Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000327.1 Hibiscus syriacus cultivar Beakdansim tig00000610_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: 68161
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:4711 original size:3 final size:3
Alignment explanation
Indices: 4682--4764 Score: 57
Period size: 3 Copynumber: 27.7 Consensus size: 3
4672 TGGCCTGTAA
* * *
4682 AAT AAT -AT AAT -GT AAT ATAT CAAT AAT AAT AATT AAT AAG CAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AA-T AAT AAT AAT AAT
* *
4728 AAT AAT AAT AAT AA- AAT AAA AATT AA- AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AA
4765 ATAAAAAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
2 7 0.11
3 45 0.73
4 9 0.15
5 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:5689 original size:2 final size:2
Alignment explanation
Indices: 5682--5710 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5672 AAATAAAACC
5682 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5711 AAATTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5949 original size:15 final size:17
Alignment explanation
Indices: 5898--6067 Score: 103
Period size: 17 Copynumber: 10.4 Consensus size: 17
5888 ATTATTAATT
5898 TATACTATATAGTTTATA
1 TATACTATATAGTTT-TA
***
5916 TATACTA-AT-GAACTA
1 TATACTATATAGTTTTA
5931 TATACTATATAGTTTTA
1 TATACTATATAGTTTTA
5948 TATACTATATAGTTTTTA
1 TATACTATATAG-TTTTA
**
5966 TATACTA-AT-G-ACTA
1 TATACTATATAGTTTTA
*
5980 TATA-TATATA-ATTTA
1 TATACTATATAGTTTTA
*
5995 TATCACCATATAG-TTTA
1 TAT-ACTATATAGTTTTA
*
6012 TGTA-TACTATA--TTTA
1 TATACTA-TATAGTTTTA
** *
6027 TGCAATATATAG-TTTA
1 TATACTATATAGTTTTA
*
6043 TATACCATATAGTTTATA
1 TATACTATATAGTTT-TA
6061 TATACTA
1 TATACTA
6068 ATGAACTATA
Statistics
Matches: 119, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
13 2 0.02
14 8 0.07
15 26 0.22
16 24 0.20
17 32 0.27
18 27 0.23
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (17 bp):
TATACTATATAGTTTTA
Found at i:5969 original size:50 final size:48
Alignment explanation
Indices: 5898--6079 Score: 228
Period size: 48 Copynumber: 3.8 Consensus size: 48
5888 ATTATTAATT
*
5898 TATACTATATAGTTTATATATACTAATGAACTATATACTATATAGTTTTA
1 TATACCATATAGTTTATATATACTAATGAACTATATA-TATATAG-TTTA
* * *
5948 TATACTATATAGTTTTTATATACTAATG-ACTATATATATATAATTTA
1 TATACCATATAGTTTATATATACTAATGAACTATATATATATAGTTTA
* **
5995 TATCACCATATAGTTTATGTATACT-AT-ATTTATGCA-ATATATAGTTTA
1 TAT-ACCATATAGTTTATATATACTAATGAACTAT--ATATATATAGTTTA
6043 TATACCATATAGTTTATATATACTAATGAACTATATA
1 TATACCATATAGTTTATATATACTAATGAACTATATA
6080 GTTTATATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
47 33 0.29
48 41 0.36
49 13 0.11
50 27 0.24
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (48 bp):
TATACCATATAGTTTATATATACTAATGAACTATATATATATAGTTTA
Found at i:6088 original size:24 final size:26
Alignment explanation
Indices: 5901--5983 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 26
5891 ATTAATTTAT
5901 ACTATATAGTTTATATATACTAATGA
1 ACTATATAGTTTATATATACTAATGA
* * *
5927 ACTATATA--CTATATAGT-TTTAT-A
1 ACTATATAGTTTATATA-TACTAATGA
*
5950 TACTATATAGTTTTTATATACTAATG-
1 -ACTATATAGTTTATATATACTAATGA
5976 ACTATATA
1 ACTATATA
5984 TATATAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
23 1 0.02
24 17 0.39
25 10 0.23
26 16 0.36
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (26 bp):
ACTATATAGTTTATATATACTAATGA
Found at i:6138 original size:31 final size:29
Alignment explanation
Indices: 6049--6130 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 29
6039 TTTATATACC
6049 ATATAGTTTATATATACTAATGAAC-T--
1 ATATAGTTTATATATACTAATGAACTTAA
*
6075 ATATAGTTTATATAT--TAATGAACTACATA
1 ATATAGTTTATATATACTAATGAACT-TA-A
*
6104 ATATAATTTATATATACTAATGAACTT
1 ATATAGTTTATATATACTAATGAACTT
6131 TACAATATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 8 0.17
26 15 0.33
29 14 0.30
31 9 0.20
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (29 bp):
ATATAGTTTATATATACTAATGAACTTAA
Found at i:6166 original size:145 final size:144
Alignment explanation
Indices: 5898--6168 Score: 304
Period size: 145 Copynumber: 1.9 Consensus size: 144
5888 ATTATTAATT
* * *
5898 TATACTATATAGTTTATATATACTAATGAACTATATACTATATAGTTTTATATACTATATAGTTT
