Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003699.1 Hibiscus syriacus cultivar Beakdansim tig00007911_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: 54052
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:4595 original size:106 final size:106
Alignment explanation
Indices: 4414--4978 Score: 902
Period size: 106 Copynumber: 5.4 Consensus size: 106
4404 ACACCTCAAT
4414 CAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAAC----GATATTGGACTCCAGACAACGC
1 CAACTTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
4474 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAA
*
4516 CAACTTCTCTAA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
1 CAACTTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
*
4580 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
66 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAA
* *
4621 CAACTT-TCCAATTTCAGAGCCAATTTCAACTTCAGAGCGAAGGATATTGGACTCCAGACAACGC
1 CAACTTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
*
4685 AAGTTCAACTTCACGACGAAGGGA-CGCTGGTTTGTCAACAA
66 AAGTTCAACTTCACGACGAAGGGACCGCTGG-TTGTCAAAAA
**
4726 CAACTTC-CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTTGACAACGC
1 CAACTTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
*
4790 ATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
66 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAA
4832 CAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
1 CAACTTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
4896 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAA
* * *
4938 CAA-TTTTCCAA-TTCTAGAGTCAATTTCAACTTCACGACGAA
1 CAACTTCTCCAATTTC-AGAGCCAATTTCAACTTCACAACGAA
4979 TGGGTCACCA
Statistics
Matches: 432, Mismatches: 18, Indels: 22
0.92 0.04 0.05
Matches are distributed among these distances:
102 34 0.08
103 2 0.00
104 10 0.02
105 187 0.43
106 199 0.46
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (106 bp):
CAACTTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAA
Found at i:11402 original size:2 final size:2
Alignment explanation
Indices: 11395--11431 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
11385 GACAAAAAGA
*
11395 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11432 TATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:12585 original size:4 final size:4
Alignment explanation
Indices: 12578--12665 Score: 52
Period size: 4 Copynumber: 20.5 Consensus size: 4
12568 CTTTTTTTCC
* *
12578 TTTA TTTA TTTA TTTA TTT- TTTAA TTTAA TATA TTTA TATTT TTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTT-A TTTA TTTA T-TTA TTTA -TTTA
* * * *
12629 TTATA TATA TATA TATA TATTA TTTCT TTTA TTTA TT
1 TT-TA TTTA TTTA TTTA T-TTA TTT-A TTTA TTTA TT
12666 CAATTCAACA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
3 3 0.04
4 43 0.62
5 23 0.33
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:12589 original size:8 final size:8
Alignment explanation
Indices: 12578--12665 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 8
12568 CTTTTTTTCC
12578 TTTATTTA
1 TTTATTTA
12586 TTTATTTA
1 TTTATTTA
12594 TTT-TTTAA
1 TTTATTT-A
*
12602 TTTAATATA
1 TTT-ATTTA
*
12611 TTTATATTT
1 TTTAT-TTA
12620 TTTATTTTA
1 TTTA-TTTA
*
12629 TTATATATA
1 TT-TATTTA
* *
12638 TATATATA
1 TTTATTTA
*
12646 TATTATTTCT
1 T-TTATTT-A
12656 TTTATTTA
1 TTTATTTA
12664 TT
1 TT
12666 CAATTCAACA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
7 3 0.05
8 26 0.42
9 27 0.44
10 6 0.10
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTATTTA
Found at i:12618 original size:23 final size:23
Alignment explanation
Indices: 12592--12640 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
12582 TTTATTTATT
*
12592 TATTTTTTAATTTAATATATTTA
1 TATTTTTTAATTTAATATATATA
* *
12615 TATTTTTTATTTTATTATATATA
1 TATTTTTTAATTTAATATATATA
12638 TAT
1 TAT
12641 ATATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTTTTAATTTAATATATATA
Found at i:12618 original size:27 final size:29
Alignment explanation
Indices: 12588--12664 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 29
12578 TTTATTTATT
* *
12588 TATTTATTT-TTTAATTTA-ATATATTTA
1 TATTTATTTATTTTATTTATATATATATA
12615 TATTT-TTTATTTTATTATATATATATATA
1 TATTTATTTATTTTATT-TATATATATATA
*
12644 TATATTATTTCTTTTATTTAT
1 TAT-TTATTTATTTTATTTAT
12665 TCAATTCAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.07
27 11 0.26
28 2 0.05
29 11 0.26
30 5 0.12
31 10 0.24
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTATTTATTTTATTTATATATATATA
Found at i:12641 original size:31 final size:31
Alignment explanation
Indices: 12580--12661 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
12570 TTTTTTCCTT
*
12580 TATTTAT-TTATTTATTTT-TTAATTTAATA
1 TATTTATATTATTTATTTTATTAATATAATA
*
12609 TATTTATATTTTTTATTTTATT-ATATATATA
1 TATTTATATTATTTATTTTATTAATATA-ATA
* *
