Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007510.1 Hibiscus syriacus cultivar Beakdansim tig00020879_pilon, 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: 108031
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:5044 original size:24 final size:24
Alignment explanation
Indices: 5012--5069 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
5002 TGAGGAGAAT
5012 AAGAAGAAGATGAAAATGGAAGAG
1 AAGAAGAAGATGAAAATGGAAGAG
5036 AAGAAGAAGATGAAAATGGAAGAG
1 AAGAAGAAGATGAAAATGGAAGAG
5060 AAGAAGAAGA
1 AAGAAGAAGA
5070 AGAATAGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (24 bp):
AAGAAGAAGATGAAAATGGAAGAG
Found at i:6582 original size:2 final size:2
Alignment explanation
Indices: 6570--6613 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
6560 ATGTAAATTT
6570 TA TA TA T- TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6610 TA TA
1 TA TA
6614 GCATCCTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7199 original size:26 final size:26
Alignment explanation
Indices: 7163--7648 Score: 282
Period size: 26 Copynumber: 21.0 Consensus size: 26
7153 ATGCCTTAAT
*
7163 GCATCATTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
7189 GCATCTTTTCATGCATTTTATTT-TG
1 GCATCCTTTCATGCATTTTATTTATG
*
7214 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
* * *
7234 GCAT-CATTCATTCATTTTATTTACG
1 GCATCCTTTCATGCATTTTATTTATG
*
7259 GCATCCTTTCATGCATTTTATTTGTG
1 GCATCCTTTCATGCATTTTATTTATG
* * *
7285 GCATCCTGTCACGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
*
7305 GCATCCTTTCATGCATTTGATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
7331 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
*
7351 GCATCCTTTCTTGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
7377 GCACCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
*
7397 GCATTCTTTCATGCA-TTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
7422 ACATCCTTTCATG--TCTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
7442 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
7468 GCATCCTTTCATGC--CTTA---A-A
1 GCATCCTTTCATGCATTTTATTTATG
* * *
7488 GCATCC-TTCATTCTTTTTATTTATA
1 GCATCCTTTCATGCATTTTATTTATG
7513 GCATCCTTTCATGC---TTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
* * *
7532 GCATACATTCATGTATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
7558 GCATCCTTTCAT---TCTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
* *
7577 GCATCATTTCATGCATTTTATTTGTG
1 GCATCCTTTCATGCATTTTATTTATG
*
7603 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
7623 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
7649 TATCCCGTTA
Statistics
Matches: 349, Mismatches: 52, Indels: 118
0.67 0.10 0.23
Matches are distributed among these distances:
19 35 0.10
20 77 0.22
21 19 0.05
22 19 0.05
23 10 0.03
24 21 0.06
25 48 0.14
26 120 0.34
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTATTTATG
Found at i:7204 original size:38 final size:41
Alignment explanation
Indices: 7107--7192 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 41
7097 ATTTCATTTT
* * * *
7107 ATTCATGCATAATGCACCCTTTCATGCATTTTATTTATGGC
1 ATTCATCCTTAATGCATCATTTCATGCATTTTATTTATGGC
7148 ATTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGC
1 A-TTCAT-CCTTAATGCATCATTTCATGCATTTTATTTATGGC
7191 AT
1 AT
7193 CTTTTCATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 1 0.03
42 6 0.15
43 32 0.82
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (41 bp):
ATTCATCCTTAATGCATCATTTCATGCATTTTATTTATGGC
Found at i:7229 original size:71 final size:72
Alignment explanation
Indices: 7124--7616 Score: 404
Period size: 71 Copynumber: 7.1 Consensus size: 72
7114 CATAATGCAC
*
7124 CCTTTCATGCATTTTATTTATGGCA---TTTCATGCCTTAATGCATCATTTCATGCATTTTATTT
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
7186 ATGGCAT
66 ATGGCAT
* * *
7193 CTTTTCATGCATTTTATTT-TGGCATCCTTTCATGCCTTAATGCAT-CATTCATTCATTTTATTT
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
*
7256 ACGGCAT
66 ATGGCAT
* * * *
7263 CCTTTCATGCATTTTATTTGTGGCATCCTGTCACGCCTTAATGCATCCTTTCATGCATTTGATTT
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
7328 ATGGCAT
66 ATGGCAT
* * * * *
7335 CCTTTCATGC--CTTA---AT-GCATCCTTTCTTGCATTTTATTTATGGCACCCTTTCATGC--C
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCATT
7392 TTA---AT-GCAT
60 TTATTTATGGCAT
* * *
7401 TCTTTCATGCA-TTTATTTATGACATCCTTTCATGTCTTAATGCATCCTTTCATGCATTTTATTT
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
7465 ATGGCAT
66 ATGGCAT
* * * *
7472 CCTTTCATGC--CTTA---A-AGCATCC-TTCATTCTTTTTATTTATAGCATCCTTTCATGC---
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCATT
7527 TTA---AT-GCAT
60 TTATTTATGGCAT
* * * * *
7536 ACATTCATGTATTTTATTTATGGCATCCTTTCAT-TCTTAATGCATCATTTCATGCATTTTATTT
1 CCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
*
7600 GTGGCAT
66 ATGGCAT
7607 CCTTTCATGC
1 CCTTTCATGC
7617 CTTAATGCAT
Statistics
Matches: 334, Mismatches: 48, Indels: 82
0.72 0.10 0.18
Matches are distributed among these distances:
64 24 0.07
65 22 0.07
