Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002429.1 Kokia drynarioides strain JFW-HI SEQ_114536, 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: 1984
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:314 original size:182 final size:182
Alignment explanation
Indices: 1--730 Score: 1002
Period size: 182 Copynumber: 4.0 Consensus size: 182
*
1 TTTTCCTGCTTCAAGAGAGGCACTTTAGTATCTTAATACCTCTCCTGAAGCAGGAAAACATACAT
1 TTTTCCTGCTTCAAGAGAGGCACTTTAATATCTTAATACCTCTCCTGAAGCAGGAAAACATACAT
*
66 CTGTTTCAATACTATCTTCAGCTTCAACGATAGTAGCACCAGCACATCTGACTCCTCAGAAGCCA
66 CTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACCAGCACATCTGACTCCTCAGAAGCCA
131 ATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
131 ATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
* * *
183 TTTTCCTGCTTCAAGAGAGGCACTTTAATATCTTAATATCTCTCTTGAAGCATGAAAACATACAT
1 TTTTCCTGCTTCAAGAGAGGCACTTTAATATCTTAATACCTCTCCTGAAGCAGGAAAACATACAT
* * *
248 CTGTTTCAATACTATCTTCTGCTGCAACGATAGTAGCACCAGCACATCTGACTCATCAGGAGCCA
66 CTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACCAGCACATCTGACTCCTCAGAAGCCA
* *
313 ATATTAGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTGTG
131 ATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
* * * * * * *
365 TTTTTCTGTTTCAGGAGAGGTA-TTAAGATAT-TAAAGTGCCTCTCCTGAAGCAGGAAAACATAC
1 TTTTCCTGCTTCAAGAGAGGCACTTTA-ATATCTTAA-TACCTCTCCTGAAGCAGGAAAACATAC
* * ** *
428 ATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTCAGGAGC
64 ATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACCAGCACATCTGACTCCTCAGAAGC
* * *
493 TAATATTGGTGCTGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATG
129 CAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
* * * * * *
547 TTTTTCTGCTTCAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGCAGGAAAACGTATAT
1 TTTTCCTGCTTCAAGAGAGGCACTTTAATATCTTAATACCTCTCCTGAAGCAGGAAAACATACAT
* * * * * * * * *
612 CTGTTTGAATACTATCTTTTGCTTTAACGATAGTAACACTA--ATAT-TGGCTCCTAAGAAGTCA
66 CTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACCAGCACATCTGACTCCTCAGAAGCCA
* *
674 GATGTGCTGGTGCTACTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
131 -ATAT--TGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
729 TT
1 TT
731 ACCTCTCCTG
Statistics
Matches: 487, Mismatches: 54, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
179 12 0.02
180 6 0.01
181 6 0.01
182 457 0.94
183 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (182 bp):
TTTTCCTGCTTCAAGAGAGGCACTTTAATATCTTAATACCTCTCCTGAAGCAGGAAAACATACAT
CTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACCAGCACATCTGACTCCTCAGAAGCCA
ATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATG
Found at i:850 original size:147 final size:146
Alignment explanation
Indices: 583--877 Score: 398
Period size: 147 Copynumber: 2.0 Consensus size: 146
573 AATATCTTAA
* * * * *
583 TACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTGAATACTATCTTTTGCTTTAACGATAGTAA
1 TACCTCTCCTAAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAA
* * *
648 CACTAATATTGGCTCCTAAGAAGTCAGATGTGCTGGTGCTACTATCGTTGAAGCAGAAGATAGTA
66 CACTAATATTGACTCCTAAGAAGTCAGATAT-CAGGTGCTACTATCGTTGAAGCAGAAGATAGTA
713 TTGAAACAGATGTATGT
130 TTGAAACAGATGTATGT
* * *
730 TACCTCTCCTGAAGTAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAG
1 TACCTCTCCTAAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAA
* * *
