Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000087.1 Hibiscus syriacus cultivar Beakdansim tig00000159_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: 110087
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:5176 original size:55 final size:55
Alignment explanation
Indices: 5117--5514 Score: 216
Period size: 53 Copynumber: 7.5 Consensus size: 55
5107 CTTATGAAAT
* * *
5117 CAGGTTCACTTCTTATTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCTTCCAA
1 CAGGTTCGCTTCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCTTCCAA
* * * * *
5172 CAGGTTCGCTGCCTCTTGCTTCA-GGATGTATAAAACTCCAACAATCTTCTGCCAA
1 CAGGTTCGCTTCCTCTTGCTTCAGGGA-GTGTAGAACTCAAACAATCTTCTTCCAA
* * * * * *
5227 CGGGTTCGCTCCCTCTTGCTTTAGGGA--GTAGAACTCGAACAAGCTTTTATCC-A
1 CAGGTTCGCTTCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCT-TCCAA
* * * * *
5280 CGGGTTCGC-TCTCTCTTGCTTCAGGGA--GTATAACTCGAATAATCTTCTAT-CTA
1 CAGGTTCGCTTC-CTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCT-TCCAA
** * * * *
5333 GGGGTTCTC-T-CTCTTACTTCA--GAG-GTAAGAACTCAAACAATCTT-TTGTCTA
1 CAGGTTCGCTTCCTCTTGCTTCAGGGAGTGT-AGAACTCAAACAATCTTCTT-CCAA
* * * * * * *
5384 CATGTT-GC-T-CTCTTTCTTCAGAGAGT-AAGAACTCAAACAATATTCTGCCTA
1 CAGGTTCGCTTCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCTTCCAA
* * *
5435 CGGGTTCG-TT-CTCTTGCTTCAGGGA--GTAGAACTCGAACAATCTTCTGT-CTA
1 CAGGTTCGCTTCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCT-TCCAA
*
5486 CGGGATT-GC-TCTCTCTTGCTTCAGGGAGT
1 CAGG-TTCGCTTC-CTCTTGCTTCAGGGAGT
5515 AATAACTCGA
Statistics
Matches: 274, Mismatches: 46, Indels: 46
0.75 0.13 0.13
Matches are distributed among these distances:
49 3 0.01
50 15 0.05
51 79 0.29
52 23 0.08
53 83 0.30
54 5 0.02
55 63 0.23
56 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (55 bp):
CAGGTTCGCTTCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCTTCCAA
Found at i:5366 original size:51 final size:53
Alignment explanation
Indices: 5132--5529 Score: 361
Period size: 51 Copynumber: 7.5 Consensus size: 53
5122 TCACTTCTTA
* * * *
5132 TTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCT-TCCAACAGGTTCGCTGC-CTC
1 TTGCTTCAGGGAGT-AAGAACTCGAACAATCTTCTGT-CTACGGGTT-GCT-CTCTC
* * * * *
5187 TTGCTTCA-GGATGTATAAAACTCCAACAATCTTCTGCCAACGGGTTCGCTCCCTC
1 TTGCTTCAGGGA-GTA-AGAACTCGAACAATCTTCTGTCTACGGGTT-GCTCTCTC
* * * * *
5242 TTGCTTTAGGGAGT-AGAACTCGAACAAGCTTTTATCCACGGGTTCGCTCTCTC
1 TTGCTTCAGGGAGTAAGAACTCGAACAATCTTCTGTCTACGGGTT-GCTCTCTC
* * * *
5295 TTGCTTCAGGGAGT-ATAACTCGAATAATCTTCTATCTAGGGGTT-CTCTCTC
1 TTGCTTCAGGGAGTAAGAACTCGAACAATCTTCTGTCTACGGGTTGCTCTCTC
* * * * **
5346 TTACTTCAGAG-GTAAGAACTCAAACAATCTTTTGTCTACATGTTGCTCTCT-
1 TTGCTTCAGGGAGTAAGAACTCGAACAATCTTCTGTCTACGGGTTGCTCTCTC
* * * *
5397 TT-CTTCAGAGAGTAAGAACTCAAACAATATTCTGCCTACGGGTT-CGT-TCTC
1 TTGCTTCAGGGAGTAAGAACTCGAACAATCTTCTGTCTACGGGTTGC-TCTCTC
5448 TTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGTCTACGGGATTGCTCTCTC
1 TTGCTTCAGGGAGTAAGAACTCGAACAATCTTCTGTCTACGGG-TTGCTCTCTC
*
5501 TTGCTTCAGGGAGTAATAACTCGAACAAT
1 TTGCTTCAGGGAGTAAGAACTCGAACAAT
5530 TGATAGCTTG
Statistics
Matches: 287, Mismatches: 41, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
50 14 0.05
51 96 0.33
52 19 0.07
53 87 0.30
54 17 0.06
55 51 0.18
56 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (53 bp):
TTGCTTCAGGGAGTAAGAACTCGAACAATCTTCTGTCTACGGGTTGCTCTCTC
Found at i:5462 original size:206 final size:212
Alignment explanation
Indices: 5148--5525 Score: 531
Period size: 206 Copynumber: 1.8 Consensus size: 212
5138 CAGGGAGTGT
*
5148 AGAACTCAAACAATCTTCTTCCAACAGGTTCGCTGCCTCTTGCTTCAGGATGTATAAAACTCCAA
1 AGAACTCAAACAATCTTCTTCCAACAGGTTCGCT-CCTCTTGCTTCAGGATGTATAAAACTCAAA
* * *
5213 CAATCTTCTGCCAACGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTCGAACAAGCTTTTATC
65 CAATATTCTGCCAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAAGCTTCTATC
5278 CACGGG-TTCGCTCTCTCTTGCTTCAGGGAGT-ATAACTCGAATAATCTTCTATCTAGGGGTTCT
130 CACGGGATT-GCTCTCTCTTGCTTCAGGGAGTAATAACTCGAATAATCTTCTATCTAGGGGTTCT
5341 CTCTCTTACTTCAGAGGTA
194 CTCTCTTACTTCAGAGGTA
* * * * *
5360 AGAACTCAAACAATCTT-TTGTCTACATGTT-GCT-CTCTTTCTTCAGAGA-GTA-AGAACTCAA
1 AGAACTCAAACAATCTTCTT-CCAACAGGTTCGCTCCTCTTGCTTCAG-GATGTATAAAACTCAA
* * * *
5420 ACAATATTCTGCCTACGGGTTCG-T-TCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGT
64 ACAATATTCTGCCAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAAGCTTCTAT
*
5483 CTACGGGATTGCTCTCTCTTGCTTCAGGGAGTAATAACTCGAA
129 CCACGGGATTGCTCTCTCTTGCTTCAGGGAGTAATAACTCGAA
5526 CAATTGATAG
Statistics
Matches: 148, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
206 62 0.42
207 13 0.09
208 28 0.19
209 14 0.09
210 2 0.01
211 5 0.03
212 24 0.16
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (212 bp):
AGAACTCAAACAATCTTCTTCCAACAGGTTCGCTCCTCTTGCTTCAGGATGTATAAAACTCAAAC
AATATTCTGCCAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAAGCTTCTATCC
ACGGGATTGCTCTCTCTTGCTTCAGGGAGTAATAACTCGAATAATCTTCTATCTAGGGGTTCTCT
CTCTTACTTCAGAGGTA
Found at i:7545 original size:10 final size:10
Alignment explanation
Indices: 7518--7563 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
7508 TTTCTTGCCA
7518 TTTATTT-TT
1 TTTATTTATT
7527 TATTA-TTATT
1 T-TTATTTATT
7537 TTTATTTATT
1 TTTATTTATT
7547 TTTATTTATT
1 TTTATTTATT
7557 TTTATTT
1 TTTATTT
7564 TACTAACTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.18
10 28 0.82
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTATTTATT
Found at i:7563 original size:16 final size:16
Alignment explanation
Indices: 7517--7564 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
7507 TTTTCTTGCC
*
7517 ATTTATTTTTTATTATT
1 ATTTA-TTTTTATTTTT
7534 ATTT-TTATTTATTTTT
1 ATTTATT-TTTATTTTT
7550 ATTTATTTTTATTTT
1 ATTTATTTTTATTTT
7565 ACTAACTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 2 0.07
16 20 0.71
17 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTATTTTTATTTTT
Found at i:12666 original size:36 final size:36
Alignment explanation
Indices: 12616--12690 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
12606 GTGCTTACCA
* *
12616 TTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAA-CT
1 TTGTCTCTCCTGAGACAGTTTCCCTTGAAA-AAACCT
12652 TTGTCTCTCCTGAGACAGTTTCCCTTGAAAAAACCT
1 TTGTCTCTCCTGAGACAGTTTCCCTTGAAAAAACCT
12688 TTG
1 TTG
12691 AAATTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (36 bp):
TTGTCTCTCCTGAGACAGTTTCCCTTGAAAAAACCT
Found at i:13699 original size:106 final size:106
Alignment explanation
Indices: 13545--13969 Score: 643
Period size: 106 Copynumber: 4.0 Consensus size: 106
13535 TCGCTCCACC
* *
13545 CGAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
13610 TTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* * *
13651 CAAGACAGCACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACACACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
13716 TTCAGAGCCAATTTCAACTTCACGGCGAAGGGTATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* * * *
13757 CGAGACAACACAAGTTCAACTTCACAATGAAGGGACGTCTGGTTGTCAACAAAAAATTTTCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
13822 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* * * *
13863 CGAGACAACACAAGATCAACTTCACAACGAAGGGATGGCTAGTTGTCAACAAACAATTTCCCAGT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * * * *
13928 TCCAGAACCAATTTCAACTTCACGGTGGAGGATATTAGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
13969 C
1 C
13970 AGAACAATAC
Statistics
Matches: 288, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 288 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
Found at i:15730 original size:14 final size:15
Alignment explanation
Indices: 15711--15748 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15701 TGTTTATCTC
15711 TTCTTTATTTC-ATT
1 TTCTTTATTTCAATT
15725 TTCTTTATTTTCAATT
1 TTCTTTA-TTTCAATT
*
15741 ATCTTTAT
1 TTCTTTAT
15749 CGTTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 5 0.24
16 9 0.43
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TTCTTTATTTCAATT
Found at i:27825 original size:54 final size:54
Alignment explanation
Indices: 27711--28463 Score: 991
Period size: 54 Copynumber: 14.1 Consensus size: 54
27701 AGTTATCAAT
* * * * *
27711 AATCTTCTGCCTATGGGGTCTCTCTCTCTTGCTTCAGTGAGT-TGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
** * **
27764 AATCTTCTGTTTACGGGTTCGCTCTCTCTTTCTTCATAGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * *
27818 AATCTTCTCCCTACGGGTTTGCTGTCTCTTGCTTCAGGGAGTAAGAAGTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* *