66 34 0.10
67 16 0.05
68 14 0.04
69 22 0.07
70 60 0.18
71 98 0.29
72 44 0.13
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (72 bp):
CCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
ATGGCAT
Found at i:7427 original size:117 final size:114
Alignment explanation
Indices: 7108--7434 Score: 341
Period size: 117 Copynumber: 2.8 Consensus size: 114
7098 TTTCATTTTA
* * *
7108 TTCATG-CATAATGCACCCTTTCATGCATTTTATTTATGGCA--TTTCATGCCTTAATGCA-TCA
1 TTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATGGCACCTTTCATGCCTTAATGCATTC-
* *
7169 TTTCATGCATTTTATTTATGGCATCTTTTCATGCATTTTATTTTGGCATCCT
65 TTTCATGCA-TTTATTTAT-GCATCCTTTCATGCATTTGATTTTGGCATCCT
* * * *
7221 TTCATGCCTTAATGCAT-CATTCATT-CATTTTATTTACGGCATCCTTTCATGCATTTTATTTGT
1 TTCATGCCTTAATGCATCCTTTC-TTGCATTTTATTTATGGCA-CCTTTCATGC--CTTA---AT
* * * *
7284 GGCATCCTGTCACGC-CTTA---ATGCATCCTTTCATGCATTTGATTTATGGCATCCT
59 -GCATTCTTTCATGCATTTATTTATGCATCCTTTCATGCATTTGATTT-TGGCATCCT
7338 TTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATGGCACCCTTTCATGCCTTAATGCATTC
1 TTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATGGCA-CCTTTCATGCCTTAATGCATTC
7403 TTTCATGCATTTATTTATGACATCCTTTCATG
65 TTTCATGCATTTATTTATG-CATCCTTTCATG
7435 TCTTAATGCA
Statistics
Matches: 172, Mismatches: 22, Indels: 36
0.75 0.10 0.16
Matches are distributed among these distances:
112 11 0.06
113 29 0.17
114 9 0.05
116 35 0.20
117 42 0.24
118 32 0.19
120 3 0.02
121 1 0.01
122 9 0.05
123 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.46
Consensus pattern (114 bp):
TTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATGGCACCTTTCATGCCTTAATGCATTCT
TTCATGCATTTATTTATGCATCCTTTCATGCATTTGATTTTGGCATCCT
Found at i:7431 original size:45 final size:46
Alignment explanation
Indices: 7108--7648 Score: 618
Period size: 46 Copynumber: 11.8 Consensus size: 46
7098 TTTCATTTTA
* *
7108 TTCATG-CATAATGCACCCTTTCATGCATTTTATTTATGGCA---T
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* *
7150 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCTT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* * * * ** * *
7196 TTCATGCATTTTATTTTGGCATCCTTTCATGC-CTTAATGCAT--CATTCA
1 TTCATGC--CTTA--AT-GCATCCTTTCATGCATTTTATTTATGGCATCCT
*** ** *
7244 TTCATTTTATTTACGGCATCCTTTCATGCATTTTATTTGTGGCATCCT
1 TTCA--TGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* * *
7292 GTCACGCCTTAATGCATCCTTTCATGCATTTGATTTATGGCATCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* *
7338 TTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATGGCACCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* *
7384 TTCATGCCTTAATGCATTCTTTCATGCA-TTTATTTATGACATCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
*
7429 TTCATGTCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* * * *
7475 TTCATGCCTTAAAGCATCC-TTCATTCTTTTTATTTATAGCATCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* * *
7520 TTCATG-CTTAATGCATACATTCATGTATTTTATTTATGGCATCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
* * *
7565 TTCAT-TCTTAATGCATCATTTCATGCATTTTATTTGTGGCATCCT
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
7610 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
7649 TATCCCGTTA
Statistics
Matches: 417, Mismatches: 64, Indels: 32
0.81 0.12 0.06
Matches are distributed among these distances:
42 6 0.01
43 32 0.08
44 10 0.02
45 150 0.36
46 177 0.42
48 21 0.05
50 8 0.02
51 13 0.03
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (46 bp):
TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
Found at i:7459 original size:91 final size:90
Alignment explanation
Indices: 7108--7648 Score: 553
Period size: 91 Copynumber: 5.9 Consensus size: 90
7098 TTTCATTTTA
* * * *
7108 TTCATG-CATAATGCACCCTTTCATGCATTTTATTTATGGCA---TTTCATGCCTTAATGCATCA
1 TTCATGCCTTAATGCA-TCTTTCATGCA-TTTATTTATGACATCCTTTCATGCCTTAATGCATCC
*
7169 TTTCATGCATTTTATTTATGGCATCTT
64 TTTCATGCATTTTATTTATGGCATCCT
* * * * ** * * * *
7196 TTCATGCATTTTATTTTGGCATCCTTTCATGCCTTAATGCATCATTCATTCATTTTAT---TTAC
1 TTCATGC--CTTA--AT-GCAT-CTTTCATGCATTTATTTATGA--CA-TCCTTTCATGCCTTAA
* *
7258 GGCATCCTTTCATGCATTTTATTTGTGGCATCCT
57 TGCATCCTTTCATGCATTTTATTTATGGCATCCT
* * *
7292 GTCACGCCTTAATGCATCCTTTCATGCATTTGATTTATGGCATCCTTTCATGCCTTAATGCATCC
1 TTCATGCCTTAATGCAT-CTTTCATGCATTT-ATTTATGACATCCTTTCATGCCTTAATGCATCC
* *
7357 TTTCTTGCATTTTATTTATGGCACCCT
64 TTTCATGCATTTTATTTATGGCATCCT
*
7384 TTCATGCCTTAATGCATTCTTTCATGCATTTATTTATGACATCCTTTCATGTCTTAATGCATCCT
1 TTCATGCCTTAATGCA-TCTTTCATGCATTTATTTATGACATCCTTTCATGCCTTAATGCATCCT
7449 TTCATGCATTTTATTTATGGCATCCT
65 TTCATGCATTTTATTTATGGCATCCT
* * * * *
7475 TTCATGCCTTAAAGCATCCTTCATTCTTTTTATTTAT-AGCATCCTTTCATG-CTTAATGCATAC
1 TTCATGCCTTAATGCATCTTTCATGC-ATTTATTTATGA-CATCCTTTCATGCCTTAATGCATCC
* *
7538 ATTCATGTATTTTATTTATGGCATCCT
64 TTTCATGCATTTTATTTATGGCATCCT
* * *
7565 TTCAT-TCTTAATGCATCATTTCATGCATTTTATTTGTGGCATCCTTTCATGCCTTAATGCATCC
1 TTCATGCCTTAATGCATC-TTTCATGCA-TTTATTTATGACATCCTTTCATGCCTTAATGCATCC
7629 TTTCATGCATTTTATTTATG
64 TTTCATGCATTTTATTTATG
7649 TATCCCGTTA
