Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000084.1 Kokia drynarioides strain JFW-HI SEQ_110708, 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: 6263
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Warning! 55 characters in sequence are not A, C, G, or T
Found at i:804 original size:216 final size:216
Alignment explanation
Indices: 404--2178 Score: 2088
Period size: 216 Copynumber: 8.2 Consensus size: 216
394 GACTCGTATC
* * * * *
404 ATCGTATCATTTGGTCTAAATAGTTTTTTATTTTGTAAACAAGTTTTTATCTTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
* * * * *
469 TTATTTACATGAGAATTGTGTCTCTCTTGGCTCTTGGACGAACTTCCGAACTTATCGAACTTTCA
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
* * * *
534 CAAGTTCTTTTATAACT-TCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTT
131 CGAGTTCTTTTTTAAATCTGA-TTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTT
* **
598 CCGAACGTTACATGCTCGGGAA
195 CCGAACATTACATGCGAGGGAA
* * * * * *
620 GTCACATCATTTGGTTTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTAAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
** * * * * *
685 TTATTTATGTAAGAATTGTTTCTTTCTTGGTTGTTGGACGAACTTCTGAACTTGTCAATCTTTTA
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
* * * *
750 CGAGTTCTTTTTTAAATCT-AGTTCCTTAAAGTGTTCAACACAATCCATTCCTTCGAGTAATTTT
131 CGAGTTCTTTTTTAAATCTGA-TTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAA-TTT
*
814 TCC-AACATTCCAATG-GAGGGAA
194 TCCGAACATTAC-ATGCGAGGGAA
* * *
836 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACATGTTTTGATCTTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
* * * * *
901 TTATTTACGTGAGAATTGTTTCTCTCTGGGTTCTTGGATGAACTTTCGAACTTGTCGAACTTTTA
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
** * ** * * **
966 CGACATCTTTTATAGCT-TCAGTTCCTTAAAGTATTCAAGACGATCCAATCCGTCGAACAAGTTT
131 CGAGTTCTTTTTTAAATCTGA-TTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAA-TTT
**
1030 T-CGAACATTACATGCTCGGGAA
194 TCCGAACATTACATGCGAGGGAA
* * * * * * *
1052 GTCTCATCATTTGCTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAATC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
*
1117 TTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTA
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
* * * * *
1182 CGAGTTCTTTTTTCAATCCGATTCCTTAAAGTGTTCAAGACGATCTATTCCTTCGAGTAATTTTC
131 CGAGTTCTTTTTTAAATCTGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTC
*
1247 CTAACATT-CAATGCGAGGGAA
196 CGAACATTAC-ATGCGAGGGAA
* * * *
1268 ATCACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCATTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
* * * * * * *
1333 TTATTTACGTGAGAATTATGTCTCTCTTCGTTCTTGGATGAACTTTCGAACTTGTCGAACTTTTA
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
* * *
1398 CGAGTTCTTTTATAACT-TCGATTCCTTAAAGTATTCAAGATGATCCAATCCTTCGAGTAATTTT
131 CGAGTTCTTTTTTAAATCT-GATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTT
* * **
1462 CCAAACATTACACGCTCGGGAA
195 CCGAACATTACATGCGAGGGAA
* * * *
1484 GTCGCATCATTAGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGCATTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
* * * *
1549 TTATTTACATGAGAATTGTTTCTCTCTTAGTTGTCGGACGAACTACCGAACTTGTCAAACTTTTA
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
* * * *
1614 CGAGTTCTTTTTTAAATCTGTTTCCTTAAAGTGTTC-AGAACAATCCATTTCC-TCGAGTAATTT
131 CGAGTTCTTTTTTAAATCTGATTCCTTAAAGTATTCAAG-ACGATCCA-ATCCTTCGAGTAATTT
** *
1677 TTTGAACATTCCATGCGAGGGAA
194 TCCGAACATTACATGCGAGGGAA
* * *
1700 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAATAAGTTTTGATCTTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
* * * *
1765 TTATTTACATGAGAATTGTGTCTCTCTTGGATCTTGGACAAACTTCCAAACTTGT-AGAACTTTT
66 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCA-AACTTTT
* *
1829 ACGAGTTC-TTTTAAAACTTCTG-TTCCTTAAAGTATTCAAG-CGATCCAATCCTTTGAGTAATT
130 ACGAGTTCTTTTTTAAA--TCTGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATT
* **
1891 TTCTGAACATTACATGCTTGGGAA
193 TTCCGAACATTACATGCGAGGGAA
* ** * * * *
1915 GTTACATCATTTGATCTAACA-ATTTTGTCATTTTGTAAACAAGTTTTGGCCGTTGAATTAAAAA
1 ATCGCATCATTTGGTCTAA-ATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAA
** * * *
1979 CTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCAAACTTGTCAAACTTTT
65 CTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTT
* * * * * * *
2044 ACGAGTTATTTCTTAAGTCTGATTCCTTAAAGTGTTCAAGACGATTCATTCCTTCGAGAAATTTT
130 ACGAGTTCTTTTTTAAATCTGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTT
* * *
2109 CCAAACATTCCATGCGAGAGAA
195 CCGAACATTACATGCGAGGGAA
*
2131 ATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACATGTTTTGA
1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGA
2179 TCTTGGTTCT
Statistics
Matches: 1309, Mismatches: 225, Indels: 51
0.83 0.14 0.03
Matches are distributed among these distances:
214 7 0.01
215 210 0.16
216 1070 0.82
217 22 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (216 bp):
ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAAC
TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA
CGAGTTCTTTTTTAAATCTGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTC
CGAACATTACATGCGAGGGAA
Found at i:1212 original size:432 final size:433
Alignment explanation
Indices: 404--2182 Score: 2621
Period size: 432 Copynumber: 4.1 Consensus size: 433
394 GACTCGTATC
* * *
404 ATCGTATCATTTGGTCTAAATAGTTTTTTATTTTGTAAACAAGTTTTTATCTTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAAC
* * *
469 TTATTTACATGAGAATTGTGTCTCTCTTGGCTCTTGGACGAACTTCCGAACTTATCGAACTTTCA
66 TTATTTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTA
*
534 CAAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTC
131 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTC
* * *
599 CGAACGTTACATGCTCGGGAAGTCACATCATTTGGTTTAAAAAGTTTGTCATTTTGTAAACAAGT
196 CGAACATTACATGCTCGGGAAGTCTCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGT
* ** * *
664 TTTGGCCTTTAAATTAAAAACTTATTTATGTAAGAATTGTTTCTTTCTTGGTTGTTGGACGAACT
261 TTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACT
* * * *
729 TCTGAACTTGTCAATCTTTTACGAGTTCTTTTTTAAAT-CTAGTTCCTTAAAGTGTTCAACACAA
326 TCCGAACTTGTCAAACTTTTACGAGTTCTTTTTTAAATCCGA-TTCCTTAAAGTGTTCAAGACAA
793 TCCATTCCTTCGAGTAATTTTTCC-AACATTCCAATG-GAGGGAA
390 TCCATTCCTTCGAGTAATTTTTCCAAACATTCC-ATGCGAGGGAA
*
836 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACATGTTTTGATCTTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAAC
* * * * *
901 TTATTTACGTGAGAATTGTTTCTCTCTGGGTTCTTGGATGAACTTTCGAACTTGTCGAACTTTTA
66 TTATTTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTA
** * * **
966 CGACATCTTTTATAGCTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCGTCGAACAAGTTTT
131 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAA-TTTT
* *
1031 -CGAACATTACATGCTCGGGAAGTCTCATCATTTGCTCTAAAAAGTTTGACATTTTGTAAACAAG
195 CCGAACATTACATGCTCGGGAAGTCTCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAG
*
1095 TTTTGGCCTTTGAATTAAAATCTTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAAC
260 TTTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAAC
* *
1160 TTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTTCAATCCGATTCCTTAAAGTGTTCAAGACGA
325 TTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTTAAATCCGATTCCTTAAAGTGTTCAAGACAA
* * *
1225 TCTATTCCTTCGAGTAA-TTTTCCTAACATTCAATGCGAGGGAA
390 TCCATTCCTTCGAGTAATTTTTCCAAACATTCCATGCGAGGGAA
* *
1268 ATCACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCATTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAAC
* * * * *
1333 TTATTTACGTGAGAATTATGTCTCTCTTCGTTCTTGGATGAACTTTCGAACTTGTCGAACTTTTA
66 TTATTTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTA
*
1398 CGAGTTCTTTTATAACTTC-GATTCCTTAAAGTATTCAAGATGATCCAATCCTTCGAGTAATTTT
131 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTT
* * * * *
1462 CCAAACATTACACGCTCGGGAAGTCGCATCATTAGGTCTAAATAGTTTGTCATTTTGTAAACAAG
195 CCGAACATTACATGCTCGGGAAGTCTCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAG
* * *
1527 TTTTGGCATTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTAGTTGTCGGACGAAC
260 TTTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAAC
* * *
1592 TACCGAACTTGTCAAACTTTTACGAGTTCTTTTTTAAATCTGTTTCCTTAAAGTGTTC-AGAACA
325 TTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTTAAATCCGATTCCTTAAAGTGTTCAAG-ACA
**
1656 ATCCATTTCC-TCGAGTAATTTTT-TGAACATTCCATGCGAGGGAA
389 ATCCA-TTCCTTCGAGTAATTTTTCCAAACATTCCATGCGAGGGAA
*
1700 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAATAAGTTTTGATCTTTGAATTAAAAAC
1 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAAC
* * * *
1765 TTATTTACATGAGAATTGTGTCTCTCTTGGATCTTGGACAAACTTCCAAACTTGTAGAACTTTTA
66 TTATTTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTA
* * *
1830 CGAGTTCTTTTAAAACTTCTGTTCCTTAAAGTATTCAAG-CGATCCAATCCTTTGAGTAATTTTC
131 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTC
* * * * *
1894 TGAACATTACATGCTTGGGAAGT-TACATCATTTGATCTAACAATTTTGTCATTTTGTAAACAAG
196 CGAACATTACATGCTCGGGAAGTCT-CATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAG
* ** *
1958 TTTTGGCCGTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGGACAAAC
260 TTTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAAC
* * * * * *
2023 TTCCAAACTTGTCAAACTTTTACGAGTTATTTCTTAAGTCTGATTCCTTAAAGTGTTCAAGACGA
325 TTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTTAAATCCGATTCCTTAAAGTGTTCAAGACAA
* * *
2088 TTCATTCCTTCGAG-AAATTTTCCAAACATTCCATGCGAGAGAA
390 TCCATTCCTTCGAGTAATTTTTCCAAACATTCCATGCGAGGGAA
*
2131 ATCGCATCATTTGGTCTAAATAG-TTTTCATTTTGTAAACATGTTTTGATCTT
1 ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTT
2183 GGTTCTTGGA
Statistics
Matches: 1215, Mismatches: 118, Indels: 30
0.89 0.09 0.02
Matches are distributed among these distances:
430 37 0.03
431 254 0.21
432 909 0.75
433 15 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (433 bp):
ATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAAC
TTATTTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTA
CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTC
CGAACATTACATGCTCGGGAAGTCTCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGT
TTTGGCCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACT
TCCGAACTTGTCAAACTTTTACGAGTTCTTTTTTAAATCCGATTCCTTAAAGTGTTCAAGACAAT
CCATTCCTTCGAGTAATTTTTCCAAACATTCCATGCGAGGGAA
Found at i:2314 original size:175 final size:175
Alignment explanation
Indices: 2004--2352 Score: 406
Period size: 175 Copynumber: 2.0 Consensus size: 175
1994 ATTGTTTCTC
*
2004 TCTTGGTTGTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTATTTCTTAAGTCTGATTC
1 TCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTATTTCTTAAGTCTGATTC
* * ** * * * *
2069 CTTAAAGTGTTCAAGACGATTCATTCCTTCGAGAAATTTTCCAAACATTCCATGCGAGAGAAATC
66 CATAAAGTATTCAAGACGACCCATCCCTTCAAGAAATTTTCCAAACATTACATGCCAGAGAAATC
* * *
2134 GCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACATGTTTTGA
131 GCATCATTTGGTCTAAAAAGTTTGTCA-TTTGAAAACAAGTTTTGA
* ** * * *
2179 TCTTGGTTCTTGGACGAACTTCTGAACTTTTCGAACTTTTACGAGTT-CTT-TTATAGCTTCTG-
1 TCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTATTTCTTA-AG--TCTGA
*
2241 TTCCATAAAGTATTCAAGACGACCC-TACCCTTCAAGCAAATTTT-CGAACATTACATGCTCAG-
63 TTCCATAAAGTATTCAAGACGACCCAT-CCCTTCAAG-AAATTTTCCAAACATTACATGC-CAGA
*
2303 GAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTGAAAACAAGTTTTG
125 GAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTGAAAACAAGTTTTG
2353 GCCATTGAAT
Statistics
Matches: 147, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
173 3 0.02
174 5 0.03
175 123 0.84
176 16 0.11
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (175 bp):
TCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTATTTCTTAAGTCTGATTC
CATAAAGTATTCAAGACGACCCATCCCTTCAAGAAATTTTCCAAACATTACATGCCAGAGAAATC
GCATCATTTGGTCTAAAAAGTTTGTCATTTGAAAACAAGTTTTGA
