Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1703488
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:802131 original size:22 final size:22
Alignment explanation
Indices: 802106--802149 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
802096 TCATAAAGAA
802106 AGAAATAATTTGCCGGTATGGC
1 AGAAATAATTTGCCGGTATGGC
802128 AGAAATAATTTGCCGGTATGGC
1 AGAAATAATTTGCCGGTATGGC
802150 CTACCAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (22 bp):
AGAAATAATTTGCCGGTATGGC
Found at i:802866 original size:16 final size:17
Alignment explanation
Indices: 802843--802887 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
802833 GAAAAAAATG
802843 AAAT-AAAGAGAA-AAGA
1 AAATAAAAGA-AAGAAGA
802859 AAA-AAAAGAAAGAAGA
1 AAATAAAAGAAAGAAGA
802875 AAATAAAA-AAAGA
1 AAATAAAAGAAAGA
802888 GGGTCAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 20 0.77
17 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (17 bp):
AAATAAAAGAAAGAAGA
Found at i:803264 original size:19 final size:19
Alignment explanation
Indices: 803216--803293 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 19
803206 ATTTATTAAT
803216 AAATTCTAAGTTTATTTTCTCT-
1 AAATTC-AA-TTTATTTT-T-TG
803238 AAATTCAATTTATTTTTTG
1 AAATTCAATTTATTTTTTG
* *
803257 AGATTCAATTTA-TTTTCG
1 AAATTCAATTTATTTTTTG
803275 AAATTCAATTTATTCTTTT
1 AAATTCAATTTATT-TTTT
803294 ATTTTGTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 17 0.35
19 13 0.27
20 11 0.22
21 2 0.04
22 6 0.12
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTCAATTTATTTTTTG
Found at i:804637 original size:113 final size:113
Alignment explanation
Indices: 804440--804883 Score: 617
Period size: 113 Copynumber: 3.9 Consensus size: 113
804430 GATTCAAATC
* *
804440 CATCATTCAATGGATCAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
804504 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* *
804552 CATCATTCGATGGATCAACATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
1 CATCATTCGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
804617 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * ** * *
804665 CATCACTC-AGTGGATCAGCAGTGCCAATTAGAGCTCATAATGAGAAGAACTCATCTGAAGAAGA
1 CATCATTCGA-TGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * * *
804729 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTAAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* *
804778 CATCACTT-GATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 CATCA-TTCGATGGATCAACATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* * *
804841 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCGACCTTTTGC
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
804884 ATGACTCTAT
Statistics
Matches: 288, Mismatches: 39, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
112 26 0.09
113 260 0.90
114 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCATTCGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
Found at i:805272 original size:3 final size:3
Alignment explanation
Indices: 805221--805259 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
805211 TTTATTTGAA
805221 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
805260 ATAAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:809263 original size:161 final size:160
Alignment explanation
Indices: 809091--809422 Score: 594
Period size: 161 Copynumber: 2.1 Consensus size: 160
809081 AATAAAATCA
809091 AAATTTATTTGAAAATTATTAACCGAACCAAATCCACCAATTTTTTTCTTTAAAATTAATCGAAC
1 AAATTTATTTGAAAATTATTAACCGAACCAAATCCACCAATTTTTTTCTTTAAAATTAATCGAAC
809156 CGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAC
66 CGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAC
*
809221 CGATTTTTTTTATTTAACATTAATCGAACTG
131 CGA-TTTTTTTATTTAACATTAATCGAACCG
** *
809252 AAATTTATTTGAAAATTATTAACCGAACCAAATCCACTGATTTTTTTCTTTAACATTAATCGAAC
1 AAATTTATTTGAAAATTATTAACCGAACCAAATCCACCAATTTTTTTCTTTAAAATTAATCGAAC
*
809317 CGAAATTATTTGATCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAC
66 CGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAC
*
809382 CGATTTTTTTCTTTAACATTAATCGAACCG
131 CGATTTTTTTATTTAACATTAATCGAACCG
809412 AAA-TTATTTGA
1 AAATTTATTTGA
809423 CCGTTAATTG
Statistics
Matches: 165, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
159 8 0.05
160 28 0.17
161 129 0.78
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (160 bp):
AAATTTATTTGAAAATTATTAACCGAACCAAATCCACCAATTTTTTTCTTTAAAATTAATCGAAC
CGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAC
CGATTTTTTTATTTAACATTAATCGAACCG
Found at i:809278 original size:93 final size:93
Alignment explanation
Indices: 809091--809269 Score: 268
Period size: 93 Copynumber: 1.9 Consensus size: 93
809081 AATAAAATCA
* *
809091 AAATTTATTTGAAAATTATTAACCGAACCAAATCCACCAATTTTTTTCTTTAAAATTAATCGAAC
1 AAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTTATTTAAAATTAATCGAAC
***
809156 CGAAATTATTTGACCGTTAATCGAACCG
66 CGAAATTATTTGAAAATTAATCGAACCG
* *
809184 AAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTATTTAACATTAATCGAA
1 AAATTTATTTGAAAATTATTAACCGAACCAAATCAACC-AATTTTTTTATTTAAAATTAATCGAA
*
809249 CTGAAATTTATTTGAAAATTA
65 CCGAAA-TTATTTGAAAATTA
809270 TTAACCGAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
93 37 0.49
94 28 0.37
95 11 0.14
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (93 bp):
AAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTTATTTAAAATTAATCGAAC
CGAAATTATTTGAAAATTAATCGAACCG
Found at i:809342 original size:93 final size:93
Alignment explanation
Indices: 809240--809799 Score: 935
Period size: 93 Copynumber: 6.0 Consensus size: 93
809230 TTATTTAACA
* * *
809240 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATCCACTGATTTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
*
809305 CATTAATCGAACCGAAATTATTTGATCG
66 CATTAATCGAACCGAAATTATTTGACCG
809333 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
809398 CATTAATCGAACCGAAATTATTTGACCG
66 CATTAATCGAACCGAAATTATTTGACCG
* * * * *
809426 TTAATTGAACTGAAATTTATTTAAAAATTATTAACCGAACC-AATCCACCAATTTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGA-TTTTTTTCTTTA
*
809490 ACATTAATCGAACCGAAATTATTTGACTG
65 ACATTAATCGAACCGAAATTATTTGACCG
*
809519 TTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGA-TTTTTTTCTTTA
*
809584 ACATTAATCAAACCGAAATTATTTGACCG
65 ACATTAATCGAACCGAAATTATTTGACCG
* * *
809613 TTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAACCAAATCAACC-AATTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
*
809677 CATTAATCGAACCGAAATTATTTGATCG
66 CATTAATCGAACCGAAATTATTTGACCG
*
809705 TTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
809770 CATTAATCGAACCGAAATTATTTGACCG
66 CATTAATCGAACCGAAATTATTTGACCG
809798 TT
1 TT
809800 TAATTTCGGT
Statistics
Matches: 437, Mismatches: 27, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
92 95 0.22
93 247 0.57
94 95 0.22
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (93 bp):
TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
CATTAATCGAACCGAAATTATTTGACCG
Found at i:809346 original size:68 final size:68
Alignment explanation
Indices: 809172--809329 Score: 266
Period size: 68 Copynumber: 2.4 Consensus size: 68
809162 TATTTGACCG
809172 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTATTTA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTATTTA
809237 ACA
66 ACA
* * * *
809240 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATCCACTGA-TTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTATTTA
809304 ACA
66 ACA
809307 TTAATCGAACCGAAA-TTATTTGA
1 TTAATCGAACCGAAATTTATTTGA
809330 TCGTTAATCG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
66 8 0.09
67 28 0.33
68 49 0.58
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (68 bp):
TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTATTTA
ACA
Found at i:810302 original size:30 final size:30
Alignment explanation
Indices: 810266--810322 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
810256 AGAATATATA
810266 AATATTAAGGACCAAATGTATAATTATTCC
1 AATATTAAGGACCAAATGTATAATTATTCC
*
810296 AATATTAATGACCAAATGTATAATTAT
1 AATATTAAGGACCAAATGTATAATTAT
810323 GCCATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (30 bp):
AATATTAAGGACCAAATGTATAATTATTCC
Found at i:810411 original size:21 final size:21
Alignment explanation
Indices: 810387--810458 Score: 51
Period size: 21 Copynumber: 3.3 Consensus size: 21
810377 TGATTGAATT
810387 AATTAAAAAGTTTAATGATCG
1 AATTAAAAAGTTTAATGATCG
**
810408 AATTGAGATAAA-AATAAT--TCAG
1 AATT-A-A-AAAGTTTAATGATC-G
810430 TAAATTAAAAAGTTTAATGATCG
1 -AA-TTAAAAAGTTTAATGATCG
810453 AATTAA
1 AATTAA
810459 GATAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 13 0.34
22 9 0.24
23 9 0.24
24 7 0.18
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.32
Consensus pattern (21 bp):
AATTAAAAAGTTTAATGATCG
Found at i:810451 original size:45 final size:46
Alignment explanation
Indices: 810387--810474 Score: 160
Period size: 45 Copynumber: 1.9 Consensus size: 46
810377 TGATTGAATT
*
810387 AATTAAAAAGTTTAATGATCGAATTGAGAT-AAAAATAATTCAGTA
