Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005126.1 Kokia drynarioides strain JFW-HI SEQ_118957, 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: 2707
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Found at i:386 original size:85 final size:85
Alignment explanation
Indices: 281--446 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
271 TCAAACCCAT
* * * *
281 CTTCCTGATGAGATACAGAGAAGTAGGTTAAAGT-AATAAAGCGGTCATCTTTCTGATCAGATAC
1 CTTCCTAATGAGATACAGAGAAGTAGATTAAA-TCAATAAAGCGGTCATCTTCCTAATCAGATAC
*
345 AAAGAAGTAGACCAAATCTGC
65 AAAGAAGTAAACCAAATCTGC
* * *
366 CTTCCTAATGAGATATAGAGAAGTAGATTAAATCAATGAAGCGGTCATCTTCCTAATGAGATACA
1 CTTCCTAATGAGATACAGAGAAGTAGATTAAATCAATAAAGCGGTCATCTTCCTAATCAGATACA
* *
431 GAGATGTAAACCAAAT
66 AAGAAGTAAACCAAAT
447 TAATGAAGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (85 bp):
CTTCCTAATGAGATACAGAGAAGTAGATTAAATCAATAAAGCGGTCATCTTCCTAATCAGATACA
AAGAAGTAAACCAAATCTGC
Found at i:397 original size:206 final size:207
Alignment explanation
Indices: 7--614 Score: 846
Period size: 207 Copynumber: 2.9 Consensus size: 207
1 TTCTGG
* *
7 ATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGAAACTCAATACGAATGAGACTTCAAACCT
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACC-
* * *
72 CATCTTCCTGATGAGATATAGAGAAGTGGGTGAAAGCAGTAAAGCGGTCATC-TTCTTGATGAGA
65 CATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTC-TGATAAGA
* * *
136 TACAAAGAAGTGGACCAAAT-T-CATCTTCCTGATAAGATACAAAGAAGTGGATTAAATCAATGA
129 TACAAAGAAGTGGACCAAATCTGC--CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGA
* *
199 AGCGGTCATCTT-TTC
192 AGCGGTCATCTTCCTA
* *
214 ATGAGATACAGAGAAGTAGACCAAATCAGTGAAGCGAAGCTCAATACAAATGAGACTTCAAACCC
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCC
* * * * *
279 ATCTTCCTGATGAGATACAGAGAAGTAGGTTAAAGTAATAAAGCGGTCATCTTTCTGATCAGATA
66 ATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATAAGATA
* * *
344 CAAAGAAGTAGACCAAATCTGCCTTCCTAATGAGATATAGAGAAGTAGATTAAATCAATGAAGCG
131 CAAAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCG
409 GTCATCTTCCTA
196 GTCATCTTCCTA
* * * *
421 ATGAGATACAGAGATGTAAACCAAATTAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCC
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAA-CC
* * * *
486 CATCTTCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTGATAAAAT
65 CATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATAAGAT
* * * **
551 ACAGAGAAGTGGACCAAATCTGTCTTCCGGATGAGATACAGAGAAGTAGACCAAATCAATGAAG
130 ACAAAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAG
615 TGAAGCTCAA
Statistics
Matches: 355, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
206 119 0.34
207 121 0.34
208 115 0.32
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (207 bp):
ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCC
ATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATAAGATA
CAAAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCG
GTCATCTTCCTA
Found at i:688 original size:367 final size:367
Alignment explanation
Indices: 214--962 Score: 1059
Period size: 367 Copynumber: 2.0 Consensus size: 367
204 TCATCTTTTC
* *
214 ATGAGATACAGAGAAGTAGACCAAATCAGTGAAGCGAAGCTCAATACAAATGAGACTTCAAACCC
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATAAGACTTCAAACCC
* * * *
279 ATCTTCCTGATGAGATACAGAGAAGTAGGTTAAAGTAATAAAGCGGTCATCTTTCTGATCAGATA
66 ATCTTCCTGATGAGATACAGAGAAGTAGGTGAAAGCAATAAAGCGGTCATCTTCCTAATCAGATA
** * * *
344 CAAAGAAGTAGACCAAATCTGCCTTCCTAATGAGATATAGAGAAGTAGATTAAATCAATGAAGCG
131 CAAAGAAGTAGACCAAATCCACCTTCCTAATAAAATATAGAGAAGTAAATTAAATCAATGAAGCG
