATAATTATAATTTA
Found at i:179696 original size:29 final size:30
Alignment explanation
Indices: 179661--179717 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
179651 TGGTTCAATG
179661 TGCAATTGTATACAT-AAACTTTGATTTTA
1 TGCAATTGTATACATGAAACTTTGATTTTA
* * *
179690 TGCAATTTTATATATGAAATTTTGATTT
1 TGCAATTGTATACATGAAACTTTGATTT
179718 GATCAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (30 bp):
TGCAATTGTATACATGAAACTTTGATTTTA
Found at i:179973 original size:29 final size:27
Alignment explanation
Indices: 179909--179973 Score: 67
Period size: 31 Copynumber: 2.3 Consensus size: 27
179899 GTTTTACTTC
*
179909 TATAATTGCACCAAATTAAAATTCATG
1 TATAATTGCACCAAATCAAAATTCATG
* *
179936 TATACAATTGCACATTAAATCAAAGTTCATG
1 TAT--AATTGCAC--CAAATCAAAATTCATG
179967 TATAATT
1 TATAATT
179974 TTGAGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.10
29 12 0.39
31 16 0.52
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (27 bp):
TATAATTGCACCAAATCAAAATTCATG
Found at i:190255 original size:30 final size:30
Alignment explanation
Indices: 190176--190256 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
190166 GACAAAATTA
* * *
190176 GCCCCTAACATTTGGGTGTTTGGTCACTTTG
1 GCCCCTAACATTT-GTTTTTTGCTCACTTTG
* * *
190207 GCCCTTATCATTTTTTTTTTGCTCACTTTG
1 GCCCCTAACATTTGTTTTTTGCTCACTTTG
*
190237 GCCCCTAACCTTTGTTTTTT
1 GCCCCTAACATTTGTTTTTT
190257 TTGGTCAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 29 0.73
31 11 0.28
ACGTcount: A:0.11, C:0.25, G:0.16, T:0.48
Consensus pattern (30 bp):
GCCCCTAACATTTGTTTTTTGCTCACTTTG
Found at i:190425 original size:20 final size:19
Alignment explanation
Indices: 190397--190445 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
190387 TCACGTCAAC
* *
190397 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAAATA-TA
190417 AAATTATTTTTTAAAAATATA
1 AAATTA--TTTTAAAAATATA
190438 AAATTATT
1 AAATTATT
190446 AAAATAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 5 0.20
21 8 0.32
22 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTATTTTAAAAATATA
Found at i:190439 original size:21 final size:22
Alignment explanation
Indices: 190403--190445 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
190393 CAACAAATGA
*
190403 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
190425 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
190446 AAAATAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:192595 original size:89 final size:89
Alignment explanation
Indices: 192480--192647 Score: 255
Period size: 89 Copynumber: 1.9 Consensus size: 89
192470 TTTCTCTTTC
* *
192480 ATGTTTGAATTATACAGTTTTAATTTGGCTTTGTAATTTTGCAGATAAGTTTTGTAAGTGTTTCA
1 ATGTTTGAATTATACAGTTTTAATTTGGCTTTGCAATTTTGCAGATAAGTTTTGTAAGTGGTTCA
*
192545 GTTCGCATATTTGAATTAAAAAAA
66 GTTCACATATTTGAATTAAAAAAA
* * * * * *
192569 ATGTTTGTATTCTAGAGTTTTTATTTGGCTTTGCAATTTTGCAGATGAGTTTTGTAAGTGGTTCC
1 ATGTTTGAATTATACAGTTTTAATTTGGCTTTGCAATTTTGCAGATAAGTTTTGTAAGTGGTTCA
192634 GTTCACATATTTGA
66 GTTCACATATTTGA
192648 TTTTTTTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.46
Consensus pattern (89 bp):
ATGTTTGAATTATACAGTTTTAATTTGGCTTTGCAATTTTGCAGATAAGTTTTGTAAGTGGTTCA
GTTCACATATTTGAATTAAAAAAA
Found at i:195629 original size:2 final size:2
Alignment explanation
Indices: 195622--195656 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
195612 TCTTCTTTTC
195622 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
195657 CATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:196892 original size:29 final size:29
Alignment explanation
Indices: 196847--196903 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
196837 TTGTAGGGAT
*
196847 TGGATCAAATTAATCTCTTTATTATTAAA
1 TGGATCAAATTAATCTCTATATTATTAAA
* *
196876 TGGATCAATTTAGTCTCTATATTATTAA
1 TGGATCAAATTAATCTCTATATTATTAA
196904 TAAGAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (29 bp):
TGGATCAAATTAATCTCTATATTATTAAA
Found at i:198229 original size:26 final size:27
Alignment explanation
Indices: 198178--198250 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
198168 ATATTGAAGT
* *
198178 AAAAGTCAGGTAGCAAATTGAAAAAAAA
1 AAAACTCAGGTAACAAATTG-AAAAAAA
*
198206 AAAATTCAGGTAACAAATTG-AAAAAA
1 AAAACTCAGGTAACAAATTGAAAAAAA
* *
198232 AAAACTCAAGTATCAAATT
1 AAAACTCAGGTAACAAATT
198251 AAACATCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.55
28 18 0.45
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (27 bp):
AAAACTCAGGTAACAAATTGAAAAAAA
Found at i:198229 original size:27 final size:28
Alignment explanation
Indices: 198178--198235 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
198168 ATATTGAAGT
*
198178 AAAAGTCAGGTAGCAAATTGAAAAAAAA
1 AAAAGTCAGGTAACAAATTGAAAAAAAA
*
