Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002630.1 Hibiscus syriacus cultivar Beakdansim tig00005359_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: 78170
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:1042 original size:3 final size:3
Alignment explanation
Indices: 1018--1068 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
1008 CTACAAAAGC
* * *
1018 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1064 AAT AA
1 AAT AA
1069 CGGGATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1564 original size:73 final size:73
Alignment explanation
Indices: 1343--1575 Score: 317
Period size: 72 Copynumber: 3.2 Consensus size: 73
1333 GTAGTAGTTT
* * * *
1343 ATGTAATAGGTAGCGCTTATTTTTTTTTACCGTTTACATTATTAGCAACCTTAAAAAAAAACTAG
1 ATGTAATAGGTAGCGCCTA-TTTTTTTTACCGTTTACATTATTAACAACCTT-AAAAAAACCGA-
1408 TAGATATTTTA
63 TAGATATTTTA
* * * * * *
1419 ATGTAATAGGTATC-ACTATTTTTTTTATCGTTTACATTATTATCAACCTT-AAAAAACCGGTAA
1 ATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAACCGATAG
1482 ATATTTTA
66 ATATTTTA
*
1490 ATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACAGTATTAACAACCTTAAAAAAACCGATAG
1 ATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAACCGATAG
*
1555 GTATTTTA
66 ATATTTTA
1563 ATGTAATAGGTAG
1 ATGTAATAGGTAG
1576 TTTAAATTTT
Statistics
Matches: 138, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
71 23 0.17
72 39 0.28
73 31 0.22
74 30 0.22
75 2 0.01
76 13 0.09
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (73 bp):
ATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAACCGATAG
ATATTTTA
Found at i:1839 original size:23 final size:23
Alignment explanation
Indices: 1788--1839 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
1778 CAACCAATTT
* * *
1788 TATTATATAAGCGCTACCTATTA
1 TATTATATAAACGATACCTAATA
**
1811 CGTTATATAAACGATACCTAATA
1 TATTATATAAACGATACCTAATA
1834 TATTAT
1 TATTAT
1840 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (23 bp):
TATTATATAAACGATACCTAATA
Found at i:1932 original size:158 final size:158
Alignment explanation
Indices: 1644--1935 Score: 431
Period size: 158 Copynumber: 1.8 Consensus size: 158
1634 AGTAAGTAAT
** * * * * * *
1644 TACCTATTTTGTTACATAAGCGCTACTTAATATGTTATTATGCTTAATAATGTTTCCATTAATTA
1 TACCTATTACGTTACATAAACGATACCTAATATATTATTATACTTAATAATGTTTCCAGTAATTA
* * *
1709 ACTGGTTATGTTATCTTTGGTAACATTTTAAGTGTTTACATAATATGTTGTAATAACAAATTAAA
66 ACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACATAATATGTTGTAATAACAAATTAAA
1774 TAATCAACCAATTTTATTATATAAGCGC
131 TAATCAACCAATTTTATTATATAAGCGC
* * * *
1802 TACCTATTACGTTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCTAGTAATTA
1 TACCTATTACGTTACATAAACGATACCTAATATATTATTATACTTAATAATGTTTCCAGTAATTA
* *
1867 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAA
66 ACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACATAATATGTTGTAATAACAAATTAAA
1932 TAAT
131 TAAT
1936 TAATTACATT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 117 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (158 bp):
TACCTATTACGTTACATAAACGATACCTAATATATTATTATACTTAATAATGTTTCCAGTAATTA
ACCGGTTATGTTATCCTTGGTAACATTTTAAGCGTTTACATAATATGTTGTAATAACAAATTAAA
TAATCAACCAATTTTATTATATAAGCGC
Found at i:2041 original size:131 final size:131
Alignment explanation
Indices: 1807--2069 Score: 409
Period size: 131 Copynumber: 2.0 Consensus size: 131
1797 AGCGCTACCT
* * *
1807 ATTACGTTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCTAGTAATTAACCGG
1 ATTACATTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCCAATAATTAACCGG
* * *
1872 TTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATT
66 TTATGTTATCCTTAGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAATAATT
1937 A
131 A
* * * *
1938 ATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAATAATTAACCGG
1 ATTACATTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCCAATAATTAACCGG
* * *
2003 TTATGTTATTCTTATTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAGTAATT
66 TTATGTTATCCTTAGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAATAATT
2068 A
131 A
2069 A
1 A
2070 CCTATTTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 119 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (131 bp):
ATTACATTATATAAACGATACCTAATATATTATTGTACTTGATAATGTTTCCAATAATTAACCGG
TTATGTTATCCTTAGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAAAAAATTAAATAATT
A
Found at i:2128 original size:23 final size:23
Alignment explanation
Indices: 2078--2121 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2068 AACCTATTTT
*
2078 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATAATAC
*
2101 ATTATATAAGCGCTACCTAAT
1 ATTATATAAGCGCTACATAAT
2122 CAGTTATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (23 bp):
ATTATATAAGCGCTACATAATAC
Found at i:4611 original size:13 final size:13
Alignment explanation
Indices: 4595--4623 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4585 AAACAATTTC
4595 AAAAATCAATTAT
1 AAAAATCAATTAT
4608 AAAAATCAATTAT
1 AAAAATCAATTAT
4621 AAA