1 AATTAAAAAGTTTAATGATCGAATTAAGATAAAAAATAATTCAGTA
810432 AATTAAAAAGTTTAATGATCGAATTAAGATAAAAAATAATTCA
1 AATTAAAAAGTTTAATGATCGAATTAAGATAAAAAATAATTCA
810475 ATGACAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
45 29 0.71
46 12 0.29
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.31
Consensus pattern (46 bp):
AATTAAAAAGTTTAATGATCGAATTAAGATAAAAAATAATTCAGTA
Found at i:812184 original size:33 final size:33
Alignment explanation
Indices: 812147--812213 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
812137 AAAAAATCAC
812147 ACATAAATTCAATCTATTATATATATATAAACA
1 ACATAAATTCAATCTATTATATATATATAAACA
*
812180 ACATAAATTCAATCTATTCTATATATATAAACA
1 ACATAAATTCAATCTATTATATATATATAAACA
812213 A
1 A
812214 TGCATAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (33 bp):
ACATAAATTCAATCTATTATATATATATAAACA
Found at i:815365 original size:85 final size:85
Alignment explanation
Indices: 815222--815391 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
815212 CAGCATTAAA
815222 AAAATCTTTTTTAGGATGCATGTGTATGCTTATATTTACTATTTAAGATATATTACTATGCTTTT
1 AAAATCTTTTTTAGGATGCATGTGTATGCTTATATTTACTATTTAAGATATATTACTATGCTTTT
815287 ATTTATTATTTAAGGTGTGT
66 ATTTATTATTTAAGGTGTGT
815307 AAAATCTTTTTTAGGATGCATGTGTATGCTTATATTTACTATTTAAGATATATTACTATGCTTTT
1 AAAATCTTTTTTAGGATGCATGTGTATGCTTATATTTACTATTTAAGATATATTACTATGCTTTT
815372 ATTTATTATTTAAGGTGTGT
66 ATTTATTATTTAAGGTGTGT
815392 GACAGATGTG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (85 bp):
AAAATCTTTTTTAGGATGCATGTGTATGCTTATATTTACTATTTAAGATATATTACTATGCTTTT
ATTTATTATTTAAGGTGTGT
Found at i:816528 original size:83 final size:83
Alignment explanation
Indices: 816387--816686 Score: 312
Period size: 83 Copynumber: 3.6 Consensus size: 83
816377 TACCGACAAG
* *
816387 GAAAGG-GCGTTCCAGGGGGATGCATTTTTCCATTATTATTCAGAGAATCGT-TGGATTATAATA
1 GAAAGGCGCGTTCTA-GGGGAAGCA-TTTTCCATTATTATTCAGAGAATC-TCTGGATTATAATA
816450 GTGATCCATCCCATCCAAAAT
63 GTGATCCATCCCATCCAAAAT
* *
816471 AAAAGGTGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGGATTATAATAGTG
1 GAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGGATTATAATAGTG
*
816536 ATACATCCCATCCAAAAT
66 ATCCATCCCATCCAAAAT
* * * * *
816554 GAAAGGCACGCTTC--GGGAGAAG-TTTTTTCATTATTATTCAGAGAATCTCTGCCATGTGACAA
1 GAAAGGCGCG-TTCTAGGG-GAAGCATTTTCCATTATTATTCAGAGAATCTCTG-GAT-T-ATAA
*
816616 TA-T--TCCATCCCATCCGAAAT
61 TAGTGATCCATCCCATCCAAAAT
* * * * *
816636 GAAAGACGTGTT-TCGGGGAAATCATTTTCCATTATTGTTCAGAGAATCTCT
1 GAAAGGCGCGTTCTAGGGG-AAGCATTTTCCATTATTATTCAGAGAATCTCT
816687 TGTAACATCC
Statistics
Matches: 185, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
81 3 0.02
82 58 0.31
83 94 0.51
84 18 0.10
85 12 0.06
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (83 bp):
GAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGGATTATAATAGTG
ATCCATCCCATCCAAAAT
Found at i:818336 original size:23 final size:24
Alignment explanation
Indices: 818286--818337 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
818276 CTGCATAGTC
*
818286 CTTTGGGACAATACTATGTGGTCA
1 CTTTGGGACAATACTATGAGGTCA
* *
818310 -TTTGGGACATTTCTATGAGG-CA
1 CTTTGGGACAATACTATGAGGTCA
818332 CTTTGG
1 CTTTGG
818338 TGTAATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (24 bp):
CTTTGGGACAATACTATGAGGTCA
Found at i:818355 original size:24 final size:24
Alignment explanation
Indices: 818318--818369 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
818308 CATTTGGGAC
* * *
818318 ATTTCTATGAGGCACTTTGGTGTA
1 ATTTCTACGAGGCACTTCGGTGCA
*
818342 ATTTCTACGCGGCACTTCGGTGCA
1 ATTTCTACGAGGCACTTCGGTGCA
818366 ATTT
1 ATTT
818370 ATTCGAGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (24 bp):
ATTTCTACGAGGCACTTCGGTGCA
Found at i:819936 original size:55 final size:55
Alignment explanation
Indices: 819865--820148 Score: 313
Period size: 55 Copynumber: 5.2 Consensus size: 55
819855 TACACAATTA
* * * * * *
819865 GTGCATGTACGGTGATTTATCAACTCATGATGAATTCTGTGAATATGCACACGAA-
1 GTGCCTGTACGATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACAC-AAG
*
819920 GTGCCTGTATGATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAG
1 GTGCCTGTACGATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAG
* * * * *
819975 GTGTCTGTACGGTGATTCATCAACACATGATGAACTCCGTGGATTTGCACATAAG
1 GTGCCTGTACGATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAG
* ** * * *
820030 GTGCATGTACGGCGATTCATTAACTCATGATGAATTCCATGGATTTTCACACAAG
1 GTGCCTGTACGATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAG
* * * * *
820085 GTGCCTATAC-AGCGATTCATCATCTCATGATGAATTTCGTGGATATGCACACGAA-
1 GTGCCTGTACGA-TGATTCATCAACTCATGATGAATTCCGTGGATTTGCACAC-AAG
820140 GTGCCTGTA
1 GTGCCTGTA
820149 GTACACACAG
Statistics
Matches: 194, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
54 2 0.01
55 190 0.98
56 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (55 bp):
GTGCCTGTACGATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAG
Found at i:820063 original size:110 final size:110
Alignment explanation
Indices: 819865--820148 Score: 354
Period size: 110 Copynumber: 2.6 Consensus size: 110
819855 TACACAATTA
* * * * * *
819865 GTGCATGTACGGTGATTTATCAACTCATGATGAATTCTGTGAATATGCACACGAAGTGCCTGTAT
1 GTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCATGTAC
* *
819930 GATGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAG
66 GACGATTCATCAACTCATGATGAATTCCATGGATTTGCACACAAG
* * * * *
819975 GTGTCTGTACGGTGATTCATCAACACATGATGAACTCCGTGGATTTGCACA-TAAGGTGCATGTA
1 GTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAA-GTGCATGTA
* * *
820039 CGGCGATTCATTAACTCATGATGAATTCCATGGATTTTCACACAAG
65 CGACGATTCATCAACTCATGATGAATTCCATGGATTTGCACACAAG
* * * * * *
820085 GTGCCTATACAGCGATTCATCATCTCATGATGAATTTCGTGGATATGCACACGAAGTGCCTGTA
1 GTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCATGTA
820149 GTACACACAG
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
109 2 0.01
110 141 0.97
111 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (110 bp):
GTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCATGTAC
GACGATTCATCAACTCATGATGAATTCCATGGATTTGCACACAAG
Found at i:824226 original size:55 final size:54
Alignment explanation
Indices: 824160--824455 Score: 330
Period size: 55 Copynumber: 5.4 Consensus size: 54
824150 ATATAAGGAA
* *
824160 ATTCATCAACTCATGATGAATTATGTGAGTTACACACATA-GTGCCATGTACGGTG
1 ATTCATCAACTCATGATGAATTATGTGATTTGCACACA-AGGTGCC-TGTACGGTG
* * *
824215 ATTCATCAACTCATGATGAATTCTGTGAATATGCACACGAA-ATGCCTGTACGGTG
1 ATTCATCAACTCATGATGAATTATGTG-ATTTGCACAC-AAGGTGCCTGTACGGTG
*
824270 ATTCATCAACTCATGATGAATT-TCGTGGATTTGTACACAAGGTGCCTGTACGGTG
1 ATTCATCAACTCATGATGAATTAT-GT-GATTTGCACACAAGGTGCCTGTACGGTG
** * * ** *
824325 ATTCATCAACTCATGATGAATTCCGTGGATTTTCACATAAGGTGTATGTACGATG
1 ATTCATCAACTCATGATGAATTATGT-GATTTGCACACAAGGTGCCTGTACGGTG
* * *
824380 ATTCATCAACTCATGATGAATTCCATG-AATTTGCTCACAAGGTGCCTGTACGGCG
1 ATTCATCAACTCATGATGAATT--ATGTGATTTGCACACAAGGTGCCTGTACGGTG
*
824435 ATTCATCATCTCATGATGAAT
1 ATTCATCAACTCATGATGAAT
824456 ATGCACACGA
Statistics
Matches: 207, Mismatches: 26, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
54 3 0.01
55 189 0.91
56 13 0.06
57 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATTATGTGATTTGCACACAAGGTGCCTGTACGGTG
Found at i:827805 original size:15 final size:15
Alignment explanation
Indices: 827782--827812 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
827772 ATTGCTCATG
*
827782 TAGGTGTCTAAATTT
1 TAGGCGTCTAAATTT
827797 TAGGCGTCTAAATTT
1 TAGGCGTCTAAATTT
827812 T
1 T
827813 TTTTTGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (15 bp):
TAGGCGTCTAAATTT
Found at i:830484 original size:18 final size:19
Alignment explanation
Indices: 830447--830484 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
830437 TCTTAAACTT
* *
830447 TCTATTATTTTATTATAAA
1 TCTAATATTTTATAATAAA
830466 TCTAATATTTT-TAATAAA
1 TCTAATATTTTATAATAAA
830484 T
1 T
830485 TATCAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTAATATTTTATAATAAA
Found at i:830613 original size:31 final size:32
Alignment explanation
Indices: 830578--830638 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
830568 GTTTTTCAGG
830578 TCGGGTTAAATCTGGTTC-GGTTGCTTTCGCA
1 TCGGGTTAAATCTGGTTCGGGTTGCTTTCGCA
* *
830609 TCGGGTTAAATTTGGTTCGGGTTTCTTTCG
1 TCGGGTTAAATCTGGTTCGGGTTGCTTTCG
830639 ATTTGGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.11, C:0.16, G:0.30, T:0.43
Consensus pattern (32 bp):
TCGGGTTAAATCTGGTTCGGGTTGCTTTCGCA
Found at i:830647 original size:32 final size:32
Alignment explanation
Indices: 830578--830668 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
830568 GTTTTTCAGG
*
830578 TCGGGTTAAATCTGGTTC-GGTTGCTTTCGCA
1 TCGGGTTAAATTTGGTTCGGGTTGCTTTCGCA
*
830609 TCGGGTTAAATTTGGTTCGGGTTTCTTTCG-A
1 TCGGGTTAAATTTGGTTCGGGTTGCTTTCGCA
* * * *
830640 TTTGGGTTAATTTTAGTACGGGTTGCTTT
1 -TCGGGTTAAATTTGGTTCGGGTTGCTTT
830669 TGGTTAGGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 18 0.35
32 33 0.65
ACGTcount: A:0.13, C:0.13, G:0.29, T:0.45
Consensus pattern (32 bp):
TCGGGTTAAATTTGGTTCGGGTTGCTTTCGCA
Found at i:830652 original size:31 final size:32
