Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013697.1 Corchorus olitorius cultivar O-4 contig13730, 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: 41342
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Found at i:5816 original size:43 final size:42
Alignment explanation
Indices: 5678--6005 Score: 366
Period size: 41 Copynumber: 7.8 Consensus size: 42
5668 TAAGGAGAAA
* *
5678 TGCCTCTGTGTTATATATGTGATTGAGGACTTTTGTAATAGAG
1 TGCCCCTGTGTTATATATGTGTTTGAGGAC-TTTGTAATAGAG
* * *
5721 ATGCCCCTGTATTATATATGTGTTTGGGGACTTTG-ATATA-AA
1 -TGCCCCTGTGTTATATATGTGTTTGAGGACTTTGTA-ATAGAG
*
5763 TGCCTCTGTGTTATATATGTGTTTGAGGACTTTGTAATAGAG
1 TGCCCCTGTGTTATATATGTGTTTGAGGACTTTGTAATAGAG
*
5805 TTGCCCCTGTGTTATATATGTGTTTGGGGACTTTG-ATATAGA-
1 -TGCCCCTGTGTTATATATGTGTTTGAGGACTTTGTA-ATAGAG
* *
5847 TGCCTCTGTGTTATATATGTGTTTGAGGACTTTGTAATAAAGG
1 TGCCCCTGTGTTATATATGTGTTTGAGGACTTTGTAATAGA-G
* * *
5890 CGCCCCTGTG-T-TATATGTGTTTGGGGAC-TTGGATATAG-G
1 TGCCCCTGTGTTATATATGTGTTTGAGGACTTTGTA-ATAGAG
* * * *
5929 TGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGGAATTGAAT
1 TGCCCCTGTGTTATATATGTGTTTGAGGAC-TTTGTAATAG-AG
*
5973 TGCCCCTGTGTTATATATGTGTTTGGGGACTTT
1 TGCCCCTGTGTTATATATGTGTTTGAGGACTTT
6006 TTGGTTATTG
Statistics
Matches: 243, Mismatches: 26, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
39 9 0.04
40 5 0.02
41 105 0.43
42 10 0.04
43 60 0.25
44 54 0.22
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.42
Consensus pattern (42 bp):
TGCCCCTGTGTTATATATGTGTTTGAGGACTTTGTAATAGAG
Found at i:5829 original size:84 final size:85
Alignment explanation
Indices: 5675--6005 Score: 517
Period size: 84 Copynumber: 3.9 Consensus size: 85
5665 CCATAAGGAG
* * *
5675 AAATGCCTCTGTGTTATATATGTGATTGAGGACTTTTGTAATAGAGATGCCCCTGTATTATATAT
1 AAATGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGTAATAGAGTTGCCCCTGTGTTATATAT
5740 GTGTTTGGGGACTTTGATAT
66 GTGTTTGGGGACTTTGATAT
5760 AAATGCCTCTGTGTTATATATGTGTTTGAGGAC-TTTGTAATAGAGTTGCCCCTGTGTTATATAT
1 AAATGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGTAATAGAGTTGCCCCTGTGTTATATAT
5824 GTGTTTGGGGACTTTGATAT
66 GTGTTTGGGGACTTTGATAT
* * **
5844 AGATGCCTCTGTGTTATATATGTGTTTGAGGAC-TTTGTAATAAAGGCGCCCCTGTG-T-TATAT
1 AAATGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGTAATAGAGTTGCCCCTGTGTTATATAT
*
5906 GTGTTTGGGGACTTGGATAT
66 GTGTTTGGGGACTTTGATAT
** * * *
5926 AGGTGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGGAATTGAATTGCCCCTGTGTTATATAT
1 AAATGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGTAATAGAGTTGCCCCTGTGTTATATAT
5991 GTGTTTGGGGACTTT
66 GTGTTTGGGGACTTT
6006 TTGGTTATTG
Statistics
Matches: 227, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
82 56 0.25
83 18 0.08
84 102 0.45
85 51 0.22
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (85 bp):
AAATGCCTCTGTGTTATATATGTGTTTGAGGACTTTTGTAATAGAGTTGCCCCTGTGTTATATAT
GTGTTTGGGGACTTTGATAT
Found at i:7632 original size:3 final size:3
Alignment explanation
Indices: 7624--7649 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7614 CTCTTCCCTC
7624 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
7650 GAAGCTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19222 original size:19 final size:18
Alignment explanation
Indices: 19186--19221 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19176 CTCCTCTATC
19186 ATGAAAACATTTCTTTTT
1 ATGAAAACATTTCTTTTT
19204 ATGAAAACAATTT-TTTTT
1 ATGAAAAC-ATTTCTTTTT
19222 TTAATTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGAAAACATTTCTTTTT
Found at i:19919 original size:30 final size:30
Alignment explanation
Indices: 19880--19938 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19870 GTTTATTAAT
19880 GAAACTTGAAAATTAAAGACATAAAATAAAG
1 GAAACTTGAAAATTAAAG-CATAAAATAAAG
*
19911 GAAA-TTGAAAATTAAAGCATAAATTAAA
1 GAAACTTGAAAATTAAAGCATAAAATAAA