* * * *
409 GTCATCTTCCTAATGAGATACAGAGATGTAAACCAAATTAATGAAGCAAAGCTCAATACGAATGA
196 GTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAACTCAATACAAATGA
*
474 GACTTCAAACCCCATCTTCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCT
261 GACTTCAAACCCCATCTTCCTAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCT
**
539 TCCTGATAAAATACAGAGAAGTGGACCAAATCTGTCTTCCGG
326 TCCTGATAAAATACAGAGAAGTGGACCAAATCTACCTTCCGG
* *
581 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACTT-AAACCC
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATAAGACTTCAAA-CC
* * * * *
645 CATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGGT
65 CATCTTCCTGATGAGATACAGAGAAGTAGGTGAAAGCAATAAAGCGGTCATCTTCCTAATCAGAT
* * * * *
710 ACAGAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATCAATGAAGC
130 ACAAAGAAGTAGACCAAATCCACCTTCCTAATAAAATATAGAGAAGTAAATTAAATCAATGAAGC
* * * **
775 GGTCATCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGCAAAACTCAATACAAATG
195 GGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAACTCAATACAAATG
* * * * * *
840 AGACTTCAAACTCCATCTTCTTGATAAGATATAGAGAAGTGTGTCAAAGTAATAAAGCGGTCATC
260 AGACTTCAAACCCCATCTTCCTAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATC
* * * * *
905 TTCCTTATGAGATACAGAGAAGTGGATCAAATCTACCTTCCTG
325 TTCCTGATAAAATACAGAGAAGTGGACCAAATCTACCTTCCGG
*
948 ATGAGATATAGAGAA
1 ATGAGATACAGAGAA
963 CTGGATTAAA
Statistics
Matches: 334, Mismatches: 47, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
366 3 0.01
367 331 0.99
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (367 bp):
ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATAAGACTTCAAACCC
ATCTTCCTGATGAGATACAGAGAAGTAGGTGAAAGCAATAAAGCGGTCATCTTCCTAATCAGATA
CAAAGAAGTAGACCAAATCCACCTTCCTAATAAAATATAGAGAAGTAAATTAAATCAATGAAGCG
GTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAACTCAATACAAATGA
GACTTCAAACCCCATCTTCCTAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCT
TCCTGATAAAATACAGAGAAGTGGACCAAATCTACCTTCCGG
Found at i:713 original size:159 final size:160
Alignment explanation
Indices: 421--774 Score: 494
Period size: 159 Copynumber: 2.2 Consensus size: 160
411 CATCTTCCTA
* * *
421 ATGAGATACAGAGATGTAAACCAAATTAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCC
1 ATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATAAGACTTCAAACCC
*
486 CATCTTCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTGATAAAAT
66 CATCTTCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATAAAAT
551 ACAGAGAAGTGGACCAAATCTGTCTTCCGG
131 ACAGAGAAGTGGACCAAATCTGTCTTCCGG
* **
581 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACTT-AAACCC
1 ATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATAAGACTTCAAACCC
* * * * * **
645 CATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGGT
66 CATCTTCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATAAAAT
** **
710 ACAGAGAAGTGGACCAAATCCATCTTCTTG
131 ACAGAGAAGTGGACCAAATCTGTCTTCCGG
* * * **
740 ATAAAATATAGAGAAGTAAATTAAATCAATGAAGC
1 ATGAGATACAGAGAAGTAAACCAAATCAATGAAGC
775 GGTCATCTTC
Statistics
Matches: 169, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
159 117 0.69
160 52 0.31
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (160 bp):
ATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATAAGACTTCAAACCC
CATCTTCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATAAAAT
ACAGAGAAGTGGACCAAATCTGTCTTCCGG
Found at i:792 original size:85 final size:85
Alignment explanation
Indices: 644--814 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
634 GACTTAAACC