Alignment explanation
Indices: 830580--830681 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
830570 TTTTCAGGTC
* *
830580 GGGTTAAATCTGGTTC-GGTTGCTTTCGCA-TC
1 GGGTTAAATTTGGTTCGGGTTGCTTTCG-ATTA
* *
830611 GGGTTAAATTTGGTTCGGGTTTCTTTCGATTT
1 GGGTTAAATTTGGTTCGGGTTGCTTTCGATTA
* * * * *
830643 GGGTTAATTTTAGTACGGGTTGCTTTTGGTTA
1 GGGTTAAATTTGGTTCGGGTTGCTTTCGATTA
830675 GGGTTAA
1 GGGTTAA
830682 TTTCGATTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 16 0.27
32 43 0.73
ACGTcount: A:0.15, C:0.11, G:0.30, T:0.44
Consensus pattern (32 bp):
GGGTTAAATTTGGTTCGGGTTGCTTTCGATTA
Found at i:831229 original size:12 final size:13
Alignment explanation
Indices: 831212--831250 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
831202 TTATTAAAAA
831212 AATATTT-ATTAT
1 AATATTTAATTAT
831224 AATATTTAAATTAT
1 AATATTT-AATTAT
*
831238 AATATTAAATTAT
1 AATATTTAATTAT
831251 TTTAGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 6 0.25
14 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATATTTAATTAT
Found at i:831247 original size:13 final size:14
Alignment explanation
Indices: 831219--831250 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
831209 AAAAATATTT
831219 ATTATAATATTTAA
1 ATTATAATATTTAA
831233 ATTATAATA-TTAA
1 ATTATAATATTTAA
831246 ATTAT
1 ATTAT
831251 TTTAGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATAATATTTAA
Found at i:831292 original size:25 final size:24
Alignment explanation
Indices: 831228--831292 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
831218 TATTATAATA
* *
831228 TTTAAAT-TATAATATTAAATTAT
1 TTTAAATATTTAATAATAAATTAT
* *
831251 TTTAGAA-AATTATTAATAAATATAT
1 TTTA-AATATTTAATAATAAAT-TAT
831276 TTTAAATATTTAATAAT
1 TTTAAATATTTAATAAT
831293 TTAATAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
23 4 0.12
24 13 0.41
25 15 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTAAATATTTAATAATAAATTAT
Found at i:831430 original size:17 final size:17
Alignment explanation
Indices: 831408--831446 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
831398 TTTAATATAT
831408 TATTATAACATTAAAAA
1 TATTATAACATTAAAAA
** *
831425 TATTATATTATTAAAAT
1 TATTATAACATTAAAAA
831442 TATTA
1 TATTA
831447 ATAAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATAACATTAAAAA
Found at i:831449 original size:23 final size:23
Alignment explanation
Indices: 831378--831449 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
831368 AATGTAATAC
*
831378 ATTATATTATTATAATATAATTTAAT
1 ATTATATTATTA-AA-ATTA-TTAAT
* **
831404 A-TATTATTA-TAACATTAAAAAT
1 ATTA-TATTATTAAAATTATTAAT
831426 ATTATATTATTAAAATTATTAAT
1 ATTATATTATTAAAATTATTAAT
831449 A
1 A
831450 AATATATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
22 9 0.25
23 16 0.44
24 1 0.03
25 4 0.11
26 6 0.17
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATATTATTAAAATTATTAAT
Found at i:833535 original size:2 final size:2
Alignment explanation
Indices: 833530--833567 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
833520 TTCACCAGTG
833530 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
833568 TAATCATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:833613 original size:12 final size:11
Alignment explanation
Indices: 833591--833626 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
833581 TTTTTTTCTC
*
833591 TTTTTCTTTTT
1 TTTTTATTTTT
833602 TTTTTATATTTT
1 TTTTTAT-TTTT
833614 TTTTTATTTTT
1 TTTTTATTTTT
833625 TT
1 TT
833627 CATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:833615 original size:21 final size:21
Alignment explanation
Indices: 833580--833631 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
833570 ATCATCTCTC
* *
833580 ATTTTTTTC-TCTTTTTCTTT
1 ATTTTTTTCATATTTTTTTTT
833600 -TTTTTTT-ATATTTTTTTTT
1 ATTTTTTTCATATTTTTTTTT
833619 ATTTTTTTCATAT
1 ATTTTTTTCATAT
833632 ATATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 16 0.59
20 7 0.26
21 4 0.15
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (21 bp):
ATTTTTTTCATATTTTTTTTT
Found at i:833632 original size:23 final size:24
Alignment explanation
Indices: 833591--833643 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
833581 TTTTTTTCTC
* ** *
833591 TTTTTCTTTTTTTTTTATAT-TTT
1 TTTTTATTTTTTTCATATATATAT
833614 TTTTTATTTTTTTCATATATATAT
1 TTTTTATTTTTTTCATATATATAT
833638 TTTTTA
1 TTTTTA
833644 GCTCTTATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTATTTTTTTCATATATATAT
Found at i:835976 original size:22 final size:22
Alignment explanation
Indices: 835946--836022 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
835936 AGATTTTTTA
* * *
835946 TGAATAGTGATGAACAATATCG
1 TGAACAGTGATGAACATTACCG
*
835968 TGAACAGTGATGAACATTACCA
1 TGAACAGTGATGAACATTACCG
835990 TGAACAGTGATGAACATTACCCG
1 TGAACAGTGATGAACATTA-CCG
836013 TGAACAGTGA
1 TGAACAGTGA
836023 ACATTGTACC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 37 0.76
23 12 0.24
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (22 bp):
TGAACAGTGATGAACATTACCG
Found at i:836544 original size:46 final size:45
Alignment explanation
Indices: 836485--836586 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
836475 TCGTAAGCCT
*
836485 GTAAGCTTA-TTTTACCAAAATAATTACC-ATTTGTCCCATAAGCTC
1 GTAAGCTTATTTTTACCAAAATAATTACCAATAT-T-CCATAAGCTC
* * * *
836530 GTAAGCTTATTTTTACCCATATACTTGCCAATATTCCATAAGCTC
1 GTAAGCTTATTTTTACCAAAATAATTACCAATATTCCATAAGCTC
836575 GTAAGCTTATTT
1 GTAAGCTTATTT
836587 GCATGCTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 31 0.62
46 16 0.32
47 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (45 bp):
GTAAGCTTATTTTTACCAAAATAATTACCAATATTCCATAAGCTC
Found at i:836745 original size:40 final size:40
Alignment explanation
Indices: 836691--836772 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
836681 ACCGTAGTGC
* *
836691 TACATATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAAGTCGTGCCCACCATATACACCGAAGTGTAT
836731 TACACATAAAGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAAGTCGTGCCCACCATATACACCGAAGTGTAT
836771 TA
1 TA
836773 TGAACCTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAAGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:838650 original size:30 final size:29
Alignment explanation
Indices: 838603--838664 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
838593 ATATGTAATT
838603 TTTTTAAAATTACATTTTGGTC-CCTAAAC
1 TTTTTAAAATTACATTTTGGTCACC-AAAC
* *
838632 TTTTTAAAGTTTATATTTTGGTCACCAAAC
1 TTTTTAAA-ATTACATTTTGGTCACCAAAC
838662 TTT
1 TTT
838665 ACCAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 19 0.66
31 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (29 bp):
TTTTTAAAATTACATTTTGGTCACCAAAC
Found at i:838675 original size:30 final size:30
Alignment explanation
Indices: 838616--838690 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
838606 TTAAAATTAC
**
838616 ATTTTGGTCCCTAAACTTTTTAAAGTTTAT
1 ATTTTGGTCCCTAAACTTTCCAAAGTTTAT
838646 ATTTTGGTCACC-AAACTTTACCAAA-TTTAT
1 ATTTTGGTC-CCTAAACTTT-CCAAAGTTTAT
*
838676 AATTTGG-CCACTAAA
1 ATTTTGGTCC-CTAAA
838691 TAAATCCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 1 0.03
29 2 0.05
30 30 0.79
31 5 0.13
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (30 bp):
ATTTTGGTCCCTAAACTTTCCAAAGTTTAT
Found at i:843163 original size:22 final size:23
Alignment explanation
Indices: 843129--843173 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
843119 AACATATATT
843129 TATTAATAATTTCAATAATATAA
1 TATTAATAATTTCAATAATATAA
* *
843152 TATT-ATATTTTCAATATTATAA
1 TATTAATAATTTCAATAATATAA
843174 AAATATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTAATAATTTCAATAATATAA
Found at i:843180 original size:22 final size:22
Alignment explanation
Indices: 843138--843180 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
843128 TTATTAATAA
* *
843138 TTTCAATAATATAATATTATAT
1 TTTCAATAATATAAAAATATAT
*
843160 TTTCAATATTATAAAAATATA
1 TTTCAATAATATAAAAATATA
843181 ATTTAATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTCAATAATATAAAAATATAT
Found at i:843985 original size:21 final size:21
Alignment explanation
Indices: 843947--843986 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
843937 TTTATCTATC
*
843947 GATTAATTTTAATTTTAATTT
1 GATTAATATTAATTTTAATTT
843968 GATTAATATT-ATTGTTAAT
1 GATTAATATTAATT-TTAAT
843987 ATATTATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
GATTAATATTAATTTTAATTT
Found at i:846389 original size:20 final size:20
Alignment explanation
Indices: 846343--846381 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
846333 TATTTTTCAT
846343 ATTTTAAAAGCTTTAAACAC
1 ATTTTAAAAGCTTTAAACAC
846363 ATTTTAAACA-CTTTAAACA
1 ATTTTAAA-AGCTTTAAACA
846382 TGTTTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (20 bp):
ATTTTAAAAGCTTTAAACAC
Found at i:854629 original size:28 final size:28
Alignment explanation
Indices: 854571--854629 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
854561 CGAAATTATT
* **
854571 TTTTTTGTCAAAATAAGTATCTAAAGTA
1 TTTTTGGTCAAAATAAGTATCTAAAACA
*
854599 TTTTTGGTCAAAATATGTA-CTTAAAACA
1 TTTTTGGTCAAAATAAGTATC-TAAAACA
