Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007831.1 Hibiscus syriacus cultivar Beakdansim tig00110171_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: 66779
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1587 original size:17 final size:17
Alignment explanation
Indices: 1565--1636 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
1555 AATTAAGAGA
1565 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
1582 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
1599 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
* *
1616 TAATTTTATTCAATGAAC
1 TAGTTTAATT-AATGAAC
1634 TAG
1 TAG
1637 ATGCATGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 36 0.77
18 11 0.23
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:1613 original size:34 final size:35
Alignment explanation
Indices: 1565--1636 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
1555 AATTAAGAGA
* *
1565 TAGTTTATTAAATGAACTAGTTTGA-TGAATGAAC
1 TAGTTTATTAAATGAACTAATTTGATTCAATGAAC
*
1599 TAGTTTAATT-AATGAACTAATTTTATTCAATGAAC
1 TAGTTT-ATTAAATGAACTAATTTGATTCAATGAAC
1634 TAG
1 TAG
1637 ATGCATGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (35 bp):
TAGTTTATTAAATGAACTAATTTGATTCAATGAAC
Found at i:1665 original size:52 final size:52
Alignment explanation
Indices: 1568--1686 Score: 127
Period size: 52 Copynumber: 2.3 Consensus size: 52
1558 TAAGAGATAG
* * *
1568 TTTATTAAATGAACTAGTTTGATGAATGAACTAGTTTAATTAATGAACTAAT
1 TTTATTAAATGAACTAGTATGATGAATGAACTAGCTTAATAAATGAACTAAT
* * * *
1620 TTTATTCAATGAACTAG-ATGCATGAATGAAGTAGCTTACTAAATGATCTAA-
1 TTTATTAAATGAACTAGTATG-ATGAATGAACTAGCTTAATAAATGAACTAAT
*
1671 -ATATGTAAATGAACTA
1 TTTAT-TAAATGAACTA
1687 CTTCTCTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
50 3 0.05
51 12 0.21
52 41 0.73
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (52 bp):
TTTATTAAATGAACTAGTATGATGAATGAACTAGCTTAATAAATGAACTAAT
Found at i:5327 original size:42 final size:43
Alignment explanation
Indices: 5279--5362 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
5269 CGTTTGAAAA
*
5279 AAAAGCCACTAAAGT-AGAATTCTATAGCGGCATTT-TTAAACC
1 AAAAGCCACTAAAGTAAG-AGTCTATAGCGGCATTTGTTAAACC
*
5321 AAAAGCCACTAAAGTAAGAGTCTATAGCGGCGTTTGTTAAAC
1 AAAAGCCACTAAAGTAAGAGTCTATAGCGGCATTTGTTAAAC
5363 AAACAACACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 30 0.79
43 8 0.21
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (43 bp):
AAAAGCCACTAAAGTAAGAGTCTATAGCGGCATTTGTTAAACC
Found at i:5912 original size:56 final size:55
Alignment explanation
Indices: 5787--5912 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 55
5777 TTTGATGTAG
* * ** * * ***
5787 TGCTTCAATCTAAAATCTGACACCTTTGTGCTTTAAAAATGATTGAGCATCTTTT
1 TGCTTCAATCTAAAAGCTGACACCTTTATGCTTTAAAAACAAGTGAGCACCTCCA
*
5842 TGCTTCAATTTAAAAGCTGACA-CTTCTATGCTTTAATAAACAAGTGAGCACCTCCA
1 TGCTTCAATCTAAAAGCTGACACCTT-TATGCTTTAA-AAACAAGTGAGCACCTCCA
5898 TGCTTCAATCTAAAA
1 TGCTTCAATCTAAAA
5913 TTAAGCACCT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 3 0.05
55 29 0.50
56 26 0.45
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (55 bp):
TGCTTCAATCTAAAAGCTGACACCTTTATGCTTTAAAAACAAGTGAGCACCTCCA
Found at i:9464 original size:37 final size:36
Alignment explanation
Indices: 9406--9475 Score: 113
