Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007945.1 Kokia drynarioides strain JFW-HI SEQ_122593, 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: 12812
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:2678 original size:100 final size:101
Alignment explanation
Indices: 2545--2730 Score: 248
Period size: 101 Copynumber: 1.9 Consensus size: 101
2535 AAGACAAAGT
* * ** * **
2545 ACATTTATCGATTTTAATTAGGGTGTTCAATTATTTTA-GTTCAAAGAAAAATCATACCCCGTAT
1 ACATTTATCGATTTTAAATAGGATACTCAATTATTTTAGGTTCAAAGAAAAAACATACCCAATAT
* *
2609 GTTTGGGCATAATTTCTCGAAATAAAAGAGCATTGA
66 GTTAGGGCACAATTTCTCGAAATAAAAGAGCATTGA
* * **
2645 ACATTTATTGATTTTAAATAGGATACTCGATTATTTTAGGTTTTAAGAAAAAACATACCCAATAT
1 ACATTTATCGATTTTAAATAGGATACTCAATTATTTTAGGTTCAAAGAAAAAACATACCCAATAT
2710 GTTAGGGCACAATTTCTCGAA
66 GTTAGGGCACAATTTCTCGAA
2731 TTCCCTAAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 32 0.44
101 40 0.56
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (101 bp):
ACATTTATCGATTTTAAATAGGATACTCAATTATTTTAGGTTCAAAGAAAAAACATACCCAATAT
GTTAGGGCACAATTTCTCGAAATAAAAGAGCATTGA
Found at i:5041 original size:50 final size:51
Alignment explanation
Indices: 4973--5182 Score: 139
Period size: 50 Copynumber: 4.2 Consensus size: 51
4963 CAGTTAGAAA
* * * *
4973 AAGATTT-TCTAATGTTAGTATTAATCCGATTCTTTCAACTTCAGGGATAT
1 AAGATTTGTCTAATGTTAGTATTAATCCAATCCTTGCAACTTCAAGGATAT
* * * *
5023 AAGATTTGTC-AATTTTAGTTTTAATTCAATCCTTGCAAGTTCAAGGATAT
1 AAGATTTGTCTAATGTTAGTATTAATCCAATCCTTGCAACTTCAAGGATAT
* * *** * * *
5073 AAGATTTG----GTGTT-GTAACTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 AAGATTTGTCTAATGTTAGT-A-TTAATC-CAATCC-TTGCAACTTCAAGGATAT
* * *
5123 AAAGATCTGTC-AATGTTAGTTTTAATCCGATCCTTGCAACTTCAAGGATAT
1 -AAGATTTGTCTAATGTTAGTATTAATCCAATCCTTGCAACTTCAAGGATAT
*
5174 AGGATTTGT
1 AAGATTTGT
5183 AGCTTCATCT
Statistics
Matches: 119, Mismatches: 31, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 4 0.03
49 3 0.03
50 68 0.57
51 24 0.20
52 4 0.03
53 5 0.04
54 4 0.03
55 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (51 bp):
AAGATTTGTCTAATGTTAGTATTAATCCAATCCTTGCAACTTCAAGGATAT
Found at i:5142 original size:101 final size:97
Alignment explanation
Indices: 5008--5421 Score: 351
Period size: 95 Copynumber: 4.3 Consensus size: 97
4998 CCGATTCTTT
* ** *
5008 CAACTTCAGGGATAT-AAGATTTGTCAATTTTAGTTTTAATTCAATC-CTTGCAAGTTCAAGG-A
1 CAACTTCAGGGAGATAAAGATTTGTCAATACTA-TTTTAATTC-ATCAC-TGCAACTTC-AGGAA
* *
5070 TATAAGATTTGGTGTTGTAACTTCATCTTGCTCCACTG
62 GATAAGATTTGGTG-TGT-GCTTCATCTTGCTCCACTG
* ** *
5108 CAACTTCAGGGAGATAAAGATCTGTCAATGTTAGTTTTAATCCGATC-CTTGCAACTTCAAGG-A
1 CAACTTCAGGGAGATAAAGATTTGTCAATACTA-TTTTAATTC-ATCAC-TGCAACTTC-AGGAA
* * *
5171 TATAGGA-TT--TGT-AGCTTCATCTTGCTCCACTG
62 GATAAGATTTGGTGTGTGCTTCATCTTGCTCCACTG
* * *
5203 CAGCTTCAAGGG-GATAAAGA-TT-T-ACTACTATTTTAATCTGCTTCACTGCAACTTCAGGAAG
1 CAACTTC-AGGGAGATAAAGATTTGTCAATACTATTTTAAT-T-CATCACTGCAACTTCAGGAAG
* *
5264 ATAGGATTTGGTGTGT-CTTCAACTTGCTCCACTG
63 ATAAGATTTGGTGTGTGCTTCATCTTGCTCCACTG
* * * *
5298 TAACTTCAGGGAGATAAATATTTG-C--TACTATTTTAATTCGCTTCACTGCAATTTCAGGAAGA
1 CAACTTCAGGGAGATAAAGATTTGTCAATACTATTTTAATT--CATCACTGCAACTTCAGGAAGA
* *
5360 TAGGATTTGGAGTG-GCTTCATCTTGCTCCACTG
64 TAAGATTTGGTGTGTGCTTCATCTTGCTCCACTG
5393 CAACTTCAGGGAGATAAAGATTTGTCAAT
1 CAACTTCAGGGAGATAAAGATTTGTCAAT
5422 GAGACCTGTA
Statistics
Matches: 268, Mismatches: 27, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
91 10 0.04
92 22 0.08
93 5 0.02
94 6 0.02
95 150 0.56
96 7 0.03
97 1 0.00
98 3 0.01
100 16 0.06
101 48 0.18
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (97 bp):
CAACTTCAGGGAGATAAAGATTTGTCAATACTATTTTAATTCATCACTGCAACTTCAGGAAGATA
AGATTTGGTGTGTGCTTCATCTTGCTCCACTG
Found at i:5284 original size:95 final size:95
Alignment explanation
Indices: 5075--5415 Score: 392
Period size: 95 Copynumber: 3.6 Consensus size: 95
5065 AAGGATATAA
* **
5075 GATTTGGTGTTGTAACTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATCTGTCAATGTT
1 GATTTGGTG-TGT--CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGAT-T-T-ACTACT