1 TATACCATATAGTTTATATATACTAATGAACTATATACTATATAGTTTAATATACTATATAATTT
* * * * *
5963 TTATATACTAATGACTATATATATATAATTTATATCACCATATAGTTTATGTATACTATATTTAT
66 ATATATACTAATGACTATACATATATAAGTTATATCA-CATATAATATATGTATACTATATTTAT
6028 GCAATATATAGTTTA
130 GCAATATATAGTTTA
* *
6043 TATACCATATAGTTTATATATACTAATGAACTATATAGTTTATA-TATTAATGAACTACATAATA
1 TATACCATATAGTTTATATATACTAATGAACTATATACTATATAGT-TTAAT--A-TAC-T-ATA
* *
6107 TAATTTATATATACTAATGAACTTTACA-ATATGTAGTTAT-T-A-ATATAATATATG-A-ACTA
60 TAATTTATATATACTAATG-ACTATACATATAT-AAGTTATATCACATATAATATATGTATACTA
6166 TAT
123 TAT
6169 ATATATATAT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
144 1 0.01
145 52 0.49
146 1 0.01
147 11 0.10
148 3 0.03
149 2 0.02
150 25 0.24
151 11 0.10
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (144 bp):
TATACCATATAGTTTATATATACTAATGAACTATATACTATATAGTTTAATATACTATATAATTT
ATATATACTAATGACTATACATATATAAGTTATATCACATATAATATATGTATACTATATTTATG
CAATATATAGTTTA
Found at i:6235 original size:2 final size:2
Alignment explanation
Indices: 6164--6220 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
6154 ATATATGAAC
6164 TA TA TA TA TA TA TA TA TA TA TA 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
6206 TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
6221 AACGATATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6587 original size:11 final size:11
Alignment explanation
Indices: 6571--6601 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
6561 TATAATTGTT
6571 TCAATTTTTTA
1 TCAATTTTTTA
6582 TCAATTTTTTA
1 TCAATTTTTTA
6593 TCAATTTTT
1 TCAATTTTT
6602 GAAATGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (11 bp):
TCAATTTTTTA
Found at i:7661 original size:50 final size:50
Alignment explanation
Indices: 7586--7686 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
7576 TGTCTTGTCT
7586 ACATAAAGAATGAAGCTGATTTATCTCACTCTTAATCATTCCTGCATGAA
1 ACATAAAGAATGAAGCTGATTTATCTCACTCTTAATCATTCCTGCATGAA
* * *
7636 ACATAATGAATGATGCTGATTTATCTTACTCTTAATCATTCCTGCATGAA
1 ACATAAAGAATGAAGCTGATTTATCTCACTCTTAATCATTCCTGCATGAA
7686 A
1 A
7687 ACCATTGCTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (50 bp):
ACATAAAGAATGAAGCTGATTTATCTCACTCTTAATCATTCCTGCATGAA
Found at i:10477 original size:11 final size:11
Alignment explanation
Indices: 10437--10471 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
10427 TAAATATTAG
10437 TTATAAAACTT
1 TTATAAAACTT
10448 TTATAAAACTT
1 TTATAAAACTT
10459 TTATAAAACTT
1 TTATAAAACTT
10470 TT
1 TT
10472 TCAAAATCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (11 bp):
TTATAAAACTT
Found at i:12493 original size:22 final size:21
Alignment explanation
Indices: 12468--12521 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
12458 ATAAATATTA
12468 AACCTCTAAACCAT-AACTCCAT
1 AACCTCTAAACCATAAAC-CC-T
*
12490 AACCTCTAAATCATAAACCCT
1 AACCTCTAAACCATAAACCCT
12511 AACC-CTAAACC
1 AACCTCTAAACC
12522 TATCTTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
22 15 0.52
23 3 0.10
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCTCTAAACCATAAACCCT
Found at i:13607 original size:12 final size:12
Alignment explanation
Indices: 13590--13616 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13580 ACGTGGACGG
13590 TTTTACATTTTA
1 TTTTACATTTTA
13602 TTTTACATTTTA
1 TTTTACATTTTA
13614 TTT
1 TTT
13617 AATGTGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTACATTTTA
Found at i:13989 original size:16 final size:16
Alignment explanation
Indices: 13968--14002 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13958 TCCAATTCTA
13968 TTATTTTTATAA-ATAT
1 TTATTTTT-TAATATAT
13984 TTATTTTTTAATATAT
1 TTATTTTTTAATATAT
14000 TTA
1 TTA
14003 AATGATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTTAATATAT
Found at i:17110 original size:15 final size:15
Alignment explanation
Indices: 17090--17119 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17080 ATTGTGTTTC
17090 TGGCCTGCTCCATCT
1 TGGCCTGCTCCATCT
17105 TGGCCTGCTCCATCT
1 TGGCCTGCTCCATCT
17120 CATCAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.40, G:0.20, T:0.33
Consensus pattern (15 bp):
TGGCCTGCTCCATCT
Found at i:25452 original size:45 final size:45
Alignment explanation
