Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014211.1 Corchorus capsularis cultivar CVL-1 contig14232, 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: 37793
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:418 original size:19 final size:18
Alignment explanation
Indices: 394--429 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
384 TGAAAATTTC
394 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
413 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
430 ATTATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Found at i:2020 original size:30 final size:30
Alignment explanation
Indices: 1985--2044 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1975 GGCATCTTAA
*
1985 TGGCATCC-CTATGAGGCTTTGCGATTCCAT
1 TGGCATCCTC-ATGAGACTTTGCGATTCCAT
*
2015 TGGCATCTTCATGAGACTTTGCGATTCCAT
1 TGGCATCCTCATGAGACTTTGCGATTCCAT
2045 CCTCTCCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (30 bp):
TGGCATCCTCATGAGACTTTGCGATTCCAT
Found at i:3392 original size:17 final size:17
Alignment explanation
Indices: 3370--3414 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
3360 GAAAATTAGG
3370 AATAATTATTGAATA-AT
1 AATAATTATT-AATATAT
*
3387 AATAATAATTAATATAT
1 AATAATTATTAATATAT
*
3404 AATTATTATTA
1 AATAATTATTA
3415 GCTCAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATAATTATTAATATAT
Found at i:5391 original size:21 final size:22
Alignment explanation
Indices: 5367--5411 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
5357 ACAATCTGAA
*
5367 TTGCTAAACACCGCCTCA-TTT
1 TTGCTAAACACCGCCCCACTTT
**
5388 TTGCTATTCACCGCCCCACTTT
1 TTGCTAAACACCGCCCCACTTT
5410 TT
1 TT
5412 ACACTTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.36, G:0.09, T:0.38
Consensus pattern (22 bp):
TTGCTAAACACCGCCCCACTTT
Found at i:5899 original size:13 final size:13
Alignment explanation
Indices: 5883--5948 Score: 80
Period size: 13 Copynumber: 4.8 Consensus size: 13
5873 GTAATTATTA
5883 TTGTATGTAATTT
1 TTGTATGTAATTT
5896 TTGTATGTAATTT
1 TTGTATGTAATTT
5909 TT-TATGTTAATTATT
1 TTGTATG-TAA-T-TT
5924 ATTGTATGTAATTT
1 -TTGTATGTAATTT
*
5938 TTGTAAGTAAT
1 TTGTATGTAAT
5949 ATAACAACAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
12 4 0.09
13 28 0.60
14 3 0.06
15 3 0.06
16 5 0.11
17 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (13 bp):
TTGTATGTAATTT
Found at i:8081 original size:22 final size:22
Alignment explanation
Indices: 8053--8099 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
8043 ATTTATTCAT
*
8053 TATTAATTAACTATTAATTAGA
1 TATTAATTAACTAATAATTAGA
*
8075 TATTAATTAGCTAATAATTAGA
1 TATTAATTAACTAATAATTAGA
8097 TAT
1 TAT
8100 ATATAGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (22 bp):
TATTAATTAACTAATAATTAGA
Found at i:8095 original size:11 final size:11
Alignment explanation
Indices: 8053--8095 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
8043 ATTTATTCAT
*
8053 TATTAATTAAC
1 TATTAATTAGC
*
8064 TATTAATTAGA
1 TATTAATTAGC
8075 TATTAATTAGC
1 TATTAATTAGC
*
8086 TAATAATTAG
1 TATTAATTAG
8096 ATATATATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (11 bp):
TATTAATTAGC
Found at i:8253 original size:2 final size:2
Alignment explanation
Indices: 8238--8277 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
8228 GACAAAAATA
*
8238 AT AT AT AGT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8278 CACACTATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.97
