Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008757.1 Hibiscus syriacus cultivar Beakdansim tig00111849_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: 497375
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 3
Found at i:2572 original size:13 final size:13
Alignment explanation
Indices: 2554--2619 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
2544 ACAAGTCAAC
2554 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2567 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2580 GGT---CGGGTAAACG
1 GGTCAACGGGT---CG
2593 GGT---CGGGTCG
1 GGTCAACGGGTCG
2603 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2616 GGTC
1 GGTC
2620 GGGTTGTGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
10 10 0.21
13 37 0.79
ACGTcount: A:0.14, C:0.21, G:0.48, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2583 original size:18 final size:18
Alignment explanation
Indices: 2560--2623 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
2550 CAACGGTCAA
2560 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2578 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
2596 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2614 CGGGTCGGGT
1 CGGGTCGGGT
2624 TGTGACCGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.11, C:0.20, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:4270 original size:3 final size:3
Alignment explanation
Indices: 4262--4290 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4252 TATCTTAAAA
4262 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4291 AATGACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4609 original size:19 final size:20
Alignment explanation
Indices: 4564--4610 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
4554 AATTACTAGT
4564 TATTTTATATAATATTATACA
1 TATTTT-TATAATATTATACA
4585 TA-TTTTATAATACTT-TA-A
1 TATTTTTATAATA-TTATACA
4603 TATTTTTA
1 TATTTTTA
4611 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 5 0.21
21 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTTATAATATTATACA
Found at i:12012 original size:14 final size:16
Alignment explanation
Indices: 11974--12014 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
11964 AATCTTCTTG
11974 AAATATTTAATTTATAA
1 AAATATTT-ATTTATAA
11991 AAATTATTT-TTT-TAA
1 AAA-TATTTATTTATAA
12006 AAATATTTA
1 AAATATTTA
12015 GAATAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.23
15 6 0.27
16 3 0.14
17 3 0.14
18 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATATTTATTTATAA
Found at i:29507 original size:22 final size:23
Alignment explanation
Indices: 29474--29524 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
29464 TGTTTACTTA
29474 TATTTCCATTATTA-TTA-TTTTT
1 TATTTCCATTA-TACTTATTTTTT
29496 TATTT-CATTTATACTTTATTTTTT
1 TATTTCCA-TTATAC-TTATTTTTT
29520 TATTT
1 TATTT
29525 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 3 0.12
24 10 0.40
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTTCCATTATACTTATTTTTT
Found at i:29628 original size:23 final size:23
Alignment explanation
Indices: 29584--29632 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
29574 TTTATTTTTG
*
29584 TTTTTTTATTCATTACTATTATTA
1 TTTTTTTATT-ATTAATATTATTA
29608 TTTTTTTATT-TTAATACTTATTA
1 TTTTTTTATTATTAATA-TTATTA
29631 TT
1 TT
29633 ACTATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 8 0.35
24 10 0.43
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTTTATTATTAATATTATTA
Found at i:29838 original size:12 final size:12
Alignment explanation
Indices: 29823--29847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29813 TTTTCATTTA
29823 TTTTGTATTTTT
1 TTTTGTATTTTT
29835 TTTTGTATTTTT
1 TTTTGTATTTTT
29847 T
1 T
29848 CTCATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTGTATTTTT
Found at i:29846 original size:20 final size:19
Alignment explanation
Indices: 29805--29845 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
29795 TTTTATGTGA
29805 TTGTATTTTTTTCATTTATT
1 TTGTATTTTTTT-ATTTATT
29825 TTGTATTTTTTT-TTGTATT
1 TTGTATTTTTTTATT-TATT
29844 TT
1 TT
29846 TTCTCATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 6 0.30
20 12 0.60
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (19 bp):
TTGTATTTTTTTATTTATT
Found at i:33361 original size:23 final size:23
Alignment explanation
Indices: 33335--33380 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33325 GTCTACCACT
33335 GCAAGCATTAAATATGCATCACC
1 GCAAGCATTAAATATGCATCACC
33358 GCAAGCATTAAATATGCATCACC
1 GCAAGCATTAAATATGCATCACC
33381 CGCACAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (23 bp):
GCAAGCATTAAATATGCATCACC
Found at i:48066 original size:20 final size:20
Alignment explanation
Indices: 48041--48082 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
48031 TTGGGAGTTT
48041 GGGGATTTAGAACAGAAAGA
1 GGGGATTTAGAACAGAAAGA
48061 GGGGATTTAGAACAGAAAGA
1 GGGGATTTAGAACAGAAAGA
48081 GG
1 GG
48083 AGTGGAGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.38, T:0.14
Consensus pattern (20 bp):
GGGGATTTAGAACAGAAAGA
Found at i:48709 original size:22 final size:22
Alignment explanation
Indices: 48679--48734 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
48669 GAATCTTCTT
* *
48679 ATCTTTAAATTTATTTTATAAA
1 ATCTATAAAATTATTTTATAAA
48701 ATCTATAAAAAATTATTTTATAAA
1 ATCTAT--AAAATTATTTTATAAA
48725 ATCTATAAAA
1 ATCTATAAAA
48735 ATTTATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 9 0.30
24 21 0.70
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
ATCTATAAAATTATTTTATAAA
Found at i:48720 original size:24 final size:24
Alignment explanation
Indices: 48689--48740 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
48679 ATCTTTAAAT
48689 TTATTTTATAAAATCTATAAAAAA
1 TTATTTTATAAAATCTATAAAAAA
*
48713 TTATTTTATAAAATCTATAAAAAT
1 TTATTTTATAAAATCTATAAAAAA
48737 TTAT
1 TTAT
48741 CAAATTTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTATTTTATAAAATCTATAAAAAA
Found at i:57405 original size:14 final size:15
Alignment explanation
Indices: 57384--57419 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
57374 CACTTATTTG
57384 ATTATTTGTTTCTTA
1 ATTATTTGTTTCTTA
*
57399 A-TATTTGTTTTTTA
1 ATTATTTGTTTCTTA
57413 ATTATTT
1 ATTATTT
57420 AAAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
ATTATTTGTTTCTTA
Found at i:62532 original size:26 final size:26
Alignment explanation
Indices: 62503--62553 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
62493 AATTTATGAT
* *
62503 TATGGAAATTTTAAAAAATTAAAATA
1 TATGGAAAATCTAAAAAATTAAAATA
*
62529 TATGGAAAATCTAAAATATTAAAAT
1 TATGGAAAATCTAAAAAATTAAAAT
62554 TTTGAAGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (26 bp):
TATGGAAAATCTAAAAAATTAAAATA
Found at i:63048 original size:21 final size:21
Alignment explanation
Indices: 63024--63102 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
63014 AAAATTCGTT
*
63024 TTTTTATGTTAACATCGTATC
1 TTTTTATATTAACATCGTATC
63045 TTTTTATATTAACGATACG--TC
1 TTTTTATATTAAC-AT-CGTATC
* * **
63066 TTTTCATGTTAACATTATATC
1 TTTTTATATTAACATCGTATC
*
63087 TTTTTATATTAGCATC
1 TTTTTATATTAACATC
63103 CCACCGATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
20 2 0.04
21 39 0.87
22 2 0.04
23 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.52
Consensus pattern (21 bp):
TTTTTATATTAACATCGTATC
Found at i:66734 original size:138 final size:138
Alignment explanation
Indices: 66486--66765 Score: 389
Period size: 138 Copynumber: 2.0 Consensus size: 138
66476 TATATCTTGC
* *
66486 AATCCTTTCACATTATATTTGGTGAACTCAAGTAATCTATCAAAGTCAAATCTATTATTAAACGA
1 AATCCTTTCACATGATATTTGGTAAACTCAAGTAATCTATCAAAGTCAAATCTATTATTAAACGA
* ** * ** * **
66551 CAATATCCATTTACCTTACCAATCTATGAGTAATTATCACGATCTTAAATTTAACATATAAACTC
66 AAATATCCATTTACCCAAACAATCTACAAGAAATTATCACGATCTTAAACCTAACATATAAACTC
*
66616 GCCATACA
131 ACCATACA
* *
66624 AATCCTTTCACGTGATATTTGGTAAACTCACGTAATCTATCAAAGTCAAATCTATTATTAAACGA
1 AATCCTTTCACATGATATTTGGTAAACTCAAGTAATCTATCAAAGTCAAATCTATTATTAAACGA
* * * *
66689 AAATATCCATTTGCCCAAATAATCTACAAGAAATTATCATGATCTTAGACCTAACATATAAACTC
66 AAATATCCATTTACCCAAACAATCTACAAGAAATTATCACGATCTTAAACCTAACATATAAACTC
*
66754 ATCATACA
131 ACCATACA
66762 AATC
1 AATC
66766 AGAAAGGGGT
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 123 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (138 bp):
AATCCTTTCACATGATATTTGGTAAACTCAAGTAATCTATCAAAGTCAAATCTATTATTAAACGA
AAATATCCATTTACCCAAACAATCTACAAGAAATTATCACGATCTTAAACCTAACATATAAACTC
ACCATACA
Found at i:79591 original size:17 final size:15
Alignment explanation
Indices: 79557--79595 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
79547 AGCTAACAAG
79557 TCTACTACTATATGT
1 TCTACTACTATATGT
*
79572 TCTACTATCTATTTTGT
1 TCTACTA-CTA-TATGT
79589 TCTACTA
1 TCTACTA
79596 ACCCACTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 3 0.14
17 11 0.52
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (15 bp):
TCTACTACTATATGT
Found at i:80276 original size:19 final size:19
Alignment explanation
Indices: 80252--80289 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
80242 AAAACTATGG
80252 CCCAAAGTTTCGATACTCT
1 CCCAAAGTTTCGATACTCT
80271 CCCAAAGTTTCGATACTCT
1 CCCAAAGTTTCGATACTCT
80290 TGAAAGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (19 bp):
CCCAAAGTTTCGATACTCT
Found at i:81358 original size:18 final size:18
Alignment explanation
Indices: 81335--81392 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
81325 CGTTGATTGA
81335 GAAAAGTCTGCTTGAATT
1 GAAAAGTCTGCTTGAATT
* *
81353 GAAAAG-GTG-TTAAATT
1 GAAAAGTCTGCTTGAATT
81369 GAGAAAAGTCTGCTTGAATT
1 --GAAAAGTCTGCTTGAATT
81389 -AAAA
1 GAAAA
81393 AAATGACATT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (18 bp):
GAAAAGTCTGCTTGAATT
Found at i:83355 original size:17 final size:18
Alignment explanation
