Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004465.1 Hibiscus syriacus cultivar Beakdansim tig00009841_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: 78026
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Found at i:148 original size:84 final size:85
Alignment explanation
Indices: 7--958 Score: 1186
Period size: 84 Copynumber: 11.4 Consensus size: 85
1 TCAACC
* * * * *
7 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTATAACATAGCTC-AGGAGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
** *
71 GAAGGGCAATCTGTCGACAA
66 GAAGGGTTATCTGTCAACAA
* * * *
91 AGACCTTCAAGTTCGATTACACTAAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
**
156 GAAGGACTATCTGTCAACAAA
66 GAAGGGTTATCTGTCAAC-AA
* * * *
177 AGACCTTCGAGTTCGATTACACTCAGCTC-ATGGAATATC-CATTTACAACATAACTCAAGGCGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
240 GAA-GGTTATCTGTCAACAA
66 GAAGGGTTATCTGTCAACAA
* * * *
259 GGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC-GATTTATAGTAT-ACTC-AGGCGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
* *
321 GAATGGTTATCTGTCAACCA
66 GAAGGGTTATCTGTCAACAA
* * *
341 AGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCATATCAAA-TTACAACATAACTCAAGGCAA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
*
405 GAAGGGTTATCTGTCAACCA
66 GAAGGGTTATCTGTCAACAA
* * * * *
425 AGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATACCAAA-TTACAGTATAACTCAATGAGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
*
489 GAA-GGTTATCTGTCAACCA
66 GAAGGGTTATCTGTCAACAA
* * *
508 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACATCATAGCTCAAGGCGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
*
573 GAAGGATTATCTGTCAAC-A
66 GAAGGGTTATCTGTCAACAA
* *
592 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCCAATTTA-AGCATAACTCAAGGCGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
* *
656 TAAGGGTTATCTGTCAAC-C
66 GAAGGGTTATCTGTCAACAA
* * * *
675 AGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCACAT-AAATTTACAGCATAATTCAAGGCGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
*
739 -AAGGGCTATCTGTCAACAAA
66 GAAGGGTTATCTGTCAAC-AA
* * * * *
759 AAACCTTCGAGTTCGATTACACTTAGTTCAAAGGCATATTC-AATTTACAGCATAACTAAAGGAG
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATA-TCAAATTTACAGCATAACTCAAGGCG
* * *
823 AGAAGAGTTATCTGTTAAC-C
65 AGAAGGGTTATCTGTCAACAA
* * *
843 AGACCTTCGAGTTCGATTACATTCAGCTCAAATGCATATC-AATTTACAGCATAACTCAAGGTGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
*
907 GAAGGGTTATCCGTCAACAAA
66 GAAGGGTTATCTGTCAAC-AA
* *
928 AGACATTCGAG-TCGATTACATTCAGCTCAAA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAA
959 TACACCAATT
Statistics
Matches: 759, Mismatches: 92, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
81 9 0.01
82 115 0.15
83 210 0.28
84 310 0.41
85 72 0.09
86 43 0.06
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA
GAAGGGTTATCTGTCAACAA
Found at i:672 original size:251 final size:250
Alignment explanation
Indices: 1--958 Score: 1163
Period size: 251 Copynumber: 3.8 Consensus size: 250
* *
1 TCAACC-AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTATAACATAGCTC
1 TCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-AATTTACATCATAGCTC
*** * * * *
65 AGGAGAGAAGGGCAATCTGTCGACAAAGACCTTCAAGTTCGATTACACTAAGCTCAAAGGCACAT
65 AGGAGAGAAGGATTATCTGTCAAC-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATAT
* **
130 CAAATTTACAGCATAGCTCAAGGCGAGAAGGACTATCTGTCAACAAAAGACCTTCGAGTTCGATT
129 C-AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATT
* * * *
195 ACACTCAGCTC-ATGGAATATCC-ATTTACAACATAACTCAAGGCGAGAAGGTTATCTG
193 ACACTCAGCTCAAAGGCATA-CCAAATTACAGCATAACTCAAGGCGAGAAGGTTATCTG
* * *
252 TCAA-CAAGGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCGATTTATAGT-ATA-CT
1 TCAACCAA-GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTACA-TCATAGCT
* *
314 CAGGCGAGAATGG-TTATCTGTCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAT
64 CAGGAGAGAA-GGATTATCTGTCAA-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAT
* * * * *
378 ATCAAATTACAACATAACTCAAGGCAAGAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTTGAT
127 ATCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGAT
* * *
442 TACACTCAGCTCAAAGGCATACCAAATTACAGTATAACTCAATGAGAGAAGGTTATCTG
192 TACACTCAGCTCAAAGGCATACCAAATTACAGCATAACTCAAGGCGAGAAGGTTATCTG
501 TCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACATCATAGCTC
1 TCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-AATTTACATCATAGCTC
* *
566 AAGGCGAGAAGGATTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATAT
65 -AGGAGAGAAGGATTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATAT
* * *
631 CCAATTTA-AGCATAACTCAAGGCGATAAGGGTTATCTGTCAAC--CAGACCTTCGAGTTTGATT
129 -CAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATT
* * * * *
693 ACATTCAGCTCAAAGGCACA-TAAATTTACAGCATAATTCAAGGCGA-AAGGGCTATCTG
193 ACACTCAGCTCAAAGGCATACCAAA-TTACAGCATAACTCAAGGCGAGAA-GGTTATCTG
* * * * * * *
751 TCAACAAAAAACCTTCGAGTTCGATTACACTTAGTTCAAAGGCATATTCAATTTACAGCATAACT
1 TCAAC-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA-TCAATTTACATCATAGCT
* * * * *
816 AAAGGAGAGAA-GAGTTATCTGTTAACCAGACCTTCGAGTTCGATTACATTCAGCTCAAATGCAT
64 -CAGGAGAGAAGGA-TTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAT
* * *
880 ATCAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCCGTCAACAAAAGACATTCGAG-TCGAT