* * *
5140 AGTTTTAATCCG-ATC-CTTGCAACTTCAAGG-ATATAG
60 A-TTTTAATCTGCTTCAC-TGCAACTTC-AGGAAGATAG
* *
5176 GATTT-GT-AG-CTTCATCTTGCTCCACTGCAGCTTCAAGGG-GATAAAGATTTACTACTATTTT
1 GATTTGGTGTGTCTTCATCTTGCTCCACTGCAACTTC-AGGGAGATAAAGATTTACTACTATTTT
5237 AATCTGCTTCACTGCAACTTCAGGAAGATAG
65 AATCTGCTTCACTGCAACTTCAGGAAGATAG
* * * *
5268 GATTTGGTGTGTCTTCAACTTGCTCCACTGTAACTTCAGGGAGATAAATATTTGCTACTATTTTA
1 GATTTGGTGTGTCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATTTACTACTATTTTA
*
5333 AT-TCGCTTCACTGCAATTTCAGGAAGATAG
66 ATCT-GCTTCACTGCAACTTCAGGAAGATAG
* *
5363 GATTTGGAGTGGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATTT
1 GATTTGGTGTGTCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATTT
5416 GTCAATGAGA
Statistics
Matches: 211, Mismatches: 20, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
91 12 0.06
92 25 0.12
93 4 0.02
94 7 0.03
95 151 0.72
96 4 0.02
98 1 0.00
100 2 0.01
101 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (95 bp):
GATTTGGTGTGTCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATTTACTACTATTTTA
ATCTGCTTCACTGCAACTTCAGGAAGATAG
Found at i:5303 original size:47 final size:47
Alignment explanation
Indices: 5241--5408 Score: 160
Period size: 47 Copynumber: 3.6 Consensus size: 47
5231 TATTTTAATC
*
5241 TGCTTCACTGCAACTTCAGGAAGATAGGATTTGGTGTGTCTTCAACT
1 TGCTCCACTGCAACTTCAGGAAGATAGGATTTGGTGTGTCTTCAACT
* * ** * * * *
5288 TGCTCCACTGTAACTTCAGGGAGATAAATATTTGCTACTAT-TTTAA-T
1 TGCTCCACTGCAACTTCAGGAAGAT-AGGATTTGGT-GTGTCTTCAACT
* * * * *
5335 TCGCTTCACTGCAATTTCAGGAAGATAGGATTTGGAGTGGCTTCATCT
1 T-GCTCCACTGCAACTTCAGGAAGATAGGATTTGGTGTGTCTTCAACT
*
5383 TGCTCCACTGCAACTTCAGGGAGATA
1 TGCTCCACTGCAACTTCAGGAAGATA
5409 AAGATTTGTC
Statistics
Matches: 91, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
46 1 0.01
47 55 0.60
48 33 0.36
49 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (47 bp):
TGCTCCACTGCAACTTCAGGAAGATAGGATTTGGTGTGTCTTCAACT
Found at i:5354 original size:48 final size:48
Alignment explanation
Indices: 5198--5361 Score: 140
Period size: 48 Copynumber: 3.4 Consensus size: 48
5188 CATCTTGCTC
* * *
5198 CACTGCAGCTTCAAGG-GGATAAAGATTTACTACTATTTTAA-TCTGCTT
1 CACTGCAACTTC-AGGAAGATAAAGATTTGCTACTATTTTAATTC-GCTT
* * * * * *
5246 CACTGCAACTTCAGGAAGAT-AGGATTTGGT-GTGTCTTCAACTT-GCTC
1 CACTGCAACTTCAGGAAGATAAAGATTTGCTACTAT-TTTAA-TTCGCTT
* * *
5293 CACTGTAACTTCAGGGAGATAAATATTTGCTACTATTTTAATTCGCTT
1 CACTGCAACTTCAGGAAGATAAAGATTTGCTACTATTTTAATTCGCTT
*
5341 CACTGCAATTTCAGGAAGATA
1 CACTGCAACTTCAGGAAGATA
5362 GGATTTGGAG
Statistics
Matches: 88, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
46 2 0.02
47 37 0.42
48 46 0.52
49 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (48 bp):
CACTGCAACTTCAGGAAGATAAAGATTTGCTACTATTTTAATTCGCTT
Found at i:9348 original size:178 final size:179
Alignment explanation
Indices: 9022--9378 Score: 430
Period size: 178 Copynumber: 2.0 Consensus size: 179
9012 ACATGTTTGG
* * * *
9022 AGTTCGGCTAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTATAATCCAAAGACCAAA
1 AGTTCGGCCAAGAACCAACAGAGAAACAATTCTCACATAAATAAGTTTATAATCCAAAGACCAAA
* * * * * *
9087 AGTTGTTTACAAAATAACAAATTATTTGAACCAAATTATACAATTTCTCGAGAATCTAATGTTCG
66 AGTTGTTTACAAAAGAACAAACTATTTGAACCAAATGATACAATTTCCCAAGAATCGAATGTTCG
* * *
9152 AAAAATTGCTTGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAA
131 AAAAATTGCTCGAAGGAATCGATCGTCTTGAAAACTTTAAGGAACCAAA
* * *
9201 AGTTTGGCCAAGAACCAACAG-GAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAA
1 AGTTCGGCCAAGAACCAACAGAGAAACAATTCTCACATAAATAAGTTTATAATCCAAAGACCAAA
** * * *** ** * *
9265 AGGTT-TTTACAAAAGGGCAAACTATTTGAACCGAATGGTGTGATTTCCCAAGGTTGGAATGTTT
66 A-GTTGTTTACAAAAGAACAAACTATTTGAACCAAATGATACAATTTCCCAAGAATCGAATGTTC
* *
9329 GGAAAATTGCTCGAAGGAATCGATCGTTTTGAAAACTTTAAGGAACCAAA
130 GAAAAATTGCTCGAAGGAATCGATCGTCTTGAAAACTTTAAGGAACCAAA
9379 GTTATAAAAG
Statistics
Matches: 148, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
178 127 0.86
179 21 0.14
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (179 bp):
