Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001474.1 Hibiscus syriacus cultivar Beakdansim tig00002858_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: 110130
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:425 original size:14 final size:14
Alignment explanation
Indices: 406--444 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
396 TATTATGCTT
406 GAAGAAAAAAAAAA
1 GAAGAAAAAAAAAA
420 GAAGAAAAAAAAAA
1 GAAGAAAAAAAAAA
434 GAAGAAAAAAA
1 GAAGAAAAAAA
445 TGTTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
GAAGAAAAAAAAAA
Found at i:826 original size:16 final size:18
Alignment explanation
Indices: 806--852 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
796 TATTTTCTCT
806 AATTCAATTT-TTTTT-A
1 AATTCAATTTATTTTTGA
*
822 GATTCAATTTATTTTTGA
1 AATTCAATTTATTTTTGA
840 AATTCAATTTATT
1 AATTCAATTTATT
853 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 9 0.33
17 5 0.19
18 13 0.48
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (18 bp):
AATTCAATTTATTTTTGA
Found at i:836 original size:18 final size:17
Alignment explanation
Indices: 794--858 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 17
784 AAATTCTAAG
794 TTTATTTTCTCTAATTCAA
1 TTTATTTT-T-TAATTCAA
813 -TT-TTTTTTAGATTCAA
1 TTTATTTTTTA-ATTCAA
*
829 TTTATTTTTGAAATTCAA
1 TTTATTTTT-TAATTCAA
847 TTTATTCTTTTA
1 TTTATT-TTTTA
859 TTTTGTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 6 0.15
18 20 0.51
19 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTATTTTTTAATTCAA
Found at i:2156 original size:110 final size:112
Alignment explanation
Indices: 1962--2645 Score: 509
Period size: 121 Copynumber: 5.9 Consensus size: 112
1952 ATACATTACT
* * * *
1962 CAATGGATCAACA-TTCCAGGTAGAGTTCATAGTGAGAAGAACTCA--TGAAGAAGGAAGAGGAA
1 CAATGGATCAACATTTTCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
2024 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTCAAATCCAT-A-A
65 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTCAAATCCATCACA
* * *
2070 CAATGGATCAACATTTTCAGAAGTGTACATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
1 CAATGGATCAACATTTTCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* ** * *
2135 TTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACT
66 TTCATAATGAGAAGAACTTGTTC-AACCTTTTGTTCAAATCCATCACA
* * * *
2183 CGATGGATCAA-ATTTTCCAGAGAAAGTTCATAATGAGAACAACTTATCTGAAGAA-GAAGAAGA
1 CAATGGATCAACATTTT-CAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * *
2246 GAGTTCATAATGAGAAGAACTTATTCAACCTTTTG--CATGATTCTATCACA
64 -AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTCA--AATCCATCACA
* *
2296 -AAAGAAGATAAATCAACATCAACTTTTCCAGAGAAAGTTCAT-A--AGAAGAACTCATCTGAAG
1 CAATG--G----ATC-A-A-C-A-TTTT-CAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * * *
2357 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTAT-GACTCTATCATAAAA
53 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGT-TCAAATC---CATCACA
* * * * *
2420 GGAGATAGATCATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAG
1 -CA-ATGGATCAAC-A-TTTT-CAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * * * *
2485 AAGAAGTTAATAATGAGAAGAGCTTGTTC-ACCTTTTGTAT-GACTCTATCACAAA
60 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGT-TCAAATCCATCAC--A
* * * *
2539 GGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
1 -CA-ATGGATCA--A-C-A-TTTT-CAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
2604 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGT
57 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGT
2646 ATGACTCTAT
Statistics
Matches: 487, Mismatches: 47, Indels: 69
0.81 0.08 0.11
Matches are distributed among these distances:
108 35 0.07
109 4 0.01
110 38 0.08
111 17 0.03
112 8 0.02
113 38 0.08
114 51 0.10
117 3 0.01
118 26 0.05
119 15 0.03
120 18 0.04
121 109 0.22
122 88 0.18
123 11 0.02
124 23 0.05
125 1 0.00
126 1 0.00
127 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (112 bp):
CAATGGATCAACATTTTCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
TTCATAATGAGAAGAACTTGTTCAACCTTTTGTTCAAATCCATCACA
Found at i:2412 original size:121 final size:121
Alignment explanation
Indices: 2189--2727 Score: 734
Period size: 121 Copynumber: 4.4 Consensus size: 121
2179 CACTCGATGG
* * *
2189 ATCAAATTTTCCAGAGAAAGTTCATAATGAGAACAACTTATCTGAAGAA-GAAGAAGAGAGTTCA
1 ATCAACTTTTCCAGAGAAAGTTCAT-A--AGAAGAACTCATCTGAAGAAGGAAGAAGA-AGTTCA
* * * * * * *
2253 TAATGAGAAGAACTTATTCAACCTTTTGCATGATTCTATCACAAAAGAAGATAAATCAAC
62 TAATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAAAAGGAGATAGATCAGC
2313 ATCAACTTTTCCAGAGAAAGTTCATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 ATCAACTTTTCCAGAGAAAGTTCATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
2378 GAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCATAAAAGGAGATAGAT---C
66 GAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAAAAGGAGATAGATCAGC
*
2431 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTAAT
1 ATCAACTTTTCCAGAGAAAGTTC---ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
2496 AATGAGAAGAGCTTGTTC-ACCTTTTGTATGACTCTATCAC-AAAGGAGATAGATCAGC
63 AATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAAAAGGAGATAGATCAGC
2553 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTC---ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
2618 AATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGACCAGC
63 AATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAAAAGGAGATAGATCAGC
* ** *
2677 ATCAA-TATTTTCAGA-AGTGTTCATAATGAGAAAAACTCATCTGAAGAAGGA
1 ATCAACT-TTTCCAGAGAAAGTTCAT-A--AGAAGAACTCATCTGAAGAAGGA
2728 GCAGAACTTA
Statistics
Matches: 383, Mismatches: 19, Indels: 27
0.89 0.04 0.06
Matches are distributed among these distances:
118 24 0.06
119 13 0.03
120 23 0.06
121 130 0.34
122 91 0.24
123 51 0.13
124 51 0.13
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (121 bp):
ATCAACTTTTCCAGAGAAAGTTCATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAAAAGGAGATAGATCAGC
Found at i:2615 original size:243 final size:244
Alignment explanation
Indices: 2097--2727 Score: 840
Period size: 243 Copynumber: 2.6 Consensus size: 244
2087 CAGAAGTGTA
* * **
2097 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAAC
1 CATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC-AAC
* * * *** *
2162 CTTTTGTTTGA--AT-TCAT-CACTCGATGGATCA--AATTTTCCAGAGAAAGTTCATAATGAGA
65 CTTTTGTATGACTCTATCATAAAGGAGATAGATCATCAATTTTCCAGAGAAAGTTCATAATGAGA
* * *
2221 ACAACTTATCTGAAGAA-GAAGAAGAGAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCATG
130 AAAACTCATCTGAAGAAGGAAGAAGAGAGTTAATAATGAGAAGAACTTATTCAACCTTTTGCATG
*
2285 ATTCTATCACAAAAGAAGATAAATCAACATCAACTTTTCCAGAGAAAGTT
195 ACTCTATCACAAAAGAAGATAAATCAACATCAACTTTTCCAGAGAAAGTT
2335 C---ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
1 CATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
*
2397 TTTTGTATGACTCTATCATAAAAGGAGATAGATCATCAACTTTTCCAGAGAAAGTTCATAATAAG
66 TTTTGTATGACTCTATCAT-AAAGGAGATAGATCATCAA-TTTTCCAGAGAAAGTTCATAATGAG
* * * *
2462 AAGAACTCATCTGAAGAAGGAAGAAGA-AGTTAATAATGAGAAGAGCTTGTTC-ACCTTTTGTAT
129 AAAAACTCATCTGAAGAAGGAAGAAGAGAGTTAATAATGAGAAGAACTTATTCAACCTTTTGCAT
* * *
2525 GACTCTATCAC-AAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTT
194 GACTCTATCACAAAAGAAGATAAATCAACATCAACTTTTCCAGAGAAAGTT
2575 CATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
1 CATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
* * * **
2640 TTTTGTATGACTCTATCACAGAAGGAGATAGACCAGCATCAATATTTTCAGA-AGTGTTCATAAT
66 TTTTGTATGACTCTATCATA-AAGGAGATAG---ATCATCAAT-TTTCCAGAGAAAGTTCATAAT
2704 GAGAAAAACTCATCTGAAGAAGGA
126 GAGAAAAACTCATCTGAAGAAGGA
2728 GCAGAACTTA
Statistics
Matches: 347, Mismatches: 29, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
234 13 0.04
235 53 0.15
236 1 0.00
237 4 0.01
238 1 0.00
239 9 0.03
240 37 0.11
241 22 0.06
242 63 0.18
243 97 0.28
245 33 0.10
246 14 0.04
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (244 bp):
CATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
TTTTGTATGACTCTATCATAAAGGAGATAGATCATCAATTTTCCAGAGAAAGTTCATAATGAGAA
AAACTCATCTGAAGAAGGAAGAAGAGAGTTAATAATGAGAAGAACTTATTCAACCTTTTGCATGA
CTCTATCACAAAAGAAGATAAATCAACATCAACTTTTCCAGAGAAAGTT
Found at i:3013 original size:3 final size:3
Alignment explanation
Indices: 2966--3002 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
2956 TTCATTTGAA
2966 TAT TATT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA
3003 AATAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4649 original size:23 final size:23
Alignment explanation
Indices: 4622--4677 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
4612 TCTTTTCTGA
*
4622 TATTTCTAAATAAATAAATATAT
1 TATTTATAAATAAATAAATATAT
** *
4645 TATTTATATTTAAATTAATATAT
1 TATTTATAAATAAATAAATATAT
*
4668 T-TTCATAAAT
1 TATTTATAAAT
4678 TATAAATTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATAT
Found at i:6206 original size:16 final size:17
Alignment explanation
Indices: 6169--6206 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6159 GGATAAAACC
*
6169 TTAAACAAATTATTTGT
1 TTAAACAAATTATTTAT
6186 TTAAACAAATTA-TTAT
1 TTAAACAAATTATTTAT
6202 TTAAA
1 TTAAA
6207 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAACAAATTATTTAT
Found at i:6407 original size:29 final size:29
Alignment explanation
Indices: 6373--6436 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
6363 AAAAAACCGG
6373 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTTCAAA
6402 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTTCAAA
*
6431 TAAATT
1 TTAATT
6437 TTAGTTCGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
TTAATTCGGTTCGGTTAATAATTTTCAAA
Found at i:6521 original size:100 final size:104
Alignment explanation
Indices: 6402--6643 Score: 339
Period size: 100 Copynumber: 2.3 Consensus size: 104
6392 AATTTTCAAA
6402 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCCAATTAACCG
1 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCCAATTAACCG
* *
6467 AATTTTGGCTTCGATTAA-T-A-ATTAA-AAAAATTTAG
66 AATTTTGGCTTCGATTAATTGATAATAATAAAAAATTAG
* * * *
6502 TTAATTCAGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACCGAGCCGAATTAACCG
1 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCCAATTAACCG
** *
6567 AATTTTTTCTTCGATTAATTTGATTAATAATTAAAAAATTGG
66 AATTTTGGCTTCGATTAA-TTGA-TAATAA-TAAAAAATTAG
*
6609 TTAATTCGGTTCGGTTAATAATTTTCAAATTAATT
1 TTAATTCGGTTCGGTTAATAATTTTCAAATAAATT
6644 CAGTTTGGTT
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
100 77 0.62
102 1 0.01
103 1 0.01
105 4 0.03
107 41 0.33
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (104 bp):
TTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCCAATTAACCG
AATTTTGGCTTCGATTAATTGATAATAATAAAAAATTAG
Found at i:6642 original size:29 final size:29
Alignment explanation
Indices: 6609--6664 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
6599 AAAAAATTGG
*
6609 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCAGTTCGGTTAATAATTTTCAAA
*
6638 TTAATTCAGTTTGGTTAATAATTTTCA
1 TTAATTCAGTTCGGTTAATAATTTTCA
6665 GATAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (29 bp):
TTAATTCAGTTCGGTTAATAATTTTCAAA
Found at i:6672 original size:29 final size:29
Alignment explanation
Indices: 6611--6672 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
6601 AAAATTGGTT
* *
6611 AATTCGGTTCGGTTAATAATTTTCAAATT
1 AATTCAGTTCGGTTAATAATTTTCAAATA
* *
6640 AATTCAGTTTGGTTAATAATTTTCAGATA
1 AATTCAGTTCGGTTAATAATTTTCAAATA
6669 AATT
1 AATT
6673 TTGGTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (29 bp):
AATTCAGTTCGGTTAATAATTTTCAAATA
Found at i:6804 original size:16 final size:18
Alignment explanation
Indices: 6758--6806 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
6748 ATTAGTTGTG
6758 AATAATTTATTTAATTAAT
1 AATAATTTATTTAA-TAAT
*
6777 AAT-ATTTTTTTAA-AA-
1 AATAATTTATTTAATAAT
*
6792 AATAATTTGTTTAAT
1 AATAATTTATTTAAT
6807 GTTTTATCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.12
16 11 0.42
18 9 0.35
19 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AATAATTTATTTAATAAT
Found at i:7173 original size:30 final size:30
Alignment explanation
Indices: 7137--7199 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
7127 AGAATAAGTA
7137 AATATTAAAGA-CAAAAAGTATAATTATGCC
1 AATATTAAAGACCAAAAA-TATAATTATGCC
* * *
7167 AATATTAAGGACCAAATATATAATTATGTC
1 AATATTAAAGACCAAAAATATAATTATGCC
7197 AAT
1 AAT
7200 TTATTAATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.30
Consensus pattern (30 bp):
AATATTAAAGACCAAAAATATAATTATGCC
Found at i:7467 original size:28 final size:26
Alignment explanation
Indices: 7414--7475 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
7404 AAACCAAATG
*
7414 TTTATTCTTTATGCTAGTTTTGTTCA
1 TTTATTCTTTATGCTAGTTTTCTTCA
* *
7440 TTTATTCTATTCATTCTGGTTTTCTTCA
1 TTTATTCT-TT-ATGCTAGTTTTCTTCA
*
7468 CTTATTCT
1 TTTATTCT
7476 GGAGAAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.27
27 2 0.07
28 20 0.67
ACGTcount: A:0.15, C:0.16, G:0.08, T:0.61
Consensus pattern (26 bp):
TTTATTCTTTATGCTAGTTTTCTTCA
Found at i:8865 original size:23 final size:22
Alignment explanation
Indices: 8828--8871 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
8818 AACATATTAG
*
8828 GTAGCGCTATATAATATAATAA
1 GTAGCGCTATATAATAAAATAA
8850 GTAGCGCTTATATAATAAAATA
1 GTAGCGC-TATATAATAAAATA
8872 GACATTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (22 bp):
GTAGCGCTATATAATAAAATAA
Found at i:8934 original size:86 final size:86
Alignment explanation
Indices: 8788--8948 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 86
8778 AATGTTATAT
* * *
8788 CATTTAACCGGTAATATTATTAAGTACAATAACATATTAGGTAGCGCTATATAATATAATAAGTA
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTATATAATATAATAAGTA
8853 GCGCTTATATAATAAAATAGA
66 GCGCTTATATAATAAAATAGA
* * * *
8874 CATTTAACCGGAAATA-TATCAAGTACAATAACATATTAGGTAACTCTTATATATTGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGC-TATATAATATAATAAGT
8938 AGCGCTTATAT
65 AGCGCTTATAT
8949 TGACCTATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 27 0.40
86 40 0.60
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (86 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTATATAATATAATAAGTA
GCGCTTATATAATAAAATAGA
Found at i:9388 original size:197 final size:200
Alignment explanation
Indices: 8972--9660 Score: 624
Period size: 197 Copynumber: 3.5 Consensus size: 200
8962 AAGTAAACCG
* * * * * *
8972 GTATATTTATACCGGTAACATTGCAA-ATTTACCTATTACAATATTATTATCAG-TTACGATGTT
1 GTATATTTATACCGGTTACATTGTAACATTTACCTATTACATTATAATTATCGGTTTTCGATG-T