1 AAA
4624 CGAATGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATCAATTAT
Found at i:5262 original size:2 final size:2
Alignment explanation
Indices: 5249--5285 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5239 TTAAGAATAA
*
5249 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5286 ACTGTTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5368 original size:18 final size:17
Alignment explanation
Indices: 5341--5375 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
5331 GCACGCTCCT
5341 TCTCTCTTTCAACTTTA
1 TCTCTCTTTCAACTTTA
5358 TCTCTTCTTTCAACTTTA
1 TCTC-TCTTTCAACTTTA
5376 ACGAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (17 bp):
TCTCTCTTTCAACTTTA
Found at i:10848 original size:29 final size:29
Alignment explanation
Indices: 10777--10864 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
10767 TTAAAAAAAA
* *
10777 TTCGGGATCGGGTCGGGTTTTTTTTAAGT
1 TTCGGGATCGGGTCGGTTTTTTTTTAAAT
** *
10806 TT-GATATTCAGGTCGGTTTTTTTTTAAAT
1 TTCGGGA-TCGGGTCGGTTTTTTTTTAAAT
10835 TTCGGGATCGGGTCGGATTTTCTTTTTAAA
1 TTCGGGATCGGGTCGG-TTTT-TTTTTAAA
10865 AAAATTCGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 2 0.04
29 31 0.66
30 6 0.13
31 8 0.17
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.48
Consensus pattern (29 bp):
TTCGGGATCGGGTCGGTTTTTTTTTAAAT
Found at i:13376 original size:2 final size:2
Alignment explanation
Indices: 13369--13393 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13359 GATTATATCA
13369 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13394 GATGTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17580 original size:17 final size:16
Alignment explanation
Indices: 17554--17587 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
17544 AATATTATTT
*
17554 TTATTGTTATAATTATA
1 TTATTATTATAA-TATA
17571 TTATTATTATAATATA
1 TTATTATTATAATATA
17587 T
1 T
17588 GATATTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTATTATTATAATATA
Found at i:17594 original size:26 final size:26
Alignment explanation
Indices: 17561--17628 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 26
17551 TTTTTATTGT
*
17561 TATA-ATTATATTATTATTATAAT-A
1 TATATATTAAATTATTATTATAATAA
* *
17585 TATGATATTACACTT-TTATTTTAATAA
1 TAT-ATATTA-AATTATTATTATAATAA
*
17612 TATATAATAAATTATTA
1 TATATATTAAATTATTA
17629 ATAAGTCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 21 0.62
27 6 0.18
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (26 bp):
TATATATTAAATTATTATTATAATAA
Found at i:17745 original size:20 final size:22
Alignment explanation
Indices: 17719--17770 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
17709 ATAATATAAA
*
17719 ATTTTAATTTAATATTA-TATT
1 ATTTTAATTTAATAATATTATT
17740 -TTTTAATATTTAATAATATTATT
1 ATTTT-A-ATTTAATAATATTATT
17763 ATTTTAAT
1 ATTTTAAT
17771 AAATAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 12 0.46
23 5 0.19
24 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTAATTTAATAATATTATT
Found at i:17753 original size:22 final size:24
Alignment explanation
Indices: 17725--17771 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
17715 TAAAATTTTA
*
17725 ATTTAATATTA-TATT-TTTTAAT
1 ATTTAATAATATTATTATTTTAAT
17747 ATTTAATAATATTATTATTTTAAT
1 ATTTAATAATATTATTATTTTAAT
17771 A
1 A
17772 AATAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 4 0.18
24 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTAATAATATTATTATTTTAAT
Found at i:17775 original size:28 final size:25
Alignment explanation
Indices: 17728--17782 Score: 65
Period size: 28 Copynumber: 2.1 Consensus size: 25
17718 AATTTTAATT
* *
17728 TAATATTATATTTTTTAATATTTAA
1 TAATATTATATTTTTAAATAATTAA
17753 TAATATTATTATTTTAATAAATAATTAA
1 TAATATTA-TATTTT--TAAATAATTAA
17781 TA
1 TA
17783 TAATCAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 6 0.24
28 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATTATATTTTTAAATAATTAA
Found at i:17781 original size:25 final size:26
Alignment explanation
Indices: 17727--17783 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
17717 AAATTTTAAT
* **
17727 TTAATATTATATTTTTTAATATTTAA
1 TTAATATTATATATTTTAATAAATAA
17753 -TAATATTAT-TATTTTAATAAATAA
1 TTAATATTATATATTTTAATAAATAA
17777 TTAATAT
1 TTAATAT
17784 AATCAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAATATTATATATTTTAATAAATAA
Found at i:17835 original size:23 final size:22
Alignment explanation
Indices: 17763--17837 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
17753 TAATATTATT
17763 ATTTTAATAAATAATTAATATA
1 ATTTTAATAAATAATTAATATA
* * * *
17785 A--TCAAT-AATATATTATTCTC
1 ATTTTAATAAATA-ATTAATATA
17805 ATTTTAATAAATAATTAATATA
1 ATTTTAATAAATAATTAATATA
17827 ATTTATAATAA
1 ATTT-TAATAA
17838 TTTTATTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
19 4 0.10
20 11 0.28
22 15 0.38
23 10 0.25
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTTAATAAATAATTAATATA
Found at i:17838 original size:19 final size:19
Alignment explanation
Indices: 17772--17839 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