AGTTCGGCCAAGAACCAACAGAGAAACAATTCTCACATAAATAAGTTTATAATCCAAAGACCAAA
AGTTGTTTACAAAAGAACAAACTATTTGAACCAAATGATACAATTTCCCAAGAATCGAATGTTCG
AAAAATTGCTCGAAGGAATCGATCGTCTTGAAAACTTTAAGGAACCAAA
Found at i:9599 original size:216 final size:214
Alignment explanation
Indices: 9200--9891 Score: 831
Period size: 216 Copynumber: 3.2 Consensus size: 214
9190 AAGGAACCAA
** * *
9200 AAGTTTGGCCAAGAACCAACAG-GAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAA
1 AAGTTTGATCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGAACAA
** * * * **
9264 AAGGTTTTTACAAAAGGGCAAACTATTTGAACCGAAT-GGTGTGATTTCCCAAGGTTGGAATGTT
66 AA-GTTTTTACAAAAGGATAAACTATTTGGACC-AATAGATGTGATTTCCCGAGAATGGAATGTT
* * * * **
9328 TGGAAAATTGCTCGAAGGAATCGATCGTTTTGAAAACTTTAAGGAACCAAAGTTATAAAAGAACT
129 CGAAAAATTGCTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACT
*
9393 GGAAAAAGTTTGACAAGTCTAG
194 TGAAAAAGTTTGACAAGT-TAG
* *
9415 AAGTTCGATCAAGAACCAAGAGAGAAACAAATT-TCACATAAATAAGTTTTTAATCCAAAGAACA
1 AAGTTTGATCAAGAACCAAGAGAGAAAC-AATTCTCACATAAATAAGTTTTTAATTCAAAGAACA
* * * *
9479 AAAGTTCTTTACAAAATGATAGATTATTTGGACCAATAGATGTTATTTCCCGAGAATGGAATGTT
65 AAAGTT-TTTACAAAAGGATAAACTATTTGGACCAATAGATGTGATTTCCCGAGAATGGAATGTT
* * * * * *
9544 CGAAAAATTTCTCTAAGGAATGGATCGTCTTGAATACTTAAAGGAATTGAAGTTATAAAAGAATT
129 CGAAAAATTGCTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACT
* *
9609 TGAAAAAGTTTGAAAAGTTCG
194 TGAAAAAGTTTGACAAGTTAG
* * * *
9630 AAAGTTTGACCAAGAGCCAAAAGAGAAATC-ATTCTCACGTAAATAAGTTTTTAATTCAAAG-AC
1 -AAGTTTGATCAAGAACCAAGAGAGAAA-CAATTCTCACATAAATAAGTTTTTAATTCAAAGAAC
* * *
9693 ATAAAGTTTTTTACAAAAGGATAAACCATTTGGACCAA-ATGATGCGATTTCCCGAGTATGGAAT
64 A-AAAG-TTTTTACAAAAGGATAAACTATTTGGACCAATA-GATGTGATTTCCCGAGAATGGAAT
* * * *
9757 GTTCGAAAAATTGCACGAAGGAATCGATCCTCCTGAATACTTTAAGGAACTGAAGTTTTAAAAGA
126 GTTCGAAAAATTGCTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGA
9822 ACTTGAAAAAGTTTGACAAGTTCAG
191 ACTTGAAAAAGTTTGACAAGTT-AG
*
9847 AAGTTTG-TCCAAGAACCAGGAGAGAAACAATTCTCACATAAATAA
1 AAGTTTGAT-CAAGAACCAAGAGAGAAACAATTCTCACATAAATAA
9892 ATTTGACAAG
Statistics
Matches: 402, Mismatches: 62, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
215 34 0.08
216 360 0.90
217 8 0.02
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (214 bp):
AAGTTTGATCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGAACAA
AAGTTTTTACAAAAGGATAAACTATTTGGACCAATAGATGTGATTTCCCGAGAATGGAATGTTCG
AAAAATTGCTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTTG
AAAAAGTTTGACAAGTTAG
Found at i:10351 original size:479 final size:483
Alignment explanation
Indices: 9401--10362 Score: 1181
Period size: 479 Copynumber: 2.0 Consensus size: 483
9391 CTGGAAAAAG
* *
9401 TTTGACAAGTCTAGAAGTTCGATCAAGAACCAAGAGAGAAACAAATTTCACATAAATAAGTTTTT
1 TTTGACAAGTCTAGAACTTCGACCAAGAACCAAGAGAGAAACAAATTTCACATAAATAAGTTTTT
* * * ** *
9466 AATCCAAAGAACAAAAGTTCTTTACAAAATGATAGATTATTTGGACCAATAGATGTTATTTCCCG
66 AATCCAAAGAACAAAAGTTCTTTAAAAAATGACAAATTATTTGGACCAATAGATGCGATTTCCAG
* **
9531 AGAATGGAATGTTCGAAAAATTTCTCTAAGGAATGGATCGTCTTGAATACTTAAAGGAATTGAAG
131 AGAATGGAATGTTCG--AAA------TAA-GAATGGATCGTCTCGAATACTTAAAGGAACCGAAG
* * * * *
9596 TTATAAAAGAATTTGAAAAAGTTTGAAAAGTTCGAAAGTTTGACCAAGAGCCAAAAGAGAAATCA
187 TTATAAAAGAACTCGAAAAAGTTTGAAAAGTTCGAAAGTTCGACCAAGAACCAAAAGAGAAATAA
* *
9661 TTCTCACGTAAATAAGTTTTTAATTCAAAGACATAAAGTTTTTTACAAAAGGATAAACCATTTGG
252 TTCTCACGTAAATAAGTTTTTAATTCAAAGACAGAAAGTTTTTTACAAAAGGAAAAACCATTTGG
* * * * *
9726 ACCAAATGATGCGATTTCCCGAGTATGGAATGTTCGAAAAATTGCACGAAGGAATCGATCCTCCT
317 ACCAAATGATACGATTTCCCAAGAATGGAATGTCCGAAAAATTGCACGAAAGAATCGATCCTCCT
* * * * ** *
9791 GAATACTTTAAGGAACTGAAGTTTTAAAAGAACTTGAAAAAGTTTGACAAGTTCAGAAGTTTGTC
382 GAATACATTAAGAAACCGAAGTTATAAAAGAACAAGAAAAAGTTTGACAAGTTCAGAAGTTAGTC
*
9856 CAAGAACCAGGAGAGAAACAATTCTCACATAAATAAA
447 CAAGAACCAAGAGAGAAACAATTCTCACATAAATAAA
* * *
9893 TTTGACAAGT-TAGGAACTTCGGCCAAGAA-CAA-CGAGAAAC-AATTCTCACATTAATAAGTTT
1 TTTGACAAGTCTA-GAACTTCGACCAAGAACCAAGAGAGAAACAAATT-TCACATAAATAAGTTT
* * *
9954 TTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAAATTATTTGGACCAA-ATGATGCGATTTC
