Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013500.1 Corchorus olitorius cultivar O-4 contig13533, 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: 10552
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:1033 original size:15 final size:15
Alignment explanation
Indices: 1013--1056 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
1003 CTTATCTAAA
*
1013 TATCTTATCTTATTT
1 TATCTTATTTTATTT
1028 TATCTTATTTTATTT
1 TATCTTATTTTATTT
1043 TATCTTATTTTATT
1 TATCTTATTTTATT
1057 ATATAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TATCTTATTTTATTT
Found at i:1056 original size:5 final size:5
Alignment explanation
Indices: 1017--1056 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
1007 TCTAAATATC
* * *
1017 TTATC TTATT TTATC TTATT TTATT TTATC TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
1057 ATATAAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:1162 original size:28 final size:30
Alignment explanation
Indices: 1131--1188 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1121 TTTTTAATAA
*
1131 TTATTCTTTTT-AG-TCATTTAACTTTTTT
1 TTATTCTTTTTGAGATCATTCAACTTTTTT
* *
1159 TTATTTTTTTTGAGATGATTCAACTTTTTT
1 TTATTCTTTTTGAGATCATTCAACTTTTTT
1189 ATTAATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.40
29 2 0.08
30 13 0.52
ACGTcount: A:0.19, C:0.09, G:0.07, T:0.66
Consensus pattern (30 bp):
TTATTCTTTTTGAGATCATTCAACTTTTTT
Found at i:2325 original size:332 final size:330
Alignment explanation
Indices: 1714--2936 Score: 1656
Period size: 333 Copynumber: 3.7 Consensus size: 330
1704 TAAAAATTTG
*
1714 TTTTGTACGAGTATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGAT-AAGTTTTTGAAAATTTT
1 TTTTGTACGAGTATTGAGGTTAAAAATTGAGGAAAAATCTTTCGGATCAA-TTTTTGAAAATTTT
* * *
1778 TTGGCGAAATCGTGTACGTTACATCACGGTTTGTGGCTAAAAACGCGTTCTGGGGCCCCGGCTCA
65 TT-GCGAAATCGTGTACGTAACATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCA
* * * * * * *
1843 GTTTTGTATGATTTTTGGCACCAAGACTTATTGAAATATCTATATTAATCATCTAAAATCTCAAC
129 GTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTAATCAAC-CAAATATCAGC
* * *
1908 CACATTGGATTTAAGGATTT-TTTTTACGATCATCTGAATCTTGTTTCGGTTTAATTAGAAATTA
193 CACAATGGATTTAAGGATTTGTTTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTA
*
1972 ATTCGGGAAAGAATTGAAAAAATGATATTAGAAGCGTGAAAAGCTCTTCAATCTTTTTTGCGTTG
258 ATTCGGGAAA-AATTGAAAAAATGATATTAGAAGCGTGAAAAGCTCTTCAATCTTTTTGGCGTTG
2037 AATTATATA
322 AATTATATA
* * * *
2046 TTTTTTACGAGTATTGAGGTTAAATATTAAGGAAAAATCTTTCGGGTCAATTTTTGTAAAA-TTT
1 TTTTGTACGAGTATTGAGGTTAAAAATTGAGGAAAAATCTTTCGGATCAATTTTTG-AAAATTTT
* *
2110 TTGCTGAAATCGTGTAC-TAACCATCACTGTTTTTGGCTAAAAACGGGTTC-GAGGG-CCCGACT
65 TTGC-GAAATCGTGTACGTAA-CATCACGGTTTTTGGCTAAAAACGCGTTCTG-GGGCCCCGACT
* *
2172 CAGTTTTGCATGATTTTTGGTGCCAAGACTCATTGAAATATCTATATTAATCTAACCAAATATCC
127 CAGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTAATC-AACCAAATATCA
* *
2237 GCCACAATAGATTTAAGGATTTGTTTTTACAATCATCTGAATCTTGTTTCGATTTAAATAGAAAT
191 GCCACAATGGATTTAAGGATTTGTTTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAAT
* * *
2302 TAATTCGGGAAAATATTGAAAAAATGATATTTGAAGTGTGAAAAG-TCCTTCAATCTTTTTGGTG
256 TAATTCGGGAAAA-ATTGAAAAAATGATATTAGAAGCGTGAAAAGCT-CTTCAATCTTTTTGGCG
