Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006149.1 Kokia drynarioides strain JFW-HI SEQ_120689, 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: 5188
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Found at i:584 original size:50 final size:49
Alignment explanation
Indices: 530--625 Score: 113
Period size: 51 Copynumber: 1.9 Consensus size: 49
520 TGCATGACTT
*
530 GATTTAATGATG-CATTTAACTAACATGGGAGTTACATAATGGCATGATAG
1 GATTT-ATGATGACATTTAACTAACATGGAAGTTACATAAT-GCATGATAG
* * * *
580 GATTTATGATGTATATTTTACTAACATGTAAGTTACTTAATGCATG
1 GATTTATGATG-ACATTTAACTAACATGGAAGTTACATAATGCATG
626 TCATATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
49 6 0.15
50 10 0.26
51 23 0.59
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (49 bp):
GATTTATGATGACATTTAACTAACATGGAAGTTACATAATGCATGATAG
Found at i:1427 original size:216 final size:216
Alignment explanation
Indices: 1052--2806 Score: 2122
Period size: 216 Copynumber: 8.1 Consensus size: 216
1042 TTGGTTCTTG
* * *
1052 GTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCTTAAAATATTCAAGACAATCCATTCCTT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
* * * *
1117 CGAGCAATTTTTTGAACATTCCATGATCGACAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
66 CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* * * *
1182 TTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTCAGTATTATTTCTCTCTTGGTT
131 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTT
1247 ATTGGTCGAACTT-TCGAACTT
196 ATTGGTCGAACTTCT-GAACTT
* * **
1268 GTCAAACTTTTACGAGTTCTTTTATAAATTCGGTCCCTTAAAGCATTCAAGACGATCCATTCCTT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
* * * * *
1333 CGAACAATTTTTTGAAAATTCTATGCTCGGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATT
66 CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* * *
1398 TTGGAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGACAATTGTTTCTCTCTTGGTT
131 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTT
* * * *
1463 CTTGGCCTAACTTCTTAACTT
196 ATTGGTCGAACTTCTGAACTT
* * * * * *
1484 GTCAAACTTTTACGAGTTCTTTTACAACTTCAGTT-CTTCTAAGTATTCAAGACGGTCCATTCAT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT-AAAATATTCAAGACGATCCATTCCT
** * * * * *
1548 TTTAGCAATTTTTTGAACTTTCAATGCTTGGGAAATCAG-ATCATTTTGTCTAAATAGTTTGTCA
65 TCGAGCAATTTTTTGAACATTCCATGCTCGAGAAATC-GCATCATTTGGTCTAAATAGTTTGTCA
* * * *
1612 TTATGTAAACAACTTGTGGTCTTTGAATTAAAAACTTA-TTAAGTGAGAATTGTTTCTATCATGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGG
* *
1676 TTCTTGGCCGAACTT-TCGAACTT
194 TTATTGGTCGAACTTCT-GAACTT
* * * * *
1699 GTCAAACTTTTACGAGTTTTTTTATAACTTTGGTTCCATAAAATATTCAAGATGATCCATTCTTT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
* * * * *
1764 CGAGCAATTTTTTGAACATTCCATGATCAAAAAATCGCACCATTTGGTCTAAATAGTTTGTTATT
66 CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* * * * * * *
1829 TTGTAAACAACTTTTGGTCATTAAACTAAAAACTTATTTATGTGAGTATTGTTTCCCTTTTGGTT
131 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTT
*
1894 ATTGGTCGAACTTATGAACTT
196 ATTGGTCGAACTTCTGAACTT
* * *
1915 GTCAAACTCTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACT-TT-AAGACTATCCATTCCTT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
* * * * * * *