Statistics
Matches: 373, Mismatches: 56, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
88 6 0.02
89 17 0.05
90 78 0.21
91 139 0.37
92 65 0.17
93 8 0.02
94 15 0.04
95 2 0.01
96 38 0.10
99 5 0.01
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (90 bp):
TTCATGCCTTAATGCATCTTTCATGCATTTATTTATGACATCCTTTCATGCCTTAATGCATCCTT
TCATGCATTTTATTTATGGCATCCT
Found at i:10296 original size:2 final size:2
Alignment explanation
Indices: 10289--10332 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10279 ACCATAAAAG
10289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10331 AT
1 AT
10333 CTGATATCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12595 original size:46 final size:46
Alignment explanation
Indices: 12526--13172 Score: 899
Period size: 46 Copynumber: 14.2 Consensus size: 46
12516 TTTCATTTTA
* * *
12526 TTCATGCATTAATGCATCCTTTCATGCATTTTATTTATGTCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* *
12572 TTTATGCCTTAATGCATCATTTCATGCATTTTATTTATGTCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
*
12618 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTGTGGCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* * * *
12664 TTCATGTCTTAATGCATCCTTTCATGCATTTTATTTATAGAATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* * * *
12710 TTTATGACTTAATGCATCCTTTCATGCATTTTACTTATGGCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
** * *
12756 TTCATGCCTTAATTTATC-CTTCATGCACTTTATTTATGGCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* * * *
12801 TTTATGCCTAAATGCATTC-TTTCATACATTTTAATTATGGCATCCT
1 TTCATGCCTTAATGCA-TCATTTCATGCATTTTATTTATGGCATCCT
** * * * *
12847 TTCATGTATTAATGCATCCTTTTATGCATTTGATTTATGGAATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* *
12893 TTCATGCCTTAATGCATCATGTCATGCATTTTATTTATGGTATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
*
12939 TTCATGCCTTAATGCATCATTTCATGCA-TTTATTTATGACATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* *
12984 TTCATGCCTTAATGCATCCTTTCATG-ATTTTATTTATGGCATTCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
*
13029 TTCATGCCTTAATGCATCATTTCATGTATTTTATTTATGGCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* *
13075 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATGCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
* * *
13121 TTCATTCCTTAATGTATCATTTCATGCA-TTTATTTATGTCATCCT
1 TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
13166 TTCATGC
1 TTCATGC
13173 ATTTTATTTA
Statistics
Matches: 533, Mismatches: 64, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
44 1 0.00
45 139 0.26
46 393 0.74
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (46 bp):
TTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCT
Found at i:12780 original size:19 final size:21
Alignment explanation
Indices: 12751--12792 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
12741 TACTTATGGC
12751 ATCCTTTCATGC-CTTAATTT
1 ATCCTTTCATGCACTTAATTT
*
12771 ATCC-TTCATGCACTTTATTT
1 ATCCTTTCATGCACTTAATTT
12791 AT
1 AT
12793 GGCATCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (21 bp):
ATCCTTTCATGCACTTAATTT
Found at i:12859 original size:137 final size:138
Alignment explanation
Indices: 12526--13172 Score: 933
Period size: 137 Copynumber: 4.7 Consensus size: 138
12516 TTTCATTTTA
* * * *
12526 TTCATGCATTAATGCATCCTTTCATGCATTTTATTTATGTCATCCTTTTATGCCTTAATGCATCA
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCC
* *
12591 TTTCATGCATTTTATTTATGTCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTGT
66 TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTAT
12656 GGCATCCT
131 GGCATCCT
* * * * *
12664 TTCATGTCTTAATGCATCCTTTCATGCATTTTATTTATAGAATCCTTTTATGACTTAATGCATCC
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCC
* ** * *
12729 TTTCATGCATTTTACTTATGGCATCCTTTCATGCCTTAATTTATC-CTTCATGCACTTTATTTAT
66 TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTAT
12793 GGCATCCT
131 GGCATCCT
* * * * * **
12801 TTTATGCCTAAATGCATTCTTTCATACATTTTAATTATGGCATCCTTTCATGTATTAATGCATCC
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCC
* * * *
12866 TTTTATGCATTTGATTTATGGAATCCTTTCATGCCTTAATGCATCATGTCATGCATTTTATTTAT
66 TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTAT
*
12931 GGTATCCT
131 GGCATCCT
* *
12939 TTCATGCCTTAATGCATCATTTCATGCA-TTTATTTATGACATCCTTTCATGCCTTAATGCATCC
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCC
* *
13003 TTTCATG-ATTTTATTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGTATTTTATTTAT
66 TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTAT
13067 GGCATCCT
131 GGCATCCT
* * * *
13075 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATGCTTTCATTCCTTAATGTATCA
1 TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCC
*
13140 TTTCATGCA-TTTATTTATGTCATCCTTTCATGC
66 TTTCATGCATTTTATTTATGGCATCCTTTCATGC
13173 ATTTTATTTA
Statistics
Matches: 447, Mismatches: 59, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
136 86 0.19
137 215 0.48
138 146 0.33
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (138 bp):
TTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCC
TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTAT
GGCATCCT
Found at i:13071 original size:26 final size:26
Alignment explanation
Indices: 12814--13184 Score: 193
Period size: 20 Copynumber: 16.0 Consensus size: 26
12804 ATGCCTAAAT
* * *
12814 GCATTCTTTCATACATTTTAATTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
12840 GCATCCTTTCATG-----TATTAAT-
1 GCATCCTTTCATGCATTTTATTTATG
* *
12860 GCATCCTTTTATGCATTTGATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
12886 GAATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
* *
12906 GCATCATGTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
12932 GTATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
*
12952 GCATCATTTCATGCA-TTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
12977 ACATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
12997 GCATCCTTTCATG-ATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* *
13022 GCATTCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
* *
13042 GCATCATTTCATGTATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
13068 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
13088 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* * *
13114 GCATGCTTTCATTC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
* *
13134 GTATCATTTCATGCA-TTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
13159 TCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
13185 TATTCAGTTT
Statistics
Matches: 255, Mismatches: 48, Indels: 84
0.66 0.12 0.22
Matches are distributed among these distances:
20 82 0.32
21 26 0.10
22 9 0.04
24 23 0.09
25 47 0.18
26 68 0.27
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTATTTATG
Found at i:13185 original size:26 final size:24
Alignment explanation
Indices: 13132--13187 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
13122 TCATTCCTTA
13132 ATGTATCATTTCATGCATTTATTT
1 ATGTATCATTTCATGCATTTATTT
*
13156 ATGTCATCCTTTCATGCATTTTATTT
1 ATGT-ATCATTTCATGCA-TTTATTT
13182 ATGTAT
1 ATGTAT
13188 TCAGTTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.48
26 11 0.38
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (24 bp):
ATGTATCATTTCATGCATTTATTT
Found at i:15410 original size:20 final size:21
Alignment explanation
Indices: 15365--15415 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
15355 AGAGGATCAA
15365 TATCGATACTGATTAAAGGAGG
1 TATCGATACTGA-TAAAGGAGG
* *
15387 TATCGATACTGA-AATGGGGG
1 TATCGATACTGATAAAGGAGG
15407 TATCGATAC
1 TATCGATAC
15416 CAAGGGTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 15 0.56
22 12 0.44
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (21 bp):
TATCGATACTGATAAAGGAGG
Found at i:16108 original size:23 final size:23
Alignment explanation
Indices: 16078--16162 Score: 111
Period size: 23 Copynumber: 3.8 Consensus size: 23
16068 TTTAGTCCTC
*
16078 CGGGACAAAATTATGTGGTCATT
1 CGGGACAAAACTATGTGGTCATT
*
16101 CGGGACAAAACTATGTGGTCCTT
1 CGGGACAAAACTATGTGGTCATT
* *
16124 TGGGACAAACCTATGTGGTCATT
1 CGGGACAAAACTATGTGGTCATT
*
16147 TGGGAC-AAA-TATGTGG
1 CGGGACAAAACTATGTGG
16163 CACTTTGGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 7 0.12
22 2 0.04
23 47 0.84
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (23 bp):
CGGGACAAAACTATGTGGTCATT
Found at i:16139 original size:46 final size:44
Alignment explanation
Indices: 16079--16170 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
16069 TTAGTCCTCC
*
16079 GGGACAAAATTATGTGGTCATTCGGGACAAAACTATGTGGTC-CTTT
1 GGGACAAAACTATGTGGTCATTCGGGAC-AAA-TATGTGG-CACTTT
* *
16125 GGGACAAACCTATGTGGTCATTTGGGACAAATATGTGGCACTTT
1 GGGACAAAACTATGTGGTCATTCGGGACAAATATGTGGCACTTT
16169 GG
1 GG
16171 TGCATATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 13 0.31
45 3 0.07
46 25 0.60
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (44 bp):
GGGACAAAACTATGTGGTCATTCGGGACAAATATGTGGCACTTT
Found at i:32572 original size:23 final size:22
Alignment explanation
Indices: 32508--32582 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
32498 GTCGAGGGTT
*
32508 CTATGTGGTCATTCGGGAAAAAA
1 CTATGTGGTCATTCGGG-ACAAA
* * *
32531 CTATGTGGTCCTCCAGGACAAA
1 CTATGTGGTCATTCGGGACAAA
*
32553 CCTATGTGGTCATTTGGGACAAA
1 -CTATGTGGTCATTCGGGACAAA
32576 -TATGTGG
1 CTATGTGG
32583 CACTTCAGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 7 0.16
22 4 0.09
23 32 0.74
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (22 bp):
CTATGTGGTCATTCGGGACAAA
Found at i:33588 original size:13 final size:13
Alignment explanation
Indices: 33570--33595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33560 GTATGGTCGT
33570 ACGTCGACCCTCA
1 ACGTCGACCCTCA
33583 ACGTCGACCCTCA
1 ACGTCGACCCTCA
33596 GCATCATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (13 bp):
ACGTCGACCCTCA
Found at i:35678 original size:82 final size:82
Alignment explanation
Indices: 35551--35842 Score: 390
Period size: 82 Copynumber: 3.6 Consensus size: 82
35541 ATTCATGTCA
* *