* * *** *
644 CCATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGG
1 CCATCTTCTTGATAAAATATAGAGAAGTAAATGAAAGCAATAAAGCGGTCATCTTCCTAATGAGA
709 TACAGAGAAGTGGACCAAAT
66 TACAGAGAAGTGGACCAAAT
* * * * *
729 CCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATCAATGAAGCGGTCATCTTCTTGATGAGA
1 CCATCTTCTTGATAAAATATAGAGAAGTAAATGAAAGCAATAAAGCGGTCATCTTCCTAATGAGA
* *
794 TATAGAGAAGTTGACCAAAT
66 TACAGAGAAGTGGACCAAAT
814 C
1 C
815 AATGAAGCAA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (85 bp):
CCATCTTCTTGATAAAATATAGAGAAGTAAATGAAAGCAATAAAGCGGTCATCTTCCTAATGAGA
TACAGAGAAGTGGACCAAAT
Found at i:801 original size:48 final size:48
Alignment explanation
Indices: 730--822 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
720 GGACCAAATC
**
730 CATCTTCTTGATAAAATATAGAGAAGTAAATTAAATCAATGAAGCGGT
1 CATCTTCTTGATAAAATATAGAGAAGTAAACCAAATCAATGAAGCGGT
* * **
778 CATCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGC
1 CATCTTCTTGATAAAATATAGAGAAGTAAACCAAATCAATGAAGC
823 AAAACTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (48 bp):
CATCTTCTTGATAAAATATAGAGAAGTAAACCAAATCAATGAAGCGGT
Found at i:923 original size:208 final size:207
Alignment explanation
Indices: 573--1604 Score: 1239
Period size: 208 Copynumber: 5.0 Consensus size: 207
563 ACCAAATCTG
* * *
573 TCTTCCGGATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
*
638 T-AAACCCCATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCT
66 TCAAA-CCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
* * * * * *
702 AATGAGGTACAGAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATC
130 AATGAGATACAAAGAAGTGGACCAAATCCACCTTCTTGATGAGATATAGAGAAGTAGATTAAATC
767 AATGAAGCGGTCA
195 AATGAAGCGGTCA
* * * * * *
780 TCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGCAAAACTCAATACAAATGAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* * *
845 TCAAACTCCATCTTCTTGATAAGATATAGAGAAGTGTGTCAAAGTAATAAAGCGGTCATCTTCCT
66 TCAAAC-CCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
* * * * * * *
910 TATGAGATACAGAGAAGTGGATCAAATCTACCTTCCTGATGAGATATAGAGAACTGGATTAAATC
130 AATGAGATACAAAGAAGTGGACCAAATCCACCTTCTTGATGAGATATAGAGAAGTAGATTAAATC
* *
975 AATTAAGTGGTCA
195 AATGAAGCGGTCA
* * * * *
988 TCTTCCTGATGAGATACAGATAAGTAGACCAAATAAACGAAGCAAAGCTGAATACGAATGAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* ** * **
1053 CTAAAACCCAAGTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTGTCTTCCT
66 -TCAAACCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
* * * * **** * * * *
1118 GATGAGGTAAAAAGAAGTGGATCAAATTTGTCTTCTTGATAAGATATAGAGTAGTAGGTTAAATT
130 AATGAGATACAAAGAAGTGGACCAAATCCACCTTCTTGATGAGATATAGAGAAGTAGATTAAATC
*
1183 AATGAAGTGGTCA
195 AATGAAGCGGTCA
* * *
1196 TCTTCTTGATGAGATACAGAGAAGTAGACCGAATCAATGAAGTGAAGCTCAATACGAATGAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* * * *
1261 TCAAACACCATCTTCCTGATGAGATATAGAGAAGTGTGACAAAGCAATAAAGCAGTCATCTTCCT
66 TCAAAC-CCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
* * * * *
1326 AATGAGATACAAAGAAGTGGACCAAATCCGCCTT-TCTGATGAGATACAGACAAATGGATTAAAT
130 AATGAGATACAAAGAAGTGGACCAAATCCACCTTCT-TGATGAGATATAGAGAAGTAGATTAAAT
*
1390 TAATGAAGCGGTCA
194 CAATGAAGCGGTCA
* * *
1404 TCTTCCTGATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAATATGAATGAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* * **
1469 CCAAAACCCATGTTCTTGATGAG--ATAGAGAAGTGGGTCAAAATAATAAAGCGG-CTATCTTCC
66 TC-AAACCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTC-ATCTTCC
* ** ** * **
1531 TAATGAGATACATAGAAGCAGACCAAAT-CACCTTCTTGATGAGATGCAGAGAAGTAAACCAAAT