127 ATCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGAT
*
944 TACATTCAGCTCAAA
192 TACACTCAGCTCAAA
959 TACACCAATT
Statistics
Matches: 620, Mismatches: 64, Indels: 45
0.85 0.09 0.06
Matches are distributed among these distances:
248 31 0.05
249 120 0.19
250 144 0.23
251 230 0.37
252 85 0.14
253 10 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (250 bp):
TCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTACATCATAGCTCA
GGAGAGAAGGATTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCA
ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCATACCAAATTACAGCATAACTCAAGGCGAGAAGGTTATCTG
Found at i:681 original size:334 final size:331
Alignment explanation
Indices: 1--958 Score: 1268
Period size: 334 Copynumber: 2.9 Consensus size: 331
* *
1 TCAACCAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTATAACATAGCTC-
1 TCAACCAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTCA
* * * *
65 AGG-AGAGAAGGGCAATCTGTCGACAAAGACCTTCAAGTTCGATTACACTAAGCTCAAAGGCACA
66 AGGCA-AGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGGCATA
* * * *
129 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGACTATCTGTCAACAAAAGACCTTCGAGTTCGAT
130 TCAAA-TTACAGCATAACTCAAGGAGAGAAGG-TTATCTGTCAAC-CAAGACCTTCGAGTTCGAT
* * *
194 TACACTCAGCTC-ATGGAATATCCATTTACAACATAACTCAAGGCGAGAAGGTTATCTGTCAACA
192 TACACTCAGCTCAAAGGCATATCAATTTACAACATAACTCAAGGCGAGAAGGTTATCTGTCAACA
* * *
258 AGGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCGATTTATAGTATACTCAGGCGAGA
257 A-GACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCAATTTATAGCATACTCAGGCGAGA
*
323 ATGGTTATCTG
321 AGGGTTATCTG
* *
334 TCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCATATCAAA-TTACAACATAACTC
1 TCAACC-AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTC
* * * *
398 AAGGCAAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATA
65 AAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGGCATA
* * *
463 CCAAATTACAGTATAACTCAATGAGAGAAGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTAC
130 TCAAATTACAGCATAACTCAAGGAGAGAAGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTAC
* * *
528 ACTCAGCTCAAAGGCACATCAAATTTACATCATAGCTCAAGGCGAGAAGGATTATCTGTCAACAA
195 ACTCAGCTCAAAGGCATATC-AATTTACAACATAACTCAAGGCGAGAAGG-TTATCTGTCAACAA
*
593 GACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCCAATTTA-AGCATAACTCAAGGCGAT
258 GACCTTCGAGTTCGATTACACTCAGCTCAAAGACATAT-CAATTTATAGCAT-ACTC-AGGCGAG
657 AAGGGTTATCTG
320 AAGGGTTATCTG
* * * *
669 TCAACCAGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCACAT-AAATTTACAGCATAATTCA
1 TCAACCAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTCA
* * * *
733 AGGCGA-AAGGGCTATCTGTCAACAAAAAACCTTCGAGTTCGATTACACTTAGTTCAAAGGCATA
66 AGGCAAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGGCATA
* * *
797 TTCAATTTACAGCATAACTAAAGGAGAGAAGAGTTATCTGTTAACC-AGACCTTCGAGTTCGATT
130 -TCAAATTACAGCATAACTCAAGGAGAGAAG-GTTATCTGTCAACCAAGACCTTCGAGTTCGATT
* * * * *
861 ACATTCAGCTCAAATGCATATCAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCCGTCAACA
193 ACACTCAGCTCAAAGGCATATCAATTTACAACATAACTCAAGGCGAGAA-GGTTATCTGTCAAC-
* *
926 AAAGACATTCGAG-TCGATTACATTCAGCTCAAA
256 -AAGACCTTCGAGTTCGATTACACTCAGCTCAAA
959 TACACCAATT
Statistics
Matches: 551, Mismatches: 58, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
331 30 0.05
332 18 0.03
333 126 0.23
334 246 0.45
335 107 0.19
336 24 0.04
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (331 bp):
TCAACCAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTCA
AGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGGCATAT
CAAATTACAGCATAACTCAAGGAGAGAAGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCATATCAATTTACAACATAACTCAAGGCGAGAAGGTTATCTGTCAACAAGAC
CTTCGAGTTCGATTACACTCAGCTCAAAGACATATCAATTTATAGCATACTCAGGCGAGAAGGGT
TATCTG
Found at i:2816 original size:22 final size:21
Alignment explanation
Indices: 2791--2836 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
2781 TCTTGGTTTG
2791 TTTTTATTAT-TTTATATATTGT
1 TTTTTATT-TCTTTATATATT-T
*
2813 TTTTTATTTCTTTTTATATTT
1 TTTTTATTTCTTTATATATTT
2834 TTT
1 TTT
2837 ACATAACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTATTTCTTTATATATTT
Found at i:2955 original size:29 final size:30
Alignment explanation
Indices: 2900--2986 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 30
2890 ATATTTTTTC
* * *
2900 TTCTTTTTATTTTATTTAAGTACTATTTTTTAT
1 TTCTTTGTATTTTATTT-A-T-TTATTTGTTAT
*
2933 TTGTTTGGT-TTTTA-TTATTTATTTGTTAT
1 TTCTTT-GTATTTTATTTATTTATTTGTTAT
*
2962 TTCTTTTTATTTTATTTATTTATTT
1 TTCTTTGTATTTTATTTATTTATTT
2987 CTAATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.02
29 19 0.42
30 11 0.24
31 1 0.02
32 2 0.04
33 10 0.22
34 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (30 bp):
TTCTTTGTATTTTATTTATTTATTTGTTAT
Found at i:3001 original size:30 final size:29
Alignment explanation
Indices: 2942--3001 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
2932 TTTGTTTGGT
* *
2942 TTTTATTATTTATTTGTTATTTCTTTTTA
1 TTTTATTATTTATTTCTAATTTCTTTTTA
2971 TTTTATTTATTTATTTCTAATTT-TTATTTA
1 TTTTA-TTATTTATTTCTAATTTCTT-TTTA
3001 T
1 T
3002 ACGTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTATTATTTATTTCTAATTTCTTTTTA
Found at i:3079 original size:12 final size:14
Alignment explanation
Indices: 3040--3093 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