Indices: 83315--83348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83305 CATATTCAAT
*
83315 TTGACTCAAATATTTGAC
1 TTGATTCAAATATTTGAC
83333 TTGATTCAAA-ATTTGA
1 TTGATTCAAATATTTGA
83349 TTCGATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGATTCAAATATTTGAC
Found at i:88341 original size:21 final size:21
Alignment explanation
Indices: 88317--88371 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
88307 TATGATGAAT
*
88317 GGTCAATTTGAAAAATTAAAA
1 GGTCAATTTGAAAAATCAAAA
* *
88338 GGTCAAATTGAAAAATCAAAT
1 GGTCAATTTGAAAAATCAAAA
88359 GG-CTAATTTGAAA
1 GGTC-AATTTGAAA
88372 TTTTAGTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (21 bp):
GGTCAATTTGAAAAATCAAAA
Found at i:92713 original size:228 final size:232
Alignment explanation
Indices: 92307--92786 Score: 623
Period size: 228 Copynumber: 2.1 Consensus size: 232
92297 CGGAAAAGCA
* *
92307 TAAGCGTGGGAGACCACCCAAAACTTCAAGGGAAGAAAGGATTTGAGAAGAAGGCACTCGAACGA
1 TAAGCGTGGGAGACCACCCAAAACTTCAAGGGAAGAAAGGATTTGAGAAGAAGACACTCGAAAGA
* * *
92372 TATGCAGGAGAAAATGATTGCCTGGATGGTAAAGTGAGGAAGAAGCTCAAGCGCAAGCCTGGAAG
66 CATGCAGGAGAAAATGACTGCCCGGATGGTAAAGTGAGG-AGAAG--CAAGCGCAAGCCTGGAAG
* *
92437 ACCACCCAAGGTACTGGGCAATGGCGGGTCTGTAAAGAAAAGATTTATTATAGAGGCAGGAGAGA
128 ACCACCCAAGGTACTGGGCAATGACGGGTCTGTAAAGAAAAGATTTATTATAGAAGCAGGAGAGA
*
92502 GTGATTGCTATGATGAGGATACAACTAAGGAATCTAAGGG
193 GTAATTGCTATGATGAGGATACAACTAAGGAATCTAAGGG
** ** * * *
92542 TAAGCGTGGGAGACCACCC-AAGTTTCAAGGGAAGACGGGGTTTGAGAGGAAGACACTTGAGAAG
1 TAAGCGTGGGAGACCACCCAAAACTTCAAGGGAAGAAAGGATTTGAGAAGAAGACACTCGA-AAG
* * * *
92606 -CATGTAGGAGAGAATGACTGCCCGGGTGGTAAAGTGA-G-GAAG-AAGCGCAAGCGTGGAAGAC
65 ACATGCAGGAGAAAATGACTGCCCGGATGGTAAAGTGAGGAGAAGCAAGCGCAAGCCTGGAAGAC
* * *
92667 CACCCAAGGTACTGGGCAATGATGGG-CTTGTAAAG-AAAGAATTTATTCTAGAAGCAGGGGAGA
130 CACCCAAGGTACTGGGCAATGACGGGTC-TGTAAAGAAAAG-ATTTATTATAGAAGCAGGAGAGA
* * *
92730 GTAATTGCTCTGTTGAGGATACAACTAAGGACTCTAAGGG
193 GTAATTGCTATGATGAGGATACAACTAAGGAATCTAAGGG
*
92770 TAAGCGTGGTAGACCAC
1 TAAGCGTGGGAGACCAC
92787 GGAAGGTGCA
Statistics
Matches: 216, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
227 5 0.02
228 121 0.56
231 4 0.02
233 1 0.00
234 64 0.30
235 21 0.10
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (232 bp):
TAAGCGTGGGAGACCACCCAAAACTTCAAGGGAAGAAAGGATTTGAGAAGAAGACACTCGAAAGA
CATGCAGGAGAAAATGACTGCCCGGATGGTAAAGTGAGGAGAAGCAAGCGCAAGCCTGGAAGACC
ACCCAAGGTACTGGGCAATGACGGGTCTGTAAAGAAAAGATTTATTATAGAAGCAGGAGAGAGTA
ATTGCTATGATGAGGATACAACTAAGGAATCTAAGGG
Found at i:102561 original size:19 final size:19
Alignment explanation
Indices: 102512--102555 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
102502 CATACCATTT
102512 TTTTTTGTAATTTTTCTGA
1 TTTTTTGTAATTTTTCTGA
102531 TTTTTTGTAATTTTTCTGA
1 TTTTTTGTAATTTTTCTGA
102550 TTTTTT
1 TTTTTT
102556 TAAATTCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.73
Consensus pattern (19 bp):
TTTTTTGTAATTTTTCTGA
Found at i:106417 original size:63 final size:63
Alignment explanation
Indices: 106318--106446 Score: 258
Period size: 63 Copynumber: 2.0 Consensus size: 63
106308 GAAACCGCCA
106318 GCAACAATGATCTTTCCCTTCAAAACACAGCATGCAAACATGGCACGAGGTAAGATCATGGAT
1 GCAACAATGATCTTTCCCTTCAAAACACAGCATGCAAACATGGCACGAGGTAAGATCATGGAT
106381 GCAACAATGATCTTTCCCTTCAAAACACAGCATGCAAACATGGCACGAGGTAAGATCATGGAT
1 GCAACAATGATCTTTCCCTTCAAAACACAGCATGCAAACATGGCACGAGGTAAGATCATGGAT
106444 GCA
1 GCA
106447 GATTGAGCCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (63 bp):
GCAACAATGATCTTTCCCTTCAAAACACAGCATGCAAACATGGCACGAGGTAAGATCATGGAT
Found at i:113018 original size:58 final size:59
Alignment explanation
Indices: 112948--113085 Score: 192
Period size: 60 Copynumber: 2.3 Consensus size: 59
112938 CTGTGATTAT
112948 CAAGAACAGACACATACGCAA-ACGAATAACTGCATACTTA-AAAA-AATGAAAAAAAAAA
1 CAAGAACAGACACATACGCAATACGAATAACTGCATACTTAGAAAAGAA--AAAAAAAAAA
* * *
113006 CAAGAACAGACACATACGAAATTACGAATAACTGTATACTTAGAAAAGAAAAAAAAGAAA
1 CAAGAACAGACACATACGCAA-TACGAATAACTGCATACTTAGAAAAGAAAAAAAAAAAA
*
113066 CAAGAACAAACACATACGCA
1 CAAGAACAGACACATACGCA
113086 CGAATTGTGG
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
58 20 0.28
60 45 0.63
61 4 0.06
62 2 0.03
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (59 bp):
CAAGAACAGACACATACGCAATACGAATAACTGCATACTTAGAAAAGAAAAAAAAAAAA
Found at i:127888 original size:30 final size:31
Alignment explanation
Indices: 127810--127894 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
127800 AAACATACAT
* *
127810 GATTAAAATAATAAAAATAGCAA-TAAAAGG
1 GATTAAAATAGTAAAAATAGAAACTAAAAGG
* * * *
127840 GATCAAAAT-GGATGAAATAAAAACTAAAA-G
1 GATTAAAATAGTA-AAAATAGAAACTAAAAGG
127870 GATTAAAATAGTAAAAATAGAAACT
1 GATTAAAATAGTAAAAATAGAAACT
127895 TATGAGTCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
29 1 0.02
30 34 0.81
31 7 0.17
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.20
Consensus pattern (31 bp):
GATTAAAATAGTAAAAATAGAAACTAAAAGG
Found at i:129369 original size:25 final size:25
Alignment explanation
Indices: 129338--129457 Score: 231
Period size: 25 Copynumber: 4.8 Consensus size: 25
129328 CAGTTGGGGA
129338 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
129363 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
129388 TTAGGGTTTGAAACCCTAAACTGATT
1 TTAGGGTTTGAAACCCTAAACTGA-T
129414 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
129439 TTAGGGTTTGAAACCCTAA
1 TTAGGGTTTGAAACCCTAA
129458 TCTGGTGGGT
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
25 69 0.73
26 25 0.27
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:129438 original size:51 final size:50
Alignment explanation
Indices: 129338--129457 Score: 231
Period size: 51 Copynumber: 2.4 Consensus size: 50
129328 CAGTTGGGGA
129338 TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGAT
129388 TTAGGGTTTGAAACCCTAAACTGATTTTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGA-TTTAGGGTTTGAAACCCTAAACTGAT
129439 TTAGGGTTTGAAACCCTAA
1 TTAGGGTTTGAAACCCTAA
129458 TCTGGTGGGT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
50 24 0.35
51 45 0.65
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (50 bp):
TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGAT
Found at i:129554 original size:3 final size:3
Alignment explanation
Indices: 129540--129580 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
129530 TAATATGTAA
129540 AAT AATT AAT AAT AAT AATT AAT AAT AAT AA- AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
129581 ATAAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.12
3 24 0.71
4 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:129558 original size:13 final size:13
Alignment explanation
Indices: 129540--129570 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
129530 TAATATGTAA
129540 AATAATTAATAAT
1 AATAATTAATAAT
129553 AATAATTAATAAT
1 AATAATTAATAAT
129566 AATAA
1 AATAA
129571 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAATTAATAAT
Found at i:129579 original size:13 final size:14
Alignment explanation
Indices: 129537--129591 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
129527 ATGTAATATG
129537 TAAAATAATTAATAA
1 TAAAATAA-TAATAA
129552 TAATAATTAATAATAA
1 TAA-AA-TAATAATAA
129568 TAAAATAA-AATAAA
1 TAAAATAATAAT-AA
129582 TAAAA-AATAA
1 TAAAATAATAA
129592 ATATAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.14
14 12 0.33
15 5 0.14
16 11 0.31
17 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATAATAATAA
Found at i:129597 original size:17 final size:17
Alignment explanation
Indices: 129537--129598 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 17
129527 ATGTAATATG
*
129537 TAAAATAATTAATAATAA
1 TAAAATAAATAATAA-AA
129555 TAATTAAT-AATAATAAAA
1 TAA--AATAAATAATAAAA
129573 TAAAATAAATAA-AAAA
1 TAAAATAAATAATAAAA
129589 TAAATATAAA
1 TAAA-ATAAA
129599 AGACCCGGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 11 0.28
17 10 0.26
18 8 0.21
19 7 0.18
20 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAAATAATAAAA
Found at i:129987 original size:87 final size:92
Alignment explanation
Indices: 129828--130124 Score: 385
Period size: 94 Copynumber: 3.2 Consensus size: 92
129818 GGTCAAGGGA
* * * *
129828 TGACACGACTCATACGCGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGCCATC-TT-AGAAGGGTGATAACTCGGTTCCTA
*
129893 CGTGATGAGGACGGCTGATTATC-A-GGT
64 CGTGATGAGGACGGCTGGTTATCTATGGT
* *
129920 TGACACGGCTCTTACGTGATGAAGAGATCTGGCCATC-TA-AA-GGTGATAACACGGTTCCTACG
1 TGACACGGCTCATACGTGATGAAGAGATCTGGCCATCTTAGAAGGGTGATAACTCGGTTCCTACG
129982 TGATGAGGACGGCTGGTTATCTATGGT
66 TGATGAGGACGGCTGGTTATCTATGGT
*
130009 TGACACGGCTCATACATGATGAAGA-ACTCTGGCCATCGTTAGGAAGGGTGATAACTCGGTTCCT
1 TGACACGGCTCATACGTGATGAAGAGA-TCTGGCCATC-TTA-GAAGGGTGATAACTCGGTTCCT
130073 ACGTGATGAGGACGGCTGGTTATCCTAAT-GT
63 ACGTGATGAGGACGGCTGGTTAT-CT-ATGGT
* *
130104 TGACAC-TCTCCTACGTGATGA
1 TGACACGGCTCATACGTGATGA
130125 GGACGGCTGG
Statistics
Matches: 182, Mismatches: 13, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
87 40 0.22
88 4 0.02
89 37 0.20
90 1 0.01
91 2 0.01
92 32 0.18
93 2 0.01
94 52 0.29
95 10 0.05
96 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (92 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGCCATCTTAGAAGGGTGATAACTCGGTTCCTACG
TGATGAGGACGGCTGGTTATCTATGGT
Found at i:130178 original size:43 final size:43
Alignment explanation
Indices: 130069--130170 Score: 204
Period size: 43 Copynumber: 2.4 Consensus size: 43
130059 ATAACTCGGT
130069 TCCTACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTC
1 TCCTACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTC
130112 TCCTACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTC
1 TCCTACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTC
130155 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