Found at i:2528 original size:390 final size:391
Alignment explanation
Indices: 1789--2573 Score: 1053
Period size: 390 Copynumber: 2.0 Consensus size: 391
1779 ATTGTGTCTC
1789 TCTTGGATCTTGGACAAACTTCCAAACTTGTAGAACTTTTACGAGTTCTTTTAAAACTTCTGTTC
1 TCTTGGATCTTGGACAAACTTCCAAACTTGTAGAACTTTTACGAGTTCTTTTAAAACTTCTGTTC
* * * ** * ** *
1854 CTTAAAGTATTCAAGCGATCCAATCCTTTGAGTAATTTTCTGAACATTACATGCTTGGGAAGTTA
66 CATAAAGTATTCAAGCGACCCAACCCTTCAAGAAATTTTCTGAACATTACATGCTCAGGAAGTCA
* * * *
1919 CATCATTTGATCTAACAATTTTGTCATTTTGTAAACAAGTTTTGGCCGTTGAATTAAAAACTTAT
131 CATCATTTGATCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCATTGAATTAAAAACTTAT
* *
1984 TTATGTGAGAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAG
196 TTATGCGACAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAG
* * * *
2049 TTATTTCTTAAGTCTGATTCCTTAAAGTGTTCAAGACGATTCATTCCTTCGAGAAATTTTCCAAA
261 TTATTTCTTAAATCTCATTCCTTAAAGTATTCAAGACGATTCAATCCTTCGAGAAATTTTCCAAA
* * * *
2114 CATTCCATGCGAGAGAAATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACATGTTTTG
326 CATTACATGCGAGAGAAATCGCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTG
2178 A
391 A
* * ** * * * *
2179 TCTTGGTTCTTGGACGAACTTCTGAACTTTTCGAACTTTTACGAGTTCTTTTATAGCTTCTGTTC
1 TCTTGGATCTTGGACAAACTTCCAAACTTGTAGAACTTTTACGAGTTCTTTTAAAACTTCTGTTC
*
2244 CATAAAGTATTCAAGACGACCCTACCCTTCAAGCAAATTTTC-GAACATTACATGCTCAGGAAGT
66 CATAAAGTATTCAAG-CGACCCAACCCTTCAAG-AAATTTTCTGAACATTACATGCTCAGGAAGT
* *
2308 CGCATCATTTGGTCTAAAAAGTTTGTCA-TTTGAAAACAAGTTTTGGCCATTGAATTAAAAACTT
129 CACATCATTTGATCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCATTGAATTAAAAACTT
* * *
2372 ATTTATGCGACAATTGTTTCTCTGTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACG
194 ATTTATGCGACAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCAAACTTGTCAAACTTTTACG
* *
2437 AGTTCTTT-TATAAATC-CATTTCCTTAAAGTATTCAAGACGATAT-AATCCTTCGAGCAAGTTT
259 AGTTATTTCT-TAAATCTCA-TTCCTTAAAGTATTCAAGACGAT-TCAATCCTTCGAG-AAATTT
** ** * *
2499 T-TGAACATTACATGCTTGGGAAGTCGCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAA
320 TCCAAACATTACATGCGAGAGAAATCGCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAA
*
2563 GTTTTGG
385 GTTTTGA
2570 TCTT
1 TCTT
2574 TGAATTAAAA
Statistics
Matches: 342, Mismatches: 46, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
389 2 0.01
390 248 0.73
391 85 0.25
392 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (391 bp):
TCTTGGATCTTGGACAAACTTCCAAACTTGTAGAACTTTTACGAGTTCTTTTAAAACTTCTGTTC
CATAAAGTATTCAAGCGACCCAACCCTTCAAGAAATTTTCTGAACATTACATGCTCAGGAAGTCA
CATCATTTGATCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCATTGAATTAAAAACTTAT
TTATGCGACAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAG
TTATTTCTTAAATCTCATTCCTTAAAGTATTCAAGACGATTCAATCCTTCGAGAAATTTTCCAAA
CATTACATGCGAGAGAAATCGCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTG
A
Found at i:2650 original size:216 final size:215
Alignment explanation
Indices: 2179--2954 Score: 1052
Period size: 216 Copynumber: 3.6 Consensus size: 215
2169 CATGTTTTGA
* * * * ** * *
2179 TCTTGGTTCTTGGACGAACTTCTGAACTTTTCGAACTTTTACGAGTTCTTTTATAGCTTCTGTTC
1 TCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTC
* ** * * * **
2244 CATAAAGTATTCAAGACGACCCT-ACCCTTCAAGCAAATTTTCGAACATTACATGCTCAGGAAGT
66 CTTAAAGTATTCAAGACGA-TATAATCCTTCGAGC-AATTTTTGAACATTACATGCTTGGGAAGT
*
2308 CGCATCATTTGGTCTAAAAAGTTTGTCA-TTTGAAAACAAGTTTTGGCCATTGAATTAAAAACTT
129 CGCATCATTTGGTCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCTTTGAATTAAAAACTT
* *
2372 ATTTATGCGACAATTGTTTCTC
194 ATTTACGTGACAATTGTTTCTC
* **
2394 TGTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCATTTC
1 TCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTC
2459 CTTAAAGTATTCAAGACGATATAATCCTTCGAGCAAGTTTTTGAACATTACATGCTTGGGAAGTC
66 CTTAAAGTATTCAAGACGATATAATCCTTCGAGCAA-TTTTTGAACATTACATGCTTGGGAAGTC
* * *
2524 GCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTA
130 GCATCATTTGGTCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCTTTGAATTAAAAACTTA
*
2589 TTTACGTAACAATTGTTTCTC
195 TTTACGTGACAATTGTTTCTC
* *
2610 TCTTGGTTGTTGGACGAACTTCCGAACTTGTCAGACTTTTACGAGTTCTTTTTTAAATCCGGTTC
1 TCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTC
* * * ** * * * * ** *
2675 CTTAAAATGTTCAAGACAATCCATTCCTTTGAGTAATTTTTCGAACATTCCATGCGAGGGAAATC
66 CTTAAAGTATTCAAGACGATATAATCCTTCGAGCAATTTTT-GAACATTACATGCTTGGGAAGTC
* * * *
2740 GCATCATTTGCTCTAAATAGTTTTTCATTTTGAAAACAAGTTTTGGCCTTTGAATTAAAAACTGA
130 GCATCATTTGGTCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCTTTGAATTAAAAACTTA
2805 TTTACGTGACAATTGTTTCTC
195 TTTACGTGACAATTGTTTCTC
* * *
2826 TCTTGGTTGTTGGATGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTTC
1 TCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTC
* *
2891 CTTAAAGTATTCAAGCCGATATAATCCTTTGAGCAATTTTCTGAACATTACATGCTTGGGAAGT
66 CTTAAAGTATTCAAGACGATATAATCCTTCGAGCAATTTT-TGAACATTACATGCTTGGGAAGT
2955 TGCNNNNNNN
Statistics
Matches: 489, Mismatches: 67, Indels: 9
0.87 0.12 0.02
Matches are distributed among these distances:
214 3 0.01
215 138 0.28
216 347 0.71
217 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (215 bp):
TCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTC
CTTAAAGTATTCAAGACGATATAATCCTTCGAGCAATTTTTGAACATTACATGCTTGGGAAGTCG
CATCATTTGGTCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCTTTGAATTAAAAACTTAT
TTACGTGACAATTGTTTCTC
Found at i:3352 original size:176 final size:176
Alignment explanation
Indices: 3046--3375 Score: 468
Period size: 176 Copynumber: 1.9 Consensus size: 176
3036 TTTCTCTCTT
* * *
3046 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCTTAAATCCGGTTCCTTA
1 GGTTCTTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTCTCAAATCCGGTTCCTTA
* * * * *
3111 AAGTGTTCAAGACGATCCATTCCATCGAGTAATTTTCCAAACATTCCATGCGAGAGAAATCGCAT
66 AAGTATTCAAGACGATCCAATCCATCGAGCAATTTTCCAAACATTACATGCCAGAGAAATCGCAT
* *