12640 TATATATATTATTTCTTTTATT
1 TATTTATATTATTTATTTTATT
12662 TATTCAATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 7 0.16
30 14 0.31
31 24 0.53
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (31 bp):
TATTTATATTATTTATTTTATTAATATAATA
Found at i:12766 original size:7 final size:7
Alignment explanation
Indices: 12756--12803 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
12746 TTTTCAACTT
12756 TTTTTCC
1 TTTTTCC
12763 TTTTTCC
1 TTTTTCC
* *
12770 TTTCTCA
1 TTTTTCC
12777 TTTTTCAAC
1 TTTTTC--C
12786 TTTTTCC
1 TTTTTCC
*
12793 TTTTTAC
1 TTTTTCC
12800 TTTT
1 TTTT
12804 CAACTTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
7 28 0.82
9 6 0.18
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCC
Found at i:12813 original size:23 final size:23
Alignment explanation
Indices: 12762--12812 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
12752 ACTTTTTTTC
*
12762 CTTTTTCCTTTCTCATTTTTCAA
1 CTTTTTCCTTTCTCACTTTTCAA
*
12785 CTTTTTCCTTT-TTACTTTTCAA
1 CTTTTTCCTTTCTCACTTTTCAA
12807 CTTTTT
1 CTTTTT
12813 TTGACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (23 bp):
CTTTTTCCTTTCTCACTTTTCAA
Found at i:12813 original size:32 final size:31
Alignment explanation
Indices: 12744--12802 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
12734 TTTATTTTTT
*
12744 ATTTTTCAACTTTTTTTCCTTTTTCCTTTCTC
1 ATTTTTCAAC-TTTTTTCCTTTTTACTTTCTC
12776 ATTTTTCAAC-TTTTTCCTTTTTACTTT
1 ATTTTTCAACTTTTTTCCTTTTTACTTT
12803 TCAACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 16 0.62
32 10 0.38
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (31 bp):
ATTTTTCAACTTTTTTCCTTTTTACTTTCTC
Found at i:12955 original size:13 final size:13
Alignment explanation
Indices: 12930--12963 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
12920 TTTTTACTCT
12930 TTTATTATTATTTA
1 TTTATT-TTATTTA
12944 TTTATTTTATTTA
1 TTTATTTTATTTA
12957 TTTATTT
1 TTTATTT
12964 CCTTGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:17155 original size:100 final size:99
Alignment explanation
Indices: 16982--17237 Score: 376
Period size: 100 Copynumber: 2.6 Consensus size: 99
16972 ATATTTTATA
**
16982 TATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAACT-CCCCGACTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAA-TGCCCCGACTTTATGGATAA
* *
17046 GATTCAGCTAAGCCTGATAAAGGTTATTATAATATC
65 GATTCAGCT-AGCCTGAAAAAGGTGATTATAATATC
*
17082 TATACAATAAAGCTTGAGTTGTCCCTCTAGGGCAATTGGTTAAATGCCCC-AGCTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGA-CTTTATGGATAA
*
17146 TATTCAGCTAGCCTGAAAAAGGTGATTATAATATC
65 GATTCAGCTAGCCTGAAAAAGGTGATTATAATATC
* *
17181 TATACAATGATA--TTGAGTTGTTCCTCTAGAGCAATTGGTTAAATGCCCCGACTTTAT
1 TATACAAT-AAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGACTTTAT
17238 AGATCCAGCT
Statistics
Matches: 143, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
98 41 0.29
99 35 0.24
100 67 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (99 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGACTTTATGGATAAG
ATTCAGCTAGCCTGAAAAAGGTGATTATAATATC
Found at i:18606 original size:85 final size:85
Alignment explanation
Indices: 18350--19437 Score: 1225
Period size: 85 Copynumber: 12.8 Consensus size: 85
18340 GAACAATTCG
* *
18350 CAGCATAGCTCAAGGTGAAAAGGGTTATCTG-CTAACAAAAGACCTTCGAGTTC-ATTTACATTC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTC-AAC-AAAGACCTTCGAGTTCGA-TTACATTC
* ** *
18413 AGCTAAAAAACACATCAAATTTA
63 AGCTCAAAGGCATATCAAATTTA
* * * *
18436 CAACATAGCTCAAGGTGATAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAA
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAG
* *
18501 CTCAAAGGAACATCAAATTTA
65 CTCAAAGGCATATCAAATTTA
** * *
18522 CAGCATAGCTCAAGGCGAGAAGGACTATCTGTCAACCAAGACCTTCGAGTTCGATTACAGTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
*
18587 TTAAAGGCATATCAAATTTA
66 TCAAAGGCATATCAAATTTA
* * * * * ** *
18607 CAGCATAACTCAAGGCGATAAGGGCTATCTATCAACTATTACCTTCGAGTTTGATTACACTT-AG
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA-TTCAG
*
18671 CTCAAAGGCATATCAAATTTG
65 CTCAAAGGCATATCAAATTTA
* * * * * *
18692 CAGCATAGCTCAAGGCAAGAAGGGCTATTTGCCAGCAAAGATCTTCGAGTTCGATTACATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
18757 TCAAAGGCATATCAAATTTA
66 TCAAAGGCATATCAAATTTA
* ** * * * * *
18777 CAGAATAGCTCAAGGCGAGAAGGACTATCTATCCACCAAGACCTTTGAGTTCGATTACACTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
*
18842 TCAAAGGCATATCAAATTTG
66 TCAAAGGCATATCAAATTTA
* * * * * * * *
18862 CAACAGAGCTCAAGGCGATAAGGGTTATTTGCCAGCAAAGACCTTCGAGTTCGATTACGTTCAGA
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
18927 TCAAAGGCATATCAAATTTA
66 TCAAAGGCATATCAAATTTA
* * * * * *
18947 CAGTATATCTCAAGGCGAGAAGGGTTATATGTCCACCAAGACCTTCGAGTTCGATTACACTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
*
19012 TCAAAGACATATCAAATTTA