198206 AAAATTCAGGTAACAAATTGAAAAAAAA
1 AAAAGTCAGGTAACAAATTGAAAAAAAA
198234 AA
1 AA
198236 CTCAAGTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (28 bp):
AAAAGTCAGGTAACAAATTGAAAAAAAA
Found at i:200524 original size:13 final size:14
Alignment explanation
Indices: 200501--200540 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
200491 TCTATATATT
200501 TTATGTTTAAATAA
1 TTATGTTTAAATAA
* *
200515 TT-TTTTTAAAGAA
1 TTATGTTTAAATAA
200528 TTATGTTTAAATA
1 TTATGTTTAAATA
200541 GTAAAGTGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TTATGTTTAAATAA
Found at i:212277 original size:11 final size:11
Alignment explanation
Indices: 212263--212287 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
212253 TTTTATATTT
212263 TTAATATAATA
1 TTAATATAATA
212274 TTAATATAATA
1 TTAATATAATA
212285 TTA
1 TTA
212288 TTTAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAATATAATA
Found at i:216075 original size:21 final size:22
Alignment explanation
Indices: 216051--216093 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
216041 AAAATTATTT
*
216051 AATAATTTT-ATATTTTTAAAA
1 AATAATTTTAATAATTTTAAAA
*
216072 AATAGTTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
216094 TCTTTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:216351 original size:3 final size:3
Alignment explanation
Indices: 216343--216375 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
216333 TATAGGAGTC
216343 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
216376 CACGACATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:217151 original size:14 final size:13
Alignment explanation
Indices: 217106--217153 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
217096 CAGTCAAATG
217106 AAAAAGAAAATTA
1 AAAAAGAAAATTA
*
217119 AAAAA-AAAATAGA
1 AAAAAGAAAAT-TA
217132 CAAAAAGAAAATTA
1 -AAAAAGAAAATTA
217146 AGAAAAGA
1 A-AAAAGA
217154 GAGAGGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 5 0.17
13 7 0.24
14 12 0.41
15 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAAGAAAATTA
Found at i:224377 original size:60 final size:60
Alignment explanation
Indices: 224295--225041 Score: 665
Period size: 60 Copynumber: 12.7 Consensus size: 60
224285 GCAAATTGGA
* * *
224295 AAAGACTTAATGCTGGGATTTAAGCTAAAAACAAATTAACATCACGTGGAGCACGTTATG
1 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * *
224355 AAAGGCTTAATGCT-AGACTTTAAGCTAACAACAAACTAATGA-CACGTGGAGCAC-AT-CGG
1 AAAGGCTTAATGCTGGGA-TTTAAGCTAACAACAAATTAA-CATCACGTGGAGCACGTTAC-G
* * * *
224414 AAAGGTTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGGGCACGTTATG
1 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * *
224474 AAAGGCTTAATGCT-GGACTTTAAGCTAACAACAAACTAATGA-CACGTGGAGCACATCA-G
1 AAAGGCTTAATGCTGGGA-TTTAAGCTAACAACAAATTAA-CATCACGTGGAGCACGTTACG
* * * *
224533 AAAGGTTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCATGTTACA
1 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * *** ** *
224593 AAAGGATTAAGGCT-GGACTTTACGCTAACTGTAAATTAACATCACACGGAGCACGTTACA
1 AAAGGCTTAATGCTGGGA-TTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * * * *
224653 AAAGGCTTAAGGCT-GGACTTTAAGCTAACAACAAATAAATATCACGTGGAGCATGTCATG
1 AAAGGCTTAATGCTGGGA-TTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * * *
224713 AAAAGCTTAATGCT-GGACTTTAAGCTAACAAGAAATTAACAACACGTGGAGCACATCA-G
1 AAAGGCTTAATGCTGGGA-TTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * * *
224772 AAAAGCTTAATGCTGGGATTTAGGCTAAC-A-AAA-T--CAT---GTGGAGTACATTGCG
1 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * * * * *
224824 AACA--CTTAATGCAGGGATTTAAACTAACAACAAATTAACATCACATGGAACTCATTGCG
1 AA-AGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * * * *
224883 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAACTAACATCACATGGAACTCGATGCG
1 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* * * * * *
224943 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAAATAACATCACATGGAACTCGATGCG
1 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
* *
225003 AAAGGCTTATTGCTGGGTTTTAAGCTAACGAA-AAATTAA
1 AAAGGCTTAATGCTGGGATTTAAGCTAAC-AACAAATTAA
225042 TATCTTGAGA
Statistics
Matches: 578, Mismatches: 82, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
51 31 0.05
52 4 0.01
53 4 0.01
54 3 0.01
56 4 0.01
57 3 0.01
58 4 0.01
59 137 0.24
60 384 0.66
61 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (60 bp):
AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAATTAACATCACGTGGAGCACGTTACG
Found at i:224479 original size:119 final size:119
Alignment explanation
Indices: 224295--224977 Score: 666
Period size: 119 Copynumber: 5.8 Consensus size: 119
224285 GCAAATTGGA
*
224295 AAAGACTTAATGCTGGGATTTAAGCTAAA-AACAAATTAACATCACGTGGAGCACGTTATGAAAG