129 TAATGAGATACAAAGAAGTGGACCAAATCCACCTTCTTGATGAGATATAGAGAAGTAGATTAAAT
1595 CAATGAAGCG
194 CAATGAAGCG
1605 AAGCTCAATA
Statistics
Matches: 701, Mismatches: 116, Indels: 18
0.84 0.14 0.02
Matches are distributed among these distances:
205 36 0.05
206 58 0.08
207 64 0.09
208 534 0.76
209 9 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (207 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
TCAAACCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTA
ATGAGATACAAAGAAGTGGACCAAATCCACCTTCTTGATGAGATATAGAGAAGTAGATTAAATCA
ATGAAGCGGTCA
Found at i:954 original size:37 final size:37
Alignment explanation
Indices: 904--974 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
894 AAGCGGTCAT
* *
904 CTTCCTTATGAGATACAGAGAAGTGGATCAAATCTAC
1 CTTCCTGATGAGATACAGAGAACTGGATCAAATCTAC
* *
941 CTTCCTGATGAGATATAGAGAACTGGATTAAATC
1 CTTCCTGATGAGATACAGAGAACTGGATCAAATC
975 AATTAAGTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAACTGGATCAAATCTAC
Found at i:1189 original size:416 final size:416
Alignment explanation
Indices: 573--1604 Score: 1388
Period size: 416 Copynumber: 2.5 Consensus size: 416
563 ACCAAATCTG
* * *
573 TCTTCCGGATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* * * *
638 -TAAACCCCATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCT
66 CTAAAACCCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCT
* *
702 AATGAGGTACAGAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATC
131 AATGAGGTAAAAAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATC
* *
767 AATGAAGCGGTCATCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGCAAAACTCAA
196 AATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAACTCAA
* * * *
832 TACAAATGAGACTTCAAACTCCATCTTCTTGATAAGATATAGAGAAGTGTGTCAAAGTAATAAAG
261 TACAAATGAGACTTCAAACACCATCTTCCTGATAAGATATAGAGAAGTGTGACAAAGCAATAAAG
* * * * * * *
897 CGGTCATCTTCCTTATGAGATACAGAGAAGTGGATCAAATCTACCTTCCTGATGAGATATAGAGA
326 CAGTCATCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGACA
* * *
962 ACTGGATTAAATCAATTAAGTGGTCA
391 AATGGATTAAATCAATGAAGCGGTCA
* * * * *
988 TCTTCCTGATGAGATACAGATAAGTAGACCAAATAAACGAAGCAAAGCTGAATACGAATGAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* * *
1053 CTAAAACCCAAGTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTGTCTTCCT
66 CTAAAACCCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCT
* * *** * * ** *
1118 GATGAGGTAAAAAGAAGTGGATCAAATTTGTCTTCTTGATAAGATATAGAGTAGTAGGTTAAATT
131 AATGAGGTAAAAAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATC
* * ** *
1183 AATGAAGTGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCGAATCAATGAAGTGAAGCTCAA
196 AATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAACTCAA
* *
1248 TACGAATGAGACTTCAAACACCATCTTCCTGATGAGATATAGAGAAGTGTGACAAAGCAATAAAG
261 TACAAATGAGACTTCAAACACCATCTTCCTGATAAGATATAGAGAAGTGTGACAAAGCAATAAAG
* *
1313 CAGTCATCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCGCCTTTCTGATGAGATACAGACA
326 CAGTCATCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGACA
*
1378 AATGGATTAAATTAATGAAGCGGTCA
391 AATGGATTAAATCAATGAAGCGGTCA
* * *
1404 TCTTCCTGATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAATATGAATGAGACT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
* ** *
1469 CCAAAACCCATGTTCTTGATGAG--ATAGAGAAGTGGGTCAAAATAATAAAGCGGCTATCTTCCT
66 CTAAAACCCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCT
* * * ** * * * ** **
1532 AATGAGATACATAGAAGCAGACCAAAT-CACCTTCTTGATGAGATGCAGAGAAGTAAACCAAATC
131 AATGAGGTAAAAAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATC
1596 AATGAAGCG