66 TCAAAGGCATATCAAATTTA
* * * * * * *
19032 CAGCATAGCTCAAGGTGAGAATGGCTATCTGCCAGCAAAGACCTTTGAGTTCGATTACATTTAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* *
19097 TCAAAGGCATGTCAAACTTA
66 TCAAAGGCATATCAAATTTA
* * * * **
19117 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCCACCAATACCATCGAAATCGATTACATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
*
19182 ACAAAGGCATATC-AATTTA
66 TCAAAGGCATATCAAATTTA
* * *
19201 CAGCATAGCTCAAGGCGAGAAAGGTTATATGTCAACAAAAGATCTTCGAGTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAG
19266 CTCAAAGGCATATC-AATTTA
65 CTCAAAGGCATATCAAATTTA
* * * * * * *
19286 CAGCATAGCTCTAGACGAGAAGGGATATCTGTCAACAAATACCTTCAAGTTCGATTCCATTTAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* *
19351 TCAAGGGCATGTCAAATTTA
66 TCAAAGGCATATCAAATTTA
* * * * ** * * * *
19371 CAGCATAACTTAAGTCAAGAAAAGCTATTTGTCAACAAA-AACTGTCGAGTTCGATTCCATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCAG
19435 CTC
65 CTC
19438 GACGACACAT
Statistics
Matches: 843, Mismatches: 152, Indels: 15
0.83 0.15 0.01
Matches are distributed among these distances:
84 78 0.09
85 656 0.78
86 107 0.13
87 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (85 bp):
CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
TCAAAGGCATATCAAATTTA
Found at i:20171 original size:3 final size:3
Alignment explanation
Indices: 20165--20229 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
20155 TAATATATAT
20165 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
20213 TTA -TA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA
20230 ATTTTGTTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21081 original size:2 final size:2
Alignment explanation
Indices: 21074--21101 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21064 TTTGTCTTCA
21074 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
21102 TCCGGGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21313 original size:17 final size:17
Alignment explanation
Indices: 21285--21323 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
21275 TCATGCATAT
21285 TTTGATATTTTTATTAATA
1 TTTGAT-TTTTTA-TAATA
21304 TTTGATTTTTTATAATA
1 TTTGATTTTTTATAATA
21321 TTT
1 TTT
21324 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTGATTTTTTATAATA
Found at i:21405 original size:9 final size:9
Alignment explanation
Indices: 21391--21473 Score: 55
Period size: 9 Copynumber: 9.1 Consensus size: 9
21381 TTTTTTTCCC
21391 TTTATTTAT
1 TTTATTTAT
21400 TTTATTTTAT
1 TTTA-TTTAT
* *
21410 TTAATATAT
1 TTTATTTAT
21419 TTATATTT-T
1 TT-TATTTAT
*
21428 TTTACTT-T
1 TTTATTTAT
21436 TTTATTATAT
1 TTTATT-TAT
* *
21446 ATATATGTA-
1 -TTTATTTAT
*
21455 TTTATTTCT
1 TTTATTTAT
21464 TTTATTTAT
1 TTTATTTAT
21473 T
1 T
21474 CAATTTAACA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
8 15 0.27
9 23 0.41
10 14 0.25
11 4 0.07
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.71
Consensus pattern (9 bp):
TTTATTTAT
Found at i:21421 original size:27 final size:28
Alignment explanation
Indices: 21391--21472 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 28
21381 TTTTTTTCCC
21391 TTTATTTATTTTATTTTATTTA-ATATA
1 TTTATTTATTTTATTTTATTTATATATA
*
21418 TTTATATTTTTTTACTTTTTTATTATATATATA
1 TTTAT-TTATTTTA---TTTTATT-TATATATA
* *
21451 TGTATTTA-TTTCTTTTATTTAT
1 TTTATTTATTTTATTTTATTTAT
21473 TCAATTTAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
27 8 0.18
28 14 0.31
31 10 0.22
32 4 0.09
33 9 0.20
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (28 bp):
TTTATTTATTTTATTTTATTTATATATA
Found at i:21428 original size:42 final size:42
Alignment explanation
Indices: 21349--21430 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 42
21339 GTTTATACAT
*
21349 TTTATTTTTTAATTTTTATTGTAATTAATTTCTTTTTTTCCC
1 TTTATTTTTTAATTTTTATTGTAATTAATTTATTTTTTTCCC
* *
21391 TTTATTTATTTTA-TTTTATT-TAATATATTTATATTTTTTT
1 TTTATTT-TTTAATTTTTATTGTAAT-TAATT-TATTTTTTT
21431 ACTTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 4 0.12
42 18 0.53
43 12 0.35
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (42 bp):
TTTATTTTTTAATTTTTATTGTAATTAATTTATTTTTTTCCC
Found at i:21436 original size:29 final size:30
Alignment explanation
Indices: 21393--21472 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
21383 TTTTTCCCTT
*
21393 TATTTATTTTA-TTTTATTTA-ATATATTTA
1 TATTT-TTTTACTTTTATTTATATATATATA
* *
21422 TATTTTTTTACTTTTTTATTATATATATATG
1 TATTTTTTTACTTTTAT-TTATATATATATA
*
21453 TATTTATTT-CTTTTATTTAT
1 TATTTTTTTACTTTTATTTAT
21473 TCAATTTAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.12
29 14 0.33
30 9 0.21
31 15 0.35
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (30 bp):
TATTTTTTTACTTTTATTTATATATATATA
Found at i:21560 original size:24 final size:23
Alignment explanation
Indices: 21519--21586 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