3176 CATTTGGTCTAAATAGTTTTTCATTTTGTAAACATGTTTTGATCAC
131 CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACATGTTTTGATCAC
* *
3222 GGTTCTTGGACGAACTTCCAAACTTTTCAAACTTTTACGAGTTCTTT-TACAAATTCGGTTCCTT
1 GGTTCTTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTCT-CAAATCCGGTTCCTT
* * * *
3286 AAAGTATTCAAGACGATCCAATCC-TTGAAGCAATTTTTCGAACATTACATGCTCAG-GAAGTCG
65 AAAGTATTCAAGACGATCCAATCCATCG-AGCAATTTTCCAAACATTACATGC-CAGAGAAATCG
3349 CATCATTTGGTCTAAAAAGTTTGTCAT
128 CATCATTTGGTCTAAAAAGTTTGTCAT
3376 ATGAAAACTA
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
175 3 0.02
176 130 0.96
177 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (176 bp):
GGTTCTTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTCTCAAATCCGGTTCCTTA
AAGTATTCAAGACGATCCAATCCATCGAGCAATTTTCCAAACATTACATGCCAGAGAAATCGCAT
CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACATGTTTTGATCAC
Found at i:3708 original size:216 final size:216
Alignment explanation
Indices: 3222--4249 Score: 1279
Period size: 216 Copynumber: 4.8 Consensus size: 216
3212 TTTTGATCAC
* * * * *
3222 GGTTCTTGGACGAACTTCCAAACTTTTCAAACTTTTACGAGTTCTTTTACAAATTCGGTTCCTTA
1 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTA
* *
3287 AAGTATTCAAGACGATCCAATCCTT-GAAGCAATTTT-TCGAACATTACATGCTCAGGAAGTCGC
66 AAGTATTCAAGACGATCCATTCCTTCG-AGCAATTTTCT-GAACATTACATGCTTAGGAAGTCGC
* * * *
3350 ATCATTTGGTCTAAAAAGTTTGTCA-TATGAAAACTAGTTTTGGCCTTTGAAATAAAAACTTATT
129 ATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATT
3414 TATGCG-A-CAATTGTTTCTCTCTT
194 TA--CGTAGCAATTGTTTCTCTCTT
* *
3437 GGTTGTTGGATGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTA
1 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTA
** * * *
3502 AAGTATTCAAGACGATATAATCCTTGGAGCAATTTTCTGAACATTACATGCTTTGGAAGTCGCAT
66 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTACATGCTTAGGAAGTCGCAT
* *
3567 CATTTGGTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
131 CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTA
3632 CGTAGCAATTGTTTCTCTCTT
196 CGTAGCAATTGTTTCTCTCTT
* * * * **
3653 GGTTGTTGGACGAACTTCTGAACTTGTCAGACTTTTATGAGTTCTTTTTTAAATCCGGTTCCAGA
1 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCC-TT
* * ** * * * * *
3718 AAAATGTTCAAGATAATCCATTCCTTCGAGTAATTTTCCGAACATTCCATGC-GAGGGAAATCGC
65 AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTACATGCTTA-GGAAGTCGC
* * * * * *
3782 ATCGTTTGCTCTAAATAGTTTTTCATTTTGAAAACAAGTTTTGGCCTTGGAATTAAAAACTTATT
129 ATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATT
3847 TACGT-GACAATTGTTTCTCTCTT
194 TACGTAG-CAATTGTTTCTCTCTT
* * *
3870 GGATGTTGGACAAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTA
1 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTA
* ** * * *
3935 AAGTATTCAAGCCGATATATTCCTTTGAGCAATTTTTTGAACATTACATGCTTAGGAAGTTGCAT
66 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTACATGCTTAGGAAGTCGCAT
* *
4000 CATTTGATCTAACAATA-TTT-TCATTTTGTAAACAAGTTTTGGCCTTAGAATTAAAAACTTATT
131 CATTTGGTCTAA-AA-AGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATT
*
4063 TATGTGAG-AATTGTTTCTCTCTT
194 TACGT-AGCAATTGTTTCTCTCTT
*
4086 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCT-TAAATCTGGTTCCTT
1 GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTT-TATAAATCCGGTTCCTT
* * * ** * * * *
4150 AAAGTGTTCTAGACGATCCATTCCTTCGAGTAATTTTCAAAACATTCCATGC-GAGAAAAATCGC
65 AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTACATGCTTAG-GAAGTCGC
* *
4214 ATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACA
129 ATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACA
4250 TATTTTGATC
Statistics
Matches: 698, Mismatches: 98, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
214 3 0.00
215 144 0.21
216 361 0.52
217 188 0.27
218 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (216 bp):
GGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTA
AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTACATGCTTAGGAAGTCGCAT
CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTA
CGTAGCAATTGTTTCTCTCTT
Found at i:4392 original size:176 final size:176
Alignment explanation
Indices: 4095--4415 Score: 407
Period size: 176 Copynumber: 1.8 Consensus size: 176
4085 TGGTTGTTGG
* * * *
4095 ACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCTTAAATCTGGTTCCTTAAAGTGTTCT
1 ACGAACTTCCGAACTTGTCAAACTTTTACAAGTTCTTTCTCAAATCTGGTTCCTTAAAGTATTCA
* * * * * *
4160 AGACGATCCATTCCTTCGAGTAATTTTCAAAACATTCCATGCGAGAAAAATCGCATCATTTGGTC
66 AAACGATCCAATCCTTCAAGCAATTTTCAAAACATTACATGCCAGAAAAATCGCATCATTTGGTC
* *
4225 TAAATAGTTTTTCATTTTGTAAACATATTTTGATCTTGGTTCTCGA
131 TAAAAAGTTTGTCATTTTGTAAACATATTTTGATCTTGGTTCTCGA
** *
4271 ACGAACTTTTGAACTTTTCAAACTTTTACAAGTTCTTT-TACAAAT-TCGGTTCCTTAAAGTATT
1 ACGAACTTCCGAACTTGTCAAACTTTTACAAGTTCTTTCT-CAAATCT-GGTTCCTTAAAGTATT
* * * *
4334 CAAAATGATCCAATCCTTCAAGCAATTATTC-GAACATTACATGCTCAG-GAAGTCGCATCATTT
64 CAAAACGATCCAATCCTTCAAGCAATT-TTCAAAACATTACATGC-CAGAAAAATCGCATCATTT
4397 GGTCTAAAAAGTTTGTCAT
127 GGTCTAAAAAGTTTGTCAT
4416 ATGAAAACTA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
175 2 0.02
176 115 0.94
177 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (176 bp):
ACGAACTTCCGAACTTGTCAAACTTTTACAAGTTCTTTCTCAAATCTGGTTCCTTAAAGTATTCA
AAACGATCCAATCCTTCAAGCAATTTTCAAAACATTACATGCCAGAAAAATCGCATCATTTGGTC
TAAAAAGTTTGTCATTTTGTAAACATATTTTGATCTTGGTTCTCGA
Found at i:4740 original size:216 final size:216
Alignment explanation
Indices: 4271--5079 Score: 1074
Period size: 216 Copynumber: 3.8 Consensus size: 216
4261 TGGTTCTCGA
* * * *
4271 ACGAACTTTTGAACTTTTCAAACTTTTACAAGTTCTTTTACAAATTCGGTTCCTTAAAGTATTCA
1 ACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCA
* * * * **
4336 AAATGATCCAATCCTTCAAGCAATTATTC-GAACATTACATGCTCAGGAAGTCGCATCATTTGGT
66 AGACGATACAATCCTTCGAGCAATT-TTCTGAACATTACATGCTTGGGAAGTCGCATCATTTGGT
* * * *
4400 CTAAAAAGTTTGTCA-TATGAAAACTAGTTTTGGCCTTTGAAATAAAAACTTATTTATGT-GACA