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15671 original size:27 final size:27
Alignment explanation
Indices: 15641--15702 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
15631 CCAAGGGCTT
15641 ATCATGGACATGAAGAACACAATGGAG
1 ATCATGGACATGAAGAACACAATGGAG
15668 ATCATGGACATGAAGAACACAATGGAG
1 ATCATGGACATGAAGAACACAATGGAG
15695 ATCATGGA
1 ATCATGGA
15703 GGGGATGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.16
Consensus pattern (27 bp):
ATCATGGACATGAAGAACACAATGGAG
Found at i:15743 original size:18 final size:18
Alignment explanation
Indices: 15720--15757 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15710 ATCAAGGATT
*
15720 GCAAGGAAGTATGGACAA
1 GCAAGGAAGCATGGACAA
15738 GCAAGGAAGCATGGACAA
1 GCAAGGAAGCATGGACAA
15756 GC
1 GC
15758 TTAAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.34, T:0.08
Consensus pattern (18 bp):
GCAAGGAAGCATGGACAA
Found at i:17117 original size:41 final size:39
Alignment explanation
Indices: 17044--17202 Score: 142
Period size: 41 Copynumber: 3.8 Consensus size: 39
17034 ACTTCAACGT
* * *
17044 GACAACTTCCAGTGTCAAA--TAATAACTTAATTTACCGGAG
1 GACAACTTCTAGTGTCAAAGGTAAT--TTTAATTTACC-AAG
*
17084 CGACAACTTCTAGTGTCAAAGGTAATTTCAATTTACCAAG
1 -GACAACTTCTAGTGTCAAAGGTAATTTTAATTTACCAAG
*
17124 GTAACAACTTCTGGTGTCAAAGGTAATTTTAATTTTTACCAAAG
1 G--ACAACTTCTAGTGTCAAAGGTAATTTTAA--TTTACC-AAG
* *
17168 TGACAACTTCTTGTGTCAATGGTAGATTTTAATTT
1 -GACAACTTCTAGTGTCAAAGGTA-ATTTTAATTT
17203 TATTTGTGTG
Statistics
Matches: 101, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 54 0.53
42 3 0.03
43 30 0.30
44 10 0.10
45 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
GACAACTTCTAGTGTCAAAGGTAATTTTAATTTACCAAG
Found at i:17176 original size:43 final size:42
Alignment explanation
Indices: 17085--17229 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
17075 TTACCGGAGC
* * *
17085 GACAACTTCTAGTGTCAAAGGTAATTTCAA-TTTACCAAGGT
1 GACAACTTCTGGTGTCAAAGGTAATTTTAATTTTACCAAAGT
*
17126 AACAACTTCTGGTGTCAAAGGTAATTTTAATTTTTACCAAAGT
1 GACAACTTCTGGTGTCAAAGGTAATTTTAA-TTTTACCAAAGT
* * *****
17169 GACAACTTCTTGTGTCAATGGTAGATTTTAATTTTATTTGTGT
1 GACAACTTCTGGTGTCAAAGGTA-ATTTTAATTTTACCAAAGT
17212 GACAACTTCTGGTGTCAA
1 GACAACTTCTGGTGTCAA
17230 TTAAATTTAC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 27 0.31
43 54 0.61
44 7 0.08
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (42 bp):
GACAACTTCTGGTGTCAAAGGTAATTTTAATTTTACCAAAGT
Found at i:17265 original size:47 final size:47
Alignment explanation
Indices: 17211--17481 Score: 416
Period size: 47 Copynumber: 5.7 Consensus size: 47
17201 TTTATTTGTG
*
17211 TGACAACTTCTGGTGTCAATTAAATTTACTAAAGCAAAATTTTAATT
1 TGACAACTTCTGGTGTCAATTAAATTTACTAAAGTAAAATTTTAATT
* *
17258 TGACAACTTCTAGTGTCAATTAAATTTACTAAAGTAAGATTTTAATT
1 TGACAACTTCTGGTGTCAATTAAATTTACTAAAGTAAAATTTTAATT
* *
17305 TGACAACTTCTAGTGTCAATTAAATTTATATATTAAAGTAAAATTTTAATT
1 TGACAACTTCTGGTGTCAATTAAA--T-T-TACTAAAGTAAAATTTTAATT
* *
17356 TGACAACTTCTGGTGTCAATTAATTTTACTAAAATAAAATTTTAATT
1 TGACAACTTCTGGTGTCAATTAAATTTACTAAAGTAAAATTTTAATT
*
17403 TGACAACTTCTGGTGTCAATTAAATTTACTAATGTAAAATTTTAATT
1 TGACAACTTCTGGTGTCAATTAAATTTACTAAAGTAAAATTTTAATT
*
17450 TGACAACTTTTGGTGTCAATTAAAATTTACTA
1 TGACAACTTCTGGTGTCAATT-AAATTTACTA
17482 GAGCTCTCAT
Statistics
Matches: 206, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
47 151 0.73
48 11 0.05
49 2 0.01
50 1 0.00
51 41 0.20