** ** * * *
9035 TTTTAGATCGATACAATTT-TAAATGTATCGACACTTTATGCTTGCACCT-GGTTGGGCATTCAT
65 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTC--
* * * * * * *
9098 ATTTTATTCT-GAAAAAAATTATCGACACAAACTA-AC--GTGTCGATATATTAT-TTAGAC--C
128 -----ATCCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTA-ACATA
* * * *
9156 TTATCTCATAAACC
187 TTTTATAATAAAAC
* *
9170 GGTATATTTATACCGGTTACATTG-AACATTTACCTATTACATTATACTTATGGGTTTTCGATGT
1 -GTATATTTATACCGGTTACATTGTAACATTTACCTATTACATTATAATTATCGGTTTTCGATGT
* *
9234 TTTCGGGATCGATACTTTTTATAAATGTATCGACACTTTATG-GTTGCACC-C-TTTTTGGTATT
65 TTT-GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCG-TGCACCTCGTTTGT-GCATT
* * * *
9296 CATTCTGGACCA-AAGTATCGACACAAATTTA-ACAAGTGTCGATAC-TTGATGTTGACCTATTT
127 CATCCTGGACAATAAGTATCGACACAAA-TTACACAAGTGTCGATACATT-ATGTTAACATATTT
*
9358 TATCATAAAAC
190 TATAATAAAAC
* *
9369 -TATATTTATATCGGTTACATTGTAA-ATTTACCTAATACATTATAATTATCGG-TTTCGATGTT
1 GTATATTTATACCGGTTACATTGTAACATTTACCTATTACATTATAATTATCGGTTTTCGATG-T
*
9431 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTCAT
65 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTCAT
* *
9496 CCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTAACATGTTTTCTAA
130 CCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTAACATATTTTATAA
* *
9561 TTAACC
195 TAAAAC
* *
9567 GGTAT-TTTATACCGGTT-CATTGTTAAC--TTACCTATTACATTATAATTATTGATTTT-GATG
1 -GTATATTTATACCGGTTACATTG-TAACATTTACCTATTACATTATAATTATCGGTTTTCGATG
*
9627 TTTTGGG-TCGATAC-TTGTATAAAATGTATCGACA
64 TTTTGGGATCGATACTTTTTAT-AAATGTATCGACA
9661 TATTTAGGTA
Statistics
Matches: 413, Mismatches: 48, Indels: 61
0.79 0.09 0.12
Matches are distributed among these distances:
194 19 0.05
195 11 0.03
196 73 0.18
197 88 0.21
198 88 0.21
199 78 0.19
200 24 0.06
201 32 0.08
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (200 bp):
GTATATTTATACCGGTTACATTGTAACATTTACCTATTACATTATAATTATCGGTTTTCGATGTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTCATC
CTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTAACATATTTTATAAT
AAAAC
Found at i:9612 original size:198 final size:196
Alignment explanation
Indices: 8965--9660 Score: 697
Period size: 198 Copynumber: 3.5 Consensus size: 196
8955 ATTTTCGAAG
* * * * * * *
8965 TAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACAATATTATTATCAGTTACG
1 TAAACCGGTATATTTATACCGGTTACATTGTAAACTTACCTATTACATTATAATTATCGGTTTCG
** * * * *
9030 ATGTTTTTTAGATCGATACAATTT-TAAATGTATCGACACTTTATGCTTGCACCT-GGTTGGGCA
66 ATGTTTTTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCA
* * * * *
9093 TTCATATTTTATTCTGAAAAAAATTATCGACACAAACTAAC--GTGTCGATATATTAT-TTAGAC
130 TTC-------ATTCTGGACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTA-AC
* *
9155 -CTTATCTCA
187 TATTTTCTCA
* * *
9164 TAAACCGGTATATTTATACCGGTTACATTG-AACATTTACCTATTACATTATACTTATGGGTTTT
1 TAAACCGGTATATTTATACCGGTTACATTGTAA-ACTTACCTATTACATTATAATTATCGG-TTT
* *
9228 CGATGTTTTCGGGATCGATACTTTTTATAAATGTATCGACACTTTATG-GTTGCACC-C-TTTTT
64 CGATGTTTTTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATGCG-TGCACCTCGTTTGT
* * *
9290 GGTATTCATTCTGGACCAAAGTATCGACACAAATTTAACAAGTGTCGATAC-TTGATGTTGACCT
127 -GCATTCATTCTGGACAAAAGTATCGACACAAA-TTAACAAGTGTCGATACATT-ATGTT-AACT
*
9354 ATTTTATCA
188 ATTTTCTCA
* * * *
9363 TAAAAC--TATATTTATATCGGTTACATTGTAAATTTACCTAATACATTATAATTATCGGTTTCG
1 TAAACCGGTATATTTATACCGGTTACATTGTAAACTTACCTATTACATTATAATTATCGGTTTCG
9426 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCA
66 ATGTTTTTGGGATCGATACTTTT-ATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCA
* *
9491 TTCATCCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTAACATGTTT
130 TTCATTCTGGACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTAAC-TATTT
*
9556 TCTAA
192 TCTCA
* * * * *
9561 TTAACCGGTAT-TTTATACCGGTT-CATTGTTAACTTACCTATTACATTATAATTATTGATTTTG
1 TAAACCGGTATATTTATACCGGTTACATTGTAAACTTACCTATTACATTATAATTATCGGTTTCG
*
9624 ATG-TTTTGGG-TCGATACTTGTATAAAATGTATCGACA
66 ATGTTTTTGGGATCGATACTTTTAT-AAATGTATCGACA
9661 TATTTAGGTA
Statistics
Matches: 421, Mismatches: 51, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
194 22 0.05
195 10 0.02
196 76 0.18
197 84 0.20
198 93 0.22
199 76 0.18
200 28 0.07
201 32 0.08
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (196 bp):
TAAACCGGTATATTTATACCGGTTACATTGTAAACTTACCTATTACATTATAATTATCGGTTTCG
ATGTTTTTGGGATCGATACTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCAT
TCATTCTGGACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTAACTATTTTCTC
A
Found at i:12656 original size:199 final size:198
Alignment explanation
Indices: 12119--12673 Score: 828
Period size: 197 Copynumber: 2.8 Consensus size: 198
12109 TTTATTTACA
* * ** *
12119 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGACATATTTATACCGGTTATATTA
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTATATTA
* *
12184 CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTCGGTATCGACACTTTTAA-AAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTAATAAAT
* *
12248 GTATCGACACTTTGTGCGTTCATCCTTTTTGGCATCAATTCTGAAAAAAAGTATCGACACAAATT
131 GTATCGACACTTTATGCGTTCACCCTTTTTGGCATCAATTCTGAAAAAAAGTATCGACACAAATT
12313 AAC
196 AAC
* * *
12316 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAATCGGTATATTTATACCAGTTACATTG
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTATATTA
* * * *
12381 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTT-TTAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTAATAAAT
* * * * *
12445 GTATTGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAATTATCGACACAATA
131 GTATCGACACTTTATGCGTTCACCCTTTTTGGCATCAATTCT-GAAAAAAAGTATCGACACAA-A
*
12510 TTAAG
194 TTAAC
* * *
12515 AAGTGTCGATAAATATTATAGACCTATTCTCTCATAAAACCGGTATATGTATACC-GTTATATTA
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTATATTA
12579 CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTAATAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTAATAAAT
*
12644 GTATCGACACTTTATGCGTGCAACCCTTTT
131 GTATCGACACTTTATGCGTTC-ACCCTTTT
12674 GGATCGACAC
Statistics
Matches: 319, Mismatches: 34, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
197 152 0.48
198 79 0.25
199 80 0.25
200 8 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTATATTA
CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTAATAAAT
GTATCGACACTTTATGCGTTCACCCTTTTTGGCATCAATTCTGAAAAAAAGTATCGACACAAATT
AAC
Found at i:12727 original size:50 final size:52
Alignment explanation
Indices: 12617--12728 Score: 126
Period size: 51 Copynumber: 2.2 Consensus size: 52
12607 GGTTTTGATG
*
12617 TTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAACCC
1 TTTTT-GGATCGACACTTATAATAAATGTATCGACACTTTATGCGTGCAACCC
* * *
12670 -TTTTGGATCGACACTCTATGA-AAATGTATC-ACACTTTGTAG-GTTC-ACCC
1 TTTTTGGATCGACACT-TATAATAAATGTATCGACACTTTAT-GCGTGCAACCC
12719 TTTTTGGATC
1 TTTTTGGATC
12729 CATTCTGGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
49 4 0.08
50 20 0.38
51 21 0.40
52 7 0.13
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (52 bp):
TTTTTGGATCGACACTTATAATAAATGTATCGACACTTTATGCGTGCAACCC
Found at i:14179 original size:6 final size:6
Alignment explanation
Indices: 14168--14213 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
14158 GTTTGGATCA
* * *