854627 TTT
1 TTT
854630 AATTTTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (28 bp):
TTTTTGGTCAAAATAAGTATCTAAAACA
Found at i:857550 original size:182 final size:182
Alignment explanation
Indices: 857243--857570 Score: 550
Period size: 182 Copynumber: 1.8 Consensus size: 182
857233 GCCATCCCTA
*
857243 ACGGGAATGCTATGACAAACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCATTGAGGAG
1 ACGGGAATGCTATGACAAACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCATCGAGGAG
* *
857308 AAGAAGACATCTAAGGAGATATGAGATCATCTCACCAAACTGTATGAAACCACATCACTGCACAA
66 AAGAAGACAGCTAAGGAGATATGAGATCATCTCACCAAACTATATGAAACCACATCACTGCACAA
857373 TAAAATTTTCCTTAAGTGGATTTCACAGATGACAACAAATGGATCAAAATGG
131 TAAAATTTTCCTTAAGTGGATTTCACAGATGACAACAAATGGATCAAAATGG
* * *
857425 ACGGGAATGTTATTG-CAAACTTTCATCTAGCATTAGCAGATGAAGTATTTTCAAGCATCGAGTA
1 ACGGGAATGCTA-TGACAAACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCATCGAGGA
* * **
857489 GAAGAAGACAGCTAAGGAGATATGAGATTATCTCACCAAATTATATGAGTCCACATCACTGCACA
65 GAAGAAGACAGCTAAGGAGATATGAGATCATCTCACCAAACTATATGAAACCACATCACTGCACA
857554 ATAAAATTTTCCTTAAG
130 ATAAAATTTTCCTTAAG
857571 AGGAAATTGT
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 133 0.99
183 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (182 bp):
ACGGGAATGCTATGACAAACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCATCGAGGAG
AAGAAGACAGCTAAGGAGATATGAGATCATCTCACCAAACTATATGAAACCACATCACTGCACAA
TAAAATTTTCCTTAAGTGGATTTCACAGATGACAACAAATGGATCAAAATGG
Found at i:863231 original size:15 final size:16
Alignment explanation
Indices: 863211--863240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
863201 GGTAGTTATT
863211 TCTTTG-TTTCTGCTA
1 TCTTTGTTTTCTGCTA
863226 TCTTTGTTTTCTGCT
1 TCTTTGTTTTCTGCT
863241 GTATGCCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.03, C:0.20, G:0.13, T:0.63
Consensus pattern (16 bp):
TCTTTGTTTTCTGCTA
Found at i:875299 original size:19 final size:19
Alignment explanation
Indices: 875263--875325 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
875253 TCTAAATAAA
875263 AATATAATAAATAA-TATAT
1 AATATAATAAA-AACTATAT
875282 AATATAATAAAAACTATAT
1 AATATAATAAAAACTATAT
* * **
875301 TACATTTTCAAAAACTATAT
1 AATATAAT-AAAAACTATAT
875321 AATAT
1 AATAT
875326 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.06
19 20 0.56
20 14 0.39
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AATATAATAAAAACTATAT
Found at i:875315 original size:20 final size:20
Alignment explanation
Indices: 875290--875364 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
875280 ATAATATAAT
*
875290 AAAAACTATATTACATTTTC
1 AAAAACTATATTATATTTTC
*
875310 AAAAACTATATAATATGTTTTC
1 AAAAACTATAT--TATATTTTC
875332 AAAAA-T-TA-TATATTTTC
1 AAAAACTATATTATATTTTC
*
875349 CAAAACTATATTATAT
1 AAAAACTATATTATAT
875365 ATGTTTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
17 12 0.26
18 1 0.02
19 2 0.04
20 18 0.39
21 1 0.02
22 12 0.26
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (20 bp):
AAAAACTATATTATATTTTC
Found at i:875330 original size:22 final size:22
Alignment explanation
Indices: 875305--875376 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
875295 CTATATTACA
875305 TTTTCAAAAACTATATAATATG
1 TTTTCAAAAACTATATAATATG
875327 TTTTCAAAAA-T-TAT-ATA--
1 TTTTCAAAAACTATATAATATG
*
875344 TTTTCCAAAACTATATTATATATG
1 TTTTCAAAAACTATA-TA-ATATG
875368 TTTTCAAAA
1 TTTTCAAAA
875377 TCGTTTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
17 9 0.22
18 1 0.02
19 5 0.12
20 4 0.10
21 1 0.02
22 13 0.32
24 8 0.20
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (22 bp):
TTTTCAAAAACTATATAATATG
Found at i:875347 original size:17 final size:17
Alignment explanation
Indices: 875290--875359 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 17
875280 ATAATATAAT
875290 AAAAACTATATTACATTTTC
1 AAAAACTATA-T--ATTTTC
875310 AAAAACTATATAATATGTTTTC
1 AAAAAC--TAT-ATA--TTTTC
*
875332 AAAAATTATATATTTTC
1 AAAAACTATATATTTTC
*
875349 CAAAACTATAT
1 AAAAACTATAT
875360 TATATATGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
17 14 0.33
19 3 0.07
20 10 0.24
22 14 0.33
23 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.40
Consensus pattern (17 bp):
AAAAACTATATATTTTC
Found at i:875433 original size:73 final size:74
Alignment explanation
Indices: 875306--875658 Score: 482
Period size: 73 Copynumber: 4.8 Consensus size: 74
875296 TATATTACAT
* *
875306 TTTCAAAAACTATATA--ATATGTTTTCAAAAATTATATATTTTCCAAAACTATATTATATATGT
1 TTTCTAAAACTATATATTATATGTTTTC-AAAA--ATATATTTTCAAAAACTATATTATATATGT
875369 TTTC-AAAATCG
63 TTTCAAAAATCG
* * *
875380 TTTCAAAAACTATATATTATATTTTTTCAAAAATATGTTTTCAAAAACTATATTATATATGTTTT
1 TTTCTAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATGTTTT
875445 CAAAAATCG
66 CAAAAATCG
* * *
875454 TTT-TAAAACTATATATTATATGTTTTCAAAAAGATGTTTTCAAAAATTATATTATATATGTTTT
1 TTTCTAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATGTTTT
*
875518 CAAAAATCA
66 CAAAAATCG
* * * * *
875527 TTT-TAAAATTATATATTATATGGTTTCAAAAATATATTTTCAAAAAATATACTATATATGATTT
1 TTTCTAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATGTTTT
*
875591 CAAAAACCG
66 CAAAAATCG
* *
875600 TTTTCTAAAACAATATATTATTTGTTTTCAAAAATATATTTTCAAAAACTATATTATAT
1 -TTTCTAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATAT
875659 CTTCAAAAAC
Statistics
Matches: 251, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
73 161 0.64
74 29 0.12
75 52 0.21
76 9 0.04
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (74 bp):
TTTCTAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATGTTTT
CAAAAATCG
Found at i:875469 original size:37 final size:37
Alignment explanation
Indices: 875355--875634 Score: 246
Period size: 37 Copynumber: 7.6 Consensus size: 37
875345 TTTCCAAAAC
*
875355 TATATTATATATGTTTTC-AAAATCGTTTCAAAAACTA
1 TATATTATATATGTTTTCAAAAATCGTTT-TAAAACTA
*
875392 TATATTATAT-T-TTTTCAAAAATATGTTTTCAAAA--A
1 TATATTATATATGTTTTCAAAAAT-CGTTTT-AAAACTA
875427 CTATATTATATATGTTTTCAAAAATCGTTTTAAAACTA
1 -TATATTATATATGTTTTCAAAAATCGTTTTAAAACTA
*
875465 TATA-T-TATATGTTTTCAAAAAGAT-GTTTTCAAAAAT-
1 TATATTATATATGTTTTC-AAAA-ATCGTTTT-AAAACTA
* *
875501 TATATTATATATGTTTTCAAAAATCATTTTAAAATTA
1 TATATTATATATGTTTTCAAAAATCGTTTTAAAACTA
* ** *
875538 TATA-T-TATATGGTTTCAAAAATATATTTTCAAAA-AA
1 TATATTATATATGTTTTCAAAAAT-CGTTTT-AAAACTA
* * * *
875574 TATACTATATATGATTTCAAAAACCGTTTTCTAAAACAA
1 TATATTATATATGTTTTCAAAAATCG-TTT-TAAAACTA
875613 TATATTAT-T-TGTTTTCAAAAAT
1 TATATTATATATGTTTTCAAAAAT
875635 ATATTTTCAA
Statistics
Matches: 205, Mismatches: 16, Indels: 44
0.77 0.06 0.17
Matches are distributed among these distances:
35 33 0.16
36 52 0.25
37 64 0.31
38 46 0.22
39 10 0.05
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (37 bp):
TATATTATATATGTTTTCAAAAATCGTTTTAAAACTA
Found at i:875492 original size:14 final size:14
Alignment explanation
Indices: 875473--875499 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
875463 TATATATTAT
875473 ATGTTTTCAAAAAG
1 ATGTTTTCAAAAAG
875487 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
875500 TTATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
ATGTTTTCAAAAAG
Found at i:875643 original size:14 final size:15
Alignment explanation
Indices: 875624--875654 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
875614 ATATTATTTG
875624 TTTTCAAAAA-TATA
1 TTTTCAAAAACTATA
875638 TTTTCAAAAACTATA
1 TTTTCAAAAACTATA
875653 TT
1 TT
875655 ATATCTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTCAAAAACTATA
Found at i:875674 original size:22 final size:20
Alignment explanation
Indices: 875634--875677 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
875624 TTTTCAAAAA
*
875634 TATATTTTCAAAAACTATAT
1 TATATCTTCAAAAACTATAT
875654 TATATCTTCAAAAACTATA-
1 TATATCTTCAAAAACTATAT
875673 TATAT
1 TATAT
875678 TATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATCTTCAAAAACTATAT
Found at i:884867 original size:19 final size:19
Alignment explanation
Indices: 884831--884894 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
884821 GTTAAATAAA
884831 AATATAATAAATAA-TATAT
1 AATATAATAAA-AACTATAT
884850 AATATAATAAAAACTATATT
1 AATATAATAAAAACTATA-T
*
884870 ACATTTTAA-AAAAACTATAT
1 A-A-TATAATAAAAACTATAT
884890 AATAT
1 AATAT
884895 GTTTTCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.10
19 16 0.41
20 4 0.10
21 11 0.28
22 4 0.10
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATAATAAAAACTATAT
Found at i:884904 original size:22 final size:21
Alignment explanation
Indices: 884858--884945 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
884848 ATAATATAAT
* * **
884858 AAAAACTATATTACATTTTAA
1 AAAAACTATATAATATTTTTC
884879 AAAAACTATATAATATGTTTTC
1 AAAAACTATATAATAT-TTTTC
884901 AAAAA-T-TAT-ATA-TTTTC
1 AAAAACTATATAATATTTTTC
884918 AAAAACTATATTATATATATTTTC
1 AAAAACTATA-TA-ATAT-TTTTC
884942 AAAA
1 AAAA
884946 TCGTTTAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
17 10 0.18
18 1 0.02
19 5 0.09
20 4 0.07
21 15 0.27
22 11 0.20
24 9 0.16
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.41