19939 TAACTAATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 13 0.48
31 4 0.15
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (30 bp):
GAAACTTGAAAATTAAAGCATAAAATAAAG
Found at i:29132 original size:22 final size:22
Alignment explanation
Indices: 29087--29139 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
29077 TGCTTTATGA
**
29087 TTAATTGTTTTCTTTAATTTTC
1 TTAATTGTTTTCTTTAATAGTC
*
29109 TTGATTGTTTTC-TTAGATAGTC
1 TTAATTGTTTTCTTTA-ATAGTC
29131 TTAATTGTT
1 TTAATTGTT
29140 AGTTTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (22 bp):
TTAATTGTTTTCTTTAATAGTC
Found at i:37481 original size:24 final size:22
Alignment explanation
Indices: 37450--37495 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
37440 TGTGAGTCTT
37450 ATTTTTTTT-TAGTTGGGCTTTTA
1 ATTTTTTTTCT-GTTGGG-TTTTA
37473 ATTTCTTTTTCTGTTGGGTTTTA
1 ATTT-TTTTTCTGTTGGGTTTTA
37496 TAGCCTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 11 0.52
25 1 0.05
ACGTcount: A:0.11, C:0.07, G:0.17, T:0.65
Consensus pattern (22 bp):
ATTTTTTTTCTGTTGGGTTTTA
Found at i:38683 original size:154 final size:154
Alignment explanation
Indices: 38403--41342 Score: 4272
Period size: 154 Copynumber: 19.1 Consensus size: 154
38393 AGTCCAAAAA
38403 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
** **
38468 CTCATTTATAACACTTGTTATTTTGGGCCT-TCCGGGGCCCATTAGTTCCGTTTTGAATCGTCTT
66 CTCATTTGGAACACTTGTTATTTTGGGCCTAT-CGGGGCCCATTAGTGACGTTTTGAATCGTCTT
**
38532 CGATTTGGCAAACCTCAAAACTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
*
38557 CTTTCCATAT-TTTATGGACTAAATATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
1 CTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
*
38621 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTT
*
38686 CGATTCGGCAAACCTCAATGCTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
* *
38711 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTG-ATTGTTTTA
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT-TTTTA
* *
38775 GCTCATTTGGAACACTTGTTATTTTGGGCCTA-AGGGGCCCATTAGTTACCGTTTTGAATCGTCT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGA-CGTTTTGAATCGTCT
*
38839 TACGATTTGGCAAACCTCAATGGTTTTT
129 T-CGATTTGGCAAACCTCAAT-GCTTTT
* *
38867 CTTTCCATTG-TTATGGCCTAACTATAATCATTTTGATGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* *
38931 CTCGTTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGACGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
38996 GATTTGGCAAACCTCAATGCTTTT
131 GATTTGGCAAACCTCAATGCTTTT
*
39020 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * *
39085 CTCATTTGGAACCCTTGTTATTTTGGGCCTAT-TGGGCCAATTAGTAACGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
* * * *
39149 GGTTTTGAAAACCACAATGCTTTT
131 GATTTGGCAAACCTCAATGCTTTT
* * * * **
39173 CTTTCCATTGTTTATTGCCTAACGATAATCATTTTGATGAGATTAGTCCAAGGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
*
39238 CTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGT-ACTGTTTTGAATCGTCTT
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGAC-GTTTTGAATCGTCTT
39302 CGATTTGGCAAACCTCAATGCTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
* * *
39327 CTTTCCATTGTTTAGGGACTAACTATAATCCTTTTGGTAAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * *
39392 CTCATTCGTAACACTTGTTATTTTGGGCCTATCGAGGCCCA-TAGTGACGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
* *
39456 GATTCGGCAAACC-CTAATGCTTTA
131 GATTTGGCAAACCTC-AATGCTTTT
* * *
39480 ATTTTCATTGTTTATGGACTAACTATAATCATATTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
** ** * *
39545 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCGTATTAGTTCCATTGTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
**
39610 GATTTGGCAAACCTCAAAACTTTT
131 GATTTGGCAAACCTCAATGCTTTT
* *
39634 CTTTCCATAT-TTTATGGACTAAATATAATTATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