3030 ATTTTTTTTG
*
3040 TTTTTACCTA-TTA
1 TTTTTACTTATTTA
3053 TTTTATA-TGTATTTA
1 TTTT-TACT-TATTTA
3068 -TTTTA-TTATTTA
1 TTTTTACTTATTTA
3080 TTTTTACTTATTTA
1 TTTTTACTTATTTA
3094 ATACTATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 6 0.17
13 12 0.34
14 14 0.40
15 3 0.09
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTTACTTATTTA
Found at i:3092 original size:14 final size:13
Alignment explanation
Indices: 3050--3093 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
3040 TTTTTACCTA
3050 TTATTTTATATGTAT
1 TTATTTT-TAT-TAT
3065 TTA-TTTTATTAT
1 TTATTTTTATTAT
3077 TTATTTTTACTTAT
1 TTATTTTTA-TTAT
3091 TTA
1 TTA
3094 ATACTATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.22
13 8 0.30
14 10 0.37
15 3 0.11
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:3197 original size:16 final size:16
Alignment explanation
Indices: 3141--3197 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
3131 GTTTTCTTTA
3141 TATATATATTTATTA-T
1 TATATATATTT-TTACT
*
3157 TATTTATGATTTTTAC-
1 TATATAT-ATTTTTACT
*
3173 -CTA-ATATTTTTACT
1 TATATATATTTTTACT
3187 TATATATATTT
1 TATATATATTT
3198 GTATCATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 8 0.25
14 2 0.06
15 3 0.09
16 15 0.47
17 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TATATATATTTTTACT
Found at i:3463 original size:35 final size:35
Alignment explanation
Indices: 3424--3490 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
3414 TTTTACCTAA
*
3424 TAATTATATATTT-TTATTTTTTTCATTATTTTTTT
1 TAATTATATATTTCTT-TTCTTTTCATTATTTTTTT
* * *
3459 TAATTGTTTATTTCTTTTCTTTTCTTTATTTT
1 TAATTATATATTTCTTTTCTTTTCATTATTTT
3491 ATTTGATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 25 0.93
36 2 0.07
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (35 bp):
TAATTATATATTTCTTTTCTTTTCATTATTTTTTT
Found at i:3552 original size:19 final size:20
Alignment explanation
Indices: 3509--3554 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
3499 TATTTCCGTA
3509 ATTTAGTTAACTTATTTAGTT
1 ATTTA-TTAACTTATTTAGTT
*
3530 -TTTATTAA-TTATTTATTT
1 ATTTATTAACTTATTTAGTT
3548 ATTTATT
1 ATTTATT
3555 TATTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 9 0.39
19 10 0.43
20 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
ATTTATTAACTTATTTAGTT
Found at i:7848 original size:12 final size:12
Alignment explanation
Indices: 7831--7870 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
7821 TGAGGCAACT
*
7831 CATACACATACG
1 CATACAAATACG
7843 CATACAAATACG
1 CATACAAATACG
* *
7855 CATACAGATACA
1 CATACAAATACG
7867 CATA
1 CATA
7871 TATACATACG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.17
Consensus pattern (12 bp):
CATACAAATACG
Found at i:12960 original size:21 final size:21
Alignment explanation
Indices: 12936--12975 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12926 TTGTCAATGT
*
12936 TCAAGATTC-CAACTTCAATCC
1 TCAAGACTCTCAA-TTCAATCC
12957 TCAAGACTCTCAATTCAAT
1 TCAAGACTCTCAATTCAAT
12976 TATGTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (21 bp):
TCAAGACTCTCAATTCAATCC
Found at i:13469 original size:11 final size:11
Alignment explanation
Indices: 13453--13492 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
13443 GGGTATTATA
13453 TAAGCTTAAGG
1 TAAGCTTAAGG
13464 TAAGCTTATA--
1 TAAGCTTA-AGG
13474 TAAGCTTAAGG
1 TAAGCTTAAGG
13485 TAAGCTTA
1 TAAGCTTA
13493 TATAAGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 16 0.62
12 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (11 bp):
TAAGCTTAAGG
Found at i:13472 original size:21 final size:21
Alignment explanation
Indices: 13448--13503 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
13438 TATTTGGGTA
13448 TTATATAAGCTTAAGGTAAGC
1 TTATATAAGCTTAAGGTAAGC
13469 TTATATAAGCTTAAGGTAAGC
1 TTATATAAGCTTAAGGTAAGC
13490 TTATATAAGCTTAA
1 TTATATAAGCTTAA
13504 AACATTAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (21 bp):
TTATATAAGCTTAAGGTAAGC
Found at i:13479 original size:10 final size:10
Alignment explanation
Indices: 13448--13502 Score: 60
Period size: 10 Copynumber: 5.3 Consensus size: 10
13438 TATTTGGGTA
13448 TTATATAAGC
1 TTATATAAGC
13458 TTA-AGGTAAGC
1 TTATA--TAAGC
13469 TTATATAAGC
1 TTATATAAGC
13479 TTA-AGGTAAGC
1 TTATA--TAAGC
13490 TTATATAAGC
1 TTATATAAGC
13500 TTA
1 TTA
13503 AAACATTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.05
10 19 0.49
11 16 0.41
12 2 0.05
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (10 bp):
TTATATAAGC
Found at i:17141 original size:21 final size:21
Alignment explanation
Indices: 17115--17232 Score: 123
Period size: 21 Copynumber: 5.7 Consensus size: 21
17105 GCATTGCATT
17115 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
17136 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
17156 TCGCGTTGCGACAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
17177 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
17197 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
17218 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
17233 CTACAGTTGT
Statistics
Matches: 73, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 29 0.40
21 44 0.60
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:17156 original size:41 final size:41
Alignment explanation
Indices: 17111--17229 Score: 229
Period size: 41 Copynumber: 2.9 Consensus size: 41
17101 ATTCGCATTG