Consensus pattern (21 bp):
AAAAACTATATAATATTTTTC
Found at i:884916 original size:17 final size:17
Alignment explanation
Indices: 884891--884928 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
884881 AAACTATATA
* *
884891 ATATGTTTTCAAAAATT
1 ATATATTTTCAAAAACT
884908 ATATATTTTCAAAAACT
1 ATATATTTTCAAAAACT
884925 ATAT
1 ATAT
884929 TATATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (17 bp):
ATATATTTTCAAAAACT
Found at i:884988 original size:14 final size:14
Alignment explanation
Indices: 884969--884995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
884959 TATATATTAT
884969 ATGTTTTCAAAAAG
1 ATGTTTTCAAAAAG
884983 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
884996 CTATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
ATGTTTTCAAAAAG
Found at i:885070 original size:75 final size:73
Alignment explanation
Indices: 884880--885229 Score: 481
Period size: 75 Copynumber: 4.7 Consensus size: 73
884870 ACATTTTAAA
884880 AAAACTATATA--ATATGTTTTCAAAAATTATATATTTTCAAAAACTATATTATATATATTTTC-
1 AAAACTATATATTATATGTTTTC-AAAA--ATATATTTTCAAAAACTATATTATATATATTTTCA
**
884942 AAAATCGTTTAA
63 AAAATC-TTTTT
* * *
884954 AAAACTATATATTATATGTTTTCAAAAAGATGTTTTCAAAAACTATATTATTTATATTTTCAAAA
1 AAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATATTTTCAAAA
885019 ATCTTTTT
66 ATCTTTTT
* * *
885027 AAAACTATATATTATATGTTTTCAAAAAAAATATTTCTTAAAAACTATATTATATATGTTTTCAA
1 AAAACTATATATTATATGTTTTC-AAAAATATATTT-TCAAAAACTATATTATATATATTTTCAA
**
885092 AAATAGTTTT
64 AAATCTTTTT
*
885102 AAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATGTTTTCAAAA
1 AAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATATTTTCAAAA
*
885167 ACCTTTTTTT
66 A--TCTTTTT
* *
885177 AAAATTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATAATATAT
1 AAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATAT
885230 CTTCAAAAAC
Statistics
Matches: 251, Mismatches: 18, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
73 87 0.35
74 38 0.15
75 116 0.46
76 10 0.04
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (73 bp):
AAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATATATTTTCAAAA
ATCTTTTT
Found at i:885091 original size:148 final size:148
Alignment explanation
Indices: 884880--885229 Score: 512
Period size: 148 Copynumber: 2.4 Consensus size: 148
884870 ACATTTTAAA
884880 AAAACTATATA--ATATGTTTTCAAAAATTATATATTTTCAAAAACTATATTATATATATTTTC-
1 AAAACTATATATTATATGTTTTCAAAAA--ATATATTTTCAAAAACTATATTATATATATTTTCA
* * *
884942 AAAATCGTTTAAAAAACTATATATTATATGTTTTCAAAAAGATGTTTTCAAAAACTATATTATTT
64 AAAATAGTTT-AAAAACTATATATTATATGTTTTCAAAAAGATATTTTCAAAAACTATATTATAT
885007 ATATTTTCAAAAA-TCTTTTT
128 ATATTTTCAAAAACTCTTTTT
* * *
885027 AAAACTATATATTATATGTTTTCAAAAAAAATATTTCTTAAAAACTATATTATATATGTTTTCAA
1 AAAACTATATATTATATGTTTTCAAAAAATATATTT-TCAAAAACTATATTATATATATTTTCAA
* *
885092 AAATAGTTTTAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAAACTATATTATATAT
65 AAATAGTTTAAAAACTATATATTATATGTTTTCAAAAAGATATTTTCAAAAACTATATTATATAT
* *
885157 GTTTTCAAAAACCTTTTTTT
130 ATTTTCAAAAA-CTCTTTTT
* *
885177 AAAATTATATATTATATGTTTTC-AAAAATATATTTTCAAAAACTATAATATAT
1 AAAACTATATATTATATGTTTTCAAAAAATATATTTTCAAAAACTATATTATAT
885230 CTTCAAAAAC
Statistics
Matches: 183, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
147 18 0.10
148 102 0.56
149 35 0.19
150 28 0.15
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (148 bp):
AAAACTATATATTATATGTTTTCAAAAAATATATTTTCAAAAACTATATTATATATATTTTCAAA
AATAGTTTAAAAACTATATATTATATGTTTTCAAAAAGATATTTTCAAAAACTATATTATATATA
TTTTCAAAAACTCTTTTT
Found at i:885148 original size:15 final size:14
Alignment explanation
Indices: 885115--885150 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
885105 ACTATATATT
*
885115 ATATGTTTTCAAAA
1 ATATATTTTCAAAA
885129 ATATATTTTCAAAA
1 ATATATTTTCAAAA
885143 ACTATATT
1 A-TATATT
885151 ATATATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:885223 original size:15 final size:14
Alignment explanation
Indices: 885190--885223 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
885180 ATTATATATT
*
885190 ATATGTTTTCAAAA
1 ATATATTTTCAAAA
885204 ATATATTTTCAAAA
1 ATATATTTTCAAAA
885218 ACTATA
1 A-TATA
885224 ATATATCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:885228 original size:20 final size:20
Alignment explanation
Indices: 885203--885249 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
885193 TGTTTTCAAA
885203 AATATATTTTCAAAAACTAT
1 AATATATTTTCAAAAACTAT
*
885223 AATATATCTTCAAAAACTAT
1 AATATATTTTCAAAAACTAT
885243 -ATATATT
1 AATATATT
885250 ATATATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATATTTTCAAAAACTAT
Found at i:892997 original size:41 final size:41
Alignment explanation
Indices: 892940--893022 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
892930 TCTCCCTGTA
*
892940 CAGCAAAGCCAAAACTATCGAGCCCCAACTGAATGATCCGG
1 CAGCAAAGCCAAAACTACCGAGCCCCAACTGAATGATCCGG
892981 CAGCAAAGCCAAAACTACCGAGCCCCAACTGAATGATCCGG
1 CAGCAAAGCCAAAACTACCGAGCCCCAACTGAATGATCCGG
893022 C
1 C
893023 GAGACGAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.34, G:0.19, T:0.11
Consensus pattern (41 bp):
CAGCAAAGCCAAAACTACCGAGCCCCAACTGAATGATCCGG
Found at i:893700 original size:111 final size:111
Alignment explanation
Indices: 893568--893789 Score: 383
Period size: 111 Copynumber: 2.0 Consensus size: 111
893558 ATTGCAAATA
* *
893568 TTAATTCTTAATCTAATAATCATGCAT-TAAATGAATCAACTAATTATTACTAATAATTTAAATT
1 TTAATTCTTAATCTAATAATCATGCATAT-AATAAATCAACTAAATATTACTAATAATTTAAATT
* *
893632 AAATTAAAACATTAAAATGTTACTGTATCAGCAAAGTGTCGAGATAT
65 AAATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
893679 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
893744 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
893790 ATGATTTCCA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 104 0.99
112 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:893927 original size:12 final size:10
Alignment explanation
Indices: 893913--893953 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
893903 ACCTTAAAAA
*
893913 GAGAGTATTT
1 GAGAGAATTT
893923 GAGAGAAATTT
1 GAGAG-AATTT
893934 -AGAGAATTT
1 GAGAGAATTT
893943 GAGAGAATTT
1 GAGAGAATTT
893953 G
1 G
893954 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:894117 original size:50 final size:49
Alignment explanation
Indices: 894074--894169 Score: 131
Period size: 50 Copynumber: 2.0 Consensus size: 49
894064 AGATATCCAG
*
894074 GGATAGCGCGGATCA-GGGCGCGCTATACCCACGTGGCGCCAGATCACC
1 GGATAGCGCGGAGCAGGGGCGCGCTATACCCACGTGGCGCCAGATCACC
* * * *
894122 GTATATCGCGGGGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCA
1 GGATAGCGCGGAGCA-GGGGCGCGCTATACCCACGTGGCGCCAGATCA
894170 GTATATAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 11 0.27
50 30 0.73
ACGTcount: A:0.21, C:0.31, G:0.34, T:0.14
Consensus pattern (49 bp):
GGATAGCGCGGAGCAGGGGCGCGCTATACCCACGTGGCGCCAGATCACC
Found at i:894193 original size:50 final size:49
Alignment explanation
Indices: 894088--894195 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 49
894078 AGCGCGGATC
* *
894088 AGGGCGCGCTATACCCACGTGGCGCCAGATCACCGTATATCGCGGGGCAG
1 AGGGCGCGCTATACCCACGTGGCGCCAAATCA-CGTATATAGCGGGGCAG
* *
894138 GGGGCGCGCTATACCCACGTGGCGCCAAATCA-GTATATAGTACGGTGCAG
1 AGGGCGCGCTATACCCACGTGGCGCCAAATCACGTATATAG--CGGGGCAG
894188 AGGGCGCG
1 AGGGCGCG
894196 TTTTTCTGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 7 0.14
50 44 0.86
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (49 bp):
AGGGCGCGCTATACCCACGTGGCGCCAAATCACGTATATAGCGGGGCAG
Found at i:894935 original size:15 final size:17
Alignment explanation
Indices: 894917--894953 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
894907 AACAGAAGGT
894917 AAAAAAAGA-AAAG-AA
1 AAAAAAAGATAAAGTAA
894932 AAAAAAAGATAAAGTAA
1 AAAAAAAGATAAAGTAA
894949 AAAAA
1 AAAAA
894954 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAAGATAAAGTAA
Found at i:894958 original size:23 final size:23
Alignment explanation
Indices: 894932--895002 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 23
894922 AAGAAAAGAA
894932 AAAAAAAGATAAAGTAAAAAAAT-
1 AAAAAAAGATAAA-TAAAAAAATG
*
894955 AAAAATAAAATAAATGAATAAAAATG
1 AAAAA-AAGATAAAT-AA-AAAAATG
*
894981 AATAAAATGAATAAATAAAAAA
1 AA-AAAAAG-ATAAATAAAAAA
895003 GCAAAAAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 6 0.15
24 9 0.23
25 10 0.26
26 5 0.13
27 9 0.23
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAAAAAGATAAATAAAAAAATG
Found at i:894962 original size:19 final size:19
Alignment explanation
Indices: 894930--894979 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
894920 AAAAGAAAAG
* *
894930 AAAAAA-AAAGATAAAGTA
1 AAAAAATAAAAATAAAATA
894948 AAAAAATAAAAATAAAATA
1 AAAAAATAAAAATAAAATA
**
894967 AATGAATAAAAAT
1 AAAAAATAAAAAT
894980 GAATAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATA
Found at i:894981 original size:10 final size:10
Alignment explanation
Indices: 894952--894995 Score: 58
Period size: 9 Copynumber: 4.6 Consensus size: 10
894942 AAAGTAAAAA
894952 AATAAAAAT-