1 AAAGGCTTAATGCTGGGATTTAAGC-AAACAACAAATTAACATCACGTGGAGCACGTTATGAAAG
* *
224359 GCTTAATGCTAGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCGG
65 GCTTAATGCTGGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCAG
* *
224414 AAAGGTTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGGGCACGTTATGAAAGG
1 AAAGGCTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCACGTTATGAAAGG
224479 CTTAATGCTGGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCAG
66 CTTAATGCTGGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCAG
* * **
224533 AAAGGTTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCATGTTACAAAAGG
1 AAAGGCTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCACGTTATGAAAGG
* * * *** * * *
224598 ATTAAGGCTGGACTTTACGCTAACTGTAAATTAACATCACAC--GGAGCACGTTACA-
66 CTTAATGCTGGACTTTAAGCTAACAACAAACT-A-ATGACACGTGGAGCAC-AT-CAG
* * * * * * *
224653 AAAGGCTTAAGGCT-GGACTTTAAGCTAACAACAAATAAATATCACGTGGAGCATGTCATGAAAA
1 AAAGGCTTAATGCTGGGA-TTTAAGCAAACAACAAATTAACATCACGTGGAGCACGTTATGAAAG
* * **
224717 GCTTAATGCTGGACTTTAAGCTAACAAGAAATTAACAACACGTGGAGCACATCAG
65 GCTTAATGCTGGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCAG
* * * * * **
224772 AAAAGCTTAATGCTGGGATTTAGGCTAAC-A-AAA-T--CAT---GTGGAGTACATTGCGAACA-
1 AAAGGCTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCACGTTATGAA-AG
* * * * * * *
224828 -CTTAATGCAGGGA-TTTAAACTAACAACAAATTAA-CATCACATGGAACTCATTGC-G
65 GCTTAATGC-TGGACTTTAAGCTAACAACAAACTAATGA-CACGTGGAGCACA-T-CAG
* * * * * * **
224883 AAAGGCTTAATGCTGGGATTTAAGCTAACAACAAACTAACATCACATGGAACTCGATGCGAAAGG
1 AAAGGCTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCACGTTATGAAAGG
224948 CTTAATGCTGGGA-TTTAAGCTAACAACAAA
66 CTTAATGCT-GGACTTTAAGCTAACAACAAA
224978 ATAACATCAC
Statistics
Matches: 474, Mismatches: 64, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
109 1 0.00
110 37 0.08
111 43 0.09
112 3 0.01
113 3 0.01
114 3 0.01
116 3 0.01
117 3 0.01
118 12 0.03
119 241 0.51
120 117 0.25
121 8 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (119 bp):
AAAGGCTTAATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGAGCACGTTATGAAAGG
CTTAATGCTGGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCAG
Found at i:224631 original size:179 final size:177
Alignment explanation
Indices: 224294--225045 Score: 571
Period size: 179 Copynumber: 4.2 Consensus size: 177
224284 AGCAAATTGG
* * * *
224294 AAAAGACTTAATGCTGGGA-TTTAAGCTAAAAACAAATTAACATCACGTGGAGCACGTTATGAAA
1 AAAAGGCTTAATGCT-GGACTTTAAGCTAACAACAAA-TAATATCACGTGGAGCACGTCATGAAA
* * * * *
224358 GGCTTAATGCTAGACTTTAAGCTAACAACAAACTAATGACACGTGGAGCACATCGGAAAGGTTTA
64 GGCTTAATGCTGGACTTTAAGCTAACAACAAATTAA-CACACGTGGAGCACATCGAAAAGGATTA
* ** * *
224423 ATGCTGGGATTTAAGCAAACAACAAATTAACATCACGTGGGGCACGTTAT
128 AGGCTGGGATTTAAGCAAACAACAAATTAACATCACACGGAGCACGTTAC
* *
224473 GAAAGGCTTAATGCTGGACTTTAAGCTAACAACAAACTAATGA-CACGTGGAGCACATCA-GAAA
1 AAAAGGCTTAATGCTGGACTTTAAGCTAACAACAAA-TAAT-ATCACGTGGAGCACGTCATGAAA
* * **
224536 GGTTTAATGCTGGGA-TTTAAGCAAACAACAAATTAACATCACGTGGAGCATGTTAC-AAAAGGA
64 GGCTTAATGCT-GGACTTTAAGCTAACAACAAATTAACA-CACGTGGAGCA-CAT-CGAAAAGGA
* * ***
224599 TTAAGGCT-GGACTTTACGCTAACTGTAAATTAACATCACACGGAGCACGTTAC
125 TTAAGGCTGGGA-TTTAAGCAAACAACAAATTAACATCACACGGAGCACGTTAC
* * *
224652 AAAAGGCTTAAGGCTGGACTTTAAGCTAACAACAAATAAATATCACGTGGAGCATGTCATGAAAA
1 AAAAGGCTTAATGCTGGACTTTAAGCTAACAACAAAT-AATATCACGTGGAGCACGTCATGAAAG
* *
224717 GCTTAATGCTGGACTTTAAGCTAACAAGAAATTAACAACACGTGGAGCACATCAGAAAA-GCTTA
65 GCTTAATGCTGGACTTTAAGCTAACAACAAATTAAC-ACACGTGGAGCACATC-GAAAAGGATTA
* * * ** * * *
224781 ATGCTGGGATTTAGGCTAAC-A-AAA-T--CAT---GTGGAGTACATTGC
128 AGGCTGGGATTTAAGCAAACAACAAATTAACATCACACGGAGCACGTTAC
* * * * *
224823 GAACA--CTTAATGCAGGGA-TTTAAACTAACAACAAATTAACATCACATGGA--AC-TCATTGC
1 -AAAAGGCTTAATGC-TGGACTTTAAGCTAACAACAAA-TAATATCACGTGGAGCACGTCA-T--
* * * *
224882 GAAAGGCTTAATGCTGGGA-TTTAAGCTAACAACAAACTAACATCACATGGAACTCGATGCG-AA
60 GAAAGGCTTAATGCT-GGACTTTAAGCTAACAACAAATTAACA-CACGTGGAGCAC-AT-CGAAA
* * * * * * * * *
224945 AGGCTTAATGCTGGGATTTAAGCTAACAACAAAATAACATCACATGGAACTCGATGC
121 AGGATTAAGGCTGGGATTTAAGCAAACAACAAATTAACATCACACGGAGCACGTTAC
* * **
225002 GAAAGGCTTATTGCTGGGTTTTAAGCTAACGAA-AAATTAATATC
1 AAAAGGCTTAATGCTGGACTTTAAGCTAAC-AACAAA-TAATATC
225046 TTGAGAGCAA
Statistics
Matches: 463, Mismatches: 72, Indels: 75
0.76 0.12 0.12
Matches are distributed among these distances:
167 3 0.01
168 2 0.00
169 1 0.00
170 80 0.17
171 43 0.09
172 5 0.01
173 3 0.01
174 4 0.01
176 4 0.01
177 4 0.01
178 55 0.12
179 176 0.38
180 80 0.17
181 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (177 bp):
AAAAGGCTTAATGCTGGACTTTAAGCTAACAACAAATAATATCACGTGGAGCACGTCATGAAAGG