17111 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
17152 CATTTCGCGTTGCGACAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
17193 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
17230 AGTCTACAGT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:17161 original size:20 final size:20
Alignment explanation
Indices: 17136--17208 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
17126 TAGTTGAAAA
17136 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
** ** **
17156 TCGCGTTGCGACAGTTGAAAA
1 TCGCGTTGCGA-TTTTCCATT
17177 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
17197 TCGCGTTGCGAT
1 TCGCGTTGCGAT
17209 AGTTGAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:17250 original size:22 final size:22
Alignment explanation
Indices: 17200--17273 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
17190 TTCCATTTCG
* *
17200 CGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATAGTCT-ACAATTGT
*
17221 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAATTGT
* *
17243 TGTTGCGAAAGTCTACAATTGT
1 CGTTGCGATAGTCTACAATTGT
17265 CGTTGCGAT
1 CGTTGCGAT
17274 TTTCCAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
21 16 0.37
22 27 0.63
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAATTGT
Found at i:17398 original size:6 final size:6
Alignment explanation
Indices: 17389--17466 Score: 96
Period size: 6 Copynumber: 14.0 Consensus size: 6
17379 ACCACGACAA
* *
17389 CGACCC CGACCA CGACCA CGACCC CGACCC CGACCC CGACCC CGA-CC
1 CGACCC CGACCC CGACCC CGACCC CGACCC CGACCC CGACCC CGACCC
17436 CGA-CC CGA-CC CGA-CC CGA-CC CGA-CC CGACCC
1 CGACCC CGACCC CGACCC CGACCC CGACCC CGACCC
17467 GGGACGATTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
5 30 0.43
6 39 0.57
ACGTcount: A:0.21, C:0.62, G:0.18, T:0.00
Consensus pattern (6 bp):
CGACCC
Found at i:17398 original size:12 final size:12
Alignment explanation
Indices: 17373--17465 Score: 90
Period size: 12 Copynumber: 8.2 Consensus size: 12
17363 GACACGTATT
* *
17373 ACCATGACCACG
1 ACCACGACCCCG
*
17385 ACAACGACCCCG
1 ACCACGACCCCG
*
17397 ACCACGACCACG
1 ACCACGACCCCG
*
17409 ACCCCGACCCCG
1 ACCACGACCCCG
*
17421 ACCCCGACCCCG
1 ACCACGACCCCG
17433 ACC-CGA-CCCG
1 ACCACGACCCCG
17443 ACC-CGA-CCCG
1 ACCACGACCCCG
17453 ACC-CGA-CCCG
1 ACCACGACCCCG
17463 ACC
1 ACC
17466 CGGGACGATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
10 27 0.36
11 3 0.04
12 44 0.59
ACGTcount: A:0.25, C:0.57, G:0.17, T:0.01
Consensus pattern (12 bp):
ACCACGACCCCG
Found at i:17401 original size:18 final size:18
Alignment explanation
Indices: 17378--17465 Score: 107
Period size: 18 Copynumber: 5.2 Consensus size: 18
17368 GTATTACCAT
*
17378 GACCACGACAACGACCCC
1 GACCACGACCACGACCCC
17396 GACCACGACCACGACCCC
1 GACCACGACCACGACCCC
* *
17414 GACCCCGACCCCGACCCC
1 GACCACGACCACGACCCC
17432 GACC-CGACC-CGA-CCC
1 GACCACGACCACGACCCC
17447 GACC-CGACC-CGA-CCC
1 GACCACGACCACGACCCC
17462 GACC
1 GACC
17466 CGGGACGATT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 22 0.33
16 3 0.04
17 5 0.07
18 37 0.55
ACGTcount: A:0.24, C:0.58, G:0.18, T:0.00
Consensus pattern (18 bp):
GACCACGACCACGACCCC
Found at i:17439 original size:5 final size:5
Alignment explanation
Indices: 17393--17467 Score: 96
Period size: 5 Copynumber: 13.8 Consensus size: 5
17383 CGACAACGAC
17393 CCCGA CCACGA CCACGA CCCCGA CCCCGA CCCCGA CCCCGA CCCGA CCCGA
1 CCCGA CC-CGA CC-CGA -CCCGA -CCCGA -CCCGA -CCCGA CCCGA CCCGA
17444 CCCGA CCCGA CCCGA CCCGA CCCG
1 CCCGA CCCGA CCCGA CCCGA CCCG
17468 GGACGATTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
5 36 0.53
6 30 0.44
7 2 0.03
ACGTcount: A:0.20, C:0.61, G:0.19, T:0.00
Consensus pattern (5 bp):
CCCGA
Found at i:18042 original size:20 final size:20
Alignment explanation
Indices: 17989--18089 Score: 69
Period size: 20 Copynumber: 4.9 Consensus size: 20
17979 GCAACGAATT
17989 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAC
**
18009 TGTAGACTATCGCAACGCGAAC
1 TG--GAAAATCGCAACGCGAAC
**
18031 TGGAAAATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAC
** * * *
18051 TTCAACTATCGCAATGCGAAA
1 TGGAA-AATCGCAACGCGAAC
*
18072 TGGAAAATCGTAACGCGA
1 TGGAAAATCGCAACGCGA
18090 TTTTCAACTA
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
20 29 0.48
21 15 0.25
22 16 0.27
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAC
Found at i:18059 original size:41 final size:41
Alignment explanation
Indices: 17967--18266 Score: 203
Period size: 41 Copynumber: 7.0 Consensus size: 41
17957 AAAATCTTTT
* *
17967 TTTTTAACTATCGCAA--CGAATTTGGAAAATCGCAACGACAA
1 TTTTCAACTATCGCAACGCGAA-TTGGAAAATCGCAACG-CGA
* * *
18008 CTGT-AGACTATCGCAACGCGAACTGGAAAATCGCAACGCGA
1 TTTTCA-ACTATCGCAACGCGAATTGGAAAATCGCAACGCGA
* * *
18049 TTTTCAACTATCGCAATGCGAAATGGAAAATCGTAACGCGA
1 TTTTCAACTATCGCAACGCGAATTGGAAAATCGCAACGCGA
* ** *
18090 TTTTCAACTATCGCAACGCGATTTTCAATTATCGCAACGCGAA
1 TTTTCAACTATCGCAACGCGAATTGGAA-AATCGCAACGCG-A
* * * * ** **
18133 TTTGCGATAGTAGAGATCGCAATGCGAATTAG-TGATCGCATTGCGA
1 TTTTC-A-ACT----ATCGCAACGCGAATTGGAAAATCGCAACGCGA
* *
18179 TTTTGTTTGTAGACTATCGCAACGCGAACTGGAAAATCGCAACGCGA
1 ---T-TTT-CA-ACTATCGCAACGCGAATTGGAAAATCGCAACGCGA
* *
18226 TTTTCAACTATCGCAATGCGAAATGGAAAATCGCAACGCGA
1 TTTTCAACTATCGCAACGCGAATTGGAAAATCGCAACGCGA
18267 ATTTGCGATA
Statistics
Matches: 201, Mismatches: 40, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 104 0.52