14168 TCATCG TCATCG TCATCG TCATCT TCATCG TCATCT TCATCT TCAT
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCAT
14214 TGACCGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.17, C:0.33, G:0.09, T:0.41
Consensus pattern (6 bp):
TCATCG
Found at i:14185 original size:12 final size:12
Alignment explanation
Indices: 14168--14213 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
14158 GTTTGGATCA
*
14168 TCATCGTCATCG
1 TCATCGTCATCT
14180 TCATCGTCATCT
1 TCATCGTCATCT
14192 TCATCGTCATCT
1 TCATCGTCATCT
*
14204 TCATCTTCAT
1 TCATCGTCAT
14214 TGACCGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.17, C:0.33, G:0.09, T:0.41
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:14195 original size:18 final size:18
Alignment explanation
Indices: 14168--14213 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
14158 GTTTGGATCA
*
14168 TCATCGTCATCGTCATCG
1 TCATCTTCATCGTCATCG
*
14186 TCATCTTCATCGTCATCT
1 TCATCTTCATCGTCATCG
14204 TCATCTTCAT
1 TCATCTTCAT
14214 TGACCGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.09, T:0.41
Consensus pattern (18 bp):
TCATCTTCATCGTCATCG
Found at i:16159 original size:197 final size:200
Alignment explanation
Indices: 15668--16202 Score: 877
Period size: 197 Copynumber: 2.7 Consensus size: 200
15658 TATTTAAATT
* *
15668 AGTATCGACATAAAATTAAAAATGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGA-CTATTCTCTCATAAAACCGGT
*
15733 ATATTTATACCGGTTACATTGAAAATTTACTTATTACATTATACTTATGGATGCATATGTTTCTG
65 ATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
15798 GGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGA
130 GGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGA
15863 ACCAAA
195 ACCAAA
* *
15869 AGTATCGACACAAAATCAAAAAAGTGTTGATACATGTTGTAGACATATTCTCTCATAAAACCGG-
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGAC-TATTCTCTCATAAAACCGGT
15933 -TATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
65 ATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
15997 GGATCGATACTTTTTAT-AATGTATCGACACTTTATGGTTGCACCC-TTTTGGCATTCATTCT-A
130 GGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGA
16059 GACCAAA
195 -ACCAAA
* * *
16066 AGTATCGATACAAAATTAAAAAAGTGTCGATACATATTGTAGAGCTGTTCTCTCAT-AAACCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGA-CTATTCTCTCATAAAACCGGT
* * * *
16130 ATATTTATACCGATTACATTG-AAATTTACCTATTACATTATACTTATGGATACAAATATTTCTG
65 ATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
16194 GGATCGATA
130 GGATCGATA
16203 AATTTTACCT
Statistics
Matches: 315, Mismatches: 14, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
196 8 0.03
197 120 0.38
198 48 0.15
199 80 0.25
200 1 0.00
201 58 0.18
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (200 bp):
AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACTATTCTCTCATAAAACCGGTA
TATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGG
GATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGAA
CCAAA
Found at i:16543 original size:27 final size:27
Alignment explanation
Indices: 16499--16552 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
16489 TACATTTACA
*
16499 TCATTGCATCCTTTGTTATTCTTGTGTC
1 TCATTGCATCCTTTGTTA-TCTTCTGTC
*
16527 TCATTGCA-GCTTTGTTATCTTCTGTC
1 TCATTGCATCCTTTGTTATCTTCTGTC
16553 GTCGTTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 8 0.33
28 8 0.33
ACGTcount: A:0.11, C:0.22, G:0.15, T:0.52
Consensus pattern (27 bp):
TCATTGCATCCTTTGTTATCTTCTGTC
Found at i:18312 original size:32 final size:32
Alignment explanation
Indices: 18275--18335 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
18265 TTAAGATCAC
18275 CCCTTAACACCTCAACTTCTTTCACCACTTCA
1 CCCTTAACACCTCAACTTCTTTCACCACTTCA
**
18307 CCCTTAACACCTTTACTTCTTTCACCACT
1 CCCTTAACACCTCAACTTCTTTCACCACT
18336 CTATCTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (32 bp):
CCCTTAACACCTCAACTTCTTTCACCACTTCA
Found at i:18356 original size:21 final size:21
Alignment explanation
Indices: 18331--18377 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
18321 ACTTCTTTCA
18331 CCACTCTATCTATTTTTTCTT
1 CCACTCTATCTATTTTTTCTT
18352 CCACTCTATCTATTTTTTCTT
1 CCACTCTATCTATTTTTTCTT
18373 CCACT
1 CCACT
18378 TCCCCCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.32, G:0.00, T:0.53
Consensus pattern (21 bp):
CCACTCTATCTATTTTTTCTT
Found at i:18415 original size:21 final size:21
Alignment explanation
Indices: 18390--18454 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
18380 CCCCTTATGC
* *
18390 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
18411 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
18432 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
18453 CT
1 CT
18455 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.15, C:0.31, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:18557 original size:15 final size:15
Alignment explanation
Indices: 18537--18569 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18527 ACTCTATTTT
*
18537 CCCTCATCGTCATCC
1 CCCTCACCGTCATCC
18552 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
18567 CCC
1 CCC
18570 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.61, G:0.06, T:0.21
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:20746 original size:19 final size:19
Alignment explanation
Indices: 20701--20749 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 19
20691 GCGTTTTACG
20701 GTTTTATCATTTTGATACC
1 GTTTTATCATTTTGATACC
20720 GATTTTATCATTTTGATACC
1 G-TTTTATCATTTTGATACC
20740 GTTTTATCAT
1 GTTTTATCAT
20750 ACTTTTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (19 bp):
GTTTTATCATTTTGATACC
Found at i:22539 original size:29 final size:30
Alignment explanation
Indices: 22501--22558 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
22491 TGTAGTAAAT
*
22501 ATTTTGAAAATCATGCTATATTGGTAATTA
1 ATTTTGAAAATCATGCTATATTCGTAATTA
** *
22531 ATTTT-AAAATGGTGCTATTTTCGTAATT
1 ATTTTGAAAATCATGCTATATTCGTAATT
22559 TTGAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
ATTTTGAAAATCATGCTATATTCGTAATTA
Found at i:28691 original size:26 final size:26
Alignment explanation
Indices: 28661--28727 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
28651 GTTATTTTGT
* * *
28661 AATTTTTTTAAAATGATATTTCCGTA
1 AATTTTTTAAAAATGACATTTCAGTA
*
28687 AATTTTTTAAAAAATGACATTTTAGTA
1 AATTTTTT-AAAAATGACATTTCAGTA
* *
28714 AATATTTTGAAAAT
1 AATTTTTTAAAAAT
28728 TATGCTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (26 bp):
AATTTTTTAAAAATGACATTTCAGTA
Found at i:34383 original size:2 final size:2
Alignment explanation
Indices: 34378--34620 Score: 95
Period size: 2 Copynumber: 125.0 Consensus size: 2
34368 AAATTGAAAA
* *
34378 AT AT AT AT AT AT AT AT AT A- AT AT A- AGT TT AT AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
34418 AT AT AT AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * *
34458 AT A- AG CT AT AT AT AT AA AT -T AT GT TT AT AT GA- ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
* * * * * * *
34499 AT AA ACT AT AT AT GT A- AA AT AT AT AT GT AT AA ACT AT AA AA AGT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T
* * * *
34543 AT AT AGT TT AT AA AT -T AT AA AT -T AT A- AT TT AT AT -T A- AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