Period size: 37 Copynumber: 1.9 Consensus size: 36
9396 TCCCATTATC
9406 ATTTTTCAACAAACATCTACCAAACTTTGAAAATTT
1 ATTTTTCAACAAACATCTACCAAACTTTGAAAATTT
* *
9442 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAA
1 ATTTTTC-AACAAACATCTACCAAACTTTGAAAA
9476 CCATTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.34
Consensus pattern (36 bp):
ATTTTTCAACAAACATCTACCAAACTTTGAAAATTT
Found at i:9482 original size:36 final size:37
Alignment explanation
Indices: 9405--9488 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
9395 ATCCCATTAT
*
9405 CATTTTTC-AACAAACATCTACCAAACTTTGAAAATT
1 CATTTTTCAAACAAACATCTACCAAACTTTGAAAATC
* * *
9441 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAA-C
1 CATTTTTCAAACAAACATCTACCAAACTTTGAAAATC
9477 CATTTTTTCAAA
1 CA-TTTTTCAAA
9489 TTTGGTTACC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 8 0.20
37 33 0.80
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.36
Consensus pattern (37 bp):
CATTTTTCAAACAAACATCTACCAAACTTTGAAAATC
Found at i:14039 original size:37 final size:37
Alignment explanation
Indices: 13980--14099 Score: 167
Period size: 35 Copynumber: 3.3 Consensus size: 37
13970 ATCCCATTAT
* * *
13980 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
*
14016 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
14052 CA-TTTTCAAAGAAACATTTACCAAACTTT-AAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
14087 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
14100 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 34 0.45
36 12 0.16
37 29 0.39
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
Found at i:14055 original size:21 final size:21
Alignment explanation
Indices: 14031--14091 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
14021 TTCAAAGAAA
14031 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
14052 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
14066 CATTTACCAAACTTTAAAAAC
1 CATTTACCAAACTTTGAAAAC
14087 CATTT
1 CATTT
14092 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
20 7 0.23
21 10 0.33
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:16688 original size:55 final size:53
Alignment explanation
Indices: 16623--16754 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 53
16613 AATTCATAAT
16623 ACCTCTGTGCTTCAATTTATAAATTGGCATC-TCTATACTTTTAAAAAGATTGAAC
1 ACCTCTGTGCTTCAATTTA-AAATTGGCA-CATCTATAC-TTTAAAAAGATTGAAC
* * * * *
16678 ACCTCTGTGCTTCAATCTAAAATTTGGGACATCTATGCTTTAGAATGATTGAAC
1 ACCTCTGTGCTTCAATTTAAAA-TTGGCACATCTATACTTTAAAAAGATTGAAC
** *
16732 ATATTTGTGCTTCAATTTAAAAT
1 ACCTCTGTGCTTCAATTTAAAAT
16755 CTAACTCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
53 1 0.02
54 36 0.55
55 29 0.44
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (53 bp):
ACCTCTGTGCTTCAATTTAAAATTGGCACATCTATACTTTAAAAAGATTGAAC
Found at i:18344 original size:17 final size:17
Alignment explanation
Indices: 18319--18357 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18309 TGAAATCAAA
*
18319 TATTATATTTGAACTAT
1 TATTTTATTTGAACTAT
**
18336 TATTTTATTTGAGTTAT
1 TATTTTATTTGAACTAT
18353 TATTT
1 TATTT
18358 AAGCATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (17 bp):
TATTTTATTTGAACTAT
Found at i:20335 original size:252 final size:250