130 CTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTAG-CA
4463 ATTGTTTCTCTCTTGGTTGTTGG
194 ATTGTTTCTCTCTTGGTTGTTGG
* *
4486 ACAAACTT-TCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTAAAGTATTC
1 ACGAACTTCT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTC
* *
4550 AAGACGATATAATCCTTTGAGCAATTTTCTGAACATTACATGCTTGGGAAGTCGCATCATTTGGT
65 AAGACGATACAATCCTTCGAGCAATTTTCTGAACATTACATGCTTGGGAAGTCGCATCATTTGGT
* * *
4615 CTAAAAAGTTTGACATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTAGCAA
130 CTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTAGCAA
4680 TTGTTTCTCTCTTGGTTGTTGG
195 TTGTTTCTCTCTTGGTTGTTGG
*
4702 ACGAACTTCTGAACTTGTCAGACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCA
1 ACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCA
* * * * *
4767 AG-CGGATATAATCCTTTGAGCAATTTTTTGAACATTACATGCTTGGGAAGTTGCATCATTTGAT
66 AGAC-GATACAATCCTTCGAGCAATTTTCTGAACATTACATGCTTGGGAAGTCGCATCATTTGGT
* * * *
4831 CTAACAATTTTGTCATTTTGTAAACAAGTTTTGGCCTTTAAATTAAAAACTTATTTATATGAG-A
130 CTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTATGT-AGCA
4895 ATTGTTTCTCTCTTGGTTGTTGG
194 ATTGTTTCTCTCTTGGTTGTTGG
* * * * *
4918 ACGAATTTCTGAACTTGACAAACTTTTATGAGTTCTTTCT-TAAATTTGGTTCCTTAAAGTGTTC
1 ACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTT-TATAAATTCGGTTCCTTAAAGTATTC
* * * ** * ** *
4982 AAGACGATCCATTCCTTCGAGTAATTTTCCAAACATTCCATGCGAGGGAAATCGCATCATTTGGT
65 AAGACGATACAATCCTTCGAGCAATTTTCTGAACATTACATGCTTGGGAAGTCGCATCATTTGGT
* * * *
5047 CTATATAGTTTTTCATTTTGTAAACATGTTTTG
130 CTAAAAAGTTTGTCATTTTGTAAACAAGTTTTG
5080 ATCTTGGTTC
Statistics
Matches: 526, Mismatches: 59, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
214 4 0.01
215 125 0.24
216 391 0.74
217 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (216 bp):
ACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCA
AGACGATACAATCCTTCGAGCAATTTTCTGAACATTACATGCTTGGGAAGTCGCATCATTTGGTC
TAAAAAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTAGCAAT
TGTTTCTCTCTTGGTTGTTGG
Found at i:4754 original size:823 final size:811
Alignment explanation
Indices: 3448--5872 Score: 3221
Period size: 823 Copynumber: 3.0 Consensus size: 811
3438 GTTGTTGGAT
* * * *
3448 GAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGGTTCCTTAAAGTATTCAAG
1 GAACTTT-GAACTTTTCAAACTTTTACAAGTTCTTTTACAAATTCGGTTCCTTAAAGTATTCAAG
** ** **
3513 ACGATATAATCCTTGGAGCAATTTTCTGAACATTACATGCTTTGGAAGTCGCATCATTTGGTCTA
65 ACGATCCAATCCTTCAAGCAATTTTC-GAACATTACATGCTCAGGAAGTCGCATCATTTGGTCTA
* * * * * *
3578 AAAAGTTTGACATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGT-AGCAATT
129 AAAAGTTTGTCA-TATGAAAACTAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTGA-CAATT
* * *
3642 GTTTCTCTCTTGGTTGTTGGACGAAC-TTCTGAACTTGTCAGACTTTTATGAGTTCTTTTTTAAA
192 GTTTCTCTCTTGGTTGTTGGACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAAA
** ** *
3706 TCCGGTTCCAGAAAAATGTTCAAGATAATCCATTCCTTCGAGTAATTTTCCGAACATTCCATGCG
256 TCCGGTTCC-TTAAAATGTTCAAGACGATCCATTCCTTCGAGTAATTTTCTGAACATT-CATGC-
* * * * *
3771 AGGGAAATCGCATCGTTTGCTCTAAATAGTTTTTCATTTTGAAAACAAGTTTTGGCCTTGGAATT
318 -GGG-AATCGCATCATTTGGTCTAAATAG-TTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
*
3836 AAAAACTTATTTACGT-GACAATTGTTTCTCTCTTGGATGTTGGACAAACTTCCGAACTTGTCAA
380 AAAAACTTATTTACGTAG-CAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCGAACTTGTCAA
3900 ACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCCGATATATTCCTTTGAGC
444 ACTTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCCGATATATTCCTTTGAGC
3965 AATTTTTTGAACATTACATGCTTAGGAAGTTGCATCATTTGATCTAACAATATTTTCATTTTGTA
509 AATTTTTTGAACATTACATGCTTAGGAAGTTGCATCATTTGATCTAACAATATTTTCATTTTGTA
4030 AACAAGTTTTGGCCTTAGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGG
574 AACAAGTTTTGGCCTTA-AATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGG
*
4095 ACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCTTAAATCTGGTTCCTTAAAGTGTTCT
638 ACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCTTAAAT-TGGTTCCTTAAAGTGTTCA
**
4160 AGACGATCCATTCCTTCGAGTAATTTTCAAAACATTCCATGCGAGAAAAATCGCATCATTTGGTC
702 AGACGATCCATTCCTTCGAGTAATTTTCAAAACATTCCATGCGAGGGAAATCGCATCATTTGGTC
4225 TAAATAGTTTTTCATTTTGTAAACATATTTTGATCTTGGTTC-TCG
767 TAAATAGTTTTTCATTTTGTAAACATATTTTGATCTTGGTTCAT-G
4270 AACGAACTTTTGAACTTTTCAAACTTTTACAAGTTCTTTTACAAATTCGGTTCCTTAAAGTATTC
1 ---GAAC-TTTGAACTTTTCAAACTTTTACAAGTTCTTTTACAAATTCGGTTCCTTAAAGTATTC
* *
4335 AAAATGATCCAATCCTTCAAGCAATTATTCGAACATTACATGCTCAGGAAGTCGCATCATTTGGT
62 AAGACGATCCAATCCTTCAAGCAATT-TTCGAACATTACATGCTCAGGAAGTCGCATCATTTGGT
*
4400 CTAAAAAGTTTGTCATATGAAAACTAGTTTTGGCCTTTGAAATAAAAACTTATTTATGTGACAAT
126 CTAAAAAGTTTGTCATATGAAAACTAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTGACAAT
*
4465 TGTTTCTCTCTTGGTTGTTGGACAAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAA
191 TGTTTCTCTCTTGGTTGTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAA
* * ** * * *
4530 TCCGGTTCCTTAAAGTATTCAAGACGATATAATCCTTTGAGCAATTTTCTGAACATTACATGCTT
256 TCCGGTTCCTTAAAATGTTCAAGACGATCCATTCCTTCGAGTAATTTTCTGAACATT-CATGC--
* *
4595 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTGGTCTTTGAATTA
318 GGGAA-TCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * *
4660 AAAACTTATTTACGTAGCAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCTGAACTTGTCAGAC
381 AAAACTTATTTACGTAGCAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAAC
* *
4725 TTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCGGATATAATCCTTTGAGCAA
446 TTTTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCCGATATATTCCTTTGAGCAA
*
4790 TTTTTTGAACATTACATGCTTGGGAAGTTGCATCATTTGATCTAACAAT-TTTGTCATTTTGTAA
511 TTTTTTGAACATTACATGCTTAGGAAGTTGCATCATTTGATCTAACAATATTT-TCATTTTGTAA
*
4854 ACAAGTTTTGGCCTTTAAATTAAAAACTTATTTATATGAGAATTGTTTCTCTCTTGGTTGTTGGA
575 ACAAGTTTTGGCC-TTAAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGGA
* * * *
