Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002470.1 Hibiscus syriacus cultivar Beakdansim tig00005050_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: 65101
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:3532 original size:60 final size:60
Alignment explanation
Indices: 3468--3608 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 60
3458 GGGACTATTA
* * ** *
3468 TAGAATGAAGGTCATAGTTTAGGGTTGGAATTGGAATACTCAAAAGTGTAAGAATCAATT
1 TAGAATGAAGGTCATAGTTTAGAGATAAAATTAGAATACTCAAAAGTGTAAGAATCAATT
** * * *
3528 TAGAATG-AGAGTCATAGTTTAGAGATAAAATTAGAATGTTCAAAAGTTTGAGGATCAATT
1 TAGAATGAAG-GTCATAGTTTAGAGATAAAATTAGAATACTCAAAAGTGTAAGAATCAATT
* *
3588 TAGAATGATGATCATAGTTTA
1 TAGAATGAAGGTCATAGTTTA
3609 AGTATGTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 64 0.96
61 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (60 bp):
TAGAATGAAGGTCATAGTTTAGAGATAAAATTAGAATACTCAAAAGTGTAAGAATCAATT
Found at i:8362 original size:21 final size:21
Alignment explanation
Indices: 8334--8384 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
8324 ATTTAATTCG
8334 TTTG-GTTCGGGCTTGGGTGT
1 TTTGAGTTCGGGCTTGGGTGT
8354 TTTGAGTTCGGGCTTGGGTGT
1 TTTGAGTTCGGGCTTGGGTGT
8375 TTTGAGTTCG
1 TTTGAGTTCG
8385 TATAAACTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.04, C:0.10, G:0.41, T:0.45
Consensus pattern (21 bp):
TTTGAGTTCGGGCTTGGGTGT
Found at i:12602 original size:30 final size:31
Alignment explanation
Indices: 12559--12625 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
12549 AAAAATTAAA
12559 AGTTTAGGTACTAAAACTGACCAAAACCGAT
1 AGTTTAGGTACTAAAACTGACCAAAACCGAT
* * * *
12590 AGTTTA-GTACTAAAATTGATCGAAACTGAT
1 AGTTTAGGTACTAAAACTGACCAAAACCGAT
12620 AGTTTA
1 AGTTTA
12626 AATACTAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (31 bp):
AGTTTAGGTACTAAAACTGACCAAAACCGAT
Found at i:17091 original size:215 final size:216
Alignment explanation
Indices: 16719--17284 Score: 1039
Period size: 215 Copynumber: 2.6 Consensus size: 216
16709 ATTTAAGAAT
*
16719 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
1 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
16784 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
16849 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
131 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
16914 TACAAATAAAATTTGGAGGAC
196 TACAAATAAAATTTGGAGGAC
16935 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGA-
1 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
16999 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
17064 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
131 CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
17129 TACAAATAAAATTTGGAGGAC
196 TACAAATAAAATTTGGAGGAC
* * *
17150 TAAATTGAATAAATATAAAATTACAAAT-AAAA-TTAAATAAATTAAACAACGCACATTGATGAG
1 TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
* *
17213 GGATCAAATCGAAATAATTTTAAATTGTGATGTTAAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-TACTAAATTATAC
*
17278 ACATTTA
130 TCATTTA
17285 TGTACAATTA
Statistics
Matches: 341, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
213 27 0.08
214 53 0.16
215 198 0.58
216 63 0.18
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (216 bp):
TAAATTGAATAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACTCGTTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACT
CATTTAAAAAGTTATTGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATA
TACAAATAAAATTTGGAGGAC
Found at i:17355 original size:20 final size:20
Alignment explanation
Indices: 17311--17561 Score: 90