Alignment explanation
Indices: 19892--20395 Score: 981
Period size: 252 Copynumber: 2.0 Consensus size: 250
19882 TAAAAATAAA
19892 CACATCAATGGAGTAATTGCTGATAATCTTGATGAGAATAAATTGAATAAGAAAAAAAAGAATAC
1 CACATCAATGGAGTAATTGCTGATAATCTTGATGAGAATAAATTGAATAAGAAAAAAAAGAATAC
19957 CTAAATCATTACACCACTTAACAAAGAACATTCATTGTGTAGAGAATGGATTGGAGAAGAAGAGA
66 CTAAATCATTACACCACTTAACAAAGAACATTCATTGTGTAGAGAATGGATTGGAGAAGAAGAGA
20022 CACTATCAAAACACAACTTACTTTCTGTTTCTTCTCTTCGTCGTTACTTCGGTGCATCAGGTTGT
131 CACTATCAAAACACAACTTACTTTCTGTTTCTTCTCTTCGTCGTTACTTCGGTGCATCAGGTTGT
20087 CTTTGTCGAGCAAATCCCGGCTGCATTAGTTACAGAAGAAAAGGCAAAGAAAACT
196 CTTTGTCGAGCAAATCCCGGCTGCATTAGTTACAGAAGAAAAGGCAAAGAAAACT
20142 CACATCAATGGAGTAATTGCTGATAATCTTGATGAGAATAAATTGAATAAGAAAAAAAAAAGAAT
1 CACATCAATGGAGTAATTGCTGATAATCTTGATGAGAATAAATTGAATAAG--AAAAAAAAGAAT
20207 ACCTAAATCATTACACCACTTAACAAAGAACATTCATTGTGTAGAGAATGGATTGGAGAAGAAGA
64 ACCTAAATCATTACACCACTTAACAAAGAACATTCATTGTGTAGAGAATGGATTGGAGAAGAAGA
*
20272 GACACTATCAAAACACAACTTACTTTCTGTTTCTTCTCTTCGTCGTTACTTTGGTGCATCAGGTT
129 GACACTATCAAAACACAACTTACTTTCTGTTTCTTCTCTTCGTCGTTACTTCGGTGCATCAGGTT
20337 GTCTTTGTCGAGCAAATCCCGGCTGCATTAGTTACAGAAGAAAAGGCAAAGAAAACT
194 GTCTTTGTCGAGCAAATCCCGGCTGCATTAGTTACAGAAGAAAAGGCAAAGAAAACT
20394 CA
1 CA
20396 TGAATGAAAT
Statistics
Matches: 251, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
250 51 0.20
252 200 0.80
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (250 bp):
CACATCAATGGAGTAATTGCTGATAATCTTGATGAGAATAAATTGAATAAGAAAAAAAAGAATAC
CTAAATCATTACACCACTTAACAAAGAACATTCATTGTGTAGAGAATGGATTGGAGAAGAAGAGA
CACTATCAAAACACAACTTACTTTCTGTTTCTTCTCTTCGTCGTTACTTCGGTGCATCAGGTTGT
CTTTGTCGAGCAAATCCCGGCTGCATTAGTTACAGAAGAAAAGGCAAAGAAAACT
Found at i:25988 original size:152 final size:152
Alignment explanation
Indices: 25712--26016 Score: 574
Period size: 152 Copynumber: 2.0 Consensus size: 152
25702 CTATGAGTAA
25712 TTTCAAGGATTTTTCACCAACATGCCCCAAGCGCATATACCATAACCTGGTTGCTTCTGACTCAT
1 TTTCAAGGATTTTTCACCAACATGCCCCAAGCGCATATACCATAACCTGGTTGCTTCTGACTCAT
25777 GTTCATCAGTAGAAGCTGTCACTGCTGCTGTCCCAACAATTGTACTACCCAGAAAGTAATACACA
66 GTTCATCAGTAGAAGCTGTCACTGCTGCTGTCCCAACAATTGTACTACCCAGAAAGTAATACACA
25842 TTATTTCTTTTTCGGATTCCCT
131 TTATTTCTTTTTCGGATTCCCT
* *
25864 TTTCAAGGATTTTTCACCAACATGCCCCAAGCGCATATGCCATAACCTGGTTGCTTCTGACTCGT
1 TTTCAAGGATTTTTCACCAACATGCCCCAAGCGCATATACCATAACCTGGTTGCTTCTGACTCAT
25929 GTTCATCAGTAGAAGCTGTCACTGCTGCTGTCCCAACAATTGTACTACCCAGAAAGTAATACACA
66 GTTCATCAGTAGAAGCTGTCACTGCTGCTGTCCCAACAATTGTACTACCCAGAAAGTAATACACA
* *
25994 TTGTTTCTTTTTCGGATTTCCT
131 TTATTTCTTTTTCGGATTCCCT
26016 T
1 T
26017 AATTATCACC
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 149 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (152 bp):
TTTCAAGGATTTTTCACCAACATGCCCCAAGCGCATATACCATAACCTGGTTGCTTCTGACTCAT
GTTCATCAGTAGAAGCTGTCACTGCTGCTGTCCCAACAATTGTACTACCCAGAAAGTAATACACA
TTATTTCTTTTTCGGATTCCCT
Found at i:26820 original size:36 final size:36
Alignment explanation
Indices: 26778--26853 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
26768 TTATAGCTAA
*
26778 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
26814 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
26850 AAAA
1 AAAA