4919 CGAATTTCTGAACTTGACAAACTTTTATGAGTTCTTTCTTAAATTTGGTTCCTTAAAGTGTTCAA
639 CGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCTTAAA-TTGGTTCCTTAAAGTGTTCAA
*
4984 GACGATCCATTCCTTCGAGTAATTTTCCAAACATTCCATGCGAGGGAAATCGCATCATTTGGTCT
703 GACGATCCATTCCTTCGAGTAATTTTCAAAACATTCCATGCGAGGGAAATCGCATCATTTGGTCT
* *
5049 ATATAGTTTTTCATTTTGTAAACATGTTTTGATCTTGGTTCATG
768 AAATAGTTTTTCATTTTGTAAACATATTTTGATCTTGGTTCATG
* * ** * *
5093 G-AC---GAAC-TTCCAAACTTTTACAAGTTCTTTTTGCAGCTTCGGTTCCTTAGAGCATTCAAG
1 GAACTTTGAACTTTTCAAACTTTTACAAGTTC-TTTTACAAATTCGGTTCCTTAAAGTATTCAAG
* * *
5153 ACGATCGAATCCTTCAAGCAATTTTTCGAACATTACATGCGCAGGAAGTTGCATCATTTGGTCTA
65 ACGATCCAATCCTTCAAGCAA-TTTTCGAACATTACATGCTCAGGAAGTCGCATCATTTGGTCTA
* * * *
5218 AAAAGTTTGTCAGATGAAAACTAGTTTTCGCCTTTGAATTAAAAACTTATTTATGCGAAAATTGT
129 AAAAGTTTGTCATATGAAAACTAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTGACAATTGT
*
5283 TTCTCTCTTGGTTGTTGGATGAACTTTCGAACTTGTCAAACTTTTACGAGTTC-TTTATTAAATC
194 TTCTCTCTTGGTTGTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTA-TAAATC
* * * *
5347 TGGTTCCTTAAATTGTTCAAGACGATCCATTCCTGCGAGTAATTTTTTGAACATTC---C----A
258 CGGTTCCTTAAAATGTTCAAGACGATCCATTCCTTCGAGTAATTTTCTGAACATTCATGCGGGAA
* *
5405 T-GCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGATCTTTCAATTAAAAACTT
323 TCGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTT
* * *
5469 ATTTATGTGAG-AATTGTTTCTCCCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAACTGTTAC
388 ATTTACGT-AGCAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAACTTTTAC
* * * * * ** * *
5533 CAGTTATTTTTTAAA-TCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGAAATTTTT
452 GAGTTCTTTTATAAATTC-GGTTCCTTAAAGTATTCAAGCCGATATATTCCTTTGAGCAATTTTT
* * * * *
5597 CGAACATTCCATGC-GAGAGAAATCGCATCA-TTGAGTCT-A-AATAGTTTTTCATTTTGTAAAC
516 TGAACATTACATGCTTAG-GAAGTTGCATCATTTGA-TCTAACAATA--TTTTCATTTTGTAAAC
* * * * * * *
5658 AAGTTTTGATCATTAAAGTAAAAACTTATTTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACG
577 AAGTTTTG-GCCTTAAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGGACG
* * *
5723 AACTTCCGAACCTT-TCGAACTTTTACGAGTTCTTT-TATAACTTCGGTTCCTTAAAGTATTCAA
641 AACTTCCGAA-CTTGTCAAACTTTTACGAGTTCTTTCT-TAAATT-GGTTCCTTAAAGTGTTCAA
* * *** * * ** * *
5786 GATGATCCAATCCTTCGAGTAATTTTTTGAACATTACACGCTCGGGAAGTCGCATCATTTAGTCT
703 GACGATCCATTCCTTCGAGTAATTTTCAAAACATTCCATGCGAGGGAAATCGCATCATTTGGTCT
*
5851 AAATAGTTTGTCATTTTGTAAA
768 AAATAGTTTTTCATTTTGTAAA
5873 ACAAGTCTTG
Statistics
Matches: 1429, Mismatches: 146, Indels: 73
0.87 0.09 0.04
Matches are distributed among these distances:
800 3 0.00
801 11 0.01
802 356 0.25
803 31 0.02
804 1 0.00
805 1 0.00
811 1 0.00
814 24 0.02
815 250 0.17
816 2 0.00
819 2 0.00
820 1 0.00
822 8 0.01
823 493 0.34
824 114 0.08
825 125 0.09
826 6 0.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (811 bp):
GAACTTTGAACTTTTCAAACTTTTACAAGTTCTTTTACAAATTCGGTTCCTTAAAGTATTCAAGA
CGATCCAATCCTTCAAGCAATTTTCGAACATTACATGCTCAGGAAGTCGCATCATTTGGTCTAAA
AAGTTTGTCATATGAAAACTAGTTTTGGCCTTTGAATTAAAAACTTATTTATGTGACAATTGTTT
CTCTCTTGGTTGTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATCCGG
TTCCTTAAAATGTTCAAGACGATCCATTCCTTCGAGTAATTTTCTGAACATTCATGCGGGAATCG
CATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT
TACGTAGCAATTGTTTCTCTCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAACTTTTACGAGT
TCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCCGATATATTCCTTTGAGCAATTTTTTGAAC
ATTACATGCTTAGGAAGTTGCATCATTTGATCTAACAATATTTTCATTTTGTAAACAAGTTTTGG
CCTTAAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAA
CTTGTCAAACTTTTACGAGTTCTTTCTTAAATTGGTTCCTTAAAGTGTTCAAGACGATCCATTCC
TTCGAGTAATTTTCAAAACATTCCATGCGAGGGAAATCGCATCATTTGGTCTAAATAGTTTTTCA
TTTTGTAAACATATTTTGATCTTGGTTCATG
Found at i:5551 original size:203 final size:203
Alignment explanation
Indices: 5202--6259 Score: 1032
Period size: 216 Copynumber: 5.0 Consensus size: 203
5192 CGCAGGAAGT
* ** * * *
5202 TGCATCATTTGGTCTAAAAAGTTTGTCA-GATGAAAACTAGTTTTCG-CCTTTGAATTAAAAACT
1 TGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAAGTTTT-GACCTTTCAATTAAAAACT
* * * * *
5265 TATTTATGCGAAAATTGTTTCTCTCTTGGTTGTTGGATGAACTTTCGAACTTGTCAAACTTTTAC
64 TATTTACGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTAC
* * *
5330 GAGTTCTTTATTAAATCTGGTTCCTTAAATTGTTCAAGACGATCCATTCCTGCGAGTAATTTTTT
129 GAGTTCTTTTTTAAATCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGTAATTTTTT
5395 GAACATTCCA
194 GAACATTCCA
*
5405 TGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGATCTTTCAATTAAAAACTTA
1 TGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTA
* * * * *
5470 TTTATGTGAGAATTGTTTCTCCCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAACTGTTACCA
66 TTTACGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA
* * *
5535 GTTATTTTTTAAATCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGAAATTTTTCGA
131 GTTCTTTTTTAAATCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGTAATTTTTTGA
5600 ACATTCCA
196 ACATTCCA
* * *
5608 TGCGAGAGAAATCGCATCATTGAGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCATTA
1 TGC-------AT--CAT--TTG-GTCTAAATAG-TTTTCATTTTGTAAACAAGTTTTGACCTTTC
* * * *
5673 AAGTAAAAACTTATTTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACCTT-
53 AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAA-CTTG
* * * * * *
5737 TCGAACTTTTACGAGTTCTTTTATAACT-TCGGTTCCTTAAAGTATTCAAGATGATCCAATCCTT
117 TCAAACTTTTACGAGTTCTTTTTTAAATCT-GGTTCCTTAAAGTGTTCAAGACGATCCATTCCTT
5801 CGAGTAATTTTTTGAACATTACACGCTCGGGAA
181 CGAGTAATTTTTTGAACATT-----C-C----A
* * * *
5834 GTCGCATCATTTAGTCTAAATAGTTTGTCATTTTGTAAAACAAGTCTTGGCCTTTGAATTAAAAA
1 -T-GCATCATTTGGTCTAAATAGTTT-TCATTTTGT-AAACAAGTTTTGACCTTTCAATTAAAAA
* * * * * ** *
5899 CTTATTTACATGAGAATTGTTTCTCTCTCGGTTGTCGGAGGAGCTTCTAAACTTGTAAAACTTTT
62 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTT
* * * *
5964 ACGAGTTCTTTTTTAAATTCT-ATTCCTTAAAGTGTTCAAAATGATCCATTCCTTCGATTAATTT