27872 AATCTTCTGCGTACGGGTTCGCTCTCTCTTGCTTAAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* *
27926 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGT-AGAACTCGGAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * **
27979 AATATTCTGCCTACGGGTTCTCTCTCTCTAACTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * *
28033 AATCTT-TTCCTATGGGTTCGCTCTCTCTTACTTCAGGGAGT-AGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * *
28085 AATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* *
28139 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGT-AGAACTCGGAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * **
28192 AATATTCTGCCTACGGGTTCTCTCTCTCTAACTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * *
28246 AATCTT-TTCCTATGGGTTCGCTCTCTCTTACTTCAGGGAGT-AGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * *
28298 AATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* ** *
28352 AATCTTCTGCCTACGGGTTCGCTCTCTCTTACTTCAGGGAGTAAGAACGGGAAT
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * * **
28406 AATCTTCTACCTACAGGTTCGCTGC-CTCTTACTTTAGGGAGGCAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCT-CTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
28460 AATC
1 AATC
28464 ATGATTTGCT
Statistics
Matches: 616, Mismatches: 76, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
52 34 0.06
53 254 0.41
54 327 0.53
55 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (54 bp):
AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAAGAACTCGAAC
Found at i:28152 original size:213 final size:213
Alignment explanation
Indices: 27711--28463 Score: 1107
Period size: 213 Copynumber: 3.5 Consensus size: 213
27701 AGTTATCAAT
* * * * * * **
27711 AATCTTCTGCCTATGGGGTCTCTCTCTCTTGCTTC-AGTGAGTTGAACTCGAACAATCTTCTGTT
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAG-GAGTAGAACTCGGACAATATTCTGCC
** ** * * *
27775 TACGGGTTCGCTCTCTCTTTCTTCATAGAGTAAGAACTCGAACAATCTTCTCCCTACGGGTTTGC
65 TACGGGTTCGCTCTCTCTAACTTCAGGGAGTAAGAACTCGAACAATCTT-TTCCTATGGGTTCGC
* * * * * * *
27840 TGTCTCTTGCTTCAGGGAGTAAGAAGTCGAACAATCTTCTGCGTACGGGTTCGCTCTCTCTTGCT
129 TCTCTCTTACTTCAGGGAGT-AGAACTCGAACAATCTTATGCCTATGGGTTCGTTCTCTCTTGCT
*
27905 TAAGGGAGTAAGAACTCGAAC
193 TCAGGGAGTAAGAACTCGAAC
27926 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGGACAATATTCTGCCT
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGGACAATATTCTGCCT
*
27991 ACGGGTTCTCTCTCTCTAACTTCAGGGAGTAAGAACTCGAACAATCTTTTCCTATGGGTTCGCTC
66 ACGGGTTCGCTCTCTCTAACTTCAGGGAGTAAGAACTCGAACAATCTTTTCCTATGGGTTCGCTC
28056 TCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCA
131 TCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCA
28121 GGGAGTAAGAACTCGAAC
196 GGGAGTAAGAACTCGAAC
28139 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGGACAATATTCTGCCT
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGGACAATATTCTGCCT
*
28204 ACGGGTTCTCTCTCTCTAACTTCAGGGAGTAAGAACTCGAACAATCTTTTCCTATGGGTTCGCTC
66 ACGGGTTCGCTCTCTCTAACTTCAGGGAGTAAGAACTCGAACAATCTTTTCCTATGGGTTCGCTC
28269 TCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCA
131 TCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCA
28334 GGGAGTAAGAACTCGAAC
196 GGGAGTAAGAACTCGAAC
* * * * * *
28352 AATCTTCTGCCTACGGGTTCGCTCTCTCTTACTTCAGGGAGTAAGAAC-GGGAATAATCTTCTAC
1 AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGT-AGAACTCGG-ACAATATTCTGC
* * * **
28416 CTACAGGTTCGCTGC-CTCTTACTTTAGGGAGGCAGAACTCGAACAATC
64 CTACGGGTTCGCT-CTCTCTAACTTCAGGGAGTAAGAACTCGAACAATC
28464 ATGATTTGCT
Statistics
Matches: 498, Mismatches: 36, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
213 314 0.63
214 84 0.17
215 98 0.20
216 2 0.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (213 bp):
AATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGGACAATATTCTGCCT
ACGGGTTCGCTCTCTCTAACTTCAGGGAGTAAGAACTCGAACAATCTTTTCCTATGGGTTCGCTC
TCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTATGCCTATGGGTTCGTTCTCTCTTGCTTCA
GGGAGTAAGAACTCGAAC
Found at i:28544 original size:37 final size:37
Alignment explanation
Indices: 28464--28534 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
28454 TCGAACAATC
* *
28464 ATGATTTGCTTCACTACTTTTTTGTGAAGGCTTATAG
1 ATGATTTGCTTCACTACTCTTTCGTGAAGGCTTATAG
*
28501 ATGATTTGCTTTACTACTCTTTCGTGAAGGCTTA
1 ATGATTTGCTTCACTACTCTTTCGTGAAGGCTTA
28535 AGTTTGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (37 bp):
ATGATTTGCTTCACTACTCTTTCGTGAAGGCTTATAG
Found at i:29593 original size:19 final size:19
Alignment explanation
Indices: 29571--29677 Score: 69
Period size: 18 Copynumber: 5.6 Consensus size: 19
29561 TTATACCTGC
29571 TTTTTATTTTTCTCTCTT-T
1 TTTTTATTTTTCT-TCTTCT
* *
29590 TTTTCA-TTTTCTTTTTCT
1 TTTTTATTTTTCTTCTTCT
* *
29608 TTTTTCATTTTTCATTTTTCA
1 TTTTT-ATTTTTC-TTCTTCT
* *
29629 TTTTT-CTTTTCATTTTTCAT
1 TTTTTATTTTTC-TTCTTC-T
*
29649 TTTTCATTTTTCTT-TTCT
1 TTTTTATTTTTCTTCTTCT
*
29667 TTTTTCTTTTT
1 TTTTTATTTTT
29678 TCATTTTTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
17 3 0.04
18 21 0.29
19 21 0.29
20 11 0.15
21 16 0.22
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTTCTTCTTCT
Found at i:29625 original size:26 final size:25
Alignment explanation
Indices: 29590--29824 Score: 169
Period size: 26 Copynumber: 9.0 Consensus size: 25
29580 TTCTCTCTTT
* *
29590 TTTTCA-TTTTCTTTTTCTTTTTTCAT
1 TTTTCATTTTTC-ATTT-TTTTTTCTT
*
29616 TTTTCATTTTTCATTTTTCTTTTCAT
1 TTTTCATTTTTCATTTTT-TTTTCTT
29642 TTTTCATTTTTCATTTTTCTTTTCTT
1 TTTTCATTTTTCATTTTT-TTTTCTT
*
29668 TTTTCTTTTTTCATTTTTCTTTTC-T
1 TTTTCATTTTTCATTTTT-TTTTCTT
* *
29693 TTTTCATTTTTCCCTTTCTTTTTCATT
1 TTTTCATTTTT-CATTTTTTTTTC-TT
** *
29720 TTTTC-CCTTTCTTTTTATTTTTCATTT
1 TTTTCATTTTTCATTTT-TTTTTC--TT
* *
29747 TTTTC-CTTTTCA--TTTTTTTC-C
1 TTTTCATTTTTCATTTTTTTTTCTT
29768 TTTTCATTTTTTCATTTTTTTTTTCATT
1 TTTTCA-TTTTTCA-TTTTTTTTTC-TT
29796 TTTTCATTTTTTTTCATTTTTTTCTTCTT
1 TTTTCA---TTTTTCATTTTTTT-TTCTT
29825 CAAGCAAAAT
Statistics
Matches: 176, Mismatches: 16, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.03
23 6 0.03
24 6 0.03
25 24 0.14
26 86 0.49
27 23 0.13
28 6 0.03
29 9 0.05
30 11 0.06
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTCATTTTTCATTTTTTTTTCTT
Found at i:29771 original size:23 final size:22
Alignment explanation
Indices: 29753--29808 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
29743 ATTTTTTTCC
29753 TTTTCATTTTTTTCCTTTTCATT
1 TTTTCATTTTTTTCCTTTT-ATT
*
29776 TTTTCATTTTTTT--TTTCATT
1 TTTTCATTTTTTTCCTTTTATT
29796 TTTTCATTTTTTT
1 TTTTCATTTTTTT
29809 TCATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 16 0.50
21 3 0.09
23 13 0.41
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTCATTTTTTTCCTTTTATT
Found at i:29789 original size:10 final size:10
Alignment explanation
Indices: 29774--29818 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
29764 TTCCTTTTCA
29774 TTTTTTCATT
1 TTTTTTCATT
29784 TTTTTT--TT
1 TTTTTTCATT
29792 CATTTTTTCATT
1 --TTTTTTCATT
29804 TTTTTTCATT
1 TTTTTTCATT
29814 TTTTT
1 TTTTT
29819 CTTCTTCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 2 0.06
10 27 0.87
12 2 0.06
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:29808 original size:19 final size:19
Alignment explanation
Indices: 29588--29817 Score: 154
Period size: 19 Copynumber: 12.3 Consensus size: 19
29578 TTTTCTCTCT
29588 TTTTTTCATTTTCTTTTTC-
1 TTTTTTCATTTT-TTTTTCA
29607 TTTTTTCATTTTTCATTTTTCA
1 TTTTTTCA-TTTT--TTTTTCA
29629 -TTTTTC-TTTTCATTTTTCA
1 TTTTTTCATTTT--TTTTTCA
29648 -TTTTTCATTTTTCTTTTC-
1 TTTTTTCATTTTT-TTTTCA
29666 TTTTTTC----TTTTTTCA
1 TTTTTTCATTTTTTTTTCA
29681 -TTTTTC-TTTTCTTTTTCA
1 TTTTTTCATTTT-TTTTTCA
* * *
29699 TTTTTCCCTTTCTTTTTCA
1 TTTTTTCATTTTTTTTTCA
* *
29718 TTTTTTCCCTTTCTTTTT-A
1 TTTTTT-CATTTTTTTTTCA
29737 -TTTTTCA--TTTTTTTC-
1 TTTTTTCATTTTTTTTTCA
*
29752 -CTTTTCATTTTTTTCCTTTTCA
1 TTTTTTCA--TTTTT--TTTTCA
29774 TTTTTTCATTTTTTTTTTCA
1 TTTTTTCA-TTTTTTTTTCA
29794 TTTTTTCA-TTTTTTTTCA
1 TTTTTTCATTTTTTTTTCA
29812 TTTTTT
1 TTTTTT
29818 TCTTCTTCAA
Statistics
Matches: 180, Mismatches: 8, Indels: 47
0.77 0.03 0.20
Matches are distributed among these distances:
14 11 0.06
15 14 0.08
17 2 0.01
18 29 0.16
19 59 0.33
20 36 0.20
21 17 0.09
22 6 0.03
23 6 0.03
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTCATTTTTTTTTCA
Found at i:29816 original size:7 final size:7
Alignment explanation
Indices: 29589--29806 Score: 166
Period size: 7 Copynumber: 32.7 Consensus size: 7
29579 TTTCTCTCTT
29589 TTTTTCA
1 TTTTTCA
29596 -TTTTC-