Indices: 25415--25620 Score: 306
Period size: 45 Copynumber: 4.6 Consensus size: 45
25405 TCACTTAGGG
* *
25415 CATCCTTTCATGCCTTTAATGCACCGTTGTGAATTTCATTTATTG-
1 CATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTA-TGA
* * *
25460 CATCATTTCATGCCTTTAATGCACCGTTATGCGTTTTATTTATGA
1 CATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTATGA
* * * *
25505 CATCTTTTCATGCCTTTAGTACACCGTTATTCATTTCATTTATGA
1 CATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTATGA
25550 CATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTATGA
1 CATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTATGA
*
25595 CATCCTTTCATGCATTTAATGCACCG
1 CATCCTTTCATGCCTTTAATGCACCG
25621 ATAGGCCTTT
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 2 0.01
45 142 0.99
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (45 bp):
CATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTATGA
Found at i:25522 original size:21 final size:21
Alignment explanation
Indices: 25498--25567 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
25488 ATGCGTTTTA
25498 TTTATGACATCTTTTCATGCC
1 TTTATGACATCTTTTCATGCC
* * *
25519 TTTA-GTACACCGTTATTCATTTCA
1 TTTATG-ACATC-TT-TTCA-TGCC
*
25543 TTTATGACATCCTTTCATGCC
1 TTTATGACATCTTTTCATGCC
25564 TTTA
1 TTTA
25568 ATGCACCGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 6 0.16
23 5 0.14
24 10 0.27
25 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTATGACATCTTTTCATGCC
Found at i:25786 original size:56 final size:56
Alignment explanation
Indices: 25714--25889 Score: 262
Period size: 56 Copynumber: 3.1 Consensus size: 56
25704 AACTTTATAG
*
25714 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * * *
25770 TTTGTACACACAGTGCCCATACGAAAATTCATAAATTTATTATAAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * * **
25826 TTTGCATACACAGCGTCCATACGGAAATTCATAAACCCATTATGAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
25882 TTTGCACA
1 TTTGCACA
25890 AAAAATATCC
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 105 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (56 bp):
TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
Found at i:26358 original size:19 final size:19
Alignment explanation
Indices: 26316--26364 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
26306 GTAATCAATG
26316 GTATCGATACATTCTCCATA
1 GTATCGATACA-TCTCCATA
*
26336 GTATCGATAC-TCTCCTCTA
1 GTATCGATACATCTCC-ATA
26355 GTATCGATAC
1 GTATCGATAC
26365 CAATTGCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 10 0.37
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (19 bp):
GTATCGATACATCTCCATA
Found at i:29447 original size:14 final size:15
Alignment explanation
Indices: 29428--29456 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29418 CTCTTTTCTT
29428 AATATTAA-AAAATA
1 AATATTAATAAAATA
29442 AATATTAATAAAATA
1 AATATTAATAAAATA
29457 TTTATCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATTAATAAAATA
Found at i:29750 original size:2 final size:2
Alignment explanation
Indices: 29743--29771 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29733 ATTTAAACAA
29743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29772 AGACTAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31863 original size:24 final size:23
Alignment explanation
Indices: 31828--31872 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
31818 TGAACAAGCT
31828 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
31852 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
31873 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:31937 original size:113 final size:111
Alignment explanation
Indices: 31812--32933 Score: 1537
Period size: 113 Copynumber: 9.9 Consensus size: 111
31802 AGCATCAAAC
** *
31812 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
31877 ATGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGAATTCAGGCA
66 ATGAACTTTC-CTGGCAATGTTGATCCATCAA-TGATGAATTCAAGCA
* *
31925 AAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
31990 ATGAACTTTCTCTGGCAATGCTAATCCATTAGGTGATGAATTAAAGCA
66 ATGAACTTTC-CTGGCAATGTTGATCCATCA-ATGATGAATTCAAGCA
32038 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
32103 ATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCGAGCA
66 ATGAACTTTC-CTGGCAATGTTGATCCATC-AATGATGAATTCAAGCA
* * **
32151 AAATGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
32216 ATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAA
66 ATGAACTT-TCCTGGCAATGTTGATCCA-TCAATGATGAATTCAAGC-A
* *
32265 AAAGGTTGAACAAATTCTTCTTATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
32330 ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGA
66 ATGAACT-TTCCTGGCAATGTTGATCCATC-AATGATGAATTCAAGC-A
*
32379 AAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
32443 ATGAACTTGACCTGGCAATGCTGATCCATTAGGTGATGAATTAAAGCA
66 ATGAACTT-TCCTGGCAATGTTGATCCATCA-ATGATGAATTCAAGCA
32491 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
32556 ATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCGAGCA
66 ATGAACTTTC-CTGGCAATGTTGATCCATC-AATGATGAATTCAAGCA
* **
32604 AAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
32669 ATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAA
66 ATGAACTT-TCCTGGCAATGTTGATCCA-TCAATGATGAATTCAAGC-A
*
32718 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
32783 ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGA
66 ATGAACT-TTCCTGGCAATGTTGATCCATC-AATGATGAATTCAAGC-A
* *
32832 AAA-GTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
32896 ATGAACTTGACCTGGCAATGCTGATCCATTGAATGATG
66 ATGAACTT-TCCTGGCAATGTTGATCCA-TCAATGATG
32934 GATTTGAATC
Statistics
Matches: 898, Mismatches: 92, Indels: 38
0.87 0.09 0.04
Matches are distributed among these distances:
112 8 0.01
113 677 0.75
114 211 0.23
115 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (111 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCCTGGCAATGTTGATCCATCAATGATGAATTCAAGCA
Found at i:32388 original size:340 final size:335
Alignment explanation
Indices: 31806--32933 Score: 1600
Period size: 340 Copynumber: 3.3 Consensus size: 335
31796 TGTGATAGCA
* * *
31806 TCAAACAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTT
1 TCAAGCAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* * * * *
31871 CTCATTATGAACTTTCTCTGGAAAAGTTAATCCA-TCAAGTGATGAATTCAGGCAAAAGGTTGAA
66 CTCATTATGAACTTACTCTGGAAAAGCTGATCCATTGAA-TGATGAATTCAAGCAAAAGGTTGAA
* *
31935 CAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTC
130 CAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* * *
32000 TCTGGCAATGCTAATCCATTAGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
195 -CTGGCAATGCTGATCCATGA-ATGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
*
32065 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCC
258 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-CTGGAAATGTTGATCC
32130 ATCGAATGATGAAT
322 ATCGAATGATGAAT
* *
32144 TCGAGCAAAATGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAGCAAAA-GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * *
32209 TCTCATTATGAACTTGAC-CTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAAAAAGGTTG
65 TCTCATTATGAACTT-ACTCTGGAAAAGCTGATCCATTGAATGATGAATTCAAGC-AAAAGGTTG
*
32273 AACAAATTCTTCTTATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
128 AACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-
* * * * *
32338 TTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCAT
192 TTCCTGGCAATGCTGATCCAT-GAATGATGAATTAAAGC-AAAAGGTTGAACAAATTCTTCTCAT
* * *
32402 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGA
255 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCCTGGAAATGTTGA
* *
32467 TCCAT-TAGGTGATGAAT
319 TCCATCGA-ATGATGAAT
* **
32484 TAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAGCAAAA-GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * * *
32549 TCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCGAGCAAAAGGTTGAA
65 TCTCATTATGAACTTACTCTGGAAAAGCTGATCCATTGAATGATGAATTCAAGCAAAAGGTTGAA
* ** * *
32614 TAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGA
130 CAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-T
* *
32679 CCTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAAAAAGGTTGAACAAATTCTTCTTATTA
194 CCTGGCAATGCTGATCCA-TGAATGATGAATTAAAGC-AAAAGGTTGAACAAATTCTTCTCATTA
*
32744 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCTGGTAATGTTGATC
257 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCCTGGAAATGTTGATC
*