*
2366 TTAAATTATATA
319 TTGAATTATATA
* * *
2378 TTTTTTTACGAGTATT-ACGGTTAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATT
1 -TTTTGTACGAGTATTGA-GGTTAAAAATTGAGGAAAAATCTTTCGGATCAATTTTTG-AAAATT
** * * * * *
2442 TTTACCGAAATCGTGTAC-AAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCTCGGCT
63 TTTTGCGAAATCGTGTACGTAA-CATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACT
* * * *
2506 CAGTTTTGCGTGATTTTTGGAGCCAAGACTCATTGAAATATCTATATTAATTTAACCAAGTATCA
127 CAGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTAA-TCAACCAAATATCA
* *
2571 GCCACAATGGATTTAAGGATTTGTTTTTACGATCATCTGAATATTATTTCGATTTAAATAGAAAT
191 GCCACAATGGATTTAAGGATTTGTTTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAAT
* *
2636 TAATTTGGGAAAAAATTGAAAAAATAATA-TACGAAGCGTGAAAAGCTCTTCAATCTTTTTGGCG
256 TAATTCGGG-AAAAATTGAAAAAATGATATTA-GAAGCGTGAAAAGCTCTTCAATCTTTTTGGCG
2700 TTGAATTATATA
319 TTGAATTATATA
* * *
2712 TTTTGTACGAGTATTGCGGTTAAAAACTGAGGAAAAATCTTTCGGATCAGTTTTTGAAAATTTTT
1 TTTTGTACGAGTATTGAGGTTAAAAATTGAGGAAAAATCTTTCGGATCAATTTTTGAAAATTTTT
* * *
2777 TGCCAATATCGTGTACGTTACATCACGGTTTTTGGCTAAAAACGCATTCTGGGGCCCCGACTCAG
66 TGCGAA-ATCGTGTACGTAACATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAG
* * * * * *
2842 TTTTGCATAATTTTTGGCGCCAAGACTTATTGAAATGTCTATATTAATCATTCGAAATCTCAGCC
130 TTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTAATCA-ACCAAATATCAGCC
*
2907 ACAATGGATTTAAAGATTTGTTTTTACGAT
194 ACAATGGATTTAAGGATTTGTTTTTACGAT
2937 TGTTAGGGGC
Statistics
Matches: 787, Mismatches: 82, Indels: 43
0.86 0.09 0.05
Matches are distributed among these distances:
331 86 0.11
332 217 0.28
333 286 0.36
334 192 0.24
335 6 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (330 bp):
TTTTGTACGAGTATTGAGGTTAAAAATTGAGGAAAAATCTTTCGGATCAATTTTTGAAAATTTTT
TGCGAAATCGTGTACGTAACATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGT
TTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTAATCAACCAAATATCAGCCAC
AATGGATTTAAGGATTTGTTTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATT
CGGGAAAAATTGAAAAAATGATATTAGAAGCGTGAAAAGCTCTTCAATCTTTTTGGCGTTGAATT
ATATA
Found at i:3296 original size:41 final size:43
Alignment explanation
Indices: 3125--3451 Score: 325
Period size: 41 Copynumber: 7.8 Consensus size: 43
3115 CAATAACCAA
* ** * *
3125 AAAGT-CTCCAAACACATATATAACACAGGGGCAATTCTATTCC
1 AAAGTCCT-CAAACACATATATAACACAGAGGCACCTATATTAC
*
3168 AAAAGTCCTCGAACACATATATAACACAGAGGCACCTATA-T-C
1 -AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTAC
* * * * * *
3210 CAAGTCC-CCAGCAC--ATATAACACAGGGGCGCCTTTATTAC
1 AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTAC
3250 AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATT-C
1 AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTAC
* * ** *
3292 -AAGTCCCCAAACACATATATAACACATG-GACAATTCTATTAC
1 AAAGTCCTCAAACACATATATAACACA-GAGGCACCTATATTAC
*
3334 AAAGTCCTCAAACACATATATAACACAGAGGCATCTATA-T-C
1 AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTAC
* * *** *
3375 AAAGTCCCCAAACACATATATAACACAGGGGTTTCTCTATTAC
1 AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTAC
3418 AAAAGTCCTCAAACACATATATAACACAGAGGCA
1 -AAAGTCCTCAAACACATATATAACACAGAGGCA
