Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007163.1 Hibiscus syriacus cultivar Beakdansim tig00018773_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: 90269
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:4608 original size:24 final size:24
Alignment explanation
Indices: 4554--4602 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
4544 TTTGAACTTG
4554 AAATTTAGATAAATCATTAATTTA
1 AAATTTAGATAAATCATTAATTTA
4578 AAATTTAGATAAAAT-ATTAATTTA
1 AAATTTAGAT-AAATCATTAATTTA
4602 A
1 A
4603 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATTTAGATAAATCATTAATTTA
Found at i:7771 original size:34 final size:34
Alignment explanation
Indices: 7725--7934 Score: 368
Period size: 34 Copynumber: 6.2 Consensus size: 34
7715 AGGTCAGAAG
*
7725 TCGCGTTTTGC-AAAAGACGAATTCCATGCATTTC
1 TCGCGTTCTGCAAAAAG-CGAATTCCATGCATTTC
7759 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
*
7793 TCGCGATCTGCAAAAAGCGAATTCCATGCATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
*
7827 TCGCGTTCTGCAAAAAGCGAATTCTATGCATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
7861 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
*
7895 TCGCGATCTGCAAAAAGCGAATTCCATGCATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
7929 TCGCGT
1 TCGCGT
7935 CCAAGTTCTT
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
34 163 0.97
35 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (34 bp):
TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
Found at i:8483 original size:59 final size:57
Alignment explanation
Indices: 8418--8555 Score: 143
Period size: 59 Copynumber: 2.4 Consensus size: 57
8408 GGAAAAGTAC
* *
8418 ATAAATGGTCCCCCAACTATTGG-GTCTACTATATTGAGTCCCCTGACTATTAAAAGTT
1 ATAAATGGTCACCCGACTATTGGAGT-TACT-TATTGAGTCCCCTGACTATTAAAAGTT
* ** * * * **
8476 ATAAAATGGTCTCTTGACTATAGGATGTTGCTTGTTGAGTCCTTTGACTATTAAAAGTT
1 AT-AAATGGTCACCCGACTATTGGA-GTTACTTATTGAGTCCCCTGACTATTAAAAGTT
8535 ATAAATGGTCACCCGACTATT
1 ATAAATGGTCACCCGACTATT
8556 CATTTTTTCC
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
58 17 0.27
59 42 0.66
60 3 0.05
61 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (57 bp):
ATAAATGGTCACCCGACTATTGGAGTTACTTATTGAGTCCCCTGACTATTAAAAGTT
Found at i:8852 original size:59 final size:60
Alignment explanation
Indices: 8750--8893 Score: 143
Period size: 59 Copynumber: 2.4 Consensus size: 60
8740 CATAATGAAT
* * * *
8750 AGTCG-GGTAATCATTT-TGTAGCTTTTAATAGTCGGAGAACTCAATAAAGCAACATCATAA
1 AGTCGAGG-AATCATTTATATA-CTTTTAATAGTCAGAGAACTCAACAAAGCAACACCATAA
* * * * *
8810 AGTCGAGGGATCATTTATA-ACTTTTTATAGTCA-AGAGACTCAACAAAGTAACACCCTAT
1 AGTCGAGGAATCATTTATATACTTTTAATAGTCAGAGA-ACTCAACAAAGCAACACCATAA
*
8869 AGTCGATGAATCATTTATATACTTT
1 AGTCGAGGAATCATTTATATACTTT
8894 ATTCTTTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
58 3 0.04
59 45 0.65
60 18 0.26
61 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (60 bp):
AGTCGAGGAATCATTTATATACTTTTAATAGTCAGAGAACTCAACAAAGCAACACCATAA
Found at i:10978 original size:18 final size:18
Alignment explanation
Indices: 10955--10990 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10945 TCCATCGACT
10955 ATTAAAAGTTACAAAATG
1 ATTAAAAGTTACAAAATG
10973 ATTAAAAGTTACAAAATG
1 ATTAAAAGTTACAAAATG
10991 GACACTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (18 bp):
ATTAAAAGTTACAAAATG
Found at i:13187 original size:315 final size:316
Alignment explanation
Indices: 12612--15453 Score: 4646
Period size: 315 Copynumber: 9.0 Consensus size: 316
12602 AACAGATTCA
* *
12612 TCACTAAGTTTATTGCTATCCAGTTTGAGCTTTTCGTTTTGCTCGGTTACACTCTGAAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