32809 CATCGAATAATGAAT
321 CATCGAATGATGAAT
* *
32824 TCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCT
1 TCAAGC-AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* *
32889 TCTCATTATGAACTTGAC-CTGGCAATGCTGATCCATTGAATGATG
65 TCTCATTATGAACTT-ACTCTGGAAAAGCTGATCCATTGAATGATG
32934 GATTTGAATC
Statistics
Matches: 703, Mismatches: 70, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
338 8 0.01
339 197 0.28
340 482 0.69
341 16 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (335 bp):
TCAAGCAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
CTCATTATGAACTTACTCTGGAAAAGCTGATCCATTGAATGATGAATTCAAGCAAAAGGTTGAAC
AAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCC
TGGCAATGCTGATCCATGAATGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCTGGAAATGTTGATCCATCG
AATGATGAAT
Found at i:32658 original size:453 final size:453
Alignment explanation
Indices: 31812--32925 Score: 2011
Period size: 453 Copynumber: 2.5 Consensus size: 453
31802 AGCATCAAAC
** * *
31812 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
31877 ATGAACT-TTCTCTGGAAAAGTTAATCCATC-AAGTGATGAATTCAGGC-AAAAGGTTGAACAAA
66 ATGAACTCTTC-CTGGTAATGTTGATCCATCGAA-TAATGAATTCAAGCGAAAA-GTTGAACAAG
* * *
31939 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTT-TCTCT
128 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-CT
*
32003 GGCAATGCTAATCCATTAGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
192 GGCAATGCTGATCCATTAGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
32068 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATC
257 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATC
*
32133 GAATGATGAATTCGAGCAAAATGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
322 GAATGATGAATTCGAGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
32198 AGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGC
387 AGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGC
32263 AA
452 AA
*
32265 AAAGGTTGAACAAATTCTTCTTATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
32330 ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTC
66 ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTC
*
32395 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCA
131 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCA
32460 ATGCTGATCCATTAGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
196 ATGCTGATCCATTAGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
32525 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAAT
261 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAAT
32590 GATGAATTCGAGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
326 GATGAATTCGAGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
32655 GAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAA
391 GAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAA
32718 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
32783 ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTC
66 ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTC
32848 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCA
131 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCA
32913 ATGCTGATCCATT
196 ATGCTGATCCATT
32926 GAATGATGGA
Statistics
Matches: 639, Mismatches: 18, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
453 629 0.98
454 10 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (453 bp):
AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTTCCTGGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTC
TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCA
ATGCTGATCCATTAGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAAT
GATGAATTCGAGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGATCCATTGAATGATGAATTTAAGCAA
Found at i:33368 original size:22 final size:22
Alignment explanation
Indices: 33343--33395 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
33333 TAAAGCTTTT
*
33343 ATCTTTGAAAA-GAGAATCTGTC
1 ATCTTTGAAAATG-GAATCTATC
*
33365 ATCTTTAAAAATGGAATCTATC
1 ATCTTTGAAAATGGAATCTATC
33387 ATCTTTGAA
1 ATCTTTGAA
33396 GAGTATAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCTTTGAAAATGGAATCTATC
Found at i:33822 original size:50 final size:50
Alignment explanation
