Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001834.1 Kokia drynarioides strain JFW-HI SEQ_113582, 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: 3882
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Found at i:499 original size:62 final size:62
Alignment explanation
Indices: 401--527 Score: 182
Period size: 62 Copynumber: 2.0 Consensus size: 62
391 TCTTTGAATT
*
401 AAAAACTTATTTACGTGACAACTGTTTCTCTCTTGGTTCTTGGAAGAACTTCCGAACTTATC
1 AAAAACTTATTTACGTGACAACTGTTTCTCTCTTGGTTATTGGAAGAACTTCCGAACTTATC
* * * * * * *
463 AAAAACTTATTTACTTGAGAATTGTTTCTCTTTTGGTTATTGGACGAACTTTCGAACTTGTC
1 AAAAACTTATTTACGTGACAACTGTTTCTCTCTTGGTTATTGGAAGAACTTCCGAACTTATC
525 AAA
1 AAA
528 CTTTCACTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (62 bp):
AAAAACTTATTTACGTGACAACTGTTTCTCTCTTGGTTATTGGAAGAACTTCCGAACTTATC
Found at i:867 original size:62 final size:62
Alignment explanation
Indices: 682--851 Score: 268
Period size: 62 Copynumber: 2.7 Consensus size: 62
672 GTTAATTAAT
* * * *
682 AACTTAGTTACGTAAGAATTGTTTCTCTCTTGGTTCTGGGACGAACTTTCAAACTTATCAAA
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTATCAAA
** *
744 AACTTATTTACGTGAGAATTGTTTCTCTCCGGGTTCTTGGACGAACTTCCAAACTTGTCAAA
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTATCAAA
*
806 AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
852 ATCCGTACTT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 98 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (62 bp):
AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTATCAAA
Found at i:1173 original size:340 final size:339
Alignment explanation
Indices: 424--1409 Score: 1155
Period size: 340 Copynumber: 2.9 Consensus size: 339
414 CGTGACAACT
* * *
424 GTTTCTCTCTTGGTTCTTGGAAGAACTTCCGAACTTATCAAAAACTTA-TTTACT-TGAGAATTG
1 GTTTCTCTCTCGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTTA-TGT-AGAATTG
* * * * * * * *
487 TTTCTCTTTTGGTTATTGGACGAACTTTCGAACTTGTCAAACTTTCACTAGTTCTTTTATAACTT
64 TTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACCATTTATTTTATAACTT
* * * * * * * ** * *
552 AGGTTCCTTAAAGTATACAAGACGATACATTCCTTTGAGCAA-ATTTACAAATATTCCGTGCTCG
129 CGGTTCCTGAAAGTATTCAAAAGGATCCATTCCTTTGAGCAATTTTTTGAACT-TTCCATGCTCG
* ** ** * * * * *
616 AGAAATTACACCATTTGGTCAAAATAGTTTGTCATTTTGTAAACAACTTTTGGACTG-TTAATTA
193 GGAAATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTC-GCTGAATTA
* * * *
680 ATAACTTAGTTACGTAAGAATTGTTTCTCTCTTGGTTCTGGGACGAACTTTCAAACTTATCAAAA
257 AAAACTTATTTAC-TAAGAATTGTTTCTCTCTTGGTTCTCGGACGAACATTCAAACTTATCAAAA
* * * *
745 ACTTATTTACGTGAGAATT
321 ACTTATTCACATAAGAATC
* *
764 GTTTCTCTC-CGGGTTCTTGGACGAACTTCCAAACTTGTCAAAAACTTATTTACATG-AGAATTG
1 GTTTCTCTCTC-GGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTT-TATGTAGAATTG
* * * *
827 TTTCTCTCTTGGTTCTTGGACGAACATCCGTACTTTTCAAACTTTTACGATTTTTTTTATAACTT
64 TTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACCATTTATTTTATAACTT
*
892 CGGTTCCTGAAAGTATTCAAAAGGATCCATTCCTTTGAGTAATTTTTTGAACTTTCCATGCTCGG
129 CGGTTCCTGAAAGTATTCAAAAGGATCCATTCCTTTGAGCAATTTTTTGAACTTTCCATGCTCGG
*
957 GAAATCGCATAATTTGGTCTAAATAG-TTGTCTTTTTGTTAACAAGTTTTGGTCGCTGAATTAAA
194 GAAATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTCGCTGAATTAAA
* * * *
