Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011130.1 Corchorus capsularis cultivar CVL-1 contig11151, 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: 67508
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Found at i:2736 original size:10 final size:10
Alignment explanation
Indices: 2717--2745 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2707 GGAAATTTTT
2717 GGGGGG-GGG
1 GGGGGGTGGG
2726 GGGGGGTGGG
1 GGGGGGTGGG
2736 GGGGGGTGGG
1 GGGGGGTGGG
2746 AAGCTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.00, C:0.00, G:0.93, T:0.07
Consensus pattern (10 bp):
GGGGGGTGGG
Found at i:4358 original size:2 final size:2
Alignment explanation
Indices: 4351--4377 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4341 TATTTTGCAC
4351 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
4378 GCAAGTTGAT
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:6649 original size:13 final size:13
Alignment explanation
Indices: 6631--6656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6621 ATGATCCTAA
6631 ATGGGGGAGGGGG
1 ATGGGGGAGGGGG
6644 ATGGGGGAGGGGG
1 ATGGGGGAGGGGG
6657 GTTGGCCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.77, T:0.08
Consensus pattern (13 bp):
ATGGGGGAGGGGG
Found at i:6765 original size:4 final size:4
Alignment explanation
Indices: 6756--6784 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6746 TAATAATAGT
6756 TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
6785 AAATCTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:9134 original size:20 final size:20
Alignment explanation
Indices: 9109--9146 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9099 CGCGTACAAC
9109 ATATATGACAAATGCATACG
1 ATATATGACAAATGCATACG
*
9129 ATATATGAGAAATGCATA
1 ATATATGACAAATGCATA
9147 TGAGATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
ATATATGACAAATGCATACG
Found at i:9173 original size:14 final size:14
Alignment explanation
Indices: 9154--9182 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9144 ATATGAGATC
9154 TTTTATTATTAGAA
1 TTTTATTATTAGAA
9168 TTTTATTATTAGAA
1 TTTTATTATTAGAA
9182 T
1 T
9183 CTGACACGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTATTATTAGAA
Found at i:16262 original size:2 final size:2
Alignment explanation
Indices: 16205--16250 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
16195 ATATCATAGC
* * * *
16205 TA TA CA TA TA TA TA TA CA TA CA TA CA TA TA 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
16247 TA TA
1 TA TA
16251 GGTGTTATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:19523 original size:10 final size:10
Alignment explanation
Indices: 19503--19536 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
19493 ATTAATGTAT
19503 TAGTGATATTA
1 TAGT-ATATTA
19514 TAGTATATTA
1 TAGTATATTA
19524 TAGTATATATA
1 TAGTATAT-TA
19535 TA
1 TA
19537 ATATTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (10 bp):
TAGTATATTA
Found at i:29323 original size:2 final size:2
Alignment explanation
Indices: 29316--29341 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29306 CTGGTATTTG
29316 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
29342 TCTTTTCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:63146 original size:14 final size:14
Alignment explanation