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (47 bp):
TGACAACTTCTGGTGTCAATTAAATTTACTAAAGTAAAATTTTAATT
Found at i:17365 original size:98 final size:97
Alignment explanation
Indices: 17211--17481 Score: 394
Period size: 98 Copynumber: 2.8 Consensus size: 97
17201 TTTATTTGTG
* * *
17211 TGACAACTTCTGGTGTCAATTAAA-TT-TA-CTAAAGCAAAATTTTAATTTGACAACTTCTAGTG
1 TGACAACTTCTGGTGTCAATTAAATTTATATATAAAGTAAAATTTTAATTTGACAACTTCTGGTG
* *
17273 TCAATTAAATTTACTAAAGTAAGATTTTAATT
66 TCAATTAAATTTACTAAAATAAAATTTTAATT
*
17305 TGACAACTTCTAGTGTCAATTAAATTTATATATTAAAGTAAAATTTTAATTTGACAACTTCTGGT
1 TGACAACTTCTGGTGTCAATTAAATTTATATA-TAAAGTAAAATTTTAATTTGACAACTTCTGGT
*
17370 GTCAATTAATTTTACTAAAATAAAATTTTAATT
65 GTCAATTAAATTTACTAAAATAAAATTTTAATT
*
17403 TGACAACTTCTGGTGTCAATTAAATTTACTA-AT---GTAAAATTTTAATTTGACAACTTTTGGT
1 TGACAACTTCTGGTGTCAATTAAATTTA-TATATAAAGTAAAATTTTAATTTGACAACTTCTGGT
17464 GTCAATTAAAATTTACTA
65 GTCAATT-AAATTTACTA
17482 GAGCTCTCAT
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
94 57 0.35
95 11 0.07
96 2 0.01
97 1 0.01
98 88 0.55
99 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (97 bp):
TGACAACTTCTGGTGTCAATTAAATTTATATATAAAGTAAAATTTTAATTTGACAACTTCTGGTG
TCAATTAAATTTACTAAAATAAAATTTTAATT
Found at i:17374 original size:145 final size:146
Alignment explanation
Indices: 17211--17478 Score: 457
Period size: 145 Copynumber: 1.8 Consensus size: 146
17201 TTTATTTGTG
*
17211 TGACAACTTCTGGTGTCAATTAAATTTACTAAAGCAAAATTTTAATTTGACAACTTCTAGTGTCA
1 TGACAACTTCTGGTGTCAATTAAATTTACTAAAACAAAATTTTAATTTGACAACTTCTAGTGTCA
*
17276 ATTAAATTTACTAAAGTAAGATTTTAATTTGACAACTTCTAGTGTCAATT-AAATTTATATATTA
66 ATTAAATTTACTAAAGTAAAATTTTAATTTGACAACTTCTAGTGTCAATTAAAATTTATATATTA
17340 AAGTAAAATTTTAATT
131 AAGTAAAATTTTAATT
* * *
17356 TGACAACTTCTGGTGTCAATTAATTTTACTAAAATAAAATTTTAATTTGACAACTTCTGGTGTCA
1 TGACAACTTCTGGTGTCAATTAAATTTACTAAAACAAAATTTTAATTTGACAACTTCTAGTGTCA
* * *
17421 ATTAAATTTACTAATGTAAAATTTTAATTTGACAACTTTTGGTGTCAATTAAAATTTA
66 ATTAAATTTACTAAAGTAAAATTTTAATTTGACAACTTCTAGTGTCAATTAAAATTTA
17479 CTAGAGCTCT
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
145 107 0.94
146 7 0.06
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (146 bp):
TGACAACTTCTGGTGTCAATTAAATTTACTAAAACAAAATTTTAATTTGACAACTTCTAGTGTCA
ATTAAATTTACTAAAGTAAAATTTTAATTTGACAACTTCTAGTGTCAATTAAAATTTATATATTA
AAGTAAAATTTTAATT
Found at i:17904 original size:2 final size:2
Alignment explanation
Indices: 17897--17926 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17887 CTAAATTTTC
*
17897 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17927 ACTTATTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:18604 original size:19 final size:19
Alignment explanation
Indices: 18580--18617 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18570 TATACATCAT
18580 GGACCTTAATACCAAACAA
1 GGACCTTAATACCAAACAA
18599 GGACCTTAATACCAAACAA
1 GGACCTTAATACCAAACAA
18618 AGGCTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
GGACCTTAATACCAAACAA
Found at i:22654 original size:17 final size:18
Alignment explanation
Indices: 22621--22666 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
22611 CAAAATTTGA
22621 CCCGAACCCGATAACCCG
1 CCCGAACCCGATAACCCG
*
22639 CCCGAACCTG-TAACCCG
1 CCCGAACCCGATAACCCG
22656 CCC-AACCCGAT
1 CCCGAACCCGAT
22667 TTGACTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.26, C:0.50, G:0.15, T:0.09
Consensus pattern (18 bp):
CCCGAACCCGATAACCCG
