Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008598.1 Hibiscus syriacus cultivar Beakdansim tig00111549_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: 51885
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:1957 original size:14 final size:13
Alignment explanation
Indices: 1932--1976 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
1922 TCATTATATC
1932 TTAAAATAAAATA
1 TTAAAATAAAATA
1945 TTAAAATTAAAATA
1 TTAAAA-TAAAATA
*
1959 TT-TAA-AAAATA
1 TTAAAATAAAATA
1970 TTAAAAT
1 TTAAAAT
1977 GATTACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
13 8 0.30
14 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAAAATAAAATA
Found at i:1963 original size:15 final size:14
Alignment explanation
Indices: 1927--1965 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
1917 TGGGGTCATT
1927 ATATCTTAAAATAAA
1 ATAT-TTAAAATAAA
1942 ATA-TTAAAATTAAA
1 ATATTTAAAA-TAAA
1956 ATATTTAAAA
1 ATATTTAAAA
1966 AATATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 9 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATTTAAAATAAA
Found at i:2420 original size:15 final size:15
Alignment explanation
Indices: 2396--2427 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2386 TATTTACTTT
2396 AATTTAATATATAAA
1 AATTTAATATATAAA
*
2411 AATTTTATATATAAA
1 AATTTAATATATAAA
2426 AA
1 AA
2428 ATCCCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTAATATATAAA
Found at i:2642 original size:24 final size:24
Alignment explanation
Indices: 2593--2643 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2583 ACTTTAATTT
* *
2593 AATATATAATATTATTAATAATTA
1 AATATATAATATTATAAATAAGTA
*
2617 AATATATAATAATTGTAAAT-AGTA
1 AATATATAAT-ATTATAAATAAGTA
2641 AAT
1 AAT
2644 CTAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
AATATATAATATTATAAATAAGTA
Found at i:3116 original size:14 final size:14
Alignment explanation
Indices: 3105--3132 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3095 TATGATGACT
3105 GAGATGTGATGATC
1 GAGATGTGATGATC
3119 GAGATGTGATGATC
1 GAGATGTGATGATC
3133 TTTAAGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
GAGATGTGATGATC
Found at i:11410 original size:24 final size:24
Alignment explanation
Indices: 11383--11431 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11373 CACCATTCTG
11383 TACATTGCCTCAGTCAAATGAATC
1 TACATTGCCTCAGTCAAATGAATC
11407 TACATTGCCTCAGTCAAATGAATC
1 TACATTGCCTCAGTCAAATGAATC
11431 T
1 T
11432 TAAGCGGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (24 bp):
TACATTGCCTCAGTCAAATGAATC
Found at i:16876 original size:21 final size:19
Alignment explanation
Indices: 16848--16893 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
16838 TCATTGAATC
16848 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
16868 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
16887 ACTTAGT
1 A-TTAGT
16894 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:29654 original size:3 final size:3
Alignment explanation
Indices: 29646--29715 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
29636 GCCTGCAAAA
* *
29646 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT AAAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT -AAT
29693 AAAT AAT -AT AAT -AT AAT AA- AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT A
29716 TTTTTGTAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
2 6 0.10
3 42 0.72
4 10 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:30133 original size:37 final size:36
Alignment explanation
Indices: 30083--30575 Score: 398
Period size: 36 Copynumber: 14.1 Consensus size: 36
30073 TTTTTTTTTG
* *
30083 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
30120 TGTTTCAAGAGAAACATAT-TC-A-A-AG-----ATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
30148 GGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 --TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
30187 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
30223 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
30260 AGTTCCGAA-AGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
30296 TGTTTCAAGAAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
30325 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
30361 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
30397 TGTTTCAAGAGAAACTATCTC-AGTGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAG-AGAGACAAAATT
* *
30433 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
30462 TGTTTCAA-AGGAAACTGTCTCGAGAGAGAGAAAAAT
1 TGTTTCAAGA-GAAACTGTCTCAAGAGAGACAAAATT
* * * * *
30498 TGTTTCAAGGGAAACTGTCTCTAGACAAATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
30534 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
30571 TGTTT
1 TGTTT
30576 TGAGTAAATT
Statistics
Matches: 372, Mismatches: 42, Indels: 84
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.00
28 6 0.02
29 35 0.09
30 21 0.06
31 3 0.01
32 5 0.01
33 6 0.02
34 2 0.01
35 7 0.02
36 188 0.51
37 91 0.24
38 5 0.01
39 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:30361 original size:138 final size:137
Alignment explanation
Indices: 30185--30575 Score: 563
Period size: 137 Copynumber: 2.8 Consensus size: 137