196 AATGAAGCG
1605 AAGCTCAATA
Statistics
Matches: 528, Mismatches: 88, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
413 33 0.06
414 56 0.11
415 57 0.11
416 382 0.72
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (416 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
CTAAAACCCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCT
AATGAGGTAAAAAGAAGTGGACCAAATCCATCTTCTTGATAAAATATAGAGAAGTAAATTAAATC
AATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAACTCAA
TACAAATGAGACTTCAAACACCATCTTCCTGATAAGATATAGAGAAGTGTGACAAAGCAATAAAG
CAGTCATCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGACA
AATGGATTAAATCAATGAAGCGGTCA
Found at i:1641 original size:365 final size:366
Alignment explanation
Indices: 1197--1962 Score: 1042
Period size: 365 Copynumber: 2.1 Consensus size: 366
1187 AAGTGGTCAT
* *
1197 CTTCTTGATGAGATACAGAGAAGTAGACCGAATCAATGAAGTGAAGCTCAATACGAATGAGACTT
1 CTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * *
1262 CAAACACCATCTTCCTGATGAGATATAGAGAAGTGTGACAAAGCAATAAAGC-AGTCATCTTCCT
66 CAAACACCATCTTCCTGATGAGATACAGAGAAATGGGACAAAGCAATAAAGCGA-TCATCTTCCT
* * *
1326 AATGAGATACAA-AGAAGTGGACCAAATCCGCCTTTCTGATGAGATACAGACAAATGGATTAAAT
130 AATGAGATA-AAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATACAGACAAATGAATTAAAT
* * * *
1390 TAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCA
194 CAATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTACACCAAATCAATGAAGCGAAGCTCA
** * *
1455 ATATGAATGAGACTCCAAAACCCATGTTCTTGATGAG-ATAGAGAAGTGGGTCAAA-ATAATAAA
259 ATACAAATGAGACTCCAAAACCCATCTTCCTGATGAGAATAGAGAAGTGGGTCAAAGA-AATAAA
** *
1518 GC-GGCTATCTTCCTAATGAGATACATAGAAGCAGACCAAATCAC-
323 GCAATC-ATCTTCCTAATGAGATACAAAGAAGCAGACCAAATC-CG
* *
1562 CTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
1 CTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * *
1627 CAAATC-CTATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTTCCT
66 CAAA-CACCATCTTCCTGATGAGATACAGAGAAATGGGACAAAGCAATAAAGCGATCATCTTCCT
* * * * * * *
1691 GATGAGGTAAAGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATATAGAGAAGTGAATTAAATC
130 AATGAGATAAAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATACAGACAAATGAATTAAATC
*
1756 AATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAA
195 AATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAA
* * * *
1821 TACAAATGAGACTTCAAACCCCATCTTCCTGATGAGATATAGAGCAGTGTGTCAAAGAAATAAAG
260 TACAAATGAGACTCCAAAACCCATCTTCCTGATGAGA-ATAGAGAAGTGGGTCAAAGAAATAAAG
* **
1886 CAATCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCG
324 CAATCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCCG
* *
1929 TCTTTTTGATGAGATACAGAGAAGTGGACCAAAT
1 -CTTCTTGATGAGATACAGAGAAGTAGACCAAAT
1963 TCGCCTTCCT
Statistics
Matches: 349, Mismatches: 43, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
364 2 0.01
365 257 0.74
366 3 0.01
367 56 0.16
368 31 0.09
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (366 bp):
CTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
CAAACACCATCTTCCTGATGAGATACAGAGAAATGGGACAAAGCAATAAAGCGATCATCTTCCTA
ATGAGATAAAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATACAGACAAATGAATTAAATCA
ATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAAT
ACAAATGAGACTCCAAAACCCATCTTCCTGATGAGAATAGAGAAGTGGGTCAAAGAAATAAAGCA
ATCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCCG
Found at i:1779 original size:85 final size:85
Alignment explanation
Indices: 1636--1802 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
1626 TCAAATCCTA
* ** * * *