1 TTTTTCA
*
29601 TTTTTCT
1 TTTTTCA
29608 TTTTTCA
1 TTTTTCA
29615 TTTTTCA
1 TTTTTCA
29622 TTTTTCA
1 TTTTTCA
29629 TTTTTC-
1 TTTTTCA
29635 -TTTTCA
1 TTTTTCA
29641 TTTTTCA
1 TTTTTCA
29648 TTTTTCA
1 TTTTTCA
29655 TTTTTC-
1 TTTTTCA
*
29661 -TTTTCT
1 TTTTTCA
*
29667 TTTTTCT
1 TTTTTCA
29674 TTTTTCA
1 TTTTTCA
29681 TTTTTC-
1 TTTTTCA
29687 -TTTTC-
1 TTTTTCA
29692 TTTTTCA
1 TTTTTCA
29699 TTTTTC-
1 TTTTTCA
**
29705 CCTTTC-
1 TTTTTCA
29711 TTTTTCA
1 TTTTTCA
29718 TTTTTTC-
1 -TTTTTCA
**
29725 CCTTTC-
1 TTTTTCA
29731 TTTTT-A
1 TTTTTCA
29737 TTTTTCA
1 TTTTTCA
29744 TTTTTTTC-
1 --TTTTTCA
*
29752 CTTTTCA
1 TTTTTCA
29759 TTTTTTTC-
1 --TTTTTCA
*
29767 CTTTTCA
1 TTTTTCA
29774 TTTTTTCA
1 -TTTTTCA
29782 TTTTT--
1 TTTTTCA
29787 TTTTTCA
1 TTTTTCA
29794 TTTTTTCA
1 -TTTTTCA
29802 TTTTT
1 TTTTT
29807 TTTCATTTTT
Statistics
Matches: 175, Mismatches: 14, Indels: 44
0.75 0.06 0.19
Matches are distributed among these distances:
5 20 0.11
6 45 0.26
7 80 0.46
8 19 0.11
9 11 0.06
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:33291 original size:13 final size:13
Alignment explanation
Indices: 33273--33300 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33263 TGACAAATTT
33273 TTATTTTTTAATA
1 TTATTTTTTAATA
33286 TTATTTTTTAATA
1 TTATTTTTTAATA
33299 TT
1 TT
33301 TCATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTTAATA
Found at i:35118 original size:31 final size:31
Alignment explanation
Indices: 35083--35142 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
35073 GAAATAAATA
* *
35083 AAAAATACTTTAACAAAAAACTTTAATAATG
1 AAAAAGACCTTAACAAAAAACTTTAATAATG
* *
35114 AAAAAGACCTTAATAGAAAACTTTAATAA
1 AAAAAGACCTTAACAAAAAACTTTAATAA
35143 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAAAGACCTTAACAAAAAACTTTAATAATG
Found at i:37795 original size:21 final size:21
Alignment explanation
Indices: 37713--37795 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
37703 CGCAAATCAG
37713 TTTCCAAAATCGCAACGCGAT
1 TTTCCAAAATCGCAACGCGAT
* *
37734 TCTT-GAAAATCGCAATGCGAT
1 T-TTCCAAAATCGCAACGCGAT
** * * **
37755 AGTACAAATTCGCATTGCGAT
1 TTTCCAAAATCGCAACGCGAT
*
37776 TTTCCAGAATCGCAACGCGA
1 TTTCCAAAATCGCAACGCGA
37796 ATATGAAAAT
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (21 bp):
TTTCCAAAATCGCAACGCGAT
Found at i:37808 original size:20 final size:20
Alignment explanation
Indices: 37783--37874 Score: 73
Period size: 20 Copynumber: 4.6 Consensus size: 20
37773 GATTTTCCAG
* *
37783 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
*
37803 AATCGCAACTCGAACACATA
1 AATCGCAACGCGAACACATA
*
37823 AATCGCAACGCGTATC-CATA
1 AATCGCAACGCG-AACACATA
* * *
37843 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
37863 AATCGCAACGCG
1 AATCGCAACGCG
37875 TATCCGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.02
20 59 0.95
21 2 0.03
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:37846 original size:40 final size:40
Alignment explanation
Indices: 37783--38052 Score: 246
Period size: 40 Copynumber: 6.7 Consensus size: 40
37773 GATTTTCCAG
* ** * * *
37783 AATCGCAACGCGAATATGAAAATCGCAACTCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACTCGTATC-CGTA
*
37823 AATCGCAACGCGTATCCATAAATCGCAACGT-GTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAAC-TCGTATCCGTA
37863 AATCGCAACGCGTATCCGTAAATCGCAA-TGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACT-CGTATCCGTA
* * * *
37903 AATCGCAACGTGTATCCGTAAATCGCAACGAC-AATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAAC-TCGTATCCGT-A
* * *
37944 AATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACTCGTATCCGTA
* * *
37984 AATCGCAACGAGAATCTGTAAATCGCAA--CGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACTCG-T-ATCCGTA
* * * *
38024 AATCGCAACGAGAATCTGTAAATCACAAC
1 AATCGCAACGCGTATCCGTAAATCGCAAC
38053 ACTGAAATTT
Statistics
Matches: 195, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
38 3 0.02
39 1 0.01
40 155 0.79
41 36 0.18
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACTCGTATCCGTA
Found at i:37877 original size:20 final size:20
Alignment explanation
Indices: 37821--38052 Score: 279
Period size: 20 Copynumber: 11.6 Consensus size: 20
37811 CTCGAACACA
*
37821 TAAATCGCAACGCGTATCCA
1 TAAATCGCAACGCGTATCCG
*
37841 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
37861 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
37881 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
37901 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
37921 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
*
37941 TAAAATCGCAATGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
*
37962 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
37982 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
38002 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
38022 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
38042 TAAATCACAAC
1 TAAATCGCAAC
38053 ACTGAAATTT
Statistics
Matches: 182, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
20 167 0.92
21 15 0.08
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:37958 original size:121 final size:121
Alignment explanation
Indices: 37822--38052 Score: 331
Period size: 121 Copynumber: 1.9 Consensus size: 121
37812 TCGAACACAT
* * *
37822 AAATCGCAACGCGTATCCATAAATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATC
1 AAATCGCAACGCGTATCCATAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTAAATC
* * *
37887 GCAATGCG-T-ATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGACAATACGTA
66 GCAA--CGATAATCCGTAAATCGCAACGAGAATCCGTAAATCACAACGACAATACGTA
* * * *
37943 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGAGAATCTGTAAATC
1 AAATCGCAACGCGTATCCATAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTAAATC
*
38008 GCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
66 GCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAATCACAAC
38053 ACTGAAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
119 2 0.02
120 1 0.01
121 94 0.97
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (121 bp):
AAATCGCAACGCGTATCCATAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTAAATC
GCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAATCACAACGACAATACGTA
Found at i:38045 original size:101 final size:101
Alignment explanation
Indices: 37842--38034 Score: 298
Period size: 101 Copynumber: 1.9 Consensus size: 101
37832 GCGTATCCAT
* * * *
37842 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATC
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTAAATC
*
37907 GCAACGTGTATCCGTAAATCGCAACGACAATACGTA
66 GCAACGTGAATCCGTAAATCGCAACGACAATACGTA
* * *
37943 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGAGAATCTGTAAATC
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTAAATC
38008 GCAACGAT-AATCCGTAAATCGCAACGA
66 GCAACG-TGAATCCGTAAATCGCAACGA
38035 GAATCTGTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 82 0.99
102 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (101 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTAAATC
GCAACGTGAATCCGTAAATCGCAACGACAATACGTA
Found at i:38754 original size:24 final size:24
Alignment explanation
Indices: 38715--38761 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38705 AAATTTGGTC
38715 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
38739 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
38762 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:41286 original size:33 final size:33
Alignment explanation
Indices: 41235--41448 Score: 145
Period size: 33 Copynumber: 6.2 Consensus size: 33
41225 CAGAAATTAC
*
41235 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
*
41268 AATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACATGAAAATCGCAATGC-GAAATGAA
* * * *
41302 AATCGCAATGCGAAATTAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C---ATGAAAATCGCAATGCGA-AAT-GAA
* * *
41341 AAT-GCGAA-ATGAAAATCGCAACGAGAGAATCG-C
1 AATCGC-AACATGAAAATCGCAATGCGA-AAT-GAA
*
41374 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACATGAAAATCGCAATGCGAAATGAA
*
41407 AATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGC-GAAATGAA
41441 AATCGCAA
1 AATCGCAA
41449 TGCGAAATGA
Statistics
Matches: 151, Mismatches: 14, Indels: 31
0.77 0.07 0.16
Matches are distributed among these distances:
32 6 0.04
33 67 0.44
34 50 0.33
35 1 0.01
36 1 0.01
38 4 0.03
39 21 0.14
40 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACATGAAAATCGCAATGCGAAATGAA
Found at i:41312 original size:53 final size:53