1021 AACTTATTTA-TAAGAGAATTGGTTCTCTCTTGGATCTCGGACGAACATTCGAACTTGA-CAATA
259 AACTTATTTACT-A-AGAATTGTTTCTCTCTTGGTTCTCGGACGAACATTCAAACTT-ATCAAAA
* *
1084 ATTTATTCACATAAGTATC
321 ACTTATTCACATAAGAATC
* * * *
1103 GTTTCTCTCTCAGTTCTTGGACGAACTTCCGAGCTTGTCAAAAACCTATTTTATGTAAGAATTTT
1 GTTTCTCTCTCGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTTATGT-AGAATTGT
* * *
1168 TTCTCTCTTGGTTCTTCGACGAACATCTGAACTTGTCAAACTTTTACCATTTATTTTATAGCTTC
65 TTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACCATTTATTTTATAACTTC
* * ** * *
1233 GGTTCCCGAAAGTATTC-AAGGAGATCCATTCCTTTGAGCAATTTTTTGTCCATTCCATGCTCTG
130 GGTTCCTGAAAGTATTCAAAAG-GATCCATTCCTTTGAGCAATTTTTTGAACTTTCCATGCTCGG
* *
1297 GAAATCGCATAATTTGGTCTAAATAGTTTTTCTTTTTGTAAACAAGTTTTGGTCACTGAATTAAA
194 GAAATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTCGCTGAATTAAA
*
1362 AACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACAT
259 AACTTATTTAC-TAAGAATTGTTTCTCTCTTGGTTCTCGGACGAACAT
1410 CTGGACTTGT
Statistics
Matches: 552, Mismatches: 78, Indels: 31
0.84 0.12 0.05
Matches are distributed among these distances:
337 1 0.00
338 5 0.01
339 141 0.26
340 317 0.57
341 85 0.15
342 2 0.00
343 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (339 bp):
GTTTCTCTCTCGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTTATGTAGAATTGTT
TCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACCATTTATTTTATAACTTCG
GTTCCTGAAAGTATTCAAAAGGATCCATTCCTTTGAGCAATTTTTTGAACTTTCCATGCTCGGGA
AATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTCGCTGAATTAAAAA
CTTATTTACTAAGAATTGTTTCTCTCTTGGTTCTCGGACGAACATTCAAACTTATCAAAAACTTA
TTCACATAAGAATC
Found at i:1531 original size:216 final size:215
Alignment explanation
Indices: 1158--1838 Score: 915
Period size: 216 Copynumber: 3.2 Consensus size: 215
1148 CTATTTTATG
* * *
1158 TAAGAATTTTTTCTCTCTTGGTTCTTCGACGAACATCTGAACTTGTCAAACTTTTACCATTTA-T
1 TAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAACTTTTACGA-TTACT
* * **
1222 TTTATAGCTTCGGTTCCCGAAAGTATTCAAGGAGATCCATTCCTTTGAGCAATTTTTTGTCCATT
65 TTTATAACTTCGGTT-CCTAAAGTATTCAAGGAGATCCATTCCTTTGAGCAATTTTTTGAACATT
* *
1287 CCATGCTCTGGAAATCGCATAATTTGGTCTAAATAGTTTTTCTTTTTGTAAACAAGTTTTGGTCA
129 CCATGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTCA
*
1352 CTGAATTAAAAACTTATTTACG
194 CTGAATTAAAAACTTATTTACA
*
1374 TAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGGACTTGTCAAACTTTTACGATTACTT
1 TAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAACTTTTACGATTACTT
*
1439 TTATAACTTCGGTTCCTAAAGGTATTCAA-GAGGATCCAATCCTTTGAGCAATTTTTTGAACATT
66 TTATAACTTCGGTTCCTAAA-GTATTCAAGGA-GATCCATTCCTTTGAGCAATTTTTTGAACATT
*
1503 CCATGCTCGGGAAATCGCATAATTTGGTCTTAAA-AGTTTGTCTTTCTGTAAACAAGTTTTGGTC
129 CCATGCTCGGGAAATCGCATAATTTGGTC-TAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTC
*
1567 GCTGAATTAAAAACTTATTTACA
193 ACTGAATTAAAAACTTATTTACA
* *
1590 TGAA-AATTGGTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAACTTTAACGATTACT
1 T-AAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAACTTTTACGATTACT
* * * * * *** *
1654 TTTAAAACTTCGGTTCCTGAAAGTATTCATGGTGATCCATTCCTTCGAGCTATTTTCCAAACACT
65 TTTATAACTTCGGTTCCT-AAAGTATTCAAGGAGATCCATTCCTTTGAGCAATTTTTTGAACATT
* * * * *