3452 TTTCTCCTTA
Statistics
Matches: 234, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
38 19 0.08
39 1 0.00
40 12 0.05
41 79 0.34
42 7 0.03
43 54 0.23
44 60 0.26
45 2 0.01
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (43 bp):
AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTAC
Found at i:3357 original size:84 final size:85
Alignment explanation
Indices: 3126--3451 Score: 461
Period size: 84 Copynumber: 3.9 Consensus size: 85
3116 AATAACCAAA
* * *
3126 AAGTCTCCAAACACATATATAACACAGGGGCAATTCTATTCCAAAAGTCCTCGAACACATATATA
1 AAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTACAAAAGTCCTCAAACACATATATA
*
3191 ACACAGAGGCACCTATATCC
66 ACACAGAGGCACCTATATTC
* **
3211 AAGTCCCC-AGCAC--ATATAACACAGGGGCGCCTT-TATTAC-AAAGTCCTCAAACACATATAT
1 AAGTCCCCAAACACATATATAACACAGGGGC-AATTCTATTACAAAAGTCCTCAAACACATATAT
3271 AACACAGAGGCACCTATATTC
65 AACACAGAGGCACCTATATTC
* *
3292 AAGTCCCCAAACACATATATAACACATGGACAATTCTATTAC-AAAGTCCTCAAACACATATATA
1 AAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTACAAAAGTCCTCAAACACATATATA
*
3356 ACACAGAGGCATCTATA-TC
66 ACACAGAGGCACCTATATTC
**
3375 AAAGTCCCCAAACACATATATAACACAGGGG-TTTCTCTATTACAAAAGTCCTCAAACACATATA
1 -AAGTCCCCAAACACATATATAACACAGGGGCAAT-TCTATTACAAAAGTCCTCAAACACATATA
3439 TAACACAGAGGCA
64 TAACACAGAGGCA
3452 TTTCTCCTTA
Statistics
Matches: 216, Mismatches: 17, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
81 48 0.22
82 24 0.11
83 7 0.03
84 97 0.45
85 40 0.19
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (85 bp):
AAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTACAAAAGTCCTCAAACACATATATA
ACACAGAGGCACCTATATTC
Found at i:3568 original size:2 final size:2
Alignment explanation
Indices: 3561--3610 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
3551 ACCAAATTCC
* * *
3561 TA TA TA TA TA TA TA TA TA TA TA TA CA CA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3603 TA TA TA TA
1 TA TA TA TA
3611 CACACACACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:3595 original size:28 final size:28
Alignment explanation
Indices: 3562--3618 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
3552 CCAAATTCCT
*
3562 ATATATATATATATATATATATACACAC
1 ATATATATATATATATATATACACACAC
3590 ATATATATATATATATATATACACACAC
1 ATATATATATATATATATATACACACAC
3618 A
1 A
3619 CACACACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATATATATATATATATATACACACAC
Found at i:3600 original size:26 final size:26
Alignment explanation
Indices: 3564--3616 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3554 AAATTCCTAT
3564 ATATATATATATATATATATACACAC
1 ATATATATATATATATATATACACAC
3590 ATATATATATATATATATATACACAC
1 ATATATATATATATATATATACACAC
3616 A
1 A
3617 CACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATATATATATATATATATACACAC
Found at i:6968 original size:333 final size:333
Alignment explanation
Indices: 5458--10548 Score: 6930
Period size: 332 Copynumber: 15.3 Consensus size: 333
5448 AAATTTTTGC
* ** * *
5458 CACGGTTTTTGGCTAAAAACGCGTT-CGAAGGCCCAAGCTCAATTTTGCTTGATTTTTTGGCGCC
1 CACGGTTTTTGGCTAAAAACGCGTTCCG-GGGCCCCGGCTCAGTTTTGCATGA-TTTTTGGCGCC
* * **
5522 AAGACTCATTGAAATATCTAAATTAATC-TAACCAAATATCTGCCACAATGGAGATAAGGATTTG