21509 TTTTTATTTC
* * *
21519 TTTTAATTATTATATTTTAAACAT
1 TTTTAATTTTTCTTTTTTAAAC-T
*
21543 TTTTAATTTTTCTTTTTTCAACT
1 TTTTAATTTTTCTTTTTTAAACT
21566 TATTTGAATTTTTTCTTTTTT
1 T-TTT-AA-TTTTTCTTTTTT
21587 CTTTTTCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.05
24 21 0.57
25 2 0.05
26 12 0.32
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (23 bp):
TTTTAATTTTTCTTTTTTAAACT
Found at i:21592 original size:8 final size:7
Alignment explanation
Indices: 21574--21657 Score: 71
Period size: 7 Copynumber: 11.6 Consensus size: 7
21564 CTTATTTGAA
21574 TTTTTTC
1 TTTTTTC
21581 TTTTTTC
1 TTTTTTC
21588 -TTTTTC
1 TTTTTTC
*
21594 CTTTTTC
1 TTTTTTC
21601 AATTTTTTC
1 --TTTTTTC
21610 TTTTTTC
1 TTTTTTC
*
21617 CTTTTTC
1 TTTTTTC
*
21624 AACTTTTTC
1 --TTTTTTC
*
21633 CTTTTTC
1 TTTTTTC
21640 TTTTTTC
1 TTTTTTC
**
21647 AATTTTC
1 TTTTTTC
21654 TTTT
1 TTTT
21658 GACCTTTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
6 6 0.09
7 46 0.71
9 13 0.20
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTTC
Found at i:21614 original size:23 final size:22
Alignment explanation
Indices: 21581--21652 Score: 108
Period size: 23 Copynumber: 3.2 Consensus size: 22
21571 GAATTTTTTC
21581 TTTTTTCTTTTTCCTTTTTCAA
1 TTTTTTCTTTTTCCTTTTTCAA
21603 TTTTTTCTTTTTTCCTTTTTCAA
1 TTTTTTC-TTTTTCCTTTTTCAA
* *
21626 CTTTTTCCTTTTTCTTTTTTCAA
1 -TTTTTTCTTTTTCCTTTTTCAA
21649 TTTT
1 TTTT
21653 CTTTTGACCT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.24
23 29 0.63
24 6 0.13
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCTTTTTCCTTTTTCAA
Found at i:21646 original size:30 final size:29
Alignment explanation
Indices: 21575--21646 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
21565 TTATTTGAAT
*
21575 TTTTTCTTTTTT-CTTTTTCCTTTTTCAAT
1 TTTTTCTTTTTTCCTTTTTCCTTTTTC-AC
21604 TTTTTCTTTTTTCCTTTTTCAACTTTTTC-C
1 TTTTTCTTTTTTCCTTTTTC--CTTTTTCAC
21634 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
21647 AATTTTCTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 12 0.31
30 20 0.51
32 7 0.18
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTCTTTTTTCCTTTTTCCTTTTTCAC
Found at i:21668 original size:46 final size:45
Alignment explanation
Indices: 21580--21666 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
21570 TGAATTTTTT
* **
21580 CTTTTTTCTTTTTCCTTTTTCAATTTTTTCTTTTTTCCTTTTTCAA
1 CTTTTTCCTTTTTCCTTTTTCAA-TTTTTCTTTTGACCTTTTTCAA
*
21626 CTTTTTCCTTTTTCTTTTTTCAA-TTTTCTTTTGACCTTTTT
1 CTTTTTCCTTTTTCCTTTTTCAATTTTTCTTTTGACCTTTTT
21667 TTTCTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 16 0.43
46 21 0.57
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.71
Consensus pattern (45 bp):
CTTTTTCCTTTTTCCTTTTTCAATTTTTCTTTTGACCTTTTTCAA
Found at i:22872 original size:2 final size:2
Alignment explanation
Indices: 22865--22892 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22855 GTCTGCTTAC
22865 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22893 GTCGACTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25210 original size:12 final size:12
Alignment explanation
Indices: 25181--25221 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
25171 GAAAGTTAGA
*
25181 AAAAAAAGAAA-
1 AAAAAAATAAAT
25192 AATAAAAATAAAT
1 AA-AAAAATAAAT
25205 AAAAAAATAAAT
1 AAAAAAATAAAT
25217 AAAAA
1 AAAAA
25222 GGACCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:27601 original size:33 final size:32
Alignment explanation
Indices: 27518--27637 Score: 158
Period size: 33 Copynumber: 3.8 Consensus size: 32
27508 GTCAAACTCG
* *
27518 AAGGTCTTTGTGTTTCAAGAGAAA-TATTTTCA
1 AAGGTTTTTGTGTTTCAAGAGAAACGA-TTTCA
27550 AAGG-TTTT-T-TTTCAAGAGAAACGATTTCA
1 AAGGTTTTTGTGTTTCAAGAGAAACGATTTCA
*
27579 AAGGTTTTTTGTGTTTCAAGAGAAACGACTTCA
1 AAGG-TTTTTGTGTTTCAAGAGAAACGATTTCA
27612 AAGGATTTTTGTGTTTCAAGAGAAAC
1 AAGG-TTTTTGTGTTTCAAGAGAAAC
27638 TGTCTCCAGA
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
29 21 0.27
30 2 0.03
31 7 0.09
32 5 0.06
33 44 0.56
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (32 bp):
AAGGTTTTTGTGTTTCAAGAGAAACGATTTCA
Found at i:27743 original size:37 final size:36
Alignment explanation
Indices: 27691--27795 Score: 138
Period size: 37 Copynumber: 2.9 Consensus size: 36
27681 AAAGATTGGT
27691 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTC
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTC
* * *
27728 GTTTCAAGTGGAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTC
* * *
27764 GGTTCAAAAAGAAACTGTCTCAAGGGAGACAA
1 GTTTC-AAGAGAAACTGTCTCAAGAGAGACAA
27796 TGGTGAGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 6 0.10
37 53 0.90
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTC
Found at i:28112 original size:104 final size:104
Alignment explanation
Indices: 27918--28647 Score: 1210
Period size: 104 Copynumber: 7.0 Consensus size: 104