Period size: 20 Copynumber: 12.1 Consensus size: 20
17301 ATATATATTG
*
17311 TATACATTATATAGTTTATTAA
1 TATAAATTATATAGTTTA-T-A
17333 TATAAATTATATAGTTTATA
1 TATAAATTATATAGTTTATA
* * **
17353 TATATAGTATATATGGTTTAGGG
1 TATA-AAT-TATATAGTTTA-TA
* *
17376 TTTATATT-TATA-TTTATA
1 TATAAATTATATAGTTTATA
*
17394 TACTATATATATGAATTATAGTTTACA
1 TA-TA-A-AT-T--A-TATAGTTTATA
* * *
17421 TATGAACTATATATAAATATATA
1 TAT-AAAT-TATAT-AGTTTATA
*
17444 TACTAAGGTT-TATA-TTTATA
1 TA-TAA-ATTATATAGTTTATA
* *
17464 TATGAA--ATATAGTTTACA
1 TATAAATTATATAGTTTATA
*
17482 TATAAACTATATAGTTTATA
1 TATAAATTATATAGTTTATA
* *
17502 TACT-AA--CTATAGTTTACA
1 TA-TAAATTATATAGTTTATA
*
17520 TATAAACTATATAGTTTATA
1 TATAAATTATATAGTTTATA
*
17540 TACT-AACTATATAGTTTATA
1 TA-TAAATTATATAGTTTATA
17560 TA
1 TA
17562 CTAACTATAG
Statistics
Matches: 175, Mismatches: 29, Indels: 52
0.68 0.11 0.20
Matches are distributed among these distances:
17 5 0.03
18 25 0.14
19 8 0.05
20 60 0.34
21 9 0.05
22 35 0.20
23 14 0.08
24 2 0.01
25 3 0.02
26 6 0.03
27 8 0.05
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (20 bp):
TATAAATTATATAGTTTATA
Found at i:17356 original size:13 final size:13
Alignment explanation
Indices: 17301--17366 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
17291 ATTATAAATA
*
17301 ATATATATTGTAT
1 ATATATATAGTAT
* *
17314 ACATTATATAGTTT
1 ATA-TATATAGTAT
*
17328 AT-TA-ATA-TAA
1 ATATATATAGTAT
*
17338 AT-TATATAGTTT
1 ATATATATAGTAT
17350 ATATATATAGTAT
1 ATATATATAGTAT
17363 ATAT
1 ATAT
17367 GGTTTAGGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 5 0.12
13 15 0.38
14 9 0.22
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATATATAGTAT
Found at i:17500 original size:38 final size:38
Alignment explanation
Indices: 17454--17591 Score: 162
Period size: 38 Copynumber: 3.7 Consensus size: 38
17444 TACTAAGGTT
17454 TATA-TTTATATA-TGAAATATAGTTTACATATAAACTA
1 TATAGTTTATATACT-AAATATAGTTTACATATAAACTA
*
17491 TATAGTTTATATACTAACTATAGTTTACATATAAACTA
1 TATAGTTTATATACTAAATATAGTTTACATATAAACTA
*
17529 TATAGTTTATATACTAACTATATAGTTTATATACT-AAC--
1 TATAGTTTATATACTAA--ATATAGTTTACATA-TAAACTA
*
17567 TATAGTTTACATA-TAAACTATAGTT
1 TATAGTTTATATACTAAA-TATAGTT
17592 AATATTTACA
Statistics
Matches: 91, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
35 1 0.01
36 7 0.08
37 7 0.08
38 59 0.65
39 1 0.01
40 15 0.16
41 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (38 bp):
TATAGTTTATATACTAAATATAGTTTACATATAAACTA
Found at i:17619 original size:18 final size:17
Alignment explanation
Indices: 17596--17630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
17586 ATAGTTAATA
17596 TTTACATATGAACTATAG
1 TTTACATAT-AACTATAG
17614 TTTACATATGAACTATA
1 TTTACATAT-AACTATA
17631 TATATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (17 bp):
TTTACATATAACTATAG
Found at i:17648 original size:33 final size:32
Alignment explanation
Indices: 17609--17728 Score: 119
Period size: 33 Copynumber: 3.9 Consensus size: 32
17599 ACATATGAAC
17609 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGAACTATATATATAAA-TA
*
17642 TATAGTTTACATATGACCTATATATAT--ATA
1 TATAGTTTACATATGAACTATATATATAAATA
* * *
17672 TATA-TATA-ATAGTTG-A-TATTTATAT-ACTA
1 TATAGTTTACATA--TGAACTATATATATAAATA
*
17701 TATAGTTTACATATGACCTATATATATA
1 TATAGTTTACATATGAACTATATATATA
17729 CTATAGTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
28 11 0.15
29 11 0.15
30 11 0.15
31 12 0.17
33 26 0.37
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (32 bp):
TATAGTTTACATATGAACTATATATATAAATA
Found at i:17667 original size:2 final size:2
Alignment explanation
Indices: 17660--17789 Score: 68