130171 GATCTGGTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (43 bp):
TCCTACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTC
Found at i:144835 original size:25 final size:25
Alignment explanation
Indices: 144804--144923 Score: 231
Period size: 25 Copynumber: 4.8 Consensus size: 25
144794 CAGTTGGGGA
144804 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
144829 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
144854 TTAGGGTTTGAAACCCTAAACTGATT
1 TTAGGGTTTGAAACCCTAAACTGA-T
144880 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
144905 TTAGGGTTTGAAACCCTAA
1 TTAGGGTTTGAAACCCTAA
144924 TCTGGTGGGT
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
25 69 0.73
26 25 0.27
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:144904 original size:51 final size:50
Alignment explanation
Indices: 144804--144923 Score: 231
Period size: 51 Copynumber: 2.4 Consensus size: 50
144794 CAGTTGGGGA
144804 TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGAT
144854 TTAGGGTTTGAAACCCTAAACTGATTTTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGA-TTTAGGGTTTGAAACCCTAAACTGAT
144905 TTAGGGTTTGAAACCCTAA
1 TTAGGGTTTGAAACCCTAA
144924 TCTGGTGGGT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
50 24 0.35
51 45 0.65
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (50 bp):
TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGAT
Found at i:145014 original size:3 final size:3
Alignment explanation
Indices: 145006--145042 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
144996 TAATATGTAA
145006 AAT AAT AAT AAT AATT AAT AAT AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
145043 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:145041 original size:13 final size:14
Alignment explanation
Indices: 145003--145053 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
144993 ATGTAATATG
145003 TAAAATAATAATAA
1 TAAAATAATAATAA
*
145017 T-AATTAATAATAA
1 TAAAATAATAATAA
145030 TAAAATAA-AATAAA
1 TAAAATAATAAT-AA
145044 TAAAA-AATAA
1 TAAAATAATAA
145054 ATATAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 17 0.53
14 15 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAATAATAATAA
Found at i:145041 original size:16 final size:16
Alignment explanation
Indices: 145003--145059 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
144993 ATGTAATATG
145003 TAAAATAATAATAATAA
1 TAAAATAATAATAA-AA
*
145020 T-TAATAATAATAAAA
1 TAAAATAATAATAAAA
145035 TAAAATAAATAA-AAAA
1 TAAAAT-AATAATAAAA
145051 TAAATATAA
1 TAAA-ATAA
145060 AAGACCCGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 3 0.09
16 24 0.69
17 8 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATAATAATAAAA
Found at i:145052 original size:27 final size:27
Alignment explanation
Indices: 145003--145061 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
144993 ATGTAATATG
**
145003 TAAAATAATAATAATAATTAAT-AATAA
1 TAAAATAATAATAATAAAAAATAAAT-A
145030 TAAAATAA-AATAAATAAAAAATAAATA
1 TAAAATAATAAT-AATAAAAAATAAATA
145057 TAAAA
1 TAAAA
145062 GACCCGGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (27 bp):
TAAAATAATAATAATAAAAAATAAATA
Found at i:149620 original size:22 final size:23
Alignment explanation
Indices: 149590--149632 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
149580 TTAATGGGTA
149590 TTTTCTTGTCTTCTGCCCATTTG
1 TTTTCTTGTCTTCTGCCCATTTG
* *
149613 TTTT-TTGTTTTCTTCCCATT
1 TTTTCTTGTCTTCTGCCCATT
149633 ATTGAAATTG
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:0.05, C:0.23, G:0.09, T:0.63
Consensus pattern (23 bp):
TTTTCTTGTCTTCTGCCCATTTG
Found at i:149703 original size:2 final size:2
Alignment explanation
Indices: 149696--149727 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
149686 AAACAGCTCC
*
149696 GA GA GA GA GA GG GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
149728 AGGAGAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:155000 original size:887 final size:881
Alignment explanation
Indices: 153045--156538 Score: 3068
Period size: 855 Copynumber: 4.0 Consensus size: 881
153035 TAATGTGCTC
* * * * *
153045 GAGAATTCCCTTTTTGATGCAAATGCTGAACTTGGAGGATTGAGGGTACAA-TTGAAGAAC-TTA
1 GAGAATTCCCTTTGTGATGCAAATGCTGAACTTGAAGGATTAAGGGCA-AAGTT-AAGAGCGTTA
* * * * * * *
153108 GAAAATTCGTGCCTGCAGCTTAGTGATGAGAAGTCTGGCATGATAACACAAAGAGAAAGTTTGAT
64 GAAAATTCATGCCTGCTGCTTGGTGATGAGAAGTTTGGCTTGATAACACAGAGAGAAGGTTTGAT
* * *
153173 TTCTGAGTTGAATGTCGGTCAGAAAAGGCTGGAAGATTTGGAAAAACTATATCAGGGCTTAGAAG
129 TTCTGAGTTGAATGTCAGTCAGAAAAGGCTGGAAGATTTGGAAAAA-GATATCAGGGATTAGAAG
* * *
153238 AAAAACATGTGGCCCTGGAGAAAGAGAGAAGAATCAACAGTTCGTGAAGTAGAAGAGCTACAAAA
193 AAAAACATGTGGGCCTGGAGAAAGAGAG-AGAATCAAC-TTTCATGAAGTAGAAGAGCTACAAAA
* * * *
153303 GTCACTAGATGCTGAAAAACAAGAACATGCTAGTGTTGTGAAATTGAATGAAACCCGGGTTACTG
256 GTCACTAGATGCTGAAAAACAAGAACATGCTAGTTTTGTGAAGTTGAATGAAACCCTGGTTACTT
* * * * *
153368 CTATGGAATCTCAGATTCATTTTCTGCAAGGGGAAAGTGTGTGCCGAAAGAAAGAATATGAAGAG
321 CTATGGAATCTCAAATCCATTTTCTACAAGGGGAAAGTCTATG-CGAAAGAAAGAATATGAAGAG
* * * * * **
153433 GAACTGGAC-TGGTCCATTATTTCTCATGTAGAAACCTTCATCTTGCAGAAATGTGCGGAAGATC
385 CAACTGGACAAGG-CCATGA-TGCTCATGTAGAAACCTTCATCTTGCAGAAATGCGCACAAGATC
* * * *
153497 TGGAAGAGAAAAATTTATCCCTACTGCTTGAATGTAGGAAACTCCTGGAAGCCTCCAAATTATCT
448 TGGAAGAGAAAAATTTATCCCTA-TGATTGAGTGTAGGAAGCTCTTGGAAGCCTCCAAATTATC-
* * * *
153562 GAAAAACTTATTTCAGAATTGGAGCTTGGAAATTCCA-AAAAGGATATGGAGATAAAATCCTTAT
511 AAAAAACTTATCTCAGAATTGGAGCTTGGAAATTCCACAAAA-CAGATGGAGATAAAATCCTTAT
* * * * * * *
153626 TTGATCAAATTACCATAATGAGGATGGGGATTCATCAAATGTCGAGGACCCTTGAGATTGA--C-
575 TTGATCAAATTACTATACTGAGGATGGGGCTTTATCAAATGTCGAAGACTCTAGAGATTGATGCT
* * * * ** *
153688 GTCCATGCTTCTAATGATATTATCAAACAAGATCAAGT-AATTCTTGACTGTATATTTGGCAGGC
640 ATCCATGGTTATGATGATACAATCAAACAAGACCAA-TCAATTCTTGACTGTATATTTGGCAGGC
* * * * *
153752 TCCAAAAGATGCAAAACTCACATT-TAAAGTCTCTAGATGAAAACCAGCAGTTCGTAATTGAAAA
704 TCCAAAAGATGCAAAATTCAC-TTCTAAAGTCTCTAGATGAAAATCAGCAATTCATAATTGAGAA
* * * * *
153816 TTCAGTTCTTATTGGATTGCTTGGGCAAATGGAACTTGAGGC-GAAAAATCTTTCCACAGAGAAG
768 TTCAGTTCTTATTGGTTTGCTTGGGCAACTGAAACTTGAGGCAG-AAAATCTTGCAACAGAGAAG
* ** * *
153880 AATTCACTGCA-ATGGGAGTTGAAGGTTCAGTTTGAGCAGTTATCAGAATTG
832 AATTCACTGCATA-AGGAGTTGAAGGTTCAG-TCAAGCAGTTTTCAGAACTG
* * * * * * * * * ** * *
153931 GAGACTTCCCTTTTTAAAGCAAATGCCGAGCTAGAAGTATCAATAGCAAAGCTAAAGAGC-TTGG
1 GAGAATTCCCTTTGTGATGCAAATGCTGAACTTGAAGGATTAAGGGCAAAG-TTAAGAGCGTTAG
* * ** * *
153995 AAAGTTCATACCTGCTGCTTGGCAATGAGAAGTATGGCCTGATAACACAGAGAGAAGGTTTGATT
65 AAAATTCATGCCTGCTGCTTGGTGATGAGAAGTTTGGCTTGATAACACAGAGAGAAGGTTTGATT
* * *
154060 TCTGAGTTGAATGTCAGTCGGAAAAGGCTGGAAGACTTGGAAATAACATATCAGGGATTAGAAGA
130 TCTGAGTTGAATGTCAGTCAGAAAAGGCTGGAAGATTTGGAAA-AAGATATCAGGGATTAGAAGA
* *
154125 AAAA-ATGTGGGGCTGGAGAAAGAGAGAGAATCGA-TGCTTCATGAAGTAGAAGAGCTACAAAAG
194 AAAACATGTGGGCCTGGAGAAAGAGAGAGAATCAACT--TTCATGAAGTAGAAGAGCTACAAAAG
* * * * * * * *
154188 TCACTAAATGCAGAGAAGA-AAGAACATACTAGATTTGTGAGGTCGAATGAAGCCCTGGTTACTT
257 TCACTAGATGCTGA-AAAACAAGAACATGCTAGTTTTGTGAAGTTGAATGAAACCCTGGTTACTT
* *
154252 CTCTGGAATCTCAAATCCATTTTCTAGAAGGGGAAAGTCTATGCAGAAAGAAAGAATATG-AGAA
321 CTATGGAATCTCAAATCCATTTTCTACAAGGGGAAAGTCTATGC-GAAAGAAAGAATATGAAG-A
* * * * **
154316 GCAACTGGACAAGGCCATGAGTGCTCATGTAGAAACCTTCGTTTTGCAGAGATGTGCACGGGATC
384 GCAACTGGACAAGGCCATGA-TGCTCATGTAGAAACCTTCATCTTGCAGAAATGCGCACAAGATC
* * * * *
154381 TGGAAGAGAAGAATTTGTCCCTATTGATCGAGTGTAGGAAGCTCTTTGAAGCCTCCAAACTATCC
448 TGGAAGAGAAAAATTTATCCCTA-TGATTGAGTGTAGGAAGCTCTTGGAAGCCTCCAAATTAT-C
* * * * * * *
154446 AAAAAATTTATTTCTGAATTGGAGCTTGGTAATTCGGA-AAAACAGATGGAGATCAAATCCTTGT
511 AAAAAACTTATCTCAGAATTGGAGCTTGGAAATTC-CACAAAACAGATGGAGATAAAATCCTTAT
* * * * * *
154510 CTGATCAAATTACTATACTGAGGATGGGGCTCTATCAGATGTTGAAGACTCTAGATATGGATGCT
575 TTGATCAAATTACTATACTGAGGATGGGGCTTTATCAAATGTCGAAGACTCTAGAGATTGATGCT
* * * * * *
154575 ATGCATGGTTATGATGAGACAATCAAACAAGACCAATCAGTTCTTGATTTTATATTTTGCAGGCT
640 ATCCATGGTTATGATGATACAATCAAACAAGACCAATCAATTCTTGACTGTATATTTGGCAGGCT
* *
154640 CCAAAAGATGCAAAATTCACTTCTAAAGTCTCTGGATGAAAATCAGCAATTCACAATTGAGAATT
705 CCAAAAGATGCAAAATTCACTTCTAAAGTCTCTAGATGAAAATCAGCAATTCATAATTGAGAATT
* *
154705 CAGTTCTTATTGGTTTGCTTGGGCAACTGAAACTTGAGGCAGAAAGTCTTGCTACAGAGAA-ACA
770 CAGTTCTTATTGGTTTGCTTGGGCAACTGAAACTTGAGGCAGAAAATCTTGCAACAGAGAAGA-A
* *
154769 TTTACTGCATAAGGAGTTGAAGGTTCAGTTCAAGCAGCTTTCAGAACTG
834 TTCACTGCATAAGGAGTTGAAGGTTCAG-TCAAGCAGTTTTCAGAACTG
* ** * *
154818 GAGACTTCCCTTTGTGATGCAAACACTGAACTTGAAGGATTGAGGGCAAAGTTAA-AGCGTGCAG
1 GAGAATTCCCTTTGTGATGCAAATGCTGAACTTGAAGGATTAAGGGCAAAGTTAAGAGCGT-TAG
* * * * * *
154882 AAAACTCATGCCTACTGCTTGGTGCTGAGAAGTTTGGCTTGATAACTCAGATAGAAGGTTTGCTT
65 AAAATTCATGCCTGCTGCTTGGTGATGAGAAGTTTGGCTTGATAACACAGAGAGAAGGTTTGATT
* * * *
154947 TCTGAGTTGAATGTCAGTCAGGAAAGGCTGAAAGATTTTGAAAAGAGATATCAGAGATTAGAAGA
130 TCTGAGTTGAATGTCAGTCAGAAAAGGCTGGAAGATTTGGAAAA-AGATATCAGGGATTAGAAGA
* *** * *
155012 AAAATATGCCAGCCTGGAGAAAGA-AGGGGAATCAACTCTTCATGAAGTACAAGAGCTACAAAAG
194 AAAACATGTGGGCCTGGAGAAAGAGA-GAGAATCAACT-TTCATGAAGTAGAAGAGCTACAAAAG
** ** * *
155076 TCTTTAGATGCTGAAATGCAAAAACATGCTAGTTTTGTGAAGTTGAATGAAACCCTAGTTACTTC
257 TCACTAGATGCTGAAAAACAAGAACATGCTAGTTTTGTGAAGTTGAATGAAACCCTGGTTACTTC
* * * ** * **
155141 TATGGAGTCCCAAATCCATTTTCTACAAGGGG-AA--CT-TGAC-AAGGCCA-CATAT---GTTC
322 TATGGAATCTCAAATCCATTTTCTACAAGGGGAAAGTCTATG-CGAAAGAAAGAATATGAAGAGC
* * * * * * * * * * *
155197 -A-TGTAGAA-TCCTTCAT--T-TTGAAGAGA---T--GC--GCACAAGAT-CTG--GAAGA---
386 AACTGGACAAGGCCATGATGCTCATGTAGAAACCTTCATCTTGCAGAA-ATGC-GCACAAGATCT
* * *** ** * * * * * *
155243 GAAAAATTTATCTCTAT--C-A--CTTGAGTGTAGGAAGCTCTTGAAAGCATCCATATTATCTGA
449 GGAAGAGAAAAATTTATCCCTATGATTGAGTGTAGGAAGCTCTTGGAAGCCTCCAAATTATC-AA
* * * * *