30175 GAGACAAAAC
* *
30185 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
* *
30250 GACAAAACTTAGTTCCGAA-AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAA-GAAAAACAT
66 GACAAAA-TTTGTTTC-AAGAGAAACTGTCTCAAGGGAGACGAAATTTGTTT-AATGAAAAACAT
30313 ATTCAAAGAT
128 ATTCAAAGAT
30323 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
* *
30388 GACAAAATTTGTTTCAAGAGAAACTATCTC-AGTGGAGACGAAATTTGTTTAATGTAAAACATAT
66 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAG-GGAGACGAAATTTGTTTAATGAAAAACATAT
30452 TCAAAGAT
130 TCAAAGAT
* * * * * *
30460 TTTGTTTCAAAGGAAACTGTCTCGAGAGAGAGAAAAATTGTTTCAAGGGAAACTGTCTCTAGACA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
* * * * *
30525 AATAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTT
66 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA-TTTGTTT
30576 TGAGTAAATT
Statistics
Matches: 230, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
136 6 0.03
137 145 0.63
138 79 0.34
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (137 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAATTTGTTTAATGAAAAACATATT
CAAAGAT
Found at i:30406 original size:21 final size:21
Alignment explanation
Indices: 30344--30408 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
30334 GGAAACTGTC
30344 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
30365 TCAAG-G-G---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
30380 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
30401 TCAAGAGA
1 TCAAGAGA
30409 AACTATCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:32596 original size:27 final size:26
Alignment explanation
Indices: 32561--32641 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 26
32551 ATGTGTATTG
*
32561 TTTTCTTTTTTCTTTATTTTTCCTTT
1 TTTTTTTTTTTCTTTATTTTTCCTTT
*
32587 TTTTTGTTTTTT-TATTA-TTTT-ATTT
1 TTTTT-TTTTTTCT-TTATTTTTCCTTT
* *
32612 TTTATTTTTTTCTTTGTTTTTCTCTTT
1 TTTTTTTTTTTCTTTATTTTTC-CTTT
32639 TTT
1 TTT
32642 CTTCTTCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
24 8 0.18
25 12 0.27
26 9 0.20
27 15 0.34
ACGTcount: A:0.06, C:0.09, G:0.02, T:0.83
Consensus pattern (26 bp):
TTTTTTTTTTTCTTTATTTTTCCTTT
Found at i:32631 original size:9 final size:9
Alignment explanation
Indices: 32566--32644 Score: 59
Period size: 10 Copynumber: 8.0 Consensus size: 9
32556 TATTGTTTTC
32566 TTTTTTCTT
1 TTTTTTCTT
32575 TATTTTTCCTT
1 T-TTTTT-CTT
*
32586 TTTTTTGTTT
1 TTTTTT-CTT
*
32596 TTTTATTATT
1 TTTT-TTCTT
*
32606 TTATTTTTTAT
1 TT-TTTTCT-T
32617 TTTTTTCTT
1 TTTTTTCTT
*
32626 TGTTTTTCTC
1 T-TTTTTCTT
32636 TTTTTTCTT
1 TTTTTTCTT
32645 CTTCTCTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
9 10 0.18
10 36 0.63
11 11 0.19
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:32660 original size:14 final size:15
Alignment explanation
Indices: 32624--32661 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
32614 TATTTTTTTC
*
32624 TTTGTTTTTCTCTTT
1 TTTGTTCTTCTCTTT
*
32639 TTTCTTCTTCTC-TT
1 TTTGTTCTTCTCTTT
32653 TTTGTTCTT
1 TTTGTTCTT
32662 GATTTGATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTGTTCTTCTCTTT
Found at i:34681 original size:16 final size:17
Alignment explanation
Indices: 34660--34699 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
34650 ATGATGATGC
34660 AAAAGATGAA-AAAAAT-
1 AAAAGA-GAATAAAAATG
34676 AAAAGAGAATAAAAATG
1 AAAAGAGAATAAAAATG
34693 AAAAGAG
1 AAAAGAG
34700 TTAGTGAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 12 0.55
17 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (17 bp):
AAAAGAGAATAAAAATG
Found at i:36820 original size:3 final size:3
Alignment explanation
Indices: 36814--36858 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
36804 AAAAATTAAT
36814 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAAA TAA TAA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
36857 TA
1 TA
36859 TTTTTGTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.16
3 29 0.76
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:41097 original size:20 final size:20
Alignment explanation
Indices: 41023--41391 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
41013 GATTTTCCAT
* ** *
41023 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
41043 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
41063 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41083 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* **
41103 AATCGTAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
41123 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41143 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41163 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
41183 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41203 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41223 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41243 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41263 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
41283 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41303 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
41323 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
41343 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