Period size: 2 Copynumber: 61.0 Consensus size: 2
17650 ACATATGACC
*
17660 TA TA TA TA TA TA TA TA TA TA -A TA GT- TGA TA TT TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA -TA
* * ** * *
17701 TA TA GTT TA CA TA TGA CC TA TA TA TA TA CTA TA GTT TA TA TT TA
1 TA TA -TA TA TA TA T-A TA TA TA TA TA TA -TA TA -TA TA TA TA TA
*
17745 TA TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
17788 TA
1 TA
17790 ATTTACATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
1 3 0.03
2 79 0.81
3 16 0.16
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17695 original size:22 final size:22
Alignment explanation
Indices: 17665--17775 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 22
17655 TGACCTATAT
17665 ATATATATATA-TATAATAGTTG
1 ATATATATATACTAT-ATAGTTG
* *
17687 ATATTTATATACTATATAGTTTAC
1 ATATATATATACTATATAG-TT-G
* *
17711 ATATGACCTATATATATACTATAGTTT
1 ATAT-A--TATATA-CTA-TATAGTTG
*
17738 ATATTTATATACTATATA-TT-
1 ATATATATATACTATATAGTTG
*
17758 ATATATATAAACTATATA
1 ATATATATATACTATATA
17776 TACTATATAG
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
20 16 0.22
21 2 0.03
22 18 0.25
23 7 0.10
24 10 0.14
27 10 0.14
28 4 0.06
29 5 0.07
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (22 bp):
ATATATATATACTATATAGTTG
Found at i:17714 original size:18 final size:19
Alignment explanation
Indices: 17470--17724 Score: 153
Period size: 20 Copynumber: 13.3 Consensus size: 19
17460 TATATATGAA
17470 ATATAGTTTACATATAAACT
1 ATATAGTTTACATAT-AACT
*
17490 ATATAGTTTATATACTAAC-
1 ATATAGTTTACATA-TAACT
17509 -TATAGTTTACATATAAACT
1 ATATAGTTTACATAT-AACT
*
17528 ATATAGTTTATATACTAACT
1 ATATAGTTTACATA-TAACT
*
17548 ATATAGTTTATATACTAAC-
1 ATATAGTTTACATA-TAACT
17567 -TATAGTTTACATATAAACT
1 ATATAGTTTACATAT-AACT
*
17586 ATAGTTAATATTTACATATGAAC-
1 ATA--T-A-GTTTACATAT-AACT
17609 -TATAGTTTACATATGAACT
1 ATATAGTTTACATAT-AACT
17628 ATATA---T--ATA-AACT
1 ATATAGTTTACATATAACT
*
17641 ATATAGTTTACATATGACCT
1 ATATAGTTTACATAT-AACT
* *
17661 ATATA-TATATATAT-A-T
1 ATATAGTTTACATATAACT
**
17677 ATAATAGTTGATATTTATATACT
1 AT-ATAGTT--TACATATA-ACT
*
17700 ATATAGTTTACATATGACCT
1 ATATAGTTTACATAT-AACT
17720 ATATA
1 ATATA
17725 TATACTATAG
Statistics
Matches: 190, Mismatches: 16, Indels: 58
0.72 0.06 0.22
Matches are distributed among these distances:
13 9 0.05
15 3 0.02
16 4 0.02
17 6 0.03
18 47 0.25
19 8 0.04
20 84 0.44
21 3 0.02
22 10 0.05
23 4 0.02
24 12 0.06
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (19 bp):
ATATAGTTTACATATAACT
Found at i:17726 original size:51 final size:50
Alignment explanation
Indices: 17668--17786 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 50
17658 CCTATATATA
* *
17668 TATATATATATAATAGTTGATATTTATATACTATATAGTT-TACATATGACC
1 TATATATATAT-ATAGTTGATATTTATATACTATATA-TTATACATATAAAC
* *
17719 TATATATATACTATAGTTTATATTTATATACTATATATTATATATATAAAC
1 TATATATATA-TATAGTTGATATTTATATACTATATATTATACATATAAAC
17770 TATATATACTATATAGT
1 TATATATA-TATATAGT
17787 ATAATTTACA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.03
51 56 0.92
52 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (50 bp):
TATATATATATATAGTTGATATTTATATACTATATATTATACATATAAAC
Found at i:17733 original size:9 final size:9
Alignment explanation
Indices: 17721--17784 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
17711 ATATGACCTA
17721 TATATATAC
1 TATATATAC
17730 TATAGTTTATA-
1 TATA---TATAC
*
17741 TTTATATAC
1 TATATATAC
17750 TATATATTA-
1 TATATA-TAC
17759 TATATATAAAC
1 TATATAT--AC
17770 TATATATAC
1 TATATATAC
17779 TATATA
1 TATATA
17785 GTATAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