27908 TGTTTCGAGG
* * * *
27918 CCAATATCCTTCGCTGTGAAGTTGAACTTAGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AA-ATGTTTGTTGACAACCAG
*
27983 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
28024 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCG
28089 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
28128 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AA-ATGTTTGTTGACAACCAG
*
28193 CGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
28234 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCG
28299 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
28338 CCAATATCCTTCGTGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAAAATGTTTGTTGACAACCAGC
28403 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
28443 CCAATATCCTTCGTGGTGAAGTTGAAATCGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT--GAAAATGTTTGTTGACAACCAG
*
28508 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
28549 -CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AAATGTTTGTTGACAACCAGC
28613 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
28648 TGAGCGACCC
Statistics
Matches: 594, Mismatches: 25, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
103 2 0.00
104 251 0.42
105 142 0.24
106 199 0.34
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (104 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:28183 original size:210 final size:209
Alignment explanation
Indices: 27918--28647 Score: 1246
Period size: 210 Copynumber: 3.5 Consensus size: 209
27908 TGTTTCGAGG
* * * *
27918 CCAATATCCTTCGCTGTGAAGTTGAACTTAGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAG
*
27983 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTG
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
28048 AAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 AAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
28113 TGCGTTGTCTGGAGT
195 TGCGTTGTCTGGAGT
* *
28128 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAG
*
28193 CGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
*
28258 AAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 AAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
28323 TGCGTTGTCTGGAGT
195 TGCGTTGTCTGGAGT
* *
28338 CCAATATCCTTCGTGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
*
28403 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* * *
28468 AATCGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AATTGGCTCTGAAATT--GAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
28533 TTGCGTTGTCTAGAGT
194 TTGCGTTGTCTGGAGT
* * *
28549 -CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
28613 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
28648 TGAGCGACCC
Statistics
Matches: 495, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
209 96 0.19
210 340 0.69
211 59 0.12
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (209 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
AATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAGT
Found at i:28503 original size:315 final size:314
Alignment explanation
Indices: 27918--28647 Score: 1264
Period size: 315 Copynumber: 2.3 Consensus size: 314
27908 TGTTTCGAGG
* * *
27918 CCAATATCCTTCGCTGTGAAGTTGAACTTAGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTTGTTGACAACCAG
* *
27983 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGTTGTGAAGTTG
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTG
28048 AAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
129 AAATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * * *
28113 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTG
194 TGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATCGGCTCTGAAATTGAGAAATTG
* * *
28178 TTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGT
259 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
28234 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCG
28299 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAA
*
28364 ATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
131 ATTGGCTCTGAAATT-GAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
28429 GCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATCGGCTCTGAAATTGGGAAATTGT
195 GCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATCGGCTCTGAAATTGAGAAATTGT
28494 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
260 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
* * *
28549 -CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AATGTTTGTTGACAACCAGC
28613 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
28648 TGAGCGACCC
Statistics
Matches: 395, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
314 138 0.35
315 214 0.54
316 43 0.11
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (314 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAA
ATTGGCTCTGAAATTGAAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATCGGCTCTGAAATTGAGAAATTGTT
TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
Found at i:32444 original size:20 final size:22
Alignment explanation
Indices: 32419--32463 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
32409 AAAAAATATT
*
32419 AATATAATA-ATAATAAA-ATA
1 AATATAATAGATAACAAAGATA
32439 AATATAATAGATAACAAAGATA
1 AATATAATAGATAACAAAGATA
32461 AAT
1 AAT
32464 GAAAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (22 bp):
AATATAATAGATAACAAAGATA
Found at i:32489 original size:10 final size:11
Alignment explanation
Indices: 32470--32510 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
32460 AAATGAAAGT
32470 TAAA-AAAAAA
1 TAAATAAAAAA
32480 T-AATAAAAAA
1 TAAATAAAAAA
32490 TAAATAAAAAA
1 TAAATAAAAAA
32501 TAAATAAAAA
1 TAAATAAAAA
32511 GGACCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 2 0.07
10 8 0.28
11 19 0.66
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
TAAATAAAAAA
Found at i:35571 original size:15 final size:14
Alignment explanation
Indices: 35550--35617 Score: 59
Period size: 15 Copynumber: 4.8 Consensus size: 14
35540 AGCATATTGA
35550 GGAGGATATCCTTGC
1 GGAGGATATCC-TGC
* *
35565 TGAGGATATGCCTGA
1 GGAGGATAT-CCTGC
*
35580 GGAGGATAACC--C
1 GGAGGATATCCTGC
*
35592 TGAGGATATCCTTGC
1 GGAGGATATCC-TGC
35607 GGAGGATATCC
1 GGAGGATATCC
35618 CGGTGGTGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
12 9 0.22
14 2 0.05
15 28 0.68
16 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (14 bp):
GGAGGATATCCTGC
Found at i:35629 original size:42 final size:42
Alignment explanation
Indices: 35551--35630 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
35541 GCATATTGAG
* * *
35551 GAGGATATCCTTGCTGAGGATATGCCTGAGGAGGATAACCCT
1 GAGGATATCCTTGCGGAGGATATCCCGGAGGAGGATAACCCT
* *
35593 GAGGATATCCTTGCGGAGGATATCCCGGTGGTGGATAA
1 GAGGATATCCTTGCGGAGGATATCCCGGAGGAGGATAA
35631 GCATCTTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (42 bp):
GAGGATATCCTTGCGGAGGATATCCCGGAGGAGGATAACCCT
Found at i:39324 original size:13 final size:12
Alignment explanation
Indices: 39284--39326 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
39274 CAACTTATAG
*
39284 TTAATAGCTGATT
1 TTAATAACTGA-T
39297 TTAATAACTGAT
1 TTAATAACTGAT
39309 TTAACTAACTGAT
1 TTAA-TAACTGAT
39322 TTAAT
1 TTAAT
39327 TAGTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (12 bp):
TTAATAACTGAT
Found at i:40956 original size:16 final size:16
Alignment explanation
Indices: 40935--40981 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
40925 CATTCCAGTC
40935 ATATTTTTATTTTGTT
1 ATATTTTTATTTTGTT
* *
40951 ATATTTTAATTTTG-C
1 ATATTTTTATTTTGTT
40966 ATATTCTTT-TTTTGTT
1 ATATT-TTTATTTTGTT
40982 GATTATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.70
Consensus pattern (16 bp):
ATATTTTTATTTTGTT
Found at i:41100 original size:19 final size:18
Alignment explanation
Indices: 41078--41124 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
41068 TTAATTTATG
41078 TTTTAATTTCAACTTTACA
1 TTTTAATTTCAACTTTA-A
**
41097 TTTTAAATTT-GTCTTTAA
1 TTTT-AATTTCAACTTTAA
41115 TTTTAATTTC
1 TTTTAATTTC
41125 TTTAAAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.21
18 5 0.21
19 9 0.38
20 5 0.21
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTAATTTCAACTTTAA
Found at i:47743 original size:37 final size:36
Alignment explanation
Indices: 47612--47746 Score: 117
Period size: 36 Copynumber: 3.6 Consensus size: 36
47602 TCCTAACAAA
* * *
47612 AAATTTTGTCTCGCTAGAGACAATTTTCCTCAAAAC
1 AAATTTTGTCTCCCTTGAGACAATTTTTCTCAAAAC
* ** * *** *
47648 AAAATTAATCTCACTTGAGATTGTTTTTCTCTAAAAAA
1 AAATTTTGTCTCCCTTGAGACAATTTTTCTC--AAAAC
*
47686 AAATTTTTTGTCTCCTTTGAGACAATTTTTACTCAAAAC
1 AAA--TTTTGTCTCCCTTGAGACAATTTTT-CTCAAAAC
47725 AAATTTTGTCTCCCTTGAGACA
1 AAATTTTGTCTCCCTTGAGACA
47747 GTTTCTCTTG
Statistics
Matches: 74, Mismatches: 20, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
36 22 0.30
37 18 0.24
38 7 0.09
39 7 0.09
40 17 0.23
41 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.39
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAATTTTTCTCAAAAC
Found at i:47761 original size:76 final size:76
Alignment explanation
Indices: 47573--47754 Score: 185
Period size: 77 Copynumber: 2.4 Consensus size: 76
47563 AAATATTTAG
* * * * *
47573 AACAAAGTTGATCTCACATGAGATAGTTT-TC-CTAACAAAAAA--TTTTGTCTCGCTAGAGACA
1 AACAAAATTAATCTCACTTGAGACAGTTTCTCTCTAAAAAAAAATTTTTTGTCTCGCTAGAGACA
*
47634 ATTTTCCTCAA
66 ATTTTACTCAA
** * *
47645 AACAAAATTAATCTCACTTGAGATTGTTTTTCTCTAAAAAAAAATTTTTTGTCTC-CTTTGAGAC
1 AACAAAATTAATCTCACTTGAGACAGTTTCTCTCTAAAAAAAAATTTTTTGTCTCGC-TAGAGAC
47709 AATTTTTACTCAA
65 AA-TTTTACTCAA
* ** *
47722 AACAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 AACAAAATTAATCTCACTTGAGACAGTTTCTCT