Alignment explanation
Indices: 41249--41472 Score: 244
Period size: 53 Copynumber: 4.2 Consensus size: 53
41239 GCAACGAGAG
*
41249 AATCGCAATGCGA-AAT-GAAAAT-CCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAGAATCG-AAATGCGCAA-ATGAAAATCGCAATGC-GAAATGAA
** *
41302 AATCGCAATGCGA-AATTAAAAT-CGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAGAATCGAAATGCGCAA--ATGAAAATCGCAATGCGAAATGAA
* * * *
41354 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAGAATCGAAATGCGCAAATGAAAATCGCAATGCGAAATGAA
* * * *
41407 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAGAATCGAAATGCGCAAATGAAAATCGCAATGCGAAATGAA
*
41460 AATCGCATTGCGA
1 AATCGCAATGCGA
41473 TTCTCTCGTT
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
52 20 0.13
53 127 0.84
54 5 0.03
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAGAATCGAAATGCGCAAATGAAAATCGCAATGCGAAATGAA
Found at i:41340 original size:14 final size:14
Alignment explanation
Indices: 41321--41375 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
41311 GCGAAATTAA
41321 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
41335 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
41354 AATCGCAACGAGAG
1 AATCGCAACGAGAG
41368 AATCGCAA
1 AATCGCAA
41376 TGCGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:41372 original size:86 final size:86
Alignment explanation
Indices: 41227--41448 Score: 383
Period size: 86 Copynumber: 2.6 Consensus size: 86
41217 TCGCAACACA
* *
41227 GAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATG
1 GAAATTAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATG
41292 CGGAAATGAAAATCGCAATGC
66 CGGAAATGAAAATCGCAATGC
*
41313 GAAATTAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAAT
1 GAAATTAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAC-ATGAAAATCGCAAT
41377 GCGGAAATGAAAATCGCAATGC
65 GCGGAAATGAAAATCGCAATGC
*
41399 GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAA
1 GAAATTAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAA
41449 TGCGAAATGA
Statistics
Matches: 130, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
86 113 0.87
87 17 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (86 bp):
GAAATTAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATG
CGGAAATGAAAATCGCAATGC
Found at i:41527 original size:52 final size:52
Alignment explanation
Indices: 41462--41578 Score: 209
Period size: 52 Copynumber: 2.2 Consensus size: 52
41452 GAAATGAAAA
41462 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
41514 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
41566 TCCGCATTGCGAT
1 T-CGCATTGCGAT
41579 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
52 44 0.70
53 19 0.30
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:41586 original size:20 final size:19
Alignment explanation
Indices: 41481--41578 Score: 127
Period size: 19 Copynumber: 5.4 Consensus size: 19
41471 GATTCTCTCG
41481 TTGCGA-TTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
41500 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41519 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
41533 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41552 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
41572 TTGCGAT
1 TTGCGAT
41579 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 31 0.44
20 19 0.27
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:43674 original size:19 final size:18
Alignment explanation
Indices: 43632--43785 Score: 99
Period size: 19 Copynumber: 8.6 Consensus size: 18
43622 TAGTTTACTT
*
43632 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA--TAAAA
*
43652 TCGCAATGCGAAATAAGAA
1 TCGCAACGCGAAATAA-AA
*
43671 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-TAAAA
*
43690 TCGCAACGCGAACTGAAAA
1 TCGCAACGCGAAAT-AAAA
* *
43709 TCGCAA--CG--ACAGAA
1 TCGCAACGCGAAATAAAA
*
43723 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAAT-AAAA
* *
43742 TCGCAA--CG--AGAGAA
1 TCGCAACGCGAAATAAAA
43756 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAAT-AAAA
*
43775 TCGCAATGCGA
1 TCGCAACGCGA
43786 TTTTGGTTTC
Statistics
Matches: 105, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 4 0.04
17 4 0.04
18 5 0.05
19 60 0.57
20 13 0.12
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (18 bp):
TCGCAACGCGAAATAAAA
Found at i:43701 original size:38 final size:39
Alignment explanation
Indices: 43632--43785 Score: 120
Period size: 33 Copynumber: 4.3 Consensus size: 39
43622 TAGTTTACTT
* * *
43632 TCGCAACACGAAACTTAAAATCGCAATGCGAAAT-AAGAA
1 TCGCAACGCGAAACTCAAAATCGCAACGCGAAATGAA-AA
*
43671 TCGCAACGCGAAAC-CAAAATCGCAACGCGAACTGAAAA
1 TCGCAACGCGAAACTCAAAATCGCAACGCGAAATGAAAA
* *
43709 TCGCAA--CG--A--CAGAATCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACTCAAAATCGCAACGCGAAATGAAAA
* *
43742 TCGCAA--CG--A--GAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACTCAAAATCGCAACGCGAAATGAAAA
*
43775 TCGCAATGCGA
1 TCGCAACGCGA
43786 TTTTGGTTTC
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
33 58 0.57
34 1 0.01
35 2 0.02
36 2 0.02
38 24 0.24
39 15 0.15
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (39 bp):
TCGCAACGCGAAACTCAAAATCGCAACGCGAAATGAAAA
Found at i:43726 original size:14 final size:14
Alignment explanation
Indices: 43707--43763 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
43697 GCGAACTGAA
*
43707 AATCGCAACGACAG
1 AATCGCAACGAAAG
43721 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
43738 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
43754 AATCGCAACG
1 AATCGCAACG
43764 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:43734 original size:33 final size:33
Alignment explanation
Indices: 43688--43780 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
43678 GCGAAACCAA
*
43688 AATCGCAACGCGAACTGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
43721 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
43754 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
43781 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:43816 original size:14 final size:14
Alignment explanation
Indices: 43797--43869 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
43787 TTTGGTTTCG
43797 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
43811 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
* *
43828 CGCGTTGTGATTCTGT
1 --CGTTGCGATTTTGT
* *
43844 CGTTGCGATTCTCT
1 CGTTGCGATTTTGT
43858 CGTTGCGATTTT
1 CGTTGCGATTTT
43870 AAGTTTCGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
14 35 0.71
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 10 0.20
ACGTcount: A:0.07, C:0.18, G:0.27, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:43823 original size:33 final size:33
Alignment explanation
Indices: 43781--43853 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
43771 AAAATCGCAA
*
43781 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
*
43814 TGCGATTTTGGTTTCGCGTTGTGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
43847 TGCGATT
1 TGCGATT
43854 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:43839 original size:19 final size:19
Alignment explanation
Indices: 43781--43839 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
43771 AAAATCGCAA
43781 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
43800 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
43814 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
43833 TGTGATT
1 TGCGATT
43840 CTGTCGTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 12 0.35
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.53
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:45829 original size:20 final size:20
Alignment explanation
Indices: 45798--45894 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
45788 TTTTGGTTGA
45798 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
45818 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
45838 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
45857 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
45872 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
45892 AAT
1 AAT
45895 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:45850 original size:21 final size:21
Alignment explanation
Indices: 45796--45860 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
45786 TCTTTTGGTT
45796 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
45817 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
45837 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