64 TTAATCCAAAGAACAAAAGTTCTTTAAAAAATGACAAATTATTTGGACCAATA-GATGCGATTTC
* *
10018 CAGAGAATGGACTGTTCG-AA-AA-AATGGATCGTCTCGAATA-TTGTAAGGAACCGAAGTTATA
128 CAGAGAATGGAATGTTCGAAATAAGAATGGATCGTCTCGAATACTT-AAAGGAACCGAAGTTATA
* * * * *
10079 AAAGAACTCGAAAAAGTTTGCAATGTTCGAAAGTTCGGCCATGAACCAAGAGAGAAATAATTCTC
192 AAAGAACTCGAAAAAGTTTGAAAAGTTCGAAAGTTCGACCAAGAACCAAAAGAGAAATAATTCTC
* * * * *
10144 ATGTAGATAAGTTTTTAATTCATAGACCGAAAGTTTTTTTACAAAAGGAAAAACTATTTGGACCA
257 ACGTAAATAAGTTTTTAATTCAAAGACAGAAAG-TTTTTTACAAAAGGAAAAACCATTTGGACCA
* * * *
10209 AATGATACGATTTCCCAAGAATTGAATGTCC-AGAAAATTGCTCGAAAGAATCGATCGTCTTGAA
321 AATGATACGATTTCCCAAGAATGGAATGTCCGA-AAAATTGCACGAAAGAATCGATCCTCCTGAA
* ** * *
10273 TACATTAAGAAACCGAAGTTATAAAAGAACAAGTAAAAGTTTGGTAATTTCAGATGTTCAG-CCA
385 TACATTAAGAAACCGAAGTTATAAAAGAACAAGAAAAAGTTTGACAAGTTCAGAAGTT-AGTCCA
10337 AGAACCAAGAGAGAAACAATTCTCAC
449 AGAACCAAGAGAGAAACAATTCTCAC
10363 GTACATAAGT
Statistics
Matches: 405, Mismatches: 58, Indels: 27
0.83 0.12 0.06
Matches are distributed among these distances:
477 2 0.00
478 116 0.29
479 157 0.39
480 3 0.01
487 2 0.00
489 5 0.01
490 92 0.23
491 5 0.01
492 23 0.06
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (483 bp):
TTTGACAAGTCTAGAACTTCGACCAAGAACCAAGAGAGAAACAAATTTCACATAAATAAGTTTTT
AATCCAAAGAACAAAAGTTCTTTAAAAAATGACAAATTATTTGGACCAATAGATGCGATTTCCAG
AGAATGGAATGTTCGAAATAAGAATGGATCGTCTCGAATACTTAAAGGAACCGAAGTTATAAAAG
AACTCGAAAAAGTTTGAAAAGTTCGAAAGTTCGACCAAGAACCAAAAGAGAAATAATTCTCACGT
AAATAAGTTTTTAATTCAAAGACAGAAAGTTTTTTACAAAAGGAAAAACCATTTGGACCAAATGA
TACGATTTCCCAAGAATGGAATGTCCGAAAAATTGCACGAAAGAATCGATCCTCCTGAATACATT
AAGAAACCGAAGTTATAAAAGAACAAGAAAAAGTTTGACAAGTTCAGAAGTTAGTCCAAGAACCA
AGAGAGAAACAATTCTCACATAAATAAA
Found at i:10623 original size:22 final size:22
Alignment explanation
Indices: 10593--10634 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10583 CAAAGACCAG
*
10593 AAGTACTTTACAAAATGACAGA
1 AAGTACTTTACAAAAGGACAGA
*
10615 AAGTTCTTTACAAAAGGACA
1 AAGTACTTTACAAAAGGACA
10635 AACTATTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (22 bp):
AAGTACTTTACAAAAGGACAGA
Found at i:11010 original size:216 final size:216
Alignment explanation
Indices: 10614--11147 Score: 694
Period size: 216 Copynumber: 2.5 Consensus size: 216
10604 AAAATGACAG
* * * *
10614 AAAGTTCTTTACAAAAGGACAAACTATTTGG-ACTAAATGATGCGATTTCTCGAGCATGGAATGT
1 AAAGTTATTTACAAAAGGACAAACTACTTGGTAC-AAATGATGTGATTTCCCGAGCATGGAATGT
* * * * * * *
10678 TCAGAAAATTGCTTGAAGGAATCGATTGTCTTTAATACTTTAAGGAACCGATGTTATTAAAGAAC
65 TCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAAC
* ** * * * * * *
10743 TCGAAAAAGTTTGACGAGTTCGGGAGTTTGGCTAAGAATCAAGAAAGAAACAATTCTAATGATAA
130 TCGAAAAAATTTGAAAAGTTCGGAAGTTCGACCAAGAACCAAGAAAGAAACAATTCCAATGATAA
10808 TAAGTTTTTAATTCAAAGACCA
195 TAAGTTTTTAATTCAAAGACCA
* * * * *
10830 AAAGTTGTTTACAAAAGGACAAATTACTTGGTTCAAATGATGTGATTACCCGAGCATGGAATATT
1 AAAGTTATTTACAAAAGGACAAACTACTTGGTACAAATGATGTGATTTCCCGAGCATGGAATGTT
* * *
10895 -TGAAAAATTGGTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAAC
66 CAG-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAAC
* * *
10959 TCGAAAAAATTTGAAAAGTTTGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCCAATGTTAA
130 TCGAAAAAATTTGAAAAGTTCGGAAGTTCGACCAAGAACCAAGAAAGAAACAATTCCAATGATAA
*
11024 TAAGTTTTTAATTCAAATACCA
195 TAAGTTTTTAATTCAAAGACCA
* * * * * *
11046 ACAGTTATTTACAAAATGACAAACAACTTGGTCCAAATGATGTGATTTCCTGTGCATGGAATGTT
1 AAAGTTATTTACAAAAGGACAAACTACTTGGTACAAATGATGTGATTTCCCGAGCATGGAATGTT
11111 CAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATAC
66 CAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATAC
11148 CAAAAGATGT
Statistics
Matches: 271, Mismatches: 44, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
215 1 0.00
216 268 0.99
217 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (216 bp):
AAAGTTATTTACAAAAGGACAAACTACTTGGTACAAATGATGTGATTTCCCGAGCATGGAATGTT
CAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAACT
CGAAAAAATTTGAAAAGTTCGGAAGTTCGACCAAGAACCAAGAAAGAAACAATTCCAATGATAAT