1 CTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
* *
39698 GCTCATTTGGAACACTTATTATTTTGGGCCTATCGGGACCCATTAGTGACGTTTTGAATCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTT
*
39763 CGATTT-GCAAACCTCAAAGCTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
* * * * * * * * *
39787 GTTTTCATTGTTTAGGGACTAACTATAATCATTTTCGTAAGATTAATCCACTGTAAAGGTTTTAC
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
*
39852 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGACGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
39917 GATTTGGCAAACCTCAATGCTTTT
131 GATTTGGCAAACCTCAATGCTTTT
* * *
39941 CTTTCCATTGTTTATGGACTAACTATAATCATTTGGGTGAAATTAGTGCACTGTGAA-TTTTCTA
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTT-TA
* * *
40005 GCTCATTTGCAACACTTGTTATTTTGGGCCTATCGGGGCCTATTAGT-TCTGTTTTGAATCGTCT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGAC-GTTTTGAATCGTCT
* * *
40069 TAGATTTGGCAAACCTCAAAGATTTT
129 TCGATTTGGCAAACCTCAATGCTTTT
* * *
40095 CTTTCCATAT-TTTATGGACTAATTATTATCATTTTGGTGAGATTAGTCCACTGTG-ACTTTTTA
1 CTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
* * *
40158 ACTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACATATTGAATCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTT
*
40223 CGATTTGGGAAACCTCAATGCTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
* * * *
40248 CTTTCAATTGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* *
40313 CTCGTTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGT-ACCGTTTTGAATCGTCTT
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGA-CGTTTTGAATCGTCTT
40377 CGATTTGGCAAACCTCAATGCTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
* * *
40402 CTTTCCATTGTTTAGGGACTAACTATAATCCTTTTGGTAAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * *
40467 CTCATTTAGAACACTTGTTATTTTGGGCCAATCGAGGCCCA-TAGTGACGTTTTGAGTCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
* *
40531 GATTCGGCAAACC-CTAAAGCTTTT
131 GATTTGGCAAACCTC-AATGCTTTT
* * * *
40555 CTTTTCATTGTTTATTGACTAACTATAATCATATTGGTGGGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * **
40620 CTCATTTGGAACCCTTGTTATTTTGGGCCTTTCGGGGGCCATTAGTTTCGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
**
40685 GATTTGGCAAACCTCAAAACTTTT
131 GATTTGGCAAACCTCAATGCTTTT
* * * *
40709 CTTTGCATAT-TTTATGGACTAAATATAATCCTTTTGGTAAGATTAGTCCACTGTGAAGTTTTTA
1 CTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
* * *
40773 GCTCATTTAGAACACTTGTTATTTTGGGCCTATCGAGGCCCA-TAGTGACGTTTTGAGTCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTT
* *
40837 CGATTCGGCAAACC-CTAAAGCTTTT
130 CGATTTGGCAAACCTC-AATGCTTTT
* *
40862 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGATGAGATTAGTCCACTGTGAAGTTTTTAA
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
40927 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGT-ACCGTTTTGAATCGTCTT
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGA-CGTTTTGAATCGTCTT
40991 CGATTTGGCAAACCTCAATTAGTCTTTT
130 CGATTTGGCAAACCTCAA-T-G-CTTTT
*
41019 CTTTCCTATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
1 CTTTCC-ATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
* **
41084 GCTCATTTGGAACACTTGTTATTTTTGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTT
* *
41149 CGATTTGACAAACCCCAATGCTTTT
130 CGATTTGGCAAACCTCAATGCTTTT
* * *
41174 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCAGTATGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * *
41239 CTCATTTGGAACACTTGCTT-TTTTTGGCCTATCGGGGACCATTAGT-TCTATTTTGAATCGTCT
66 CTCATTTGGAACACTTG-TTATTTTGGGCCTATCGGGGCCCATTAGTGAC-GTTTTGAATCGTCT
* *
41302 TCGATTTGACAAACCCCAATGCTTTT
129 TCGATTTGGCAAACCTCAATGCTTTT
*
41328 CCTTCCATTGTTTAT
1 CTTTCCATTGTTTAT
Statistics
Matches: 2510, Mismatches: 232, Indels: 88
0.89 0.08 0.03
Matches are distributed among these distances:
152 6 0.00
153 847 0.34
154 1346 0.54
155 134 0.05
156 32 0.01