1978 CGAACAATTTTTCGAACATTCCATGCACGGGAAATTGCATCATTTGGTCTAAAAAGTTTCTCATT
66 CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
*
2043 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACA-TGAGAATTGTTTCTCTCATGGT
131 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGT
* *
2107 CT-TT-GTCCTAACTTCTTAACTT
195 -TATTGGT-CGAACTTCTGAACTT
* * * * * * * * *
2129 GTCAAACTTTTACGAATTCTTTTACAACTTCAGCT-CTTCTAACTATTCAAGACGGTCCTTTCAT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT-AAAATATTCAAGACGATCCATTCCT
* * * * * *
2193 TTGAGCAATTTTCTGAACTTTCCATGCTCAAGAAATCGTATTATTTGGTCTAAATAGTTTGTCAT
65 TCGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
* * * * *
2258 TTTGTAAACAACTTGTGGTCTTTGAATTAAAAACTTA-ATAAGTGAGAATTTTTTCTATCTTGTT
130 TTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGT
*
2322 TCTTGG-CTGAACTT-TCGAACTT
195 TATTGGTC-GAACTTCT-GAACTT
* * * *
2344 GCCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCCTT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
* * * *
2409 CGAGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
66 CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* * * * * *
2474 TTGTAATCAACTTTTGGTCTTTAAACTAAAAACTTATTTACGTGAGTATTGTTTATCTCTTGGTT
131 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTT
*
2539 ATTGGTCGAACTTCTGAGCTT
196 ATTGGTCGAACTTCTGAACTT
* * *
2560 GTCAAACTTTTACGAGTTCTTTTATATCTTCGGTTCCTTAAAGTATTCAAGACTATCCATTCCTT
1 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
** * * *
2625 CGAATAATTTTCTGAACATTCCATGCTTGAGAAATTGCATCATTTGGTCTAAATAGTTTGTCATT
66 CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* *
2690 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACA-TGAGAATTATTTCTCTCATGGT
131 TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGT
* *
2754 CT-TT-GTCCTAACTTCTTAACTT
195 -TATTGGT-CGAACTTCTGAACTT
* * *
2776 GTCAAACTTTTACAAATTCTTTTACAACTTC
1 GTCAAACTTTTACGAGTTCTTTTATAACTTC
2807 TGATACGGCC
Statistics
Matches: 1296, Mismatches: 217, Indels: 52
0.83 0.14 0.03
Matches are distributed among these distances:
213 5 0.00
214 176 0.14
215 353 0.27
216 756 0.58
217 6 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (216 bp):
GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTT
CGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTT
ATTGGTCGAACTTCTGAACTT
Found at i:1861 original size:431 final size:430
Alignment explanation
Indices: 932--2806 Score: 2223
Period size: 431 Copynumber: 4.4 Consensus size: 430
922 GCTCACATCA
** * *
932 CCATGCTCGGGAAATCGCATCTTTTGGTCTAAATAGTTTTTCATTTTGTAAACAACTTTTGGTCT
1 CCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * *
997 TTGAATTAAAAACTTA-TTAAGTGAGAATCGTTACTCTCTTGGTTCTTGG-----TTC-T---TG
66 TTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTAACTTCTTAACTT
* * * *
1052 GTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCTTAAAATATTCAAGACAATCCATTCCTT
131 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT-CTTTAAATATTCAAGACGATCCATTCCTT
*
1117 CGAGCAATTTTTTGAACATTCCATGATCGACAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
195 CGAGCAATTTTTTGAACATTCCATGATCGAGAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
* * * *
1182 TTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTCAGTATTATTTCTCTCTTGGTT