CTTAATGCTGGACTTTAAGCTAACAACAAATTAACACACGTGGAGCACATCGAAAAGGATTAAGG
CTGGGATTTAAGCAAACAACAAATTAACATCACACGGAGCACGTTAC
Found at i:228092 original size:27 final size:27
Alignment explanation
Indices: 228038--228116 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
228028 AGGATTTGAA
* *
228038 AATTTCTTAAAAAGGTTCAAAATTTTGT
1 AATTCCTTAAAAAGGTTCAAAA-ATTGT
228066 AATTCCTTAAAAAGGTTCAAAAATTGT
1 AATTCCTTAAAAAGGTTCAAAAATTGT
228093 AATTCCTTAAAAAGGTTCAAAAAT
1 AATTCCTTAAAAAGGTTCAAAAAT
228117 ATTTTAAGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 28 0.57
28 21 0.43
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (27 bp):
AATTCCTTAAAAAGGTTCAAAAATTGT
Found at i:230787 original size:2 final size:2
Alignment explanation
Indices: 230782--230823 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
230772 CAATTGCTCA
230782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
230824 TTTAGATTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:235222 original size:59 final size:59
Alignment explanation
Indices: 235077--235194 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 59
235067 AAATTACACT
* * * *
235077 AATAGCCATCCAACTATTAGTAA--TT-TTTTTAGTCACTCAACTATAAAAAGTTACAA
1 AATAGTCATCCAACTATTTGTAAGTTTCTTTTTGGTCACCCAACTATAAAAAGTTACAA
* *
235133 AATAGTCATCCAACTATTTGTAAGTTTCTTTTTGGTCACCCAACTATGACAAGTTACAA
1 AATAGTCATCCAACTATTTGTAAGTTTCTTTTTGGTCACCCAACTATAAAAAGTTACAA
235192 AAT
1 AAT
235195 GATTATTCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 21 0.40
58 2 0.04
59 30 0.57
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (59 bp):
AATAGTCATCCAACTATTTGTAAGTTTCTTTTTGGTCACCCAACTATAAAAAGTTACAA
Found at i:237489 original size:6 final size:6
Alignment explanation
Indices: 237478--237506 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
237468 ACCTATTCCG
237478 ACCCCA ACCCCA ACCCCA ACCCCA ACCCC
1 ACCCCA ACCCCA ACCCCA ACCCCA ACCCC
237507 GACGAGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCCA
Found at i:248628 original size:35 final size:36
Alignment explanation
Indices: 248587--248664 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
248577 TTTACCTCTT
248587 TAATAAAAATAAAAA-AA-AATAAATTAATCTCTTT-
1 TAATAAAAA-AAAAAGAAGAATAAATTAATCTCTTTA
*
248621 TAAATAAAAAAAAAAGAAGGATAAATTAATCTCTTTA
1 T-AATAAAAAAAAAAGAAGAATAAATTAATCTCTTTA
248658 TAATAAA
1 TAATAAA
248665 TCAAAGAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
34 6 0.15
35 10 0.26
36 22 0.56
37 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (36 bp):
TAATAAAAAAAAAAGAAGAATAAATTAATCTCTTTA
Found at i:251055 original size:61 final size:62
Alignment explanation
Indices: 250955--251080 Score: 191
Period size: 61 Copynumber: 2.0 Consensus size: 62
250945 GCATCTAATA
** ** *
250955 AACTAGTTTACCAGACAGGAAGAAAGCCTGATTGGGTCATGTCGATAGAAATGGTAGAAGTG
1 AACTAGTTTACCAGACAGGAAGAAAGCCCAATTCAGTCATGTCGATAGAAATGGTAAAAGTG
*
251017 AACTAGTTTACC-GACAGGAAGAAAGCCCAATTCAGTCATGTTGATAGAAATGGTAAAAGTG
1 AACTAGTTTACCAGACAGGAAGAAAGCCCAATTCAGTCATGTCGATAGAAATGGTAAAAGTG
251078 AAC
1 AAC
251081 CAAGGGAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 46 0.79
62 12 0.21
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (62 bp):
AACTAGTTTACCAGACAGGAAGAAAGCCCAATTCAGTCATGTCGATAGAAATGGTAAAAGTG
Found at i:259711 original size:20 final size:21
Alignment explanation
Indices: 259673--259711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
259663 ATGAATGTTC
*
259673 AACCTTTCTCTCTTTATTTTT
1 AACCTTTCTATCTTTATTTTT
259694 AACCTTTCTATC-TTATTT
1 AACCTTTCTATCTTTATTT
259712 AACTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.59
Consensus pattern (21 bp):
AACCTTTCTATCTTTATTTTT
Found at i:259726 original size:17 final size:18
Alignment explanation
Indices: 259687--259733 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
259677 TTTCTCTCTT
*
259687 TATT-TTTAACCTTTCTA
1 TATTATTTAACTTTTCTA
*
259704 TCTTATTTAACTTTTC-A
1 TATTATTTAACTTTTCTA
259721 TATTATTGTAACT
1 TATTATT-TAACT
259734 ACTTTTTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.26, C:0.15, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATTTAACTTTTCTA
Found at i:265646 original size:214 final size:217
Alignment explanation
Indices: 265266--265703 Score: 677
Period size: 214 Copynumber: 2.0 Consensus size: 217
265256 GGGAAGATTT
*
265266 ATATCATGCAACTCTGTTATAGGGCTCAGATCGGAACATACATTGGAAAGTACGGGATTTCCTTA
1 ATATCATGCAACTCTGTTATAGGGCTCAGATC---ACATACATTGGAAACTACGGGATTTCCTTA
* *
265331 GAAGGGTTTATATGAACCTAGACTCTCACACCCTAATATCTAGCTTTTCGAGTATGGTTCTCCGA
63 GAAAGGTTTATATGAACCTAGACTCTCACACCCTAATATCTAGCATTTCGAGTATGGTTCTCCGA
* *
265396 AGATCCATATCAATTGGCATCAAAGCTTCACATCATAGGTGAAATCGGTATTGTAGCGTTGCAAA
128 AGATCCATATCAATTGGCATCAAAGCCTCACATCATAGGTGAAATCGGTATTGTAGCATTGCAAA