35551 TTTGCTTGTCATTGACATTTCACATCAACTCAGATAAATTGAAATATTTTAGAGAATTAGGGAAT
1 TTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAAT
*
35616 ATACAATATTCTCGTCC
66 ATACACTATTCTCGTCC
* * * *
35633 TTTGCTTATCATTGACATTTCACATCAAATTAGATAAACTAAAATATTTTAGAGAATCAGGGAAT
1 TTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAAT
* *
35698 CTACACTATTCACGTCC
66 ATACACTATTCTCGTCC
* *
35715 TTTGCTTGTCGTTAACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAAT
1 TTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAAT
* *
35780 ATACACTTTTCAT-GTCA
66 ATACACTATTC-TCGTCC
* * * * *
35797 TTTTCTCT-TTATTGACATTTCACACCAACTTAAATAAACTGAAATA
1 TTTGCT-TGTCATTGACATTTCACATCAACTCAGATAAACTGAAATA
35843 AATTCTATTG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
82 181 0.99
83 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (82 bp):
TTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAAT
ATACACTATTCTCGTCC
Found at i:35813 original size:164 final size:167
Alignment explanation
Indices: 35531--35884 Score: 468
Period size: 164 Copynumber: 2.1 Consensus size: 167
35521 ACTTGTAGAC
* * * * *
35531 AATCTACTCTATTCATGTCATTTGCTTGTCATTGACATTTCACATCAACTCAGATAAATTGAAAT
1 AATCTACACTATTCACGTCCTTTGCTTGTCATTAACATTTCACATCAACTCAGATAAACTGAAAT
* * *
35596 ATTTTAGAGAATTAGGGAATATACAATATTCTCGTCCTTTGCTTATCATTGACATTTCACATCAA
66 ATTTTAGAGAATCAGGGAATATACAATATTCTCGTCATTTGCTTATCATTGACATTTCACACCAA
* * * *
35661 ATTAGATAAACT-AAA-ATATT-T-TAGAGAATCAGGG
131 ATTAAATAAACTGAAATAAATTCTATAGA-AATAAGAG
*
35695 AATCTACACTATTCACGTCCTTTGCTTGTCGTTAACATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACGTCCTTTGCTTGTCATTAACATTTCACATCAACTCAGATAAACTGAAAT
* * * *
35760 ATTTTAGAGAATCAGGGAATATACACTTTTCAT-GTCATTTTCTCT-TTATTGACATTTCACACC
66 ATTTTAGAGAATCAGGGAATATACAATATTC-TCGTCATTTGCT-TATCATTGACATTTCACACC
* *
35823 AACTTAAATAAACTGAAATAAATTCTATTGAAATAAGAG
129 AAATTAAATAAACTGAAATAAATTCTATAGAAATAAGAG
35862 AATCTACACTATTCACGTCCTTT
1 AATCTACACTATTCACGTCCTTT
35885 TCTTTTCAAA
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
164 123 0.75
165 5 0.03
166 4 0.02
167 30 0.18
168 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (167 bp):
AATCTACACTATTCACGTCCTTTGCTTGTCATTAACATTTCACATCAACTCAGATAAACTGAAAT
ATTTTAGAGAATCAGGGAATATACAATATTCTCGTCATTTGCTTATCATTGACATTTCACACCAA
ATTAAATAAACTGAAATAAATTCTATAGAAATAAGAG
Found at i:43280 original size:14 final size:14
Alignment explanation
Indices: 43261--43291 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43251 TCCCACATTA
43261 TTTTCTTTTATTTC
1 TTTTCTTTTATTTC
*
43275 TTTTCTTTTCTTTC
1 TTTTCTTTTATTTC
43289 TTT
1 TTT
43292 AATTCTGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTATTTC
Found at i:46283 original size:3 final size:3
Alignment explanation
Indices: 46275--46396 Score: 181
Period size: 3 Copynumber: 40.7 Consensus size: 3
46265 TTTTTATCCA
* *
46275 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
46323 CAT TAT TAA TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
46371 TAT TAT TAT TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
46397 AATATATTAA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:47818 original size:49 final size:49
Alignment explanation
Indices: 47722--47818 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 49
47712 ATGAATTAGA
* * *
47722 TTTTTAATTTTATTTTTTAGTTATTTATATGTTTTCATTTATTTTATTG
1 TTTTTAAATATATTTTTTAGTTATTTATATGTTTTCATTTATATTATTG
*
47771 TTTTTAAATATATTGTTTTAGTAATATTTGTAT-TTTT-A-TTATATTATT
1 TTTTTAAATATATT-TTTTAGT--TATTTATATGTTTTCATTTATATTATT
47819 AAATATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
49 21 0.51
50 8 0.20
51 4 0.10
52 8 0.20
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (49 bp):
TTTTTAAATATATTTTTTAGTTATTTATATGTTTTCATTTATATTATTG
Found at i:59195 original size:1 final size:1
Alignment explanation
Indices: 59189--59292 Score: 82
Period size: 1 Copynumber: 104.0 Consensus size: 1
59179 ATGCTTGAAG
* * * * ** * * *
59189 AAAAAAAAAAGAAAAAGAAAAAAAAAGAAAAAAGAAAAGGAAAAAGAAAAAAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * **
59254 AAAAGAAAAAAATAGAAAATGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
59293 GGGGGTCAAG
Statistics
Matches: 78, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.02
Consensus pattern (1 bp):
A
Found at i:59203 original size:6 final size:6
Alignment explanation
Indices: 59186--59289 Score: 98
Period size: 6 Copynumber: 18.3 Consensus size: 6
59176 ATTATGCTTG
*
59186 AAGAAA AA-AAA AAGAAA AAG-AA AA-AAA AAGAAAA AAGAAA AGGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA
* * *
59232 AAGAAA AAAAAA AAGAAA AA-AGAA AAG-AA AA-AAA TAGAAA ATGAAA
1 AAGAAA AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA
59278 AA-AAA AA-AAA AA
1 AAGAAA AAGAAA AA
59290 AAAGGGGGTC
Statistics
Matches: 82, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
5 31 0.38
6 45 0.55
7 6 0.07
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:59237 original size:46 final size:45
Alignment explanation
Indices: 59186--59290 Score: 140