260 TTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCATGGTT
* * *
1247 ATTGGTCGAACTT-TCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTCCCTTAAAG
325 ATTGGCCGAACTTCT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAG
* * *
1311 CATTCAAGACGATCCATTCCTTCGAACAATTTTTTGAAAATT
389 TATTCAAGACGATCCATTCCTTCGAACAATTTTCTGAACATT
* ** * *
1353 CTATGCTCGGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTGGAAACAACTTTTGGTCT
1 CCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* *
1418 TTGAATTAAAAACTTATTTACGTGACAATTGTTTCTCTCTTGGTTCTTGGCCTAACTTCTTAACT
66 TTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTAACTTCTTAACT
* * * * *
1483 TGTCAAACTTTTACGAGTTCTTTTACAACTTCAGTTCTTCTAAGTATTCAAGACGGTCCATTCAT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCTT-TAAATATTCAAGACGATCCATTCCT
** * * * * * * * *
1548 TTTAGCAATTTTTTGAACTTTCAATGCTTGGGAAATCAG-ATCATTTTGTCTAAATAGTTTGTCA
194 TCGAGCAATTTTTTGAACATTCCATGATCGAGAAATC-GCACCATTTGGCCTAAATAGTTTGTCA
* * * *
1612 TTATGTAAACAACTTGTGGTCTTTGAATTAAAAACTTA-TTAAGTGAGAATTGTTTCTATCATGG
258 TTTTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCATGG
* * * *
1676 TTCTTGGCCGAACTT-TCGAACTTGTCAAACTTTTACGAGTTTTTTTATAACTTTGGTTCCATAA
323 TTATTGGCCGAACTTCT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
* * * * *
1740 AATATTCAAGATGATCCATTCTTTCGAGCAATTTTTTGAACATT
387 AGTATTCAAGACGATCCATTCCTTCGAACAATTTTCTGAACATT
* * * * *
1784 CCATGATCAAAAAATCGCACCATTTGGTCTAAATAGTTTGTTATTTTGTAAACAACTTTTGGTCA
1 CCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * * * * * * * * *
1849 TTAAACTAAAAACTTATTTATGTGAGTATTGTTTCCCTTTTGGTTATTGGTCGAACTTATGAACT
66 TTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTAACTTCTTAACT
* * *
1914 TGTCAAACTCTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACT-TT-AAGACTATCCATTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCTTTAAA-TATTCAAGACGATCCATTCCT
* * * * * * * *
1977 TCGAACAATTTTTCGAACATTCCATGCA-CGGGAAATTGCATCATTTGGTCTAAAAAGTTTCTCA
194 TCGAGCAATTTTTTGAACATTCCATG-ATCGAGAAATCGCACCATTTGGCCTAAATAGTTTGTCA
*
2041 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACA-TGAGAATTGTTTCTCTCATG
258 TTTTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCATG
* * * * * * *
2105 GTCT-TTGTCCTAACTTCTTAACTTGTCAAACTTTTACGAATTCTTTTACAACTTCAGCT-CTTC
322 GT-TATTGGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT-
* * * * * * * *
2168 TAACTATTCAAGACGGTCCTTTCATTTGAGCAATTTTCTGAACTTT
385 AAAGTATTCAAGACGATCCATTCCTTCGAACAATTTTCTGAACATT
* * *
2214 CCATGCTCAAGAAATCGTATTATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTGTGGTCT
1 CCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * * * *
2279 TTGAATTAAAAACTTA-ATAAGTGAGAATTTTTTCTATCTTGTTTCTTGGCTGAACTT-TCGAAC
66 TTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-AACTTCT-TAAC
* * * * *
2342 TTGCCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCC
129 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT-CTTTAAATATTCAAGACGATCCATTCC
*
2407 TTCGAGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCA
193 TTCGAGCAATTTTTTGAACATTCCATGATCGAGAAATCGCACCATTTGGCCTAAATAGTTTGTCA
* * * * * *
2472 TTTTGTAATCAACTTTTGGTCTTTAAACTAAAAACTTATTTACGTGAGTATTGTTTATCTCTTGG
258 TTTTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCATGG
* * *