47755 TGAAAAATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
72 25 0.28
73 2 0.02
74 10 0.11
75 1 0.01
76 17 0.19
77 35 0.39
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (76 bp):
AACAAAATTAATCTCACTTGAGACAGTTTCTCTCTAAAAAAAAATTTTTTGTCTCGCTAGAGACA
ATTTTACTCAA
Found at i:47910 original size:39 final size:37
Alignment explanation
Indices: 47791--47958 Score: 212
Period size: 37 Copynumber: 4.5 Consensus size: 37
47781 CCTTGAAATG
* * * * *
47791 AATTTTGTCTCACGTCAGACAATTTTTATTCAAAACA
1 AATTTTGTCTCCCTTGAGACAATTTCTACTCAAAACA
* * *
47828 AATTTTGTCTCTCTTGAGACAGTTTTTACTCAAAACA
1 AATTTTGTCTCCCTTGAGACAATTTCTACTCAAAACA
*
47865 AATTTTGTCTCTCTTGAGACAATTTCTACTCAAAACAA
1 AATTTTGTCTCCCTTGAGACAATTTCTACTCAAAAC-A
**
47903 AATTTTTGTCTCCCTTGAGACAATTTCT-CTTGAAACA
1 AA-TTTTGTCTCCCTTGAGACAATTTCTACTCAAAACA
47940 AATTTTGTCTCCCTTGAGA
1 AATTTTGTCTCCCTTGAGA
47959 TAGTTTCTCT
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
36 17 0.14
37 69 0.58
38 9 0.08
39 24 0.20
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAATTTCTACTCAAAACA
Found at i:47927 original size:21 final size:20
Alignment explanation
Indices: 47906--47958 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 20
47896 AAAACAAAAT
47906 TTTTGTCTCCCTTGAGACAA
1 TTTTGTCTCCCTTGAGACAA
*
47926 --TT-TCT--CTTGAAACAAA
1 TTTTGTCTCCCTTGAGAC-AA
47942 TTTTGTCTCCCTTGAGA
1 TTTTGTCTCCCTTGAGA
47959 TAGTTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 11
0.66 0.05 0.29
Matches are distributed among these distances:
15 7 0.28
16 2 0.08
17 3 0.12
18 4 0.16
19 3 0.12
21 6 0.24
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (20 bp):
TTTTGTCTCCCTTGAGACAA
Found at i:47970 original size:36 final size:36
Alignment explanation
Indices: 47823--48088 Score: 176
Period size: 36 Copynumber: 7.2 Consensus size: 36
47813 TTTTTATTCA
* * * *
47823 AAACAAATTTTGTCTCTCTTGAGACAGTTTTTACTCA
1 AAACAAATTTTGTCTCCCTTGAGATAGTTTCT-CTCG
* * * *
47860 AAACAAATTTTGTCTCTCTTGAGACAATTTCTACTCA
1 AAACAAATTTTGTCTCCCTTGAGATAGTTTCT-CTCG
* * *
47897 AAACAAAATTTTTGTCTCCCTTGAGACAATTTCTCTTG
1 AAAC-AAA-TTTTGTCTCCCTTGAGATAGTTTCTCTCG
*
47935 AAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTG
1 AAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTCG
** * * * * * *
47971 AAATTAATTTTATATCACTTAAGATAATTTC-CTTGG
1 AAACAAATTTTGTCTCCCTTGAGATAGTTTCTC-TCG
** * * * **
48007 AAATGAATTTTATCTCGCTTGAGATAGTTACAGTCG
1 AAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTCG
* *
48043 AAACAGAAGATTTTTTCTCGCTTGAGATAGTTTCGT-TCG
1 AAAC--AA-ATTTTGTCTCCCTTGAGATAGTTTC-TCTCG
48082 AAACAAA
1 AAACAAA
48089 AGATTTTATA
Statistics
Matches: 193, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.01
36 84 0.44
37 44 0.23
38 10 0.05
39 54 0.28
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTCG
Found at i:48056 original size:39 final size:39
Alignment explanation
Indices: 48013--48097 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
48003 TTGGAAATGA
*
48013 ATTTTATCTCGCTTGAGATAGTTACAG-TCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTAC-GTTCGAAACAAAAG
* *
48052 ATTTTTTCTCGCTTGAGATAGTTTCGTTCGAAACAAAAG
1 ATTTTATCTCGCTTGAGATAGTTACGTTCGAAACAAAAG
48091 ATTTTAT
1 ATTTTAT
48098 AAGAAACTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.02
39 40 0.98
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTACGTTCGAAACAAAAG
Found at i:48270 original size:98 final size:98
Alignment explanation
Indices: 48101--48295 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
48091 ATTTTATAAG
* * * *
48101 AAACTAAGACTGATTTTCAGGGGTTTCTTGTTTAAGATTTTCAAAGAGTTTTTAAAAGGAAGATA
1 AAACTAAGACTGATTTTCAGGGGTTTCTTGATGAAGATTTTCAAAGAATTTTTAAAAGAAAGATA
*
48166 AGCCTAATTTTTAGGGGTTCCTTGACAACTTAA
66 AGCCTAATTTTTAGGGGTTCCTTGAAAACTTAA
* * * *
48199 AAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAATTTTTAAAAGAAAGCTA
1 AAACTAAGACTGATTTTCAGGGGTTTCTTGATGAAGATTTTCAAAGAATTTTTAAAAGAAAGATA
48264 AGCCTAATTTTTAGGGGTTCCTTGAAAACTTA
66 AGCCTAATTTTTAGGGGTTCCTTGAAAACTTA
48296 GAAAGGGGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (98 bp):
AAACTAAGACTGATTTTCAGGGGTTTCTTGATGAAGATTTTCAAAGAATTTTTAAAAGAAAGATA
AGCCTAATTTTTAGGGGTTCCTTGAAAACTTAA
Found at i:48383 original size:39 final size:38
Alignment explanation
Indices: 48338--48598 Score: 284
Period size: 39 Copynumber: 6.9 Consensus size: 38
48328 GTTTTTAAAA
* *
48338 GCTTGAGAAAGTTTCCCTCGAATCAGAAGATTTTATCTC
1 GCTTGAGATAGTTTCCCTTGAA-CAGAAGATTTTATCTC
* *
48377 GCTTGAGATAGTTTCCCTTGAA-ACAA-ATTTTATTTC
1 GCTTGAGATAGTTTCCCTTGAACAGAAGATTTTATCTC
* *
48413 ACTTGAGATAGTTTCCCTTGAA-A-CAGATTTTATCTC
1 GCTTGAGATAGTTTCCCTTGAACAGAAGATTTTATCTC
* *
48449 GCTTAAGATAGTTTCCCTTGAA-A-TAGATTTTATCTC
1 GCTTGAGATAGTTTCCCTTGAACAGAAGATTTTATCTC
*
48485 GCTTGAGATCA-TTTCCCTCGAAACAGAAGATTTTATCTC
1 GCTTGAGAT-AGTTTCCCTTG-AACAGAAGATTTTATCTC