1 AATAAAAATG
894961 AA-AATAAATG
1 AATAA-AAATG
894971 AATAAAAATG
1 AATAAAAATG
894981 AAT-AAAATG
1 AATAAAAATG
894990 AATAAA
1 AATAAA
894996 TAAAAAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 2 0.06
9 15 0.48
10 12 0.39
11 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (10 bp):
AATAAAAATG
Found at i:894988 original size:19 final size:19
Alignment explanation
Indices: 894952--894995 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
894942 AAAGTAAAAA
894952 AATAAAAATAAAATAAATG
1 AATAAAAATAAAATAAATG
*
894971 AATAAAAAT-GAATAAAATG
1 AATAAAAATAAAAT-AAATG
894990 AATAAA
1 AATAAA
894996 TAAAAAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AATAAAAATAAAATAAATG
Found at i:895975 original size:24 final size:24
Alignment explanation
Indices: 895948--896015 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 24
895938 CAATTCTCTT
895948 GTATTTCGTAGTATATATCTCCGC
1 GTATTTCGTAGTATATATCTCCGC
* **
895972 GTATTTCGTA-TGTAT-TCT-CTT
1 GTATTTCGTAGTATATATCTCCGC
895993 GTATTTCGTAGTATATATCTCCG
1 GTATTTCGTAGTATATATCTCCG
896016 AGAGATATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 11 0.31
22 7 0.19
23 7 0.19
24 11 0.31
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (24 bp):
GTATTTCGTAGTATATATCTCCGC
Found at i:895996 original size:21 final size:21
Alignment explanation
Indices: 895940--896006 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
895930 TACTCTTGCA
*
895940 ATTCTCTTGTATTTCGTAGTAT
1 ATTCTCTTGTATTTCGTA-TGT
**
895962 ATATCTCCGCGTATTTCGTATGT
1 AT-TCT-CTTGTATTTCGTATGT
895985 ATTCTCTTGTATTTCGTA-GT
1 ATTCTCTTGTATTTCGTATGT
896005 AT
1 AT
896007 ATATCTCCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 4 0.11
21 11 0.29
22 5 0.13
23 7 0.18
24 11 0.29
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (21 bp):
ATTCTCTTGTATTTCGTATGT
Found at i:902110 original size:12 final size:12
Alignment explanation
Indices: 902095--902144 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
902085 CCTGAAAAAG
*
902095 ACAAGGAAAATA
1 ACAAGTAAAATA
902107 ACAAGTAAAACTA
1 ACAAGTAAAA-TA
902120 TACAA--AAAATGA
1 -ACAAGTAAAAT-A
902132 ACAAGTAAAATA
1 ACAAGTAAAATA
902144 A
1 A
902145 AAATTCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 7 0.22
14 4 0.12
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (12 bp):
ACAAGTAAAATA
Found at i:905085 original size:21 final size:21
Alignment explanation
Indices: 905059--905100 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
905049 CCATGAACCG
*
905059 TGCTACAATATATCGATGCAC
1 TGCTACAATATACCGATGCAC
* *
905080 TGCTACAGTGTACCGATGCAC
1 TGCTACAATATACCGATGCAC
905101 AAAAACATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (21 bp):
TGCTACAATATACCGATGCAC
Found at i:905151 original size:21 final size:21
Alignment explanation
Indices: 905122--905164 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
905112 ATATAAACTG
*
905122 TGTATCGATGCACTGCTACAA
1 TGTACCGATGCACTGCTACAA
905143 TGTACCGATGCACTGCTACAA
1 TGTACCGATGCACTGCTACAA
905164 T
1 T
905165 ACTACTACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (21 bp):
TGTACCGATGCACTGCTACAA
Found at i:905794 original size:23 final size:23
Alignment explanation
Indices: 905712--905786 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
905702 TATAAATTTT
*
905712 CACCGAAGTGCCACGTAGAATTTG
1 CACCGAAGTGCCACGTAGAA-ATG
**
905736 TC-CTAAAG-GACCACGTAGAAATG
1 -CACCGAAGTG-CCACGTAGAAATG
* *
905759 CATCGAAGTGCCACGTAGAATTG
1 CACCGAAGTGCCACGTAGAAATG
905782 CACCG
1 CACCG
905787 TGGTGCCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
22 1 0.03
23 22 0.56
24 15 0.38
25 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAAATG
Found at i:905937 original size:23 final size:23
Alignment explanation
Indices: 905907--905950 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
905897 AATGCATATA
905907 TATCCCGAAGGACCACGTAGAAT
1 TATCCCGAAGGACCACGTAGAAT
*
905930 TATCCCGAAGGACCGCGTAGA
1 TATCCCGAAGGACCACGTAGA
905951 CCCTCTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
TATCCCGAAGGACCACGTAGAAT
Found at i:912233 original size:21 final size:21
Alignment explanation
Indices: 912208--912248 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
912198 CCATAAACAG
*
912208 TGCTACAGTATACCGATGCAC
1 TGCTACAGTATACCAATGCAC
*
912229 TGCTACAGTGTACCAATGCA
1 TGCTACAGTATACCAATGCA
912249 TAAAAACATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (21 bp):
TGCTACAGTATACCAATGCAC
Found at i:912871 original size:24 final size:24
Alignment explanation
Indices: 912843--912917 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
912833 AGCTCGTATA
912843 AATTTGCACCAAAGTGCCACGTAG
1 AATTTGCACCAAAGTGCCACGTAG
* *
912867 AATTTGTC-CTAAAG-GACCACATAG
1 AATTTG-CACCAAAGTG-CCACGTAG
*
912891 AA-TTGCACCGAAGTGCCACGTAG
1 AATTTGCACCAAAGTGCCACGTAG
912914 AATT
1 AATT
912918 ACACCGTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
22 1 0.02
23 17 0.41
24 22 0.54
25 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTTGCACCAAAGTGCCACGTAG
Found at i:912914 original size:23 final size:23
Alignment explanation
Indices: 912846--912931 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
912836 TCGTATAAAT
912846 TTGCACCAAAGTGCCACGTAGAA
1 TTGCACCAAAGTGCCACGTAGAA
* *
912869 TTTGTC-CTAAAG-GACCACATAGAA
1 -TTG-CACCAAAGTG-CCACGTAGAA
*
912893 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCAAAGTGCCACGTAGAA
* **
912916 TTACACCGTAGTGCCA
1 TTGCACCAAAGTGCCA
912932 TATAAAATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
22 1 0.02
23 31 0.61
24 18 0.35
25 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACGTAGAA
Found at i:912940 original size:23 final size:23
Alignment explanation
Indices: 912883--912940 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
912873 TCCTAAAGGA
* *
912883 CCACATAGAATTGCACCGAAGTG
1 CCACATAAAATTACACCGAAGTG
* * *
912906 CCACGTAGAATTACACCGTAGTG
1 CCACATAAAATTACACCGAAGTG
*
912929 CCATATAAAATT
1 CCACATAAAATT
912941 GTCTATAAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (23 bp):
CCACATAAAATTACACCGAAGTG
Found at i:921658 original size:16 final size:16
Alignment explanation
Indices: 921639--921699 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
921629 AAGATAAAGT
921639 AAAAAAATCAAAAATC
1 AAAAAAATCAAAAATC
*
921655 AAAAAAATGAATAAATC
1 AAAAAAATCAA-AAATC
921672 -AAAAAATCAAAAA-C
1 AAAAAAATCAAAAATC
921686 AAAACAAAT-AAAAA
1 AAAA-AAATCAAAAA
921700 AAATAGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 1 0.03
15 11 0.28
16 23 0.57
17 5 0.12
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.11
Consensus pattern (16 bp):
AAAAAAATCAAAAATC
Found at i:921659 original size:8 final size:8
Alignment explanation
Indices: 921640--921684 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
921630 AGATAAAGTA
921640 AAAAAATC
1 AAAAAATC
921648 -AAAAATC
1 AAAAAATC
*
921655 AAAAAAATG
1 -AAAAAATC
*
921664 AATAAATC
1 AAAAAATC
921672 AAAAAATC
1 AAAAAATC
921680 AAAAA
1 AAAAA
921685 CAAAACAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 7 0.23
8 18 0.58
9 6 0.19
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAAATC
Found at i:921694 original size:24 final size:22
Alignment explanation
Indices: 921639--921701 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
921629 AAGATAAAGT
921639 AAAAAAATC-AAAAATCAAAAA
1 AAAAAAATCAAAAAATCAAAAA
921660 AATGAATAAATCAAAAAATCAAAAA
1 AA--AA-AAATCAAAAAATCAAAAA
*
921685 CAAAACAAATAAAAAAA
1 -AAAA-AAATCAAAAAA
921702 ATAGTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
23 2 0.06
24 17 0.49
25 12 0.34
26 2 0.06
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.11
Consensus pattern (22 bp):
AAAAAAATCAAAAAATCAAAAA
Found at i:927346 original size:36 final size:36
Alignment explanation
Indices: 927275--927464 Score: 274
Period size: 36 Copynumber: 5.3 Consensus size: 36
927265 ATGAACACTC
* * * * *
927275 GAATCGAAAGTG-CGATACATCCTTCTGTTCAACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
* *
927310 GAATCGGAAGTGCTGATGTTTCCTTCCGTTCGACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
* * *
927346 GAATCGGAAGTGTCGATGCTTCCCTCCGTTCAACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
*
927382 GAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
927418 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
927454 GAATCGGAAGT
1 GAATCGGAAGT
927465 ACGATGCATT
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
35 11 0.08
36 128 0.92
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (36 bp):
GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
Found at i:929669 original size:14 final size:15
Alignment explanation
Indices: 929652--929680 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
929642 AAAATGAATT
929652 ATATTTTCT-GAAAA
1 ATATTTTCTAGAAAA
929666 ATATTTTCTAGAAAA
1 ATATTTTCTAGAAAA
929681 CATTTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
ATATTTTCTAGAAAA
Found at i:929831 original size:28 final size:28
Alignment explanation
Indices: 929800--929853 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
929790 ATCATAAAAC
*