34581 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34621 TATTCAAAAT
Statistics
Matches: 177, Mismatches: 39, Indels: 50
0.67 0.15 0.19
Matches are distributed among these distances:
1 16 0.09
2 153 0.86
3 8 0.05
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:34561 original size:25 final size:23
Alignment explanation
Indices: 34514--34563 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
34504 CTATATATGT
34514 AAAATATATATGTATAAACTATA
1 AAAATATATATGTATAAACTATA
* *
34537 AAAAGTATATAGTTTATAAATTATA
1 AAAA-TATATA-TGTATAAACTATA
34562 AA
1 AA
34564 TTATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 6 0.26
25 13 0.57
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (23 bp):
AAAATATATATGTATAAACTATA
Found at i:34753 original size:19 final size:19
Alignment explanation
Indices: 34731--34795 Score: 105
Period size: 19 Copynumber: 3.4 Consensus size: 19
34721 TTAAGAATAT
34731 AGGGAAATTGAGAATTTAG
1 AGGGAAATTGAGAATTTAG
34750 AGGGAAATTGAGAATTTAG
1 AGGGAAATTGAGAATTTAG
*
34769 AGGGAAATTGGAAAATTTAG
1 AGGGAAATT-GAGAATTTAG
34789 A-GGAAAT
1 AGGGAAAT
34796 AGAAAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 34 0.77
20 10 0.23
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.25
Consensus pattern (19 bp):
AGGGAAATTGAGAATTTAG
Found at i:34773 original size:38 final size:38
Alignment explanation
Indices: 34731--34839 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 38
34721 TTAAGAATAT
* * *
34731 AGGGAAATT-GAGAATTTAGAGGGAAATTGAGAATTTAG
1 AGGGAAATTGGAAAATTTAGA-GGAAATAGAAAATTTAG
34769 AGGGAAATTGGAAAATTTAGAGGAAATAGAAAATTT--
1 AGGGAAATTGGAAAATTTAGAGGAAATAGAAAATTTAG
* * * *
34805 TGGGAAGTTGG-AAATTTAAAGGGAATAGAAAATTT
1 AGGGAAATTGGAAAATTTAGAGGAAATAGAAAATTT
34840 TGGGAAGTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
35 22 0.35
36 9 0.14
38 22 0.35
39 10 0.16
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.27
Consensus pattern (38 bp):
AGGGAAATTGGAAAATTTAGAGGAAATAGAAAATTTAG
Found at i:34802 original size:18 final size:18
Alignment explanation
Indices: 34733--34839 Score: 99
Period size: 19 Copynumber: 5.8 Consensus size: 18
34723 AAGAATATAG
*
34733 GGAAATTGAGAATTTAGA
1 GGAAATTGAAAATTTAGA
*
34751 GGGAAATTGAGAATTTAGA
1 -GGAAATTGAAAATTTAGA
34770 GGGAAATTGGAAAATTTAGA
1 -GGAAATT-GAAAATTTAGA
* *
34790 GGAAATAGAAAATTTTG-
1 GGAAATTGAAAATTTAGA
* * *
34807 GGAAGTTGGAAATTTAAA
1 GGAAATTGAAAATTTAGA
* *
34825 GGGAATAGAAAATTT
1 GGAAATTGAAAATTT
34840 TGGGAAGTTG
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
17 12 0.16
18 20 0.27
19 32 0.43
20 10 0.14
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.27
Consensus pattern (18 bp):
GGAAATTGAAAATTTAGA
Found at i:34819 original size:17 final size:17
Alignment explanation
Indices: 34799--34851 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
34789 AGGAAATAGA
34799 AAATTTTGGGAAGTTGG
1 AAATTTTGGGAAGTTGG
* * *
34816 AAATTTAAAGGGAA-TAGA
1 AAATTT--TGGGAAGTTGG
34834 AAATTTTGGGAAGTTGG
1 AAATTTTGGGAAGTTGG
34851 A
1 A
34852 GCAAGGATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 8 0.30
19 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (17 bp):
AAATTTTGGGAAGTTGG
Found at i:34832 original size:35 final size:35
Alignment explanation
Indices: 34770--34851 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
34760 AGAATTTAGA
* *
34770 GGGAAATTGGAAAATTTAGAGGAAATAGAAAATTTT
1 GGGAAGTTGG-AAATTTAAAGGAAATAGAAAATTTT
*
34806 GGGAAGTTGGAAATTTAAAGGGAATAGAAAATTTT
1 GGGAAGTTGGAAATTTAAAGGAAATAGAAAATTTT
34841 GGGAAGTTGGA
1 GGGAAGTTGGA
34852 GCAAGGATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
35 34 0.79
36 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (35 bp):
GGGAAGTTGGAAATTTAAAGGAAATAGAAAATTTT
Found at i:35243 original size:17 final size:16
Alignment explanation
Indices: 35221--35257 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
35211 TGTATGTATG
35221 TATGTATATAAACTATA
1 TATGT-TATAAACTATA
35238 TATG-TATAAACTATA
1 TATGTTATAAACTATA
35253 TATGT
1 TATGT
35258 GTGTATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 15 0.79
17 4 0.21
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (16 bp):
TATGTTATAAACTATA
Found at i:35247 original size:15 final size:15
Alignment explanation
Indices: 35227--35257 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35217 TATGTATGTA
35227 TATAAACTATATATG
1 TATAAACTATATATG
35242 TATAAACTATATATG
1 TATAAACTATATATG
35257 T
1 T
35258 GTGTATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
TATAAACTATATATG
Found at i:35427 original size:17 final size:16
Alignment explanation
Indices: 35405--35441 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
35395 TGTATGTATG
35405 TATGTATATAAACTATA
1 TATGT-TATAAACTATA
35422 TATG-TATAAACTATA
1 TATGTTATAAACTATA
35437 TATGT
1 TATGT
35442 GTGTATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 15 0.79
17 4 0.21
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (16 bp):
TATGTTATAAACTATA
Found at i:35431 original size:15 final size:15
Alignment explanation
Indices: 35411--35441 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35401 TATGTATGTA
35411 TATAAACTATATATG
1 TATAAACTATATATG
35426 TATAAACTATATATG
1 TATAAACTATATATG
35441 T
1 T
35442 GTGTATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
TATAAACTATATATG
Found at i:35454 original size:10 final size:10
Alignment explanation
Indices: 35439--35496 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
35429 AAACTATATA
35439 TGTGTGTATG
1 TGTGTGTATG
35449 TGTGTGTA--
1 TGTGTGTATG
35457 TGTGTGTA--
1 TGTGTGTATG
35465 TGTGTGTATG
1 TGTGTGTATG
* *
35475 TGTGTATGTG
1 TGTGTGTATG
35485 TGTAGTGTATG
1 TGT-GTGTATG
35496 T
1 T
35497 ATGTATGTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 16 0.39
10 19 0.46
11 6 0.15
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (10 bp):
TGTGTGTATG
Found at i:35701 original size:8 final size:8
Alignment explanation
Indices: 35046--35683 Score: 650
Period size: 8 Copynumber: 80.8 Consensus size: 8
35036 TTTTCTATAC
35046 ATGTATGT
1 ATGTATGT
35054 ATGTATGT
1 ATGTATGT
*
35062 ATGTGTGT
1 ATGTATGT
*
35070 ATGTGTGT
1 ATGTATGT
*
35078 ATGTGTGT
1 ATGTATGT
*
35086 ATGTGTGT
1 ATGTATGT
*
35094 ATGTGTGT
1 ATGTATGT
*
35102 ATGTGTGT
1 ATGTATGT
*
35110 ATGTGTGT
1 ATGTATGT
*
35118 ATGTGTGT
1 ATGTATGT
*
35126 ATGTGTGT
1 ATGTATGT
*
35134 ATGTGTGT
1 ATGTATGT
*
35142 ATGTGTGT
1 ATGTATGT
*
35150 ATGTGTGT
1 ATGTATGT
*
35158 ATGTGTGT
1 ATGTATGT
*
35166 ATGTGTGT
1 ATGTATGT
*
35174 ATGTGTGT
1 ATGTATGT
*
35182 ATGTGTGT
1 ATGTATGT
*
35190 ATGTGTGT
1 ATGTATGT
*
35198 ATGTGTGT
1 ATGTATGT
35206 ATGTATGT
1 ATGTATGT
35214 ATGTATGT
1 ATGTATGT
*
35222 ATGTATAT
1 ATGTATGT
** *
35230 AAACTATAT
1 -ATGTATGT
*
35239 ATGTAT-A
1 ATGTATGT
** *
35246 AACTATAT
1 ATGTATGT
*
35254 ATGTGTGT
1 ATGTATGT
*
35262 ATGTGTGT
1 ATGTATGT
*
35270 ATGTGTGT
1 ATGTATGT
*
35278 ATGTGTGT
1 ATGTATGT
*
35286 ATGTGTGT
1 ATGTATGT
*
35294 ATGTGTGT
1 ATGTATGT
*
35302 ATGTGTGT
1 ATGTATGT
*
35310 ATGTGTGT
1 ATGTATGT
*
35318 ATGTGTGT
1 ATGTATGT
*
35326 ATGTGTGT
1 ATGTATGT
*
35334 ATGTGTGT
1 ATGTATGT
*
35342 ATGTGTGT
1 ATGTATGT
*
35350 ATGTGTGT
1 ATGTATGT
*
35358 ATGTGTGT
1 ATGTATGT
*
35366 ATGTGTGT
1 ATGTATGT
*
35374 ATGTGTGT
1 ATGTATGT
*
35382 ATGTGTGT