155303 AAATCTTATCTCTGAATTGGAGATTGGGAATTCCACAAAACAGATGGAGATAAAGTCCTTATTTG
513 AAAACTTATCTCAGAATTGGAGCTTGGAAATTCCACAAAACAGATGGAGATAAAATCCTTATTTG
* * * * * * *
155368 ATCAAATTGCCGA-ATTGAGGATGGGACTTTGTCAAATGTCGAGGACTCTTGAGATTGATGCTAT
578 ATCAAATT-ACTATACTGAGGATGGGGCTTTATCAAATGTCGAAGACTCTAGAGATTGATGCTAT
** * * * * * *
155432 CCACAGTTATGATGATACGATCAGAGAAGACCAACCAACTCTTGACTGTATATTTGGC-GGTTTC
642 CCATGGTTATGATGATACAATCAAACAAGACCAATCAATTCTTGACTGTATATTTGGCAGG-CTC
* * * *
155496 CAAAAGATGCAAAATTCACTTCTAAAGTCTCTGGATGAAAATCAACAATTCATACTTAAGAATTC
706 CAAAAGATGCAAAATTCACTTCTAAAGTCTCTAGATGAAAATCAGCAATTCATAATTGAGAATTC
* * * * * *
155561 GGTTCTTATTGGTTTGCTTGAGCAACTAAAACTTGAGGCTGAAAATCTTGCAACAGAAAATAATT
771 AGTTCTTATTGGTTTGCTTGGGCAACTGAAACTTGAGGCAGAAAATCTTGCAACAGAGAAGAATT
*
155626 CACTGCATCAGGAGTTGAAGGTTCAGTCAGAGCAGTTTTCAGAACTG
836 CACTGCATAAGGAGTTGAAGGTTCAGTCA-AGCAGTTTTCAGAACTG
* * * * *
155673 GAAAATTCCCTTTGTGATTCAAATG-TCGAACTTGAAAGATTAAGGGAAAACTTAAAGAGC-TTA
1 GAGAATTCCCTTTGTGATGCAAATGCT-GAACTTGAAGGATTAAGGGCAAAGTT-AAGAGCGTTA
* * * * * * * *
155736 GAGAATTCATGCCTGTTGCTTGGTGATGAGAAG-TCGAGTTTGCTAACACATAGAGAATGCTTGA
64 GAAAATTCATGCCTGCTGCTTGGTGATGAGAAGTTTG-GCTTGATAACACAGAGAGAAGGTTTGA
* * **
155800 TGTCTGAGTTGAATGTCAGTCAGAAAAGGCTGGAAGATTTGGAGAAAAGACA-CAAGCAATTAGA
128 TTTCTGAGTTGAATGTCAGTCAGAAAAGGCTGGAAGATTTGGA-AAAAGATATC-AGGGATTAGA
** *
155864 AGAAAAACATGTGGTTCTGGAGAAAGAGAGAG-----A---T--TGAAGTAGAAGAACTA-AAAA
191 AGAAAAACATGTGGGCCTGGAGAAAGAGAGAGAATCAACTTTCATGAAGTAGAAGAGCTACAAAA
* * *
155918 GGTCCCTAGATGCTGAAAAACAAGAATATGCTAGTTTTGTGAAGTTGAATGAAACCC-GAGCTAC
256 -GTCACTAGATGCTGAAAAACAAGAACATGCTAGTTTTGTGAAGTTGAATGAAACCCTG-GTTAC
* * * ** * ** *
155982 ATCTATGGAGTCTCAGATCCATTTTCTACAAGAAGAAAATCTGCGCGTAAAGAAAGAATACGAAG
319 TTCTATGGAATCTCAAATCCATTTTCTACAAGGGGAAAGTCTATGCG-AAAGAAAGAATATGAAG
* * * * *
156047 AGGAACTGGAGAAGACCATGAATGCTCATGTAGAAACCTTCATCTTGCAGAAATGCACTCAAGAT
383 AGCAACTGGACAAGGCCATG-ATGCTCATGTAGAAACCTTCATCTTGCAGAAATGCGCACAAGAT
* * * * * * * *
156112 CTAGAAGATAATAATTTTTCCATGGTGCTTGAGTGTAGGAAGCTCTTGGAAGCCTCTAAATTATC
447 CTGGAAGAGAAAAATTTATCCCT-ATGATTGAGTGTAGGAAGCTCTTGGAAGCCTCCAAATTATC
* ** ** *
156177 AGAAGAACTTATCTCAGAATTGGAGCTTGGAAATTCCATGAAACAGACAGATATAAAATCCTTAT
511 A-AAAAACTTATCTCAGAATTGGAGCTTGGAAATTCCACAAAACAGATGGAGATAAAATCCTTAT
* * * ** * * * * *
156242 TTGACCAAATTACTGTTCTGAGGATGGGGCTTTATCAGGTGTTGAAGTCTCTTGAGATTAATGAT
575 TTGATCAAATTACTATACTGAGGATGGGGCTTTATCAAATGTCGAAGACTCTAGAGATTGATGCT
* ** * * * * * *
156307 GTCTGTGATTATGATGATACAATCCAACAAGATCAATCAGTTCTTGACTGCATATTCGGCAGGCT
640 ATCCATGGTTATGATGATACAATCAAACAAGACCAATCAATTCTTGACTGTATATTTGGCAGGCT
*** * *
156372 CTGGAAGATGCAAACTTCAATTCTAAAGTCTCTAGATG--AA--AG-------TAATTGAGAATT
705 CCAAAAGATGCAAAATTCACTTCTAAAGTCTCTAGATGAAAATCAGCAATTCATAATTGAGAATT
* * * * * * * ** *
156426 CAGTTTTTATTGGAGTT-CGTAGGCAACTGAAACTAGAAGCAGAAATTCTTGCAATGGAGAATAA
770 CAGTTCTTATTGG-TTTGCTTGGGCAACTGAAACTTGAGGCAGAAAATCTTGCAACAGAGAAGAA
* *
156490 TTCACTGCATCAGGAGTTGAAGGTTCAGTCTGAGCAGTTTTCAGAACTG
834 TTCACTGCATAAGGAGTTGAAGGTTCAGTC-AAGCAGTTTTCAGAACTG
156539 CAAAACAGAG
Statistics
Matches: 2084, Mismatches: 439, Indels: 190
0.77 0.16 0.07
Matches are distributed among these distances:
843 4 0.00
844 98 0.05
845 2 0.00
846 1 0.00
847 3 0.00
848 1 0.00
849 4 0.00
850 4 0.00
853 1 0.00
854 12 0.01
855 507 0.24
856 13 0.01
857 5 0.00
858 1 0.00
859 2 0.00
860 6 0.00
861 7 0.00
863 1 0.00
864 2 0.00
865 5 0.00
866 109 0.05
867 8 0.00
868 4 0.00
869 1 0.00
871 7 0.00
872 6 0.00
873 2 0.00
875 3 0.00
876 5 0.00
877 216 0.10
878 3 0.00
879 1 0.00
880 1 0.00
882 4 0.00
883 7 0.00
884 334 0.16
885 39 0.02
886 168 0.08
887 359 0.17
888 127 0.06
889 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (881 bp):
GAGAATTCCCTTTGTGATGCAAATGCTGAACTTGAAGGATTAAGGGCAAAGTTAAGAGCGTTAGA
AAATTCATGCCTGCTGCTTGGTGATGAGAAGTTTGGCTTGATAACACAGAGAGAAGGTTTGATTT
CTGAGTTGAATGTCAGTCAGAAAAGGCTGGAAGATTTGGAAAAAGATATCAGGGATTAGAAGAAA
AACATGTGGGCCTGGAGAAAGAGAGAGAATCAACTTTCATGAAGTAGAAGAGCTACAAAAGTCAC
TAGATGCTGAAAAACAAGAACATGCTAGTTTTGTGAAGTTGAATGAAACCCTGGTTACTTCTATG
GAATCTCAAATCCATTTTCTACAAGGGGAAAGTCTATGCGAAAGAAAGAATATGAAGAGCAACTG
GACAAGGCCATGATGCTCATGTAGAAACCTTCATCTTGCAGAAATGCGCACAAGATCTGGAAGAG
AAAAATTTATCCCTATGATTGAGTGTAGGAAGCTCTTGGAAGCCTCCAAATTATCAAAAAACTTA
TCTCAGAATTGGAGCTTGGAAATTCCACAAAACAGATGGAGATAAAATCCTTATTTGATCAAATT
ACTATACTGAGGATGGGGCTTTATCAAATGTCGAAGACTCTAGAGATTGATGCTATCCATGGTTA
TGATGATACAATCAAACAAGACCAATCAATTCTTGACTGTATATTTGGCAGGCTCCAAAAGATGC
AAAATTCACTTCTAAAGTCTCTAGATGAAAATCAGCAATTCATAATTGAGAATTCAGTTCTTATT
GGTTTGCTTGGGCAACTGAAACTTGAGGCAGAAAATCTTGCAACAGAGAAGAATTCACTGCATAA
GGAGTTGAAGGTTCAGTCAAGCAGTTTTCAGAACTG
Found at i:157688 original size:252 final size:252
Alignment explanation
Indices: 157241--157997 Score: 1013
Period size: 252 Copynumber: 3.0 Consensus size: 252
157231 GTCTGGTGAC
* *
157241 TGTGATCTTCAAAACAAGGAGATTGAAAGCATTCGTCAGGCTAATCAGAAA-TATGAGGCCGAGT
1 TGTGATCTTCAAAATAAGGAGATTGAAAGCATTCGTCAGGCTAACCAGAAACT-TGAGGCCGAGT
* * * *
157305 TATCAAAATTGCACGAGGAACTTGAAGAAAGGAAACATAGGGAGAAGAGTTCG-GGTGTGGAACT
65 TATCGAAATTGCGCGAGGAACTTGAAGAAAGGAAACATAGGGAGAAGAGTTTGAGG-GTTGAACT
*
157369 ACAAAAGGAAAGAAATGAGGTTGAACTTTGGGAGACTCAGGCTACTGCACTGTTTGGTGAGCTAC
129 ACAAAAGGAAAGAAATGAGGTTGAACTTTGGGAGACTCAGGCTACTGCATTGTTTGGTGAGCTAC
* * * * *
157434 AAATTTCTGCAT-TCCGTGAAGCATTGCTAGGAGAGAAAGCTTATGAGCTCGATGT-GGAA
194 AAATTTCTGC-TCTCCGTGAAGCATTGCTTGAAGAGAAGGCTTATGAGCTCAAT-TCAGAA
* * *
157493 TTTGATCTTCAAAATAAGGAGATTGAAAGCATTCGTCAGGCTAACCAGAAACTTGAGGCTGAATT
1 TGTGATCTTCAAAATAAGGAGATTGAAAGCATTCGTCAGGCTAACCAGAAACTTGAGGCCGAGTT
* * *
157558 ATCGAATTTGCGCGAGGAACTTGAAGAATGGAAACATAGGGTGAAGAGTTTGAGGGTTGAACTAC
66 ATCGAAATTGCGCGAGGAACTTGAAGAAAGGAAACATAGGGAGAAGAGTTTGAGGGTTGAACTAC
* *
157623 AAAAGGAAAGAAATGAGGTTGAACTTTGGGAGACTCAGGCTACCGCATTGTTTAGTGAGCTACAA
131 AAAAGGAAAGAAATGAGGTTGAACTTTGGGAGACTCAGGCTACTGCATTGTTTGGTGAGCTACAA
*
157688 ATTTCTGCTCTCCGTGAAGCATTGCTTGAAGAGAAGGCTTGTGAGCTCAATTCAGAA
196 ATTTCTGCTCTCCGTGAAGCATTGCTTGAAGAGAAGGCTTATGAGCTCAATTCAGAA
* * * **
157745 TGTGATCTTAAAAATAAGGAGATTGAAAGCATTCGTCAGACTAACCAGAAACTTGTGGGGGAGTT
1 TGTGATCTTCAAAATAAGGAGATTGAAAGCATTCGTCAGGCTAACCAGAAACTTGAGGCCGAGTT
* * * * *
157810 ATCGAAATTGCTG-GAGGAACTTCAAGAACGGAAACTTAGGGAGGAGAGTTTGCA-TGTTGAACT
66 ATCGAAATTGC-GCGAGGAACTTGAAGAAAGGAAACATAGGGAGAAGAGTTTG-AGGGTTGAACT
* * * **
157873 ACAAAAGGGAAGAAATGAGGTTGAAGTTTGGTAGACTCAGGCTACTGCATTAATTGGTGAGCTAC
129 ACAAAAGGAAAGAAATGAGGTTGAACTTTGGGAGACTCAGGCTACTGCATTGTTTGGTGAGCTAC
* * * ** * * * *
157938 AGATATCTGCTGTCTATGAAGCATTGCTTGAAGAGAAGGCTTGTGAACTCAGTACAGAA
194 AAATTTCTGCTCTCCGTGAAGCATTGCTTGAAGAGAAGGCTTATGAGCTCAATTCAGAA
157997 T
1 T
157998 ATGAAGTACT
Statistics
Matches: 449, Mismatches: 50, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
251 2 0.00
252 442 0.98
253 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (252 bp):
TGTGATCTTCAAAATAAGGAGATTGAAAGCATTCGTCAGGCTAACCAGAAACTTGAGGCCGAGTT
ATCGAAATTGCGCGAGGAACTTGAAGAAAGGAAACATAGGGAGAAGAGTTTGAGGGTTGAACTAC
AAAAGGAAAGAAATGAGGTTGAACTTTGGGAGACTCAGGCTACTGCATTGTTTGGTGAGCTACAA
ATTTCTGCTCTCCGTGAAGCATTGCTTGAAGAGAAGGCTTATGAGCTCAATTCAGAA
Found at i:158283 original size:198 final size:198
Alignment explanation
Indices: 157945--158342 Score: 796
Period size: 198 Copynumber: 2.0 Consensus size: 198
157935 TACAGATATC
157945 TGCTGTCTATGAAGCATTGCTTGAAGAGAAGGCTTGTGAACTCAGTACAGAATATGAAGTACTTG
1 TGCTGTCTATGAAGCATTGCTTGAAGAGAAGGCTTGTGAACTCAGTACAGAATATGAAGTACTTG
158010 AAAGTAGATGTCAGTCCAAAGCTATGGAAGTAGAAGAGCTGGGAAAAAGTGTTAAAATCTTAGAA
66 AAAGTAGATGTCAGTCCAAAGCTATGGAAGTAGAAGAGCTGGGAAAAAGTGTTAAAATCTTAGAA
158075 TGTGAGAATGAAGGGCTTAAAGATCAGTTGGCAGCATATGTTCCGGCTGTTGTTTCTCTCATGGA
131 TGTGAGAATGAAGGGCTTAAAGATCAGTTGGCAGCATATGTTCCGGCTGTTGTTTCTCTCATGGA
158140 CAG
196 CAG
158143 TGCTGTCTATGAAGCATTGCTTGAAGAGAAGGCTTGTGAACTCAGTACAGAATATGAAGTACTTG
1 TGCTGTCTATGAAGCATTGCTTGAAGAGAAGGCTTGTGAACTCAGTACAGAATATGAAGTACTTG
158208 AAAGTAGATGTCAGTCCAAAGCTATGGAAGTAGAAGAGCTGGGAAAAAGTGTTAAAATCTTAGAA
66 AAAGTAGATGTCAGTCCAAAGCTATGGAAGTAGAAGAGCTGGGAAAAAGTGTTAAAATCTTAGAA
158273 TGTGAGAATGAAGGGCTTAAAGATCAGTTGGCAGCATATGTTCCGGCTGTTGTTTCTCTCATGGA
131 TGTGAGAATGAAGGGCTTAAAGATCAGTTGGCAGCATATGTTCCGGCTGTTGTTTCTCTCATGGA
158338 CAG
196 CAG
158341 TG
1 TG
158343 TGATGTCTTT
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 200 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (198 bp):
TGCTGTCTATGAAGCATTGCTTGAAGAGAAGGCTTGTGAACTCAGTACAGAATATGAAGTACTTG
AAAGTAGATGTCAGTCCAAAGCTATGGAAGTAGAAGAGCTGGGAAAAAGTGTTAAAATCTTAGAA
TGTGAGAATGAAGGGCTTAAAGATCAGTTGGCAGCATATGTTCCGGCTGTTGTTTCTCTCATGGA
CAG
Found at i:162445 original size:2 final size:2
Alignment explanation
Indices: 162438--162465 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
162428 CCTCACATTA
162438 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
162466 TAATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:164256 original size:280 final size:278
Alignment explanation
Indices: 163768--164308 Score: 877
Period size: 280 Copynumber: 1.9 Consensus size: 278
163758 ATTAATAGAA
* * * *
163768 TCTTAGTCCATGATGGAAAACGTTGGTCAAAGGGTTACATTAGATTCTTTTTTTTTTGAATTGGA
1 TCTTAGTCAATGATAGAAAACGTTGGTCAAAGGGTCACATTAAATTC--TTTTTTTTGAATTGGA
* ** * * *
163833 GGATCACAGTGATCTAAAAAAGCGATAGGGGCGCATTGTTTTTTTTTTTATTTGGAGGGCCTTTG
64 GGATCACAGTGATCCAAAAAAGCGATAGGACCACATTGTTTTTTTTTTAATTTGGAGGGCCTATG
** * *
163898 ATGGTTTTTTACCAAACATAAAGTGTATTCTTTAGGGAGCAAATGAACAGTTAACCTTAAATCTT
129 ATGCCTTTTTACCAAACATAAAGTGTATTCTTTAGGGAGCAAATGAACACTTAACCTTAAATCAT
163963 TGACCCAATCAATTAAATTAATTAATTAATGTATATTGAAGGTGAAAGAATTTATATCTAATTAT
194 TGACCCAATCAATTAAATTAATTAATTAATGTATATTGAAGGTGAAAGAATTTATATCTAATTAT
164028 AATAGCGGGAATTAACGGAG