64 AAGACTCATTGAAATATCTATATTAATCAT-ACCAAATATCAGCCACAATGGATTTAAGGATTTG
* * *
5586 TTTTCACGATCAACTGTATAT-TCTGTTTCGATTTAAATAGAAATTAATTCGGGACAATATTGAA
128 TTTTTACGATCATCTG-A-ATCT-TGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAA
** *
5650 AAAATGATATTTGAAGCGTGGAAAA-AACTTCAATCTTTTTGGCTTTGAATTATATGTTTTTTAC
190 AAAATGATATTTGAAGCGT-GAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTAC
* ** *
5714 GAGTATTGCGGTTAAAAAATGAGGAAAAATCTTTCGGGTCAATTTTTTAAAAAAATTTGCCGAAA
254 GAGTATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAA
* *
5779 TCGTCTACTAACAAT
319 TCGTGTACTAACCAT
* **
5794 CACGGTTTTTGGCTAAAAACGCGTT-CGGGGGCCAAGCTCAGTTTTGCATGATTTTTGGCGCCAA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
* *
5858 GACTCATTGAAATATCTAAATTAATC-TAACCAAATATCTGCCACAATGGATTTAAGGATTTGTT
66 GACTCATTGAAATATCTATATTAATCAT-ACCAAATATCAGCCACAATGGATTTAAGGATTTGTT
* * *
5922 TTTACGATCAACTGTATTTTGTTTCGATTTAAAT-GAAATTAATTCGGGAAAGA-ATTGAAAAAA
130 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAA-ATATTGAAAAAA
* *
5985 TGATATTTAGAAGCGTTGAAAAGCCCTTCAATCATTTTGGCGTTGAATTATATGTTTTTTACGAG
194 TGATATTT-GAAGCG-TGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAG
* * *
6050 TATTGCGATTAAAAATTGAGGAAAAATCTTTCGGGTCTATTTTTGCAAAAATTTTACCGAAATCG
257 TATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCG
6115 TG---T---CAT
322 TGTACTAACCAT
* * * * * *
6121 ---GGTTTTTGACTAAAAACGCGTTCCCGGGCACCGACTCAGTTTTACATGATTTTGGGCGCCAA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
* **
6183 GACTCATTGAAATATCTATATTAATC-TAAACAAATATTTGCCACAATGGATTTAAGGATTTGTT
66 GACTCATTGAAATATCTATATTAATCAT-ACCAAATATCAGCCACAATGGATTTAAGGATTTGTT
6247 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAAT
130 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAAT
* * *
6312 GATATTTGAAGCGTGAAAAGTCCTTCAATATTTTTGGCATTGAATTATATATTTTTTACGAGTAT
195 GATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTAT
* * * *
6377 TGCAGTTAAAAATTGAGGAAAAACCTTTCCGGTCAATATTTGCAAAAATTTTGCCGAAATCGTGT
260 TGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTGT
*
6442 ACGT---TAT
325 AC-TAACCAT
* * * *
6449 CACGATTTTTGCCTAAAAACGCGTT-CGGAGCCCCGAG-TCAGTTTTGCATGATTTTTGGCGTCA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCG-GCTCAGTTTTGCATGATTTTTGGCGCCA
* * * *
6512 AGACTCATTGAAATATTTATATTAATC-TAACCAAATATCTGCCACAATGGGTTTAATGATTTGT
65 AGACTCATTGAAATATCTATATTAATCAT-ACCAAATATCAGCCACAATGGATTTAAGGATTTGT
*
6576 TTTTACGATCATCT-AATTCTTGTTTCGATTTAAATAGAAATTAATTCGAGAAAATATTGAAAAA
129 TTTTACGATCATCTGAA-TCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAA
* *
6640 ATGATATTTGAAGCGTGCAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTACGAGT
193 ATGATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGT
* * * *
6705 ATTGCGGTTAAAAATTGAGGAAAAATTTTTCGGGTCAACTTTTACAAAATTTTTGCCGAAATCGT
258 ATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGT
6770 GTA-TAAACCAT
323 GTACT-AACCAT
*
6781 CACGGTTTTTGGCTAGAAACGCGTTCCGGGGCCCCGGCTCAGTTTTAG-ATGATTTTTGGCGCCA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTT-GCATGATTTTTGGCGCCA
* * * *
6845 AGACTCATTGAAATATCTATATTAATCATCCCAAATCTCAGCCACAATGGAGTTAAGAATTTGTT