1 ATGTATGT
35390 ATGTATGT
1 ATGTATGT
35398 ATGTATGT
1 ATGTATGT
*
35406 ATGTATAT
1 ATGTATGT
** *
35414 AAACTATAT
1 -ATGTATGT
*
35423 ATGTAT-A
1 ATGTATGT
** *
35430 AACTATAT
1 ATGTATGT
*
35438 ATGTGTGT
1 ATGTATGT
35446 ATG--TGT
1 ATGTATGT
*
35452 GTGTATGT
1 ATGTATGT
*
35460 GTGTATGT
1 ATGTATGT
*
35468 GTGTATGT
1 ATGTATGT
*
35476 GTGTATGT
1 ATGTATGT
*
35484 GTGTAGTGT
1 ATGTA-TGT
35493 ATGTATGT
1 ATGTATGT
*
35501 ATGTCTGT
1 ATGTATGT
35509 ATGTATGT
1 ATGTATGT
35517 ATGTATGT
1 ATGTATGT
35525 ATGTATGT
1 ATGTATGT
35533 ATGTATGT
1 ATGTATGT
35541 ATGTATGT
1 ATGTATGT
35549 ATGTATGT
1 ATGTATGT
35557 ATGTATGT
1 ATGTATGT
35565 ATGTATGT
1 ATGTATGT
35573 ATGTATGT
1 ATGTATGT
35581 ATGTATGT
1 ATGTATGT
35589 A--TATGT
1 ATGTATGT
35595 ATGTATGT
1 ATGTATGT
35603 ATGTATGT
1 ATGTATGT
35611 ATGTATGT
1 ATGTATGT
35619 ATGTA-GT
1 ATGTATGT
35626 ATG-ATGT
1 ATGTATGT
35633 ATGTATGT
1 ATGTATGT
35641 ATGTATGT
1 ATGTATGT
35649 ATGTATG-
1 ATGTATGT
35656 -TGTATGT
1 ATGTATGT
35663 ATGTA-GT
1 ATGTATGT
35670 ATGTATGT
1 ATGTATGT
35678 ATGTAT
1 ATGTAT
35684 ATAAACTATA
Statistics
Matches: 583, Mismatches: 33, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
6 18 0.03
7 25 0.04
8 521 0.89
9 19 0.03
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (8 bp):
ATGTATGT
Found at i:35932 original size:14 final size:13
Alignment explanation
Indices: 35865--35935 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
35855 TTATTAAAAA
*
35865 AAACCTAAACCTT
1 AAACCTAAACCCT
**
35878 AAACCCTAAACTTT
1 AAA-CCTAAACCCT
*
35892 AAA-CTATACACACT
1 AAACCTA-A-ACCCT
35906 AAATCCTAAACCCT
1 AAA-CCTAAACCCT
35920 AAACCATAAACCCT
1 AAACC-TAAACCCT
35934 AA
1 AA
35936 TACAAATGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
12 3 0.06
13 6 0.12
14 35 0.73
15 1 0.02
16 3 0.06
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:36248 original size:15 final size:15
Alignment explanation
Indices: 36230--36274 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
36220 ATAATCATGT
*
36230 TTTATATAATTTATA
1 TTTAAATAATTTATA
36245 TTTAAATAATTT-TA
1 TTTAAATAATTTATA
36259 -TTAAATAATTTTATA
1 TTTAAATAA-TTTATA
36274 T
1 T
36275 AATATGTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
15 13 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATAATTTATA
Found at i:36278 original size:13 final size:13
Alignment explanation
Indices: 36235--36272 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
36225 CATGTTTTAT
36235 ATAATTTATATTTAA
1 ATAATTT-TA-TTAA
36250 ATAATTTTATTAA
1 ATAATTTTATTAA
36263 ATAATTTTAT
1 ATAATTTTAT
36273 ATAATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.61
14 2 0.09
15 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATAATTTTATTAA
Found at i:36313 original size:25 final size:26
Alignment explanation
Indices: 36270--36318 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
36260 TAAATAATTT
* *
36270 TATATAATATGTATGTATAAACCATG
1 TATATAATATATATATATAAACCATG
36296 TATAT-ATATATATATATAAACCA
1 TATATAATATATATATATAAACCA
36319 ACTAGATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (26 bp):
TATATAATATATATATATAAACCATG
Found at i:36893 original size:15 final size:17
Alignment explanation
Indices: 36875--36911 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
36865 TAAATAATTT
36875 TATATAAT-ATGTAT-G
1 TATATAATCATGTATAG
36890 TATA-AATCATGTATAG
1 TATATAATCATGTATAG
36906 TATATA
1 TATATA
36912 TAAACTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.16
15 10 0.53
16 5 0.26
17 1 0.05
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (17 bp):
TATATAATCATGTATAG
Found at i:36954 original size:13 final size:14
Alignment explanation
Indices: 36906--36939 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
36896 TCATGTATAG
36906 TATATATAAAC-TA
1 TATATATAAACATA
36919 TATATAT-AACATA
1 TATATATAAACATA
36932 TATATATA
1 TATATATA
36940 TATATAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 16 0.84
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
TATATATAAACATA
Found at i:37066 original size:14 final size:14
Alignment explanation
Indices: 37047--37080 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37037 AACCTAATCG
*
37047 TAAACTCTAAACCT
1 TAAACTCTAAACCA
*
37061 TAAACTTTAAACCA
1 TAAACTCTAAACCA
37075 TAAACT
1 TAAACT
37081 GTTGAGTTAA
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:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACTCTAAACCA
Found at i:40421 original size:21 final size:21
Alignment explanation
Indices: 40391--40435 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
40381 TTTAACAGAA
*
40391 CCCCTG-GGGGG-TATCGATT
1 CCCCTGTGGGGGAAATCGATT
*
40410 CCCCTGTGGGGGAAATCGGTT
1 CCCCTGTGGGGGAAATCGATT
40431 CCCCT
1 CCCCT
40436 TCAAAGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 11 0.50
ACGTcount: A:0.11, C:0.31, G:0.33, T:0.24
Consensus pattern (21 bp):
CCCCTGTGGGGGAAATCGATT
Found at i:40464 original size:20 final size:21
Alignment explanation
Indices: 40417--40478 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
40407 ATTCCCCTGT
40417 GGGGGAAATCGGTTCCCCTTCAAA
1 GGGGG-AATCGGTT-CCC-TCAAA
40441 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
40461 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
40479 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 8 0.22
24 5 0.14
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:46781 original size:23 final size:24
Alignment explanation
Indices: 46755--46804 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
46745 TATTTTTTTC
46755 TTTATATAAATTAAAATATA-TAA
1 TTTATATAAATTAAAATATATTAA
*
46778 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAAATATATTAA
46802 TTT
1 TTT
46805 TTCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAAATATATTAA
Found at i:47063 original size:16 final size:17
Alignment explanation
Indices: 47028--47074 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
47018 ATCAGATTAA
*
47028 GTTAAAAATAGGTCATG
1 GTTAAAAACAGGTCATG
47045 GTTAAAAACAGGTCA-G
1 GTTAAAAACAGGTCATG
*
47061 GTTGAAAACAGGTC
1 GTTAAAAACAGGTC
47075 GGGTAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (17 bp):
GTTAAAAACAGGTCATG
Found at i:48656 original size:13 final size:13
Alignment explanation
Indices: 48638--48667 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
48628 CACATTAGGG
48638 CCACTGGAGCGAC
1 CCACTGGAGCGAC
48651 CCACTGGAGCGAC
1 CCACTGGAGCGAC
48664 CCAC
1 CCAC
48668 CGTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (13 bp):
CCACTGGAGCGAC
Found at i:54185 original size:18 final size:18
Alignment explanation
Indices: 54152--54186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54142 AGGCCCGACC
*
54152 CATGCACCGCGACTTACG
1 CATGCACCGAGACTTACG
*
54170 CATGCACCGAGCCTTAC
1 CATGCACCGAGACTTAC
54187 CCCATGTGGC
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:0.23, C:0.40, G:0.20, T:0.17
Consensus pattern (18 bp):
CATGCACCGAGACTTACG
Found at i:54397 original size:10 final size:10
Alignment explanation
Indices: 54368--54401 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
54358 TTCACCACTC
54368 CAAATCCTCT
1 CAAATCCTCT
* *
54378 CTAATTCTCT
1 CAAATCCTCT
54388 CAAATCCTCT
1 CAAATCCTCT
54398 CAAA
1 CAAA
54402 AACCAAACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:54481 original size:8 final size:8