Indices: 63127--63154 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63117 TGCTACCGCG
63127 TTTCTCAATTTCTA
1 TTTCTCAATTTCTA
63141 TTTCTCAATTTCTA
1 TTTCTCAATTTCTA
63155 GGATATTGAA
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:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTCTCAATTTCTA
Found at i:64145 original size:14 final size:14
Alignment explanation
Indices: 64126--64152 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64116 AGACTTGTTT
64126 TTTGCATTTTGCAA
1 TTTGCATTTTGCAA
64140 TTTGCATTTTGCA
1 TTTGCATTTTGCA
64153 TACATGGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TTTGCATTTTGCAA
Found at i:65421 original size:322 final size:319
Alignment explanation
Indices: 64835--67508 Score: 2259
Period size: 318 Copynumber: 8.4 Consensus size: 319
64825 TACTCATAAA
* * *
64835 ATATAATTCAACGCTAAAAAGATTG--GAGGACTTTTCACGCTTTTAATATCGTTTTT-AATAAT
1 ATATAATTCAACGCTAAAAAGATTGACG-GGA-TTTTCACGCTTCTAATATCGTTTTTCCAT-TT
* * * * * *
64897 TTTTCTGAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCACATTAAAAAAAAAAATCCT
63 TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTC-GT--AAAAACAAATCCT
* * * * * * **
64962 TAAATCCAATGTGTCTAAGATTTGGTTCGATGAATAAAGATATCTCAAGGAGTCTCGGC-GCCAA
125 TAAATCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCT-TTCTGCCAA
* * * * * * * *
65026 AAACCTTGCAAAA-TAGAGTAGTGGCCCCGAAAAGCGTTTTTAGTCAAAAAATCGTGATGG----
189 AAATCATGCAAAACT-GAGCAG-GG-CCCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAA
* *
65086 TACACGATTTCGGCAAAAAACAGACCCGAAAAGTTTTTTCTAAATTTTTTGCCACAATACTCA-A
251 TACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTT-TAAA-TTTTTGCCACAATACTCAGA
65150 AAAATAT
314 AAAA-AT
* * *
65157 ATATAATTCAACGCTAAAAAGATTGACGAGG-TTTTCCCACTTCTAATATTGTTTTTCCATTTTT
1 ATATAATTCAACGCTAAAAAGATTGACG-GGATTTTCACGCTTCTAATATCGTTTTTCCATTTTT
* * *
65221 TCTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCTTTAAA
65 T-TCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTAAA
* * *
65286 TTCAATATGGCTAAGATTTGGTTAGATGAA-ATAGATATTTCAAGGAATCTTTCTGCCAAAAATC
129 TCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATC
* * * *
65350 ATGCAAAAGTGAGCCAGGGCCTGGAACGCGTTTTAAGCCTAAAAACCGTGATGGTTAATACACGA
194 ATGCAAAACTGAG-CAGGGCCCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAATACACGA
* * * * * *
65415 TTTCGGCTCAAAATTGACCAGAAAATTTTTGTTCTCAATTTTTTTCCAC-A-A-T-A-AAAAAAT
258 TTTCGGCTAAAAACTGACCCGAAAAGTTTT-TT-T-AAATTTTTGCCACAATACTCAGAAAAAAT
* * * * * *
65475 ATATAATTCGACGCAAAAAAGATTGAAGGGGTTTTCACGCTTCTAATATTGTTTTTCTATTTATT
1 ATATAATTCAACGCTAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCCATTT-TT
*
65540 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATT-AACATGCTCGTAAAAACAAATCGTTAA
65 TT-CCGAATTAATTTCTAATTAAATCGAAACAAGATTCAA-ATGCTCGTAAAAACAAATCCTTAA
* ** * * *
65604 ATCCAATGTGAATAAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAAT
128 ATCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT
* * * ** * * *** ** * *
65669 CAAGCAAAACTAAGCCGAGGACCCAAAACACATTTTTAGTGAAAAAACTATGAT-GTAAAGTTCA
193 CATGCAAAACTGAG-C-AGGGCCCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAA-TACA
* * ** * **** * * * * *
65733 CGAATTCGACTAAAAACT---CTAAAAACTGACATGAAATTTTTTCCATAATACACAGAGGAAAA
255 CGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTTAAATTTTTGCCACAATACTCAGA-AAAAA