* * *
12677 TTCTTTGGCTGTTAAATTCACTTTCGATTCGGCTAAATCGGCCTCTAACTTCTTAAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* * * * *
12742 CAAGTTCCAATTGTTGTC-CGATCTTCGAATTCAGCTCCTCGTTTTTAGTGGAAATACTCAGCAA
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
*
12806 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
* *
12871 CCGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
* *
12927 TCTCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCCTCGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
* * *
12992 TTCTTTGGCTGTTAAATTCACTTTCGATTCGGCTAAATCGGCCTCTAACTTCTTAAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* * * * *
13057 CAAGTTCCAATTGTTGTC-CGATCTTCGAATTCAGCTCCTCGTTTTTAGTGGAAATACTCAGCAA
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
*
13121 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
* *
13186 CCGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
* *
13242 TCTCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCCTCGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
*
13307 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGACTAAATCGGCCTCTAACTTCTTCAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* *
13372 CAAGTTCCAGTTGTT-CCTCGATCTTCGAATTCAGCTCCTCATTTTTAGCCGAAAGACTCAGCAG
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
** **
13436 TTCAGTCTCCTTATCTGTTAAACTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
13501 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
*
13557 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTTCTCGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
* *
13622 TTCTTTGGCTGTTAAATTCGCTTTCGATTCGGCTAAGTCGGCCTCTAACTTCTTCAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* * * *
13687 CAAGTTCCAGTTG-TCCCTCGATCTTCGAATACAGCTCCTCGATTTCAGTCGAAAGACTCAGCAG
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
* * * *
13751 TTCAGTCTCCCTATCCAATAACTTGGCTCTCGAATCTTCGACTTCGGCTTTCGTTTTCTTTAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
*
13816 CGGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
13872 TCACTAAGTTTATTGCTATCCAGTTTGAGCT-TTACGTTTTGCTCGGTTACACTCTGCAGCTTGA
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTT-CGTTTTGCTCGGTTACACTCTGCAGCTTGA
**
13936 TTTCTTTGGCTGTTAAATTCGCTTTCAATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATT
65 TTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATT
* * *
14001 GCAAGTTCCAGTTGTT-CCTCGATCTTCGAATTCAGCTCCTCATTTTTAG-CCAGAACACTCAGC
130 GCAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGA-AAGACTCAGC
* * * * * **
14064 AGTTCAATCTCCTTATCCGTTGATTTGGATCTCGATTCTTCGATTTTTGCTTTCGTTTTCTTTAA
194 AGTTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAA
14129 TTCGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
259 TTCGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
* *
14187 TCACTAAGTTTATTGCTATCCAGTTTGAGCTTTTCGTTTTGCTCGGTTACACTCTGCAACTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
*
14252 TTCTTTGGCTGTTAAATTCGCTTTTAATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* *
14317 CAAGTTCCAGTTGTT-CCTCGATCTTCGAATTCAGCTCCTTGTTTTTGGTCGAAAGACTCAGCAG
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
** *
14381 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTTTGCTTTCGTTTTCTTCAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
*
14446 CGGCTTCGAGTTCCGACGCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
* *
14502 TCGCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCACGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