1636 TCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTTCCTGATGAGGTAA
1 TCTTCCTGATAAGATACAGAGAAATGAATCAAAGCAATAAAGCGATAATCTTCATGATGAGATAA
*
1701 AGAGAAGTGGACCAAATTCG
66 AGAGAAGTAGACCAAATTCG
* * * * * * *
1721 TCTTCCTGATAAGATATAGAGAAGTGAATTAAATCAATGAAGCGGTAATCTTCATGATGAGATAC
1 TCTTCCTGATAAGATACAGAGAAATGAATCAAAGCAATAAAGCGATAATCTTCATGATGAGATAA
1786 AGAGAAGTAGACCAAAT
66 AGAGAAGTAGACCAAAT
1803 CAATGAAGCG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAGAGAAATGAATCAAAGCAATAAAGCGATAATCTTCATGATGAGATAA
AGAGAAGTAGACCAAATTCG
Found at i:1781 original size:159 final size:154
Alignment explanation
Indices: 1401--1764 Score: 422
Period size: 157 Copynumber: 2.3 Consensus size: 154
1391 AATGAAGCGG
1401 TCATCTTCCTGATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAATATGAATGAG
1 TCATCTTCCTGATGAGATATAGAGAAGTA-ACCAAATCAATGAAGCGAAGCTC-A-ATGAATGAG
* * * * *
1466 ACTCCAAAACCCATGTTCTTGATGAGATAGAGAAGTGGGTCAAAATAATAAAGCGGCTATCTTCC
63 ACTCCAAAACCCATCTTCCTGATGAGATAGAGAAATGGGTCAAAACAATAAAGCGACTATCTTCC
* *
1531 TAATGAGATACATAGAAGCAGACCAAA
128 TAATGAGATAAAGAGAAGCAGACCAAA
* * **
1558 TCACCTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
1 TCATCTTCCTGATGAGATATAGAGAAGT-AACCAAATCAATGAAGCGAAGCTCAAT--GAATGAG
* * * * *
1623 ACTTCAAATCCTATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTT
63 ACTCCAAAACCCATCTTCCTGATGAGAT--AGAGAAATGGGTCAAAACAATAAAGCGACTATCTT
* * **
1688 CCTGATGAGGTAAAGAGAAGTGGACCAAA
126 CCTAATGAGATAAAGAGAAGCAGACCAAA
* * **
1717 TTCGTCTTCCTGATAAGATATAGAGAAGTGAATTAAATCAATGAAGCG
1 -TCATCTTCCTGATGAGATATAGAGAAGT-AACCAAATCAATGAAGCG
1765 GTAATCTTCA
Statistics
Matches: 172, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
155 2 0.01
156 1 0.01
157 77 0.45
158 1 0.01
159 53 0.31
160 38 0.22
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (154 bp):
TCATCTTCCTGATGAGATATAGAGAAGTAACCAAATCAATGAAGCGAAGCTCAATGAATGAGACT
CCAAAACCCATCTTCCTGATGAGATAGAGAAATGGGTCAAAACAATAAAGCGACTATCTTCCTAA
TGAGATAAAGAGAAGCAGACCAAA
Found at i:1792 original size:48 final size:48
Alignment explanation
Indices: 1721--1812 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
1711 ACCAAATTCG
* * **
1721 TCTTCCTGATAAGATATAGAGAAGT-GAATTAAATCAATGAAGCGGTAA
1 TCTTCATGATAAGATACAGAGAAGTAG-ACCAAATCAATGAAGCGGTAA
*
1769 TCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCG
1 TCTTCATGATAAGATACAGAGAAGTAGACCAAATCAATGAAGCG
1813 AAGCTCAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (48 bp):
TCTTCATGATAAGATACAGAGAAGTAGACCAAATCAATGAAGCGGTAA
Found at i:1925 original size:208 final size:208
Alignment explanation
Indices: 1562--1956 Score: 574
Period size: 208 Copynumber: 1.9 Consensus size: 208
1552 ACCAAATCAC
* * * *
1562 CTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTT
* * * * *
1627 CAAATCCTATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTTCCTG
66 CAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
* * * * *
1692 ATGAGGTAAAGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATATAGAGAAGTGAATTAAATCA
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCA
*
1757 ATGAAGCGGTAAT
196 ATGAAGCGGTCAT
*
1770 CTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTT
* * * *
1835 CAAACCCCATCTTCCTGATGAGATATAGAGCAGTGTGTCAAAGAAATAAAGCAATCATCTTCCTG
66 CAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
* * **
1900 ATGAGATACAAAGAAGTGGACCAAATCCGTCTTTTTGATGAGATACAGAGAAGTGGA
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGA
1957 CCAAATTCGC
Statistics
Matches: 165, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
208 165 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (208 bp):