65795 T
319 T
* * * * * ** * * *
65796 ATGTAACTCAACGC-CAAAACATTTAATGGTTTTTCACGCCTT-TAATATAGTTTTTTCATTTTT
1 ATATAATTCAACGCTAAAAAGATTGACGGGATTTTCACG-CTTCTAATATCGTTTTTCCA-TTTT
* *
65859 TTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAACAAATCCTTAAA
64 TTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTAAA
* * *
65923 TCCAATATGGCTGAGATTTTGTTAGATGAATATAGATATATAAAGGAGTCTTTCTGCCAAAAATC
129 TCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATC
* ** * * * ** *
65988 ATGCAAAACTAAGTTGGGACCCCAGAACGCGTTTTTAGCCCAAAACCCATGATAATTAGTACACG
194 ATGCAAAACTGAGCAGGG--CCCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAATACACG
* **
66053 ATTTCGGCTAAAAACTGACCCGAAAGATTTTTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
257 ATTTCGGCTAAAAACTGACCCGAAA-AGTTTTTTT-AAATTTTTGCCACAATACTCAGAAAAAAT
* * *
66118 ATATAATTCAACG-TCGAAAAGATTGGCGGGATTTTCACGCTTCTAATATCGTTTTTTCATTTTT
1 ATATAATTCAACGCT-AAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCCATTTTT
* * * *
66182 TTCTAGAATTAATTTCTAATTAAATTGAAACAAGTTTCAAATGCTCGTAAAAGA-AAATCCTTAT
65 TTC-CGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAA-ACAAATCCTTAA
** * * * * *
66246 ATCCAATATACCCGAGATTTGGTTCGATAAATATTGATATTTCAAGGAGTCTTTGC-GACAAAAA
128 ATCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT-CTGCCAAAAA
* *
66310 TCATGCAAAATTGAGTC-GAGGCTCCGGAATGCGTTTTTAG-CCAAAAA-C----------ATAC
192 TCATGCAAAACTGAG-CAG-GGC-CCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAATAC
* * * **
66362 ACAATTTCGGCT-AAAATTGACCCGAAAGATTCTTTTTTAAATTTTTGATACAATACTCAGAAAA
254 ACGATTTCGGCTAAAAACTGACCCGAAA-AGT-TTTTTTAAATTTTTGCCACAATACTCAG-AAA
66426 AAAT
316 AAAT
* * *** * **
66430 ATATATTTCAACGCCAAAACTTTTGACGGGATTTTCACGCTTCTAATATCATTTTTCTTTGTTTT
1 ATATAATTCAACGCTAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCCAT-TTTT
* * * * * *
66495 TTCAAGAATTAAATTCTAATTAAATTGAAACAAGTTTCAAATGCTTGTAAAAACAAATCCTTATA
65 TTC-CGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTAAA
* * * ** * *
66560 TCCAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTGAAGGAGAATTTCCGTC-AAAATC
129 TCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATC
* * *
66624 ATGCAAAACTGAGCCGAGGCCCAGGAACGCGTTTTTAGCCCAAAAATCGTGATGGTTAGTACACG
194 ATGCAAAACTGAGCAG-GGCCC-GGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAATACACG
* *
66689 ATTTTCGGCTAAAAACTG-CCCGAATGAGTTTTTTTGAAATTTTTGCCACAATGCTCAG-AAAAA
257 A-TTTCGGCTAAAAACTGACCCGAA-AAGTTTTTTT-AAATTTTTGCCACAATACTCAGAAAAAA
66752 T
319 T
* * * * * *
66753 ATATAATTCAACGCCAAAAATATTGATGGGCTTTTCACGCTTCTAATATTGTTTTTCAATTTTTT
1 ATATAATTCAACGCTAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCCATTTTTT
* * * *
66818 TCCAGTATTAATTTCTAATTAAATTGAAACAA-ATTTCAAATGGTCGTAAAAACAAATCCTTATA
66 TCC-GAATTAATTTCTAATTAAATCGAAACAAGA-TTCAAATGCTCGTAAAAACAAATCCTTAAA
* * * *
66882 TCCAATGTGGCTGAGATTTGGTTTGATGAATATACATATTTCAAGGAGT-ATT-TGCACAAAAGA
129 TCCAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGC-CAAAA-A
* * * * * * * * ****
66945 TCATGCGAAATTGAGTC-GGGCTCCGGAACGCGTTTTTA-ACGAAATA-CGTACACGATTTCGGC
192 TCATGCAAAACTGAG-CAGGGC-CCGGAACGCGTTTTTAGCCCAAAAACCGT-GATGGTTAATAC
** * * * *
67007 TAAAATTT-TGC-AAAAACTGACCCGAAAAGCTTTTTCACAATTTCTTGCCACAATACT-AAAAA
254 -ACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTTA-AATTT-TTGCCACAATACTCAGAAA