45858 GAA
1 GAA
45861 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:45864 original size:14 final size:14
Alignment explanation
Indices: 45845--45901 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
45835 GAGAAATGAA
45845 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
45859 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
45878 AATCGCAACGAGAG
1 AATCGCAACGAGAG
45892 AATCGCAACG
1 AATCGCAACG
45902 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:45877 original size:33 final size:33
Alignment explanation
Indices: 45796--45918 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
45786 TCTTTTGGTT
*
45796 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
45837 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45870 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45903 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
45919 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:45952 original size:19 final size:19
Alignment explanation
Indices: 45919--46027 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 19
45909 AAAATCGCAA
**
45919 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
45938 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
45957 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
* *
45971 TGTGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
** *
45992 TGCAGATAGTCATTTTCACGT
1 TGC-GATTTTCA-TTTCGCGT
46013 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
46028 TCTCGTTGCG
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 26 0.36
20 6 0.08
21 16 0.22
22 9 0.12
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:46036 original size:21 final size:21
Alignment explanation
Indices: 45962--46038 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
45952 CGCGTTGCGA
*
45962 TTCTCTCGTTGTGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
45983 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
46005 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
46025 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
46039 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.19
21 29 0.62
22 9 0.19
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:46160 original size:33 final size:33
Alignment explanation
Indices: 46118--46188 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
46108 AATACTAACT
46118 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
46151 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
46184 TGAAA
1 TGAAA
46189 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:46734 original size:20 final size:20
Alignment explanation
Indices: 46568--46722 Score: 231
Period size: 20 Copynumber: 7.7 Consensus size: 20
46558 CTTTAAAAAT
46568 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46588 CGCGTTGCGATTTTACGCAT-
1 CGCGTTGCGA-TTTACGGATA
*
46608 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
46629 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
46649 CGCATTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
46669 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46689 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
46709 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
46723 TGTGTTCGCG
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
20 103 0.86
21 17 0.14
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:46740 original size:40 final size:40
Alignment explanation
Indices: 46567--46760 Score: 230
Period size: 40 Copynumber: 4.8 Consensus size: 40
46557 GCTTTAAAAA
*
46567 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGCAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGGAT
*
46608 T-GTCGTTGCGATTTACGGATACGCGTTGCGATATACGGAT
1 TCG-CGTTGCGATTTACGGATACGCGTTGCGATTTACGGAT
* * *
46648 ACGCATTGCGATTTACAGATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGAT
* * *
46688 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACG-GAT
* * ** *
46728 TCGCGTTACGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
46761 CTGGAAAATC
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 102 0.77
41 31 0.23
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGAT
Found at i:46755 original size:60 final size:59
Alignment explanation
Indices: 46568--46760 Score: 226
Period size: 60 Copynumber: 3.2 Consensus size: 59
46558 CTTTAAAAAT
*
46568 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGCATT-GTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTAAG-ATTCG-CGTTGCGATTTACGGATA
* * *
46629 CGCGTTGCGATATACGGATACGCATTGCGATTTACAGATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTA-AGATTCGCGTTGCGATTTACGGATA
* * * * * ** *
46689 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTACGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTAAG-ATTCGCGTTGCGATTTACGGATA
46749 CGCGTTGCGATT
1 CGCGTTGCGATT
46761 CTGGAAAATC
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.01
60 82 0.73
61 30 0.27
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (59 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTAAGATTCGCGTTGCGATTTACGGATA
Found at i:47394 original size:3 final size:3
Alignment explanation
Indices: 47381--47420 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
47371 TTTGTCCTGG
*
47381 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47421 GTATGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:52339 original size:2 final size:2
Alignment explanation
Indices: 52332--52378 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
52322 AAGATTCTCC
*
52332 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52374 TA TA T
1 TA TA T
52379 CTTATCTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55903 original size:18 final size:18
Alignment explanation
Indices: 55862--55967 Score: 90
Period size: 18 Copynumber: 5.8 Consensus size: 18
55852 TTGCTTGAAG
*
55862 AAGAAAAGGAAAAAAGGA
1 AAGAAAAGGAAAAAATGA
**
55880 GGGAAAAGGAAAAAATGA
1 AAGAAAAGGAAAAAATGA
*
55898 AAGAAAATGAAAAAATGA
1 AAGAAAAGGAAAAAATGA
* *
55916 AAGGAAATG-AAAAATGA
1 AAGAAAAGGAAAAAATGA
* *
55933 AA-AAGAATAGAAAAAAGAGA
1 AAGAA-AA-GGAAAAAA-TGA
*
55953 AAAAAAAGGAAAAAA
1 AAGAAAAGGAAAAAA
55968 AAGAGAGAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
16 1 0.01
17 12 0.17
18 39 0.54
19 12 0.17
20 6 0.08
21 2 0.03
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.06
Consensus pattern (18 bp):
AAGAAAAGGAAAAAATGA
Found at i:55904 original size:10 final size:10
Alignment explanation
Indices: 55891--55927 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
55881 GGAAAAGGAA
55891 AAAATGAAAG
1 AAAATGAAAG
55901 AAAATG-AA-
1 AAAATGAAAG
55909 AAAATGAAAG
1 AAAATGAAAG
*
55919 GAAATGAAA
1 AAAATGAAA
55928 AATGAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
8 6 0.25
9 4 0.17
10 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (10 bp):
AAAATGAAAG
Found at i:55911 original size:7 final size:8
Alignment explanation
Indices: 55883--55936 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
55873 AAAAGGAGGG
*
55883 AAAAGGAA
1 AAAATGAA
55891 AAAATGAAA
1 AAAATG-AA
55900 GAAAATGAA
1 -AAAATGAA
55909 AAAATGAA
1 AAAATGAA
55917 AGGAAATG-A
1 A--AAATGAA
55926 AAAATGAA
1 AAAATGAA
55934 AAA
1 AAA
55937 GAATAGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
7 5 0.12
8 18 0.45
9 6 0.15
10 11 0.28
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (8 bp):
AAAATGAA
Found at i:55911 original size:19 final size:19
Alignment explanation
Indices: 55889--55984 Score: 78
Period size: 18 Copynumber: 5.2 Consensus size: 19
55879 AGGGAAAAGG
55889 AAAAAATGAAAGAAAATG-
1 AAAAAATGAAAGAAAATGA
*
55907 AAAAAATGAAAGGAAATG-
1 AAAAAATGAAAGAAAATGA
55925 -AAAAATGAAA-AAGAATAGA
1 AAAAAATGAAAGAA-AAT-GA
* *
55944 AAAAAGA-GAAAAAAAAGGA
1 AAAAA-ATGAAAGAAAATGA
* *
55963 AAAAAAAGAGAGAAAAT-A
1 AAAAAATGAAAGAAAATGA
55981 AAAA
1 AAAA
55985 GCAGGTCTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 13 0.20
18 24 0.37
19 14 0.22
20 10 0.15
21 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAAAATGAAAGAAAATGA
Found at i:57553 original size:54 final size:54
Alignment explanation
Indices: 57280--58233 Score: 961
Period size: 54 Copynumber: 17.6 Consensus size: 54
57270 GAAGCAAATC
* * * *
57280 AAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGGAGAGAACCCGTTGGCAG
1 AAGATTGTTCGAGTTC-CTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* *** * * * **
57335 AAGATTGTTCGAGTTCTATACTCCCTGAAATGAGAGGGAACGAACCCATTCGCAG