AAGTTTTTAATTCAAAGACCA
Found at i:11191 original size:69 final size:69
Alignment explanation
Indices: 11078--11216 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
11068 ACAACTTGGT
* * * * *
11078 CCAAATGATGTGATTTCCTGTGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTG
1 CCAAAAGATGTGATTTCCTGAGCATGAAATGTTCAGAAAATTGCTCGAAGGAATGCATCATCTTG
11143 AATA
66 AATA
* *
11147 CCAAAAGATGTGATTTCCTGAGTATGAAATGTTCAGAAATTTGCTCGAAGGAATGCATCATCTTG
1 CCAAAAGATGTGATTTCCTGAGCATGAAATGTTCAGAAAATTGCTCGAAGGAATGCATCATCTTG
11212 AATA
66 AATA
11216 C
1 C
11217 TTTAAGAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (69 bp):
CCAAAAGATGTGATTTCCTGAGCATGAAATGTTCAGAAAATTGCTCGAAGGAATGCATCATCTTG
AATA
Found at i:11390 original size:285 final size:285
Alignment explanation
Indices: 10906--11432 Score: 713
Period size: 285 Copynumber: 1.8 Consensus size: 285
10896 GAAAAATTGG
* * **
10906 TCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAACTCGAAAAAATTT
1 TCGAAGGAATGCATCATCTTGAATACTTTAAGAAACCGAAGCTATAAAAGAACAAGAAAAAATTT
** * *
10971 GAAAAGTTTGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCCAATGTTAATAAGTTTTTAAT
66 GAAAAGTTCAGAAGTACGACCAAGAACCAAGAGAGAAACAATTCCAACGTTAATAAGTTTTTAAT
* * * ** *
11036 TCAAATACCAACAGTTATTTACAAAATGACAAACAACTTGGTCCAAATGATGTGATTTCCTGTGC
131 TCAAAGACCAAAAGTTATTTACAAAATGACAAACAACTTGGACCAAATGATGCCATTTCCTGAGC
* *
11101 ATGGAATGTTC-AGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACCAAAAGATGTGATTTCC
196 ATGGAATGTTCGA-AAAATTGCTAGAAGGAATGGATCATCTTGAATACCAAAAGATGTGATTTCC
11165 TGAGTATGAAATGTTCAGAAATTTGC
260 TGAGTATGAAATGTTCAGAAATTTGC
* * *
11191 TCGAAGGAATGCATCATCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAACAAGTAAAAGTTT
1 TCGAAGGAATGCATCATCTTGAATACTTTAAGAAACCGAAGCTATAAAAGAACAAGAAAAAATTT
* * *
11256 GACAAGTTCAGATGTAC-AGCCAAGAACCAAGAGAGAAACAATTCTC-ACG-TACTTAAGTTTTT
66 GAAAAGTTCAGAAGTACGA-CCAAGAACCAAGAGAGAAACAATTC-CAACGTTA-ATAAGTTTTT
* * ** * *
11318 AATTCAAAGACCAAAAGTTCTTTACGAAATGACAAATTATTTGGACCAAGTGATGCCATTT-CTC
128 AATTCAAAGACCAAAAGTTATTTACAAAATGACAAACAACTTGGACCAAATGATGCCATTTCCT-
*
11382 GAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGGTCATCTTGAATAC
192 GAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATAC
11433 TTTAAGGAAC
Statistics
Matches: 208, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
284 5 0.02
285 201 0.97
286 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (285 bp):
TCGAAGGAATGCATCATCTTGAATACTTTAAGAAACCGAAGCTATAAAAGAACAAGAAAAAATTT
GAAAAGTTCAGAAGTACGACCAAGAACCAAGAGAGAAACAATTCCAACGTTAATAAGTTTTTAAT
TCAAAGACCAAAAGTTATTTACAAAATGACAAACAACTTGGACCAAATGATGCCATTTCCTGAGC
ATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATACCAAAAGATGTGATTTCCT
GAGTATGAAATGTTCAGAAATTTGC
Found at i:11620 original size:501 final size:501
Alignment explanation
Indices: 10673--11637 Score: 1190
Period size: 501 Copynumber: 1.9 Consensus size: 501
10663 TCGAGCATGG
* ** * * * *
10673 AATGTTCAGAAAATTGCTTGAAGGAATCGATTGTCTTTAATACTTTAAGGAACCGATGTTATTAA
1 AATGTTCAGAAAATTGCTCGAAGGAATCGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAA
** * * *** * * *
10738 AGAACTCGAAAAAGTTTGACGAGTTCGGGAGTTTGGCTAAGAATCAAGAAAGAAACAATTCTAAT
66 AGAACAAGAAAAAGTTTGACAAGTTCGAGAGTACAGCCAAGAACCAAGAAAGAAACAATTCTAAC
* **
10803 GATAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAGGACAAATTACTTGGTTCAAAT
131 GATAATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAATTACTTGGACCAAAT
** * * *
10868 GATGTGATTACCCGAGCATGGAATATTTGAAAAATTGGTCGAAGGAATGGATCATCTTGAATACT
196 GATGCCATTACCCGAGCATGGAATATTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATACT
*
10933 TTAAGGAACCGAAGCTATAAAAGAACTCGAAAAAATTTGAAAAGTTTGGAAGTTCGACCAAGAAC
261 TTAAGGAACCGAAGCTATAAAAGAACTCGAAAAAATTTGAAAAGTTTGAAAGTTCGACCAAGAAC
* * ** * *
10998 CAAGAGAGAAACAATTCCAATGTTAATAAGTTTTTAATTCAAATACCAACAGTTATTTACAAAAT
326 CAAGAGAGAAACAATTCCAACGTAAATAAGTTTTTAAACCAAAGACCAACAGTTATTTACAAAAG
* ** ** *
11063 GACAAACAACTTGGTCCAAATGATGTGATTTCCTGTGCATGGAATGTTCAGAAAA-TTGCTCGAA
391 GACAAACAACTTGGACCAAATGATGCAATTTCCTGAACAAGGAATGTTCAGAAAATTTGCTCGAA