17762 TATTTTAATA
**
17772 AATAATTAATATAATCAAT
1 AATAATTAATATAATTTAT
* * *
17791 AATATATTATTCTCATTTTAAT
1 AATA-ATTAATAT-AATTT-AT
17813 AAATAATTAATATAATTTAT
1 -AATAATTAATATAATTTAT
17833 AATAATT
1 AATAATT
17840 TTATTTTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 11 0.30
20 8 0.22
21 6 0.16
22 8 0.22
23 4 0.11
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTAATATAATTTAT
Found at i:17851 original size:33 final size:36
Alignment explanation
Indices: 17772--17887 Score: 91
Period size: 33 Copynumber: 3.2 Consensus size: 36
17762 TATTTTAATA
* * *
17772 AATAATTAATATAATCAATAATATATTATTCTCATTTTAAT
1 AATAATTAATATAAT-AATAGTA-ATAATT-TTA-TTT-AT
*
17813 AAATAATTAATATAAT-TTA-TAATAATTTTATTT-T
1 -AATAATTAATATAATAATAGTAATAATTTTATTTAT
*
17847 AATAA--AATATAATAATAGTAATATTTTTATTTAT
1 AATAATTAATATAATAATAGTAATAATTTTATTTAT
17881 AA-AATTA
1 AATAATTA
17888 TAGATATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
31 8 0.12
32 2 0.03
33 20 0.31
34 4 0.06
35 1 0.02
36 3 0.05
37 2 0.03
38 5 0.08
39 2 0.03
40 2 0.03
42 15 0.23
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
AATAATTAATATAATAATAGTAATAATTTTATTTAT
Found at i:17873 original size:32 final size:29
Alignment explanation
Indices: 17830--17902 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
17820 TAATATAATT
*
17830 TATAATAATTTTATTTTAATAAAATATAATA-A
1 TATAATATTTTTA-TTT-ATAAAAT-T-ATAGA
17862 TAGTAATATTTTTATTTATAAAATTATAGA
1 TA-TAATATTTTTATTTATAAAATTATAGA
17892 TATAATATTTT
1 TATAATATTTT
17903 GATAATGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 12 0.32
30 4 0.11
31 7 0.18
32 5 0.13
33 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TATAATATTTTTATTTATAAAATTATAGA
Found at i:19561 original size:77 final size:76
Alignment explanation
Indices: 19433--19588 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 76
19423 GTGACGGTAT
* *
19433 TTATTATAAAAACTTTCAATCATTTAACAAAAAACGTTCAAATACAGGCAGGTCTGTGTTTTAGA
1 TTATTATAAAAACTTTCAATCATTTAACAAAAAACGTTCAAATACACGCAGGACTGTGTTTTAGA
19498 TTTTCTATACG
66 TTTTCTATACG
19509 TTATTATAAAAAACTTTCAATCATTTAACAAAAAACGTTCAAATACACGCAGGACTGTGTTTTAG
1 TTATTAT-AAAAACTTTCAATCATTTAACAAAAAACGTTCAAATACACGCAGGACTGTGTTTTAG
19574 ATTTTCTATACG
65 ATTTTCTATACG
19586 TTA
1 TTA
19589 AAGTTAAGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 7 0.09
77 70 0.91
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (76 bp):
TTATTATAAAAACTTTCAATCATTTAACAAAAAACGTTCAAATACACGCAGGACTGTGTTTTAGA
TTTTCTATACG
Found at i:22329 original size:23 final size:22
Alignment explanation
Indices: 22297--22348 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
22287 TTTTTTCAGA
* *
22297 TTGCTTCAGGGGTATCGATACCC
1 TTGCTACA-GGGTACCGATACCC
22320 TTGCTACA-GGTACCGATACCC
1 TTGCTACAGGGTACCGATACCC
22341 -TGCTACAG
1 TTGCTACAG
22349 TAACTTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 7 0.27
21 12 0.46
23 7 0.27
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (22 bp):
TTGCTACAGGGTACCGATACCC
Found at i:22346 original size:20 final size:21
Alignment explanation
Indices: 22307--22348 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22297 TTGCTTCAGG
*
22307 GGTATCGATACCCTTGCTACA
1 GGTACCGATACCCTTGCTACA
22328 GGTACCGATACCC-TGCTACA
1 GGTACCGATACCCTTGCTACA
22348 G
1 G
22349 TAACTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (21 bp):
GGTACCGATACCCTTGCTACA
Found at i:23733 original size:58 final size:58
Alignment explanation
Indices: 23659--23774 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
23649 AACTTAAACT
*
23659 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGTTATCGATACCTCCCCTAGGG
1 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACCTCCCCTAGGG
*
23717 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACTTCCCCTAGGG
1 AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACCTCCCCTAGGG
23775 TATCAGTACC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (58 bp):
AATTTAATGAACCAATCTTCAACTTTTCCTTTAGGGGGTATCGATACCTCCCCTAGGG
Found at i:24144 original size:13 final size:12
Alignment explanation
Indices: 24132--24174 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
24122 AACTCTATTC
24132 CAAGATTTCATT
1 CAAGATTTCATT
**
24144 CAAGAACTCAATT
1 CAAGATTTC-ATT
24157 CCAAGATTTCATT
1 -CAAGATTTCATT
24170 CAAGA
1 CAAGA
24175 ACTCAAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 12 0.48
13 6 0.24
14 7 0.28
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (12 bp):
CAAGATTTCATT
Found at i:24151 original size:26 final size:26
Alignment explanation
Indices: 24121--24180 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
24111 TTCTAATTAT
*
24121 GAACTCTATTCCAAGATTTCATTCAA
1 GAACTCAATTCCAAGATTTCATTCAA
24147 GAACTCAATTCCAAGATTTCATTCAA
1 GAACTCAATTCCAAGATTTCATTCAA
24173 GAACTCAA
1 GAACTCAA
24181 AATCTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (26 bp):
GAACTCAATTCCAAGATTTCATTCAA
Found at i:25244 original size:22 final size:22
Alignment explanation
Indices: 25219--25261 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25209 ATACATCAAA