265461 CCTACACCACATAACATAGCTGGTG
193 CCTACACCACATAACATAGCTGGTG
*
265486 ATATCATGCAACTCTGTTATAGGGCTCGGATC-C-TACATTAGG-AACTACGGGATTTCCTTA-A
1 ATATCATGCAACTCTGTTATAGGGCTCAGATCACATACATT-GGAAACTACGGGATTTCCTTAGA
* * * * *
265547 AAGGTTTATATGGACCTAGTCTCTCTCGCCCTAATATCTAGCATTTCGGGTATGGTTCTCCGAAG
65 AAGGTTTATATGAACCTAGACTCTCACACCCTAATATCTAGCATTTCGAGTATGGTTCTCCGAAG
* * *
265612 ATCCATATCAATTGGTATCGAAGCCTCCCATCATAGGTGAAATCGGTATTGTAGCATTGCAAACC
130 ATCCATATCAATTGGCATCAAAGCCTCACATCATAGGTGAAATCGGTATTGTAGCATTGCAAACC
*
265677 TAGACCACATAACATAGCTGGTG
195 TACACCACATAACATAGCTGGTG
265700 ATAT
1 ATAT
265704 AGGTAATATA
Statistics
Matches: 202, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
214 145 0.72
215 23 0.11
216 3 0.01
220 31 0.15
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (217 bp):
ATATCATGCAACTCTGTTATAGGGCTCAGATCACATACATTGGAAACTACGGGATTTCCTTAGAA
AGGTTTATATGAACCTAGACTCTCACACCCTAATATCTAGCATTTCGAGTATGGTTCTCCGAAGA
TCCATATCAATTGGCATCAAAGCCTCACATCATAGGTGAAATCGGTATTGTAGCATTGCAAACCT
ACACCACATAACATAGCTGGTG
Found at i:266659 original size:31 final size:31
Alignment explanation
Indices: 266624--266685 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
266614 TTGGTCAATG
* *
266624 AACTATTTAAAAATTTTCATTTAAGTTACTA
1 AACTATATAAAAATTTTCATTTAAGTCACTA
*
266655 AACTATATGAAAATTTTCATTTAAGTCACTA
1 AACTATATAAAAATTTTCATTTAAGTCACTA
266686 GATTGTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (31 bp):
AACTATATAAAAATTTTCATTTAAGTCACTA
Found at i:273713 original size:17 final size:17
Alignment explanation
Indices: 273691--273724 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
273681 GAATGTAGAT
273691 AAATGAATTGCTAGACC
1 AAATGAATTGCTAGACC
273708 AAATGAATTGCTAGACC
1 AAATGAATTGCTAGACC
273725 TGTAAGGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
AAATGAATTGCTAGACC
Found at i:275256 original size:303 final size:297
Alignment explanation
Indices: 274394--275271 Score: 966
Period size: 303 Copynumber: 2.9 Consensus size: 297
274384 TATCAAAAAT
* * * *
274394 ATTTTCATAAGTAATCACACTTTTACTC-AAATAAATCAAATCAAATCATTCAAATACTCAGGAT
1 ATTTTCATAAGCAATCACAC-TTTACTCAAAATAAATCAATTCAAATCATTGAAATACACAGGAT
* * * * * * *
274458 CCATCATTGAACATGATAACTATAAGTATAAT-GATCCAGTCAAACTGTTTGATCAAAACTTCCA
65 CCATCATTGAAAACGATAACTAAAAGCACAATAGATACAGTCAAACTGTTTGACCAAAACTTCCA
* * * *
274522 GAATCTT-CTGTTCCTATCACTACAGTTAAACCCCTCTATGTTTAATTTAGATACAAATGTTCC-
130 GAATCTTCCT-TTCCTATCACTAC-CTTAAAACACTCTATGTTTAATTTAGATACAAATTTTCCG
* * * **
274585 TTCACTAAATCCTAAAAGAAGAAAAATATAAATTTC-TTCACTGGTTTGCTAAGAACAAATTAAT
193 TT-ACTAAATCCTAAAAGAAG-AAAACAGAAACTTCTTTCACTAATTTGCTAAGAACAAATTAAT
* * *
274649 CCAAAAATACTCTAGAAA-CCAAAAATGAAAAATCGAATATC
256 CCAAAAGTATTCTAGAAACCCAAAAAAGAAAAATCGAATATC
274690 ATTTTTCATAAGCAATCACACTTTACTCAAAATAAAT-AATTCAAATCATTGAAATACACAGGAT
1 A-TTTTCATAAGCAATCACACTTTACTCAAAATAAATCAATTCAAATCATTGAAATACACAGGAT
* * * *
274754 CCATCATTGAAAACGATAACTACAAGCACACACAATAAGGTACAGTCAAACTATTTGACCAAAAT
65 CCATCATTGAAAACGATAACTA-AA--A-GCACAAT-AGATACAGTCAAACTGTTTGACCAAAAC
* * * * * * * * *
274819 TTCCAGAATCTACTTTTCCTATCAATACCTCAAAA-ATTTTATGTTTGATTTAGCTACAAGTTTT
125 TTCCAGAATCTTCCTTTCCTATCACTACCTTAAAACACTCTATGTTTAATTTAGATACAA-ATTT
* ** * * ** * *
274883 TTCGTTACTAAATCCTAAAAGAAGGGAACAGGAACCT-TTTGGCTACTTTGCAAAGAACAAATTA
189 TCCGTTACTAAATCCTAAAAGAAGAAAACAGAAACTTCTTTCACTAATTTGCTAAGAACAAATT-
* *
274947 AATCCAAAAGCATTCCAGAAACCCAAAAAAAGAAAAATCGAATATC
253 AATCCAAAAGTATTCTAGAAACCC-AAAAAAGAAAAATCGAATATC
* *
274993 ATTTTCATAAGCAATCACACTTCACTCAAAATAAATCAATTCCAATCATTGAAATACACAGGATC
1 ATTTTCATAAGCAATCACACTTTACTCAAAATAAATCAATTCAAATCATTGAAATACACAGGATC
* * * *
275058 CATCATTGAAAACGATAATTAAAAGCACAATACGCTGCAGTCAAACTGTTCGACCAAAAACTTCC
66 CATCATTGAAAACGATAACTAAAAGCACAATA-GATACAGTCAAACTGTTTGACC-AAAACTTCC
* * * *
275123 AGAACCTTTTCCTTTCCAATCACTACCTTAAAAACACTCTATGTTTAACTTAGTTACAAATTTTC
129 AGAA--TCTTCCTTTCCTATCACTACCTT-AAAACACTCTATGTTTAATTTAGATACAAATTTTC
* * *
275188 CGTTATTAAAATCCTAAAAGAAGAAAACAGAAAGTTCTTTCACTAATTTGCTAAGAAC-AACTAA
191 CGTTACT-AAATCCTAAAAGAAGAAAACAGAAACTTCTTTCACTAATTTGCTAAGAACAAATTAA
275252 TCCAAAAGTATTCTAGAAAC
255 TCCAAAAGTATTCTAGAAAC
275272 TTCTACAAAT
Statistics
Matches: 477, Mismatches: 81, Indels: 41
0.80 0.14 0.07
Matches are distributed among these distances:
296 52 0.11
297 27 0.06
298 1 0.00
299 25 0.05
300 62 0.13
301 43 0.09
302 102 0.21
303 103 0.22
304 45 0.09
305 17 0.04
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (297 bp):
ATTTTCATAAGCAATCACACTTTACTCAAAATAAATCAATTCAAATCATTGAAATACACAGGATC
CATCATTGAAAACGATAACTAAAAGCACAATAGATACAGTCAAACTGTTTGACCAAAACTTCCAG
AATCTTCCTTTCCTATCACTACCTTAAAACACTCTATGTTTAATTTAGATACAAATTTTCCGTTA