* * *
14567 TTCTTTGGCTGTTAAATTCGATTTTGATTCGTCTAGATCGGCCTCTAACTTCTTCAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* *
14632 CAAGTTCCAGTTGTTG-CTCGATCTTCGAATTCAGCTCCTTGTTTTTAGTCGAAATACTCAGCAG
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
** *
14696 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTTTGCTTTCGTTTTCTTTAATC
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
*
14761 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTATTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
*
14817 TCTCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
**
14882 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAGGTCGGCCTCTAACTTCTTCAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* *
14947 CAAGTTCCAGTTGTTG-CTCGATCTTCGAATTCAGCTCCTCATTTTTAGCCGAAAGACTCAGCAG
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
** **
15011 TTCAGTCTCCTTATCTGTTAAGCTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
*
15076 CGGCTTCGTGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
* * *
15132 TCGCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCCTTCTGCTCGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
* *
15197 TTCTTTGGCTGTTAAATTTGCTTTTGATTCGGCTAAATCGGCCTCCAACTTCTTCAACTCCATTG
66 TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
* * *
15262 CAAGTTCCAGTTGTTG-CTCGATCTTCGAATTCAGCTGCTCGTTTTTAGTTGAAATACTCAGCAG
131 CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
* *
15326 TTCAGTCTCCTTATCCGTTAAGTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
196 TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
* * * * *
15391 CGGCTTCGAGTTCTGACTCCCTCTGGCATGATTGTGATCGTACGCATTTCACTTGC
261 CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
15447 TCA-TAAG
1 TCACTAAG
15454 CGCTTCTGAT
Statistics
Matches: 2391, Mismatches: 128, Indels: 17
0.94 0.05 0.01
Matches are distributed among these distances:
314 10 0.00
315 2376 0.99
316 5 0.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (316 bp):
TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTGCTCGGTTACACTCTGCAGCTTGAT
TTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAATCGGCCTCTAACTTCTTCAACTCCATTG
CAAGTTCCAGTTGTTGCCTCGATCTTCGAATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG
TTCAGTCTCCTTATCCATTAATTTGGCTCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATT
CGGCTTCGAGTTCCGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
Found at i:16800 original size:2 final size:2
Alignment explanation
Indices: 16793--16817 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16783 CAAACACGTG
16793 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 T
16818 GTATGTATGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16822 original size:4 final size:4
Alignment explanation
Indices: 16815--16872 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
16805 TATATATATA
16815 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
16863 TATG TATG TA
1 TATG TATG TA
16873 AACTAATGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:19644 original size:444 final size:439
Alignment explanation
Indices: 18803--19682 Score: 1352
Period size: 444 Copynumber: 2.0 Consensus size: 439
18793 AAACCTTCCT
* *
18803 CTAAAATTTAGGGTAAATTACACGTTTAGTAATTAAGCTATCAGTTTTGTTCATTTTTAGTACCT
1 CTAAAATTTAGGGTAAATTACACGTTTAGAAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
* * * *
18868 AAACTTTTAATTTTTTTAAAAAATCATGCCTAAAGTTTAGTTTTTGTTTCATTTTAGTACCCCCG
66 AAACTTTTAATTTTTTTAAAAAATCAT-CATAAAGCTTAGTTTTTGTTTCAATTTAGTACCCACG
* *
18933 TTCAAAATTTAACTTTAAATTTTGAAGAAAAAAATGAAAGTTTCGGCACTAAAATGGATCAGGAA