1719 CCTTGCTCGGGAAATGGCATGATTTGGTCTAAATAGTTTGTCATTTTG-AAA-AATATTTTGGTC
129 CCATGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAA-GTTTTGGTC
**
1782 TTTGAATTAAAAACTTATTTACA
193 ACTGAATTAAAAACTTATTTACA
* * * * *
1805 TGACAACTATTTCTCTCTTGGTTCTTGGAAGAAC
1 TAAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
1839 TTCATAACTT
Statistics
Matches: 415, Mismatches: 40, Indels: 21
0.87 0.08 0.04
Matches are distributed among these distances:
214 3 0.01
215 73 0.18
216 329 0.79
217 10 0.02
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (215 bp):
TAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAACTTTTACGATTACTT
TTATAACTTCGGTTCCTAAAGTATTCAAGGAGATCCATTCCTTTGAGCAATTTTTTGAACATTCC
ATGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTCACT
GAATTAAAAACTTATTTACA
Found at i:2123 original size:239 final size:238
Alignment explanation
Indices: 1659--2123 Score: 591
Period size: 239 Copynumber: 1.9 Consensus size: 238
1649 TTACTTTTAA
* * *
1659 AACTTCGGTTCCTGAAAGTATTCATGGTGATCCATTCCTTCGAGCTATTTTCCAAACACTCCTTG
1 AACTTCGGTTCCTGAAAGTATTCAAGGTGATCCATTCCTTCGAGCAATTTTCCAAACACTCCATG
* * **
1724 CTCGGGAAATGGCATGATTTGGTCTAAATAGTTTGTCATTTTGAAAAATATTTTGGTCTTTGAAT
66 CTCGGGAAATCGCATGATTTGGTCTAAATAGTTTGTCATTTTGAAAAATACTTTGGTCGCTGAAT
* * * *
1789 TAAAAACTTATTTACATGACAACTATTTCTCTCTTGGTTCTTGGAAGAACTTCATAACTTATCAA
131 TAAAAACTTATTTACATGACAACTAGTTCTCTCTTGGATCTCGGAAGAACTTCAGAACTTATCAA
* *
1854 AAACTTATTTACATGAGAATTGTTTCTCTCTTGTGACTTCTAC
196 AAACTTATTCACATAAGAATTGTTTCTCTCTTGTGACTTCTAC
* *** *
1897 AACTTCGGTTCCT-ATAAGTATTCAAGAG-GATCCATTCCTTTGAGCAATTTTTTGAACATTCCA
1 AACTTCGGTTCCTGA-AAGTATTCAAG-GTGATCCATTCCTTCGAGCAATTTTCCAAACACTCCA
* *
1960 TGCTCGGGAAATCGCAAT-ATTTGGTCTAAATAGTTTGTCTTTTTGTAAACAA-GCTTTGGTCGC
64 TGCTCGGGAAATCGC-ATGATTTGGTCTAAATAGTTTGTCATTTTG-AAA-AATACTTTGGTCGC
* * * *
2023 TGAATTAAAAACTTATTTACATGAGAATTGGTTCTCTCTTGGATCTCGGACGAACTTTC-GAACT
126 TGAATTAAAAACTTATTTACATGACAACTAGTTCTCTCTTGGATCTCGGAAGAAC-TTCAGAACT
* *
2087 TGA-CAAAAACTTATTCACGTAAGTATTGTTTCTCTCT
190 T-ATCAAAAACTTATTCACATAAGAATTGTTTCTCTCT
2124 CAGTTCTTGG
Statistics
Matches: 194, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
237 1 0.01
238 91 0.47
239 96 0.49
240 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (238 bp):
AACTTCGGTTCCTGAAAGTATTCAAGGTGATCCATTCCTTCGAGCAATTTTCCAAACACTCCATG
CTCGGGAAATCGCATGATTTGGTCTAAATAGTTTGTCATTTTGAAAAATACTTTGGTCGCTGAAT
TAAAAACTTATTTACATGACAACTAGTTCTCTCTTGGATCTCGGAAGAACTTCAGAACTTATCAA
AAACTTATTCACATAAGAATTGTTTCTCTCTTGTGACTTCTAC
Found at i:2214 original size:63 final size:62
Alignment explanation
Indices: 2027--2214 Score: 184
Period size: 62 Copynumber: 3.0 Consensus size: 62
2017 GGTCGCTGAA
* * * *
2027 TTAAAAACTTATTTACATG--AGAATTGGTTCTCTCTTGGATCTCGGACGAACTTTCGAACTTG
1 TTAAAAACTTATTT-CATGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTCT-GAACTTG
** * * ** ** * *
2089 ACAAAAACTTA-TTCACGTAAGTATTGTTTCTCTCTCAGTTCTTGGATTAACTTCCGAGCTTG
1 TTAAAAACTTATTTCATGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC-TCTGAACTTG
*
2151 TTAAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTG
1 TTAAAAACTTATTTCATGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC-TCTGAACTTG
2214 T
1 T
2215 CAAACTTTTA
Statistics