795 CACTAATACATCTGACTCCTCAGGAG-CTA-ATAT-AGGTGCTGCTATCGTTGAAGCAGAAGATA
66 CACTAAT--AT-TGACTCCTAAGAAGTC-AGATATCAGGTGCTACTATCGTTGAAGCAGAAGATA
857 GTATTGAAACAGATGTATGT
127 GTATTGAAACAGATGTATGT
877 T
1 T
878 TTCCTGCTTC
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
147 112 0.86
149 6 0.05
150 12 0.09
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (146 bp):
TACCTCTCCTAAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAA
CACTAATATTGACTCCTAAGAAGTCAGATATCAGGTGCTACTATCGTTGAAGCAGAAGATAGTAT
TGAAACAGATGTATGT
Found at i:1040 original size:182 final size:181
Alignment explanation
Indices: 732--1984 Score: 1571
Period size: 182 Copynumber: 6.9 Consensus size: 181
722 ATGTATGTTA
*
732 CCTCTCCTGAAGTAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
* *
797 CTAATACATCTGACTCCTCAGGAGCTAATATAGGTGCTGCTATCGTTGAAGCAGAAGATAGTATT
66 CTAATACATCTGACTCCTCAGGAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATT
* * * *
862 GAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATA-T
131 GAAACAGATGTATGTTTTCCTGCTTCAGGAGAGGCA--TTAAGATATTAA-AGT
** *
915 -CTCTCCTGAAGCATTAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
* ** *
979 CCAATACATCTGACTCCTCAAAAGCCAATATTGGTTCTGCTATCGTTGAAGCAGAAGATAGTATT
66 CTAATACATCTGACTCCTCAGGAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATT
* * * *
1044 GAAACAGATGTGTG-TTTCTCTGTTTCAAGAGAGGTATTAAGATATTAAAGT
131 GAAACAGATGTATGTTTTC-CTGCTTCAGGAGAGGCATTAAGATATTAAAGT
* *
1095 GCCTCTCCTAAAGCAGGAAAACATACATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGC
1 -CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGC
* *
1160 ACTAATACATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTAT
65 ACTAATACATCTGACTCCTCAGGAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTAT
* * *
1225 TGAAACAGATGTATGTTTTTCTGCTTCAGGAGAGGCATTTTA-ATATCTTAA-T
130 TGAAACAGATGTATGTTTTCCTGCTTCAGGAGAGGCA-TTAAGATAT-TAAAGT
* * * * * * *
1277 ACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTTAATACTATCTTTTGCTTTAACGATAGTAAC
1 -CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGC
* * * * * *
1342 ACTAAT--AT-TGGCTCCTGAGAAGTCAGATGTGCTGGTGCTACTATCGTTGAAGCAGAAGATAG
65 ACTAATACATCTGACTCCTCAGGAGCCA-ATAT--TGGTGCTGCTATCGTTGAAGCAGAAGATAG
* *
1404 TATTGAAACAGATGTATGTTTTTCTGCTTCAGGAGAGGTATTAAGATATTAAAGT
127 TATTGAAACAGATGTATGTTTTCCTGCTTCAGGAGAGGCATTAAGATATTAAAGT
* *
1459 GCCTCTCTTGAAGCAGGAAAATATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGC
1 -CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGC
* *
1524 ACTAAT-CATTTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTAT
65 ACTAATACATCTGACTCCTCAGGAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTAT
* * * * * *
1588 TGAAACAGATGTATGTTTTCCTACTTTAAGAGAGACACTTTAATATCTTAATA-T
130 TGAAACAGATGTATGTTTTCCTGCTTCAGGAGAGGCA--TTAAGATATTAA-AGT
* * * *
1642 -CTCTCCTGAAGAATGAAAACATACATCTGTTTCAATAATATCTTCTGCTTCAACGATAGCAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
* * *
1706 CCAATACATCTGACTCCTCAGAAGCCAATATTGGTGCTGCTATNGTTGAAGCAGAAGATAGTATT
66 CTAATACATCTGACTCCTCAGGAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATT
* * * *
1771 GAAACATATGTGTGTTTTCCTGTTTCAGGAGAGGTATTAAGATATTAAAGT
131 GAAACAGATGTATGTTTTCCTGCTTCAGGAGAGGCATTAAGATATTAAAGT
* * *
1822 GCCTCTCCTGAAGAAGGAAAACATACATTTGTTTCAATACTATCTTCTGCTTTAACGATAGTAGC
1 -CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGC
* * * * * * * * *
1887 ACCAAT--AT-TGGCTTCTGAGGAGTCATATGTATTGATGCAGCTATCGTTAAAGTAGAAGATAG
65 ACTAATACATCTGACTCCTCAGGAGCCA-A--TATTGGTGCTGCTATCGTTGAAGCAGAAGATAG
*
1949 TATTGAAACAGATGTATGTTTTTCTGCTTCAGGAGA
127 TATTGAAACAGATGTATGTTTTCCTGCTTCAGGAGA
Statistics
Matches: 928, Mismatches: 118, Indels: 49
0.85 0.11 0.04
Matches are distributed among these distances:
179 26 0.03
180 30 0.03
181 135 0.15
182 699 0.75
183 25 0.03
184 13 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (181 bp):
CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
CTAATACATCTGACTCCTCAGGAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATT
GAAACAGATGTATGTTTTCCTGCTTCAGGAGAGGCATTAAGATATTAAAGT
Found at i:1365 original size:693 final size:700
Alignment explanation
Indices: 37--1984 Score: 3128
Period size: 693 Copynumber: 2.8 Consensus size: 700
27 AGTATCTTAA
*
37 TACCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCAGCTTCAACGATAGTAG
1 TACCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAG
* ** * *
102 CACCAGCACATCTGACTCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTA
66 CACTAATACATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTA
* *
167 TTGAAACAGATGTATGTTTTCCTGCTTCAAGAGAGGCACTTTAATATCTTAATATCTCTCTTGAA
131 TTGAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAA
* * **
232 GCATGAAAACATACATCTGTTTCAATACTATCTTCTGCTGCAACGATAGTAGCACCAGCACATCT
196 GCATGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATACATCT
* * *
297 GACTCATCAGGAGCCAATATTAGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
261 GACTCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
362 GTGTTTTTCTGTTTCAGGAGAGGTATTAAGATATTAAAGTGCCTCTCCTGAAGCAGGAAAACATA
326 GTG-TTTTCTGTTTCAGGAGAGGTATTAAGATATTAAAGTGCCTCTCCTGAAGCAGGAAAACATA
427 CATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTCAGGAG
390 CATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTCAGGAG
492 CTAATATTGGTGCTGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATGTTTTTCTGCT
455 CTAATATTGGTGCTGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATGTTTTTCTGCT
557 TCAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTGAAT
520 TCAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTGAAT
622 ACTATCTTTTGCTTTAACGATAGTAACACTAATATTGGCTCCTAAGAAGTCAGATGTGCTGGTGC
585 ACTATCTTTTGCTTTAACGATAGTAACACTAATATTGGCTCCTAAGAAGTCAGATGTGCTGGTGC
687 TACTATCGTTGAAGCAGAAGATAGTATTGAAAC-A-G-A-T-GTA-T-G-T
650 TACTATCGTTGAAGCAGAAGATAGTATTGAAACAATGTATTGGTATTAGAT
*
730 TACCTCTCCTGAAGTAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAG
1 TACCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAG
*
795 CACTAATACATCTGACTCCTCAGGAGCTAATATAGGTGCTGCTATCGTTGAAGCAGAAGATAGTA
66 CACTAATACATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTA
860 TTGAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAA
131 TTGAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAA
*
925 GCATTAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATACATCT
196 GCATGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATACATCT
* *
990 GACTCCTCAAAAGCCAATATTGGTTCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
261 GACTCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
* *
1055 GTGTTTCTCTGTTTCAAGAGAGGTATTAAGATATTAAAGTGCCTCTCCTAAAGCAGGAAAACATA
326 GTGTTT-TCTGTTTCAGGAGAGGTATTAAGATATTAAAGTGCCTCTCCTGAAGCAGGAAAACATA