CTAAATCCTAAAAGAAGAAAACAGAAACTTCTTTCACTAATTTGCTAAGAACAAATTAATCCAAA
AGTATTCTAGAAACCCAAAAAAGAAAAATCGAATATC
Found at i:277326 original size:63 final size:64
Alignment explanation
Indices: 277227--277347 Score: 192
Period size: 63 Copynumber: 1.9 Consensus size: 64
277217 ATAATAGAAA
* *
277227 GATTAAAACCATAATTTGACATTTTTCGTTTTAGGTACTTA-TATTTTCTATTACAAACTGAAG
1 GATTAAAACCACAATTTGACATTTTTCGTTTTAGGTACTTACTAATTTCTATTACAAACTGAAG
*
277290 GATTAAAACCACAATTTGAC-CTTTTCTGTTTTAGGTACTTACTAATTTCTATTACAAA
1 GATTAAAACCACAATTTGACATTTTTC-GTTTTAGGTACTTACTAATTTCTATTACAAA
277348 TTCCTAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
62 5 0.09
63 33 0.62
64 15 0.28
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (64 bp):
GATTAAAACCACAATTTGACATTTTTCGTTTTAGGTACTTACTAATTTCTATTACAAACTGAAG
Found at i:287711 original size:26 final size:26
Alignment explanation
Indices: 287682--287732 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
287672 AATTGATTTT
287682 CTCTATTTTTAATTTTTTAATAATTG
1 CTCTATTTTTAATTTTTTAATAATTG
287708 CTCTATTTTTAATTTTTTAATAATT
1 CTCTATTTTTAATTTTTTAATAATT
287733 TACTCAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (26 bp):
CTCTATTTTTAATTTTTTAATAATTG
Found at i:288477 original size:13 final size:13
Alignment explanation
Indices: 288444--288477 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
288434 AATTGGGGTG
288444 TATTTTAATAAAA
1 TATTTTAATAAAA
* *
288457 AATATTAATAAAA
1 TATTTTAATAAAA
288470 TATTTTAA
1 TATTTTAA
288478 GTTTCAAATT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTTTAATAAAA
Found at i:301596 original size:22 final size:23
Alignment explanation
Indices: 301566--301608 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
301556 ATATATAGTT
301566 TTTGTAAATAGTAATAATTTTAA
1 TTTGTAAATAGTAATAATTTTAA
* *
301589 TTTG-AAATATTATTAATTTT
1 TTTGTAAATAGTAATAATTTT
301609 GGCAAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
TTTGTAAATAGTAATAATTTTAA
Found at i:305761 original size:60 final size:60
Alignment explanation
Indices: 305688--305810 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
305678 GCTTTTACAG
* * * * * *
305688 TCTTAGGCCTCGAGTTTCTATGTGTGGTTCTTCTAAGTTTCTCCTTATTTGCTTTGCCAA
1 TCTTAGGACTCGAGTTTCTAGGTGTAGTTCTTCGAAGTTTCTCCTTATTTGCATAGCCAA
* * * * *
305748 TCTTAGGAGTCGAGTTTCTCGGTTTAGTTCTTGGAAGTTTCTTCTTATTTGCATAGCCAA
1 TCTTAGGACTCGAGTTTCTAGGTGTAGTTCTTCGAAGTTTCTCCTTATTTGCATAGCCAA
305808 TCT
1 TCT
305811 CAGGGTCACC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (60 bp):
TCTTAGGACTCGAGTTTCTAGGTGTAGTTCTTCGAAGTTTCTCCTTATTTGCATAGCCAA
Found at i:308226 original size:2 final size:2
Alignment explanation
Indices: 308219--308247 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
308209 ATTCAAAAAC
308219 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
308248 CCTTACAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:309216 original size:28 final size:27
Alignment explanation
Indices: 309180--309236 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
309170 AAAATTCATA
309180 TTTTAAATTAAAAATA-ATAAAATAATT
1 TTTTAAATTAAAAATACATAAAAT-ATT
*
309207 TTTTATAATTAAAATTACATAAAATATT
1 TTTTA-AATTAAAAATACATAAAATATT
309235 TT
1 TT
309237 ACAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 15 0.56
29 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTTAAATTAAAAATACATAAAATATT
Found at i:310543 original size:20 final size:20
Alignment explanation
Indices: 310518--310567 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
310508 TTTCTCAGAT
310518 TTGAAAAGATTAGAATAATA
1 TTGAAAAGATTAGAATAATA
* *
310538 TTGAAAAAAATTAGAGTAATA
1 TTG-AAAAGATTAGAATAATA
*
310559 TCGAAAAGA
1 TTGAAAAGA
310568 GTACTCCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (20 bp):
TTGAAAAGATTAGAATAATA
Found at i:314054 original size:28 final size:28
Alignment explanation
Indices: 314013--314098 Score: 111
Period size: 28 Copynumber: 3.0 Consensus size: 28
314003 AAACAATTAG
*
314013 AAAATTTAACTTTTAATTTTTTAAATAT
1 AAAATTTAAATTTTAATTTTTTAAATAT
* * *
314041 AAATTTTAAATTTTAAATTTTAAAATA-
1 AAAATTTAAATTTTAATTTTTTAAATAT
314068 AAAATTTAAATTTTAAATTTTTTAAAATAT
1 AAAATTTAAATTTT-AATTTTTT-AAATAT
314098 A
1 A
314099 TGAATTAACG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 13 0.27
28 29 0.60
29 5 0.10
30 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (28 bp):
AAAATTTAAATTTTAATTTTTTAAATAT
Found at i:314089 original size:8 final size:7
Alignment explanation
Indices: 314017--314088 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
314007 AATTAGAAAA
*
314017 TTTAACT
1 TTTAAAT
*
314024 TTTAATTT
1 TTTAA-AT
314032 TTTAAA-
1 TTTAAAT
*
314038 TATAAAT
1 TTTAAAT
314045 TTTAAAT
1 TTTAAAT
314052 TTTAAAT