25219 ATAT-TAATAAAACAAATAATAT
1 ATATATAAT-AAACAAATAATAT
*
25241 ATATATAATAAATAAATAATA
1 ATATATAATAAACAAATAATA
25262 AATAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATATAATAAACAAATAATAT
Found at i:25248 original size:11 final size:11
Alignment explanation
Indices: 25232--25267 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
25222 TTAATAAAAC
*
25232 AAATAATATAT
1 AAATAATAAAT
*
25243 ATATAATAAAT
1 AAATAATAAAT
25254 AAATAATAAAT
1 AAATAATAAAT
25265 AAA
1 AAA
25268 AAACTACCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:25253 original size:18 final size:18
Alignment explanation
Indices: 25200--25267 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
25190 AAAATAAAAA
*
25200 AATATATATATACATCAA-
1 AATATATATATA-ATAAAT
* *
25218 AATAT-TAATAAAACAAAT
1 AATATAT-ATATAATAAAT
25236 AATATATATATAATAAAT
1 AATATATATATAATAAAT
25254 AA-ATA-ATA-AATAAA
1 AATATATATATAATAAA
25268 AAACTACCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.14
16 3 0.07
17 7 0.17
18 25 0.60
19 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
AATATATATATAATAAAT
Found at i:25261 original size:34 final size:33
Alignment explanation
Indices: 25181--25268 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 33
25171 TTAATATTTG
*
25181 AAAAATAAAAAAATAAAAAAATATATATATACAT
1 AAAAAT-AAATAATAAAAAAATATATATATACAT
* * *
25215 CAAAAT-ATTAATAAAACAAATA-ATATATATAT
1 AAAAATAAATAATAAAA-AAATATATATATACAT
25247 AATAAATAAATAATAAATAAAA
1 AA-AAATAAATAATAAA-AAAA
25269 AACTACCCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
32 18 0.41
33 9 0.20
34 16 0.36
35 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (33 bp):
AAAAATAAATAATAAAAAAATATATATATACAT
Found at i:25457 original size:35 final size:37
Alignment explanation
Indices: 25417--25486 Score: 92
Period size: 35 Copynumber: 1.9 Consensus size: 37
25407 ATATGTGTAT
*
25417 ATATATACATAA-ACATAAAA-ATAAAT-AAATAAAAA
1 ATATATA-ATAAGACATAAAATAAAAATAAAATAAAAA
*
25452 ATATATAATAAGATATAAAATAAAAATAAAATAAA
1 ATATATAATAAGACATAAAATAAAAATAAAATAAA
25487 CAAAAACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 14 0.47
36 5 0.17
37 7 0.23
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.24
Consensus pattern (37 bp):
ATATATAATAAGACATAAAATAAAAATAAAATAAAAA
Found at i:25484 original size:41 final size:42
Alignment explanation
Indices: 25425--25545 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 42
25415 ATATATATAC
*
25425 ATAAACATAAAAAT-AAATAAATAAAAAATATATAATAA-GAT
1 ATAAA-ATAAAAATAAAATAAACAAAAAATATATAATAAGGAT
* *
25466 ATAAAATAAAAATAAAATAAACAAAAACTA-ATAAAAAAGGAT
1 ATAAAATAAAAATAAAATAAACAAAAAATATAT-AATAAGGAT
*
25508 A-AAAA-CAAAATAGAAATAAACAAAAATATATATAATAA
1 ATAAAATAAAAATA-AAATAAACAAAAA-ATATATAATAA
25546 CGTATAGACA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
40 16 0.24
41 40 0.59
42 10 0.15
43 2 0.03
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (42 bp):
ATAAAATAAAAATAAAATAAACAAAAAATATATAATAAGGAT
Found at i:25557 original size:41 final size:40
Alignment explanation
Indices: 25434--25563 Score: 126
Period size: 41 Copynumber: 3.2 Consensus size: 40
25424 CATAAACATA
* *
25434 AAAAT-AAATAAATAAAAA-ATATATAATAAGATATAAAATA
1 AAAATAAAATAAACAAAAATATATATAATAAGATAT-AAA-C
* *
25474 AAAATAAAATAAACAAAAACTA-ATA-AAAAAGGATAAAAAC
1 AAAATAAAATAAACAAAAA-TATATATAATAA-GATATAAAC
*
25514 AAAATAGAAATAAACAAAAATATATATAATAACG-TATAGAC
1 AAAATA-AAATAAACAAAAATATATATAATAA-GATATAAAC
25555 AAAATAAAA
1 AAAATAAAA
25564 AAATAATAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
40 16 0.21
41 46 0.61
42 12 0.16
43 1 0.01
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (40 bp):
AAAATAAAATAAACAAAAATATATATAATAAGATATAAAC
Found at i:26434 original size:2 final size:2
Alignment explanation
Indices: 26423--26468 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
26413 TAATAATACT
* *
26423 TA TA TA -A TA TA TA TA TG TGA TA TA TA TA TA -A TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
26464 TA TA T
1 TA TA T
26469 GTTTATTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:27709 original size:34 final size:34
Alignment explanation
Indices: 27666--27750 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
27656 TGGGAAGCCT
*
27666 CTTCGCCGTGAAGTTGAGCTTTGAATTGGATATC
1 CTTCGCCGTGAAGTTGAGCTTTAAATTGGATATC
* *
27700 CTTCGCCGTGAAGTTGAGTTTTAAATTGGGTATC
1 CTTCGCCGTGAAGTTGAGCTTTAAATTGGATATC
* *
27734 CTTCGTCATGAAGTTGA
1 CTTCGCCGTGAAGTTGA
27751 AATCCAATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (34 bp):
CTTCGCCGTGAAGTTGAGCTTTAAATTGGATATC
Found at i:27715 original size:240 final size:240
Alignment explanation
Indices: 27181--27716 Score: 829
Period size: 240 Copynumber: 2.2 Consensus size: 240
27171 ACTGTGGATG
** * * * *
27181 GCCCCTTCGTTGTGAAGTTGAGCCGTGGAATTAGATATCATTCGTCGTGAAGTTAAAATCCAATC
1 GCCCCTTCGCCGTGAAGTTGAG-CTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATC
* ** *
27246 TAGAGTTGGCACGATATCCTTCGTCGTGAAATTGAAATTGTGGATGTCCTCTTCGTTGTGAAGTC