*
67069 AAAA
316 AAAT
* * * * * * *
67073 ATATAAATCAAAGCCAAAAA-ATTTAAGGG-TTTTCACGCTTCTGATATCGTTTTTCCA--TTCT
1 ATATAATTCAACGCTAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCCATTTTTT
* * * *
67134 TCCGAATTTATTTCTAATTAAATCAAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATC
66 TCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTAAATC
* * * * **
67199 CAATATGGCTGAGATTTTGTTTGATGAATATAGATATTTGAAGGAGTGTTTCCACCAAAAATCAT
131 CAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAT
* * * * * *
67264 GCAAAACTGAGCTGGGACCCCAGAACGCATTTTTAGCCCAAAATCCGTAATGGTTAGTACACGAT
196 GCAAAACTGAGCAGGG--CCCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAATACACGAT
**
67329 TTCGGCTAAAAACTGACCCG-AAAGATTATTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
259 TTCGGCTAAAAACTGACCCGAAAAG-TT-TTTTT-AAATTTTTGCCACAATACTCAGAAAAAAT
* * * *
67392 ATATAATTCAACG-TCGAAAAGATTGACGAGTATTTTAACGCTTCTAATAGTCG-TTTTCTA-TT
1 ATATAATTCAACGCT-AAAAAGATTGACG-GGATTTTCACGCTTCTAATA-TCGTTTTTCCATTT
* * * *
67454 TTTTCTAGAATTAATTTCTAATTAAATTGAAAAAAGTTTCAAATGCTCGTAAAAA
63 TTTTC-CGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAA
Statistics
Matches: 1921, Mismatches: 326, Indels: 208
0.78 0.13 0.08
Matches are distributed among these distances:
311 41 0.02
312 114 0.06
313 115 0.06
314 2 0.00
315 123 0.06
316 36 0.02
317 21 0.01
318 273 0.14
319 233 0.12
320 183 0.10
321 86 0.04
322 262 0.14
323 234 0.12
324 153 0.08
325 39 0.02
326 6 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (319 bp):
ATATAATTCAACGCTAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCCATTTTTT
TCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTAAATC
CAATATGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAT
GCAAAACTGAGCAGGGCCCGGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAATACACGATTT
CGGCTAAAAACTGACCCGAAAAGTTTTTTTAAATTTTTGCCACAATACTCAGAAAAAAT
Found at i:66105 original size:638 final size:629
Alignment explanation
Indices: 64835--67508 Score: 2526
Period size: 639 Copynumber: 4.2 Consensus size: 629
64825 TACTCATAAA
* * *
64835 ATATAATTCAACG-CTAAAAAGATTG--GAGGACTTTTCACGCTTTTAATATCGTTTTT-AATAA
1 ATATAATTCAACGTC-AAAAAGATTGACG-GGA-TTTTCACGCTTCTAATATCGTTTTTCTAT-T
* * * * * * *
64896 TTTTT-CTGAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCACATTAAAAAAAAAAATC
62 TTTTTCCAGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTC-GT--AAAAACAAATC
* * * * * * *** *
64960 CTTAAATCCAATGTGTCTAAGATTTGGTTCGATGAATAAAGATATCTCAAGGAGTCTCGGCGCCA
124 CTTATATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCT-TTTGACA
* * * * * * * * * *
65025 AAAACCTTGCAAAATAGAGTAGTGGCCCCGAAAAGCGTTTTTAGTCAAAAAATCGT-GA-TGGTA
188 AAAATCATGCAAAATTGAGTCGAGGCTCCGGAACGCGTTTTTAG--GAAAAA-C-TAGATTAGT-
* * * ** *
65088 CACGATTTCGGCAAAAAACAGACCCGAAAAGTTTTTTCTAAATTTTTTGCCACAATACTCA-AAA
248 CACAATTTC-GC--TAAA-A-ACTCGAAAAACTTTTTC-AAA-TTTTTGCCACAATACACAGAAA
* * * * * * *
65152 AATATATATAATTCAACGCTAAAAAGATTGACGAGG-TTTTCCCACTTCTAATATTGTTTTTCCA
306 AA-ATATATAAATCAACGC-CAAAACATTTA--AGGATTTTCACGCTTCTAATATAGTTTTTCCA
* *
65216 TTTTTTCTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCT
367 TTTTTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
* * * * * *
65281 TTAAATTCAATATGGCTAAGATTTGGTTAGATGAA-ATAGATATTTCAAGGAATCTTTCTGCCAA