65 AGACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTT
* *
6910 TTAACGATCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGGAAAATATTGAAAAAAT
130 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAAT
* *
6975 GATATTTGAAGTGTGAAAAGTCCTTCAATC-TTTTGGCGTTGAATTATATGTTTTTTACGAGAAT
195 GATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTAT
*
7039 TGCAGTTAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAA-TTTGCCGAAATCGTG
260 TGCGGTT-AAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTG
**
7103 TACTAATTAT
324 TACTAACCAT
* * * *
7113 CACGGTTTTTGTCTAAAAACGCGTTCGGGGGCCCCAGG-TCATTTTTGCATGATTTTTGGCGTCA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCC-GGCTCAGTTTTGCATGATTTTTGGCGCCA
* *
7177 AGACTCATTGAAATATTTATATTAATCCA-ACCAAATATCTGCCACAATGGATTTAAGGATTTGT
65 AGACTCATTGAAATATCTATATTAAT-CATACCAAATATCAGCCACAATGGATTTAAGGATTTGT
* *
7241 TTTTATGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGACAATATTGAAAAAA
129 TTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAA
* * *
7306 TGATATTTGAAGCGCGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTAGGAGTA
194 TGATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTA
* ** * *
7371 TTGCGGTTAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTTTAAAAAATTTGCCGAAATCGTC
259 TTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTG
*
7436 TACTAACAAT
324 TACTAACCAT
** **
7446 CACGGTTTTTGGCTAAAAACGCGTT-CGGGGGTCAAGCTCAGTTTTGCATGATTTTTGGCGCCAA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
* * * * ** *
7510 GACCCATTGAAATATCTATATTAATTATCCCAAATCTCAGCCACAAAAGACTTAAGGATTTGTTT
66 GACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTTT
*
7575 TTACGATCATCGGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAATG
131 TTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAATG
* * * **
7640 ATATTTGAAGCGTGAAAAGTCCTTCAATATTTTAGGCGTTGAATCATATACTTTTTACGAGTATT
196 ATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTATT
* * * * *
7705 GCGGTTAAAAAGTGAGGAAAAATCTTTCCGGTCAACTTTTACAAAATTTTTG-CGAAATCGTGTA
261 GCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTGTA
*
7769 CAAACCAT
326 CTAACCAT
** * * *
7777 CACAATTTTTGTCTAAAAACGCGTTCCGGGGTCCCGGCTCAGTTTTAG-TTGA-TTTTGG-GCTC
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTT-GCATGATTTTTGGCGC-C
* * *
7839 AAGACTCATTGAAATATCTATATTAATTATCCCAAATCTCAGCCACAATGGATTTAAGGATTTGT
64 AAGACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGT
* *
7904 TTTTACGATCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCGGGAAAGA-ATTGAAAAA
129 TTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAA-ATATTGAAAAA
* * * * * * *
7968 ATGATATTAGAAGCATGAAAAGCCCTTCAATCATTTTGGCGTTGAAATATATATTTTTTACGAGA
193 ATGATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGT
* * * *
8033 ACTGCGATTAAAAATTGAGGAAAAATCTTTCGGGTCTATTTTTGCAAAAATTTTGCCGAAATCAT
258 ATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGT
8098 GTACTAACCAT
323 GTACTAACCAT
* * * * * * *
8109 CATGGTTTTTGACTAAAAACGCGTTCCCGGACACCGGCTCAGTTTTACATGATTTTGGGCGCCAA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
* * *
8174 GACTCATTGAAATATCTATATTAATTA-ACCAAATATAAGCCACAATGGATTTAAAGATTTGTTT