11127 GGAATGGATCGTCTTGAATACCAAAAGATGTGATTTCCTGAGTATGA
456 GGAA-GGATCGTCTTGAATACCAAAAGATGTGATTTCCTGAGTATGA
*
11174 AATGTTCAGAAATTTGCTCGAAGGAAT-GCATCATCTTGAATACTTTAAGAAACCGAAGTTATAA
1 AATGTTCAGAAAATTGCTCGAAGGAATCG-ATCATCTTGAATACTTTAAGAAACCGAAGTTATAA
* * *
11238 AAGAACAAGTAAAAGTTTGACAAGTTC-AGATGTACAGCCAAGAACCAAGAGAGAAACAATTCTC
65 AAGAACAAGAAAAAGTTTGACAAGTTCGAGA-GTACAGCCAAGAACCAAGAAAGAAACAATTCTA
* * * *
11302 ACG-TACTTAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACGAAATGACAAATTATTTGGACCA
129 ACGATA-ATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAATTACTTGGACCA
* * * * *
11366 AGTGATGCCATTTCTCGAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGGTCATCTTGAAT
193 AATGATGCCATTACCCGAGCATGGAATATTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAAT
* * * * * * *
11431 ACTTTAAGGAACTGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTTTGAAAGTTC-AGCTAA
258 ACTTTAAGGAACCGAAGCTATAAAAGAACTCGAAAAAATTTGAAAAGTTTGAAAGTTCGA-CCAA
* * ** *
11495 GAACCAAGAGATAAATAATTCTC-ACGTAAATAAGTTTTTAAACCAAAGATTGAA-AGTTTTTTT
322 GAACCAAGAGAGAAACAATTC-CAACGTAAATAAGTTTTTAAACCAAAGA-CCAACAG-TTATTT
** * *
11558 ACAAAAGGACAAATTATTTGGACCAAATGATGCAATTTCTTGAACAAGGAATGTTC-GAAAATTT
384 ACAAAAGGACAAACAACTTGGACCAAATGATGCAATTTCCTGAACAAGGAATGTTCAGAAAATTT
*
11622 GCTTGAAGGAAGGATC
449 GCTCGAAGGAAGGATC
11638 ATCATAAACA
Statistics
Matches: 388, Mismatches: 68, Indels: 16
0.82 0.14 0.03
Matches are distributed among these distances:
500 6 0.02
501 317 0.82
502 65 0.17
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (501 bp):
AATGTTCAGAAAATTGCTCGAAGGAATCGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAA
AGAACAAGAAAAAGTTTGACAAGTTCGAGAGTACAGCCAAGAACCAAGAAAGAAACAATTCTAAC
GATAATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAATTACTTGGACCAAAT
GATGCCATTACCCGAGCATGGAATATTCGAAAAATTGCTAGAAGGAATGGATCATCTTGAATACT
TTAAGGAACCGAAGCTATAAAAGAACTCGAAAAAATTTGAAAAGTTTGAAAGTTCGACCAAGAAC
CAAGAGAGAAACAATTCCAACGTAAATAAGTTTTTAAACCAAAGACCAACAGTTATTTACAAAAG
GACAAACAACTTGGACCAAATGATGCAATTTCCTGAACAAGGAATGTTCAGAAAATTTGCTCGAA
GGAAGGATCGTCTTGAATACCAAAAGATGTGATTTCCTGAGTATGA
Found at i:11653 original size:216 final size:216
Alignment explanation
Indices: 11146--12812 Score: 1818
Period size: 216 Copynumber: 7.7 Consensus size: 216
11136 CGTCTTGAAT
* * * * * *
11146 ACCAAAAGATGTGATTTC-CTGAGTATGAAATGTTC-AGAAATTTGCTCGAAGGAATGCATCATC
1 ACCAAATGATGCGATTTCTC-GAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCATC
* ** * *
11209 TTGAATACTTTAAGAAACCGAAGTTATAAAAGAACAAGTAAAAGTTTGACAAGTTC-AGATGTAC
64 TTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTC
** * *
11273 AGCCAAGAACCAAGAGAGAAACAATTCTCACGTACTTAAGTTTTTAATTCAAAGACCAAAAGTTC
128 AGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTT
* * *
11338 TTTACGAAATGACAAATTATTTGG
193 TTTACAAAAGGACAAACTATTTGG
* * * *
11362 ACCAAGTGATGCCATTTCTCGAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGGTCATCTT
1 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTT
* * *
11427 GAATACTTTAAGGAACTGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTTTGAAAGTTCAGC
66 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAGC
* * * ** **
11492 TAAGAACCAAGAGATAAATAATTCTCACGTAAATAAGTTTTTAAACCAAAGATTGAAAGTTTTTT
131 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAG-TTTTT
*
11557 TACAAAAGGACAAATTATTTGG
195 TACAAAAGGACAAACTATTTGG
* * * * * * *
11579 ACCAAATGATGCAATTTCTTGAACAAGGAATGTTCGAAAATTTGCTTGAAGGAA-GGATCATCAT
1 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTT
* * * * * * *
11643 AAACACTTTAAGGAACCAAAGTTATAAAAGAACTCGAAAAAGTTTGAAAAGTTCAAAAGTTCGGC
66 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAGC
* * * * *
11708 CATGAACCAAGAGAGAAATAATTCTCACGTATATAAGTTTTTAATTCATAGACCGAAAGTCTTTT
131 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTTTT
11773 ACAAAAGGACAAACTATTTGG
196 ACAAAAGGACAAACTATTTGG
** * * * * *
11794 ACCAAATGATATGATTTCTCAAGAATGGAATGTTCTG-AAAATTGCTCGAAGGAATCGATCTTCA
1 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTC-GAAAAATTGCTCGAAGGAATGGATCATCT