2537 TTATTGGTCGAACTTCTGAGCTTGTCAAACTTTTACGAGTTCTTTTATATCTTCGGTTCCTTAAA
323 TTATTGGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* *
2602 GTATTCAAGACTATCCATTCCTTCGAATAATTTTCTGAACATT
388 GTATTCAAGACGATCCATTCCTTCGAACAATTTTCTGAACATT
** *
2645 CCATGCTTGAGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
1 CCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * *
2710 TTGAATTAAAAACTTATTTACA-TGAGAATTATTTCTCTCATGG-TCTTTGTCCTAACTTCTTAA
66 TTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGTTC-TTG-GCTAACTTCTTAA
* * *
2773 CTTGTCAAACTTTTACAAATTCTTTTACAACTTC
128 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
2807 TGATACGGCC
Statistics
Matches: 1222, Mismatches: 197, Indels: 59
0.83 0.13 0.04
Matches are distributed among these distances:
421 76 0.06
422 29 0.02
428 6 0.00
429 168 0.14
430 190 0.16
431 550 0.45
432 198 0.16
433 5 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (430 bp):
CCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
TTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTAACTTCTTAACTT
GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCTTTAAATATTCAAGACGATCCATTCCTTC
GAGCAATTTTTTGAACATTCCATGATCGAGAAATCGCACCATTTGGCCTAAATAGTTTGTCATTT
TGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCATGGTTA
TTGGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
TTCAAGACGATCCATTCCTTCGAACAATTTTCTGAACATT
Found at i:2284 original size:645 final size:642
Alignment explanation
Indices: 932--2806 Score: 2887
Period size: 645 Copynumber: 2.9 Consensus size: 642
922 GCTCACATCA
* *
932 CCATGCTCGGGAAATCGCATCT-TTTGGTCTAAATAGTTTTTCATTTTGTAAACAACTTTTGGTC
1 CCATGCTCGGGAAATCG-AT-TATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTGTGGTC
* * *
996 TTTGAATTAAAAACTTATTAAGTGAGAATCGTTACTCTCTTGGTTCTT-G-G----TT----CTT
64 TTTGAATTAAAAACTTATTAAGTGAGAATTGTTTCTATCTTGGTTCTTGGCGAACTTTCGAACTT
* *
1051 GGTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCTTAAAATATTCAAGACAATCCATTCCT
129 -GTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCCT
*
1116 TCGAGCAATTTTTTGAACATTCCATGATCGACAAATCGCACCATTTGGCCTAAATAGTTTGTCAT
193 TCGAGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCAT
* * *
1181 TTTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTAAGTCAGTATTATTTCTCTCTTGGT
258 TTTGTAAACAACTTTTGGTCTTTAAACTAAAAACTTATTTAAGTGAGTATTGTTTCTCTCTTGGT
* *
1246 TATTGGTCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTCGGTCCCTTAAAG
323 TATTGGTCGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA-
* * * * * *
1311 CATTCAAGACGATCCATTCCTTCGAACAATTTTTTGAAAATTCTATGCTCGGGAAATCGCATCAT
386 C-TTTAAGACTATCCATTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATTGCATCAT
* *
1376 TTGGTC-AAAATAGTTTGTCATTTTGGAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACG
450 TTGGTCTAAAA-AGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACA
* * * *
1440 TGACAATTGTTTCTCTCTTGGT-TCTTGGCCTAACTTCTTAACTTGTCAAACTTTTACGAGTTCT
514 TGAGAATTGTTTCTCTCATGGTCT-TTGTCCTAACTTCTTAACTTGTCAAACTTTTACGAATTCT
* * * *
1504 TTTACAACTTCAGTTCTTCTAAGTATTCAAGACGGTCCATTCATTTTAGCAATTTTTTGAACTTT
578 TTTACAACTTCAGCTCTTCTAACTATTCAAGACGGTCCATTCATTTGAGCAATTTTCTGAACTTT
* * * * *
1569 CAATGCTTGGGAAATCAGATCATTTTGTCTAAATAGTTTGTCATTATGTAAACAACTTGTGGTCT