66 GACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTTT
* * *
8238 TTACGATCATCTGAATCTTGTTTCGATTTAATTTGAAATTAATTCGGGAAAGA-ATTGAACAAAT
131 TTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAA-ATATTGAAAAAAT
* * * *
8302 GATATTAGAAGCATGAAAA-TCCCTTTAATCATTTTGGCGTTGAATTATATGTTTTTTACGAGTA
195 GATATTTGAAGCGTGAAAAGT-CCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTA
*
8366 TTGCGATTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTG
259 TTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTG
**
8431 TACTAATTAT
324 TACTAACCAT
** * * * * *
8441 CACGGTTTTTACCT-AAAACGCATTCGGGGGCCCCGGGTCAGTTTTGCATGATTTTTGGAGTCAA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
* * * * * *
8505 GACTCATTGAAATATCTACATTAATCATCCCAAATCTCAGCAAAAATGGATTTAAGGGTTTGTTT
66 GACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTTT
* *
8570 TTACGATCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGGAAAAAATTGAAAAAATG
131 TTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAATG
* *
8635 ATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTATT
196 ATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTATT
* * * * * **
8700 GCGATTAAAAATAGAGGAAAAACCTTTTGGGTCAACTTTTGCAAAAATTTTAACGAAATCGTGTA
261 GCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTGTA
8765 CTAACCAT
326 CTAACCAT
* * * *
8773 CACAGTTTTTGGCTAGAAACGCGTTCCGGGGCCCCGGCTCAGTTTTAG-ATGATTTTGGGCTCCA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTT-GCATGATTTTTGGCGCCA
* * * * *
8837 AGACTCATTGAAATATCTATATTAATTATCCCAAATCTCAGCCACAATGGAGTTAAGAATTTGTT
65 AGACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTT
* *
8902 TTAACGATCATCTGAATCTTGTTTCGATTTAAATGGAAATTAATTC-GGAAAATATTGAAAAAAT
130 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAAT
* *
8966 GATATTTGAAGCGTGCAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTACGAGTAT
195 GATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTAT
* * * * *
9031 TGCGGTTAAAAATTAAGGAAAAATCTTTCGGGTCAATTTCTGTAAAATTTTTGACGAAATCGTGT
260 TGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTGT
9096 ACTAACCAT
325 ACTAACCAT
** *
9105 CACGGTTTTTGGCTAAAAACGCGTT-CGGAGGCCCAAGCTCAATTTTGCATGATTTTTTGGCGCC
1 CACGGTTTTTGGCTAAAAACGCGTTCCGG-GGCCCCGGCTCAGTTTTGCATGA-TTTTTGGCGCC
* *
9169 AAGACTCATTGAAATATCTAAATTAATC-TAACCAAATATCTGCCACAATGGATTTAAGGATTTG
64 AAGACTCATTGAAATATCTATATTAATCAT-ACCAAATATCAGCCACAATGGATTTAAGGATTTG
* * * *
9233 TTTTTACGATCAACTGTATTTTCTGTTTCGATTTAAATAGAAATTAATTTGGGAAAATATTGAAA
128 TTTTTACGATCATCTG-AATCT-TGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAA
* * *
9298 AAATGATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTAGGCGGTGAATTATATATTTTTTACGA
191 AAATGATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGA
* ** *
9363 GTATTGCGGTTAAAAATTGAAGAAAAATCTTTCGGGTCAATTTTTTAAAAAAATTTGCCGAAATC
256 GTATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATC
** *
9428 GTCAACTAACAAT
321 GTGTACTAACCAT
** * *
9441 CACGGTTTTTGGCTAAAAA-GTCGTT-CGGGG-CCAAGCTCAGTTTTTCATGATTTTTGGAGCCA
1 CACGGTTTTTGGCTAAAAACG-CGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCA
* * * *
9503 AGACTCATTGAAATATCTATATTAA-CCTAAGCAAATAT-ATGCCACAATAGCTTTAAGGATTTG