42 27 0.13
43 12 0.06
44 2 0.01
45 2 0.01
46 15 0.07
47 19 0.09
49 14 0.07
50 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
TTTTCAACTATCGCAACGCGAATTGGAAAATCGCAACGCGA
Found at i:18063 original size:21 final size:21
Alignment explanation
Indices: 18037--18131 Score: 111
Period size: 21 Copynumber: 4.6 Consensus size: 21
18027 GAACTGGAAA
18037 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
18058 ATCGCAATGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
18078 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
18099 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
18120 ATCGCAACGCGA
1 ATCGCAACGCGA
18132 ATTTGCGATA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 13 0.22
21 45 0.78
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:18219 original size:20 final size:20
Alignment explanation
Indices: 18194--18267 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
18184 TTTGTAGACT
*
18194 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
18214 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
18235 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
18255 ATCGCAACGCGAA
1 ATCGCAACGCGAA
18268 TTTGCGATAG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 27 0.66
21 14 0.34
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:18274 original size:28 final size:28
Alignment explanation
Indices: 18242--18297 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
18232 ACTATCGCAA
18242 TGCGA-AATGGAAAATCGCAACGCGAATT
1 TGCGATAATGG-AAATCGCAACGCGAATT
* * *
18270 TGCGATAGTGGAGATCGCAATGCGAATT
1 TGCGATAATGGAAATCGCAACGCGAATT
18298 ATAGATCGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (28 bp):
TGCGATAATGGAAATCGCAACGCGAATT
Found at i:18305 original size:135 final size:136
Alignment explanation
Indices: 18055--18320 Score: 419
Period size: 135 Copynumber: 2.0 Consensus size: 136
18045 GCGATTTTCA
* * ** * *
18055 ACTATCGCAATGCGAAATGGAAAATCGTAACGCGATTTTCAACTATCGCAACGCGATTTTCAATT
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAATA
18120 ATCGCAACGCGAATTTGCGATAGTAGAGATCGCAATGCGAATTAGTGATCGCATTGCGATTTTGT
66 ATCGCAACGCGAATTTGCGATAGTAGAGATCGCAATGCGAATTAGTGATCGCATTGCGATTTTGT
18185 TTGTAG
131 TTGTAG
* * *
18191 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAATGCGAAATGGAA-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAATA
*
18255 ATCGCAACGCGAATTTGCGATAGTGGAGATCGCAATGCGAATTA-TAGATCGCATTGCGATTTTG
66 ATCGCAACGCGAATTTGCGATAGTAGAGATCGCAATGCGAATTAGT-GATCGCATTGCGATTTTG
18319 TT
130 TT
18321 GGTCATTTTC
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
134 1 0.01
135 63 0.53
136 55 0.46
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (136 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAATA
ATCGCAACGCGAATTTGCGATAGTAGAGATCGCAATGCGAATTAGTGATCGCATTGCGATTTTGT
TTGTAG
Found at i:19063 original size:17 final size:18
Alignment explanation
Indices: 19020--19067 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
19010 AATAGGAGTG
* *
19020 AAATAAAATCAATTTACA
1 AAATAAAATTATTTTACA
19038 AATATAAAATTATTTTA-A
1 AA-ATAAAATTATTTTACA
19056 AAATAAAATTAT
1 AAATAAAATTAT
19068 GTGAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 12 0.44
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAAAATTATTTTACA
Found at i:19633 original size:25 final size:25
Alignment explanation
Indices: 19605--19656 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
19595 ATCATCTTTA
*
19605 ATCTCTTACATAACACACTCATTTC
1 ATCTCTTACACAACACACTCATTTC
*
19630 ATCTCTTACACAACACACTCCTTTC
1 ATCTCTTACACAACACACTCATTTC
19655 AT
1 AT
19657 TTTCCATCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (25 bp):
ATCTCTTACACAACACACTCATTTC
Found at i:23550 original size:28 final size:30
Alignment explanation
Indices: 23512--23580 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
23502 ATCAATTAAA
* *
23512 TTTAAACAATTATAATTT-TTT-TTATAAT
1 TTTAAAAAATTACAATTTATTTATTATAAT
*
23540 TTTAAAAAATTACACTTTATTTAATTATAAT
1 TTTAAAAAATTACAATTTATTT-ATTATAAT
23571 TTTAAAAAAT
1 TTTAAAAAAT
23581 CAACAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.43
29 3 0.09
31 17 0.49
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAAAAAATTACAATTTATTTATTATAAT
Found at i:24370 original size:20 final size:21
Alignment explanation
Indices: 24330--24369 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24320 CACATTGCCC
24330 AGAGGGTACCGATACCCCCCA
1 AGAGGGTACCGATACCCCCCA
24351 AGAGGGTACCGATACCCCC
1 AGAGGGTACCGATACCCCC
24370 ATATAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (21 bp):
AGAGGGTACCGATACCCCCCA
Found at i:24499 original size:75 final size:75
Alignment explanation
Indices: 24331--24520 Score: 276
Period size: 74 Copynumber: 2.5 Consensus size: 75
24321 ACATTGCCCA
* *
24331 GAGGGTACCGATACCCCCCAAGAGGGTACCGATACCCCCATATAAGATTTGGCTCCGAGAAATAA
1 GAGGGTACAGATACCCCCCAAGAGGGTACCGATA-CCCCATATAAGATTTGGCTCCCAGAAATAA
*
24396 CAGATTGCTCG
65 CAGAATGCTCG
** *
24407 GAGGGTATTGATA-CCCCCAAGAGGGTACCGATACCCCATGTAAGATTTGGCTCCCAGAAATAAC
1 GAGGGTACAGATACCCCCCAAGAGGGTACCGATACCCCATATAAGATTTGGCTCCCAGAAATAAC
24471 AGAATGCTCG
66 AGAATGCTCG
* *
24481 GAGGGTACAGATACCCCCCGAATA-GGTATCGATACCCCAT
1 GAGGGTACAGATACCCCCC-AAGAGGGTACCGATACCCCAT
24521 CTCATAACGG
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
74 49 0.48
75 40 0.39
76 14 0.14