Period size: 46 Copynumber: 2.3 Consensus size: 45
59176 ATTATGCTTG
59186 AAGAAAAAAAAAAG-AAAAAGAAAAAAAAAGAAAAAAGAAAAGGAAA
1 AAGAAAAAAAAAAGAAAAAAG-AAAAAAAA-AAAAAAGAAAAGGAAA
* * *
59232 AAGAAAAAAAAAAAGAAAAAAGAAAAGAAAAAAATAGAAAATGAAA
1 AAG-AAAAAAAAAAGAAAAAAGAAAAAAAAAAAAAAGAAAAGGAAA
*
59278 AAAAAAAAAAAAA
1 AAGAAAAAAAAAA
59291 AAGGGGGTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
45 10 0.19
46 19 0.36
47 18 0.34
48 6 0.11
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (45 bp):
AAGAAAAAAAAAAGAAAAAAGAAAAAAAAAAAAAAGAAAAGGAAA
Found at i:60372 original size:84 final size:84
Alignment explanation
Indices: 60230--61217 Score: 1852
Period size: 84 Copynumber: 11.7 Consensus size: 84
60220 AACCTTTTAT
* *
60230 ATGTGCTCAATAGCATCTTCTGGAAAAGT-TTCTTTGAGTTATCTGATCTAGTTTGGCAGAACCA
1 ATGTGCCCAATAGCATCTTCTGG--AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCA
*
60294 ATCATTGAAGTTAGAAGATGA
64 ATCATTGAATTTAGAAGATGA
*
60315 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
60380 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
60399 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
60464 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
* *
60483 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCCTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
60548 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
60567 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
60632 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
60651 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
60716 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
*
60735 ATGTGCTCAATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
1 ATGTGCCCAATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
60800 TCATTGAATTTAGAAGATGA
65 TCATTGAATTTAGAAGATGA
60820 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
*
60885 CATTGAAGTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
*
60904 ATGTGCTCAATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
1 ATGTGCCCAATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
60969 TCATTGAATTTAGAAGATGA
65 TCATTGAATTTAGAAGATGA
60989 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
61054 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
61073 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
61138 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
61157 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAAC
1 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAAC
61218 TTACAGAACC
Statistics
Matches: 887, Mismatches: 13, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
83 4 0.00
84 695 0.78
85 188 0.21
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (84 bp):
ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTAGAAGATGA
Found at i:61023 original size:253 final size:252
Alignment explanation
Indices: 60230--61217 Score: 1870
Period size: 253 Copynumber: 3.9 Consensus size: 252
60220 AACCTTTTAT
*
60230 ATGTGCTCAATAGCATCTTCTGGAAAAGT-TTCTTTGAGTTATCTGATCTAGTTTGGCAGAACCA
1 ATGTGCTCAATAGCATCTTCTGG--AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCA
* *
60294 ATCATTGAAGTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
64 ATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
60359 ATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAA
129 ATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAA
60424 GTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
194 GTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
*
60483 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCCTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
60548 CATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 CATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
60613 CTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGT
131 CTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGT
60678 GTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
196 GTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
60735 ATGTGCTCAATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
1 ATGTGCTCAATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
60800 TCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
65 TCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
60865 TCTGGTTTGGCAGAACCAATCATTGAAGTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAG
130 TCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAG
60930 TGTTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
195 TG-TTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
*
60989 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
61054 CATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 CATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
61119 CTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGT
131 CTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGT
61184 GTTCTTTGAGTTATCTGATCTGGTTTGGCAGAAC
196 GTTCTTTGAGTTATCTGATCTGGTTTGGCAGAAC
61218 TTACAGAACC
Statistics