432 TTAAATCCAATATGGCTGAGATTTTGTTAGATGAATATAGATATTTGAAGGAGTCTTTCCGCCAA
* * ** * * *
65345 AAATCATGCAAAAGTGAGCCAGGGCCTGGAACGCGTTTTAAGCCTAAAAACCGTGATGGTTAATA
497 AAATCATGCAAAACTGAG-CTGGGCCCAGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTA
* * * * * **
65410 CACGATTTCGGCTCAAAATTGACCAGAAA-ATTTTTGTTCTCAATTTTTTTCCAC-A-A-T-A-A
561 CACGATTTCGGCTAAAAACTGACCCGAAAGATTTTT-TT-TGAAATTTTTAACACAATACTCAGA
65469 AAAAAT
624 AAAAAT
* * * *
65475 ATATAATTCGACG-CAAAAAAGATTGAAGGGGTTTTCACGCTTCTAATATTGTTTTTCTATTTAT
1 ATATAATTCAACGTC-AAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCTATTT-T
* * *
65539 TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATT-AACATGCTCGTAAAAACAAATCGTTA
64 TTTCCAGAATTAATTTCTAATTAAATTGAAACAAGATTCAA-ATGCTCGTAAAAACAAATCCTTA
* * * *
65603 AATCCAATGTGAATAAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAA
128 TATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT-TGACAAAAA
* * * * ** * *
65668 TCAAGCAAAACTAAGCCGAGGAC-CCAAAACACATTTTTAGTGAAAAAACTATGATGTAAAGTTC
192 TCATGCAAAATTGAGTCGAGG-CTCCGGAACGCGTTTTTAG-G-AAAAACTA-GAT-T--AG-TC
* *** * * * *
65732 ACGAA-TTCGACTAAAAACTCTAAAAACTGACATGAAATTTTTTCCATAATACACAGAGGAAAAT
249 AC-AATTTCG-CTAAAAACTCGAAAAACT-TTTTCAAATTTTTGCCACAATACACAGA-AAAAAT
* * * *
65796 ATGTAACTCAACGCCAAAACATTTAATGGTTTTTCACGCCTT-TAATATAGTTTTTTCATTTTTT
310 ATATAAATCAACGCCAAAACATTTAA-GGATTTTCACG-CTTCTAATATAGTTTTTCCATTTTTT
65860 TTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAACAAATCCTTAAAT
373 TTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAAT
* * *
65924 CCAATATGGCTGAGATTTTGTTAGATGAATATAGATATATAAAGGAGTCTTTCTGCCAAAAATCA
438 CCAATATGGCTGAGATTTTGTTAGATGAATATAGATATTTGAAGGAGTCTTTCCGCCAAAAATCA
* * * * **
65989 TGCAAAACTAAGTTGGGACCCCAGAACGCGTTTTTAGCCCAAAACCCATGATAATTAGTACACGA
503 TGCAAAACTGAGCTGGG--CCCAGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGA
66054 TTTCGGCTAAAAACTGACCCGAAAGATTTTTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
566 TTTCGGCTAAAAACTGACCCGAAAGATTTTTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
* *
66118 ATATAATTCAACGTCGAAAAGATTGGCGGGATTTTCACGCTTCTAATATCGTTTTT-TCATTTTT
1 ATATAATTCAACGTCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCT-ATTTTT
* *
66182 TTCTAGAATTAATTTCTAATTAAATTGAAACAAGTTTCAAATGCTCGTAAAAGA-AAATCCTTAT
65 TTCCAGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTCGTAAAA-ACAAATCCTTAT
* * * * * *
66246 ATCCAATAT-ACCCGAGATTTGGTTCGATAAATATTGATATTTCAAGGAGTCTTTGCGACAAAAA
129 ATCCAATGTGA-CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT-TGACAAAAA
* *
66310 TCATGCAAAATTGAGTCGAGGCTCCGGAATGCGTTTTTAGCCAAAAAC---A-TA--CACAATTT
192 TCATGCAAAATTGAGTCGAGGCTCCGGAACGCGTTTTTAG-GAAAAACTAGATTAGTCACAATTT
* * * ** *
66369 CGGCTAAAATTGACCCGAAAGATTCTTTTTTAAATTTTTGATACAATACTCAGAAAAAAATATAT
256 C-GCTAAAA---ACTCGAAA-A-ACTTTTTCAAATTTTTGCCACAATACACAG-AAAAAATATAT
** * * *
66434 ATTTCAACGCCAAAACTTTTGACGGGATTTTCACGCTTCTAATATCA-TTTTT-CTTTGTTTTTT
314 AAATCAACGCCAAAACATTT-A-AGGATTTTCACGCTTCTAATAT-AGTTTTTCCATT-TTTTTT
* * * * * * * *
66497 CAAGAATTAAATTCTAATTAAATTGAAACAAGTTTCAAATGCTTGTAAAAACAAATCCTTATATC
375 C-CGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATC
* ** *
66562 CAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTGAAGGAGAATTTCCGTC-AAAATCAT
439 CAATATGGCTGAGATTTTGTTAGATGAATATAGATATTTGAAGGAGTCTTTCCGCCAAAAATCAT