8 5 0.11
9 23 0.51
10 3 0.07
11 10 0.22
12 4 0.09
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (9 bp):
TATATATAC
Found at i:17748 original size:20 final size:20
Alignment explanation
Indices: 17719--17789 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
17709 ACATATGACC
17719 TATATATATACTATAGT-TTA
1 TATATATATACTATA-TATTA
*
17739 TATTTATATACTATATATTA
1 TATATATATACTATATATTA
*
17759 TATATATAAACTATATA-TA
1 TATATATATACTATATATTA
17778 CTATATAGTATA
1 -TATATA-TATA
17790 ATTTACATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (20 bp):
TATATATATACTATATATTA
Found at i:17774 original size:33 final size:32
Alignment explanation
Indices: 17737--17975 Score: 106
Period size: 33 Copynumber: 7.4 Consensus size: 32
17727 TACTATAGTT
17737 TATATTTATATACTATATATTATATATATAAAC
1 TATATTTATATA-TATATATTATATATATAAAC
* * *
17770 TATATATACTATATAGTATAATT-TACATATGAAC
1 TATATTTA-TATATA-TAT-ATTATATATATAAAC
* * **
17804 TATA--TATA-A-A-A-ATTCTAAACCCTAAAC
1 TATATTTATATATATATATTATATA-TATAAAC
* *
17831 TATACATTATATA-ATTTATTAGTATATATAAAC
1 TATA-TTTATATATATATATTA-TATATATAAAC
* * **
17864 TATATATATATAGACTATATGGTATATATAAAC
1 TATATTTATATATA-TATATTATATATATAAAC
* * *
17897 TATACATTATATAGT-T-CATTAGTATACATAAAC
1 TATA-TTTATATA-TATATATTA-TATATATAAAC
*
17930 TATATATTATATAGT-T-CATTAGTATATATAAAC
1 TATAT-TTATATA-TATATATTA-TATATATAAAC
17963 TATATATTATATA
1 TATAT-TTATATA
17976 GTTCATTGGT
Statistics
Matches: 162, Mismatches: 26, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.02
26 3 0.02
27 9 0.06
29 1 0.01
30 5 0.03
31 4 0.02
32 10 0.06
33 91 0.56
34 33 0.20
35 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.42
Consensus pattern (32 bp):
TATATTTATATATATATATTATATATATAAAC
Found at i:17806 original size:34 final size:36
Alignment explanation
Indices: 17743--17811 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
17733 AGTTTATATT
*
17743 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
17779 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
17812 AAAATTCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:17869 original size:13 final size:15
Alignment explanation
Indices: 17853--17976 Score: 54
Period size: 16 Copynumber: 7.6 Consensus size: 15
17843 AATTTATTAG
*
17853 TATATATAAACTATA
1 TATATATAGACTATA
17868 TATATATAGACTATA
1 TATATATAGACTATA
*
17883 TGGTATATATAAACTATA
1 ---TATATATAGACTATA
* *
17901 CATTATATAG-TTCATTA
1 TA-TATATAGACT-A-TA
* *
17918 GTATACATAAACTATA
1 -TATATATAGACTATA
*
17934 TATTATATAG-TTCATTA
1 TA-TATATAGACT-A-TA
*
17951 GTATATATAAACTATA
1 -TATATATAGACTATA
17967 TATTATATAG
1 TA-TATATAG
17977 TTCATTGGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 27
0.66 0.12 0.22
Matches are distributed among these distances:
15 21 0.26
16 23 0.29
17 17 0.21
18 19 0.24
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (15 bp):
TATATATAGACTATA
Found at i:17875 original size:66 final size:66
Alignment explanation
Indices: 17804--18008 Score: 166
Period size: 66 Copynumber: 3.1 Consensus size: 66
17794 ACATATGAAC
* * * *
17804 TATATATA-AAAATTCTAAACCCTAAACTATACATTATATAATTTATTAGTATATATAAACTATA
1 TATATATACAAAATGCTAAA-CATAAACTATACATTATATAATTCATTAGTATACATAAACTATA
17868 TA
65 TA
* * * * * * *
17870 TATATAGACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATACATAAACTATAT
1 TATATATACAAAATGCTAAACATAAACTATACATTATATAATTCATTAGTATACATAAACTATAT
17935 A
66 A
* ** * * * * * * *
17936 TTATATAGTTCATTA-G-TATATATAAACTATATATTATATAGTTCATTGGTATATATAAATTAT
1 -TATATA-TACAAAATGCTAAACATAAACTATACATTATATAATTCATTAGTATACATAAACTAT
17999 ATA
64 ATA
18002 T-TATATA