65 TAGAGTTGGCACGATATCCTTCATCGTGAAATTGAAATCATGGATGTCCTCTTCGTTGTAAAGTC
*
27311 GAGCCTTGACTTGAATATCTTTCGTCGTGAAGTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAA
130 GAGCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAA
*
27376 TATCATTCACCGTGAAGTTAAAATTGGCTTTGAATGAAACAAGGAA
195 TATCATTCACCGTGAAGTTAAAATTGGCTCTGAATGAAACAAGGAA
*
27422 GCCCCTTCGCCGTGAAGTTGAGTTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCT
1 GCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCT
* *
27487 AGAGTTGGCACGATATCCTTCATCGTGAAGTTGAAATCATGGATGTCCTCTTCGTTGTAAAGTTG
66 AGAGTTGGCACGATATCCTTCATCGTGAAATTGAAATCATGGATGTCCTCTTCGTTGTAAAGTCG
* *
27552 AGCCTTGACTTGAATATCCTTCGTCTTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAAT
131 AGCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAAT
* ** * **
27617 ATCCTTCTTCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAA
196 ATCATTCACCGTGAAGTTAAAATTGGCTCTGAATGAAACAAGGAA
* * *
27662 GCCTCTTCGCCGTGAAGTTGAGCTTTGAATTGGATATCCTTCGCCGTGAAGTTGA
1 GCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGA
27717 GTTTTAAATT
Statistics
Matches: 268, Mismatches: 27, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
240 248 0.93
241 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (240 bp):
GCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCT
AGAGTTGGCACGATATCCTTCATCGTGAAATTGAAATCATGGATGTCCTCTTCGTTGTAAAGTCG
AGCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAAT
ATCATTCACCGTGAAGTTAAAATTGGCTCTGAATGAAACAAGGAA
Found at i:27845 original size:110 final size:109
Alignment explanation
Indices: 27730--28107 Score: 310
Period size: 110 Copynumber: 3.3 Consensus size: 109
27720 TTAAATTGGG
*
27730 TATCCTTCGTCATGAAGTTGAAATCCAATCTAGAGTTGGCATGATATCCTTCTTCGTGAAGTTGA
1 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCA-GATATCCTTCTTCGTGAAGTTGA
* *
27795 AATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGACTTAAA
65 AATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTGAA
* * * ** *
27840 TATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCA-ATATCCTTCACCATG
1 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAG-A--G-TT-G-G--CAGATATCCTTCTTCGTG
* * ** * * *
27904 AAGTTGAAATTGGCTCTGAATGAAATTGGGAAGCCTCTTCGCCGTGAAGTTGAGCTTTGAATTGG
58 AAGTTGAAA-----TC-G--TG-GA-T--G--GCCCCTTCGTTGTGAAGTTGAGCCTTGACTTGA
27969 A
109 A
*
27970 TATCCTTCGTCGGGAAGTTGAAATCCAATCTAGAGTTGGCACGATATCCTTCGTT-GTGAAGTTG
1 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCA-GATATCCTTC-TTCGTGAAGTTG
* * * *
28034 AAATCGTGGATGGCTCGTTCGTTGTGAAGTTAAGCCCTGACTTGAA
64 AAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTGAA
* *
28080 TATCCTTCATCGTGAAGTTAAAATCCAA
1 TATCCTTCGTCGTGAAGTTGAAATCCAA
28108 GCTTGTGTGT
Statistics
Matches: 206, Mismatches: 37, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
110 78 0.38
111 1 0.00
112 1 0.00
113 1 0.00
114 3 0.01
115 2 0.01
116 24 0.12
118 3 0.01
119 2 0.01
121 2 0.01
122 3 0.01
124 23 0.11
125 2 0.01
126 3 0.01
127 1 0.00
128 1 0.00
129 1 0.00
130 55 0.27
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (109 bp):
TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCAGATATCCTTCTTCGTGAAGTTGAA
ATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTGAA
Found at i:27914 original size:274 final size:274
Alignment explanation
Indices: 27425--27990 Score: 979
Period size: 274 Copynumber: 2.1 Consensus size: 274
27415 CAAGGAAGCC
* *
27425 CCTTCGCCGTGAAGTTGAGTTTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGA
1 CCTTCGCCGTGAAGTTGAGTTTTAAATTGGATATCATTCGTCATGAAGTTGAAATCCAATCTAGA
* *
27490 GTTGGCACGATATCCTTCATCGTGAAGTTGAAATCATGGATGTCCTCTTCGTTGTAAAGTTGAGC
66 GTTGGCACGATATCCTTCATCGTGAAGTTGAAATCATGGATGGCCCCTTCGTTGTAAAGTTGAGC
* *
27555 CTTGACTTGAATATCCTTCGTCTTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATC
131 CTTGACTTAAATATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATC
** *
27620 CTTCTTCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCTCTTCGCCGTGAAGTTGAGC
196 CTTCACCATGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCTCTTCGCCGTGAAGTTGAGC
27685 TTTGAATTGGATAT
261 TTTGAATTGGATAT
* *
27699 CCTTCGCCGTGAAGTTGAGTTTTAAATTGGGTATCCTTCGTCATGAAGTTGAAATCCAATCTAGA
1 CCTTCGCCGTGAAGTTGAGTTTTAAATTGGATATCATTCGTCATGAAGTTGAAATCCAATCTAGA
* * *
27764 GTTGGCATGATATCCTTCTTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGC
66 GTTGGCACGATATCCTTCATCGTGAAGTTGAAATCATGGATGGCCCCTTCGTTGTAAAGTTGAGC
27829 CTTGACTTAAATATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATC
131 CTTGACTTAAATATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATC
*
27894 CTTCACCATGAAGTTGAAATTGGCTCTGAATGAAATTGGGAAGCCTCTTCGCCGTGAAGTTGAGC
196 CTTCACCATGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCTCTTCGCCGTGAAGTTGAGC
27959 TTTGAATTGGATAT
261 TTTGAATTGGATAT
* *
27973 CCTTCGTCGGGAAGTTGA
1 CCTTCGCCGTGAAGTTGA
27991 AATCCAATCT
Statistics
Matches: 275, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
274 275 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (274 bp):