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (75 bp):
GAGGGTACAGATACCCCCCAAGAGGGTACCGATACCCCATATAAGATTTGGCTCCCAGAAATAAC
AGAATGCTCG
Found at i:26457 original size:21 final size:21
Alignment explanation
Indices: 26433--26472 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
26423 AAGACTTTAT
26433 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
26454 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
26473 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:30316 original size:23 final size:23
Alignment explanation
Indices: 30266--30366 Score: 131
Period size: 23 Copynumber: 4.6 Consensus size: 23
30256 TGGTGCACTA
*
30266 GGTATCGATACCCCC-TTGCA-TG
1 GGTACCGATACCCCCTTTG-AGTG
*
30288 GGTACCGATACCCCTTTTGAGTG
1 GGTACCGATACCCCCTTTGAGTG
30311 GGTACCGATACCCCCTTTGAGTG
1 GGTACCGATACCCCCTTTGAGTG
30334 GGTACCGATACCCCC-TTGA--G
1 GGTACCGATACCCCCTTTGAGTG
*
30354 GGTACCAATACCC
1 GGTACCGATACCC
30367 TCCACGGGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
20 13 0.18
22 18 0.25
23 42 0.58
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.25
Consensus pattern (23 bp):
GGTACCGATACCCCCTTTGAGTG
Found at i:33099 original size:21 final size:21
Alignment explanation
Indices: 33073--33131 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
33063 AGAATGCTCG
33073 GAGGGTACCGATACCCCCCAA
1 GAGGGTACCGATACCCCCCAA
33094 GAGGGTACCGATACCCCCCAA
1 GAGGGTACCGATACCCCCCAA
33115 GAGGGTACCGATACCCC
1 GAGGGTACCGATACCCC
33132 ATGTAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.27, C:0.37, G:0.25, T:0.10
Consensus pattern (21 bp):
GAGGGTACCGATACCCCCCAA
Found at i:33160 original size:96 final size:97
Alignment explanation
Indices: 32994--33204 Score: 347
Period size: 96 Copynumber: 2.2 Consensus size: 97
32984 CCAGATTGCT
*
32994 AAGAGGGTATCGATACCCTCCCAAGAGGGTACCGATACCCCCATATAAGATTTGACTCCGAGAAA
1 AAGAGGGTACCGATACCCTCCCAAGAGGGTACCGATACCCCCATATAAGATTTGACTCCGAGAAA
33059 TAACAGAATGCTCGGAGGGTACCGATACCCCCC
66 TAACAGAATGCTCGGAGGGTACCGATA-CCCCC
*
33092 AAGAGGGTACCGATACCC-CCCAAGAGGGTACCGATA-CCCCATGTAAGATTTGACTCCGAGAAA
1 AAGAGGGTACCGATACCCTCCCAAGAGGGTACCGATACCCCCATATAAGATTTGACTCCGAGAAA
*
33155 TAACAGATTGCTCGGAGGGTACCGATACCCCC
66 TAACAGAATGCTCGGAGGGTACCGATACCCCC
*
33187 AAG-GAGGTACTGATACCC
1 AAGAG-GGTACCGATACCC
33205 ACATCTCATA
Statistics
Matches: 108, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
94 1 0.01
95 20 0.19
96 52 0.48
97 18 0.17
98 17 0.16
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (97 bp):
AAGAGGGTACCGATACCCTCCCAAGAGGGTACCGATACCCCCATATAAGATTTGACTCCGAGAAA
TAACAGAATGCTCGGAGGGTACCGATACCCCC
Found at i:35508 original size:22 final size:23
Alignment explanation
Indices: 35474--35525 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
35464 GTAAATTTAA
35474 ATAAATAATATTTAGTAAAATAT
1 ATAAATAATATTTAGTAAAATAT
35497 ATAAA-AATATTTAGTAAAATAT
1 ATAAATAATATTTAGTAAAATAT
35519 ATAAATA
1 ATAAATA
35526 TGATAAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
ATAAATAATATTTAGTAAAATAT
Found at i:35515 original size:12 final size:12
Alignment explanation
Indices: 35480--35518 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
35470 TTAAATAAAT
35480 AATATTTAGTAA
1 AATATTTAGTAA
*
35492 AATATATA--AA
1 AATATTTAGTAA
35502 AATATTTAGTAA
1 AATATTTAGTAA
35514 AATAT
1 AATAT
35519 ATAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (12 bp):
AATATTTAGTAA
Found at i:36993 original size:12 final size:12
Alignment explanation
Indices: 36976--37000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36966 TCTTCGGGGA
36976 CTTTTTCTTCTT
1 CTTTTTCTTCTT
36988 CTTTTTCTTCTT
1 CTTTTTCTTCTT
37000 C
1 C
37001 AGGGTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:37209 original size:24 final size:24
Alignment explanation
Indices: 37175--37228 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
37165 CTGAAACAAC
37175 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
37199 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
37223 ATCAAA
1 ATCAAA
37229 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:38251 original size:41 final size:40
Alignment explanation
Indices: 38181--38289 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 40
38171 TAAAATTCGT
* *
38181 GTTGCGAATTCGAAAA-TCGAGTTGCGAATTCAGAAATCGA
1 GTTGCGAATTTGAAAACT-GTGTTGCGAATTCAGAAATCGA
* * *
38221 GTTGCGAATTT-AAAATTTAGTGTTGCGAATTTAGAAATCGC
1 GTTGCGAATTTGAAAA-CT-GTGTTGCGAATTCAGAAATCGA
38262 GTTGCGAATTTGAAAACTGTGTTGCGAA
1 GTTGCGAATTTGAAAACTGTGTTGCGAA
38290 ATTGAAGTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 4 0.07
40 20 0.33
41 32 0.53
42 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (40 bp):
GTTGCGAATTTGAAAACTGTGTTGCGAATTCAGAAATCGA
Found at i:38272 original size:20 final size:20
Alignment explanation
Indices: 38181--38312 Score: 101
Period size: 20 Copynumber: 6.5 Consensus size: 20
38171 TAAAATTCGT
*
38181 GTTGCGAA-TTCGAAAATCGA
1 GTTGCGAATTTAG-AAATCGA
*
38201 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTTAGAAATCGA
* *
38221 GTTGCGAATTTA-AAATTTAGT
1 GTTGCGAATTTAGAAA--TCGA
*
38242 GTTGCGAATTTAGAAATCGC
1 GTTGCGAATTTAGAAATCGA
* *
38262 GTTGCGAATTT-GAAAACTGT
1 GTTGCGAATTTAGAAATC-GA
* * *
38282 GTTGCGAAATT-GAAGTTCGC
1 GTTGCGAATTTAGAA-ATCGA
38302 GTTGCGAATTT
1 GTTGCGAATTT
38313 GTTAGTCATT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
19 8 0.09
20 64 0.70
21 17 0.18