Found at i:22751 original size:16 final size:16
Alignment explanation
Indices: 22738--22813 Score: 107
Period size: 16 Copynumber: 4.8 Consensus size: 16
22728 CGCAACCCAG
22738 ATGACCCGAGACCCGA
1 ATGACCCGAGACCCGA
*
22754 ATGACCCGAAACCCGA
1 ATGACCCGAGACCCGA
*
22770 ATGACCCGAGACCCGT
1 ATGACCCGAGACCCGA
* *
22786 ATGACCTGAAACCCGA
1 ATGACCCGAGACCCGA
*
22802 ATAACCCGAGAC
1 ATGACCCGAGAC
22814 ATTAACCCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.36, G:0.21, T:0.09
Consensus pattern (16 bp):
ATGACCCGAGACCCGA
Found at i:22761 original size:32 final size:32
Alignment explanation
Indices: 22725--22813 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
22715 CGAACCCGTA
*
22725 ACCCGCAACCC-AGATGACCCGAGACCCGAATG
1 ACCCGAAACCCGA-ATGACCCGAGACCCGAATG
*
22757 ACCCGAAACCCGAATGACCCGAGACCCGTATG
1 ACCCGAAACCCGAATGACCCGAGACCCGAATG
* *
22789 ACCTGAAACCCGAATAACCCGAGAC
1 ACCCGAAACCCGAATGACCCGAGAC
22814 ATTAACCCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 51 0.98
33 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.20, T:0.08
Consensus pattern (32 bp):
ACCCGAAACCCGAATGACCCGAGACCCGAATG
Found at i:22964 original size:21 final size:21
Alignment explanation
Indices: 22918--22965 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22908 ATATAATTTA
*
22918 TATTATTGTAATAATTTTATC
1 TATTATTGTAATAATTTTACC
* * *
22939 AATTATTGTTATGATTTTACC
1 TATTATTGTAATAATTTTACC
22960 TATTAT
1 TATTAT
22966 AAATTGGCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (21 bp):
TATTATTGTAATAATTTTACC
Found at i:23423 original size:16 final size:16
Alignment explanation
Indices: 23404--23506 Score: 66
Period size: 16 Copynumber: 6.6 Consensus size: 16
23394 AGATCCGGTA
*
23404 GACCCGAGACCCGAAT
1 GACCCGAAACCCGAAT
** *
23420 GACCCGAAAATCGTAT
1 GACCCGAAACCCGAAT
* ** *
23436 AACATGAGACCCGAAT
1 GACCCGAAACCCGAAT
23452 GACCCGAAACCCGAAT
1 GACCCGAAACCCGAAT
* * *
23468 AACTCG-AACCCAAAT
1 GACCCGAAACCCGAAT
* *
23483 GACCCG-TATCCGAAT
1 GACCCGAAACCCGAAT
*
23498 GACCTGAAA
1 GACCCGAAA
23507 AAACTGCATG
Statistics
Matches: 61, Mismatches: 25, Indels: 2
0.69 0.28 0.02
Matches are distributed among these distances:
15 23 0.38
16 38 0.62
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (16 bp):
GACCCGAAACCCGAAT
Found at i:23470 original size:32 final size:32
Alignment explanation
Indices: 23408--23488 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
23398 CCGGTAGACC
* *
23408 CGAGACCCGAATGACCCGAAAATCGTATAACAT
1 CGAGACCCGAATGACCCGAAAACCGAATAAC-T
*
23441 -GAGACCCGAATGACCCGAAACCCGAATAACT
1 CGAGACCCGAATGACCCGAAAACCGAATAACT
*
23472 CGA-ACCCAAATGACCCG
1 CGAGACCCGAATGACCCG
23489 TATCCGAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 14 0.33
32 29 0.67
ACGTcount: A:0.38, C:0.32, G:0.19, T:0.11
Consensus pattern (32 bp):
CGAGACCCGAATGACCCGAAAACCGAATAACT
Found at i:30704 original size:16 final size:16
Alignment explanation
Indices: 30685--30774 Score: 103
Period size: 16 Copynumber: 5.6 Consensus size: 16
30675 GAACCCGCCC
*
30685 GACCTGAGACCCGAAT
1 GACCCGAGACCCGAAT
30701 GACCCGTA-ACCCTG-AT
1 GACCCG-AGACCC-GAAT
*
30717 GACCCGAAACCCGAAT
1 GACCCGAGACCCGAAT
*
30733 GACCCGAGACCCGTAT
1 GACCCGAGACCCGAAT
*
30749 GACCCGAAACCCGAAT
1 GACCCGAGACCCGAAT
*
30765 AACCCGAGAC
1 GACCCGAGAC
30775 ATTAACCCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
15 2 0.03
16 59 0.94
17 2 0.03
ACGTcount: A:0.32, C:0.37, G:0.21, T:0.10
Consensus pattern (16 bp):