65 AGACTCATTGAAATATCTATATTAATCAT-ACCAAATATCA-GCCACAATGGATTTAAGGATTTG
*
9566 TTTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTTGGGAAAAATATTGAAAA
128 TTTTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGG-AAAATATTGAAAA
* * *
9631 AATGATATTTGAAGCGTGAAAAGTCCTTCAATATTTTTGGCATTGAATTATATATTTTTTACGAG
192 AATGATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAG
* * *
9696 TATTGCGGTTAAAAATTGAGGAAAAAAT-TTTCGGGTCAACTTTTACAAAATTTTTGCCGAAATC
257 TATTGCGGTTAAAAATTGAGG-AAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATC
*
9760 GTGTACAAACCAT
321 GTGTACTAACCAT
*
9773 CACGGGTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTAG-ATGATTTTTGGCGCCA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTT-GCATGATTTTTGGCGCCA
* * * * * *
9837 AGACTCATTGACATATCTACATTAATCATCCCAAATCTCAGCCAAAATGGATTTAAGGGTTTGTT
65 AGACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTT
*
9902 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAGTTAATTCGGGAAAATATTGAAAAAAT
130 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAAT
* *
9967 GATATTTGAAGCGTGAAAAGTCCTTCGATCTTTTTGGCGTTTAATTATATGTTTTTTACGAGTAT
195 GATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTAT
** * * * *
10032 TGCAATTAAAAATTGAGGAAAAACCTTTCGGGTCAATATTCGCAAAAATTTTACCGAAATCGTGT
260 TGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTGT
10097 ACTAACCAT
325 ACTAACCAT
* * *
10106 CACAGTTTTTGGCTAAAAACGCGTTCCGGGG-CCCGGCTCAGTTTTAG-ATGATTTTGGGCTCCA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTT-GCATGATTTTTGGCGCCA
* * * *
10169 AGACTCATTGAAATATCTATATTAATTATCCCAAATCTCAGCCACAATGAATTTAAGGATTTGTT
65 AGACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTT
* *
10234 TTTACGATCATCTGATTCTTGTTTCGATTTAATTAGAAATTAATTCGGGAAAGA-ATTGAAAAAA
130 TTTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAA-ATATTGAAAAAA
* * * *
10298 TGATATTAGAAGCATGAAGAA-CCCTTCAATCATTTTGGCGTTGAATTATATGTTTTTTACGAGT
194 TGATATTTGAAGCGTGAA-AAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGT
* *
10362 ATTGCGATTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCTGAAATCGT
258 ATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGT
**
10427 GTACTAATTAT
323 GTACTAACCAT
* * * *
10438 CACGGTTTTTGCCTAAAAACGCGTTCGGGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAA
1 CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
* *
10503 GACTCATTGAAATATTTATATTAATC-TAACCAAATATCTGCCACAA
66 GACTCATTGAAATATCTATATTAATCAT-ACCAAATATCAGCCACAA
10549 CAGA
Statistics
Matches: 4247, Mismatches: 435, Indels: 149
0.88 0.09 0.03
Matches are distributed among these distances:
324 125 0.03
325 130 0.03
326 35 0.01
327 2 0.00
328 4 0.00
329 2 0.00
330 274 0.06
331 425 0.10
332 1785 0.42
333 978 0.23
334 240 0.06
335 51 0.01
336 196 0.05
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (333 bp):
CACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
GACTCATTGAAATATCTATATTAATCATACCAAATATCAGCCACAATGGATTTAAGGATTTGTTT
TTACGATCATCTGAATCTTGTTTCGATTTAAATAGAAATTAATTCGGGAAAATATTGAAAAAATG
ATATTTGAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTTGAATTATATGTTTTTTACGAGTATT
GCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAATTTTGCCGAAATCGTGTA
CTAACCAT
Done.