929800 ATAATATTA-TTATTTTTAAAATATTAAA
1 ATAAT-TTATTTATTATTAAAATATTAAA
929828 ATAATTTATTTATTATTAAAATATTA
1 ATAATTTATTTATTATTAAAATATTA
929854 TTTTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATTTATTTATTATTAAAATATTAAA
Found at i:929859 original size:24 final size:25
Alignment explanation
Indices: 929832--929878 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
929822 ATTAAAATAA
*
929832 TTTATTTATT-ATTAAAATATTATT
1 TTTATTTATTAATAAAAATATTATT
929856 TTTATTTATTAATAAAAATATTA
1 TTTATTTATTAATAAAAATATTA
929879 ATATTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTATTTATTAATAAAAATATTATT
Found at i:929860 original size:17 final size:20
Alignment explanation
Indices: 929821--929861 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
929811 ATTTTTAAAA
929821 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
929841 TATTAAAAT-A-TTATTT-T
1 TATTAAAATAATTTATTTAT
929858 TATT
1 TATT
929862 TATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 6 0.29
19 1 0.05
20 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:929874 original size:45 final size:47
Alignment explanation
Indices: 929770--929875 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 47
929760 TATTAAATAC
929770 AATAAATAATAATATTATTTATCATAAAACATAATATTATTATTTTTAA
1 AATAAA-AATAATATTATTTATCATAAAACATAATATTATTATTTTT-A
* * * *
929819 AATATTAAAATAAT-TTATTTATTATTAAA-ATATTATTTTTATTTATT-
1 AATA--AAAATAATATTATTTATCATAAAACATAATATTATTATTT-TTA
929866 AATAAAAATA
1 AATAAAAATA
929876 TTAATATTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
45 6 0.12
47 4 0.08
48 13 0.26
49 19 0.38
50 6 0.12
51 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (47 bp):
AATAAAAATAATATTATTTATCATAAAACATAATATTATTATTTTTA
Found at i:929883 original size:28 final size:27
Alignment explanation
Indices: 929817--929883 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 27
929807 TATTATTTTT
* * *
929817 AAAATATTAAAATAATTTATTTATTATT
1 AAAATATTAATAT-TTTTATTTATTATA
929845 AAAATA-T--TATTTTTATTTATTAATA
1 AAAATATTAATATTTTTATTTATT-ATA
929870 AAAATATTAATATT
1 AAAATATTAATATT
929884 GATATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 10 0.31
25 10 0.31
26 1 0.03
27 1 0.03
28 10 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAAATATTAATATTTTTATTTATTATA
Found at i:929996 original size:23 final size:23
Alignment explanation
Indices: 929952--930024 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
929942 AGTGTTATAT
* * *
929952 TATATTTTAAAAATATTAATTAG
1 TATATTTTATATATATTAATTAA
* *
929975 TATATTTTATATATCTTTATTAA
1 TATATTTTATATATATTAATTAA
*
929998 AATATTATTATAT-TATTATATTAA
1 TATATT-TTATATATATTA-ATTAA
930022 TAT
1 TAT
930025 TAAATATATA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 26 0.67
24 13 0.33
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TATATTTTATATATATTAATTAA
Found at i:930010 original size:8 final size:8
Alignment explanation
Indices: 929965--930157 Score: 67
Period size: 8 Copynumber: 25.6 Consensus size: 8
929955 ATTTTAAAAA
929965 TATTA-AT
1 TATTATAT
*
929972 TAGTATAT
1 TATTATAT
929980 T-TTATA-
1 TATTATAT
*
929986 TATCTTTAT
1 TAT-TATAT
**
929995 TAAAATAT
1 TATTATAT
930003 TATTATAT
1 TATTATAT
930011 TATTATAT
1 TATTATAT
930019 TA--ATAT
1 TATTATAT
*
930025 TAAATATAT
1 T-ATTATAT
* *
930034 AAATAATAT
1 -TATTATAT
930043 TATTA-AT
1 TATTATAT
930050 TATTA-AT
1 TATTATAT
*
930057 AATT-TAT
1 TATTATAT
930064 TA-TATAT
1 TATTATAT
930071 TATTA-A-
1 TATTATAT
* * * *
930077 AATAAAAA
1 TATTATAT
930085 TATTATA-
1 TATTATAT
*
930092 TCTTATAT
1 TATTATAT
*
930100 TATTATAA
1 TATTATAT
930108 TA-TA-AT
1 TATTATAT
*
930114 TGATTATTT
1 T-ATTATAT
*
930123 TATTATAA
1 TATTATAT
930131 TATTA-A-
1 TATTATAT
* * *
930137 AAATATAA
1 TATTATAT
930145 TATTATAT
1 TATTATAT
930153 TATTA
1 TATTA
930158 GAAATATTAA
Statistics
Matches: 135, Mismatches: 32, Indels: 37
0.66 0.16 0.18
Matches are distributed among these distances:
6 15 0.11
7 43 0.32
8 64 0.47
9 13 0.10
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (8 bp):
TATTATAT
Found at i:930046 original size:21 final size:20
Alignment explanation
Indices: 930022--930070 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
930012 ATTATATTAA
930022 TATTAAATATATAAATAATAT
1 TATTAAATATATAAATAAT-T
*
930043 TATT-AAT-TATTAATAATT
1 TATTAAATATATAAATAATT
*
930061 TATTATATAT
1 TATTAAATAT
930071 TATTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 4 0.17
21 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAAATATATAAATAATT
Found at i:930151 original size:22 final size:23
Alignment explanation
Indices: 930123--930169 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
930113 TTGATTATTT
930123 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
930145 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
930168 TA
1 TA
930170 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:930174 original size:22 final size:22
Alignment explanation
Indices: 930131--930174 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
930121 TTTATTATAA
*
930131 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
930153 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
930175 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:944775 original size:11 final size:11
Alignment explanation
Indices: 944759--944783 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
944749 TTATAGTATT
944759 GTAATATTGAG
1 GTAATATTGAG
944770 GTAATATTGAG
1 GTAATATTGAG
944781 GTA
1 GTA
944784 GTGTCGTTGT
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:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (11 bp):
GTAATATTGAG
Found at i:958350 original size:22 final size:22
Alignment explanation
Indices: 958322--958366 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
958312 TTCGAGGTAA
958322 CGTCAGGGAAACTCTTGGGTTT
1 CGTCAGGGAAACTCTTGGGTTT
958344 CGTCAGGGAAACTCTTGGGTTT
1 CGTCAGGGAAACTCTTGGGTTT
958366 C
1 C
958367 ATGGTTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (22 bp):
CGTCAGGGAAACTCTTGGGTTT
Found at i:960872 original size:24 final size:24
Alignment explanation
Indices: 960845--960933 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 24
960835 CTTGAAGAAA
* *
960845 AAAAAAAGAACAAA-TAAAAAGATG
1 AAAAAAAGAA-AAAGAAAAAAAATG
*
960869 AAAAAATGAAAAAGAAAAAAAATG
1 AAAAAAAGAAAAAGAAAAAAAATG
960893 AAAAATGAA-AAAAAGAAATGAACAAATG
1 AAAAA--AAGAAAAAGAAA--AA-AAATG
*
960921 -AAAAGAGAAAAAG
1 AAAAAAAGAAAAAG
960934 GAGGGTTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
23 3 0.06
24 22 0.42
25 10 0.19
26 7 0.13
27 6 0.11
28 5 0.09
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (24 bp):
AAAAAAAGAAAAAGAAAAAAAATG
Found at i:960877 original size:8 final size:8
Alignment explanation
Indices: 960845--960910 Score: 57
Period size: 8 Copynumber: 8.4 Consensus size: 8
960835 CTTGAAGAAA
*
960845 AAAAAAAG
1 AAAAAATG
*
960853 AACAAAT-
1 AAAAAATG
960860 AAAAAGATG
1 AAAAA-ATG
960869 AAAAAATG
1 AAAAAATG
*
960877 AAAAAGA-A
1 AAAAA-ATG
960885 AAAAAATG
1 AAAAAATG
960893 -AAAAATG
1 AAAAAATG
*
960900 AAAAAAAG
1 AAAAAATG
960908 AAA
1 AAA
960911 TGAACAAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
7 12 0.26
8 29 0.62
9 6 0.13
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:960929 original size:20 final size:18
Alignment explanation
Indices: 960872--960930 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 18
960862 AAAGATGAAA
960872 AAATGAAAAA-GAAAAA-
1 AAATGAAAAATGAAAAAG
960888 AAATGAAAAATGAAAAAAAG
1 AAATGAAAAATG--AAAAAG
960908 AAATGAACAAATGAAAAGAG
1 AAATGAA-AAATGAAAA-AG
960928 AAA
1 AAA
960931 AAGGAGGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
16 10 0.27
17 1 0.03
19 9 0.24
20 12 0.32
21 5 0.14
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (18 bp):
AAATGAAAAATGAAAAAG
Found at i:962101 original size:95 final size:89
Alignment explanation
Indices: 961939--962109 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 89
961929 TGAGGGATTG
961939 ACATTTTCAGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAG
1 ACATTTTCAGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAG
962004 AAGAACTTGTTCAACTTCGCATCA
66 AAGAACTTGTTCAACTTCGCATCA
* *
962028 ACATTTTCAATGGAGAGTTCATAATGAGAAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAT
1 ACATTTTC-A-GGAGAGTTCATAAT--G-AGAAGAACTCATCCAAC-GAGGAAGAAGAAGTTCAT
*
962093 AATGAGAAGAGCTTGTT
60 AATGAGAAGAACTTGTT
962110 TGACCTATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
89 8 0.11
90 1 0.01
91 14 0.19
93 1 0.01
94 16 0.22
95 33 0.45
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (89 bp):
ACATTTTCAGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACTTCGCATCA
Found at i:962385 original size:105 final size:105
Alignment explanation
Indices: 962167--962447 Score: 310
Period size: 105 Copynumber: 2.6 Consensus size: 105
962157 TGAGGGATCG
**
962167 ACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATAATAAAGGAGAAAGTTCATAATGAGAA
1 ACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCATAATGAGAA
* * * *
962232 AAACTTGTTCCTTCCAAATTCACCACAGATGGAGGTGAACCA