1 TATATATA
18009 GTTCATTAGT
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
63 1 0.01
64 4 0.03
65 1 0.01
66 94 0.81
67 13 0.11
68 3 0.03
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (66 bp):
TATATATACAAAATGCTAAACATAAACTATACATTATATAATTCATTAGTATACATAAACTATAT
A
Found at i:17976 original size:33 final size:33
Alignment explanation
Indices: 17826--18099 Score: 334
Period size: 33 Copynumber: 8.5 Consensus size: 33
17816 TTCTAAACCC
* * *
17826 TAAACTATACATTATATAATTTATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
* *
17859 TAAACTATATA-TATATAG-ACTATATGGTATATA
1 TAAACTATATATTATATAGTTC-AT-TAGTATATA
* *
17892 TAAACTATACATTATATAGTTCATTAGTATACA
1 TAAACTATATATTATATAGTTCATTAGTATATA
17925 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
*
17958 TAAACTATATATTATATAGTTCATTGGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
*
17991 TAAATTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
* * *
18024 TAACCTATATAATATAT-G-GC---AG---ATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
*
18049 CAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
*
18082 TAAACTATATAGTATATA
1 TAAACTATATATTATATA
18100 TAAACTATAT
Statistics
Matches: 205, Mismatches: 24, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
25 17 0.08
26 1 0.00
27 1 0.00
28 2 0.01
30 2 0.01
31 1 0.00
32 9 0.04
33 162 0.79
34 9 0.04
35 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (33 bp):
TAAACTATATATTATATAGTTCATTAGTATATA
Found at i:18063 original size:58 final size:58
Alignment explanation
Indices: 17926--18098 Score: 211
Period size: 58 Copynumber: 2.8 Consensus size: 58
17916 TAGTATACAT
* * *
17926 AAACTATATATTATATAGTTCATTAGTATATATAAACTATATATTATATAGTTCATTGGTATATA
1 AAACTATATATTATATAGTTCATTAGTATATAT-AAC-CTATA-TA-ATA--T-A-TGGCAGATA
*
17991 T
58 C
*
17992 AAATTATATATTATATAGTTCATTAGTATATATAACCTATATAATATATGGCAGATAC
1 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAATATATGGCAGATAC
* *
18050 AAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATAT
1 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAATATAT
18099 ATAAACTATA
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
58 53 0.54
59 1 0.01
60 1 0.01
62 3 0.03
63 2 0.02
64 4 0.04
65 3 0.03
66 32 0.32
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (58 bp):
AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAATATATGGCAGATAC
Found at i:21379 original size:13 final size:13
Alignment explanation
Indices: 21360--21397 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
21350 TAATTTAGTG
21360 ATTATAAATAA-A
1 ATTATAAATAAGA
21372 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
21387 ATTATAAATAA
1 ATTATAAATAA
21398 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:21407 original size:19 final size:19
Alignment explanation
Indices: 21376--21493 Score: 74
Period size: 19 Copynumber: 6.5 Consensus size: 19
21366 AATAAAATTT
21376 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTATAA
21394 ATAATATAAAGAATT-TGAA
1 ATAATATAAAGAATTAT-AA
* * **
21413 TTAATATAAA-AATCAGATTT
1 ATAATATAAAGAAT--TATAA
*
21433 ATAATATACA-AA-T-T--
1 ATAATATAAAGAATTATAA
21447 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTATAA
* *
21465 AAAATATAAAGAATTGTAA
1 ATAATATAAAGAATTATAA
*
21484 TTAATATAAA
1 ATAATATAAA
21494 AACTAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
13 1 0.01
14 9 0.12
15 1 0.01
16 2 0.03
18 17 0.22
19 36 0.47
20 10 0.13
21 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (19 bp):
ATAATATAAAGAATTATAA
Found at i:21419 original size:37 final size:36
Alignment explanation