1 AAGATTGTTCGAGTTC-CTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* * * *** * * *
57390 AAGATTATTTGAGTT-CTAATCCCTGAAGCAAGAGAGATTAAACCCATTGGCAC
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* * * * * ***
57443 AAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAG-GAAACAAACTCATTCACAG
1 AAGATTGTTCGAGTTC-CTACTCCCTGAAGCAAGAGAG-AGCGAACCCGTAGGCAG
* * * *
57498 AAGATTTTTCGAGTTCCTACTCCCTGAAGCAAGAGAAAGCGAACCAGTAAGCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* * *
57552 AAGATTGTTCGAGTTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* * * *
57606 AAGATTGTTCAAGTTCGTACTCCCTGAAGAAAGAGAGAGCGAACCCGTAGACAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* * *
57660 AATATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGGCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
*
57714 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGA-AGGAGAGAACCCGTAGGCCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGA-GAGCGAACCCGTAGG-CAG
* * * * *
57769 AAGATTGTTTGAGTTCCTACTCCCTGAAGC-A-AGAGAGTGAACCTGTAAGTAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* *
57821 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* *
57875 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAA-AAAGGAGCGAACCCGTAGGCAA
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGA-GAGCGAACCCGTAGGCAG
* * *
57929 AAGATTGTTCGAGTTCTTACTCCCTGAAACAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* ** * *
57983 AAGATTGTTTGAGTTCCTACTCCCTGAAGCAAGAGAGAGAAAACCCGTTGGCAA
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
* * * * * * *
58037 AAGATTGTTCTAGTTCCTTCCCCCTGAAGTAAGAG-GAAACGAACCCATAGGCTG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAG-AGCGAACCCGTAGGCAG
* * ** * * * **** *
58091 AAGATTGTTTGAGTTCTTACTCATTGAAAGAAAGA-ATGAACGAACCCTTTTATAA
1 AAGATTGTTCGAGTTCCTACTCCCTG-AAGCAAGAGA-GAGCGAACCCGTAGGCAG
* * * * *
58146 AAAATTGTTCAAGGTCCTACTCCCTGAAGAAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
** *
58200 AAGATTGTTTAAGTTCTTACTCCCTGAAGCAAGA
1 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGA
58234 AGGAGCAAAC
Statistics
Matches: 743, Mismatches: 140, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
52 31 0.04
53 56 0.08
54 482 0.65
55 173 0.23
56 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGAGAGCGAACCCGTAGGCAG
Found at i:58166 original size:377 final size:378
Alignment explanation
Indices: 57443--58243 Score: 975
Period size: 377 Copynumber: 2.1 Consensus size: 378
57433 CCATTGGCAC
* * * * *
57443 AAGATTGTTCGAGTTCTATACTCCCTGAAGCAAGAGGAAACAAACTCATTCACAGAAGATTTTTC
1 AAGATTGTTCGAGTTC-ATACTCCCTGAAGCAAGAGGGAGCAAACCCATACACAGAAGATTGTTC
*
57508 GAGTTCCTACTCCCTGAAGCAAGAGAAAGCGAACCAGTAAGCAGAAGATTGTTCGAGTTTCTACT
65 GAGTTCCTACTCCCTGAAGCAAGAGAAAGCGAACCAGTAAGCAAAAGATTGTTCGAGTTTCTACT
* * *
57573 CCCTGAAGCAAGAGGGAGTGAACCCGTAGGCAGAAGATTGTTCAAGTTCGTACTCCCTGAAGAAA
130 CCCTGAAACAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCAAGTTCCTACTCCCTGAAGAAA
** * * * * *
57638 GAGAGAGCGAACCCGTAGACAGAATATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAA
195 GAGAGAGAAAACCCGTAGACAAAAGATTGTTCGAGTTCCTACCCCCTGAAGCAAGAGGAAACGAA
* * *
57703 CCCATAGGCAGAAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAAGGAGAGAACCCGTAGGCCA
260 CCCATAGGCAGAAGATTGTTCGAGTTCCTACTCACTGAAGAAAGAAGGAGAGAACCCGTAGGACA
* * ** * * * * *
57768 GAAGATTGTTTGAGTTCCTACTCCCTGAAGCAAGA-GAGTGAACCTGTAAGTAG
325 AAAAATTGTTCAAGGTCCTACTCCCTGAAGAAAGAGGAGCGAACCCGTAAGCAG
* ** * **
57821 AAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGGCAGAAGATTGTTCG
1 AAGATTGTTCGAGTTCATACTCCCTGAAGCAAGAGGGAGCAAACCCATACACAGAAGATTGTTCG
* *
57886 AGTTCCTACTCCCTGAAGCAA-A-AAGGAGCGAACCCGTAGGCAAAAGATTGTTCGAG-TTCTTA
66 AGTTCCTACTCCCTGAAGCAAGAGAA--AGCGAACCAGTAAGCAAAAGATTGTTCGAGTTTC-TA
** *
57948 CTCCCTGAAACAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTTGAGTTCCTACTCCCTGAAGC
128 CTCCCTGAAACAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCAAGTTCCTACTCCCTGAAGA
* * * * *
58013 AAGAGAGAGAAAACCCGTTGGCAAAAGATTGTTCTAGTTCCTTCCCCCTGAAGTAAGAGGAAACG
193 AAGAGAGAGAAAACCCGTAGACAAAAGATTGTTCGAGTTCCTACCCCCTGAAGCAAGAGGAAACG
* * * * * **
58078 AACCCATAGGCTGAAGATTGTTTGAGTTCTTACTCATTGAAAGAAAGAATGA-ACGAACCC-TTT
258 AACCCATAGGCAGAAGATTGTTCGAGTTCCTACTCACTG-AAGAAAGAAGGAGA-GAACCCGTAG
* * *
58141 TATAAAAAATTGTTCAAGGTCCTACTCCCTGAAGAAAGAGGGAGCGAACCCGTAGGCAG
321 GACAAAAAATTGTTCAAGGTCCTACTCCCTGAAGAAAGA-GGAGCGAACCCGTAAGCAG
** * *
58200 AAGATTGTTTAAGTTCTTACTCCCTGAAGCAAGAAGGAGCAAAC
1 AAGATTGTTCGAGTTCATACTCCCTGAAGCAAGAGGGAGCAAAC
58244 TCGTTGGTTG
Statistics
Matches: 356, Mismatches: 60, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
375 2 0.01
376 4 0.01
377 266 0.75
378 32 0.09
379 52 0.15
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (378 bp):
AAGATTGTTCGAGTTCATACTCCCTGAAGCAAGAGGGAGCAAACCCATACACAGAAGATTGTTCG
AGTTCCTACTCCCTGAAGCAAGAGAAAGCGAACCAGTAAGCAAAAGATTGTTCGAGTTTCTACTC
CCTGAAACAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCAAGTTCCTACTCCCTGAAGAAAG
AGAGAGAAAACCCGTAGACAAAAGATTGTTCGAGTTCCTACCCCCTGAAGCAAGAGGAAACGAAC
CCATAGGCAGAAGATTGTTCGAGTTCCTACTCACTGAAGAAAGAAGGAGAGAACCCGTAGGACAA
AAAATTGTTCAAGGTCCTACTCCCTGAAGAAAGAGGAGCGAACCCGTAAGCAG
Found at i:59614 original size:24 final size:23
Alignment explanation
Indices: 59586--59630 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
59576 AACATATAGT
59586 GAGCCTAGAGCCTAAAC-TTAGGTC
1 GAGCCTA-A-CCTAAACATTAGGTC
59610 GAGCCTAACCTAAACATTAGG
1 GAGCCTAACCTAAACATTAGG
59631 AGTCCTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (23 bp):
GAGCCTAACCTAAACATTAGGTC
Found at i:60363 original size:24 final size:23
Alignment explanation
Indices: 60335--60379 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
60325 AACATATAGT
60335 GAGCCTAGAGCCTAAAC-TTAGGTC
1 GAGCCTA-A-CCTAAACATTAGGTC
60359 GAGCCTAACCTAAACATTAGG
1 GAGCCTAACCTAAACATTAGG
60380 AGTCCTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (23 bp):
GAGCCTAACCTAAACATTAGGTC
Found at i:60796 original size:748 final size:749
Alignment explanation
Indices: 59280--61279 Score: 3966
Period size: 748 Copynumber: 2.7 Consensus size: 749
59270 ATTGGCTTAT
59280 TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
1 TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
59345 AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
66 AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
59410 TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
131 TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
59475 CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGCAGCCCAAGGGGCACCGACAAG
196 CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGCAGCCCAAGGGGCACCGACAAG
59540 GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
261 GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
59605 AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGCTTTTTGAG
326 AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGCTTTTTGAG
59670 TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
391 TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
59735 TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGACTTTTTTTAGAGAGTCAAGTCTATAA
456 TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGACTTTTTTTAGAGAGTCAAGTCTATAA
59800 TCGATTAATTGATTGTCTTTGCGATTGAAAGTTATAAATTCATTCTAATTTGGTTTTTGATCCTC
521 TCGATTAATTGATTGTCTTTGCGATTGAAAGTTATAAATTCATTCTAATTTGGTTTTTGATCCTC
59865 TGTTTGGTTTTAATATCGTTTGTTTATAATTTGATTAACCAAAAAATAGTTGTATTGGCCTATTT
586 TGTTTGGTTTTAATATCGTTTGTTTATAATTTGATTAACCAAAAAATAGTTGTATTGGCCTATTT
59930 GCTAATGGTTTCAGATTAATTTTGTGTTTAAAGAGGATTAATGATTAATTTGAGTGTTTTGTGAT
651 GCTAATGGTTTCAGATTAATTTTGTGTTTAAAGAGGATTAATGATTAATTTGAGTGTTTTGTGAT
59995 TATGTGTTGATTTATTTTCGCTTTTCCTAACACA
716 TATGTGTTGATTTATTTTCGCTTTTCCTAACACA
60029 TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
1 TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
60094 AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
66 AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
60159 TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
131 TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
*
60224 CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGTAGCCCAAGGGGCACCGACAAG
196 CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGCAGCCCAAGGGGCACCGACAAG
60289 GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
261 GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
60354 AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGC-TTTTGAG