1 TTTAAAT
314059 TTTAAA-
1 TTTAAAT
* * *
314065 ATAAAAA
1 TTTAAAT
314072 TTTAAAT
1 TTTAAAT
314079 TTTAAAT
1 TTTAAAT
314086 TTT
1 TTT
314089 TTAAAATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
6 9 0.17
7 38 0.72
8 6 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTAAAT
Found at i:314579 original size:59 final size:60
Alignment explanation
Indices: 314434--314590 Score: 167
Period size: 60 Copynumber: 2.6 Consensus size: 60
314424 TTTATATATT
* * ** * *
314434 AAAA-AATATTATATTAATGGAAGGTTATTAAATGACGGTATTATAAAGAAAAAAATAAA
1 AAAATAATATTATATTAGTGGAAGGTTATCAAATGACGACATCACAAAGAAAAAAATAAA
* * * * *
314493 AAAATAAAATTATATTAGT-AAAGGGTTATCAAATGGCGACATCACAAGGAAAAACAT-AA
1 AAAATAATATTATATTAGTGGAA-GGTTATCAAATGACGACATCACAAAGAAAAAAATAAA
* *
314552 AAAATAATATTATATTAGTGGAAGGTTAGCAAACGACGA
1 AAAATAATATTATATTAGTGGAAGGTTATCAAATGACGA
314591 TATTACAGGG
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
59 39 0.49
60 40 0.51
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.25
Consensus pattern (60 bp):
AAAATAATATTATATTAGTGGAAGGTTATCAAATGACGACATCACAAAGAAAAAAATAAA
Found at i:314603 original size:59 final size:60
Alignment explanation
Indices: 314434--314605 Score: 188
Period size: 59 Copynumber: 2.9 Consensus size: 60
314424 TTTATATATT
* * * * *
314434 AAAA-AATATTATATTAATGGAAGGTTATTAAATGACGGTATTATAAAGAAAAAAATAAA
1 AAAATAATATTATATTAGTGGAAGGTTATCAAATGACGATATTACAAGGAAAAAAATAAA
* * * * * *
314493 AAAATAAAATTATATTAGT-AAAGGGTTATCAAATGGCGACATCACAAGGAAAAACAT-AA
1 AAAATAATATTATATTAGTGGAA-GGTTATCAAATGACGATATTACAAGGAAAAAAATAAA
* * *
314552 AAAATAATATTATATTAGTGGAAGGTTAGCAAACGACGATATTACAGGGAAAAA
1 AAAATAATATTATATTAGTGGAAGGTTATCAAATGACGATATTACAAGGAAAAA
314606 TTATACAAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
59 51 0.56
60 40 0.44
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.25
Consensus pattern (60 bp):
AAAATAATATTATATTAGTGGAAGGTTATCAAATGACGATATTACAAGGAAAAAAATAAA
Found at i:314685 original size:55 final size:56
Alignment explanation
Indices: 314626--314764 Score: 159
Period size: 50 Copynumber: 2.6 Consensus size: 56
314616 TATACGAGAA
*
314626 ATTAAATAATAAATCAATTAAAAATAACTTAAAAAATTAAAT-AAC-AAATAAAAAT
1 ATTAAATAACAAATCAATTAAAAATAA-TTAAAAAATTAAATCAACTAAATAAAAAT
* * *
314681 ATTAAATGACAAATCAATT--AAA-AATT---AAATTTACTCAACTAAATAAAAAT
1 ATTAAATAACAAATCAATTAAAAATAATTAAAAAATTAAATCAACTAAATAAAAAT
314731 ATTAAATAACAAATCAATTAAAAATTAAATTAAA
1 ATTAAATAACAAATCAATTAAAAA-T-AATTAAA
314765 CAAAACAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
48 7 0.10
49 3 0.04
50 28 0.41
51 2 0.03
52 5 0.07
53 3 0.04
55 21 0.30
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (56 bp):
ATTAAATAACAAATCAATTAAAAATAATTAAAAAATTAAATCAACTAAATAAAAAT
Found at i:314702 original size:25 final size:25
Alignment explanation
Indices: 314674--314755 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
314664 AAATAACAAA
*
314674 TAAAAATATTAAATGACAAATCAAT
1 TAAAAATATTAAATAACAAATCAAT
* * *
314699 T-AAAA-ATTAAATTTACTCAA-CTAAA
1 TAAAAATATTAAA-TAAC-AAATC-AAT
314724 TAAAAATATTAAATAACAAATCAAT
1 TAAAAATATTAAATAACAAATCAAT
314749 TAAAAAT
1 TAAAAAT
314756 TAAATTAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 6 0.13
24 8 0.18
25 17 0.38
26 8 0.18
27 6 0.13
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.29
Consensus pattern (25 bp):
TAAAAATATTAAATAACAAATCAAT
Found at i:314766 original size:25 final size:25
Alignment explanation
Indices: 314689--314768 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 25
314679 ATATTAAATG
*
314689 ACAAATCAATTAAAAATTAAATTTAC
1 ACAAATCAATTAAAAATTAAA-TTAA
* * * *
314715 TCAACTAAATAAAAATATTAAA-T-A
1 ACAAATCAATTAAAA-ATTAAATTAA
314739 ACAAATCAATTAAAAATTAAATTAA
1 ACAAATCAATTAAAAATTAAATTAA
314764 ACAAA
1 ACAAA
314769 ACAAATAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
23 6 0.14
24 12 0.29
25 7 0.17
26 11 0.26
27 6 0.14
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (25 bp):
ACAAATCAATTAAAAATTAAATTAA
Found at i:314774 original size:30 final size:32
Alignment explanation
Indices: 314738--314802 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
314728 AATATTAAAT
*
314738 AACAAATCAA-TTAAAA-ATTAAAT-TAAACAA
1 AACAAAT-AACTTAAAACAATAAATATAAACAA
314768 AACAAATAACTTAAAACAATAAATACTAAACAA
1 AACAAATAACTTAAAACAATAAATA-TAAACAA
314801 AA
1 AA
314803 TATAACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.07
30 13 0.43
31 6 0.20
33 9 0.30
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (32 bp):
AACAAATAACTTAAAACAATAAATATAAACAA
Found at i:314775 original size:50 final size:49
Alignment explanation
Indices: 314659--314776 Score: 166
Period size: 50 Copynumber: 2.4 Consensus size: 49
314649 ATAACTTAAA