* **
48524 ACTTGAGATAGTTTCCCTCAAAACAGAAGATTTTATCTC
1 GCTTGAGATAGTTTCCCT-TGAACAGAAGATTTTATCTC
* * * *
48563 ACTTGAGTTAGTTTCGCTTGAAACAAAAGATTTTAT
1 GCTTGAGATAGTTTCCCTTG-AACAGAAGATTTTAT
48599 AAGAAACTAA
Statistics
Matches: 193, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.01
36 89 0.46
37 6 0.03
38 2 0.01
39 95 0.49
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (38 bp):
GCTTGAGATAGTTTCCCTTGAACAGAAGATTTTATCTC
Found at i:48418 original size:36 final size:36
Alignment explanation
Indices: 48339--48589 Score: 261
Period size: 36 Copynumber: 6.7 Consensus size: 36
48329 TTTTTAAAAG
* * * *
48339 CTTGAGAAAGTTTCCCTCGAATCAGAAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAA--ACAA-ATTTTATCTCA
*
48378 CTTGAGATAGTTTCCCTTGAAACAAATTTTATTTCA
1 CTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCA
* *
48414 CTTGAGATAGTTTCCCTTGAAACAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCA
* * * *
48450 CTTAAGATAGTTTCCCTTGAAATAGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCA
*
48486 CTTGAGATCA-TTTCCCTCGAAACAGAAGATTTTATCTCA
1 CTTGAGAT-AGTTTCCCTTGAAAC--AA-ATTTTATCTCA
**
48525 CTTGAGATAGTTTCCCTCAAAACAGAAGATTTTATCTCA
1 CTTGAGATAGTTTCCCTTGAAAC--AA-ATTTTATCTCA
* *
48564 CTTGAGTTAGTTTCGCTTGAAACAAA
1 CTTGAGATAGTTTCCCTTGAAACAAA
48590 AGATTTTATA
Statistics
Matches: 187, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
36 95 0.51
37 6 0.03
38 2 0.01
39 84 0.45
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (36 bp):
CTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCA
Found at i:48489 original size:21 final size:21
Alignment explanation
Indices: 48429--48490 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
48419 GATAGTTTCC
*
48429 CTTGAAACAGATTTTATCTCG
1 CTTGAAATAGATTTTATCTCG
48450 CTT-AAGATAG---TT-TC-C-
1 CTTGAA-ATAGATTTTATCTCG
48465 CTTGAAATAGATTTTATCTCG
1 CTTGAAATAGATTTTATCTCG
48486 CTTGA
1 CTTGA
48491 GATCATTTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 16
0.65 0.02 0.33
Matches are distributed among these distances:
15 7 0.22
16 3 0.09
17 2 0.06
18 4 0.12
19 2 0.06
20 3 0.09
21 11 0.34
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (21 bp):
CTTGAAATAGATTTTATCTCG
Found at i:48769 original size:98 final size:98
Alignment explanation
Indices: 48600--48928 Score: 416
Period size: 98 Copynumber: 3.4 Consensus size: 98
48590 AGATTTTATA
* * * *
48600 AGAAACTAAGCCTGATTTTCAGGGGTTTCCTAATGAAGATTTTCAATGATTTTTTAAAAGGAAGC
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
**
48665 TAAGCCTAATTTTTAGTTGTTCCTTGACAACTT
66 TAAGCCTAATTTTTAGGAGTTCCTTGACAACTT
48698 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
* *
48763 TAAGCCTAATTTTTAGGGGTTTCTTGACAACTT
66 TAAGCCTAATTTTTAGGAGTTCCTTGACAACTT
* * * * ** * *
48796 AGAAACTAAGCTTGATTTTCATGGGTTTCTT-A--ATGATTTCCAAAGAGTTTGCAAAAGAAAAC
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
*
48858 TAAGCCTAA-TTTTAGGAGTTCTGTTATGACAA-TT
66 TAAGCCTAATTTTTAGGAGTTC--CT-TGACAACTT
* *
48892 AAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
1 -AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGA
48929 GTAAGTCCTT
Statistics
Matches: 205, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
94 10 0.05
95 33 0.16
96 3 0.01
97 37 0.18
98 121 0.59
100 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (98 bp):
AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAATGAGTTTTTAAAAGGAAGC
TAAGCCTAATTTTTAGGAGTTCCTTGACAACTT
Found at i:48982 original size:42 final size:42
Alignment explanation
Indices: 48934--49072 Score: 174
Period size: 42 Copynumber: 3.3 Consensus size: 42
48924 GATGAGTAAG
*
48934 TCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
*
48976 TCCTTCGGGCCAACAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
* * * * * *
49018 ACCTTCGGGTCTTCTA-TAAGTCTTTCGAGCAAGATG-ATAAG
1 TCCTTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGCTTAAA
*
49059 TCCTTCAGGCCATC
1 TCCTTCGGGCCATC
49073 CATAAGACCT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.16
42 69 0.83
43 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
Found at i:50716 original size:7 final size:7
Alignment explanation
Indices: 50704--50740 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
50694 CGACTGACCC
50704 GACCGTT
1 GACCGTT
50711 GACCGTT
1 GACCGTT
50718 GACCG-T
1 GACCGTT
50724 GACCGTT
1 GACCGTT
*
50731 GACCATT
1 GACCGTT
50738 GAC
1 GAC
50741 TTCCTTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:50728 original size:13 final size:14
Alignment explanation
Indices: 50704--50740 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
50694 CGACTGACCC
50704 GACCGTTGACCGTT
1 GACCGTTGACCGTT
50718 GACCG-TGACCGTT
1 GACCGTTGACCGTT
*
50731 GACCATTGAC
1 GACCGTTGAC
50741 TTCCTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (14 bp):
GACCGTTGACCGTT
Done.