GACCCGAGACCCGAAT
Found at i:30728 original size:48 final size:47
Alignment explanation
Indices: 30670--30760 Score: 119
Period size: 48 Copynumber: 1.9 Consensus size: 47
30660 AAAAGTAAAC
** * *
30670 GACCCGAACCCGCCCGACCTGAGACCCGAATGACCCGTAACCCTGAT
1 GACCCGAACCCGAACGACCCGAGACCCGAATGACCCGAAACCCTGAT
* *
30717 GACCCGAAACCCGAATGACCCGAGACCCGTATGACCCGAAACCC
1 GACCCG-AACCCGAACGACCCGAGACCCGAATGACCCGAAACCC
30761 GAATAACCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 6 0.16
48 31 0.84
ACGTcount: A:0.29, C:0.42, G:0.21, T:0.09
Consensus pattern (47 bp):
GACCCGAACCCGAACGACCCGAGACCCGAATGACCCGAAACCCTGAT
Found at i:30729 original size:32 final size:32
Alignment explanation
Indices: 30693--30774 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
30683 CCGACCTGAG
30693 ACCCGAATGACCCGTA-ACCC-TGATGACCCGAA
1 ACCCGAATGACCCG-AGACCCGT-ATGACCCGAA
30725 ACCCGAATGACCCGAGACCCGTATGACCCGAA
1 ACCCGAATGACCCGAGACCCGTATGACCCGAA
*
30757 ACCCGAATAACCCGAGAC
1 ACCCGAATGACCCGAGAC
30775 ATTAACCCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
31 1 0.02
32 45 0.96
33 1 0.02
ACGTcount: A:0.33, C:0.38, G:0.20, T:0.10
Consensus pattern (32 bp):
ACCCGAATGACCCGAGACCCGTATGACCCGAA
Found at i:30905 original size:21 final size:21
Alignment explanation
Indices: 30880--30926 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
30870 TACAATTTAT
30880 ATTATTGTTATAATTTTACCA
1 ATTATTGTTATAATTTTACCA
** *
30901 ATTATTGTTATGGTTTTACCT
1 ATTATTGTTATAATTTTACCA
30922 ATTAT
1 ATTAT
30927 AAATTGGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTATTGTTATAATTTTACCA
Found at i:31384 original size:7 final size:7
Alignment explanation
Indices: 31372--31432 Score: 50
Period size: 7 Copynumber: 7.9 Consensus size: 7
31362 AACCCGCCCA
31372 ACCCGAG
1 ACCCGAG
31379 ACCCGATAG
1 ACCCG--AG
31388 ACCCGAG
1 ACCCGAG
31395 ACCCGAATG
1 ACCCG-A-G
*
31404 ACCCGAA
1 ACCCGAG
31411 ACCCGTATG
1 ACCCG-A-G
*
31420 ATCCGAG
1 ACCCGAG
31427 ACCCGA
1 ACCCGA
31433 ATAACCCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 23 0.52
8 4 0.09
9 17 0.39
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (7 bp):
ACCCGAG
Found at i:31389 original size:9 final size:8
Alignment explanation
Indices: 31372--31473 Score: 56
Period size: 9 Copynumber: 12.9 Consensus size: 8
31362 AACCCGCCCA
31372 ACCCG-AG
1 ACCCGAAG
31379 ACCCGATAG
1 ACCCGA-AG
31388 ACCCG-AG
1 ACCCGAAG
31395 ACCCGAATG
1 ACCCGAA-G
31404 ACCCGAA-
1 ACCCGAAG
*
31411 ACCCGTATG
1 ACCCG-AAG
*
31420 ATCCG-AG
1 ACCCGAAG
*
31427 ACCCGAATA
1 ACCCGAA-G
31436 ACCC-AA-
1 ACCCGAAG
*
31442 ACCCAGATG
1 ACCC-GAAG
*
31451 ACCCGTA-
1 ACCCGAAG
31458 ACCCGAATG
1 ACCCGAA-G
31467 ACCCGAA
1 ACCCGAA
31474 AAAACTGCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
6 4 0.05
7 28 0.38
8 7 0.10
9 34 0.47
ACGTcount: A:0.34, C:0.37, G:0.20, T:0.09
Consensus pattern (8 bp):
ACCCGAAG
Found at i:31391 original size:16 final size:17
Alignment explanation
Indices: 31372--31472 Score: 92
Period size: 16 Copynumber: 6.4 Consensus size: 17
31362 AACCCGCCCA
31372 ACCCGAGACCCGATA-G
1 ACCCGAGACCCGATATG
31388 ACCCGAGACCCGA-ATG
1 ACCCGAGACCCGATATG
*
31404 ACCCGAAACCCG-TATG
1 ACCCGAGACCCGATATG
* *
31420 ATCCGAGACCCGA-ATA
1 ACCCGAGACCCGATATG
* *
31436 ACCC-AAACCC-AGATG
1 ACCCGAGACCCGATATG
31451 ACCCGTA-ACCCGA-ATG
1 ACCCG-AGACCCGATATG
31467 ACCCGA
1 ACCCGA
31473 AAAAACTGCA
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.01