41363 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
41383 AATCACAAC
1 AATCGCAAC
41392 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:42109 original size:24 final size:24
Alignment explanation
Indices: 42070--42116 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42060 AAATTTGGTC
42070 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
42094 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
42117 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:42308 original size:12 final size:12
Alignment explanation
Indices: 42291--42315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42281 ATATAATCCT
42291 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42303 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42315 G
1 G
42316 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:44613 original size:19 final size:19
Alignment explanation
Indices: 44591--44909 Score: 351
Period size: 19 Copynumber: 18.4 Consensus size: 19
44581 CGGAAAATAC
*
44591 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
44610 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
44624 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
*
44643 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
44657 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44676 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
44695 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
44709 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44728 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44747 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
44766 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
44780 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
44799 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
44817 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
44831 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44850 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
44864 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44883 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44902 AATCGCAA
1 AATCGCAA
44910 CGAGATAATC
Statistics
Matches: 258, Mismatches: 10, Indels: 64
0.78 0.03 0.19
Matches are distributed among these distances:
13 1 0.00
14 55 0.21
15 2 0.01
16 27 0.10
17 15 0.06
18 11 0.04
19 144 0.56
20 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:44646 original size:33 final size:32
Alignment explanation
Indices: 44591--44890 Score: 197
Period size: 33 Copynumber: 8.8 Consensus size: 32
44581 CGGAAAATAC
* *
44591 AATCGCAACGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATG-AAATCGCAACATGAA
*
44624 AATCGCAATGCGGAAATGAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAATCGCAAC-ATGAA
44657 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCGCAA--C---ATGAA
* * *
44695 AATCGCAACGAGAGAATCGCAAT-GCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAATCGC-AACATGAA
44728 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCGCAA--C---ATGAA
* * *
44766 AATCGCAACGAC-AGAATCGCAAT-GCGAA-ATTAA
1 AATCGCAATG-CGA-AAT-GAAATCGC-AACATGAA
44799 AATCGCAATGCGAAATGAAATCGCAAC--GAAA
1 AATCGCAATGCGAAATGAAATCGCAACATG-AA
44830 GAATCGCAATGCGAAATGAAAATCGCAAC--GAAA
1 -AATCGCAATGCGAAATG-AAATCGCAACATG-AA
44863 GAATCGCAATGCGAAATGAAAATCGCAA
1 -AATCGCAATGCGAAATG-AAATCGCAA
44891 TGCGAAATGA
Statistics
Matches: 221, Mismatches: 17, Indels: 58
0.75 0.06 0.20
Matches are distributed among these distances:
31 9 0.04
32 37 0.17
33 115 0.52
34 7 0.03
35 1 0.00
37 1 0.00
38 32 0.14
39 17 0.08
40 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAATCGCAACATGAA
Found at i:44920 original size:33 final size:34
Alignment explanation
Indices: 44673--44931 Score: 238
Period size: 33 Copynumber: 7.6 Consensus size: 34
44663 AATGCGAAAT
44673 GAAAATCGCAATGCGAAATGAAAATCGCAA-CGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
*
44706 GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 GAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A
44743 TGAAAATCGCAATGCGAAATGAAAATCGCAA-CGA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
* * *
44777 CAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAA-GCGA
*
44812 AATGAAATCGCAA--CGAAA-G--AATCGCAATGCGAAA
1 GA--AAATCGCAATGCGAAATGAAAATCGCAA-GCG--A
44846 TGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A
44879 TGAAAATCGCAATGCGAAATGAAAATCGCAA-CGA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
*
44913 GATAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
44932 TATAAACGCA
Statistics
Matches: 199, Mismatches: 10, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
32 12 0.06
33 116 0.58
34 3 0.02
35 17 0.09
36 5 0.03
37 9 0.05
38 37 0.19
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
Found at i:44947 original size:52 final size:52
Alignment explanation
Indices: 44619--44931 Score: 410
Period size: 52 Copynumber: 6.0 Consensus size: 52
44609 AAATCCCAAC
44619 ATGAAAATCGCAATGCGGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
44671 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* * * *
44723 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAA
* * *
44773 ACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAATCGCAA--CGAA
1 ATGA-A-AATCGCAATGCGAAATGAAAATCGCAA--CGAGA-G-AATCGCAATGCGAA
*
44829 A-G--AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
44878 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
44930 AT
1 AT
44932 TATAAACGCA
Statistics
Matches: 232, Mismatches: 14, Indels: 30
0.84 0.05 0.11
Matches are distributed among these distances:
47 8 0.03
48 1 0.00
49 10 0.04
50 8 0.03
51 39 0.17
52 153 0.66
54 2 0.01
55 1 0.00
56 4 0.02
57 5 0.02
58 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:45047 original size:19 final size:19
Alignment explanation
Indices: 44938--45039 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
44928 AAATTATAAA
44938 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
44957 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
44977 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
44993 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
45010 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
45029 CGCATTGCGAT
1 CGCATTGCGAT
45040 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:45173 original size:13 final size:14
Alignment explanation
Indices: 45146--45181 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
45136 CATCAATTAC
45146 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
45160 ACAAATCATC-TTT
1 ACAAATCAACTTTT
45173 ACAAATCAA
1 ACAAATCAA
45182 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:47164 original size:19 final size:19
Alignment explanation
Indices: 47093--47226 Score: 101
Period size: 19 Copynumber: 7.6 Consensus size: 19
47083 TAGTTTACTT
* *
47093 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TCAAAA
*
47113 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
*
47132 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
47151 TCGCAA--CG--A-C-AAA
1 TCGCAACGCGAAATCAAAA
* *
47164 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
47183 TCGCAA--C-AAA--AGAA
1 TCGCAACGCGAAATCAAAA
*
47197 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
47216 TCGCAATGCGA
1 TCGCAACGCGA
47227 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
13 9 0.10
14 9 0.10
15 3 0.03
16 4 0.04
17 7 0.08
19 49 0.53
20 12 0.13
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:47175 original size:32 final size:32
Alignment explanation
Indices: 47128--47221 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 32
47118 ACGCGAAACC
*
47128 AAAATCGCAACGCGAAATGAAAATCGCAACGA
1 AAAATCGCAACGCGAAATGAAAATCGCAACAA
* *
47160 CAAATCGCAATGCGAAATGAAAATCGCAACAA
1 AAAATCGCAACGCGAAATGAAAATCGCAACAA
47192 AAGAATCGCAACGCGAAATGAAAATCGCAA
1 AA-AATCGCAACGCGAAATGAAAATCGCAA
47222 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 30 0.54
33 26 0.46
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (32 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACAA
Found at i:47244 original size:19 final size:19
Alignment explanation
Indices: 47222--47350 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
47212 AAAATCGCAA
47222 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47241 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
47255 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47274 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
** *
47288 TGCGATTTTCATTTCACGT
1 TGCGATTTTGGTTTCGCGT
47307 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
47326 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
47346 TGCGA
1 TGCGA
47351 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:47264 original size:33 final size:33
Alignment explanation
Indices: 47222--47313 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
47212 AAAATCGCAA
47222 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
47255 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
47288 TGCGATTTTCATTTCACGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
47314 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:47531 original size:93 final size:92
Alignment explanation
Indices: 47381--47836 Score: 822
Period size: 93 Copynumber: 5.0 Consensus size: 92
47371 GCAAATTGAA
47381 ACTTTCAACC-AAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
1 ACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
47445 CAGAATTGGCAGCAACCGAACAAATTT
66 CAGAATTGGCAGCAACCGAACAAATTT
47472 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTTTA
47537 GCAGAATTGGCAGCAACCGAACAAATTT
65 GCAGAATTGGCAGCAACCGAACAAATTT
47565 ACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACAC-GTTTAG
1 ACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
47629 CAGAATTGGCAGCAACCGAACAAATTT
66 CAGAATTGGCAGCAACCGAACAAATTT
47656 ACTTTCAACCAAAAGACAAAACAAAGACAATA-TATTTCACAGTGTT-AAGAATACACAGTTTAG
1 ACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
47719 CAGAATTGGCAGCAA-CGAACAAATTT
66 CAGAATTGGCAGCAACCGAACAAATTT
47745 ACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACA--GTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
47807 GCAGAATTGGCAGCAA-CGAATAAATTT
65 GCAGAATTGGCAGCAACCGAACAAATTT
47834 ACT
1 ACT
47837 AAGCAATCTA
Statistics
Matches: 358, Mismatches: 1, Indels: 14