* *
66626 GCAAAACTGAGCCGAGGCCCAGGAACGCGTTTTTAGCCCAAAAATCGTGATGGTTAGTACACGAT
504 GCAAAACTGAGCTG-GGCCCA-GAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGA-
* * ** *
66691 TTTCGGCTAAAAACTG-CCCGAATGAGTTTTTTTGAAATTTTTGCCACAATGCTCAG-AAAAAT
566 TTTCGGCTAAAAACTGACCCGAAAGATTTTTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
* * * * * *
66753 ATATAATTCAACGCCAAAAATATTGATGGGCTTTTCACGCTTCTAATATTGTTTTTCAATTTTTT
1 ATATAATTCAACGTCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCTATTTTTT
* *
66818 TCCAGTATTAATTTCTAATTAAATTGAAACAA-ATTTCAAATGGTCGTAAAAACAAATCCTTATA
66 TCCAGAATTAATTTCTAATTAAATTGAAACAAGA-TTCAAATGCTCGTAAAAACAAATCCTTATA
* * * *
66882 TCCAATGTGGCTGAGATTTGGTTTGATGAATATACATATTTCAAGGAGT-ATTTGCACAAAAGAT
130 TCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTTG-ACAAAA-AT
* * * * * *
66946 CATGCGAAATTGAGTCG-GGCTCCGGAACGCGTTTTTAACGAAATACGTACACGATTTCGGCTAA
193 CATGCAAAATTGAGTCGAGGCTCCGGAACGCGTTTTT-AGGAAAAAC-T--A-GA-TTAGTC-AC
* *
67010 AATTTTGC-AAAAACTGACCCGAAAAGCTTTTTCACAATTTCTTGCCACAATACTA-A-AAAAAA
251 AATTTCGCTAAAAACT----CGAAAAACTTTTTCA-AATTT-TTGCCACAATAC-ACAGAAAAAA
* * * * * * *
67072 AATATAAATCAAAGCCAAAAAATTTAAGGGTTTTCACGCTTCTGATATCGTTTTTCCA---TTCT
309 TATATAAATCAACGCCAAAACATTTAAGGATTTTCACGCTTCTAATATAGTTTTTCCATTTTTTT
* *
67134 TCCGAATTTATTTCTAATTAAATCAAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATC
374 TCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATC
* * *
67199 CAATATGGCTGAGATTTTGTTTGATGAATATAGATATTTGAAGGAGTGTTTCCACCAAAAATCAT
439 CAATATGGCTGAGATTTTGTTAGATGAATATAGATATTTGAAGGAGTCTTTCCGCCAAAAATCAT
* * *
67264 GCAAAACTGAGCTGGGACCCCAGAACGCATTTTTAGCCCAAAATCCGTAATGGTTAGTACACGAT
504 GCAAAACTGAGCTGGG--CCCAGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGAT
*
67329 TTCGGCTAAAAACTGACCCGAAAGATTATTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
567 TTCGGCTAAAAACTGACCCGAAAGATTTTTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
* * *
67392 ATATAATTCAACGTCGAAAAGATTGACGAGTATTTTAACGCTTCTAATAGTCG-TTTTCTA-TTT
1 ATATAATTCAACGTCAAAAAGATTGACG-GGATTTTCACGCTTCTAATA-TCGTTTTTCTATTTT
* * *
67455 TTTCTAGAATTAATTTCTAATTAAATTGAAAAAAGTTTCAAATGCTCGTAAAAA
64 TTTCCAGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTCGTAAAAA
Statistics
Matches: 1682, Mismatches: 259, Indels: 187
0.79 0.12 0.09
Matches are distributed among these distances:
629 2 0.00
630 12 0.01
631 1 0.00
633 8 0.00
634 82 0.05
635 216 0.13
636 130 0.08
637 254 0.15
638 247 0.15
639 275 0.16
640 83 0.05
641 52 0.03
642 179 0.11
643 103 0.06
644 13 0.01
645 19 0.01
646 6 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (629 bp):
ATATAATTCAACGTCAAAAAGATTGACGGGATTTTCACGCTTCTAATATCGTTTTTCTATTTTTT
TCCAGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTATAT
CCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTTGACAAAAATCAT
GCAAAATTGAGTCGAGGCTCCGGAACGCGTTTTTAGGAAAAACTAGATTAGTCACAATTTCGCTA
AAAACTCGAAAAACTTTTTCAAATTTTTGCCACAATACACAGAAAAAATATATAAATCAACGCCA
AAACATTTAAGGATTTTCACGCTTCTAATATAGTTTTTCCATTTTTTTTCCGAATTTATTTCTAA
TTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGCTGAGATTT
TGTTAGATGAATATAGATATTTGAAGGAGTCTTTCCGCCAAAAATCATGCAAAACTGAGCTGGGC
CCAGAACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
GAAAGATTTTTTTTGAAATTTTTAACACAATACTCAGAAAAAAT
Done.