64 AAACATGTTCCTTCCAAATCCACCACAAAAGGAGGTGAACCA
*
962274 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAA
1 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCATAATGAGAAAA
* * * * ** ***
962339 ACATGTTCCTTCTAAGTCCATCGCAAAAGGATTTGGTTCA
66 ACATGTTCCTTCCAAATCCACCACAAAAGGAGGTGAACCA
* * * *
962379 AGATTTCCAGTTGAGAGTTCAAAATGAGAAGAACTCATCCAACAAGGGAGAATGAGTTCATAATG
1 ACATTTCCAG--AAGAGTTCATAATGAGAAGAACTCATCCTA-AA-GGAGAA--AGTTCATAATG
962444 AGAA
60 AGAA
962448 GAATTTGTTC
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
105 89 0.61
106 1 0.01
107 34 0.23
108 2 0.01
109 6 0.04
111 15 0.10
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (105 bp):
ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCATAATGAGAAAA
ACATGTTCCTTCCAAATCCACCACAAAAGGAGGTGAACCA
Found at i:965663 original size:17 final size:16
Alignment explanation
Indices: 965641--965695 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 16
965631 GTTATATTAT
965641 TAATAACATAAATAAAA
1 TAATAA-ATAAATAAAA
965658 TAAT-AATAAATAAAA
1 TAATAAATAAATAAAA
965673 T-ATAAATATAAATAAAA
1 TAAT-AA-ATAAATAAAA
965690 CTAATA
1 -TAATA
965696 GCAGTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.06
15 11 0.33
16 2 0.06
17 14 0.42
18 2 0.06
19 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (16 bp):
TAATAAATAAATAAAA
Found at i:965668 original size:15 final size:16
Alignment explanation
Indices: 965648--965695 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 16
965638 TATTAATAAC
965648 ATAAATAAAATAATA-
1 ATAAATAAAATAATAT
*
965663 ATAAATAAAATATAAAT
1 ATAAATAAAATA-ATAT
965680 ATAAATAAAACTAATA
1 ATAAATAAAA-TAATA
965696 GCAGTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 2 0.07
17 12 0.43
18 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAATAAAATAATAT
Found at i:965673 original size:20 final size:21
Alignment explanation
Indices: 965641--965680 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
965631 GTTATATTAT
965641 TAATAACATAAATA-AAATAA
1 TAATAACATAAATATAAATAA
965661 TAATAA-ATAAAATATAAATA
1 TAATAACAT-AAATATAAATA
965681 TAAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.61
21 5 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (21 bp):
TAATAACATAAATATAAATAA
Found at i:966042 original size:25 final size:25
Alignment explanation
Indices: 966014--966097 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
966004 TTAATGTGCA
* *
966014 CGTATAATATGCACACAAAGTACCT
1 CGTAGAATATGCACACAAAGTGCCT
* *
966039 CGTAGAAT-TACACACAAAGTGCAT
1 CGTAGAATATGCACACAAAGTGCCT
*
966063 CGTAGAATAGGCACACAAAGTGCCT
1 CGTAGAATATGCACACAAAGTGCCT
*
966088 CGTAAAATAT
1 CGTAGAATAT
966098 ATCAAAATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.43
25 28 0.57
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (25 bp):
CGTAGAATATGCACACAAAGTGCCT
Found at i:966799 original size:48 final size:48
Alignment explanation
Indices: 966728--966825 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
966718 TTACCGACCC
*
966728 AAAATATAATTTTTGAAAATTTATATTTTTAGTCCCTAAACTTTTAAA
1 AAAATATAATTTTTGAAAATTTATATTTTTAGTCCATAAACTTTTAAA
966776 AAAATATAATTTTTGAAAATTTATATTTTTAGTCCATAAACTTTTAAA
1 AAAATATAATTTTTGAAAATTTATATTTTTAGTCCATAAACTTTTAAA
966824 AA
1 AA
966826 TTTACACTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (48 bp):
AAAATATAATTTTTGAAAATTTATATTTTTAGTCCATAAACTTTTAAA
Found at i:975717 original size:18 final size:18
Alignment explanation
Indices: 975694--975728 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
975684 CACTTAAACT
*
975694 TGTCCCAAATGACCACTA
1 TGTCCCAAAGGACCACTA
*
975712 TGTCCCGAAGGACCACT
1 TGTCCCAAAGGACCACT
975729 TAAAACCCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:982770 original size:54 final size:54
Alignment explanation
Indices: 982685--983172 Score: 550
Period size: 54 Copynumber: 8.9 Consensus size: 54
982675 ATCTTCGATC
* * * *
982685 AACGGGTTTGCTCCC-CATTTTTC-AGGGAGTATAGAACTCGGACATCTTCTTCA
1 AACGGGTTCGCTCCCTC-TTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCA
* *
982738 AACGGGTTCGCTTCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCA
* * * * * *
982792 TACGAGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTTGAATAATCTTCTACA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-CATCTTCTTCA
* * * * *
982847 AACGGGTTCGCTCCCTGTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-CATCTTCTTCA
* * * * * * *
982902 AACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATATTTTTGTA
1 AACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAA-CATCTTCTT-CA
* * * *
982959 AACGGGTTCTCTCCCTCTTTCTTTCA-GGAGTATGGAACTCGAATAATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAA-CATCTTCTTCA
* * * *
983014 TACGGGTTCGCTCCCTCTTTCTCTAGGCAGTATGGAACTCAAACATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCA
* * * *
983068 TACGGGTTCACTCACTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCA
*
983122 TACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCT
983173 CTTGCTTCAC
Statistics
Matches: 384, Mismatches: 45, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
53 18 0.05
54 176 0.46
55 116 0.30
56 48 0.12
57 26 0.07
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCA
Found at i:983107 original size:27 final size:27
Alignment explanation
Indices: 983077--983161 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
983067 TTACGGGTTC
983077 ACTCACTCTTTCTCTAGGGAGTATGGA
1 ACTCACTCTTTCTCTAGGGAGTATGGA
* *
983104 ACTCGAACATC-TTCTTCTTACGG-GT-TCG-
1 ACTC--AC-TCTTTC-TC-TAGGGAGTATGGA
*
983132 -CTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCACTCTTTCTCTAGGGAGTATGGA
983158 ACTC
1 ACTC
983162 GAACATCTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 20
0.63 0.07 0.29
Matches are distributed among these distances:
23 4 0.09
24 6 0.14
25 6 0.14
27 10 0.23
29 7 0.16
30 6 0.14
31 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (27 bp):
ACTCACTCTTTCTCTAGGGAGTATGGA
Found at i:983239 original size:37 final size:37
Alignment explanation
Indices: 983174--983254 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
983164 ACATCTTCTC
983174 TTGCTTCACTACTTCTTTATGAAAGCTTATAG-ATGAT
1 TTGCTTCACTACTTCTTTATGAAAGCTTA-AGTATGAT
* * *
983211 TTGCTTCACTAC-TCTTTCGTGAAGGCTTAAGTTTGAT
1 TTGCTTCACTACTTCTTT-ATGAAAGCTTAAGTATGAT
983248 TTGCTTC
1 TTGCTTC
983255 GAATGTCGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 7 0.18
37 32 0.82
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (37 bp):
TTGCTTCACTACTTCTTTATGAAAGCTTAAGTATGAT
Found at i:983642 original size:36 final size:37
Alignment explanation
Indices: 983553--983701 Score: 171
Period size: 37 Copynumber: 4.1 Consensus size: 37
983543 CTGATAATCT
* * * *
983553 GATGG-TTTGCTCCAAC-ACTCTTCTGAGAAGGCTTAA
1 GATGGATTTGCTTC-ACTACTCTTCGGTGAAGACTTAA
*
983589 AATGGATTTGCTTCACTACTCTTCGGTGAAGACTTAA
1 GATGGATTTGCTTCACTACTCTTCGGTGAAGACTTAA
*
983626 GATGG-TTTGCTTCACTACTCTTTGGTGAAGGA-TTAA
1 GATGGATTTGCTTCACTACTCTTCGGTGAA-GACTTAA
* * *
983662 GATGGATTTGCTTCACTACTCTTCAGTAAAGGCTTAA
1 GATGGATTTGCTTCACTACTCTTCGGTGAAGACTTAA
983699 GAT
1 GAT
983702 TGACTTTTCT
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
36 39 0.40
37 58 0.60
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (37 bp):
GATGGATTTGCTTCACTACTCTTCGGTGAAGACTTAA
Found at i:983672 original size:73 final size:73
Alignment explanation
Indices: 983553--983701 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 73
983543 CTGATAATCT
* * *
983553 GATGGTTTGCTCCAACACTCTTCTGAGAAGGCTTAAAATGGATTTGCTTCACTACTCTTCGGTGA
1 GATGGTTTGCTCCAACACTCTTCTGAGAAGGATTAAAATGGATTTGCTTCACTACTCTTCAGTAA
983618 AGACTTAA
66 AGACTTAA
* * *
983626 GATGGTTTGCTTC-ACTACTCTT-TGGTGAAGGATTAAGATGGATTTGCTTCACTACTCTTCAGT
1 GATGGTTTGCTCCAAC-ACTCTTCT-GAGAAGGATTAAAATGGATTTGCTTCACTACTCTTCAGT
*
983689 AAAGGCTTAA
64 AAAGACTTAA
983699 GAT
1 GAT
983702 TGACTTTTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 3 0.04
73 64 0.96
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (73 bp):
GATGGTTTGCTCCAACACTCTTCTGAGAAGGATTAAAATGGATTTGCTTCACTACTCTTCAGTAA
AGACTTAA
Found at i:989127 original size:21 final size:21
Alignment explanation
Indices: 989103--989194 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
989093 ATGCAAAGTA
989103 GTCTTCAT-GTCTTTATGAATG
1 GTCTTC-TCGTCTTTATGAATG
*
989124 GTCTTCTCATCTTTATGAATG
1 GTCTTCTCGTCTTTATGAATG
989145 GTCTTCTCGTCTTTATGAATG
1 GTCTTCTCGTCTTTATGAATG
* * *
989166 GTCTTATCGTCCTTATGCATG
1 GTCTTCTCGTCTTTATGAATG
989187 GTCTTCTC
1 GTCTTCTC
989195 ATCCTTGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 1 0.02
21 63 0.98
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
GTCTTCTCGTCTTTATGAATG
Found at i:993841 original size:18 final size:19
Alignment explanation
Indices: 993806--993844 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
993796 TTATTTAAGG
993806 AGTATCAATACCTAAAGGGT
1 AGTATCAATACC-AAAGGGT
993826 AGTATCAATACC-AAGGGT
1 AGTATCAATACCAAAGGGT
993844 A
1 A
993845 CTGATACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (19 bp):
AGTATCAATACCAAAGGGT
Done.