259 AATAGCGGGAATTAACGGAG
*
164048 TCTTAGTCAATGATAGAAAACGTTGGTCAAATGGTCACATTAAATTC-TTTTTTTGAATTGGAGG
1 TCTTAGTCAATGATAGAAAACGTTGGTCAAAGGGTCACATTAAATTCTTTTTTTTGAATTGGAGG
*
164112 ATCACATTGATCCAAAAAAGCGATAGGAACCACATTGTTTTTATTTTTAATTTGGAGGGCCTATG
66 ATCACAGTGATCCAAAAAAGCGATAGG-ACCACATTGTTTTT-TTTTTAATTTGGAGGGCCTATG
164177 ATGCCTTTTTACCAAACATAAAGTGTATTCTTTAGGGAGCAAATGAACACTTAAACCTTAAATCA
129 ATGCCTTTTTACCAAACATAAAGTGTATTCTTTAGGGAGCAAATGAACACTT-AACCTTAAATCA
*
164242 TTGACCCAATCAATTAAATTAATTAATTAATGTATATTGAATGTGAAAGAATTTATATCTAATTA
193 TTGACCCAATCAATTAAATTAATTAATTAATGTATATTGAAGGTGAAAGAATTTATATCTAATTA
164307 TA
258 TA
164309 CCAAATATAT
Statistics
Matches: 241, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
277 42 0.17
278 11 0.05
279 69 0.29
280 119 0.49
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (278 bp):
TCTTAGTCAATGATAGAAAACGTTGGTCAAAGGGTCACATTAAATTCTTTTTTTTGAATTGGAGG
ATCACAGTGATCCAAAAAAGCGATAGGACCACATTGTTTTTTTTTTAATTTGGAGGGCCTATGAT
GCCTTTTTACCAAACATAAAGTGTATTCTTTAGGGAGCAAATGAACACTTAACCTTAAATCATTG
ACCCAATCAATTAAATTAATTAATTAATGTATATTGAAGGTGAAAGAATTTATATCTAATTATAA
TAGCGGGAATTAACGGAG
Found at i:164339 original size:26 final size:25
Alignment explanation
Indices: 164310--164375 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 25
164300 CTAATTATAC
164310 CAAATATATATTTTTAAATAAAATAT
1 CAAATATATA-TTTTAAATAAAATAT
* *
164336 C-AA-ATA-AGTTTAAGTAAAATAT
1 CAAATATATATTTTAAATAAAATAT
*
164358 GAAATATATAATTTTAAA
1 CAAATATAT-ATTTTAAA
164376 AATATATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
22 13 0.42
23 3 0.10
24 6 0.19
25 2 0.06
26 7 0.23
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (25 bp):
CAAATATATATTTTAAATAAAATAT
Found at i:164415 original size:22 final size:23
Alignment explanation
Indices: 164360--164416 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
164350 TAAAATATGA
164360 AATATATAATTTTAAAAATATATTT
1 AATAT-TAA-TTTAAAAATATATTT
* *
164385 AATACTAATTTAAAAGTATA-TT
1 AATATTAATTTAAAAATATATTT
*
164407 CATATTAATT
1 AATATTAATT
164417 AATGCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 10 0.36
23 11 0.39
24 3 0.11
25 4 0.14
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
AATATTAATTTAAAAATATATTT
Found at i:169633 original size:34 final size:35
Alignment explanation
Indices: 169569--169636 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
169559 TTTTTATATT
169569 TTTAATTTTGTAAAAAAATTATATAAAAATTATTAA
1 TTTAATTTTGTAAAAAAATTATAT-AAAATTATTAA
*
169605 TTTAATTTTTTAAATAAAA-TATAT-AAATTATT
1 TTTAATTTTGTAAA-AAAATTATATAAAATTATT
169637 TATAACTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 8 0.27
36 18 0.60
37 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
TTTAATTTTGTAAAAAAATTATATAAAATTATTAA
Found at i:170312 original size:27 final size:26
Alignment explanation
Indices: 170257--170306 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
170247 TTATTTTTGT
* *
170257 TAATAAAAAAAATGTCATATGTTGAG
1 TAATAAAAAAAATGTCATACGTAGAG
*
170283 TAATGAAAAAAATGTCATACGTAG
1 TAATAAAAAAAATGTCATACGTAG
170307 TTGTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (26 bp):
TAATAAAAAAAATGTCATACGTAGAG
Found at i:170500 original size:72 final size:72
Alignment explanation
Indices: 170411--170554 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
170401 CGCACACTCT
170411 TGCGGTTTTTTCCCACTATTTTAAATTTAATAAAACTTATTAATAATTTATAAATAATATTAGTT
1 TGCGGTTTTTTCCCACTATTTTAAATTTAATAAAACTTATTAATAATTTATAAATAATATTAGTT
170476 GAATTAA
66 GAATTAA
170483 TGCGGTTTTTTCCCACTATTTTAAATTTAATAAAACTTATTAATAATTTATAAATAATATTAGTT
1 TGCGGTTTTTTCCCACTATTTTAAATTTAATAAAACTTATTAATAATTTATAAATAATATTAGTT
170548 GAATTAA
66 GAATTAA
170555 AATAATTTAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (72 bp):
TGCGGTTTTTTCCCACTATTTTAAATTTAATAAAACTTATTAATAATTTATAAATAATATTAGTT
GAATTAA
Found at i:175541 original size:17 final size:17
Alignment explanation
Indices: 175519--175557 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
175509 ATAATTGAAA
*
175519 ATTATCTTTAAATATAT
1 ATTATCTTTAAATATAC
175536 ATTATCTTTAAATATAC
1 ATTATCTTTAAATATAC
175553 ATTAT
1 ATTAT
175558 ATTATATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATCTTTAAATATAC
Found at i:176926 original size:16 final size:16
Alignment explanation
Indices: 176901--176934 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
176891 TTAAAATTCG
176901 ATTTCATTTAATAATT
1 ATTTCATTTAATAATT
* *
176917 ATTTCTTTTATTAATT
1 ATTTCATTTAATAATT
176933 AT
1 AT
176935 ATTTATTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTCATTTAATAATT
Found at i:183661 original size:20 final size:20
Alignment explanation
Indices: 183624--183662 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
183614 TTCCCCTTTC
*
183624 AAAAGGAAAGAAAAGCAAAG
1 AAAAGAAAAGAAAAGCAAAG
* *
183644 AAAAGAAAATAAAGGCAAA
1 AAAAGAAAAGAAAAGCAAA
183663 TAGCTAAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.21, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAGAAAAGCAAAG
Found at i:185994 original size:21 final size:21
Alignment explanation
Indices: 185970--186115 Score: 127
Period size: 21 Copynumber: 7.1 Consensus size: 21
185960 GCAAATTCGC
185970 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
185991 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
186011 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
186032 GTTGAAAATCGCGTTGCGCT-
1 GTTGCATTTCGCGTTGCGATA
* *
186052 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
186073 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
186093 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
186114 GT
1 GT
186116 CTACAGTTGT
Statistics
Matches: 91, Mismatches: 31, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
20 44 0.48
21 47 0.52
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:186019 original size:41 final size:41
Alignment explanation
Indices: 185974--186115 Score: 266
Period size: 41 Copynumber: 3.5 Consensus size: 41
185964 ATTCGCGTTG
*
185974 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
*
186015 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGCTTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
186056 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
186097 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
186116 CTACAGTTGT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
Found at i:186140 original size:22 final size:22
Alignment explanation
Indices: 186084--186179 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 22
186074 TTGAAAATCG
*
186084 CGTTGCGATTTT-T-CATTTCG-
1 CGTTGCGATTTTCTACAGTT-GT
**
186104 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCTACAGTTGT
* *
186126 CGTTGCAATTTTCTA-A-AT-T
1 CGTTGCGATTTTCTACAGTTGT
**
186145 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCTACAGTTGT
186167 CGTTGCGATTTTC
1 CGTTGCGATTTTC
186180 CAAATTCGTT
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
19 13 0.23
20 12 0.21
21 4 0.07
22 28 0.49
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.43
Consensus pattern (22 bp):
CGTTGCGATTTTCTACAGTTGT
Found at i:186149 original size:41 final size:41
Alignment explanation
Indices: 186104--186189 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
186094 TTTCATTTCG
*
186104 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCTAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATT
*
186145 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATT
186186 CGTT
1 CGTT
186190 AAAAAAAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATT
Found at i:186149 original size:82 final size:81
Alignment explanation
Indices: 185981--186156 Score: 230
Period size: 82 Copynumber: 2.1 Consensus size: 81
185971 TTGCATTTCG
185981 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGT
1 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGT
** * *
186046 TGCGCTTTTTCATTTC
66 TGCAATTTTTAAATTC
* * * *
186062 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTCT-ACAGTTGT
1 -CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
186126 CGTTGCAATTTTCTAAATT-
63 CGTTGCAATTTT-TAAATTC
186145 CGTTGCGATAGT
1 CGTTGCGATAGT
186157 CTACAGTTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
82 68 0.82
83 11 0.13
84 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (81 bp):
CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGT
TGCAATTTTTAAATTC
Found at i:186767 original size:6 final size:6
Alignment explanation
Indices: 186746--186788 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
186736 GTCCGTCTCG
*
186746 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCAT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
186789 AATACGTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.02, C:0.16, G:0.51, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:186931 original size:19 final size:20
Alignment explanation
Indices: 186873--186956 Score: 93
Period size: 19 Copynumber: 4.2 Consensus size: 20
186863 TAACTATCAT
186873 AACGAA-TTTAGAAAATCGC
1 AACGAACTTTAGAAAATCGC
* **
186892 AACGACAACTGTAGACTATCGC
1 AACG--AACTTTAGAAAATCGC
186914 AACGAA-TTTAGAAAATCGC
1 AACGAACTTTAGAAAATCGC
*
186933 AACGAATTTTA-AAAATCGC
1 AACGAACTTTAGAAAATCGC
186952 AACGA
1 AACGA
186957 CAACTGTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
19 33 0.60
20 6 0.11
21 2 0.04
22 14 0.25
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.20
Consensus pattern (20 bp):
AACGAACTTTAGAAAATCGC
Found at i:186988 original size:60 final size:61
Alignment explanation
Indices: 186873--186997 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 61
186863 TAACTATCAT
*
186873 AACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATTTAG-AAAATCGC
1 AACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATATAGAAAAATCGC
186933 AACGAATTTTA-AAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-AT-GAAAAATCGC
1 AACGAA-TTTAGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATATAGAAAAATCGC
186994 AACG
1 AACG
186998 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
60 39 0.65
61 17 0.28
62 4 0.07
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (61 bp):
AACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATATAGAAAAATCGC
Found at i:187035 original size:19 final size:20
Alignment explanation
Indices: 186969--187040 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
186959 ACTGTAGACT
186969 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
186989 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
187009 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
*
187029 AT-TCAACGCGAA
1 ATCGCAACGCGAA
187041 TTTGCGATAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 9 0.18
20 42 0.82
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:191456 original size:31 final size:31
Alignment explanation
Indices: 191401--191470 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
191391 TTGTTTAGAA
*
191401 TTTACCCC-TCATTTTCTATGATTAATTATAC
1 TTTACCCCGT-ATTTTCTATAATTAATTATAC
* * *
191432 TTTGCCCCGTATTTTTTATAATTAATTATAT
1 TTTACCCCGTATTTTCTATAATTAATTATAC
191463 TTTACCCC
1 TTTACCCC
191471 TTTGAGTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.04, T:0.50
Consensus pattern (31 bp):
TTTACCCCGTATTTTCTATAATTAATTATAC
Found at i:195964 original size:20 final size:20
Alignment explanation
Indices: 195928--195965 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
195918 ATCCTATTCC
**
195928 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
195948 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
195966 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:209880 original size:21 final size:21
Alignment explanation
Indices: 209856--209943 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
209846 AATTTACCCT
209856 ATTAAATATCATAAAATAATC
1 ATTAAATATCATAAAATAATC
* *
209877 ATTAAAT-TTATTAAA-AAT-
1 ATTAAATATCATAAAATAATC
* *
209895 ATAAAATAATCACTAAAAT--TA
1 ATTAAAT-ATCA-TAAAATAATC
* * *
209916 ATTAATTATTATAAAACAATC
1 ATTAAATATCATAAAATAATC
209937 ATTAAAT
1 ATTAAAT
209944 TTTAAGAAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
18 6 0.12
19 8 0.16
20 12 0.24
21 23 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAATATCATAAAATAATC
Found at i:209889 original size:30 final size:29
Alignment explanation
Indices: 209855--209945 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 29
209845 TAATTTACCC
209855 TATTAAATATCATAAAATAATCATTAAATT
1 TATTAAATAT-ATAAAATAATCATTAAATT
* *
209885 TATTAAAAATATAAAATAATCACTAAAATT
1 TATTAAATATATAAAATAATCA-TTAAATT
* * *
209915 AATTAATTATTATAAAACAATCATTAAATT
1 TATTAAATA-TATAAAATAATCATTAAATT
209945 T
1 T
209946 TAAGAAATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 12 0.24
30 27 0.53
31 12 0.24
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (29 bp):
TATTAAATATATAAAATAATCATTAAATT
Found at i:210492 original size:19 final size:19
Alignment explanation
Indices: 210468--210518 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
210458 ACCAACAAAA
*
210468 TCGCAATGCGATCGCTAAT
1 TCGCAACGCGATCGCTAAT
210487 TCGCAACGCGATCGCTAAT
1 TCGCAACGCGATCGCTAAT
210506 TCGCAACGCGATC
1 TCGCAACGCGATC
210519 TCTATTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGCTAAT
Found at i:210628 original size:20 final size:21
Alignment explanation
Indices: 210603--210654 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
210593 TTTTCCCAAT
*
210603 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
210623 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
210644 TCGCAATGCGA
1 TCGCAATGCGA
210655 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:210668 original size:20 final size:20
Alignment explanation
Indices: 210643--210757 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
210633 AATTGGGAAA
210643 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
210663 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * **
210683 ATCGCAATGCGATAATTCAAA
1 ATCGCAATGCGAT-ACTGACT
* *
210704 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
210724 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
210744 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
210758 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.64
21 25 0.33
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:210687 original size:61 final size:60
Alignment explanation
Indices: 210622--210737 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
210612 GAATAAGTAA
* * * *
210622 ATCGCAACGCG-AATTGGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGAAATT--CAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTTACT
* *
210683 ATCGCAATGCGATAATTCAAAATCGCAACGAGATACTGACTTTCGCAACGCGATA
1 ATCGCAACGCGA-AATTCAAAATCGCAACGAGATACTGACTATCGCAACGCGATA
210738 ATACATAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 43 0.91
63 4 0.09
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (60 bp):
ATCGCAACGCGAAATTCAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTTACT
Found at i:210708 original size:41 final size:41
Alignment explanation
Indices: 210663--210757 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
210653 GATACTGACT
* * *
210663 ATCGCAATGCGATACTTACTATCGCAATGCGATAATTCAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
* * * *
210704 ATCGCAACGAGATACTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
210745 ATCGCAATGCGAT
1 ATCGCAATGCGAT
210758 TTTCAAAGCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:210764 original size:61 final size:61
Alignment explanation
Indices: 210640--210757 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 61
210630 GCGAATTGGG
* * * *
210640 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATTC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACATACTATCGCAATGCGATAATTC
*
210701 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATA-ATACATAATCGCAATGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACATAC-T-ATCGCAATGCGAT
210758 TTTCAAAGCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 3 0.06
61 34 0.68
62 13 0.26
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACATACTATCGCAATGCGATAATTC
Found at i:210953 original size:22 final size:22
Alignment explanation
Indices: 210925--210968 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
210915 CACTCTCTCA
210925 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
210947 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
210969 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:211285 original size:20 final size:20
Alignment explanation
Indices: 211229--211277 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
211219 GCGATTCTCT
**
211229 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
211249 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
211269 TGTTGCGAT
1 CGTTGCGAT
211278 TTTCATTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:211478 original size:25 final size:24
Alignment explanation
Indices: 211424--211478 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
211414 TGTTTATTAT
* *
211424 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
211448 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
211474 TGTTT
1 TGTTT
211479 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:212521 original size:18 final size:18
Alignment explanation
Indices: 212500--212544 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
212490 TCCACTTCGG
*
212500 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
212518 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
212536 GAGCCATCA
1 GAGCCATCA
212545 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:212961 original size:17 final size:17
Alignment explanation
Indices: 212927--212971 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
212917 ACTGCTAAAC
212927 TGTTTTT-GTTAGTATT
1 TGTTTTTGGTTAGTATT
* *
212943 TGTTTTTGGTTTGTTTT
1 TGTTTTTGGTTAGTATT
212960 TGTCTTTTGGTT
1 TGT-TTTTGGTT
212972 GAAGTAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 8 0.32
ACGTcount: A:0.04, C:0.02, G:0.22, T:0.71
Consensus pattern (17 bp):
TGTTTTTGGTTAGTATT
Found at i:213079 original size:19 final size:20
Alignment explanation
Indices: 213025--213091 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
213015 TAGTTTACTT
* *
213025 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
213045 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
213065 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
213084 TCGCAACG
1 TCGCAACG
213092 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:213099 original size:14 final size:14
Alignment explanation
Indices: 213080--213137 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
213070 ATGCGAAATG
213080 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
213094 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
213110 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
213126 AATATCGCAACG
1 AAAATCGCAACG
213138 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:213122 original size:32 final size:33
Alignment explanation
Indices: 213064--213154 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
213054 GGAAATGGCT
213064 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
213097 ATCGCAATGCGAAATG-AAATCGCAACGACAAT
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
213129 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
213155 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:213190 original size:14 final size:14
Alignment explanation