Alignment explanation
Indices: 54468--54515 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
54458 TGTTAGTATT
54468 TTATTTAA
1 TTATTTAA
54476 TTATTTAA
1 TTATTTAA
* *
54484 TTTTTTTA
1 TTATTTAA
*
54492 GTATTTAA
1 TTATTTAA
54500 TTTTATTTAA
1 --TTATTTAA
54510 TTATTT
1 TTATTT
54516 TATTTTTTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTATTTAA
Found at i:54492 original size:29 final size:26
Alignment explanation
Indices: 54448--54517 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 26
54438 TTTTATTCTG
*
54448 TTTAATATTTTGTTAGTATTTTATTTAATTA
1 TTTAAT-TTTT-TTAGTA-TTTAATT--TTA
54479 TTTAATTTTTTTAGTATTTAATTTTA
1 TTTAATTTTTTTAGTATTTAATTTTA
*
54505 TTTAATTATTTTA
1 TTTAATTTTTTTA
54518 TTTTTTTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 15 0.41
28 6 0.16
29 6 0.16
30 4 0.11
31 6 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTAATTTTTTTAGTATTTAATTTTA
Found at i:60487 original size:29 final size:29
Alignment explanation
Indices: 60446--60510 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
60436 TATTTACGGA
* * * *
60446 TTGAAAGGTTTGTTGTGTGATTTTT-TGGG
1 TTGAGAGGATTGTTGTG-AATTTTTAGGGG
60475 TTGAGAGGATTGTTGTGAATTTTTAGGGG
1 TTGAGAGGATTGTTGTGAATTTTTAGGGG
60504 TTGAGAG
1 TTGAGAG
60511 CGTATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (29 bp):
TTGAGAGGATTGTTGTGAATTTTTAGGGG
Found at i:60656 original size:45 final size:45
Alignment explanation
Indices: 60568--60658 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
60558 TAATTATACA
* * * * *
60568 AGGCGCGACCTATGCATCGCGCCTATTTAGCGAGTGTGGCAGACG
1 AGGCGCGACCCATGCACCGCGCCTATCTAGCGAGTATAGCAGACG
* * *
60613 AGGCGCGACCCATGCACCGCGCCTATCTGGCGCGTATATCAGACG
1 AGGCGCGACCCATGCACCGCGCCTATCTAGCGAGTATAGCAGACG
60658 A
1 A
60659 CCGTAAGGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.18
Consensus pattern (45 bp):
AGGCGCGACCCATGCACCGCGCCTATCTAGCGAGTATAGCAGACG
Found at i:65645 original size:51 final size:51
Alignment explanation
Indices: 65564--65667 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
65554 ATAATTATAC
* ** * *
65564 AAGGCGCGACCCATGCATCGTGCCTATTTGG-TGCGTGTGGTAGGCGACCGT
1 AAGGCGCGACCCATGCACCGCACCTATTTGGCT-CGTGTAGTAGACGACCGT
* *
65615 AAGGTGCGACCCATGCACCGCACCTATTTGGCTCGTGTATTAGACGACCGT
1 AAGGCGCGACCCATGCACCGCACCTATTTGGCTCGTGTAGTAGACGACCGT
65666 AA
1 AA
65668 CATTACCCTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (51 bp):
AAGGCGCGACCCATGCACCGCACCTATTTGGCTCGTGTAGTAGACGACCGT
Found at i:65765 original size:50 final size:51
Alignment explanation
Indices: 65686--65785 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 51
65676 TGCGTGGCAC
*
65686 CACATCAGCGTAAGGCGCGATGCATGGGCCACGCCTTA-CTCCACGTGGCGT
1 CACATCAGCGTAAGGCGAGATGCATGGGCCACGCCTTACCT-CACGTGGCGT
*
65737 CACATCAGCG-AAGGCGTAG-TGCATGGGCCATGCCTTACCTCACGTGGCG
1 CACATCAGCGTAAGGCG-AGATGCATGGGCCACGCCTTACCTCACGTGGCG
65786 CAGCATAAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
50 32 0.71
51 13 0.29
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (51 bp):
CACATCAGCGTAAGGCGAGATGCATGGGCCACGCCTTACCTCACGTGGCGT
Found at i:67432 original size:56 final size:56
Alignment explanation
Indices: 67292--67435 Score: 193
Period size: 56 Copynumber: 2.6 Consensus size: 56
67282 TAGGGCCCCA
*
67292 AAAAATAGGAGC-TCTGAAATCGAGTATATCTATCAGTTGTTGTCATTAAGAAGCAT
1 AAAAATAGGAGCTTC-GAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCAT
* * * *
67348 AAAAATA-GAGATCTCAAAATTGAGTATATGTATCAGTTGTTGCCATTAAGAAGCAT
1 AAAAATAGGAGCT-TCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCAT
* *
67404 AAAAATAGGGGCTTCGAAATCGAATATATCTA
1 AAAAATAGGAGCTTCGAAATCGAGTATATCTA
67436 AAAAATAGGG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 3 0.04
56 66 0.89
57 5 0.07
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (56 bp):
AAAAATAGGAGCTTCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCAT
Found at i:68087 original size:2 final size:2
Alignment explanation
Indices: 68080--68105 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68070 ACATATCCAT
68080 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
68106 TATATATAAA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:71835 original size:2 final size:2
Alignment explanation
Indices: 71828--71879 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
71818 GTAATTGATA
71828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71870 AT AT AT AT AT
1 AT AT AT AT AT
71880 TATCATTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76871 original size:32 final size:31
Alignment explanation
Indices: 76834--76894 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
76824 AAATGTTATC
* *
76834 TTTTTAGTCAAAATAGGTACCTAAAGTATTTT
1 TTTTTA-TCAAAATAGATACCTAAACTATTTT
76866 TTTTTATCAAAATAGATACCTAAACTATT
1 TTTTTATCAAAATAGATACCTAAACTATT
76895 CAAACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (31 bp):
TTTTTATCAAAATAGATACCTAAACTATTTT
Found at i:77083 original size:29 final size:29
Alignment explanation
Indices: 76978--77083 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
76968 TGAAAAAATG
* * *
76978 AATACTTTAGGTACCTATTTTGACAAAAA
1 AATACTTCAGGTACTTATTTTGACCAAAA
* *
77007 AATACTTCAGATACATATTTTGACCAAAA
1 AATACTTCAGGTACTTATTTTGACCAAAA
*
77036 AGATAACTTCAGGTACTTATTTTGACCAACA
1 A-AT-ACTTCAGGTACTTATTTTGACCAAAA
* *
77067 AATACTTTAGCTACTTA
1 AATACTTCAGGTACTTA
77084 AATAAAAAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 38 0.58
30 4 0.06
31 24 0.36
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (29 bp):
AATACTTCAGGTACTTATTTTGACCAAAA
Found at i:77110 original size:60 final size:59
Alignment explanation
Indices: 76949--77117 Score: 164
Period size: 60 Copynumber: 2.8 Consensus size: 59
76939 TTAATGAAAG
* * * *
76949 AATACTTTAGGTACTTAGATGAAAAAATGA-ATACTTTAGGTACCTATTTTGACAAAAA
1 AATACTTTAGATACTTAAATAAAAAAATGATATACTTTAGGTACTTATTTTGACAAAAA
* * ** * * * *
77007 AATACTTCAGATACATATTTTGACCAAAAA-GATA-ACTTCAGGTACTTATTTTGACCAACA
1 AATACTTTAGATACTTA-AAT-A-AAAAAATGATATACTTTAGGTACTTATTTTGACAAAAA
*
77067 AATACTTTAGCTACTTAAATAAAAAAGATGATATACTTTAGGTACTTATTT
1 AATACTTTAGATACTTAAATAAAAAA-ATGATATACTTTAGGTACTTATTT
77118 ATTATATAAA
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
57 4 0.05
58 16 0.19
59 6 0.07
60 54 0.63
61 6 0.07
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (59 bp):
AATACTTTAGATACTTAAATAAAAAAATGATATACTTTAGGTACTTATTTTGACAAAAA
Found at i:77247 original size:29 final size:29
Alignment explanation
Indices: 77215--77280 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
77205 TATGATTTTC
77215 TTTAAATATGAGAATACTATAAACACTTA
1 TTTAAATATGAGAATACTATAAACACTTA
* *
77244 TTTAAATATGATAATACTATAAAGACTTA
1 TTTAAATATGAGAATACTATAAACACTTA
*
77273 TTCAAATA
1 TTTAAATA
77281 AACTATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (29 bp):
TTTAAATATGAGAATACTATAAACACTTA
Found at i:78979 original size:21 final size:20
Alignment explanation
Indices: 78955--79013 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
78945 ATTATCCAAT
78955 AAACTTGACATCCATAACAAC
1 AAACTTGA-ATCCATAACAAC
78976 AAACTTGAAATCCATAACAAC
1 AAACTTG-AATCCATAACAAC
*
78997 CAACTTGAACTCCATAA
1 AAACTTGAA-TCCATAA
79014 TAATAAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.05, T:0.20