Indices: 21377--21492 Score: 114
Period size: 37 Copynumber: 3.2 Consensus size: 36
21367 ATAAAATTTA
21377 TAATATAAGAATTATAAATAATATAAAGAATTTGAAT
1 TAATATAAGAATTATAAATAATATAAAGAA-TTGAAT
* * ** *
21414 TAATATAAAAATCAGATTTATAATATACA-AATT--A-
1 TAATATAAGAAT--TATAAATAATATAAAGAATTGAAT
*
21448 TAATATAAGAATTATAAAAAATATAAAGAATTGTAAT
1 TAATATAAGAATTATAAATAATATAAAGAATTG-AAT
21485 TAATATAA
1 TAATATAA
21493 AAACTAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
32 10 0.16
33 4 0.07
34 11 0.18
35 1 0.02
36 1 0.02
37 21 0.34
38 2 0.03
39 11 0.18
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (36 bp):
TAATATAAGAATTATAAATAATATAAAGAATTGAAT
Found at i:21450 original size:14 final size:14
Alignment explanation
Indices: 21431--21464 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
21421 AAAATCAGAT
21431 TTATAATATACA-AA
1 TTATAATATA-AGAA
21445 TTATAATATAAGAA
1 TTATAATATAAGAA
21459 TTATAA
1 TTATAA
21465 AAAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
TTATAATATAAGAA
Found at i:21457 original size:71 final size:70
Alignment explanation
Indices: 21361--21495 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 70
21351 AATTTAGTGA
*
21361 TTATAAATAAAATTTATAATATAAGAATTATAAATAATATAAAGAATT-TGAATTAATATAAAAA
1 TTATAAATAAAATTTATAATATAAGAATTATAAAAAATATAAAGAATTGT-AATTAATATAAAAA
21425 TCAGAT
65 TCAGAT
21431 TTATAATATACAAA-TTATAATATAAGAATTATAAAAAATATAAAGAATTGTAATTAATATAAAA
1 TTATAA-ATA-AAATTTATAATATAAGAATTATAAAAAATATAAAGAATTGTAATTAATATAAAA
21495 A
64 A
21496 CTAAATTTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
70 6 0.10
71 51 0.84
72 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (70 bp):
TTATAAATAAAATTTATAATATAAGAATTATAAAAAATATAAAGAATTGTAATTAATATAAAAAT
CAGAT
Found at i:21548 original size:27 final size:26
Alignment explanation
Indices: 21497--21549 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
21487 ATATAAAAAC
* *
21497 TAAATTTAATTATCATAAGTTTATTA
1 TAAATTTAAATAACATAAGTTTATTA
21523 TAAATTTAAAATAACATAA-TTATATTA
1 TAAATTT-AAATAACATAAGTT-TATTA
21550 ATTGTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAATTTAAATAACATAAGTTTATTA
Found at i:21662 original size:16 final size:16
Alignment explanation
Indices: 21628--21666 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
21618 TGAGTTAATT
*
21628 ACAGGTCAGGTGCATA
1 ACAGGTCAGGTGCAAA
21644 ACAGGTCAGGTTG-AAA
1 ACAGGTCAGG-TGCAAA
21660 ACAGGTC
1 ACAGGTC
21667 GGGTAATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTGCAAA
Found at i:22665 original size:42 final size:42
Alignment explanation
Indices: 22585--22669 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
22575 ACTACACAAC
* ***
22585 TGTGGCGTTTTACTTAAAAATGCCACTAAATTGCCTACCTTT
1 TGTGGCATTTTACTTAAAAATGCCACTAAACAACCTACCTTT
* *
22627 TGTGGCATTTTTCTTAAAAATGCCACTAAACAATCTACCTTT
1 TGTGGCATTTTACTTAAAAATGCCACTAAACAACCTACCTTT
22669 T
1 T
22670 TGCAACTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (42 bp):
TGTGGCATTTTACTTAAAAATGCCACTAAACAACCTACCTTT
Found at i:24347 original size:29 final size:28
Alignment explanation
Indices: 24278--24357 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 28
24268 ATTTAACGTC
*
24278 CAATGGTATAATTGAAACGAAAATCAAAGTT
1 CAATGGTATAATT--AAC-AAAATAAAAGTT
* *
24309 CAGTGTTATAATTAACAAAATTAAAAGTT
1 CAATGGTATAATTAACAAAA-TAAAAGTT
*
24338 TAATGGTATAAATTATACAA
1 CAATGGTAT-AATTA-ACAA
24358 GGCCTAGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 4 0.10
29 16 0.40
30 5 0.12
31 15 0.38
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.31
Consensus pattern (28 bp):
CAATGGTATAATTAACAAAATAAAAGTT