* *
314659 AAATTAA-ATAACAAATAAAAATATTAAATGACAAATCAATTAAAAATT
1 AAATTAACAAAACAAATAAAAATATTAAATAACAAATCAATTAAAAATT
* **
314707 AAATTTACTCAACTAAATAAAAATATTAAATAACAAATCAATTAAAAATT
1 AAATTAACAAAAC-AAATAAAAATATTAAATAACAAATCAATTAAAAATT
314757 AAATTAAACAAAACAAATAA
1 AAATT-AACAAAACAAATAA
314777 CTTAAAACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
48 6 0.10
49 3 0.05
50 46 0.77
51 5 0.08
ACGTcount: A:0.64, C:0.08, G:0.01, T:0.26
Consensus pattern (49 bp):
AAATTAACAAAACAAATAAAAATATTAAATAACAAATCAATTAAAAATT
Found at i:348460 original size:30 final size:28
Alignment explanation
Indices: 348407--348504 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 28
348397 GTTTTTAAGA
* *
348407 GATCCAAAAAAATTTTCAGCTTTTATGG
1 GATCCAAAAAAATTTCCAACTTTTATGG
*
348435 GATCCAAAAAAAATTTACCAACTTTTAAGG
1 GATCC-AAAAAAATTT-CCAACTTTTATGG
* ** *
348465 GGTTTAAAAAAATTTTCTCTAACTTTTAAGG
1 GATCCAAAAAAA-TTTC-C-AACTTTTATGG
*
348496 AATCCAAAA
1 GATCCAAAA
348505 CTCCAATTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
28 5 0.09
29 18 0.33
30 16 0.29
31 16 0.29
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (28 bp):
GATCCAAAAAAATTTCCAACTTTTATGG
Found at i:350119 original size:7 final size:6
Alignment explanation
Indices: 350102--350171 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
350092 TCTTTGTATC
* * *
350102 TCTTTT TCTTTT TCCTTT TCTTTT CTCTCCTTT TCTTCT T-TATT TC-TTT
1 TCTTTT TCTTTT TCTTTT TCTTTT -TCT--TTT TCTTTT TCTTTT TCTTTT
350151 TCTTTT TCTTTAT TCTTTT TC
1 TCTTTT TCTTT-T TCTTTT TC
350172 CTACATTGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 7 0.13
6 30 0.58
7 9 0.17
8 3 0.06
9 3 0.06
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:350170 original size:19 final size:18
Alignment explanation
Indices: 350102--350171 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
350092 TCTTTGTATC
*
350102 TCTTTTTCTTTTTCCTTT
1 TCTTTTTCTTTTTCTTTT
*
350120 TCTTTTCTCTCCTTTTCTTCT
1 TCTTTT-TCT--TTTTCTTTT
*
350141 T-TATTTC-TTTTCTTTT
1 TCTTTTTCTTTTTCTTTT
350157 TCTTTATTCTTTTTC
1 TCTTT-TTCTTTTTC
350172 CTACATTGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
16 9 0.22
17 2 0.05
18 9 0.22
19 10 0.24
20 3 0.07
21 8 0.20
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (18 bp):
TCTTTTTCTTTTTCTTTT
Found at i:352329 original size:16 final size:17
Alignment explanation
Indices: 352297--352330 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
352287 TCTTTTTTAG
*
352297 AATAATTATGTTTCAAA
1 AATAATTATGATTCAAA
352314 AATAATTAT-ATTCAAA
1 AATAATTATGATTCAAA
352330 A
1 A
352331 CAATTGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
AATAATTATGATTCAAA
Found at i:353365 original size:19 final size:21
Alignment explanation
Indices: 353327--353365 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
353317 TTTATGTTTA
353327 TATATTGAATACAAAAATAAT
1 TATATTGAATACAAAAATAAT
*
353348 TATATT-AAT-CAAATATAA
1 TATATTGAATACAAAAATAA
353366 AAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (21 bp):
TATATTGAATACAAAAATAAT
Found at i:355186 original size:16 final size:17
Alignment explanation
Indices: 355155--355188 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
355145 TAACTGGTTT
355155 TTCCCCAGTCCAACCAG
1 TTCCCCAGTCCAACCAG
*
355172 TTCCCGAGT-CAACCAG
1 TTCCCCAGTCCAACCAG
355188 T
1 T
355189 CCAATGCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.21
Consensus pattern (17 bp):
TTCCCCAGTCCAACCAG
Found at i:357138 original size:16 final size:17
Alignment explanation
Indices: 357117--357152 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
357107 ACAATAAAGC
357117 ATGTATAAAA-ATTAAA
1 ATGTATAAAATATTAAA
357133 ATGTATAAAATTATTAAA
1 ATGTATAAAA-TATTAAA
357151 AT
1 AT
357153 AAAATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATGTATAAAATATTAAA
Found at i:370139 original size:12 final size:14
Alignment explanation
Indices: 370120--370154 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
370110 GCCGCAGGCC
370120 CGCAAAAAT-AAAA
1 CGCAAAAATAAAAA
370133 C-CAAAAATAAAAA
1 CGCAAAAATAAAAA
370146 CGCAAAAAT
1 CGCAAAAAT
370155 TGAGCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 6 0.30
14 7 0.35
ACGTcount: A:0.69, C:0.17, G:0.06, T:0.09
Consensus pattern (14 bp):
CGCAAAAATAAAAA
Found at i:370252 original size:24 final size:24
Alignment explanation
Indices: 370220--370265 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
370210 TCATTCAATC
*
370220 GAAGGGCGA-GAGAGAAGGAGAAAA
1 GAAGAGCGATGAGAG-AGGAGAAAA
*
370244 GAAGAGCGATGGGAGAGGAGAA
1 GAAGAGCGATGAGAGAGGAGAA
370266 GCGACACGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.46, C:0.04, G:0.48, T:0.02
Consensus pattern (24 bp):
GAAGAGCGATGAGAGAGGAGAAAA
Done.