0.96 0.00 0.04
Matches are distributed among these distances:
88 20 0.06
89 80 0.22
90 44 0.12
91 75 0.21
92 47 0.13
93 92 0.26
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (92 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
CAGAATTGGCAGCAACCGAACAAATTT
Found at i:49591 original size:33 final size:33
Alignment explanation
Indices: 49515--49613 Score: 148
Period size: 33 Copynumber: 3.1 Consensus size: 33
49505 TCTTTTGGTT
49515 GAAATG-AAATCGCAACGAGAGAATCGC-ACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
49546 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
49579 GAAATGAAAATCGCAACGAGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
49612 GA
1 GA
49614 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 5 0.08
32 20 0.33
33 35 0.58
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:49603 original size:14 final size:14
Alignment explanation
Indices: 49521--49608 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
49511 GGTTGAAATG
49521 AAATCGCAACGAGA
1 AAATCGCAACGAGA
* *
49535 GAATCGCACGCGAGA
1 AAATCGCA-ACGAGA
49550 TGACAATCGCAACGAGA
1 --A-AATCGCAACGAGA
*
49567 GAATCGCAACGCGAAATGA
1 AAATCGCAA--CG--A-GA
49586 AAATCGCAACGAGA
1 AAATCGCAACGAGA
49600 AAATCGCAA
1 AAATCGCAA
49609 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
14 26 0.44
15 6 0.10
16 2 0.03
17 7 0.12
18 8 0.14
19 10 0.17
ACGTcount: A:0.44, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AAATCGCAACGAGA
Found at i:49644 original size:14 final size:14
Alignment explanation
Indices: 49625--49679 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
49615 TTTGGTTTCG
49625 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
49639 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
49658 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
49672 CGTTGCGA
1 CGTTGCGA
49680 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:49657 original size:33 final size:33
Alignment explanation
Indices: 49609--49679 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
49599 AAAATCGCAA
**
49609 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
49642 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
49675 TGCGA
1 TGCGA
49680 CAGTCATTCT
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:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:49687 original size:33 final size:33
Alignment explanation
Indices: 49620--49701 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
49610 GCGATTTTGG
***
49620 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
49653 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
49686 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
49702 TTCATTATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:49690 original size:20 final size:20
Alignment explanation
Indices: 49665--49720 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
49655 TCGCGTTGCG
49665 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGACAGTC
***
49685 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
49705 ATTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGAC
49721 TCTTCTGCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:49841 original size:33 final size:33
Alignment explanation
Indices: 49799--49869 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
49789 AATACTAACT
*
49799 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
49832 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
49865 TGAAA
1 TGAAA
49870 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:50271 original size:20 final size:20
Alignment explanation
Indices: 50246--50438 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
50236 CTTTAAATAT
50246 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
50266 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
50288 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
50307 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
50327 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
50347 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
50367 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
50387 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
50407 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
50427 CGCGTTGCGATT
1 CGCGTTGCGATT
50439 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:50433 original size:60 final size:60
Alignment explanation
Indices: 50246--50438 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
50236 CTTTAAATAT
**
50246 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
50307 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
50367 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
50427 CGCGTTGCGATT
1 CGCGTTGCGATT
50439 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:50519 original size:20 final size:20
Alignment explanation
Indices: 50494--50545 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
50484 AAGAATCGCG
*
50494 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
50514 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
50534 TTGCGATTCTGG
1 TTGCGATTCTGG
50546 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Done.