CCTTCGCCGTGAAGTTGAGTTTTAAATTGGATATCATTCGTCATGAAGTTGAAATCCAATCTAGA
GTTGGCACGATATCCTTCATCGTGAAGTTGAAATCATGGATGGCCCCTTCGTTGTAAAGTTGAGC
CTTGACTTAAATATCCTTCGTCGTGAATTTGAAATCCAAGCTTGTATTGTTTCGAGTCCAATATC
CTTCACCATGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCTCTTCGCCGTGAAGTTGAGC
TTTGAATTGGATAT
Found at i:29434 original size:88 final size:88
Alignment explanation
Indices: 29274--29453 Score: 279
Period size: 88 Copynumber: 2.0 Consensus size: 88
29264 ATTGTATAGA
* * *
29274 TATTATAATCACCTTTATCAGACTAACTAAATATTATCCATAAAGTCGGGGCATTTAATCAATTG
1 TATTATAATCACCTTTATCAGACTAACTAAATATTATCCATAAAGCCGGGGCATTTAACCAACTG
29339 CTCTAGAGGGACAACTCAAGCTT
66 CTCTAGAGGGACAACTCAAGCTT
* * * * *
29362 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAACTG
1 TATTATAATCACCTTTATCAGACTAACTAAATATTATCCATAAAGCCGGGGCATTTAACCAACTG
*
29427 CTTTAGAGGGACAACTCAAGCTT
66 CTCTAGAGGGACAACTCAAGCTT
29450 TATT
1 TATT
29454 GTATATATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (88 bp):
TATTATAATCACCTTTATCAGACTAACTAAATATTATCCATAAAGCCGGGGCATTTAACCAACTG
CTCTAGAGGGACAACTCAAGCTT
Found at i:33534 original size:18 final size:16
Alignment explanation
Indices: 33483--33551 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
33473 AGATAAAAAT
33483 AAAAA-AAATAAAGAGA
1 AAAAATAAATAAAGA-A
*
33499 AAAAATAAATAAACAA
1 AAAAATAAATAAAGAA
33515 AACAAATAAGATAAAGAA
1 AA-AAATAA-ATAAAGAA
33533 AAAAATAATAGTAAAGAA
1 AAAAATAA-A-TAAAGAA
33551 A
1 A
33552 TAATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.17
17 21 0.46
18 17 0.37
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAATAAATAAAGAA
Found at i:33639 original size:37 final size:35
Alignment explanation
Indices: 33587--33656 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 35
33577 TTTGAAAAAT
33587 AAAAAATAAAAATATATATATACATCAAAATATTAATA
1 AAAAAATAAAAATATATATATA-AT--AAATATTAATA
*
33625 AAAAAAT-AATATATATATATAATAAATATTAA
1 AAAAAATAAAAATATATATATAATAAATATTAA
33657 ATATTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 9 0.29
36 2 0.06
37 13 0.42
38 7 0.23
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (35 bp):
AAAAAATAAAAATATATATATAATAAATATTAATA
Found at i:33766 original size:2 final size:2
Alignment explanation
Indices: 33759--33817 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
33749 TAGGCTAGTA
33759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33801 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
33818 ATTAAAAGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33883 original size:34 final size:36
Alignment explanation
Indices: 33845--33913 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
33835 GTATGTGTAT
*
33845 ATATATACATAA-ACATAAAA-ATAAAT-AAATAAAA
1 ATATATA-ATAAGACATAAAATAAAAATAAAATAAAA
*
33879 ATATATAATAAGATATAAAATAAAAATAAAATAAA
1 ATATATAATAAGACATAAAATAAAAATAAAATAAA
33914 CAAAAACTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.13
34 14 0.47
35 5 0.17
36 7 0.23
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (36 bp):
ATATATAATAAGACATAAAATAAAAATAAAATAAAA
Found at i:33900 original size:12 final size:11
Alignment explanation
Indices: 33862--33913 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
33852 CATAAACATA
33862 AAAATAAATA-
1 AAAATAAATAT
33872 AATAA-AAATAT
1 AA-AATAAATAT
*
33883 ATAATAAGATAT
1 AAAATAA-ATAT
*
33895 AAAATAAAAAT
1 AAAATAAATAT
33906 AAAATAAA
1 AAAATAAA
33914 CAAAAACTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 9 0.26
11 16 0.46
12 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (11 bp):
AAAATAAATAT
Found at i:34039 original size:23 final size:23
Alignment explanation
Indices: 34002--34078 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
33992 CAAAATAATA
* * *
34002 AAATAAAAAATAATAATATTAGC
1 AAATAAAAAATAATAAAATGAAC
34025 AAATAAGAAAA-AATAAAATGAAC
1 AAATAA-AAAATAATAAAATGAAC
*
34048 AAATAAAAAATAATACAAAT-AAA
1 AAATAAAAAATAATA-AAATGAAC
34071 AAATAAAA
1 AAATAAAA
34079 GGATTAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.09
23 35 0.74
24 8 0.17
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (23 bp):
AAATAAAAAATAATAAAATGAAC
Found at i:34067 original size:16 final size:15
Alignment explanation
Indices: 33993--34076 Score: 73
Period size: 16 Copynumber: 5.5 Consensus size: 15
33983 ACGTATAAAC
33993 AAAATAATAAAATAA
1 AAAATAATAAAATAA
* *
34008 AAAATAATAATATTAG
1 AAAATAATAA-AATAA
* *
34024 CAAATAAGAAAA-AA
1 AAAATAATAAAATAA
*
34038 TAAAATGAA-CAAATAA
1 -AAAAT-AATAAAATAA
34054 AAAATAATACAAATAA
1 AAAATAATA-AAATAA
34070 AAAATAA
1 AAAATAA
34077 AAGGATTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 3 0.06
15 23 0.43
16 28 0.52
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAATAA
Found at i:35193 original size:2 final size:2
Alignment explanation
Indices: 35182--35229 Score: 55
Period size: 2 Copynumber: 24.5 Consensus size: 2
35172 TAATAATACT
* *
35182 TA TA TA -A TA TA TA TA TA TG TGA TA TA TA TA TA -A TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
35223 TA TA TA T