127 ACGAGTTCTTTTTTAAA-TCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGTAATTT
*
6028 TTCGAACATTCCA
191 TTTGAACATTCCA
6041 TGCGAGGGAAAACACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTC
1 T------G------CATCATTTGGTCTAAATAG-TTTTCATTTTGTAAACAAGTTTTGACCTTTC
* * * * * **
6106 AATTAAAAACTTGTTAACGTGAGAATTCTGTCTCTCTTGGTTCTTGGACGAACTTTTGAACTTGT
53 AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAACTTGT
* * * * *
6171 CAAACTTTTACGA-TT-TCTTTTAAAGCTTTGGTTCCTTAAAGTATTCAAGCCGATCCAATCCTT
118 CAAACTTTTACGAGTTCTTTTTTAAA--TCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTT
* * *
6234 CGAGCAATTTTCTGAACATTACA
181 CGAGTAATTTTTTGAACATTCCA
6257 TGC
1 TGC
6260 TTGG
Statistics
Matches: 707, Mismatches: 100, Indels: 95
0.78 0.11 0.11
Matches are distributed among these distances:
202 4 0.01
203 179 0.25
204 1 0.00
206 1 0.00
207 1 0.00
210 3 0.00
211 2 0.00
212 4 0.01
214 11 0.02
215 18 0.03
216 302 0.43
217 165 0.23
218 4 0.01
219 4 0.01
221 3 0.00
222 1 0.00
226 1 0.00
227 1 0.00
228 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (203 bp):
TGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTA
TTTACGTGAGAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA
GTTCTTTTTTAAATCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGTAATTTTTTGA
ACATTCCA
Found at i:5643 original size:586 final size:592
Alignment explanation
Indices: 4532--5668 Score: 1557
Period size: 586 Copynumber: 1.9 Consensus size: 592
4522 TTTATAAATC
* * ** ***
4532 CGGTTCCTTAAAGTATTCAAGACGATATAATCCTTTGAGCAATTTTCTGAACATTACATGCTTGG
1 CGGTTCCTTAAAGCATTCAAGACGATAGAATCCTTCAAGCAATTTTCTGAACATTACATGCGCAG
** * * *
4597 GAAGTCGCATCATTTGGTCTAAAAAGTTTGACATTTTGTAAACAAGTTTTGGTCTTTGAATTAAA
66 GAAGTCGCATCATTTGGTCTAAAAAGTTTGACATGATGAAAACAAGTTTTCGCCTTTGAATTAAA
* *
4662 AACTTATTTACGTAGCAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCTGAACTTGTCAGACTT
131 AACTTATTTACGTAGAAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCTGAACTTGTCAAACTT
* **
4727 TTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCGGATATAATCCTTTGAGCAATT
196 TTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCGGATACAATCCTGCGAGCAATT
*
4792 TTTTGAACATTACATGCTTGGGAAGTTGCATCATTTGATCTAACAATTTTGTCATTTTGTAAACA
261 TTTTGAACATTACA--C----G-AG-TGCATCATTTGATCTAACAAGTTTGTCATTTTGTAAACA
* * *
4857 AGTTTTGGCCTTTAAATTAAAAACTTATTTATATGAGAATTGTTTCTCTCTTGGTTGTTGGACGA
318 AGTTTTGACCTTTAAATTAAAAACTTATTTATATGAGAATTGTTTCTCCCTTGGTTGTTGGACAA
* * * ** * *
4922 ATTTCTGAACTTGACAAACTTTTATGAGTTCTTTCTTAAATTTGGTTCCTTAAAGTGTTCAAGAC
383 ACTTCCGAACTTGACAAACTGTTACCAGTTATTTCTTAAATCTGGTTCCTTAAAGTGTTCAAGAC
* * *
4987 GATCCATTCCTTCGAGTAATTTTCCAAACATTCCATGCGAGGGAAATCGCATCATTTGGTCTATA
448 GATCCATTCCTTCGAGAAATTTTCCAAACATTCCATGCGAGAGAAATCGCATCATTTGGTCTAAA
*
5052 TAGTTTTTCATTTTGTAAACATGTTTTGATCTTGGTTCATGGACGAACTTCCAAACTTTTACAAG
513 TAGTTTTTCATTTTGTAAACAAGTTTTGATCTTGGTTCATGGACGAACTTCCAAACTTTTACAAG
5117 TTCTTTTTGCAGCTT
578 TTCTTTTTGCAGCTT
* *
5132 CGGTTCCTTAGAGCATTCAAGACGATCGAATCCTTCAAGCAATTTT-TCGAACATTACATGCGCA
1 CGGTTCCTTAAAGCATTCAAGACGATAGAATCCTTCAAGCAATTTTCT-GAACATTACATGCGCA
* * *
5196 GGAAGTTGCATCATTTGGTCTAAAAAGTTTGTCA-GATGAAAACTAGTTTTCGCCTTTGAATTAA
65 GGAAGTCGCATCATTTGGTCTAAAAAGTTTGACATGATGAAAACAAGTTTTCGCCTTTGAATTAA
*
5260 AAACTTATTTATGCG-A-AAATTGTTTCTCTCTTGGTTGTTGGATGAACTT-TCGAACTTGTCAA
130 AAACTTATTTA--CGTAGAAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCT-GAACTTGTCAA
* * * *
5322 ACTTTTACGAGTTC-TTTATTAAA-TCTGGTTCCTTAAATTGTTCAAGAC-GATCCATTCCTGCG
192 ACTTTTACGAGTTCTTTTA-TAAATTC-GGTTCCTTAAAGTATTCAAG-CGGATACAATCCTGCG
* *
5384 AGTAATTTTTTGAACATT-C-C-A-TGCATCATTTGGTCTAA-ATAGTTT-TCATTTTGTAAACA
254 AGCAATTTTTTGAACATTACACGAGTGCATCATTTGATCTAACA-AGTTTGTCATTTTGTAAACA
* * *
5443 AGTTTTGATCTTTCAATTAAAAACTTATTTATGTGAGAATTGTTTCTCCCTTGGTTGTTGGACAA
318 AGTTTTGACCTTTAAATTAAAAACTTATTTATATGAGAATTGTTTCTCCCTTGGTTGTTGGACAA
* *
5508 ACTTCCGAACTTGTCAAACTGTTACCAGTTATTTTTTAAATCTGGTTCCTTAAAGTGTTCAAGAC
383 ACTTCCGAACTTGACAAACTGTTACCAGTTATTTCTTAAATCTGGTTCCTTAAAGTGTTCAAGAC
* *
5573 GATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCGAGAGAAATCGCATCA-TTGAGTCTAA
448 GATCCATTCCTTCGAGAAATTTTCCAAACATTCCATGCGAGAGAAATCGCATCATTTG-GTCTAA
5637 ATAGTTTTTCATTTTGTAAACAAGTTTTGATC
512 ATAGTTTTTCATTTTGTAAACAAGTTTTGATC
5669 ATTAAAGTAA
Statistics
Matches: 477, Mismatches: 51, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
585 3 0.01
586 216 0.45
587 20 0.04
589 1 0.00
595 1 0.00
598 8 0.02
599 139 0.29
600 87 0.18
601 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (592 bp):
CGGTTCCTTAAAGCATTCAAGACGATAGAATCCTTCAAGCAATTTTCTGAACATTACATGCGCAG
GAAGTCGCATCATTTGGTCTAAAAAGTTTGACATGATGAAAACAAGTTTTCGCCTTTGAATTAAA
AACTTATTTACGTAGAAATTGTTTCTCTCTTGGTTGTTGGACGAACTTCTGAACTTGTCAAACTT
TTACGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGCGGATACAATCCTGCGAGCAATT
TTTTGAACATTACACGAGTGCATCATTTGATCTAACAAGTTTGTCATTTTGTAAACAAGTTTTGA
CCTTTAAATTAAAAACTTATTTATATGAGAATTGTTTCTCCCTTGGTTGTTGGACAAACTTCCGA
ACTTGACAAACTGTTACCAGTTATTTCTTAAATCTGGTTCCTTAAAGTGTTCAAGACGATCCATT
CCTTCGAGAAATTTTCCAAACATTCCATGCGAGAGAAATCGCATCATTTGGTCTAAATAGTTTTT
CATTTTGTAAACAAGTTTTGATCTTGGTTCATGGACGAACTTCCAAACTTTTACAAGTTCTTTTT
GCAGCTT
Found at i:5779 original size:216 final size:216
Alignment explanation
Indices: 5406--6259 Score: 1036
Period size: 216 Copynumber: 4.0 Consensus size: 216
5396 AACATTCCAT
*
5406 GCATCATTTGGTCTAAATAG-TTTTCATTTTGTAAACAAGTTTTGATCTTTCAATTAAAAACTTA
1 GCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTA
* * * * * * *
5470 TTTATGTGAGAATTGTTTCTCCCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAACTGTTACCA
66 TTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA
* * * * * *
5535 GTTATTTTTTAA-ATCTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGAAATTTTTCG
131 GTTCTTTTATAACTTC-GGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTCG
* *
5599 AACATTCCATGCGAGAGAAATC
195 AACATTACATGCGAGGGAAATC