1120 CATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTCAGGAG
390 CATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTCAGGAG
*
1185 CTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTATTGAAACAGATGTATGTTTTTCTGCT
455 CTAATATTGGTGCTGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATGTTTTTCTGCT
*
1250 TCAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTTAAT
520 TCAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTGAAT
*
1315 ACTATCTTTTGCTTTAACGATAGTAACACTAATATTGGCTCCTGAGAAGTCAGATGTGCTGGTGC
585 ACTATCTTTTGCTTTAACGATAGTAACACTAATATTGGCTCCTAAGAAGTCAGATGTGCTGGTGC
1380 TACTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTATGTTTTTCTGCTTCAGGAGAGGTAT
650 TACTATCGTTGAAGCAGAAGATAGTATTGAAACA-ATGTA-----------TT-------GGTAT
1445 TAAGATAT
696 T-AG--AT
* *
1453 TAAAGTGCCTCTCTTGAAGCAGGAAAATATACATCTGTTTCAATACTATCTTCTGCTTCAACGAT
1 T--A---CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGAT
*
1518 AGTAGCACTAAT-CATTTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGA
61 AGTAGCACTAATACATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGA
* *
1582 TAGTATTGAAACAGATGTATGTTTTCCTACTTTAAGAGAGACACTTTAATATCTTAATATCTCTC
126 TAGTATTGAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTC
* *
1647 CTGAAGAATGAAAACATACATCTGTTTCAATAATATCTTCTGCTTCAACGATAGCAGCACCAATA
191 CTGAAGCATGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATA
*
1712 CATCTGACTCCTCAGAAGCCAATATTGGTGCTGCTATNGTTGAAGCAGAAGATAGTATTGAAACA
256 CATCTGACTCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACA
* *
1777 TATGTGTGTTTTCCTGTTTCAGGAGAGGTATTAAGATATTAAAGTGCCTCTCCTGAAGAAGGAAA
321 GATGTGTGTTTT-CTGTTTCAGGAGAGGTATTAAGATATTAAAGTGCCTCTCCTGAAGCAGGAAA
* * * * *
1842 ACATACATTTGTTTCAATACTATCTTCTGCTTTAACGATAGTAGCACCAAT--AT-TGGCTTCTG
385 ACATACATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTC
* * *
1904 AGGAGTCATATGTATTGATGCAGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATGTT
450 AGGAG-C-TA-ATATTGGTGCTGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATGTT
1969 TTTCTGCTTCAGGAGA
512 TTTCTGCTTCAGGAGA
Statistics
Matches: 1164, Mismatches: 51, Indels: 46
0.92 0.04 0.04
Matches are distributed among these distances:
692 3 0.00
693 654 0.56
695 1 0.00
696 1 0.00
697 1 0.00
709 1 0.00
717 3 0.00
718 1 0.00
720 1 0.00
723 2 0.00
724 11 0.01
725 4 0.00
726 3 0.00
727 411 0.35
728 67 0.06
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (700 bp):
TACCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAG
CACTAATACATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTA
TTGAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAA
GCATGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATACATCT
GACTCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
GTGTTTTCTGTTTCAGGAGAGGTATTAAGATATTAAAGTGCCTCTCCTGAAGCAGGAAAACATAC
ATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCACTAATACATCTGACTCCTCAGGAGC
TAATATTGGTGCTGCTATCGTTAAAGTAGAAGATAGTATTGAAACAGATGTATGTTTTTCTGCTT
CAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGCAGGAAAACGTATATCTGTTTGAATA
CTATCTTTTGCTTTAACGATAGTAACACTAATATTGGCTCCTAAGAAGTCAGATGTGCTGGTGCT
ACTATCGTTGAAGCAGAAGATAGTATTGAAACAATGTATTGGTATTAGAT
Found at i:1401 original size:364 final size:361
Alignment explanation
Indices: 732--1984 Score: 1875
Period size: 364 Copynumber: 3.4 Consensus size: 361
722 ATGTATGTTA
*
732 CCTCTCCTGAAGTAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