* ** ** * *
11858 TGAATACTTTAAGGAACCGAAGTTAAAAAAGTGCTCCAAAAAGTTTGACAAGTT-TAGAAGTTCG
65 TGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCA
* * * * * *
11922 GCGAAGAACCAAGAAAGAAAAAATTCTCACATAAATAAGTTTTTAATTCAAAGATCGAAAGTTGT
129 GCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTT
* *
11987 ATACAAAAGGACAAAATATTTGG
194 TTACAAAAGGACAAACTATTTGG
* * *
12010 ACCAAATGATGCGATTTCTCGAGCATGGAATGATT-GAAAAATTGCTCAAAGGAATGAATCGTCT
1 ACCAAATGATGCGATTTCTCGAGCATGGAATG-TTCGAAAAATTGCTCGAAGGAATGGATCATCT
* * * *
12074 TGAATACTTTAAGAAACTGAAGTTACAAAAGAACTCGTAAAAGATTGACAAGTTCGAAAGTTCAG
65 TGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAG
* * * * ** * *
12139 TCAAGAACCAATG-GAGAAACCATTCCCACGAAAATAAGTTTTTAATTTTAAGACCAAAAG--TA
130 CCAAGAACCAA-GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTT
* *
12201 TTACAAAATGACAAATTATTTGG
194 TTACAAAAGGACAAACTATTTGG
* * * * * * *
12224 ACGAAATGATGCGATTTCTCGAGCAAGGAATGTTCAAAAAATTACTCGAATGAATGGATCGTATT
1 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTT
* ** * * *
12289 GAATACCTTAAGGAATAGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTT-TAGATGTTCAG
66 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCAG
* *
12353 CCAAGAACCAAGAGAGAAACAATTC-CACGTAAATAAGTTTTTAATTTAAAGACC-AAAATTTCT
130 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTT-T
**
12416 TTACAAACTGAC-AACTATTTGG
194 TTACAAAAGGACAAACTATTTGG
* * * * * * * * * **
12438 ACCAAATGATACGATTTCCCAAGCATGGAATGTTTGGAAATTTTCTAGAAGTAAT-GAGTTGTCT
1 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGA-TCATCT
* * * * * *
12502 TGAATACATTAAGAAACTGAAGTTATAAAAGAAGTCGTAAAAAGTTTGACAAATTCGAAAGTTCG
65 TGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGT-AAAAGTTTGACAAGTTCGAAAGTTCA
* ** * * *
12567 GCTAAGAAATAAGAGAGAAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAATTTTT
129 GCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTT
12632 TTACAAAAGGACAAACTATTTGG
194 TTACAAAAGGACAAACTATTTGG
* * * * * * *
12655 ACCAAATGATGCGATTTCCCGAGTATGGAATGTTTGGAAAATTGCTCAAAGGAATTGATCATTTT
1 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTT
* * * *
12720 GAGTACTTTAAAGAACCAAAGTTATAAATGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GA
66 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAG-
*
12784 CCAAGAACCAAGAGAAAAACAATTCTCAC
130 CCAAGAACCAAGAGAGAAACAATTCTCAC
Statistics
Matches: 1215, Mismatches: 211, Indels: 50
0.82 0.14 0.03
Matches are distributed among these distances:
212 3 0.00
213 33 0.03
214 236 0.19
215 124 0.10
216 643 0.53
217 174 0.14
218 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (216 bp):
ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTT
GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAGC
CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTTTT
ACAAAAGGACAAACTATTTGG
Found at i:12654 original size:645 final size:644
Alignment explanation
Indices: 11174--12808 Score: 1954
Period size: 645 Copynumber: 2.5 Consensus size: 644
11164 CTGAGTATGA
* * * *
11174 AATGTTCAGAAATTTGCTCGAAGGAAT-GCATCATCTTGAATACTTTAAGAAACCGAAGTTATAA
1 AATGTTCTGAAAATTGCTAGAAGGAATCG-ATCTTCTTGAATACTTTAAGAAACCGAAGTTATAA
*** * * *
11238 AAGAACAAGT-AAAAGTTTGACAAGTTCAGATGTACAGCCAAGAACCAAGAGAGAAACAATTCTC
65 AAGAAGTCGTAAAAAGTTTGACAAGTTCAGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTC
** * * *
11302 ACGTACTTAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACGAAATGACAAATTATTTGGACCAA
130 ACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAAATATTTGGACCAA
* * *
11367 GTGATGCCATTTCTCGAGCATGGAATGTTCGAAAAATTGCT-AGAAGGAATGGGTCATCTTGAAT
195 ATGATGCGATTTCTCGAGCATGGAATGTT-GAAAAATTGCTCA-AAGGAAT-GATCATCTTGAAT
* * *
11431 ACTTTAAGGAACTGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTTTGAAAGTTCAGCTAAG
257 ACTTTAAGAAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAGC-AAG
* * * * *** *
11496 AACCAAGAGATAAATAATTCTCACGTAAATAAGTTTTTAAACCAAAGATTGAAAGTTTTTTTACA
321 AACCAAGAGAGAAACAATTCCCACGAAAATAAGTTTTTAAACCAAAGACCAAAAG--TTATTACA
* * * * *