130 TTCAAAATTTAACTTTAAATTTTGAAGAAAAAAATGAAAGCTTCGGCACTAAAATGGACCAGGAA
*
18998 CTAAACGCGTTTAAATTTTTAACAATGGGTACTAAAATGAAACAAAAGCTAAACTTTAAGTATGA
195 CTAAACGCGTTTAAATTTTTAACAAGGGGTACTAAAATGAAACAAAAGCTAAACTTTAAGTATGA
* * * *
19063 TTTTGAAAAAATTAAAAAATTAGATACTAAAATGGACCAAAACTAATAATTTAGATATTGAATGT
260 TTTTGAAAAAATTAAAAAATTAGATACTAAAACGGACAAAAACTAATAATTTAGATACTGAATGC
*
19128 GTAGTTTACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATATGTCTT
325 GTAGTTGACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATATGTCTT
*
19193 GCATTGTAATTAAACCTTCCTTTTCTTTCTCATCTATTTAAGGATACAAG
390 GCATTGTAATTAAACCTTCCTTTCCTTTCTCATCTATTTAAGGATACAAG
19243 CTAAAATTTAGGGTAAATTACACGTTTAGAAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
1 CTAAAATTTAGGGTAAATTACACGTTTAGAAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
* *
19308 AAACTTTTAATTTTTTTAAAACCAT-AT-ATAAAAGCTTAGTTTTTTTGTTTCAATTTAGTACTC
66 AAACTTTTAATTTTTTTAAAA-AATCATCAT-AAAGCTTAG--TTTTTGTTTCAATTTAGTACCC
* * * *
19371 ATGTTCAAAATTTAACTTTAATTTTTTTAA-AAAAAAATTGAAAGCTTCGGTACTAAAATGGACC
127 ACGTTCAAAATTTAACTTTAA-ATTTTGAAGAAAAAAA-TGAAAGCTTCGGCACTAAAATGGACC
* ** * * *
19435 AGGAACTAAACGCGTTTAAGTTTTTAACGGCGGGGTACTAAAATGAAATAAAAGTTAAACTTTAG
190 AGGAACTAAACGCGTTTAAATTTTTAAC-AAGGGGTACTAAAATGAAACAAAAGCTAAACTTTAA
* * * * *
19500 GTATGGTTTTGAAAAAAATTAAAAATTTAGGTATTAAAACGGACAAAAACTAATAATTTAGGTAC
254 GTATGATTTTG-AAAAAATTAAAAAATTAGATACTAAAACGGACAAAAACTAATAATTTAGATAC
* *
19565 TGAATGCGTAGTTGACGTACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATGT
318 TGAATGCGTAGTTGACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATAT
19630 ATGTCTTGCATTGTAATTAAACCTTCCTTTCCTTTCTCATCTATTTAAGGATA
383 ATGTCTTGCATTGTAATTAAACCTTCCTTTCCTTTCTCATCTATTTAAGGATA
19683 GATACTAAGA
Statistics
Matches: 398, Mismatches: 34, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
438 1 0.00
439 8 0.02
440 86 0.22
441 48 0.12
442 56 0.14
443 40 0.10
444 159 0.40
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (439 bp):
CTAAAATTTAGGGTAAATTACACGTTTAGAAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
AAACTTTTAATTTTTTTAAAAAATCATCATAAAGCTTAGTTTTTGTTTCAATTTAGTACCCACGT
TCAAAATTTAACTTTAAATTTTGAAGAAAAAAATGAAAGCTTCGGCACTAAAATGGACCAGGAAC
TAAACGCGTTTAAATTTTTAACAAGGGGTACTAAAATGAAACAAAAGCTAAACTTTAAGTATGAT
TTTGAAAAAATTAAAAAATTAGATACTAAAACGGACAAAAACTAATAATTTAGATACTGAATGCG
TAGTTGACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATATGTCTTG
CATTGTAATTAAACCTTCCTTTCCTTTCTCATCTATTTAAGGATACAAG
Found at i:23552 original size:47 final size:48
Alignment explanation
Indices: 23483--23580 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 48
23473 TTTATATTAG
* *
23483 AAGTCGAACTCGAACATATAAAATCTTAG-AGACAAACTTAAATTTAT
1 AAGTCGAACTCGAACATATAAAATCTTAGAAAAAAAACTTAAATTTAT
* *
23530 AAGTCGAACTCGAACTTATAAAATCTTAGAAAAAAAATTTAAATTTAT
1 AAGTCGAACTCGAACATATAAAATCTTAGAAAAAAAACTTAAATTTAT
23578 AAG
1 AAG
23581 ATTTTAAGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 28 0.61
48 18 0.39
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (48 bp):
AAGTCGAACTCGAACATATAAAATCTTAGAAAAAAAACTTAAATTTAT
Found at i:23624 original size:17 final size:17
Alignment explanation
Indices: 23602--23635 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23592 CAAAAATAAA
23602 TTTAAATATATAATTTT
1 TTTAAATATATAATTTT
23619 TTTAAATATATAATTTT
1 TTTAAATATATAATTTT
23636 AAATTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAATATATAATTTT
Found at i:23635 original size:15 final size:15
Alignment explanation