Matches: 96, Mismatches: 26, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
60 3 0.03
61 2 0.02
62 48 0.50
63 43 0.45
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (62 bp):
TTAAAAACTTATTTCATGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTCTGAACTTG
Found at i:2548 original size:216 final size:215
Alignment explanation
Indices: 2150--2649 Score: 659
Period size: 216 Copynumber: 2.3 Consensus size: 215
2140 TTCCGAGCTT
*
2150 GTTAAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGT
1 GTTAAAAACTTA-TTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGT
* * * * *
2215 CAAACTTTTACGATTTATTTTATAACTTCGGTTCCCGAAAGTATTCAATAGGATCCATTCCTTTG
65 CAAACTGTTACGAATTATTTTATAACTTCGGTTCCCGAAAATATTCAATACGATCCATTCCTTCG
*** * * ** *
2280 AACAATTTTTTGACCATTCCATGCTCTGGAAATCGCATAATTTGGCCTAAATAGTTTTTCTTTTT
130 AACAATTTTCCAAACATTCCATGCTCGGGAAATCGCATAATTTGGCCTAAATAGTTTGACATTTT
*
2345 GTAAACAA-GTTTTGGTCGCTGAA
195 G-AAA-AATATTTTGGTC-CTGAA
2368 -TTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTC
1 GTTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTC
*
2432 AAACTGTTAC-AATTACTTTTATAACTTCGGTTCCTGAAAATATTC-ATGACGATCCATTCCTTC
66 AAACTGTTACGAATTA-TTTTATAACTTCGGTTCCCGAAAATATTCAAT-ACGATCCATTCCTTC
* * * *
2495 GAGCTATTTTCCAAACATT-CATTGCTCGGGAAATCGCATGATTTGGTCTAAATAGTTTGACATT
129 GAACAATTTTCCAAACATTCCA-TGCTCGGGAAATCGCATAATTTGGCCTAAATAGTTTGACATT
* *
2559 TTGAAAAATATTTTGGTCTTTAA
193 TTGAAAAATATTTTGGTCCTGAA
* * * * *
2582 GTTAAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGTTCTTGGAAGAACTTCTGAACTTATC
1 GTTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTC
2647 AAA
66 AAA
2650 AACTTATTTA
Statistics
Matches: 250, Mismatches: 27, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
214 5 0.02
215 81 0.32
216 153 0.61
217 11 0.04
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (215 bp):
GTTAAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTC
AAACTGTTACGAATTATTTTATAACTTCGGTTCCCGAAAATATTCAATACGATCCATTCCTTCGA
ACAATTTTCCAAACATTCCATGCTCGGGAAATCGCATAATTTGGCCTAAATAGTTTGACATTTTG
AAAAATATTTTGGTCCTGAA
Found at i:2683 original size:62 final size:62
Alignment explanation
Indices: 2585--2711 Score: 202
Period size: 62 Copynumber: 2.0 Consensus size: 62
2575 TCTTTAAGTT
2585 AAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGTTCTTGGAAGAAC-TTCTGAACTTATC
1 AAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGTTCTTGGAAGAACTTTC-GAACTTATC
* * * *
2647 AAAAACTTATTTACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACGAACTTTCGAACTTGTC
1 AAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGTTCTTGGAAGAACTTTCGAACTTATC
2709 AAA
1 AAA
2712 CTTTCACTAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 57 0.95
63 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (62 bp):
AAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGTTCTTGGAAGAACTTTCGAACTTATC
Found at i:2932 original size:62 final size:61
Alignment explanation
Indices: 2852--3037 Score: 246
Period size: 62 Copynumber: 3.0 Consensus size: 61
2842 GTTAATTAAT
* * * *
2852 AACTTAGTTACGTAAGAATTGTTTCTCTCTTGTTTCTGCGATGAACTTCCAAACTTATCAAA
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTG-GACGAACTTCCAAACTTATCAAA
* * *