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTT
CAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCA
ATGAAGCGGTCAT
Found at i:1941 original size:37 final size:37
Alignment explanation
Indices: 1893--1993 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
1883 AAGCAATCAT
* *
1893 CTTCCTGATGAGATACAAAGAAGTGGACCAAATCCGT
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
** *
1930 CTTTTTGATGAGATACAGAGAAGTGGACCAAATTCGC
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
*
1967 CTTCCTGATAAGATACAGAGAAGTGGA
1 CTTCCTGATGAGATACAGAGAAGTGGA
1994 TTAAATCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
Found at i:2048 original size:48 final size:48
Alignment explanation
Indices: 1968--2234 Score: 182
Period size: 48 Copynumber: 5.8 Consensus size: 48
1958 CAAATTCGCC
* **
1968 TTCCTGATAAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATG
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
* * *
2016 TTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCA-G
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGC---GGTCATG
** ** * * *
2066 AACCTGATGAGATACAGAGAAGTGGGTCAATAT-AATAAAGCGGCCATC
1 TTCCTGATGAGATACAGAGAAGTGGACCAA-ATCAATGAAGCGGTCATG
* * * *
2114 TTCCTAATGAGATACAGAGAAGTTGACCAAGT---T----C--TC--C
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
* ** ** * *
2151 TTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGATTCAGTCATT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
*
2199 TTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAAT
2235 AAAGTGAAGC
Statistics
Matches: 168, Mismatches: 35, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
37 27 0.16
39 1 0.01
40 1 0.01
41 1 0.01
44 1 0.01
45 1 0.01
46 2 0.01
47 4 0.02
48 92 0.55
50 32 0.19
51 6 0.04
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (48 bp):
TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
Found at i:2213 original size:85 final size:85
Alignment explanation
Indices: 2070--2228 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
2060 GCTCAGAACC
* *
2070 TGATGAGATACAGAGAAGTGGGTCAATATAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGATCAATATAATAAAGCAGCCATCTTCCTAATGAGATACAGAGAA
*
2135 GTTGACCAAGTTCTCCTTCT
66 GTAGACCAAGTTCTCCTTCT
* * ** * * *
2155 TGATGAGATACAGAGAAGTGGATTAA-ATCAATGATTCAGTCATTTTCCTGATGAGATACAGAGA
1 TGATGAGATACAGAGAAGTGGATCAATAT-AATAAAGCAGCCATCTTCCTAATGAGATACAGAGA
2219 AGTAGACCAA
65 AGTAGACCAA
2229 ATCAATAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (85 bp):
TGATGAGATACAGAGAAGTGGATCAATATAATAAAGCAGCCATCTTCCTAATGAGATACAGAGAA
GTAGACCAAGTTCTCCTTCT
Found at i:2368 original size:37 final size:37
Alignment explanation
Indices: 2318--2390 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
2308 ATAAAGCGGT
2318 CATCTTCCTGATGAAATACAGAGAAGTGGATCAAATC
1 CATCTTCCTGATGAAATACAGAGAAGTGGATCAAATC
* *
2355 CATCTTCCTGATGAGATACAGAGAAGTGGATTAAAT
1 CATCTTCCTGATGAAATACAGAGAAGTGGATCAAAT
2391 TAATGAAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (37 bp):
CATCTTCCTGATGAAATACAGAGAAGTGGATCAAATC
Found at i:2426 original size:48 final size:48
Alignment explanation
Indices: 2355--2447 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
2345 GGATCAAATC
* * ** *
2355 CATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCTAT
1 CATCTTCCTGATGAGACACAGAGAAGTAGACCAAATCAATGAAGCTAT
* *
2403 CATCTTCCTGATGAGGCATAGAGAAGTAGACCAAATCAATGAAGC
1 CATCTTCCTGATGAGACACAGAGAAGTAGACCAAATCAATGAAGC
2448 AAAGCTCAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (48 bp):