1 TA TA TA T
35230 GTTTATTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:35208 original size:15 final size:14
Alignment explanation
Indices: 35188--35231 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
35178 TACTTATATA
35188 ATATATATATATGT
1 ATATATATATATGT
*
35202 GATATATATATAATAT
1 -ATATATATAT-ATGT
*
35218 ATAAATATATATGT
1 ATATATATATATGT
35232 TTATTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:35219 original size:13 final size:13
Alignment explanation
Indices: 35182--35226 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
35172 TAATAATACT
35182 TATATAATATATA
1 TATATAATATATA
*
35195 TATAT-GTGATATA
1 TATATAAT-ATATA
35208 TATATAATATATA
1 TATATAATATATA
*
35221 AATATA
1 TATATA
35227 TATGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (13 bp):
TATATAATATATA
Found at i:40198 original size:31 final size:31
Alignment explanation
Indices: 40160--40412 Score: 470
Period size: 31 Copynumber: 8.2 Consensus size: 31
40150 GGTCACAATA
40160 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
40191 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
40222 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
40253 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
40284 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
40315 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
40346 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
40377 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
40408 TAAAC
1 TAAAC
40413 CCTCGACTCT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 214 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:41030 original size:64 final size:64
Alignment explanation
Indices: 40922--41098 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 64
40912 TAATGAAGGT
* * * ** * * **
40922 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGT-GTCACTATTAATGGG
* * *
40986 ATGCATCGATGCACTCCTTATGCATCGATGCATCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGTGTCACTATTAATGGG
41050 ATGCATCGATGCACTACTTATGCATCGATGCA-CAAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCATC-AATTGCATTCGATGT
41099 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
63 2 0.02
64 95 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGTGTCACTATTAATGGG
Found at i:41119 original size:64 final size:64
Alignment explanation
Indices: 40922--41147 Score: 199
Period size: 64 Copynumber: 3.5 Consensus size: 64
40912 TAATGAAGGT
* * * ** * * * *** *
40922 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT-TTCACTATTAAAGAG
* * * *
40986 ATGCATCGATGCACTCCTTATGCATCGATGCATC-GATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CAAATTGCATTCGATGTTTCACTATTAAAGAG
* *
41050 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTCTTTA-TTTTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT-TTCACTATTAAAGAG
** *
41113 AGTGCATCGATGCACTACCAATGCATCGGTGCACA
1 A-TGCATCGATGCACTACTTATGCATCGATGCACA
41148 TTCAAAAAAT
Statistics
Matches: 136, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 129 0.95
65 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTTTCACTATTAAAGAG
Found at i:42477 original size:44 final size:45
Alignment explanation
Indices: 42410--42506 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 45
42400 ACGTTACCGT
*
42410 GGCAAGTAGAGTTAATGACGTTGTCGTGGTAAGTGAAGTTGCCAA
1 GGCAAGTAGAGTTAATGACGTTGTCGTGGCAAGTGAAGTTGCCAA
* * *
42455 GGCAA-TAGAGTTAATGATGTTGTCGTGGCAAGTGACGTTGCCAT
1 GGCAAGTAGAGTTAATGACGTTGTCGTGGCAAGTGAAGTTGCCAA
42499 GGCAAGTA
1 GGCAAGTA
42507 TAGGATCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
44 40 0.85
45 7 0.15
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (45 bp):
GGCAAGTAGAGTTAATGACGTTGTCGTGGCAAGTGAAGTTGCCAA
Found at i:50253 original size:29 final size:29
Alignment explanation
Indices: 50210--50292 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
50200 CTCACCTAAC
50210 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
50240 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
50269 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
50293 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:55023 original size:29 final size:29
Alignment explanation
Indices: 54980--55062 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
54970 CTCACCTAAC
54980 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
55010 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
55039 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
55063 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:57147 original size:2 final size:2
Alignment explanation
Indices: 57140--57171 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57130 CGATCAGATG
57140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57172 GTATGTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58607 original size:22 final size:22
Alignment explanation
Indices: 58575--58620 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
58565 TTACCTTAAC
*
58575 ATCATATATTTTTCAGACGACT