Indices: 213171--213228 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
213161 TTGTGTTTCG
213171 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
213185 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
213201 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
213217 CGTTGCGATTTT
1 CGTTGCGATTTT
213229 CATTTCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:213209 original size:32 final size:33
Alignment explanation
Indices: 213166--213244 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
213156 GCGATTTGTG
*
213166 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
213198 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
213231 TTTCACATTGCGAT
1 TTTCGCATTGCGAT
213245 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:213251 original size:19 final size:20
Alignment explanation
Indices: 213229--213272 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
213219 TTGCGATTTT
213229 CATTT-CACATTGCGATAGC
1 CATTTCCACATTGCGATAGC
* *
213248 CATTTCCGCATTGCGATAGT
1 CATTTCCACATTGCGATAGC
213268 CATTT
1 CATTT
213273 TCGTGTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (20 bp):
CATTTCCACATTGCGATAGC
Found at i:215156 original size:14 final size:14
Alignment explanation
Indices: 215137--215170 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
215127 TGTTTAATTA
215137 ATTTGTAAAAGATG
1 ATTTGTAAAAGATG
* *
215151 ATTTGTAAATGTTG
1 ATTTGTAAAAGATG
215165 ATTTGT
1 ATTTGT
215171 TTAATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGATG
Found at i:215278 original size:20 final size:20
Alignment explanation
Indices: 215253--215291 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
215243 ATGTTCAAGG
215253 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
215273 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
215292 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:215392 original size:19 final size:20
Alignment explanation
Indices: 215368--215417 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
215358 GCGATTTTGT
215368 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
215387 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
215407 CGTTGCGATAG
1 CGTTGCGATAG
215418 TCAAATGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:215655 original size:20 final size:20
Alignment explanation
Indices: 215630--215680 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
215620 AAATGATTGC
215630 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
*
215650 CTTTCGCAACGCGATTCTTA
1 CTTTCGCAACGCGATTCTGA
215670 CTTTCGCAACG
1 CTTTCGCAACG
215681 AGATAATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:216270 original size:17 final size:17
Alignment explanation
Indices: 216248--216286 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
216238 TGAACCTAGA
216248 AGTAGTATTGTTGGGTC
1 AGTAGTATTGTTGGGTC
216265 AGTAGTATTGTTGGGTC
1 AGTAGTATTGTTGGGTC
216282 AGTAG
1 AGTAG
216287 CGGGTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.36, T:0.38
Consensus pattern (17 bp):
AGTAGTATTGTTGGGTC
Found at i:216469 original size:24 final size:24
Alignment explanation
Indices: 216442--216495 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
216432 GTATTCGAAA
*
216442 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
216466 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
216490 TTTGAT
1 TTTGAT
216496 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:216687 original size:12 final size:12
Alignment explanation
Indices: 216670--216694 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
216660 ATATAATCCT
216670 GAAGAAGAAAAA
1 GAAGAAGAAAAA
216682 GAAGAAGAAAAA
1 GAAGAAGAAAAA
216694 G
1 G
216695 TCTCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:219045 original size:34 final size:33
Alignment explanation
Indices: 218986--219111 Score: 191
Period size: 33 Copynumber: 3.8 Consensus size: 33
218976 GGAAATTACT
218986 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
219019 ATCGCAATGCGAAATGAAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATG-AAAATCGCAACGAGAGA
* *
219052 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
219086 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
219112 TGCGAATTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
33 54 0.65
34 29 0.35
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:219095 original size:67 final size:66
Alignment explanation
Indices: 218987--219120 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 66
218977 GAAATTACTA
*
218987 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAAATCGCAACGCTAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAAATCGCAACGCGAA
219052 TT
65 TT
* *
219054 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAATGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
219119 T
66 T
219120 T
1 T
219121 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 17 0.27
67 47 0.73
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:219128 original size:19 final size:19
Alignment explanation
Indices: 218986--219117 Score: 96
Period size: 19 Copynumber: 7.7 Consensus size: 19
218976 GGAAATTACT
218986 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
219005 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
219019 ATCGCAATGCGAAATGAAAA
1 ATCGCAATGCGAAATG-AAA
* *
219039 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
219053 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
219072 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
219086 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
219105 ATCGCAATGCGAA
1 ATCGCAATGCGAA
219118 TTTAATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
14 27 0.32
15 2 0.02
16 7 0.08
17 4 0.05
18 5 0.06
19 31 0.36
20 9 0.11
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:219169 original size:33 final size:33
Alignment explanation
Indices: 219112--219202 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 33
219102 AAAATCGCAA
* *
219112 TGCGAATTTAATTTCGCGTTGCGATTCACTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCACTCGT
* * *
219145 TGTGATTTTCATTTTGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCACTCGT
*
219178 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCGTTGCGAT
219203 AGTACTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCACTCGT
Found at i:219170 original size:19 final size:19
Alignment explanation
Indices: 219142--219202 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
219132 GCGATTCACT
*
219142 CGTTGTGATTTTCATTTTG
1 CGTTGCGATTTTCATTTTG
*
219161 CGTTGCGA--TTC--TCT-
1 CGTTGCGATTTTCATTTTG
*
219175 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTTG
*
219194 CATTGCGAT
1 CGTTGCGAT
219203 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 3 0.09
17 3 0.09
18 1 0.03
19 15 0.47
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTTG
Found at i:219328 original size:14 final size:14
Alignment explanation
Indices: 219309--219345 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
219299 CATCAATTAA
219309 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
219323 ACAAATCACCTTTT
1 ACAAATCAACTTTT
219337 ACAAATCAA
1 ACAAATCAA
219346 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:220785 original size:42 final size:42
Alignment explanation
Indices: 220739--220877 Score: 172
Period size: 42 Copynumber: 3.3 Consensus size: 42
220729 CGATGACAGT
*
220739 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGA
1 GGCCTCTTCAACGGTGGGAGGGGACTCTCGAGGAATGATAGA
* * * * * * *
220781 GGCCTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTA
1 GGCCTCTTCAACGGTGGGAGGGGACTCTCGAGGAATGATAG-A
* *
220824 -GCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGGTGGGAGGGGACTCTCGAGGAATGATAGA
220865 GGCCTCTTCAACG
1 GGCCTCTTCAACG
220878 ATATGAGTGG
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 76 0.99
43 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGGTGGGAGGGGACTCTCGAGGAATGATAGA
Found at i:220841 original size:84 final size:84
Alignment explanation
Indices: 220730--220905 Score: 316
Period size: 84 Copynumber: 2.1 Consensus size: 84
220720 CCTCTTCAAC
* *
220730 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGAGGCCTCTTCAATGA
1 GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGAGGCCTCTTCAACGA
220795 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
220814 GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGAGGCCTCTTCAACGA
*
220879 TATGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
220898 GATGACAG
1 GATGACAG
220906 GCGAGTCGGG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.22
Consensus pattern (84 bp):
GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGAGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:220890 original size:42 final size:42
Alignment explanation
Indices: 220739--220902 Score: 168
Period size: 42 Copynumber: 3.9 Consensus size: 42
220729 CGATGACAGT
* * * *
220739 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGA
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGA
* * * *
220781 GGCCTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTA
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAG-A
* * * * *
220824 -GCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGA
* * *
220865 GGCCTCTTCAACGATATGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGA
220903 CAGGCGAGTC
Statistics
Matches: 96, Mismatches: 24, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
42 95 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGA
Found at i:221299 original size:91 final size:90
Alignment explanation
Indices: 221122--221308 Score: 304
Period size: 91 Copynumber: 2.0 Consensus size: 90
221112 ATATTTCAAA
*
221122 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTA
221187 GCAGAATTGGCAGCAACCGAATAAATTT
63 GCAGAATTGGCAGCAACCGAATAAATTT
221215 ACTTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAG
*
221279 CAGTATTGGCAGCAACCGAATAAATTT
64 CAGAATTGGCAGCAACCGAATAAATTT
221306 ACT
1 ACT
221309 AAGCAATCTA
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.47
93 21 0.23
95 27 0.30
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTT
Found at i:221511 original size:63 final size:63
Alignment explanation
Indices: 221452--221593 Score: 160
Period size: 63 Copynumber: 2.3 Consensus size: 63
221442 CTTAGAGCGG
* * *
221452 CAACCTCAC-CACGTAAAGTAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTC-CTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* * * *** *
221515 CGATCTCCTCACGCAAGGCATTGACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* *
221578 CGATCTCCTCACGCAA
1 CAACCTCCTCACGCAA
221594 GGCATTGACC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
62 1 0.01
63 69 0.99
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.19
Consensus pattern (63 bp):
CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
Found at i:221594 original size:63 final size:63
Alignment explanation
Indices: 221475--221605 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
221465 TAAAGTAGAC
221475 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
221538 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
221601 ACCTC
1 ACCTC
221606 ATCATATAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (63 bp):
ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
Found at i:223124 original size:33 final size:33
Alignment explanation
Indices: 223082--223145 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
223072 AACGAGATAA
**
223082 AGAGAATCGCAACGCGAAATGACTATCGCAACG
1 AGAGAATCGCAACGCGAAATGAAAATCGCAACG
223115 AGAGAATCGCAACGCGAAATGAAAATCGCAA
1 AGAGAATCGCAACGCGAAATGAAAATCGCAA
223146 TGCAATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (33 bp):
AGAGAATCGCAACGCGAAATGAAAATCGCAACG
Found at i:223143 original size:19 final size:19
Alignment explanation
Indices: 223058--223145 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
223048 TCTTTTGGTT
*
223058 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
223077 GATAAAGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
223097 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
223114 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
223130 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
223146 TGCAATTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 9 0.17
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 23 0.43
20 16 0.30
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:223173 original size:19 final size:19
Alignment explanation
Indices: 223151--223187 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
223141 CGCAATGCAA
*
223151 TTTTGGTTTCGCGTTGCGT
1 TTTTGATTTCGCGTTGCGT
*
223170 TTTTTATTTCGCGTTGCG
1 TTTTGATTTCGCGTTGCG
223188 ATTCTCTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.27, T:0.54
Consensus pattern (19 bp):
TTTTGATTTCGCGTTGCGT
Found at i:223771 original size:20 final size:20
Alignment explanation
Indices: 223742--223794 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
223732 GCGCTATGTA
*
223742 AATCGCGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
223762 AATCGTGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
*
223782 TATC-TCGTTGCGA
1 AATCGT-GTTGCGA
223795 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGTGTTGCGAAAGTCAG
Found at i:242205 original size:22 final size:22
Alignment explanation
Indices: 242180--242241 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
242170 TCAAACAGTT
* *
242180 TGTAACTCATGCAATAAAACTA
1 TGTAACTCTTGCATTAAAACTA
* *
242202 TGTAACTCTTGCATTAAAGCTT
1 TGTAACTCTTGCATTAAAACTA
242224 TGTAACTCTTGCATTAAA
1 TGTAACTCTTGCATTAAA
242242 CCTGTAACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (22 bp):
TGTAACTCTTGCATTAAAACTA
Found at i:252142 original size:20 final size:20
Alignment explanation
Indices: 252119--252160 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
252109 GAAATTTGAC
*
252119 ATTTGATCTTTCTATTTT-TA
1 ATTTGATCCTT-TATTTTATA
252139 ATTTGATCCTTTATTTTATA
1 ATTTGATCCTTTATTTTATA
252159 AT
1 AT
252161 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTGATCCTTTATTTTATA
Found at i:252919 original size:27 final size:28
Alignment explanation
Indices: 252890--252994 Score: 108
Period size: 27 Copynumber: 3.8 Consensus size: 28
252880 ATATATTTAA
*
252890 ATATTTTATTTTTATTTTAATATAAAAAT
1 ATATTTTATTCTTATTTTAATAT-AAAAT
* * *
252919 ATATTTTATTCTTATCTTCACT-TAAACT
1 ATATTTTATTCTTAT-TTTAATATAAAAT
252947 ATA-TTTATTCTTATTTTCAATA-AAAAT
1 ATATTTTATTCTTATTTT-AATATAAAAT
* *
252974 ATATTTTATTATTATCTTAAT
1 ATATTTTATTCTTATTTTAAT
252995 TTTTAAATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
26 2 0.03
27 23 0.37
28 19 0.30
29 15 0.24
30 4 0.06
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (28 bp):
ATATTTTATTCTTATTTTAATATAAAAT
Found at i:252978 original size:55 final size:54
Alignment explanation
Indices: 252886--252991 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 54
252876 TAAAATATAT
* *
252886 TTAAATATTTTATTTTTATTTTAATATAAAAATATATTTTATTCTTATCTTCAC
1 TTAAATATTTTATTCTTATTTTAATATAAAAATATATTTTATTATTATCTTCAC
*
252940 TTAAACTATATTTATTCTTATTTTCA-ATAAAAATATATTTTATTATTATCTT
1 TTAAA-TAT-TTTATTCTTATTTTAATATAAAAATATATTTTATTATTATCTT
252992 AATTTTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
54 5 0.11
55 28 0.60
56 14 0.30
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (54 bp):
TTAAATATTTTATTCTTATTTTAATATAAAAATATATTTTATTATTATCTTCAC
Found at i:253008 original size:2 final size:2
Alignment explanation
Indices: 253001--253026 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
252991 TAATTTTTAA
253001 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
253027 TAAAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:253252 original size:59 final size:59
Alignment explanation
Indices: 253147--253276 Score: 138
Period size: 59 Copynumber: 2.2 Consensus size: 59
253137 TATATATAAG
* * * * * * *
253147 AAAATATATTTTTAAACTTAAGATTGTAATAAAATATGTTTTTAAGTGAATATAAGACT
1 AAAATATATTTTTAAACTTAAGATAGTAATAAAATATATTTATAAGTGAAGAAAAAAAT
* * *
253206 AAAATATATTTTTATA-TTATGATAAG-AATAAAATATATTTAATAAGTTAAGAAAAAAAT
1 AAAATATATTTTTAAACTTAAGAT-AGTAATAAAATATATTT-ATAAGTGAAGAAAAAAAT
253265 AAAATATATTTT
1 AAAATATATTTT
253277 AAAAAGGATT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 19 0.32
59 40 0.68
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (59 bp):
AAAATATATTTTTAAACTTAAGATAGTAATAAAATATATTTATAAGTGAAGAAAAAAAT
Found at i:253952 original size:23 final size:24
Alignment explanation
Indices: 253894--253976 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 24
253884 CATGATGCAT
* * *
253894 ATATTTTATATATT-AGTATATTA
1 ATATTTTATATATTAAATTTAGTA
*
253917 ATA-TTTA-A-CTTAAATTTA-TA
1 ATATTTTATATATTAAATTTAGTA
* *
253937 ATATTTTATATATTAACTTTAGGAA
1 ATATTTTATATATTAAATTTA-GTA
253962 ATATTTT-TATATTAA
1 ATATTTTATATATTAA
253977 CTTATTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
20 7 0.15
21 9 0.19
22 5 0.10
23 11 0.23
24 8 0.17
25 8 0.17
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATTTTATATATTAAATTTAGTA
Found at i:253968 original size:25 final size:24
Alignment explanation
Indices: 253936--254004 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
253926 TTAAATTTAT
*
253936 AATATTTTATATATTAACTTTAGGA
1 AATATTTTATATATTAACTTTA-AA
253961 AATATTTT-TATATTAACTTATTAAA
1 AATATTTTATATATTAAC-T-TTAAA
*
253986 AATAATTTAT-TATTAACTT
1 AATATTTTATATATTAACTT
254005 AATTTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.03
24 10 0.26
25 24 0.62
26 4 0.10
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (24 bp):
AATATTTTATATATTAACTTTAAA
Found at i:253993 original size:26 final size:26
Alignment explanation
Indices: 253939--254023 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 26
253929 AATTTATAAT
*
253939 ATTTTATATATTAAC-T-TTAGGAAAT-
1 ATTTT-TATATTAACTTATTA-AAAATA
253964 ATTTTTATATTAACTTATTAAAAATA
1 ATTTTTATATTAACTTATTAAAAATA
* *
253990 ATTTAT-TATTAACTTAATTTAAAA-A
1 ATTTTTATATTAACTT-ATTAAAAATA
254015 ATATTTTAT
1 AT-TTTTAT
254024 TTTATTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.18
25 22 0.44
26 18 0.36
27 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTTTATATTAACTTATTAAAAATA
Found at i:254011 original size:27 final size:27
Alignment explanation
Indices: 253967--254043 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 27
253957 AGGAAATATT
253967 TTTA-TATTAACTT-A-TTAAAAATAA
1 TTTATTATTAACTTAATTTAAAAATAA
*
253991 TTTATTATTAACTTAATTTAAAAAATAT
1 TTTATTATTAACTTAATTT-AAAAATAA
** *
254019 TTTATT-TTATTTTAATTTTAAAATA
1 TTTATTATTAACTTAATTTAAAAATA
254044 TATATTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.09
25 9 0.20
26 7 0.16
27 12 0.27
28 13 0.29
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTATTATTAACTTAATTTAAAAATAA
Found at i:254098 original size:31 final size:31
Alignment explanation
Indices: 254007--254126 Score: 124
Period size: 31 Copynumber: 3.9 Consensus size: 31
253997 ATTAACTTAA
254007 TTTAAAA-A-ATATTTTATTTTATTTTAA-T
1 TTTAAAATATATATTTTATTTTATTTTAACT
* *
254035 TTTAAAATATATATTTTATTCTTATCTAAACT
1 TTTAAAATATATATTTTATT-TTATTTTAACT
254067 TTTAAAAT-TATATTTTATTATT-TGTTTAACTT
1 TTTAAAATATATATTTTATT-TTAT-TTTAAC-T
* * *
254099 TTTAAAGTATATATTTTATCTTAATTTA
1 TTTAAAATATATATTTTATTTTATTTTA
254127 CTAAATATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
28 7 0.09
29 1 0.01
30 11 0.14
31 24 0.32
32 23 0.30
33 10 0.13
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTAAAATATATATTTTATTTTATTTTAACT
Done.