CATCTTCCTGATGAGACACAGAGAAGTAGACCAAATCAATGAAGCTAT
Found at i:2426 original size:85 final size:85
Alignment explanation
Indices: 2269--2439 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 85
2259 ACTTCAAAGC
* *
2269 CCATCTTCTTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAAA
1 CCATCTTCCTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATGAAA
* * *
2334 TACAGAGAAGTGGATCAAAT
66 CACAGAGAAGTAGACCAAAT
* * ** * * **
2354 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCTATCATCTTCCTGATGAGG
1 CCATCTTCCTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATGAAA
*
2419 CATAGAGAAGTAGACCAAAT
66 CACAGAGAAGTAGACCAAAT
2439 C
1 C
2440 AATGAAGCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (85 bp):
CCATCTTCCTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATGAAA
CACAGAGAAGTAGACCAAAT
Found at i:2428 original size:208 final size:206
Alignment explanation
Indices: 2068--2707 Score: 813
Period size: 208 Copynumber: 3.1 Consensus size: 206
2058 AAGCTCAGAA
* * *
2068 CCTGATGAGATACAGAGAAGTGGGTCAATA-TAATAAAGCGGCCATCTTCCTAATGAGATACAGA
1 CCTGATGAGATACAGAGAAGTGGGTCAA-AGCAATAAAGCGGCCATCTTCCTGATGAAATACAGA
* * * **
2132 GAAGTTGACCAAGTTCTCCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGATTCAGTCA
65 GAAGTGGACCAAATTCT-CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCA-TCA
* * *
2197 TTTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGAAGCTCAATACGAATGAGACT
128 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACT
2262 TCAAAGCCCATCTT
193 TCAAAGCCCATCTT
* * * *
2276 CTTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAAATACAGAG
1 CCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTGATGAAATACAGAG
* * *
2341 AAGTGGATCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCTATCAT
66 AAGTGGACCAAATTC-TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGC-ATCAT
** * *
2406 CTTCCTGATGAGGCATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTT
129 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
2471 CAAA-CCTCATCTT
194 CAAAGCC-CATCTT
* * * * *
2484 CCTAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGACCATC-TCTCTGAT-AAGACACAG
1 CCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTC-CTGATGAA-ATACAG
* * * *
2547 AGTACTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGAATTAAATCAATGAAGCGGTC
64 AGAAGTGGACCAAATTC-TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGC-ATC
* * * *
2612 ATCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGAAGCTCGATACAAATGAGGC
127 ATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGAC
*
2677 TT-TAAGCCCCATCTT
192 TTCAAAG-CCCATCTT
*
2692 CCTGATGAGTTACAGA
1 CCTGATGAGATACAGA
Statistics
Matches: 371, Mismatches: 53, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
207 9 0.02
208 358 0.96
209 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (206 bp):
CCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTGATGAAATACAGAG
AAGTGGACCAAATTCTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCATCATCT
TCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCA
AAGCCCATCTT
Found at i:2636 original size:48 final size:48
Alignment explanation
Indices: 2565--2656 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
2555 ACCAAATTCG
**
2565 TCTTCCTGATGAGATACAGAGAAGT-GAATTAAATCAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGTAG-ACGAAATCAATGAAGCGGTCA
2613 TCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCG
1 TCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCG
2657 AAGCTCGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGGTCA
Done.