15 13 0.18
16 55 0.77
17 2 0.03
ACGTcount: A:0.34, C:0.38, G:0.20, T:0.09
Consensus pattern (17 bp):
ACCCGAGACCCGATATG
Found at i:31462 original size:31 final size:31
Alignment explanation
Indices: 31372--31474 Score: 129
Period size: 32 Copynumber: 3.3 Consensus size: 31
31362 AACCCGCCCA
*
31372 ACCCGAGACCCGATAGACCCGAGACCCGAATG
1 ACCCGAAACCCGAT-GACCCGAGACCCGAATG
* *
31404 ACCCGAAACCCGTATGATCCGAGACCCGAATA
1 ACCCGAAACCCG-ATGACCCGAGACCCGAATG
31436 ACCC-AAACCCAGATGACCCGTA-ACCCGAATG
1 ACCCGAAACCC-GATGACCCG-AGACCCGAATG
31467 ACCCGAAA
1 ACCCGAAA
31475 AAACTGCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
31 25 0.40
32 35 0.56
33 2 0.03
ACGTcount: A:0.35, C:0.37, G:0.19, T:0.09
Consensus pattern (31 bp):
ACCCGAAACCCGATGACCCGAGACCCGAATG
Found at i:34622 original size:52 final size:52
Alignment explanation
Indices: 34526--34641 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
34516 GTTTCTGAGT
* *
34526 GGATCGTCTTCCGATCAGCTTCTTCAAACCGTCTTCCGAGTCAATCAT-AAA
1 GGATCGTCTTCCGATCAACTTCTTCAAACCGTCTTCCAAGTCAATCATAAAA
** * * *
34577 GGATCGTCTTCCGAATCAACTTCTTCAAATTGTGTTCCAATTCAATCTTAAAA
1 GGATCGTCTTCCG-ATCAACTTCTTCAAACCGTCTTCCAAGTCAATCATAAAA
*
34630 GGACCGTCTTCC
1 GGATCGTCTTCC
34642 ATTTATCCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 13 0.24
52 28 0.51
53 14 0.25
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (52 bp):
GGATCGTCTTCCGATCAACTTCTTCAAACCGTCTTCCAAGTCAATCATAAAA
Found at i:34641 original size:27 final size:27
Alignment explanation
Indices: 34611--34691 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
34601 TCAAATTGTG
*
34611 TTCCAATTCAATCTTAAAAGGACCGTC
1 TTCCAATTCAATCTTAAAAGGACTGTC
* *
34638 TTCC-ATT-TATCCTT---AGAACTGTC
1 TTCCAATTCAAT-CTTAAAAGGACTGTC
*
34661 TTCCAATTCCATCTTAAAAGGACTGTC
1 TTCCAATTCAATCTTAAAAGGACTGTC
34688 TTCC
1 TTCC
34692 GCTTATCCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 11 0.26
24 6 0.14
25 4 0.09
26 6 0.14
27 16 0.37
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (27 bp):
TTCCAATTCAATCTTAAAAGGACTGTC
Found at i:34675 original size:50 final size:50
Alignment explanation
Indices: 34611--34843 Score: 369
Period size: 50 Copynumber: 4.7 Consensus size: 50
34601 TCAAATTGTG
* ** *
34611 TTCCAATTCAATCTTAAAAGGACCGTCTTCCATTTATCCTTAGAACTGTC
1 TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAACTGTC
* *
34661 TTCCAATTCCATCTTAAAAGGACTGTCTTCCGCTTATCCTTCGAACTATC
1 TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAACTGTC
* *
34711 TTTCAATT-CATCTTAAAAGGATCGTCTTCCGCTTATCCTTCGAACTGTC
1 TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAACTGTC
*
34760 TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAACTGTC
1 TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAACTGTC
*
34810 TTCCAATTCCATCTTAAAAGGAACGTCTTCCGCT
1 TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCT
34844 CTGTCTTCCA
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 45 0.27
50 123 0.73
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.36
Consensus pattern (50 bp):
TTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAACTGTC
Found at i:34787 original size:27 final size:27
Alignment explanation
Indices: 34757--34840 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
34747 CCTTCGAACT
34757 GTCTTCCAATTCCATCTTAAAAGGACC
1 GTCTTCCAATTCCATCTTAAAAGGACC
** * * *
34784 GTCTTCCGCTT--ATCCTT---TGAACT
1 GTCTTCCAATTCCAT-CTTAAAAGGACC