Indices: 23602--23639 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
23592 CAAAAATAAA
23602 TTTAAATATATAATTTT
1 TTTAAATATATAA--TT
23619 TTTAAATATATAA-T
1 TTTAAATATATAATT
23633 TTTAAAT
1 TTTAAAT
23640 TTTCAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
17 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAAATATATAATT
Found at i:23637 original size:14 final size:14
Alignment explanation
Indices: 23597--23639 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 14
23587 AGAGACAAAA
*
23597 ATAAATTTAAATAT
1 ATAATTTTAAATAT
23611 ATAATTTTTTTAAATAT
1 ATAA---TTTTAAATAT
23628 ATAATTTTAAAT
1 ATAATTTTAAAT
23640 TTTCAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 12 0.48
17 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATTTTAAATAT
Found at i:26050 original size:19 final size:20
Alignment explanation
Indices: 26028--26073 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
26018 AAATTATATA
*
26028 TTTAAAATAACACGTAAA-T
1 TTTAAAATAACACCTAAATT
*
26047 TTTAAAATAACTCCTAAATT
1 TTTAAAATAACACCTAAATT
26067 TTTAAAA
1 TTTAAAA
26074 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (20 bp):
TTTAAAATAACACCTAAATT
Found at i:31484 original size:30 final size:30
Alignment explanation
Indices: 31438--31512 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
31428 AAATGAGAGC
*
31438 TTAAGTATTAAAACGAACCAGAATTGATAGT
1 TTAAGTATT-AAACGAACCAGAATTGATAAT
31469 TTAAGTATTAAACGAACCAGAATTGATAAT
1 TTAAGTATTAAACGAACCAGAATTGATAAT
31499 TTAAGTATTAAACG
1 TTAAGTATTAAACG
31513 CGTATCTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 34 0.79
31 9 0.21
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (30 bp):
TTAAGTATTAAACGAACCAGAATTGATAAT
Found at i:41054 original size:3 final size:3
Alignment explanation
Indices: 41046--41070 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
41036 TTAGTACAGC
41046 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
41071 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:41516 original size:14 final size:14
Alignment explanation
Indices: 41497--41539 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
41487 GTGTAATATT
41497 ATAAATAGTTTT-TA
1 ATAAATA-TTTTATA
41511 ATAAATATTTTATA
1 ATAAATATTTTATA
41525 AT-AAT-TTTTATA
1 ATAAATATTTTATA
41537 ATA
1 ATA
41540 TTTAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATAAATATTTTATA
Found at i:41518 original size:23 final size:22
Alignment explanation
Indices: 41490--41541 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
41480 TTAGTTCGTG
*
41490 TAATATTATA-AATAGTTTTTAA
1 TAATATTATATAATAATTTTT-A
*
41512 TAAATATTTTATAATAATTTTTA
1 T-AATATTATATAATAATTTTTA
41535 TAATATT
1 TAATATT
41542 TAATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTATATAATAATTTTTA
Found at i:53588 original size:14 final size:14
Alignment explanation
Indices: 53569--53611 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
53559 GTGTAATATT
53569 ATAAATAGTTTT-TA
1 ATAAATA-TTTTATA
53583 ATAAATATTTTATA
1 ATAAATATTTTATA
53597 AT-AAT-TTTTATA
1 ATAAATATTTTATA
53609 ATA
1 ATA
53612 TTTAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATAAATATTTTATA
Found at i:53590 original size:23 final size:22
Alignment explanation
Indices: 53562--53613 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
53552 TTAGTTCGTG
*
53562 TAATATTATA-AATAGTTTTTAA
1 TAATATTATATAATAATTTTT-A
*
53584 TAAATATTTTATAATAATTTTTA
1 T-AATATTATATAATAATTTTTA
53607 TAATATT
1 TAATATT
53614 TAATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTATATAATAATTTTTA
Found at i:61858 original size:17 final size:16
Alignment explanation