157 12 0.00
158 133 0.05
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (154 bp):
CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
GATTTGGCAAACCTCAATGCTTTT
Found at i:39311 original size:307 final size:307
Alignment explanation
Indices: 38403--41342 Score: 4246
Period size: 307 Copynumber: 9.5 Consensus size: 307
38393 AGTCCAAAAA
38403 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
** *
38468 CTCATTTATAACACTTGTTATTTTGGGCCT-TCCGGGGCCCATTAGTTCCGTTTTGAATCGTCTT
66 CTCATTTGGAACACTTGTTATTTTGGGCCTAT--GGGGCCCATTAGTACCGTTTTGAATCGTCTT
** *
38532 CGATTTGGCAAACCTCAAAACTTTTCTTTCCATAT-TTTATGGACTAAATATAATCATTTTGGTG
129 CGATTTGGCAAACCTCAATGCTTTTCTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTG
38596 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
193 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
* *
38661 CATTAGTGACGTATTGAATCGTCTTCGATTCGGCAAACCTCAATGCTTTT
258 CATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* *
38711 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTG-ATTGTTTTA
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT-TTTTA
*
38775 GCTCATTTGGAACACTTGTTATTTTGGGCCTAAGGGGCCCATTAGTTACCGTTTTGAATCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATGGGGCCCATTAG-TACCGTTTTGAATCGTCTT
* * *
38840 ACGATTTGGCAAACCTCAATGGTTTTTCTTTCCATTG-TTATGGCCTAACTATAATCATTTTGAT
129 -CGATTTGGCAAACCTCAAT-GCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGT
* *
38904 GAGATTAGTCCACTGTGAAGTTTTTAGCTCGTTTGGAACACTTGTTATTTTGGGCCTATCGAGGC
192 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC
38969 CCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
257 CCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
*
39020 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * *
39085 CTCATTTGGAACCCTTGTTATTTTGGGCCTATTGGGCCAATTAGTAACGTTTTGAATCGTCTTCG
66 CTCATTTGGAACACTTGTTATTTTGGGCCTATGGGGCCCATTAGTACCGTTTTGAATCGTCTTCG
* * * * * * * *
39150 GTTTTGAAAACCACAATGCTTTTCTTTCCATTGTTTATTGCCTAACGATAATCATTTTGATGAGA
131 ATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGA
** *
39215 TTAGTCCAAGGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCAT
196 TTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCAT
39280 TAGT-ACTGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
261 TAGTGAC-GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* * *
39327 CTTTCCATTGTTTAGGGACTAACTATAATCCTTTTGGTAAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * *
39392 CTCATTCGTAACACTTGTTATTTTGGGCCTATCGAGGCCCA-TAGTGA-CGTTTTGAATCGTCTT
66 CTCATTTGGAACACTTGTTATTTTGGGCCTAT-GGGGCCCATTAGT-ACCGTTTTGAATCGTCTT
* ** * *
39455 CGATTCGGCAAACC-CTAATGCTTTAATTTTCATTGTTTATGGACTAACTATAATCATATTGGTG
129 CGATTTGGCAAACCTC-AATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTG
*
39519 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCG
193 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
* ** * * **
39584 TATTAGTTCCATTGTGAATCGTCTTCGATTTGGCAAACCTCAAAACTTTT
258 CATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* *
39634 CTTTCCATAT-TTTATGGACTAAATATAATTATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
1 CTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA
* *
39698 GCTCATTTGGAACACTTATTATTTTGGGCCTATCGGGACCCATTAGTGA-CGTTTTGAATCGTCT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTAT-GGGGCCCATTAGT-ACCGTTTTGAATCGTCT
* * * * * *
39762 TCGATTT-GCAAACCTCAAAGCTTTTGTTTTCATTGTTTAGGGACTAACTATAATCATTTTCGTA
128 TCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTG
* * * * *
39826 AGATTAATCCACTGTAAAGGTTTTACCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC
193 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
39891 CATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
258 CATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* * *
39941 CTTTCCATTGTTTATGGACTAACTATAATCATTTGGGTGAAATTAGTGCACTGTGAA-TTTTCTA