* *
797 CTAATACATCTGACTCCTCAGGAGCTAATATAGGTGCTGCTATCGTTGAAGCAGAAGATAGTATT
66 CTAAT-CATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTATT
862 GAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAAGC
130 GAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAAGC
*
927 ATTAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATACATCTGA
195 ATGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATA-ATCTGA
* *
992 CTCCTCAAAAGCCAATATTGGTTCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTGT
259 CTCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTGT
*
1057 GTTTCTCTGTTTCAAGAGAGGTATTAAGATATTAAAGTG
324 GTTT-TCTGTTTCAGGAGAGGTATTAAGATATTAAAGTG
* *
1096 CCTCTCCTAAAGCAGGAAAACATACATTTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
1161 CTAATACATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTATT
66 CTAAT-CATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTATT
* * * * * *
1226 GAAACAGATGTATGTTTTTCTGCTTCAGGAGAGGCATTTTAATATCTTAATACCTCTCCTAAAGC
130 GAAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAAGC
* * * * * * * * * *
1291 AGGAAAACGTATATCTGTTTTAATACTATCTTTTGCTTTAACGATAGTAACACTAAT-AT-TGGC
195 ATGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATAATCTGAC
* * * *
1354 TCCTGAGAAGTCAGATGTGCTGGTGCTACTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
260 TCCTCAGAAGCCA-ATAT--TGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGT
* *
1419 ATGTTTTTCTGCTTCAGGAGAGGTATTAAGATATTAAAGTG
322 GTG-TTTTCTGTTTCAGGAGAGGTATTAAGATATTAAAGTG
* *
1460 CCTCTCTTGAAGCAGGAAAATATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
* *
1525 CTAATCATTTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTG
66 CTAATCATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTATTG
* * *
1590 AAACAGATGTATGTTTTCCTACTTTAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAAGAA
131 AAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAAGCA
*
1655 TGAAAACATACATCTGTTTCAATAATATCTTCTGCTTCAACGATAGCAGCACCAATACATCTGAC
196 TGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATA-ATCTGAC
* *
1720 TCCTCAGAAGCCAATATTGGTGCTGCTATNGTTGAAGCAGAAGATAGTATTGAAACATATGTGTG
260 TCCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTGTG
1785 TTTTCCTGTTTCAGGAGAGGTATTAAGATATTAAAGTG
325 TTTT-CTGTTTCAGGAGAGGTATTAAGATATTAAAGTG
* * *
1823 CCTCTCCTGAAGAAGGAAAACATACATTTGTTTCAATACTATCTTCTGCTTTAACGATAGTAGCA
1 CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
* * * * * * * *
1888 CCAAT-AT-TGGCTTCTGAGGAGTCATATGTATTGATGCAGCTATCGTTAAAGTAGAAGATAGTA
66 CTAATCATCTGACTCCTCAGGAG-C-TA-ATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTA
* *
1951 TTGAAACAGATGTATGTTTTTCTGCTTCAGGAGA
128 TTGAAACAGATGTATGTTTTCCTGCTTCAAGAGA
Statistics
Matches: 795, Mismatches: 83, Indels: 22
0.88 0.09 0.02
Matches are distributed among these distances:
361 24 0.03
362 12 0.02
363 302 0.38
364 435 0.55
365 8 0.01
366 14 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (361 bp):
CCTCTCCTGAAGCAGGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGTAGCA
CTAATCATCTGACTCCTCAGGAGCTAATATTGGTGCTGCTATCGTTAAAGCAGAAGATAGTATTG
AAACAGATGTATGTTTTCCTGCTTCAAGAGAGACACTTTAATATCTTAATATCTCTCCTGAAGCA
TGAAAACATACATCTGTTTCAATACTATCTTCTGCTTCAACGATAGCAGCACCAATAATCTGACT
CCTCAGAAGCCAATATTGGTGCTGCTATCGTTGAAGCAGAAGATAGTATTGAAACAGATGTGTGT
TTTCTGTTTCAGGAGAGGTATTAAGATATTAAAGTG
Done.