*
34807 GTCTTCCAATTCCATCTTAAAAGGAAC
1 GTCTTCCAATTCCATCTTAAAAGGACC
34834 GTCTTCC
1 GTCTTCC
34841 GCTCTGTCTT
Statistics
Matches: 40, Mismatches: 11, Indels: 12
0.63 0.17 0.19
Matches are distributed among these distances:
23 12 0.30
24 3 0.08
25 4 0.10
26 3 0.08
27 18 0.45
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.35
Consensus pattern (27 bp):
GTCTTCCAATTCCATCTTAAAAGGACC
Found at i:34919 original size:50 final size:50
Alignment explanation
Indices: 34844--35311 Score: 652
Period size: 50 Copynumber: 9.3 Consensus size: 50
34834 GTCTTCCGCT
** * ** *
34844 CTGTCTTCCAATTTGATCTTAAAAGGAACGTCTTCAACTTATCCTTTGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
*
34894 CTGTCTTCCAATTCCATCTTAAAAGGATCGTCTTCCGCTTATCCTTCGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
*
34944 CTATCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
* *
34994 CTGTCTTTCAATTCCATCTTAAAAGGATCGTCTTCCGCTTATCCTTCGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
* * *
35044 TTGCCTTCCAATTCCACCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
35094 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
** ** * ** * *
35144 CTACCTTCCAATTTGATCATAAAAGGACCACCTTCCGCTTATCTTTCGAT
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
*
35194 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAA
1 CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
* * *
35244 TTGTCTTCCAATTCCATTCTTTAGAAA--ATCGTCTTCCGCTTATCCTTTGAA
1 CTGTCTTCCAATTCCA-TC-TTA-AAAGGACCGTCTTCCGCTTATCCTTCGAA
*
35295 TTGTCTTCCAATTCCAT
1 CTGTCTTCCAATTCCAT
35312 TCTTTAGAAA
Statistics
Matches: 375, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
50 328 0.87
51 41 0.11
52 3 0.01
53 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (50 bp):
CTGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTCGAA
Found at i:35078 original size:27 final size:27
Alignment explanation
Indices: 35048--35129 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
35038 TTCGAATTGC
35048 CTTCCAATTCCACCTTAAAAGGACCGT
1 CTTCCAATTCCACCTTAAAAGGACCGT
** * * *
35075 CTTCCGCTT--ATCCTT---CGAACTGT
1 CTTCCAATTCCA-CCTTAAAAGGACCGT
*
35098 CTTCCAATTCCATCTTAAAAGGACCGT
1 CTTCCAATTCCACCTTAAAAGGACCGT
35125 CTTCC
1 CTTCC
35130 GCTTATCCTT
Statistics
Matches: 38, Mismatches: 11, Indels: 12
0.62 0.18 0.20
Matches are distributed among these distances:
23 12 0.32
24 3 0.08
25 2 0.05
26 4 0.11
27 17 0.45
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.32
Consensus pattern (27 bp):
CTTCCAATTCCACCTTAAAAGGACCGT
Found at i:35249 original size:23 final size:23
Alignment explanation
Indices: 35223--35303 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 23
35213 TAAAAGGACC
35223 GTCTTCCGCTTATCCTTTGAATT
1 GTCTTCCGCTTATCCTTTGAATT
** * *
35246 GTCTTCCAATTCCATTCTTTAGAAAATC
1 GTCTTCCGCTT--ATCCTTT-G--AATT
35274 GTCTTCCGCTTATCCTTTGAATT
1 GTCTTCCGCTTATCCTTTGAATT
35297 GTCTTCC
1 GTCTTCC
35304 AATTCCATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
23 19 0.42
25 7 0.16
26 7 0.16
28 12 0.27
ACGTcount: A:0.17, C:0.27, G:0.11, T:0.44
Consensus pattern (23 bp):
GTCTTCCGCTTATCCTTTGAATT
Found at i:35278 original size:28 final size:28
Alignment explanation
Indices: 35246--35331 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
35236 CCTTTGAATT
35246 GTCTTCCAATTCCATTCTTTAGAAAATC
1 GTCTTCCAATTCCATTCTTTAGAAAATC
** * *
35274 GTCTTCCGCTT--ATCCTTT-G--AATT
1 GTCTTCCAATTCCATTCTTTAGAAAATC