Indices: 61816--61859 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
61806 AATGGCCCTT
*
61816 TATGATTATTGATTGA
1 TATGATTATTGACTGA
61832 TACTTGATTATGTGACTGA
1 TA--TGATTAT-TGACTGA
61851 TATGATTAT
1 TATGATTAT
61860 CAATTATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 7 0.29
18 7 0.29
19 8 0.33
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (16 bp):
TATGATTATTGACTGA
Found at i:64142 original size:258 final size:243
Alignment explanation
Indices: 63839--64314 Score: 709
Period size: 258 Copynumber: 1.9 Consensus size: 243
63829 TTTGGTCGGG
*
63839 TCGGGTCAGGTTTAGGGTGAAAATACCCGACCCGACCCGAAAAAATATATAATTTTACCTTATAT
1 TCGGGTCAGGTTTAGGGTGAAAATACCCGACCCGACCCAAAAAAATATATAATTTTACCTTATAT
63904 ATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTTTTCAATTAAGTCACTGTTT
66 ATTTAGGAATAATTACAATAATACCCCTCTATATAT-A---TTTTTTTCAATTAAGTCACTGTTT
*
63969 TTATTGAATAAAAATATTTTTTATTATTTCAGGTTGAGTCGGGTCGAGTTTCTAATTCATATATT
127 TTATTGAAT---AATATTTTTTATTATTTC--G--G-GTCGAGTCGAGTTTCTAATTC--ATATT
*
64034 CAGATTGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTCGGGTTTTTTTAAGTGTGATAC
182 CAGATCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTCGGGTTTTTTTAAGTGTGATAC
*
64096 TCGGGTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAAAATATATAATTTTACCTTATA
1 TCGGGTCAGGTTTAGGGTG-AAAATACCCGACCCGACCCAAAAAAATATATAATTTTACCTTATA
* * **
64161 TATTTAGGAATAATTATAATAATACCCCTCTATGTATATTTTTTTCAATTAAGTCGTTGTTTTTA
65 TATTTAGGAATAATTACAATAATACCCCTCTATATATATTTTTTTCAATTAAGTCACTGTTTTTA
* * * *
64226 TTGAATAATTTTTTTTATTATTTCGGGTCGAGTCGGGTTTCTAATTCATATTCGGGTCGGGTCGG
130 TTGAATAATATTTTTTATTATTTCGGGTCGAGTCGAGTTTCTAATTCATATTCAGATCGGGTCGG
64291 GTGAAACTTTATTTTGGTCGGGTC
195 GTGAAACTTTATTTTGGTCGGGTC
64315 TCGGATGGAG
Statistics
Matches: 206, Mismatches: 12, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
244 39 0.19
246 19 0.09
247 1 0.00
249 1 0.00
251 17 0.08
254 31 0.15
257 19 0.09
258 79 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (243 bp):
TCGGGTCAGGTTTAGGGTGAAAATACCCGACCCGACCCAAAAAAATATATAATTTTACCTTATAT
ATTTAGGAATAATTACAATAATACCCCTCTATATATATTTTTTTCAATTAAGTCACTGTTTTTAT
TGAATAATATTTTTTATTATTTCGGGTCGAGTCGAGTTTCTAATTCATATTCAGATCGGGTCGGG
TGAAACTTTATTTTGGTCGGGTCGGTCGGGTTTTTTTAAGTGTGATAC
Found at i:64688 original size:17 final size:17
Alignment explanation
Indices: 64666--64711 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
64656 ATGGAATTAG
64666 ATTCCAATTCCTGACAT
1 ATTCCAATTCCTGACAT
* *
64683 ATTCCAATTTCTTTACAT
1 ATTCCAA-TTCCTGACAT
*
64701 ATTTCAATTCC
1 ATTCCAATTCC
64712 CTAAAAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTCCAATTCCTGACAT
Found at i:65910 original size:19 final size:19
Alignment explanation
Indices: 65886--65940 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
65876 TTATATATAA
*
65886 TATTATAAATAATTTTTTT
1 TATTATAAATAATTTTATT
**
65905 TATTATATAA-AATAATATT
1 TATTATA-AATAATTTTATT
*
65924 TATTTTAAATAATTTTA
1 TATTATAAATAATTTTA
65941 ATCATTTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 2 0.07
19 24 0.86
20 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATAAATAATTTTATT
Found at i:66049 original size:14 final size:14
Alignment explanation
Indices: 66030--66072 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
66020 GTGTAATATT
66030 ATAAATAGTTTT-TA
1 ATAAATA-TTTTATA
66044 ATAAATATTTTATA
1 ATAAATATTTTATA
66058 AT-AAT-TTTTATA
1 ATAAATATTTTATA
66070 ATA
1 ATA
66073 TTTAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATAAATATTTTATA
Found at i:66051 original size:23 final size:22
Alignment explanation