22 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTAGAAATCGA
Found at i:38286 original size:61 final size:60
Alignment explanation
Indices: 38154--38311 Score: 158
Period size: 61 Copynumber: 2.6 Consensus size: 60
38144 TTGCGAAAAT
* * * *
38154 AAAACCTGTTGCAAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAATTCAG
1 AAAACGTGTTGCGAAATTAAAATTAGTGTTGCGAATTAGAAAATCGAGTTGCGAATTCAG
* * * * *
38214 AAATCGAGTTGCGAATTTAAAATTTAGTGTTGCGAATTTAG-AAATCGCGTTGCGAATT-TG
1 AAAACGTGTTGCGAAATTAAAA-TTAGTGTTGCGAA-TTAGAAAATCGAGTTGCGAATTCAG
* * * *
38274 AAAACTGTGTTGCGAAATTGAAGTTCGCGTTGCGAATT
1 AAAAC-GTGTTGCGAAATTAAAATTAGTGTTGCGAATT
38312 TGTTAGTCAT
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
59 2 0.03
60 33 0.42
61 41 0.52
62 3 0.04
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (60 bp):
AAAACGTGTTGCGAAATTAAAATTAGTGTTGCGAATTAGAAAATCGAGTTGCGAATTCAG
Found at i:38302 original size:40 final size:40
Alignment explanation
Indices: 38160--38313 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 40
38150 AAATAAAACC
* * * *
38160 TGTTGCAAAATTA-AAATTCGTGTTGCGAATTCGAAAATCG
1 TGTTGCGAAATTAGAAA-TCGCGTTGCGAATTTGAAAATAG
* *
38200 AGTTGCG-AATTCAGAAATCGAGTTGCGAATTT-AAAATTTAG
1 TGTTGCGAAATT-AGAAATCGCGTTGCGAATTTGAAAA--TAG
*
38241 TGTTGCGAATTTAGAAATCGCGTTGCGAATTTGAAAACT-G
1 TGTTGCGAAATTAGAAATCGCGTTGCGAATTTGAAAA-TAG
*
38281 TGTTGCGAAATT-GAAGTTCGCGTTGCGAATTTG
1 TGTTGCGAAATTAGAA-ATCGCGTTGCGAATTTG
38314 TTAGTCATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
39 11 0.11
40 47 0.49
41 31 0.32
42 7 0.07
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (40 bp):
TGTTGCGAAATTAGAAATCGCGTTGCGAATTTGAAAATAG
Found at i:44271 original size:31 final size:31
Alignment explanation
Indices: 44169--44274 Score: 79
Period size: 31 Copynumber: 3.3 Consensus size: 31
44159 AACGAGCAAT
* **
44169 GAGTCGAGAAACAGGTTTTTTTAACTAGCAC
1 GAGTCGAGCAACAAATTTTTTTAACTAGCAC
* ** * *
44200 AAGTCGAGCAA-AAATTTAACGAGCTTAACGAGCAAT
1 GAGTCGAGCAACAAATTT-----TTTTAACTAGC-AC
44236 GAGTCGAGCAACAAATTTTTTTAACTAGCAC
1 GAGTCGAGCAACAAATTTTTTTAACTAGCAC
44267 GAGTCGAG
1 GAGTCGAG
44275 TACTGTCCAA
Statistics
Matches: 55, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
30 4 0.07
31 18 0.33
32 8 0.15
35 8 0.15
36 11 0.20
37 6 0.11
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
GAGTCGAGCAACAAATTTTTTTAACTAGCAC
Found at i:50417 original size:23 final size:23
Alignment explanation
Indices: 50387--50448 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
50377 TAATAGACTA
*
50387 TTCTTCTTCTTCAACCCCACCCC
1 TTCTTCTTCCTCAACCCCACCCC
*
50410 TTCTTCTTCCTCAACCTCACCCC
1 TTCTTCTTCCTCAACCCCACCCC
* *
50433 ATCTTCTTCCTTAACC
1 TTCTTCTTCCTCAACC
50449 TAACCAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.15, C:0.48, G:0.00, T:0.37
Consensus pattern (23 bp):
TTCTTCTTCCTCAACCCCACCCC
Found at i:55518 original size:45 final size:44
Alignment explanation
Indices: 55449--55607 Score: 230
Period size: 45 Copynumber: 3.6 Consensus size: 44
55439 GGAATATGGT
* * *
55449 TTATGGAATAATGGCAAGTGTATTGGTAAAATAAGCTTACG-GAC
1 TTATGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAG-C
55493 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-AAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
55538 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-AAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
55583 TTATGGGATAATGGTAAGTAGATTG
1 TTATGGAAAAATGGTAAGTATATTG
55608 ATAAGAAATG
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
44 23 0.21
45 83 0.78
46 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (44 bp):
TTATGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:60257 original size:34 final size:35
Alignment explanation
Indices: 60196--60276 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
60186 CCTAAATCCG
*
60196 ACCCGACCCGACCCGAACAGTACA-TTTTAAAAAA
1 ACCCGACCCGACCCGAACAGTAAATTTTTAAAAAA
*
60230 ACCCGACCCGACCCGAACCCG-AAATTTTTTAAAAAA
1 ACCCGACCCGACCCGAA-CAGTAAA-TTTTTAAAAAA
*
60266 ATCCGACCCGA
1 ACCCGACCCGA
60277 TCAGGTCGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
34 19 0.46
35 2 0.05
36 20 0.49
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (35 bp):
ACCCGACCCGACCCGAACAGTAAATTTTTAAAAAA
Found at i:60664 original size:43 final size:42
Alignment explanation
Indices: 60556--60666 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 42
60546 TATCTACAAA
* *
60556 CTTGTTTTAATGGGGTAATCTTTTAACTATCTGTTTCCTAAG
1 CTTGTATTAATGGGATAATCTTTTAACTATCTGTTTCCTAAG
*
60598 CTTGTATTAATGGGATAATCTTTTAACTATCTGTTTCCTACG
1 CTTGTATTAATGGGATAATCTTTTAACTATCTGTTTCCTAAG
*
60640 TTTGTAATTAATGGGATAATCTTTTAA
1 CTTGT-ATTAATGGGATAATCTTTTAA
60667 TTAATTTAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 43 0.67
43 21 0.33
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (42 bp):
CTTGTATTAATGGGATAATCTTTTAACTATCTGTTTCCTAAG
Found at i:63740 original size:28 final size:28
Alignment explanation
Indices: 63700--63756 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
63690 GGGAGTGAAT
* *
63700 TGTCGTAATCTTGTCACAGCATTCTTCC
1 TGTCATAATCTTGTCACAACATTCTTCC
63728 TGTCATAATCTTGTCACAACATTCTTCC
1 TGTCATAATCTTGTCACAACATTCTTCC
63756 T
1 T
63757 TTCTGGCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (28 bp):
TGTCATAATCTTGTCACAACATTCTTCC
Found at i:64634 original size:23 final size:23
Alignment explanation