Matches: 722, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
251 4 0.01
252 281 0.39
253 354 0.49
254 83 0.11
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (252 bp):
ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCCCAATAGCATCTTCTGGAAGT
GTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGA
Found at i:61979 original size:113 final size:113
Alignment explanation
Indices: 61856--62555 Score: 1031
Period size: 113 Copynumber: 6.2 Consensus size: 113
61846 ACTCATCTGA
* * * * *
61856 AGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
1 AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
61921 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
61969 AGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
1 AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
62034 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
62082 AGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
1 AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
62147 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *** * * *
62195 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAGGT
1 AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
*
62260 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *** * * * *
62308 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATTATTTGATGGATCAACATTACCAGAGAAGGT
1 AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
*
62373 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *** * *
62421 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGT
1 AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
*
62486 TCATGAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
62535 AGAAGAGCTTGTTCAACCTTT
1 AGAAGAACTTGTTCAACCTTT
62556 GTTTGATATT
Statistics
Matches: 565, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
113 504 0.89
114 61 0.11
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
AGAAGAACTTGTTCAACCTTTTACCTAAATCCATCATTTGATGGATCAACATTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:62858 original size:3 final size:3
Alignment explanation
Indices: 62850--62963 Score: 156
Period size: 3 Copynumber: 37.7 Consensus size: 3
62840 TTTTTATCCA
* *
62850 TAT TAT TATT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
62896 TAA TAT TAT TAT TAT TTT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
62944 TAT TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
62964 AATATATTAA
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
3 95 0.97
4 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:64349 original size:19 final size:18
Alignment explanation
Indices: 64300--64350 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
64290 TAGATTTTTA
64300 ATTTTATT-TTTTTAGTT
1 ATTTTATTGTTTTTAGTT
* *
64317 ATTTTATATGTTTTCATTT
1 ATTTTAT-TGTTTTTAGTT
64336 ATTTTATTGTTTTTA
1 ATTTTATTGTTTTTA
64351 AATATATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 7 0.24
18 8 0.28
19 14 0.48
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.73
Consensus pattern (18 bp):
ATTTTATTGTTTTTAGTT
Found at i:79490 original size:6 final size:6
Alignment explanation
Indices: 79239--79473 Score: 236
Period size: 6 Copynumber: 38.8 Consensus size: 6
79229 TCTACTGAAT
* * ** * **
79239 ATACGC ATACGC ATACGC ACACGC ACACGC GCACGC ACACGC GCACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
79287 GTATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 --ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
* * * * *
79337 ACACGC ACACGC ATACGC ACACGC ATACGC ATACGC ATATGC ATACGT
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
* * * * *
79385 ATACGC ATACGT ATACGC ATATGC ATATGC ATATGC ATACGC ATACGT
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
* * * * * * *
79433 ATACAC GTACGT GTATGC ATACGC ATACGT ATACGT ATACG
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACG
79474 TATGCATATA
Statistics
Matches: 198, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
6 194 0.98
8 4 0.02
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.18
Consensus pattern (6 bp):
ATACGC
Found at i:79495 original size:6 final size:6
Alignment explanation
Indices: 79286--79501 Score: 90
Period size: 6 Copynumber: 36.0 Consensus size: 6
79276 CACGCGCACG
* * * * * * *
79286 CGTATA CGCATA CGCATA CGCATA CGCATA CGCATA CGCATA CGCATA
1 CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA
* * * * * * * * * * * *
79334 CGCACA CGCACA CGCATA CGCACA CGCATA CGCATA CGCATA TGCATA
1 CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA
* * * * * * * * *
79382 CGTATA CGCATA CGTATA CGCATA TGCATA TGCATA TGCATA CGCATA
1 CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA
*** * * * * *
79430 CGTATA CACGTA CGTGTA TGCATA CGCATA CGTATA CGTATA CGTATG
1 CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA CGTATA
* *
79478 CATATA CGTATA CATATA CGTATA
1 CGTATA CGTATA CGTATA CGTATA
79502 TAATTTTATA
Statistics
Matches: 180, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 180 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (6 bp):