35297 GTCTTCCAATTCCATTCTTTAGAAAATC
1 GTCTTCCAATTCCATTCTTTAGAAAATC
35325 GTCTTCC
1 GTCTTCC
35332 GATTGACTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
23 12 0.27
25 7 0.16
26 7 0.16
28 19 0.42
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.42
Consensus pattern (28 bp):
GTCTTCCAATTCCATTCTTTAGAAAATC
Found at i:35660 original size:64 final size:64
Alignment explanation
Indices: 35468--36410 Score: 1360
Period size: 64 Copynumber: 14.8 Consensus size: 64
35458 CAATATCATA
* * * * *
35468 TTCCGATCAACTTCCG-AAAC-CTTGATAAATCATCTTAT-GTGAACTTCTTGACAAGATCGTT
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * * * * * *
35529 TTCCGATAAATTTCTGAAAACTCTTTATAAATCATCTTAT-ATGAACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * *
35592 TTCCGATCAACTTCTGAAAACTTTTGCTAAGCCATCTTCTGGTGTACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* *
35656 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTCCTTGATAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * * * * *
35720 TTCCGATCGACTTCTGAAAACTTTTGATAAGCCATTTTCTGGCGTACTCCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* *
35784 TTCCAATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGAACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* *
35848 TTCCGATCAA---CTGAAAACTCTTGATAAACCATCTTCTAGTGAACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * *
35909 TTCCGATCAACTTCTGAAAACTCTTGATAAGCCATATGCTGGTGTACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * *
35973 TTCCGATTAACTTCTGAAAACTCTTGATAAGCCATCTTCTGGTGTACTACTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * * * *
36037 TTCCGATCGAGTTTTAAAAACTCTTGATAAACCATCTTCTGGTGTACTCCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * * * * *
36101 TTCCGATCGACTTCTGAAAACTTTTGATAAGCCATTTTCTGGCGTACTCCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* * * *
36165 TTCCAATCAACTTCTAAAAACTCTTGATAAACCATCTTCTAGTGAACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
*
36229 TTCCGATCAACTTCTGAAAACTCTTGATAAGCCATCTTCTGGTGTACTTCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* *
36293 TTCCGATCCACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTCCTTGACAAGATCGTC
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
* *
36357 TTCCAATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTCCTTGA
1 TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGA
36411 AATTTTCTAA
Statistics
Matches: 796, Mismatches: 80, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
61 73 0.09
62 4 0.01
63 70 0.09
64 649 0.82
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (64 bp):
TTCCGATCAACTTCTGAAAACTCTTGATAAACCATCTTCTGGTGTACTTCTTGACAAGATCGTC
Found at i:35910 original size:28 final size:28
Alignment explanation
Indices: 35818--35911 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
35808 TGATAAACCA
*
35818 TCTTCTGGTGAACTTCTTGACAAGATCG
1 TCTTCTAGTGAACTTCTTGACAAGATCG
* * * *
35846 TCTTCCGATCAACTGAAAAC-TCTTGATAA-ACCA
1 TCTT-C--T--AGTG--AACTTCTTGACAAGATCG
35879 TCTTCTAGTGAACTTCTTGACAAGATCG
1 TCTTCTAGTGAACTTCTTGACAAGATCG
35907 TCTTC
1 TCTTC
35912 CGATCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 18
0.64 0.12 0.24
Matches are distributed among these distances:
26 3 0.06
27 8 0.17
28 14 0.29
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 8 0.17
34 8 0.17
35 3 0.06
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (28 bp):
TCTTCTAGTGAACTTCTTGACAAGATCG
Done.