1 CCATGCTCGGGAAATC-GATTATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTGTGGTCT
*
1634 TTGAATTAAAAACTTATTAAGTGAGAATTGTTTCTATCATGGTTCTTGGCCGAACTTTCGAACTT
65 TTGAATTAAAAACTTATTAAGTGAGAATTGTTTCTATCTTGGTTCTTGG-CGAACTTTCGAACTT
* * * *
1699 GTCAAACTTTTACGAGTTTTTTTATAACTTTGGTTCCATAAAATATTCAAGATGATCCATTCTTT
129 GTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCCTT
* * *
1764 CGAGCAATTTTTTGAACATTCCATGATCAAAAAATCGCACCATTTGGTCTAAATAGTTTGTTATT
194 CGAGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
* * * *
1829 TTGTAAACAACTTTTGGTCATTAAACTAAAAACTTATTTATGTGAGTATTGTTTCCCTTTTGGTT
259 TTGTAAACAACTTTTGGTCTTTAAACTAAAAACTTATTTAAGTGAGTATTGTTTCTCTCTTGGTT
*
1894 ATTGGTCGAACTTATGAACTTGTCAAACTCTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACT
324 ATTGGTCGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACT
*
1959 TTAAGACTATCCATTCCTTCGAACAATTTTTCGAACATTCCATGCACGGGAAATTGCATCATTTG
388 TTAAGACTATCCATTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATTGCATCATTTG
*
2024 GTCTAAAAAGTTTCTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAG
453 GTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAG
2089 AATTGTTTCTCTCATGGTCTTTGTCCTAACTTCTTAACTTGTCAAACTTTTACGAATTCTTTTAC
518 AATTGTTTCTCTCATGGTCTTTGTCCTAACTTCTTAACTTGTCAAACTTTTACGAATTCTTTTAC
*
2154 AACTTCAGCTCTTCTAACTATTCAAGACGGTCCTTTCATTTGAGCAATTTTCTGAACTTT
583 AACTTCAGCTCTTCTAACTATTCAAGACGGTCCATTCATTTGAGCAATTTTCTGAACTTT
**
2214 CCATGCTCAAGAAATCGTATTATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTGTGGTCT
1 CCATGCTCGGGAAATCG-ATTATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTGTGGTCT
* * *
2279 TTGAATTAAAAACTTAATAAGTGAGAATTTTTTCTATCTTGTTTCTTGGCTGAACTTTCGAACTT
65 TTGAATTAAAAACTTATTAAGTGAGAATTGTTTCTATCTTGGTTCTTGGC-GAACTTTCGAACTT
*
2344 GCCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCCTT
129 GTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCCTT
2409 CGAGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
194 CGAGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCATT
* * *
2474 TTGTAATCAACTTTTGGTCTTTAAACTAAAAACTTATTTACGTGAGTATTGTTTATCTCTTGGTT
259 TTGTAAACAACTTTTGGTCTTTAAACTAAAAACTTATTTAAGTGAGTATTGTTTCTCTCTTGGTT
* * *
2539 ATTGGTCGAACTTCTGAGCTTGTCAAACTTTTACGAGTTCTTTTATATCTTCGGTTCCTTAAAGT
324 ATTGGTCGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACT
* * *
2604 ATTCAAGACTATCCATTCCTTCGAATAA-TTTTCTGAACATTCCATGCTTGAGAAATTGCATCAT
388 -TT-AAGACTATCCATTCCTTCGAACAATTTTTC-GAACATTCCATGCTCGGGAAATTGCATCAT
*
2668 TTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACAT
450 TTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACAT
* *
2733 GAGAATTATTTCTCTCATGGTCTTTGTCCTAACTTCTTAACTTGTCAAACTTTTACAAATTCTTT
515 GAGAATTGTTTCTCTCATGGTCTTTGTCCTAACTTCTTAACTTGTCAAACTTTTACGAATTCTTT
2798 TACAACTTC
580 TACAACTTC
2807 TGATACGGCC
Statistics
Matches: 1129, Mismatches: 88, Indels: 32
0.90 0.07 0.03
Matches are distributed among these distances:
637 98 0.09
638 2 0.00
640 1 0.00
644 4 0.00
645 586 0.52
646 13 0.01
647 421 0.37
648 4 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (642 bp):
CCATGCTCGGGAAATCGATTATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTGTGGTCTT
TGAATTAAAAACTTATTAAGTGAGAATTGTTTCTATCTTGGTTCTTGGCGAACTTTCGAACTTGT
CAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGACGATCCATTCCTTCG
AGCAATTTTTTGAACATTCCATGATCGAAAAATCGCACCATTTGGCCTAAATAGTTTGTCATTTT
GTAAACAACTTTTGGTCTTTAAACTAAAAACTTATTTAAGTGAGTATTGTTTCTCTCTTGGTTAT
TGGTCGAACTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACTTTA
AGACTATCCATTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTC
TAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAAT
TGTTTCTCTCATGGTCTTTGTCCTAACTTCTTAACTTGTCAAACTTTTACGAATTCTTTTACAAC
TTCAGCTCTTCTAACTATTCAAGACGGTCCATTCATTTGAGCAATTTTCTGAACTTT
Found at i:4986 original size:215 final size:215
Alignment explanation
Indices: 4299--5188 Score: 1145
Period size: 215 Copynumber: 4.2 Consensus size: 215
4289 AGATTGTATC
* * * * * * *
4299 AACTTCGGTT-CTTCTAAGTATTCAAGACGGTCCATTCATTTGAGTAATTTTTTGAACTTTCCAT
1 AACTTCGGTTCCTT-AAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCAT
* ** * * * * * *
4363 GCTCGGGAAATTGCATCGTTTGGTCTAAATAGTTTGTCATTTTGTGAACAACTTGTGGTCTTTGA
65 GATCGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAA
* * * *
4428 ATTAAAAACTTA-ATA-AGTGAGAATTGTTTCTATCTTGGTTCTTGGCGAACTTTCGAACTTGTG
130 ATTAAAAACTTATTTACA-TGAGAATTGTTTCTCTCTTGGTTATTGGCGAACTTTCGAACTTGTC
*
4491 AAACATTTACGAGTTCTTTTAT
194 AAACTTTTACGAGTTCTTTTAT
* * *
4513 AACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTGTTGAACATTTCATG
1 AACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATG
*
4578 ATTGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAA
66 ATCGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAA
* * *
4643 TTAAAAACTTATTTACATGAGTATTGTTTCTGTCTTGGTTATT-G-G-----TCGAACTTGTCAT
131 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTATTGGCGAACTTTCGAACTTGTCAA
4701 ACTTTTACGAGTTCTTTTAT
196 ACTTTTACGAGTTCTTTTAT
** * * * *
4721 AACTTCGACTCCTTAAAGTATTCAAGACTATCCATTCCTTCGAACAATTTTCTGAACATTCCATG
1 AACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATG
* ** * * * *
4786 CTCGGGAAATCGAATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAA
66 ATCGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAA
** * * *
4851 TTAAAAACTTA-TTATGTGAGAATAGTTACTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCA
131 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTATTGG-CGAACTTTCGAACTTGTCA
*
4915 AACCTTTACGAGTTCTTTTAT
195 AACTTTTACGAGTTCTTTTAT
* *
4936 AACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTTGAGCAATTTTTTGAACATTCCATG
1 AACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATG
* * * *
5001 ATCGAAAAATCGCACCCTTTAGCCTAAACAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAA
66 ATCGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAA
* * *
5066 TTAAAAACTTATTTACATGAGTATTGTTTCTCTCTTGGTTATTAGTCGAACTTCCGAACTTGTCA
131 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTATT-GGCGAACTTTCGAACTTGTCA
5131 AACTTTTACGAGTTCTTTTAT
195 AACTTTTACGAGTTCTTTTAT
* *
5152 AACTTCGGTTCCTTAAAGTATTCAAGACTATCCATTC
1 AACTTCGGTTCCTTAAAATATTCAAGACGATCCATTC
Statistics
Matches: 580, Mismatches: 83, Indels: 24
0.84 0.12 0.03
Matches are distributed among these distances:
207 24 0.04
208 155 0.27
210 1 0.00
213 1 0.00
214 118 0.20
215 182 0.31
216 98 0.17
217 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (215 bp):
AACTTCGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATG
ATCGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAA
TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTATTGGCGAACTTTCGAACTTGTCAA
ACTTTTACGAGTTCTTTTAT
Found at i:5084 original size:423 final size:426
Alignment explanation
Indices: 4314--5188 Score: 1380
Period size: 423 Copynumber: 2.1 Consensus size: 426
4304 CGGTTCTTCT
** * ** * * * *
4314 AAGTATTCAAGACGGTCCATTCATTTGAGTAATTTTTTGAACTTTCCATGCTCGGGAAATTGCAT
1 AAGTATTCAAGACTATCCATTCATTCGAACAATTTTCTGAACATTCCATGCTCGGGAAATCGAAT
* * *
4379 CGTTTGGTCTAAATAGTTTGTCATTTTGTGAACAACTTGTGGTCTTTGAATTAAAAACTTAATAA
66 CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTGTGGTCTTTGAATTAAAAACTTAATAA
* * *
4444 GTGAGAATTGTTTCTATCTTGGTTCTTGGCGAACTTTCGAACTTGTGAAACATTTACGAGTTCTT
131 GTGAGAATAGTTACTATCTTGGTTCTTGGCGAACTTTCGAACTTGTCAAACATTTACGAGTTCTT
*
4509 TTATAACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTGTTGAACATTT
196 TTATAACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTGTTGAACATTC
* * * *
4574 CATGATTGAAAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
261 CATGATCGAAAAATCGCACCATTTAGCCTAAACAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
*
4639 TAAATTAAAAACTTATTTACATGAGTATTGTTTCTGTCTTGGTTATT-G-G-T-CGAACTTGTCA
326 TAAATTAAAAACTTATTTACATGAGTATTGTTTCTCTCTTGGTTATTAGCGATCCGAACTTGTCA
*
4700 TACTTTTACGAGTTCTTTTATAACTTCGACTCCTTA
391 AACTTTTACGAGTTCTTTTATAACTTCGACTCCTTA
*
4736 AAGTATTCAAGACTATCCATTCCTTCGAACAATTTTCTGAACATTCCATGCTCGGGAAATCGAAT
1 AAGTATTCAAGACTATCCATTCATTCGAACAATTTTCTGAACATTCCATGCTCGGGAAATCGAAT
* * *
4801 CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTAT
66 CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTGTGGTCTTTGAATTAAAAACTTAATAA
* *
4866 GTGAGAATAGTTACTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACCTTTACGAGTTCT
131 GTGAGAATAGTTACTATCTTGGTTCTTGG-CGAACTTTCGAACTTGTCAAACATTTACGAGTTCT
* *
4931 TTTATAACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTTGAGCAATTTTTTGAACATT
195 TTTATAACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTGTTGAACATT
*
4996 CCATGATCGAAAAATCGCACCCTTTAGCCTAAACAGTTTGTCATTTTGTAAACAACTTTTGGTCT
260 CCATGATCGAAAAATCGCACCATTTAGCCTAAACAGTTTGTCATTTTGTAAACAACTTTTGGTCT
5061 TTAAATTAAAAACTTATTTACATGAGTATTGTTTCTCTCTTGGTTATTAGTCGAACTTCCGAACT
325 TTAAATTAAAAACTTATTTACATGAGTATTGTTTCTCTCTTGGTTATTAG-CG-A--TCCGAACT
**
5126 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTA
386 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGACTCCTTA
5167 AAGTATTCAAGACTATCCATTC
1 AAGTATTCAAGACTATCCATTC
Statistics
Matches: 411, Mismatches: 33, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
422 140 0.34
423 202 0.49
424 1 0.00
426 1 0.00
430 1 0.00
431 66 0.16
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (426 bp):
AAGTATTCAAGACTATCCATTCATTCGAACAATTTTCTGAACATTCCATGCTCGGGAAATCGAAT
CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTGTGGTCTTTGAATTAAAAACTTAATAA
GTGAGAATAGTTACTATCTTGGTTCTTGGCGAACTTTCGAACTTGTCAAACATTTACGAGTTCTT
TTATAACTTTGGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTGTTGAACATTC
CATGATCGAAAAATCGCACCATTTAGCCTAAACAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
TAAATTAAAAACTTATTTACATGAGTATTGTTTCTCTCTTGGTTATTAGCGATCCGAACTTGTCA
AACTTTTACGAGTTCTTTTATAACTTCGACTCCTTA
Done.