11561 AAAGGACAAATTATTTGGACCAAATGATGCAATTTCTTGAACAAGGAATGTTCGAAAATTTGCTT
384 AAAGGACAAATTATTTGGACCAAATGATGCAATTTCTCGAACAAGGAATGTTCAAAAAATTACTC
*
11626 GAAGGAAGGATCATCATAAACACTTTAAGGAACCAAAGTTATAAAAGAACTCGAAAAAGTTTGAA
449 GAAGGAAGGATCATCATAAACACCTTAAGGAACCAAAGTTATAAAAGAACTCGAAAAAGTTTGAA
* * * *
11691 AAGTTCAAAAGTTCGGCCATGAACCAAGAGAGAAATAATTCTCACGTATATAAGTTTTTAATTCA
514 AAGTTCAAAAGTTCAGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* * * *
11756 TAGACCGAAAGTCTTTTACAAAAGGACAAACTATTTGGACCAAATGATATGATTTCTCAAGAATG
579 AAGACCAAAAGTCTTTTACAAAAGGACAAACTATTTGGACCAAATGATACGATTTCCCAAGAATG
11821 G
644 G
* * * *
11822 AATGTTCTGAAAATTGCTCGAAGGAATCGATCTTCATGAATACTTTAAGGAACCGAAGTTAAAAA
1 AATGTTCTGAAAATTGCTAGAAGGAATCGATCTTCTTGAATACTTTAAGAAACCGAAGTTATAAA
* * * * * *
11887 AG-TGCTC-CAAAAAGTTTGACAAGTTTAGAAGTTCGGCGAAGAACCAAGAAAGAAAAAATTCTC
66 AGAAG-TCGTAAAAAGTTTGACAAGTTCAGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTC
* * * * *
11950 ACATAAATAAGTTTTTAATTCAAAGATCGAAAGTTGTATACAAAAGGACAAAATATTTGGACCAA
130 ACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAAATATTTGGACCAA
*
12015 ATGATGCGATTTCTCGAGCATGGAATGATTGAAAAATTGCTCAAAGGAATGAATCGTCTTGAATA
195 ATGATGCGATTTCTCGAGCATGGAATG-TTGAAAAATTGCTCAAAGGAATG-ATCATCTTGAATA
* *
12080 CTTTAAGAAACTGAAGTTACAAAAGAACTCGTAAAAGATTGACAAGTTCGAAAGTTCAGTCAAGA
258 CTTTAAGAAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAG-CAAGA
* ****
12145 ACCAATG-GAGAAACCATTCCCACGAAAATAAGTTTTTAATTTTAAGACCAAAAG-TATTACAAA
322 ACCAA-GAGAGAAACAATTCCCACGAAAATAAGTTTTTAAACCAAAGACCAAAAGTTATTACAAA
* * * *
12208 ATGACAAATTATTTGGACGAAATGATGCGATTTCTCGAGCAAGGAATGTTCAAAAAATTACTCGA
386 AGGACAAATTATTTGGACCAAATGATGCAATTTCTCGAACAAGGAATGTTCAAAAAATTACTCGA
* * * * * * *
12273 ATGAATGGATCGT-ATTGAATACCTTAAGGAA-TAGAAGTTATAAAAGAACTTGTAAAAGTTTGA
451 AGGAA-GGATCATCA-TAAACACCTTAAGGAACCA-AAGTTATAAAAGAACTCGAAAAAGTTTGA
* * * * *
12336 CAAGTTTAGATGTTCAGCCAAGAACCAAGAGAGAAACAATTC-CACGTAAATAAGTTTTTAATTT
513 AAAGTTCAAAAGTTCAGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* ** *
12400 AAAGACCAAAA-TTTCTTTACAAACTGAC-AACTATTTGGACCAAATGATACGATTTCCCAAGCA
578 AAAGACCAAAAGTCT-TTTACAAAAGGACAAACTATTTGGACCAAATGATACGATTTCCCAAGAA
12463 TGG
642 TGG
* * * * *
12466 AATGTT-TGGAAATTTTCTAGAAGTAAT-GAGT-TGTCTTGAATACATTAAGAAACTGAAGTTAT
1 AATGTTCT-GAAAATTGCTAGAAGGAATCGA-TCT-TCTTGAATACTTTAAGAAACCGAAGTTAT
* * **
12528 AAAAGAAGTCGTAAAAAGTTTGACAAATTC-GAAAGTTCGGCTAAGAAATAAGAGAGAAACAATT
63 AAAAGAAGTCGTAAAAAGTTTGACAAGTTCAG-AAGTTCGGCCAAGAACCAAGAGAGAAACAATT
* * * *
12592 CTCACGTAAATAAGTATTTAATTCAAAGACCAAAATTTTTTTACAAAAGGACAAACTATTTGGAC
127 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAAATATTTGGAC
* * * *
12657 CAAATGATGCGATTTCCCGAGTATGGAATGTTTGGAAAATTGCTCAAAGGAATTGATCATTTTGA
192 CAAATGATGCGATTTCTCGAGCATGGAATG-TTGAAAAATTGCTCAAAGGAA-TGATCATCTTGA
* ** * *
12722 GTACTTTAA-AGAACCAAAGTTATAAATGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGACC
255 ATACTTTAAGA-AACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-AGC
*
12786 AAGAACCAAGAGAAAAACAATTC
318 AAGAACCAAGAGAGAAACAATTC
12809 TCAC
Statistics
Matches: 840, Mismatches: 125, Indels: 47
0.83 0.12 0.05
Matches are distributed among these distances:
643 4 0.00
644 93 0.11
645 339 0.40
646 84 0.10
647 1 0.00
648 313 0.37
649 6 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (644 bp):
AATGTTCTGAAAATTGCTAGAAGGAATCGATCTTCTTGAATACTTTAAGAAACCGAAGTTATAAA
AGAAGTCGTAAAAAGTTTGACAAGTTCAGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCA
CGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTCTTTACAAAAGGACAAAATATTTGGACCAAA
TGATGCGATTTCTCGAGCATGGAATGTTGAAAAATTGCTCAAAGGAATGATCATCTTGAATACTT
TAAGAAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAGCAAGAACCA
AGAGAGAAACAATTCCCACGAAAATAAGTTTTTAAACCAAAGACCAAAAGTTATTACAAAAGGAC
AAATTATTTGGACCAAATGATGCAATTTCTCGAACAAGGAATGTTCAAAAAATTACTCGAAGGAA
GGATCATCATAAACACCTTAAGGAACCAAAGTTATAAAAGAACTCGAAAAAGTTTGAAAAGTTCA
AAAGTTCAGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
AAAGTCTTTTACAAAAGGACAAACTATTTGGACCAAATGATACGATTTCCCAAGAATGG
Done.