Indices: 64595--64658 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
64585 TTTGAATTAA
64595 TATTATTTATTTGATATTATTTT
1 TATTATTTATTTGATATTATTTT
*
64618 TATT-TTTATTTTTATATTA-TTT
1 TATTATTTA-TTTGATATTATTTT
* *
64640 TATTATATATATGAT-TTAT
1 TATTATTTATTTGATATTAT
64659 AACATAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 3 0.09
22 15 0.44
23 16 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
TATTATTTATTTGATATTATTTT
Found at i:66363 original size:20 final size:20
Alignment explanation
Indices: 66319--66356 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66309 GGTGGAGTGT
*
66319 TCTAGAATATAATAGAAAAC
1 TCTAGAATACAATAGAAAAC
*
66339 TCTAGAATACGATAGAAA
1 TCTAGAATACAATAGAAA
66357 GATCTAGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (20 bp):
TCTAGAATACAATAGAAAAC
Found at i:69450 original size:138 final size:138
Alignment explanation
Indices: 69202--69458 Score: 401
Period size: 138 Copynumber: 1.9 Consensus size: 138
69192 ACCGAAGTGC
* *
69202 CGAAATAGAACTTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGCCGAAAGTACACA
1 CGAAATAGAACTTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACACA
* * *
69267 TAGTACTGATACGAAAATGCACCGTTATGCATTGAACAAAATCGATCGATAACTTTTATACATAA
66 TAGTACTGATACAAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACATAA
69332 TTATATAT
131 TTATATAT
* *
69340 CGAAATAGTAA-TTCACAAACTCATTATGAATACCATAGTTGCACA-ACTAGTGCTGAAAGTACA
1 CGAAATAG-AACTTCACAAACTCATTATGAATACCATAGATGCACACA-TAGTGCCGAAAGTACA
* *
69403 CATAGTACTGATACAAAAATGCACCATTATGCTTTAAACCAAATCGATCGATAACT
64 CATAGTACTGATACAAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACT
69459 ATTACATAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
137 1 0.01
138 105 0.97
139 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (138 bp):
CGAAATAGAACTTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACACA
TAGTACTGATACAAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACATAA
TTATATAT
Found at i:72154 original size:19 final size:19
Alignment explanation
Indices: 72130--72173 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
72120 TCTTAGTTTG
72130 ATTAAAAGTAGAGAACTTT
1 ATTAAAAGTAGAGAACTTT
*
72149 ATT-AAAGTAGAGTACTTT
1 ATTAAAAGTAGAGAACTTT
72167 ATTAAAA
1 ATTAAAA
72174 TACTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (19 bp):
ATTAAAAGTAGAGAACTTT
Found at i:73700 original size:54 final size:55
Alignment explanation
Indices: 73582--73826 Score: 289
Period size: 54 Copynumber: 4.5 Consensus size: 55
73572 CCAGAATTTA
* ** * *
73582 GATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAG-TCCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCC-C
*
73637 GATTGAAGCACAGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAGCTCCC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCCC
** * * * * *
73691 GGCTGAAGCACAGAGGTGCTCAGTCATTTTTTTAACTGCACAGAGGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATCA--TTTTTAGCTACACAGAGGTGTCAGCTCCC
* * * *
73748 GATT-AAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTTAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCCC
73802 GATTGAAGCACAGAGGTGCTCAATC
1 GATTGAAGCACAGAGGTGCTCAATC
73827 GTTAATTCTA
Statistics
Matches: 163, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
54 70 0.43
55 48 0.29
56 20 0.12
57 25 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (55 bp):
GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCCC
Found at i:73783 original size:111 final size:109
Alignment explanation
Indices: 73585--73823 Score: 345
Period size: 111 Copynumber: 2.2 Consensus size: 109
73575 GAATTTAGAT
**
73585 TGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAG
1 TGAAGCACAGAGGTGCTCAGTCATAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAG
*
73650 AGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTCCCGGC
66 AGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTCCCGAC
** *
73694 TGAAGCACAGAGGTGCTCAGTCATTTTTTTAACTGCACAGAGGTGTCAGTTCTCGATT-AAGCAC
1 TGAAGCACAGAGGTGCTCAGTCA--TAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCAC
* * * * *
73758 AGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTTAGCTCTCGAT
64 AGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAGCTCCCGAC
73805 TGAAGCACAGAGGTGCTCA
1 TGAAGCACAGAGGTGCTCA
73824 ATCGTTAATT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
109 23 0.20
110 21 0.18
111 72 0.62
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (109 bp):
TGAAGCACAGAGGTGCTCAGTCATAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAG
AGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTCCCGAC
Found at i:74077 original size:81 final size:81
Alignment explanation
Indices: 73942--74099 Score: 262
Period size: 81 Copynumber: 2.0 Consensus size: 81
73932 GCGAGTTACA
* *
73942 AAGAATGGTTCGCACACGAAATGTCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGTTA
1 AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
* *
74007 CTGAGCCGGTTGCACC
66 CCGAGCCAGTTGCACC
* *
74023 AAGAATGGTTCGCACACGAAATGGCGGATCGACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
1 AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
74088 CCGAGCCAGTTG
66 CCGAGCCAGTTG
74100 TGCAAGAGAC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.16
Consensus pattern (81 bp):
AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
CCGAGCCAGTTGCACC
Done.