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTT-TA
* * * *
40005 GCTCATTTGCAACACTTGTTATTTTGGGCCTATCGGGGCCTATTAGTTCTGTTTTGAATCGTCTT
65 GCTCATTTGGAACACTTGTTATTTTGGGCCTAT-GGGGCCCATTAGTACCGTTTTGAATCGTCTT
* * * * *
40070 AGATTTGGCAAACCTCAAAGATTTTCTTTCCATAT-TTTATGGACTAATTATTATCATTTTGGTG
129 CGATTTGGCAAACCTCAATGCTTTTCTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTG
* *
40134 AGATTAGTCCACTGTG-ACTTTTTAACTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
193 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
* * *
40198 CATTAGTGACATATTGAATCGTCTTCGATTTGGGAAACCTCAATGCTTTT
258 CATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* * * *
40248 CTTTCAATTGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* *
40313 CTCGTTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTACCGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTAT-GGGGCCCATTAGTACCGTTTTGAATCGTCTTC
* * *
40378 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAGGGACTAACTATAATCCTTTTGGTAAG
130 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAG
* * *
40443 ATTAGTCCACTGTGAAGTTTTTAGCTCATTTAGAACACTTGTTATTTTGGGCCAATCGAGGCCCA
195 ATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCA
* * *
40508 -TAGTGACGTTTTGAGTCGTCTTCGATTCGGCAAACC-CTAAAGCTTTT
260 TTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTC-AATGCTTTT
* * * *
40555 CTTTTCATTGTTTATTGACTAACTATAATCATATTGGTGGGATTAGTCCACTGTGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * **
40620 CTCATTTGGAACCCTTGTTATTTTGGGCCTTTCGGGGGCCATTAGTTTCGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTAT-GGGGCCCATTAGTACCGTTTTGAATCGTCTTC
** * * * *
40685 GATTTGGCAAACCTCAAAACTTTTCTTTGCATAT-TTTATGGACTAAATATAATCCTTTTGGTAA
130 GATTTGGCAAACCTCAATGCTTTTCTTTCCAT-TGTTTATGGACTAACTATAATCATTTTGGTGA
* *
40749 GATTAGTCCACTGTGAAGTTTTTAGCTCATTTAGAACACTTGTTATTTTGGGCCTATCGAGGCCC
194 GATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCC
* * *
40814 A-TAGTGACGTTTTGAGTCGTCTTCGATTCGGCAAACC-CTAAAGCTTTT
259 ATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTC-AATGCTTTT
* *
40862 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGATGAGATTAGTCCACTGTGAAGTTTTTAA
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
40927 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTACCGTTTTGAATCGTCTTC
66 CTCATTTGGAACACTTGTTATTTTGGGCCTAT-GGGGCCCATTAGTACCGTTTTGAATCGTCTTC
*
40992 GATTTGGCAAACCTCAATTAGTCTTTTCTTTCCTATTGTTTATGGCCTAACTATAATCATTTTGG
130 GATTTGGCAAACCTCAA-T-G-CTTTTCTTTCC-ATTGTTTATGGACTAACTATAATCATTTTGG
*
41057 TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTTGGCCTATCGGGG
191 TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGG
** * *
41122 CCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGACAAACCCCAATGCTTTT
256 CCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* * *
41174 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCAGTATGAAGTTTTTAG
1 CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * **
41239 CTCATTTGGAACACTTGCTT-TTTTTGGCCTATCGGGGACCATTAGTTCTATTTTGAATCGTCTT
66 CTCATTTGGAACACTTG-TTATTTTGGGCCTAT-GGGGCCCATTAGTACCGTTTTGAATCGTCTT
* * *
41303 CGATTTGACAAACCCCAATGCTTTTCCTTCCATTGTTTAT
129 CGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
Statistics
Matches: 2381, Mismatches: 217, Indels: 68
0.89 0.08 0.03
Matches are distributed among these distances:
306 25 0.01
307 1517 0.64
308 280 0.12
309 267 0.11
310 26 0.01
311 92 0.04
312 171 0.07
313 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (307 bp):
CTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
CTCATTTGGAACACTTGTTATTTTGGGCCTATGGGGCCCATTAGTACCGTTTTGAATCGTCTTCG
ATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGA
TTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCAT
TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
Done.