Consensus pattern (20 bp):
AAACTTGAATCCATAACAAC
Found at i:82476 original size:27 final size:28
Alignment explanation
Indices: 82415--82477 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
82405 AACCGGCCCA
* * * *
82415 ACCTGACCCGAACAATTGACCTGACTCT
1 ACCTGAACCGAACAATTGACCTAACCCG
82443 ACCTGAACCGAAC-ATTGACCTAACCCG
1 ACCTGAACCGAACAATTGACCTAACCCG
*
82470 ACTTGAAC
1 ACCTGAAC
82478 TGTTGACCCG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (28 bp):
ACCTGAACCGAACAATTGACCTAACCCG
Found at i:82552 original size:22 final size:22
Alignment explanation
Indices: 82524--82570 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
82514 TTAACCGTTT
82524 ACCGGTCAGACCATTGACTTTG
1 ACCGGTCAGACCATTGACTTTG
**
82546 ACCGGTCAGACTGTTGACTTTG
1 ACCGGTCAGACCATTGACTTTG
82568 ACC
1 ACC
82571 AAAAAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (22 bp):
ACCGGTCAGACCATTGACTTTG
Found at i:83037 original size:13 final size:13
Alignment explanation
Indices: 83019--83044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83009 TGTGTGCAAT
83019 ATAACTATTTTAA
1 ATAACTATTTTAA
83032 ATAACTATTTTAA
1 ATAACTATTTTAA
83045 GTATCTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAACTATTTTAA
Found at i:86742 original size:28 final size:28
Alignment explanation
Indices: 86711--86776 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
86701 AGTCAGACCA
86711 TTGACTTTGATC-GATCTGACTGTTAACT
1 TTGACTTTGATCAG-TCTGACTGTTAACT
86739 TTGACTTTGATCAGTCTGACTGTTAACT
1 TTGACTTTGATCAGTCTGACTGTTAACT
86767 TTGACTTTGA
1 TTGACTTTGA
86777 CCGAAAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (28 bp):
TTGACTTTGATCAGTCTGACTGTTAACT
Found at i:88369 original size:41 final size:41
Alignment explanation
Indices: 88269--88440 Score: 159
Period size: 41 Copynumber: 4.2 Consensus size: 41
88259 TTTTTACGTT
* * * * *
88269 AACGCCACTAAAGTACGTGTCTATGGCGGC-TTTTTAAACACA
1 AACGCCACTAAAGTACGAGTCTATAGCGTCGTTTGTATA-A-A
* * *
88311 AACACGACTAAAGTACGAGTCTATAGCGTCGTTTGTGTAAA
1 AACGCCACTAAAGTACGAGTCTATAGCGTCGTTTGTATAAA
*
88352 AACGTCACTAAAGTACGAGTCTATAGCGGT-GTTTGTATAAA
1 AACGCCACTAAAGTACGAGTCTATAGC-GTCGTTTGTATAAA
* * * * * * *
88393 AATGCCACTATAGTAAGATTCTTTAGCGGCGTTTGTATACA
1 AACGCCACTAAAGTACGAGTCTATAGCGTCGTTTGTATAAA
88434 AACGCCA
1 AACGCCA
88441 TGAAATTTTG
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 1 0.01
41 72 0.68
42 28 0.26
43 5 0.05
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (41 bp):
AACGCCACTAAAGTACGAGTCTATAGCGTCGTTTGTATAAA
Found at i:98657 original size:14 final size:14
Alignment explanation
Indices: 98638--98699 Score: 97
Period size: 14 Copynumber: 4.4 Consensus size: 14
98628 CGTTCGGTTA
98638 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
98652 TATGTTTGTTCATT
1 TATGTTCGTTCATT
**
98666 TATGTTCGTTCGGT
1 TATGTTCGTTCATT
98680 TATGTTCGTTCATT
1 TATGTTCGTTCATT
98694 TATGTT
1 TATGTT
98700 TAACTCAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.13, C:0.11, G:0.18, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:103169 original size:99 final size:99
Alignment explanation
Indices: 102922--103238 Score: 566
Period size: 99 Copynumber: 3.2 Consensus size: 99
102912 CGTTTATCGT
*
102922 TTAAATGAACGAACATGAACAAACTACATTCCTTAATGAACGAACATGAACAAATTTTTTTTCGT
1 TTAAATGAACGAACATGAACAAACTATATTCCTTAATGAACGAACATGAACAAATTTTTTTTCGT
102987 TTATGTTCGTGTTCGTTTATTTGTTCGGTTAAAA
66 TTATGTTCGTGTTCGTTTATTTGTTCGGTTAAAA
* *
103021 TTAAATGAACGAACAT-AAAAAACTATATTCCTTAATAAACGAACATGAAC-AATATTTTTTTCG
1 TTAAATGAACGAACATGAACAAACTATATTCCTTAATGAACGAACATGAACAAAT-TTTTTTTCG
103084 TTTATGTTCGTGTTCGTTTATTTGTTCGGTTAAAA
65 TTTATGTTCGTGTTCGTTTATTTGTTCGGTTAAAA
103119 TTAAATGAACGAACATGAACAAACTATATTCCTTAATGAACGAACATGAACAAATTTTTTTTCGT
1 TTAAATGAACGAACATGAACAAACTATATTCCTTAATGAACGAACATGAACAAATTTTTTTTCGT
*
103184 TTATGTTCGTGTTCGTTTATTTGTTCAGTTAAAA
66 TTATGTTCGTGTTCGTTTATTTGTTCGGTTAAAA
*
103218 TTAAATGAACGAACATAAACA
1 TTAAATGAACGAACATGAACA
103239 TATTTTTATT
Statistics
Matches: 208, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
97 3 0.01
98 91 0.44
99 111 0.53
100 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (99 bp):
TTAAATGAACGAACATGAACAAACTATATTCCTTAATGAACGAACATGAACAAATTTTTTTTCGT
TTATGTTCGTGTTCGTTTATTTGTTCGGTTAAAA
Found at i:105830 original size:54 final size:54
Alignment explanation
Indices: 105697--106046 Score: 517
Period size: 54 Copynumber: 6.5 Consensus size: 54
105687 AAACTCATTG
* * * *
105697 TGAATTTCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTA
1 TGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
* *
105751 TG-ATTAT-GTGGGTTGAACACTTAGTG-CTGATACAGTCGTTCATCAACATATGA
1 TGAATT-TCGTGGGTTGCACACTTAGTGCCT-ATACGGTCGTTCATCAACATATGA
* * *
105804 TGAATTCCGTAGGTTGCACACTTAGTGCCTATACGGTCGTTCATCGACATATGA
1 TGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
* *
105858 TGAATTCCGTGGGTTGCACACTTAGTGCCTATAAGGTCGTTCATCAACATATGA
1 TGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
** * *
105912 TGAATTTCGTGGGTTGCACACTTAGTGTTTATACGGTTGTTCATCAATATATGA
1 TGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
*
105966 TGAATTTCGTGGGTTGTACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
1 TGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
106020 TGAATTTCGTGGGTTGCACACTTAGTG
1 TGAATTTCGTGGGTTGCACACTTAGTG
106047 TCGATAATAT
Statistics
Matches: 265, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
52 1 0.00
53 43 0.16
54 219 0.83
55 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (54 bp):
TGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA
Found at i:108399 original size:143 final size:138
Alignment explanation
Indices: 108204--108473 Score: 411
Period size: 143 Copynumber: 1.9 Consensus size: 138
108194 CTCATACAAG
*
108204 TATACATTATACTTATAATGTATATATAATAATGTGATGAATATCATGATAATATAATTTATGTA
1 TATACATTATACTTATAATGTATATATAATAATGTGATGAATATCATGATAATATAATTCATGTA
108269 TAT-ATAATGTATATTAT-ATTT-TACTTATGCATTCATTATATGTATATACTTATATAAGTATA
66 TATCA-AATGTATATTATCATTTATACTTATGCATTCATTATATGTATATACTTATATAAGTATA
108331 TAATATAAT
130 TAATATAAT
*
108340 TATACATTATACTTATAATGTATATATATATATAATATGTATGATGAATGTCATGATAATATAAT
1 TATACATTATACTTATAATG--TATATATA-AT-A-ATG--TGATGAATATCATGATAATATAAT
*
108405 TCATGTATATCAAATGTATATTATGCATTTATCCTTATGCATTCATTATATGTATATACTTATAT
59 TCATGTATATCAAATGTATATTAT-CATTTATACTTATGCATTCATTATATGTATATACTTATAT
108470 AAGT
123 AAGT
108474 GTAATGTATA
Statistics
Matches: 120, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
136 20 0.17
138 8 0.07
139 2 0.02
140 1 0.01
141 3 0.03
143 44 0.37
144 1 0.01
145 4 0.03
146 37 0.31
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.46
Consensus pattern (138 bp):
TATACATTATACTTATAATGTATATATAATAATGTGATGAATATCATGATAATATAATTCATGTA
TATCAAATGTATATTATCATTTATACTTATGCATTCATTATATGTATATACTTATATAAGTATAT
AATATAAT
Found at i:109280 original size:19 final size:19
Alignment explanation
Indices: 109256--109297 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
109246 TATTATAAAT
*
109256 TCAAAATCTCACAACTTCG
1 TCAAAATCTCACAACTTCA
*
109275 TCAAAATCTCATAACTTCA
1 TCAAAATCTCACAACTTCA
109294 TCAA
1 TCAA
109298 TTATAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (19 bp):
TCAAAATCTCACAACTTCA
Done.