326 AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGCTTTTTGAG
60418 TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
391 TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
*
60483 TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGACTTTTTTTAGAGAGTCAGGTCTATAA
456 TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGACTTTTTTTAGAGAGTCAAGTCTATAA
60548 TCGATTAATTGATTGTCTTTGCGATTGAAAGTTATAAATTCATTCTAATTTGGTTTTTGATCCTC
521 TCGATTAATTGATTGTCTTTGCGATTGAAAGTTATAAATTCATTCTAATTTGGTTTTTGATCCTC
60613 TGTTTGGTTTTAATATCGTTTGTTTATAATTTGATTAACCAAAAAATAGTTGTATTGGCCTATTT
586 TGTTTGGTTTTAATATCGTTTGTTTATAATTTGATTAACCAAAAAATAGTTGTATTGGCCTATTT
60678 GCTAATGGTTTCAGATTAATTTTGTGTTTAAAGAGGATTAATGATTAATTTGAGTGTTTTGTGAT
651 GCTAATGGTTTCAGATTAATTTTGTGTTTAAAGAGGATTAATGATTAATTTGAGTGTTTTGTGAT
60743 TATGTGTTGATTTATTTTCGCTTTTCCTAACACA
716 TATGTGTTGATTTATTTTCGCTTTTCCTAACACA
60777 TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
1 TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
60842 AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
66 AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
60907 TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
131 TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
60972 CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGCAGCCCAAGGGGCACCGACAAG
196 CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGCAGCCCAAGGGGCACCGACAAG
61037 GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
261 GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
61102 AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGCTTTTTGAG
326 AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGCTTTTTGAG
61167 TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
391 TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
*
61232 TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGATTTTTTTTA
456 TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGACTTTTTTTA
61280 AATGACAAAG
Statistics
Matches: 1246, Mismatches: 4, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
748 746 0.60
749 500 0.40
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (749 bp):
TTGCATAGCTGCATTATCATAACATGAGTTAAAACCCCACTCTGTCCTATTTAAGTATGAGTTAG
AGACTACTCTCTTGTGAGGTTTTCACCTCTGCATGGGATAGTGGATCACTCTTGGAGCTCACACC
TTATGATCCTCATGAGGTTTTCACCTCTGTATGGACATAAGGAGGTGTGTTCCCTCGAAATTGAA
CTCAATCCCAAAAGTCTGTGATGGACCATGATTGAGGGTTCAGCAGCCCAAGGGGCACCGACAAG
GATAATCCGAGATCCTAATACTTTAGAACCGAGCCCAACATATAGTGAGCCTAGAGCCTAAACTT
AGGTCGAGCCTAACCTAAACATTAGGAGTCCTGTGAGGAGGGTACACAAGGAAAAGCTTTTTGAG
TCATTTATTTTTCATTTTTTCGAATAAATGCATGCGAACTATAGATCATGTGGTTAAGTTTGTTT
TTCAAACAAGTATGCAAATTAGATATCATGCAGTTAGGACTTTTTTTAGAGAGTCAAGTCTATAA
TCGATTAATTGATTGTCTTTGCGATTGAAAGTTATAAATTCATTCTAATTTGGTTTTTGATCCTC
TGTTTGGTTTTAATATCGTTTGTTTATAATTTGATTAACCAAAAAATAGTTGTATTGGCCTATTT
GCTAATGGTTTCAGATTAATTTTGTGTTTAAAGAGGATTAATGATTAATTTGAGTGTTTTGTGAT
TATGTGTTGATTTATTTTCGCTTTTCCTAACACA
Found at i:61111 original size:24 final size:23
Alignment explanation
Indices: 61083--61127 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
61073 AACATATAGT
61083 GAGCCTAGAGCCTAAAC-TTAGGTC
1 GAGCCTA-A-CCTAAACATTAGGTC
61107 GAGCCTAACCTAAACATTAGG
1 GAGCCTAACCTAAACATTAGG
61128 AGTCCTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (23 bp):
GAGCCTAACCTAAACATTAGGTC
Found at i:62801 original size:2 final size:2
Alignment explanation
Indices: 62794--62823 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
62784 CGATTCTCCC
*
62794 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62824 TCTCTTCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:64744 original size:15 final size:15
Alignment explanation
Indices: 64724--64753 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64714 ACAAACTCAG
64724 AGGAGAATGGGAAAC
1 AGGAGAATGGGAAAC
64739 AGGAGAATGGGAAAC
1 AGGAGAATGGGAAAC
64754 CAAAGATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.40, T:0.07
Consensus pattern (15 bp):
AGGAGAATGGGAAAC
Found at i:66285 original size:6 final size:6
Alignment explanation
Indices: 66264--66324 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
66254 GAAAAATGGA
* * *
66264 AAAAAG GAAAAG -AAAAG AAAAAAG AGAAAG AAAAAAG AGAAAG AAAAAAG
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG -AAAAAG AAAAAG -AAAAAG
*
66314 AAAAGG AAAAA
1 AAAAAG AAAAA
66325 AAGAGAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
5 5 0.11
6 24 0.55
7 15 0.34
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:66306 original size:26 final size:27
Alignment explanation
Indices: 66271--66340 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
66261 GGAAAAAAGG
66271 AAAAGA-AAAGAAAAAAGAGAAA-G-AA
1 AAAAGAGAAAGAAAAAAGA-AAAGGAAA
66296 AAAAGAGAAAGAAAAAAGAAAAGGAAA
1 AAAAGAGAAAGAAAAAAGAAAAGGAAA
66323 AAAAGAGAAA-ATAAAAAG
1 AAAAGAGAAAGA-AAAAAG
66341 TATGTCTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
25 9 0.22
26 14 0.34
27 18 0.44
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (27 bp):
AAAAGAGAAAGAAAAAAGAAAAGGAAA
Found at i:66339 original size:16 final size:15
Alignment explanation
Indices: 66263--66339 Score: 54
Period size: 15 Copynumber: 5.2 Consensus size: 15
66253 GGAAAAATGG
*
66263 AAAAAAGGAAAAGAA
1 AAAAAAAGAAAAGAA
* *
66278 AAGAAAA-AAGAGAA
1 AAAAAAAGAAAAGAA
66292 AGAAAAAAG---AGAA
1 A-AAAAAAGAAAAGAA
66305 AGAAAAAAGAAAAGGAA
1 A-AAAAAAGAAAA-GAA
* *
66322 AAAAAGAGAAAATAA
1 AAAAAAAGAAAAGAA
66337 AAA
1 AAA
66340 GTATGTCTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
13 13 0.26
14 7 0.14
15 15 0.30
16 11 0.22
17 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (15 bp):
AAAAAAAGAAAAGAA
Found at i:66340 original size:13 final size:13
Alignment explanation
Indices: 66271--66332 Score: 92
Period size: 13 Copynumber: 4.8 Consensus size: 13
66261 GGAAAAAAGG
66271 AAAAGA-AAAGAA
1 AAAAGAGAAAGAA
66283 AAAAGAGAAAGAA
1 AAAAGAGAAAGAA
66296 AAAAGAGAAAGAA
1 AAAAGAGAAAGAA
66309 AAAAGA-AAAGGAAA
1 AAAAGAGAAA-G-AA
66323 AAAAGAGAAA
1 AAAAGAGAAA
66333 ATAAAAAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.20
13 26 0.57
14 8 0.17
15 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAGAA
Found at i:67608 original size:37 final size:36
Alignment explanation
Indices: 67552--67637 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 36
67542 TTCGACCTTC
*
67552 GAAGCAAATCAAACTTAAGCCTTCAC-GAAAGAGTAGT
1 GAAGCAAATC-ATCTTAAGCCTTCACAGAAA-AGTAGT
*
67589 GCAGCAAATCATCTATAAGCCTTCACAGAAAAGTAGT
1 GAAGCAAATCATCT-TAAGCCTTCACAGAAAAGTAGT
67626 GAAGCAAATCAT
1 GAAGCAAATCAT
67638 GATTGTTCGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 3 0.07
37 37 0.84
38 4 0.09
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (36 bp):
GAAGCAAATCATCTTAAGCCTTCACAGAAAAGTAGT
Found at i:67845 original size:54 final size:54
Alignment explanation
Indices: 67638--68437 Score: 861
Period size: 54 Copynumber: 14.8 Consensus size: 54
67628 AGCAAATCAT
* * * **** *
67638 GATTGTTCGAGTTCTATACTCCGTGAAGCAAGAGGGAGCGAACCCATTCTTAAAA
1 GATTGTTCGAGTTC-CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * ** *
67693 GATTGTTCGAGTT-CTAATCCCTGAAGCAAGAGAGATTGAACCCGTTGGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* ** ** *
67746 GATTGTTCGAGTT-CTAAACTCCCTGAAGCAAGAGGAAGAAAACCCGTTCGTAGAA
1 GATTGTTCGAGTTCCT--ACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* ** * * *
67801 GATTGTTCGAGTTCTTACTCCCAAAAGAAAGAGAGAGCGAACCCGTAAGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
*
67855 GATT-TTTGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * *
67908 GATT-TTTGAGTTCCTACTCCCTGAAGTAAGAGGGAGCGAACCCGATAGGCCAAAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGG-CAGAA
** * * ** *
67963 GATTGTTCGAGTTATTACTCCCTGAAGCAAGAGAGAGCAAACCTATAAGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
*
68017 CATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * * * *
68071 GATTGTTTGAGTTCCTGCTCCCTGAAGCAAGAGAGAGCAAACCCGTAGGCAGAG
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * * *
68125 GATTGTTCGAGTTCTTACGCTCTGAAGCAAGAGGGAGTGAACCCGTAGGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * * * *
68179 GATTGTTCGAGTTCCTACTCCCTAAAGTAAGATGGAGCAAACCCATAGGCAGAA
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * * *
68233 GATTGTTCGAGTTCCTACTCTCTGAAGCAAGAGGGAGCAAACCCGTAGGTAGAG
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * * * * ** *
68287 GATTGTTCGAGTTCTTACTCCTTGAAAGAAAGAAGGAACGAACCCGTTTGTAGAA
1 GATTGTTCGAGTTCCTACTCCCTG-AAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * * ** * *