Indices: 33767--33896 Score: 199
Period size: 50 Copynumber: 2.6 Consensus size: 50
33757 TCACTGGTTC
* *
33767 GTAAAACGTTTGACAACACATTCATCATTTCCTGTGGCTTCTGTTTGGAT
1 GTAAAACGTTTGACAACATATTCATCATTTCCTGTGGCTTCTGCTTGGAT
* * *
33817 GTAAAACATTTGATAACATATTCATCATTCCCTGTGGCTTCTGCTTGGAT
1 GTAAAACGTTTGACAACATATTCATCATTTCCTGTGGCTTCTGCTTGGAT
33867 GTAAAACAG-TTGACAACATATTCATCATTT
1 GTAAAAC-GTTTGACAACATATTCATCATTT
33897 TTCTTGGATT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAAAACGTTTGACAACATATTCATCATTTCCTGTGGCTTCTGCTTGGAT
Found at i:34575 original size:35 final size:34
Alignment explanation
Indices: 34536--34608 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 34
34526 CATTACTTCT
34536 TATTGAGATGAGCCTTCAAAATGCCCAAATATTC
1 TATTGAGATGAGCCTTCAAAATGCCCAAATATTC
** *
34570 ATATTGTTATGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGAGATGAGCCTTCAAAATGCCCAAATATTC
34605 TATT
1 TATT
34609 TCTGGTGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (34 bp):
TATTGAGATGAGCCTTCAAAATGCCCAAATATTC
Found at i:35710 original size:83 final size:83
Alignment explanation
Indices: 35570--35834 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
35560 CTTATTTCTA
* *
35570 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCCAAA-CAGATTAGATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTG-CCAAACCAGATCAGATAACTCAA
35634 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
* *
35653 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
35718 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
35736 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
35801 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
35819 CTATGAGCACATTCAT
1 CTATGAGCAAATTCAT
35835 TTGTTCCATT
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 5 0.03
83 169 0.97
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:37913 original size:72 final size:72
Alignment explanation
Indices: 37796--37930 Score: 234
Period size: 72 Copynumber: 1.9 Consensus size: 72
37786 TATAATGGGT
* *
37796 TAGCTGACTATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGAGGGACAACTCAAGCAT
1 TAGCTGAATATTATCCATAAAGCCAGGGCTATTAACCAATTGCTTTAGAGGGACAACTCAAGCAT
37861 AACAGAC
66 AACAGAC
* *
37868 TAGCTGAATATTATCCATAAAGCCAGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGC
1 TAGCTGAATATTATCCATAAAGCCAGGGCTATTAACCAATTGCTTTAGAGGGACAACTCAAGC
37931 TTTATTGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (72 bp):
TAGCTGAATATTATCCATAAAGCCAGGGCTATTAACCAATTGCTTTAGAGGGACAACTCAAGCAT
AACAGAC
Found at i:42837 original size:14 final size:15
Alignment explanation
Indices: 42818--42846 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42808 CTCTTTTCTT
42818 AATATTAA-AAAATA
1 AATATTAATAAAATA
42832 AATATTAATAAAATA
1 AATATTAATAAAATA
42847 TTTATCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATTAATAAAATA
Found at i:43134 original size:2 final size:2
Alignment explanation
Indices: 43127--43155 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43117 ATTTAAACAA
43127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43156 AGACTAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46105 original size:14 final size:14
Alignment explanation
Indices: 46078--46111 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46068 TTTCAATCAC
46078 TTAATAAATATATAT
1 TTAA-AAATATATAT
*
46093 TTAAAAATTTATAT
1 TTAAAAATATATAT
46107 TTAAA
1 TTAAA
46112 CACTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAAAATATATAT
Found at i:52072 original size:24 final size:24
Alignment explanation
Indices: 52045--52095 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
52035 AAAGATATAT
* *
52045 AAATATTTACAATTAAATAATTAA
1 AAATATTTAAAATTAAATAATCAA
* *
52069 AAATCTTTAAAATTGAATAATCAA
1 AAATATTTAAAATTAAATAATCAA
52093 AAA
1 AAA
52096 AAGAATTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATTTAAAATTAAATAATCAA
Found at i:53790 original size:13 final size:13
Alignment explanation
Indices: 53761--53789 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
53751 TTTTTAAAAT
53761 AAAATATTATTTA
1 AAAATATTATTTA
53774 AAAATATT-TTTA
1 AAAATATTATTTA
53786 AAAA
1 AAAA
53790 AATCTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTATTTA
Done.