1 ATCATAAATTTTTCAGACGACT
58597 ATCATAAATTTTTCAGACGACT
1 ATCATAAATTTTTCAGACGACT
58619 AT
1 AT
58621 AGTTTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (22 bp):
ATCATAAATTTTTCAGACGACT
Found at i:59926 original size:29 final size:29
Alignment explanation
Indices: 59870--59926 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
59860 GTCCCAACAC
* * *
59870 ATAGGTCGTCATGCCCTCCGGGCGACCTT
1 ATAGGTCGCCATGCACTCCGGGAGACCTT
*
59899 ATAGGTCGCCATGCACTCCGGGATACCT
1 ATAGGTCGCCATGCACTCCGGGAGACCT
59927 ACCCTTGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (29 bp):
ATAGGTCGCCATGCACTCCGGGAGACCTT
Found at i:60024 original size:23 final size:23
Alignment explanation
Indices: 59937--60015 Score: 140
Period size: 23 Copynumber: 3.4 Consensus size: 23
59927 ACCCTTGCTC
59937 GCTCGCTCGGCTGCCCTCGCATT
1 GCTCGCTCGGCTGCCCTCGCATT
59960 GCTCGCTCGGCTGCCCTCGCATT
1 GCTCGCTCGGCTGCCCTCGCATT
* *
59983 GCTCGCTCGGCTGCCCTCGAATA
1 GCTCGCTCGGCTGCCCTCGCATT
60006 GCTCGCTCGG
1 GCTCGCTCGG
60016 ATAACCTCGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.06, C:0.42, G:0.28, T:0.24
Consensus pattern (23 bp):
GCTCGCTCGGCTGCCCTCGCATT
Found at i:60024 original size:46 final size:46
Alignment explanation
Indices: 59937--60024 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
59927 ACCCTTGCTC
* * * **
59937 GCTCGCTCGGCTGCCCTCGCATTGCTCGCTCGGCTGCCCTCGCATT
1 GCTCGCTCGGCTGCCCTCGAATAGCTCGCTCGGATAACCTCGCATT
59983 GCTCGCTCGGCTGCCCTCGAATAGCTCGCTCGGATAACCTCG
1 GCTCGCTCGGCTGCCCTCGAATAGCTCGCTCGGATAACCTCG
60025 GATGCTCTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.09, C:0.41, G:0.26, T:0.24
Consensus pattern (46 bp):
GCTCGCTCGGCTGCCCTCGAATAGCTCGCTCGGATAACCTCGCATT
Found at i:60025 original size:33 final size:33
Alignment explanation
Indices: 59988--60050 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
59978 GCATTGCTCG
*
59988 CTCGGCTGCCCTCGAATAGCTCGCTCGGATAAC
1 CTCGGATGCCCTCGAATAGCTCGCTCGGATAAC
* * *
60021 CTCGGATGCTCTCGCATAGCTCGGTCGGAT
1 CTCGGATGCCCTCGAATAGCTCGCTCGGAT
60051 GGCCTAGGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (33 bp):
CTCGGATGCCCTCGAATAGCTCGCTCGGATAAC
Found at i:61355 original size:2 final size:2
Alignment explanation
Indices: 61348--61415 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
61338 TAATACACGC
61348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61390 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
61416 TGATGTGATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62086 original size:31 final size:30
Alignment explanation
Indices: 62046--62137 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 30
62036 TTAACGACCT
*
62046 AATAGTATAATTGAAACGGAAATTAAAGTTC
1 AATAATATAATTGAAAC-GAAATTAAAGTTC
* *
62077 AATAATATAATT--AACAAAATTAAAAGTCC
1 AATAATATAATTGAAACGAAATT-AAAGTTC
* * *
62106 AATAATATAAATGATACGATACTTAAAGTTC
1 AATAATATAATTGAAACGA-AATTAAAGTTC
62137 A
1 A
62138 GTGATATCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 5 0.10
29 20 0.41
31 21 0.43
32 3 0.06
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (30 bp):
AATAATATAATTGAAACGAAATTAAAGTTC
Found at i:69665 original size:24 final size:24
Alignment explanation
Indices: 69633--69681 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
69623 TGTATGACGC
69633 TGAAACATTGCTCATAAGTCATGT
1 TGAAACATTGCTCATAAGTCATGT
*
69657 TGAAACATTGCTCATAAGTCTTGT
1 TGAAACATTGCTCATAAGTCATGT
69681 T
1 T
69682 TCAGCTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (24 bp):
TGAAACATTGCTCATAAGTCATGT
Found at i:70556 original size:23 final size:24
Alignment explanation
Indices: 70523--70596 Score: 91
Period size: 23 Copynumber: 3.2 Consensus size: 24
70513 CAGCTTGTAT
70523 AAATGCACCGAAGTGCCACGTAAG
1 AAATGCACCGAAGTGCCACGTAAG
* *
70547 -ATTGCACCGAAGTGCCGCGT-AG
1 AAATGCACCGAAGTGCCACGTAAG
* *
70569 AAATGCACTGAAGTGGCACGT-AG
1 AAATGCACCGAAGTGCCACGTAAG
70592 AAATG
1 AAATG
70597 TCCATAAGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
22 2 0.05
23 41 0.95
ACGTcount: A:0.34, C:0.22, G:0.28, T:0.16
Consensus pattern (24 bp):
AAATGCACCGAAGTGCCACGTAAG
Found at i:72374 original size:21 final size:22
Alignment explanation
Indices: 72324--72374 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
72314 ATGAATATTA
*
72324 TTATATGGCACTACGGTGCAAT
1 TTATACGGCACTACGGTGCAAT
*
72346 TCTATACGGCACTTCGGTGC-AT
1 T-TATACGGCACTACGGTGCAAT
72368 TTATACG
1 TTATACG
72375 AGTTGTGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 4 0.15
23 16 0.62
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (22 bp):
TTATACGGCACTACGGTGCAAT
Found at i:73465 original size:23 final size:23
Alignment explanation
Indices: 73439--73507 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
73429 TCACACAGCT
* *
73439 CGTATAAATGCACCTAAGTGCCA
1 CGTAGAAATACACCTAAGTGCCA
* *
73462 CGTAGAATTACACCGT-AGTGCCG
1 CGTAGAAATACACC-TAAGTGCCA
* *
73485 CGTAGAAATTCACCGAAGTGCCA
1 CGTAGAAATACACCTAAGTGCCA
73508 TATAATAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCTAAGTGCCA
Done.