Found at i:26396 original size:2 final size:2
Alignment explanation
Indices: 26389--26415 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26379 ATTAAATACT
26389 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
26416 CAAATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27286 original size:21 final size:21
Alignment explanation
Indices: 27234--27286 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
27224 ATTAAACGGA
27234 AAATATTTTTTATAAATATAT
1 AAATATTTTTTATAAATATAT
** * *
27255 CGATGATTTTTTTATATATATTT
1 AAAT-A-TTTTTTATAAATATAT
27278 AAATATTTT
1 AAATATTTT
27287 ATTACACTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
21 6 0.25
22 2 0.08
23 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
AAATATTTTTTATAAATATAT
Found at i:38147 original size:60 final size:60
Alignment explanation
Indices: 38044--38159 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
38034 GTCGGGTGAC
** *
38044 TATTTTGTAACTTTTAAAAGTTGAGGGGCTCAATAAAGCAATATTCTACAGTTAGATTAT
1 TATTTTGTAACTTTTAAAAGTTGAGGAACTCAATAAAGCAATATCCTACAGTTAGATTAT
* * * *
38104 TATTTTGTAATTTTTAATAA-TTGAGGAACTTAATAGAA-TAATATCCTATAGTTAGA
1 TATTTTGTAACTTTTAA-AAGTTGAGGAACTCAATA-AAGCAATATCCTACAGTTAGA
38160 GGATCATTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 43 0.91
61 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (60 bp):
TATTTTGTAACTTTTAAAAGTTGAGGAACTCAATAAAGCAATATCCTACAGTTAGATTAT
Found at i:38990 original size:14 final size:14
Alignment explanation
Indices: 38971--38998 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38961 TTCCAGGCAT
38971 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
38985 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
38999 GAGCATCCGA
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:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:39010 original size:20 final size:20
Alignment explanation
Indices: 38985--39072 Score: 104
Period size: 20 Copynumber: 4.2 Consensus size: 20
38975 GGCCATCCGA
38985 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
39005 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
39025 CCGAGGTCATCCGAACGAGCTAT
1 CCGAGGCCATCCG-A-GAGC-AT
* * * *
39048 GCGAGGGCATCCGAGGGCAA
1 CCGAGGCCATCCGAGAGCAT
39068 CCGAG
1 CCGAG
39073 CGAGCTATGC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
20 37 0.63
21 4 0.07
22 5 0.08
23 13 0.22
ACGTcount: A:0.25, C:0.32, G:0.33, T:0.10
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:39060 original size:33 final size:33
Alignment explanation
Indices: 39016--39109 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
39006 CGAGGCCATC
* * *
39016 CGAGAGCATCCGAGGTCATCCGAACGAGCTATG
1 CGAGGGCATCCGAGGGCAACCGAACGAGCTATG
*
39049 CGAGGGCATCCGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCATCCGAGGGCAACCGAACGAGCTATG
* * *
39082 CGAGGGAAACCGAGGGCAACCGAGCGAG
1 CGAGGGCATCCGAGGGCAACCGAACGAG
39110 GGTAGGTCGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.28, C:0.27, G:0.37, T:0.09
Consensus pattern (33 bp):
CGAGGGCATCCGAGGGCAACCGAACGAGCTATG
Found at i:39064 original size:10 final size:10
Alignment explanation
Indices: 38966--39105 Score: 82
Period size: 10 Copynumber: 13.0 Consensus size: 10
38956 CGACCTTCCA
38966 GGCATCCGAG
1 GGCATCCGAG
*
38976 GCCATCCGACCG
1 GGCATCCGA--G
38988 AGGCCATCCGAG
1 -GG-CATCCGAG
*
39000 AGCATCCGAG
1 GGCATCCGAG
*
39010 GCCATCCGAG
1 GGCATCCGAG
*
39020 AGCATCCGAG
1 GGCATCCGAG
*
39030 GTCATCCGAACG
1 GGCATCCG-A-G
* *
39042 AGCTATGCGAG
1 GGC-ATCCGAG
39053 GGCATCCGAG
1 GGCATCCGAG
*
39063 GGCAACCGAG
1 GGCATCCGAG
*
39073 CGAGCTATGCGAG