CGTATA
Found at i:79807 original size:74 final size:74
Alignment explanation
Indices: 79685--79824 Score: 181
Period size: 74 Copynumber: 1.9 Consensus size: 74
79675 CAGGAGAACG
* * * * *
79685 TCTCACATTGCATAAACCCGTAAAGGGGAGTCATATGAAATATGAAGACCAACTTAAACCGTGAA
1 TCTCACATAGCATAAACCCGTAAAGGGAAGTCATATAAAATATCAAGACCAACTTAAACCATGAA
79750 AGAGAATCA
66 AGAGAATCA
* * * * **
79759 TCTCACATAGCTTAAACCTGTGAAGGGAAGTCATCTAAAATATCAAGACTGACTTAAACCATGAA
1 TCTCACATAGCATAAACCCGTAAAGGGAAGTCATATAAAATATCAAGACCAACTTAAACCATGAA
79824 A
66 A
79825 AATATTTATC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 55 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (74 bp):
TCTCACATAGCATAAACCCGTAAAGGGAAGTCATATAAAATATCAAGACCAACTTAAACCATGAA
AGAGAATCA
Found at i:82203 original size:38 final size:38
Alignment explanation
Indices: 82119--82259 Score: 108
Period size: 38 Copynumber: 3.6 Consensus size: 38
82109 TTTATATATT
82119 ATATATG-TATATATTTTTAATATATGTATACACATAGTTTTAAA
1 ATATATGTTATATA-TTTTAA-ATAT-TAT--AC--AGTTTTAAA
* *
82163 ATATATGTTATATATTTTAAATCTTATATCA-TTTTTAA
1 ATATATGTTATATATTTTAAATATTATA-CAGTTTTAAA
* * * *
82201 ATATAT-ATATATATATATATATATTATACAGTTTTGAA
1 ATATATGTTATATAT-TTTAAATATTATACAGTTTTAAA
* *
82239 ATGTATGTTAGATATTTTAAA
1 ATATATGTTATATATTTTAAA
82260 ACATACATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
37 9 0.11
38 37 0.46
39 7 0.09
40 1 0.01
41 1 0.01
42 3 0.04
43 3 0.04
44 13 0.16
45 6 0.08
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (38 bp):
ATATATGTTATATATTTTAAATATTATACAGTTTTAAA
Found at i:85042 original size:57 final size:57
Alignment explanation
Indices: 84971--85093 Score: 174
Period size: 57 Copynumber: 2.2 Consensus size: 57
84961 CACAAATGTG
** * * *
84971 GGCATCAAACTATAAAATTATGAAATTTTGTTTCTTTGTATGAGTATTGGCTTCATA
1 GGCATCAAACTATAAAACAATGAAATTTTGCTACTTTGTATGAGTATCGGCTTCATA
* * *
85028 GGCATCAAATTATAAAACAATGAATTTTTGCTACTTTTTATGAGTATCGGCTTCATA
1 GGCATCAAACTATAAAACAATGAAATTTTGCTACTTTGTATGAGTATCGGCTTCATA
85085 GGCATCAAA
1 GGCATCAAA
85094 GTAAGTGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (57 bp):
GGCATCAAACTATAAAACAATGAAATTTTGCTACTTTGTATGAGTATCGGCTTCATA
Found at i:85186 original size:12 final size:12
Alignment explanation
Indices: 85169--85201 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
85159 TATGTTATAA
*
85169 AGCTATAAGTAG
1 AGCTATAAGAAG
85181 AGCTATAAGAAG
1 AGCTATAAGAAG
85193 AGCTATAAG
1 AGCTATAAG
85202 CTCATCCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.21
Consensus pattern (12 bp):
AGCTATAAGAAG
Found at i:95052 original size:22 final size:23
Alignment explanation
Indices: 94999--95048 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 23
94989 ATAGAAATTG
94999 AAATAGAAATGTGCCTAAAAATAA
1 AAAT-GAAATGTGCCTAAAAATAA
95023 AAATGAAATGT-CC-AAATAA-AA
1 AAATGAAATGTGCCTAAA-AATAA
95044 AAATG
1 AAATG
95049 GAAAGTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 7 0.28
24 4 0.16
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.20
Consensus pattern (23 bp):
AAATGAAATGTGCCTAAAAATAA
Found at i:95273 original size:24 final size:24
Alignment explanation
Indices: 95245--95292 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
95235 GACTCCATCT
95245 GTGATTTGATTGACCCATACTCGA
1 GTGATTTGATTGACCCATACTCGA
95269 GTGATTTGATTGACCCATACTCGA
1 GTGATTTGATTGACCCATACTCGA
95293 TCTAGTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
GTGATTTGATTGACCCATACTCGA
Found at i:98901 original size:6 final size:6
Alignment explanation
Indices: 98889--98927 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
98879 ACTTATACAT
* **
98889 ATTATC ATCATC ACCATC ATTATC ATTATC ATTATC ATT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATT
98928 CCCTGTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (6 bp):
ATTATC
Found at i:99110 original size:23 final size:23
Alignment explanation
Indices: 99051--99111 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
99041 GCACCAAAGT
* *
99051 ACCACATATAAATGTCCCGAAGG
1 ACCACATAGAATTGTCCCGAAGG
*
99074 ACCACATAGTATTGTCCCGAAGG
1 ACCACATAGAATTGTCCCGAAGG
*
99097 ACCACGTAGAATTGT
1 ACCACATAGAATTGT
99112 ATCAAATAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (23 bp):
ACCACATAGAATTGTCCCGAAGG
Found at i:104612 original size:23 final size:23
Alignment explanation
Indices: 104510--104634 Score: 85
Period size: 23 Copynumber: 5.4 Consensus size: 23
104500 ATAAATTGCA
*
104510 CCGAAGTG-CCACATAGAAATGTC
1 CCGAAG-GACCACATAGAATTGTC
* ***
104533 CCGAAGGAGCACATATTGTTGTC
1 CCGAAGGACCACATAGAATTGTC
*
104556 CCGAATGG-CCGCATAGATATT-TC
1 CCGAA-GGACCACATAGA-ATTGTC
* ** **
104579 CCAAAAAACCATGTAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
* *
104602 TCGAAGGACCACATAGTATTGTC
1 CCGAAGGACCACATAGAATTGTC
104625 CCGAAGGACC
1 CCGAAGGACC
104635 GCGTAGAACC
Statistics
Matches: 73, Mismatches: 24, Indels: 10
0.68 0.22 0.09
Matches are distributed among these distances:
22 4 0.05
23 65 0.89
24 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Done.