* * * *
5621 GCATCA-TTGAGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCATTAAAGTAAAAACTT
1 GCATCATTTG-GTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTT
* *
5685 ATTTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACCTT-TCGAACTTTTAC
65 ATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAA-CTTGTCAAACTTTTAC
* *
5749 GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCAATCCTTCGAGTAATTTTTT
129 GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTC
* ** *
5814 GAACATTACACGCTCGGGAAGTC
194 GAACATTACATGCGAGGGAAATC
* * * * *
5837 GCATCATTTAGTCTAAATAGTTTGTCATTTTGTAAAACAAGTCTTGGCCTTTGAATTAAAAACTT
1 GCATCATTTGGTCTAAATAGTTTTTCATTTTGT-AAACAAGTTTTGACCTTTCAATTAAAAACTT
* * * * * * * ** *
5902 ATTTACATGAGAATTGTTTCTCTCTCGGTTGTCGGAGGAGCTTCTAAACTTGTAAAACTTTTACG
65 ATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACG
* * ** * * * * *
5967 AGTTCTTTTTTAAATTCTATTCCTTAAAGTGTTCAAAATGATCCATTCCTTCGATTAATTTTTCG
130 AGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTCG
* *
6032 AACATTCCATGCGAGGGAAAAC
195 AACATTACATGCGAGGGAAATC
* *
6054 ACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTG
1 GCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTA
* * **
6119 TTAACGTGAGAATTCTGTCTCTCTTGGTTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACGA
66 TTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA
* * * *
6184 TTTCTTTTA-AAGCTTTGGTTCCTTAAAGTATTCAAGCCGATCCAATCCTTCGAGCAA-TTTTCT
131 GTTCTTTTATAA-CTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTC-
6247 GAACATTACATGC
194 GAACATTACATGC
6260 TTGG
Statistics
Matches: 536, Mismatches: 94, Indels: 17
0.83 0.15 0.03
Matches are distributed among these distances:
214 3 0.01
215 23 0.04
216 327 0.61
217 183 0.34
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (216 bp):
GCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTA
TTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA
GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTCGA
ACATTACATGCGAGGGAAATC
Found at i:6013 original size:433 final size:421
Alignment explanation
Indices: 5147--6256 Score: 1333
Period size: 433 Copynumber: 2.6 Consensus size: 421
5137 CCTTAGAGCA
* * * * * * * *
5147 TTCAAGACGATCGAATCCTTCAAGCAATTTTTCGAACATTACATGCGCAGGAAGTTGCATCATTT
1 TTCAAAACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCG-AGGAAATCGCATCATTT
* * ** * * * * *
5212 GGTCTAAAAAGTTTGTCA-GATGAAAACTAGTTTTCG-CCTTTGAATTAAAAACTTATTTATGCG
65 GGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTT-GACCTTTAAATTAAAAACTTATTTACGTG
* * * * *
5275 AAAATTGTTTCTCTCTTGGTTGTTGGATGAACTTTCGAACTTGTCAAACTTTTACGAGTTC-TTT
129 AGAATTATGTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTT
* * * * *
5339 ATTAA-ATCTGGTTCCTTAAATTGTTCAAGACGATCCATTCCTGCGAGTAATTTTTTGAACATT-
194 A-TAACTTC-GGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTTGAACATTA
* * *
5402 --CCATGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAAGTTTTGATCTTTCAATTAAAA
257 CACCATGCATCATTTAGTCTAAATAGTTTTCATTTTGTAAACAAGTCTTGACCTTTCAATTAAAA
** * * * *
5465 ACTTATTTATGTGAGAATTGTTTCTCCCTTGGTTGTTGGACAAACTTCCGAACTTGTCAAACTGT
322 ACTTATTTACATGAGAATTGTTTCTCCCTCGGTTGTCGGACAAACTTCCAAACTTGTAAAACTGT
*
5530 TACCAGTTATTTTTTAAATCTGGTTCCTTAAAGTG
387 TACCAGTTATTTTTTAAATCTGATTCCTTAAAGTG
*
5565 TTCAAGACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCGAGAGAAATCGCATCA-TT
1 TTCAAAACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCGAG-GAAATCGCATCATTT
* * *
5629 GAGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCATTAAAGTAAAAACTTATTTACGTG
65 G-GTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTAAATTAAAAACTTATTTACGTG
* *
5694 AGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACCTT-TCGAACTTTTACGAGTTCTTT
129 AGAATTATGTCTCTCTTGGTTCTTGGACGAACTTTCGAA-CTTGTCAAACTTTTACGAGTTCTTT
*
5758 TATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCAATCCTTCGAGTAATTTTTTGAACATTAC
193 TATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTTGAACATTAC
*
5823 ACGCTCGGGAAGTCGCATCATTTAGTCTAAATAGTTTGTCATTTTGTAAAACAAGTCTTGGCCTT
258 A--C-C----A-T-GCATCATTTAGTCTAAATAGTTT-TCATTTTGT-AAACAAGTCTTGACCTT
* * ** * *
5888 TGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTCGGTTGTCGGAGGAGCTTCTAAACTT
312 TCAATTAAAAACTTATTTACATGAGAATTGTTTCTCCCTCGGTTGTCGGACAAACTTCCAAACTT
* * *
5953 GTAAAACTTTTACGAGTTCTTTTTTAAATTCT-ATTCCTTAAAGTG
377 GTAAAACTGTTACCAGTTATTTTTTAAA-TCTGATTCCTTAAAGTG
* ** * *
5998 TTCAAAATGATCCATTCCTTCGATTAATTTTTCGAACATTCCATGCGAGGGAAAACACATCATTT
1 TTCAAAACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCGA-GGAAATCGCATCATTT
* * *
6063 GGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTCAATTAAAAACTTGTTAACGTGA
65 GGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTAAATTAAAAACTTATTTACGTGA
* * *
6128 GAATTCTGTCTCTCTTGGTTCTTGGACGAACTTTTGAACTTGTCAAACTTTTACGATTTCTTTTA
130 GAATTATGTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTA
* * * *
6193 -AAGCTTTGGTTCCTTAAAGTATTCAAGCCGATCCAATCCTTCGAGCAATTTTCTGAACATTACA
195 TAA-CTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTTGAACATTACA
6257 TGCTTGG
Statistics
Matches: 592, Mismatches: 74, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
417 5 0.01
418 68 0.11
419 135 0.23
420 9 0.02
424 1 0.00
425 1 0.00
429 1 0.00
430 1 0.00
431 22 0.04
432 14 0.02
433 328 0.55
434 7 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (421 bp):
TTCAAAACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCGAGGAAATCGCATCATTTG
GTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGACCTTTAAATTAAAAACTTATTTACGTGAG
AATTATGTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTAT
AACTTCGGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGTAATTTTTTGAACATTACACC
ATGCATCATTTAGTCTAAATAGTTTTCATTTTGTAAACAAGTCTTGACCTTTCAATTAAAAACTT
ATTTACATGAGAATTGTTTCTCCCTCGGTTGTCGGACAAACTTCCAAACTTGTAAAACTGTTACC
AGTTATTTTTTAAATCTGATTCCTTAAAGTG
Done.