1 -G-GC-ATCCGAG
* *
39086 GGAAACCGAG
1 GGCATCCGAG
*
39096 GGCAACCGAG
1 GGCATCCGAG
39106 CGAGGGTAGG
Statistics
Matches: 99, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
10 67 0.68
11 7 0.07
12 8 0.08
13 10 0.10
14 7 0.07
ACGTcount: A:0.26, C:0.31, G:0.34, T:0.09
Consensus pattern (10 bp):
GGCATCCGAG
Found at i:39201 original size:14 final size:14
Alignment explanation
Indices: 39146--39203 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
39136 CCTGCATCGT
39146 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
*
39160 TCGAATGGCCTCGG
1 TCGGATGGCCTCGG
*
39174 TCGGAT-G-CT--T
1 TCGGATGGCCTCGG
39184 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
39198 TCGGAT
1 TCGGAT
39204 AAACAAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.17
11 1 0.03
12 4 0.11
13 1 0.03
14 24 0.67
ACGTcount: A:0.10, C:0.26, G:0.38, T:0.26
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:52496 original size:38 final size:37
Alignment explanation
Indices: 52419--52496 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
52409 TTTTTATATT
*
52419 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
52456 TTTAATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAAAAAAATTATATAAATATTAT-CAA
52494 TTT
1 TTT
52497 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:52652 original size:16 final size:18
Alignment explanation
Indices: 52631--52675 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
52621 AACATTCCCA
52631 GTAATCTTATTC-C-CTG
1 GTAATCTTATTCTCACTG
52647 GTAATCTTTTATTCTCACTG
1 GTAATC--TTATTCTCACTG
52667 GTAATCTTA
1 GTAATCTTA
52676 CATTCTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.24
18 9 0.36
19 1 0.04
20 9 0.36
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (18 bp):
GTAATCTTATTCTCACTG
Found at i:52680 original size:20 final size:20
Alignment explanation
Indices: 52644--52681 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52634 ATCTTATTCC
**
52644 CTGGTAATCTTTTATTCTCA
1 CTGGTAATCTTACATTCTCA
52664 CTGGTAATCTTACATTCT
1 CTGGTAATCTTACATTCT
52682 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTACATTCTCA
Found at i:53305 original size:15 final size:14
Alignment explanation
Indices: 53287--53321 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
53277 TTTATGTTTG
53287 TTATATTTATAATAT
1 TTATATTTAT-ATAT
53302 TTATATTTATATAT
1 TTATATTTATATAT
*
53316 GTATAT
1 TTATAT
53322 ATTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TTATATTTATATAT
Found at i:53949 original size:63 final size:62
Alignment explanation
Indices: 53870--54050 Score: 204
Period size: 62 Copynumber: 2.9 Consensus size: 62
53860 TCAATCTAAA
** * *
53870 TACCCAACATTTTAAAGTTACTATTTAAGGTATTTGACAGCTAAAAGACGTTAAAAAATTCGT
1 TACCCAACATTTTAAAGTTACTATTTAAGGTACATGACCG-TAAAAGACGTTAAAAAACTCGT
** * * * *
53933 TGTCCAACTTTTTAAAGTTACCATTTAAGGTACATGTCCGTCAAAAGATGTT-AAAAACTCGT
1 TACCCAACATTTTAAAGTTACTATTTAAGGTACATGACCGT-AAAAGACGTTAAAAAACTCGT
* *
53995 TACCCGACATTTTAAAGTTA-TCATTTAAGGTACCTGACCGTTAAAAGACGTTAAAA
1 TACCCAACATTTTAAAGTTACT-ATTTAAGGTACATGACCG-TAAAAGACGTTAAAA
54051 GTTCGCTACT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
62 51 0.53
63 45 0.47
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (62 bp):
TACCCAACATTTTAAAGTTACTATTTAAGGTACATGACCGTAAAAGACGTTAAAAAACTCGT
Found at i:55283 original size:2 final size:2
Alignment explanation
Indices: 55276--55303 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55266 ATGACTCACA
55276 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
55304 GAAAAACAAC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.