68342 GATTATTCAAGTTCCCACTCCCTGAAAAAAGAGGGAGGGAACCCGTAGGCAGAC
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
* * *
68396 GATTGTTCAAGTTCCTACTCCCTGAAGCAAGAGAGAGTGAAC
1 GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAAC
68438 TCGCTGGTTT
Statistics
Matches: 621, Mismatches: 117, Indels: 15
0.82 0.16 0.02
Matches are distributed among these distances:
53 129 0.21
54 350 0.56
55 109 0.18
56 33 0.05
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (54 bp):
GATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAA
Found at i:68623 original size:3 final size:3
Alignment explanation
Indices: 68615--68664 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
68605 GGGTTATAAA
* * * *
68615 TAT TAT TAT TAT TAT TAT AAT TAC CA- TAT TAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68662 TAT
1 TAT
68665 GTATGTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:82394 original size:23 final size:23
Alignment explanation
Indices: 82361--82410 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
82351 TTTGGCCAGA
82361 TCTTTCCATGACCTAACATCAGC
1 TCTTTCCATGACCTAACATCAGC
* *
82384 TCTTTCTATGACCTAACATTAGC
1 TCTTTCCATGACCTAACATCAGC
82407 TCTT
1 TCTT
82411 CTTAGTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (23 bp):
TCTTTCCATGACCTAACATCAGC
Found at i:90436 original size:24 final size:24
Alignment explanation
Indices: 90407--90475 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
90397 ATAAATGGAG
*
90407 ATATCAAAAATCAAAACAGAATTC
1 ATATCAAAAATCAAAACAGAATCC
*** *
90431 ATATCATGTATCAGAACAGAATCC
1 ATATCAAAAATCAAAACAGAATCC
* *
90455 AGATCAGAAATCAAAACAGAA
1 ATATCAAAAATCAAAACAGAA
90476 ATTAGATCAG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (24 bp):
ATATCAAAAATCAAAACAGAATCC
Found at i:90474 original size:12 final size:12
Alignment explanation
Indices: 90440--90496 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
90430 CATATCATGT
90440 ATCAGAACAG-A
1 ATCAGAACAGAA
*
90451 ATCCAGATCAGAA
1 AT-CAGAACAGAA
*
90464 ATCAAAACAGAA
1 ATCAGAACAGAA
* *
90476 ATTAGATCAGAA
1 ATCAGAACAGAA
90488 ATCAGAACA
1 ATCAGAACA
90497 TATTTCAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
11 2 0.06
12 31 0.86
13 3 0.08
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (12 bp):
ATCAGAACAGAA
Found at i:95632 original size:822 final size:818
Alignment explanation
Indices: 94445--96083 Score: 2613
Period size: 822 Copynumber: 2.0 Consensus size: 818
94435 ATAACCCAAT
* * * * *
94445 CCGATCTGGAGTGTCTCTTTAGGGCCACTGAAGCGACCCACTGTAAAAATGACAGAAAATTTAAA
1 CCGATCTGAAGTGTCACATTAGGGCCACAGAAGCGACCAACTGTAAAAATGACAGAAAATTTAAA
****
94510 ATTTTTTATCAGAATATGTAAACTCATAAAATCATTTATCAGCATTCAGAAATAAAATAGATTTT
66 AAAAATTATCAGAATATGTAAACTCATAAAATCATTTATCAGCATTCAGAAATAAAATAGATTTT
*
94575 CAGACTCGTTTTTAAAACAAAATACAATTACATGCCCCCTAATCACATATACCATTCTCTACAAG
131 CAGACTCGTATTTAAAACAAAATACAATTACA-GCCCCCTAATCACATATACCATTCTCTACAAG
* * *
94640 CAACGCCGGAAGAACTTTTTTACTGATGTCGATAGATGCACTTGTACAATTCTTTTAACCTGAAG
195 CAACGCCGGAAGAACCTTTTTACTGATATCGATAGATGCACTAGTACAATTCTTTTAACCTGAAG
* * *
94705 AGTAACAGAGTGAGCTTTGGAAAGCTAAGTAATATGGAACTACCAGATGATGCTGAAGAATGTGC
260 AGTAACAGAGTGAGCTTTGAAAAGCTAAGTAATACGGAACTACCAGATGATGCTGAAGAACGTGC
*
94770 AGATACAGATAAACATATATTTTCTTATTGATTCCGAACATCCATAGATTTTTATACTGAGCAGA
325 AGATACAAATAAACATATATTTTCTTATTGATTCCGAACATCCATAGATTTTTATACTGAGCAGA
* * *
94835 GATCCTACTGATATTTCAGATGGTAACGGACAATGAGATTTCAGTTTAGAGAAATATTTCGGATA
390 GATCCTAATGATATTTCAGATAGTAACGGACAATGAGATTTCAGTTCAGAGAAATATTTCGGATA
* *
94900 ACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCGTAAAACCAGTGAAAAGATACAT
455 ACTGAGTTCAGGAGATCAAAATAGGTTATCTAGTGTGTTCCCGCAAAACCAGTGAAAAGATACAT
* *
94965 ATCTTTTTAAAACATATTTTTAAACATTTAGAAATCATAGTAATTCCCCCAACTGTACACATCCA
520 ATCTTTTTAAAACATA-TTTTAAACATTTAGAAATCATAGAAATTCCCCCAACCGTACACATCCA
* *
95030 TAATGTGTAGGATCCCTAGAACCATACAACCCCGGCATAACAGTAAGGCCCTGAGCACACAGCTG
584 TAATGTGTAGGATCCCTAGAACCATACAACCCCGGCACAAC-GTAAGGCCCTGAGCACACAGCCG
** *
95095 AGGAGCCTTCATATATTCTTCCTTTAATAATAACCCCCCAAATAAAACATTTATAAAAAACCATA
648 AGGAGCCTTCATATATTCTTCCTCCAACAATAACCCCCCAAATAAAACATTTATAAAAAACCATA
* * *
95160 GTAAATTCCATAACCGAACACATCATAATGTATAGGTTCCCCAGAACCATACAACCCCTGCAAAA
713 GTAAATTCCACAACCGAACACATCATAATGTATAGGTT-CACAGAACCATACAACCCCGGCAAAA
* *
95225 TAGTTAGGCCCTGAGCACAAAGCCAAGGAGCCTGCATATAAC
777 CAGTTAGGACCTGAGCACAAAGCCAAGGAGCCTGCATATAAC
*
95267 CCGATCTGAAGTGTCACATTAGGGCCACCAG-AGCGACCAACTGTAAAAATGACTGAAAATTTAA
1 CCGATCTGAAGTGTCACATTAGGGCCA-CAGAAGCGACCAACTGTAAAAATGACAGAAAATTTAA
*
95331 AAAAAATTATCAGAATATGTAAACTCATAAAATCATTTATCAGTATTCAGAAATAAAATAGATTT
65 AAAAAATTATCAGAATATGTAAACTCATAAAATCATTTATCAGCATTCAGAAATAAAATAGATTT
* *
95396 TCAGACTCGTATTTAAAACAAAATACAATTAC-G-CCCCTAATCACATGTACCATTCTCTGCAAG
130 TCAGACTCGTATTTAAAACAAAATACAATTACAGCCCCCTAATCACATATACCATTCTCTACAAG
95459 CAACGCCGGAAGAACCTTTTTACTGATATCGATAGATGCACTAGTACAA-TCTTTTAACCTGAAA
195 CAACGCCGGAAGAACCTTTTTACTGATATCGATAGATGCACTAGTACAATTCTTTTAACCTG---
*
95523 AGATGAGTAACAGAGTGAGCTTTGAAAAGCTCAGTAATACGGAACTACCAGATGATGCTGAAGAA
257 A-A-GAGTAACAGAGTGAGCTTTGAAAAGCTAAGTAATACGGAACTACCAGATGATGCTGAAGAA
* *
95588 CGTGCAGATACAAATAAACATATATTTTCTT-TTGGTTGCGAACATCCATAGATTTTTATACTGA
320 CGTGCAGATACAAATAAACATATATTTTCTTATTGATTCCGAACATCCATAGATTTTTATACTGA
** * *
95652 GTGGAGATCCTAATGATATTTTAGATAGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTC
385 GCAGAGATCCTAATGATATTTCAGATAGTAACGGACAATGAGATTTCAGTTCAGAGAAATATTTC
* *
95717 GGATGACTGAGTTCAGGAGATCAAAATAGGTTATCTAGTGTGTTCCGGCAAAACCAGTGAAAAGA
450 GGATAACTGAGTTCAGGAGATCAAAATAGGTTATCTAGTGTGTTCCCGCAAAACCAGTGAAAAGA
* * *
95782 TACATATCTTTTTAAAGCATATTTTAAACATTTAGAAATCATAGAAATTCCCTCAACCGTACACG
515 TACATATCTTTTTAAAACATATTTTAAACATTTAGAAATCATAGAAATTCCCCCAACCGTACACA
* *
95847 TCCATAATGTGTAGGTTCCCTAGAACCATACAACCGCGGCACAACGTAAGGCCCTGAGCACACAG
580 TCCATAATGTGTAGGATCCCTAGAACCATACAACCCCGGCACAACGTAAGGCCCTGAGCACACAG
* *
95912 CCGATGAGCCTTCATATATTCTTTCTCCAACAATAACCCCCCAAATAAAACATTTATAAAAAACC
645 CCGAGGAGCCTTCATATATTCTTCCTCCAACAATAACCCCCCAAATAAAACATTTATAAAAAACC
* * * *
95977 ATAGTAAATTCCCCAACCGAACACATCATAATGTGTAGGTTCACAGAACCTTACAACCCCGGCAC
710 ATAGTAAATTCCACAACCGAACACATCATAATGTATAGGTTCACAGAACCATACAACCCCGGCAA
* *
96042 AACAGTTAGGACCTGAGCACAAAGCCGAGGAGCCTGTATATA
775 AACAGTTAGGACCTGAGCACAAAGCCAAGGAGCCTGCATATA
96084 TTCTTCCTCC
Statistics
Matches: 751, Mismatches: 60, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
818 12 0.02
819 132 0.18
820 118 0.16
821 83 0.11
822 317 0.42
823 89 0.12
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (818 bp):
CCGATCTGAAGTGTCACATTAGGGCCACAGAAGCGACCAACTGTAAAAATGACAGAAAATTTAAA
AAAAATTATCAGAATATGTAAACTCATAAAATCATTTATCAGCATTCAGAAATAAAATAGATTTT
CAGACTCGTATTTAAAACAAAATACAATTACAGCCCCCTAATCACATATACCATTCTCTACAAGC
AACGCCGGAAGAACCTTTTTACTGATATCGATAGATGCACTAGTACAATTCTTTTAACCTGAAGA
GTAACAGAGTGAGCTTTGAAAAGCTAAGTAATACGGAACTACCAGATGATGCTGAAGAACGTGCA
GATACAAATAAACATATATTTTCTTATTGATTCCGAACATCCATAGATTTTTATACTGAGCAGAG
ATCCTAATGATATTTCAGATAGTAACGGACAATGAGATTTCAGTTCAGAGAAATATTTCGGATAA
CTGAGTTCAGGAGATCAAAATAGGTTATCTAGTGTGTTCCCGCAAAACCAGTGAAAAGATACATA
TCTTTTTAAAACATATTTTAAACATTTAGAAATCATAGAAATTCCCCCAACCGTACACATCCATA
ATGTGTAGGATCCCTAGAACCATACAACCCCGGCACAACGTAAGGCCCTGAGCACACAGCCGAGG
AGCCTTCATATATTCTTCCTCCAACAATAACCCCCCAAATAAAACATTTATAAAAAACCATAGTA
AATTCCACAACCGAACACATCATAATGTATAGGTTCACAGAACCATACAACCCCGGCAAAACAGT
TAGGACCTGAGCACAAAGCCAAGGAGCCTGCATATAAC
Found at i:96172 original size:24 final size:24
Alignment explanation
Indices: 96136--96196 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
96126 ATAAATAGAG
*
96136 ATATCAGAAATCAAAATAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
* * *
96160 ATATCATATATCATAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
*
96184 AGATCAGAAATCA
1 ATATCAGAAATCA
96197 GAGCATAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATTC
Found at i:101779 original size:24 final size:24
Alignment explanation
Indices: 101690--101793 Score: 118
Period size: 24 Copynumber: 4.3 Consensus size: 24
101680 GAGATATTAA
* *
101690 AAATCAAAACAGAATTCATATCAT
1 AAATCAGAACAGAATTCATATCAG
* * *
101714 ATATCAGAACAGAATCCATATCAA
1 AAATCAGAACAGAATTCATATCAG
101738 AAATCAGAACAGAATTCATATCAG
1 AAATCAGAACAGAATTCATATCAG
* * * * *
101762 AAATCATAACATATTTCAAATCGG
1 AAATCAGAACAGAATTCATATCAG
101786 AAATCAGA
1 AAATCAGA
101794 TAAAATATTC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (24 bp):
AAATCAGAACAGAATTCATATCAG
Done.