2914 AACTTATTTACGTGAGAATTGTTTCTCTCTGGGTTCTTGGACGAACTTCCAATCTTGTCAAA
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC-TGGACGAACTTCCAAACTTATCAAA
* * * *
2976 AACTGATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCATACTTTTCAAA
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC-TGGACGAACTTCCAAACTTATCAAA
3038 CTTTTACGGT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 108 0.98
63 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (61 bp):
AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTGGACGAACTTCCAAACTTATCAAA
Found at i:3360 original size:216 final size:214
Alignment explanation
Indices: 2973--3452 Score: 592
Period size: 216 Copynumber: 2.2 Consensus size: 214
2963 CAATCTTGTC
* * * *
2973 AAAAACTGATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCATACTTTTCAAA
1 AAAAACTTATTTACATGAAAATTGTTTCTCTCTTGGTTCTTGGACGAACAT-CATACTTGTCAAA
* * ** * *
3038 CTTTTACGGTTTTTTTTATAACTTCGGTTCCTGAAAGTATTCAAGAGGATCCAATCCTTTGAGCA
65 CTTTAACGATTACTTTTAAAACTTCGGTTCCTGAAAGTATTCAAGAGGATCCAATCCTTCGAGCA
*** * *
3103 ATTTTTTGAACATTCCATGCTCGGAAAATTGCATAATTTGGTCTTAAA-AGTTTGTC-TTTATGT
130 ATTTTCCAAACACTCCATGCTCGGAAAATGGCATAATTTGGTC-TAAATAGTTTGTCATTT-TG-
*
3166 AAACAA-GTTTTGGTCGCTGAATT
192 AAA-AATATTTTGGTCGCTGAATT
*
3189 AAAAACTTATTTACATGAAAATTGGTTCTCTCTTGGTTCTTGGACGAACAT-ATGAACTTGTCAA
1 AAAAACTTATTTACATGAAAATTGTTTCTCTCTTGGTTCTTGGACGAACATCAT--ACTTGTCAA
* *
3253 ACTTTAACGATTACTTTTAAAACTTCGGTTCCTGAAAGTATTCATG-GCGATCCATTCCTTCGAG
64 ACTTTAACGATTACTTTTAAAACTTCGGTTCCTGAAAGTATTCAAGAG-GATCCAATCCTTCGAG
* * * *
3317 CTATTTTCCAAACACTCCTTGCTCGGGAAATGGCATGATTTGGTCTAAATAGTTTGTCATTTTGA
128 CAATTTTCCAAACACTCCATGCTCGGAAAATGGCATAATTTGGTCTAAATAGTTTGTCATTTTGA
**
3382 AAAATATTTTGGTCTTTGAATT
193 AAAATATTTTGGTCGCTGAATT
* * * *
3404 AAAAACTTATTTACATGACAACTATTTCTCTCTTGGTTCTTGGAAGAAC
1 AAAAACTTATTTACATGAAAATTGTTTCTCTCTTGGTTCTTGGACGAAC
3453 TTCCGAACTT
Statistics
Matches: 228, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
214 4 0.02
215 66 0.29
216 155 0.68
217 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (214 bp):
AAAAACTTATTTACATGAAAATTGTTTCTCTCTTGGTTCTTGGACGAACATCATACTTGTCAAAC
TTTAACGATTACTTTTAAAACTTCGGTTCCTGAAAGTATTCAAGAGGATCCAATCCTTCGAGCAA
TTTTCCAAACACTCCATGCTCGGAAAATGGCATAATTTGGTCTAAATAGTTTGTCATTTTGAAAA
ATATTTTGGTCGCTGAATT
Found at i:3795 original size:63 final size:63
Alignment explanation
Indices: 3629--3818 Score: 206
Period size: 62 Copynumber: 3.0 Consensus size: 63
3619 TCGCTGAATT
* * *
3629 AAAAACTTATTTACATG--AGAATTGGTTCTCTCTTGGATCTCGGACGAACTTTCGAACTTGAC
1 AAAAACTTATTT-CATGTAAGAATTGTTTCTCTCTTGGATCTTGGACGAACTTCCGAACTTGAC
** ** * ** * *
3691 AAAAACTTA-TTCATGTAAGTTTTGTTTCTCTCTCAGTTCTTGGATTAACTTCCGAGCTTGTC
1 AAAAACTTATTTCATGTAAGAATTGTTTCTCTCTTGGATCTTGGACGAACTTCCGAACTTGAC
* * * *
3753 AAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGGATCTTGGACGAACATCTGAACTTGTC
1 AAAAACTTATTTCATGTAAGAATTGTTTCTCTCTTGGATCTTGGACGAACTTCCGAACTTGAC
3816 AAA
1 AAA
3819 CTTTTACGAT
Statistics
Matches: 102, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
60 4 0.04
61 2 0.02
62 51 0.50
63 45 0.44
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (63 bp):
AAAAACTTATTTCATGTAAGAATTGTTTCTCTCTTGGATCTTGGACGAACTTCCGAACTTGAC
Done.