Indices: 66023--66074 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
66013 TTAATTCGTG
*
66023 TAATATTATA-AATAGTTTTTAA
1 TAATATTATATAATAATTTTT-A
*
66045 TAAATATTTTATAATAATTTTTA
1 T-AATATTATATAATAATTTTTA
66068 TAATATT
1 TAATATT
66075 TAATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTATATAATAATTTTTA
Found at i:72565 original size:16 final size:17
Alignment explanation
Indices: 72533--72574 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
72523 AGTATTTAAA
*
72533 AATA-TTATATATTTTT
1 AATATTTATATATATTT
72549 AATATTTAT-TATATTT
1 AATATTTATATATATTT
*
72565 ATTATTTATA
1 AATATTTATA
72575 ATTTTATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATATTTATATATATTT
Found at i:72627 original size:16 final size:19
Alignment explanation
Indices: 72585--72627 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
72575 ATTTTATGAG
72585 GTAAAAATATAATATGATT
1 GTAAAAATATAATATGATT
72604 GT-AAAATATAAT-T-ATT
1 GTAAAAATATAATATGATT
72620 -TAAAAATA
1 GTAAAAATA
72628 ATCTCTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 9 0.39
17 1 0.04
18 10 0.43
19 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
GTAAAAATATAATATGATT
Found at i:78056 original size:20 final size:20
Alignment explanation
Indices: 78031--78071 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
78021 ACTTGAACGG
78031 ATGATA-TGATAGATTAACTA
1 ATGATATTG-TAGATTAACTA
78051 ATGATATTGTAGATTAACTA
1 ATGATATTGTAGATTAACTA
78071 A
1 A
78072 ATTGATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGATATTGTAGATTAACTA
Found at i:79924 original size:18 final size:18
Alignment explanation
Indices: 79903--79960 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
79893 AACTTTTTAA
79903 AAAACTTTTTTTATAAAT
1 AAAACTTTTTTTATAAAT
* * * * *
79921 AAAA-ATTATTAATTAAC
1 AAAACTTTTTTTATAAAT
79938 ACAAACTTTTTTTATAAAT
1 A-AAACTTTTTTTATAAAT
79957 AAAA
1 AAAA
79961 ATTATTAATT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
17 9 0.32
18 10 0.36
19 9 0.32
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAACTTTTTTTATAAAT
Found at i:79944 original size:36 final size:36
Alignment explanation
Indices: 79904--79976 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
79894 ACTTTTTAAA
79904 AAACTTTTTTTATAAATAAAAATTATTAATTAACAC
1 AAACTTTTTTTATAAATAAAAATTATTAATTAACAC
79940 AAACTTTTTTTATAAATAAAAATTATTAATTAACAC
1 AAACTTTTTTTATAAATAAAAATTATTAATTAACAC
79976 A
1 A
79977 TGACCAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (36 bp):
AAACTTTTTTTATAAATAAAAATTATTAATTAACAC
Found at i:83587 original size:20 final size:20
Alignment explanation
Indices: 83562--83604 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
83552 GAGTACATGC
83562 AACTAGAAATGAGATAAATA
1 AACTAGAAATGAGATAAATA
83582 AACTAGAAATGAGATAAATA
1 AACTAGAAATGAGATAAATA
83602 AAC
1 AAC
83605 GCTACTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (20 bp):
AACTAGAAATGAGATAAATA
Found at i:86064 original size:60 final size:60
Alignment explanation
Indices: 85946--86073 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
85936 ATAGTTGGGT
* *
85946 GACCATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAATAACACTCTATAATCGAAG
1 GACCATTTTATAACTTTTAATAGTTGAGAGACTCAACAAAACAACACTCTATAATCGAAG
* * ** * *
86006 GATCATTTTATAATTTTTAATAGTTGAGAGACTCAATGAAACAACACT-TCATAGTCGAAT
1 GACCATTTTATAACTTTTAATAGTTGAGAGACTCAACAAAACAACACTCT-ATAATCGAAG
86066 GACCATTT
1 GACCATTT
86074 GCATTTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.02
60 57 0.98
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAGTTGAGAGACTCAACAAAACAACACTCTATAATCGAAG
Done.