26854 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:31347 original size:15 final size:15
Alignment explanation
Indices: 31329--31358 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31319 CCACGGTGCT
31329 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
31344 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
31359 GATTGTGATA
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:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:31821 original size:36 final size:36
Alignment explanation
Indices: 31779--31854 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
31769 TTATAGCTAA
*
31779 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
31815 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
31851 AAAA
1 AAAA
31855 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:33798 original size:16 final size:18
Alignment explanation
Indices: 33763--33800 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33753 GATTAATGCT
*
33763 AATAAACTTACGTGGTTG
1 AATAAACTTACATGGTTG
33781 AATAAACTT-CAT-GTTG
1 AATAAACTTACATGGTTG
33797 AATA
1 AATA
33801 GCAGAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (18 bp):
AATAAACTTACATGGTTG
Found at i:38559 original size:18 final size:19
Alignment explanation
Indices: 38536--38572 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38526 ATCTTTAATT
38536 TATTAT-CAGAAAAAAAAA
1 TATTATACAGAAAAAAAAA
*
38554 TATTATACTGAAAAAAAAA
1 TATTATACAGAAAAAAAAA
38573 AATTGTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (19 bp):
TATTATACAGAAAAAAAAA
Found at i:40644 original size:24 final size:26
Alignment explanation
Indices: 40615--40666 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
40605 GCCCTCTGTT
*
40615 CGAACATAAATGAACATA-AAT-GAA
1 CGAACATAAACGAACATATAATCGAA
40639 CGAACATAAACGAACATATAATCGAA
1 CGAACATAAACGAACATATAATCGAA
40665 CG
1 CG
40667 TTCACGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.15
Consensus pattern (26 bp):
CGAACATAAACGAACATATAATCGAA
Found at i:47503 original size:40 final size:38
Alignment explanation
Indices: 47418--47552 Score: 164
Period size: 38 Copynumber: 3.5 Consensus size: 38
47408 TTTGAAGATA
* * *
47418 AATAGTATAGTTTTTGAAAATATTATTTTTGAAAACAAAT
1 AATA-TATAGTTTTT-AAAAAATGATTTTTGAAAACATAT
47458 AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
1 AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
* * * *
47496 AATATATAGTTTTTAAGAAACGGTTTTTGAAAACGTAT
1 AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
*
47534 -ATAATATAGTTTTTGAAAA
1 AAT-ATATAGTTTTTAAAAA
47553 CATATTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.02
38 69 0.81
39 10 0.12
40 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.41
Consensus pattern (38 bp):
AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
Found at i:47571 original size:50 final size:51
Alignment explanation
Indices: 47513--47612 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 51
47503 AGTTTTTAAG
*
47513 AAACGGTTTTTGAAAACGTATATAATATAGT-T-TTTGAAAACATATTATTA
1 AAACGGTTTTTGAAAACATATATAATATA-TATATTTGAAAACATATTATTA
47563 AAACGGTTTTTGAAAACATATATAATATATAATATTTGAAAACATATTAT
1 AAACGGTTTTTGAAAACATATATAATATAT-ATATTTGAAAACATATTAT
47613 ATTGTTTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
49 1 0.02
50 28 0.61
51 1 0.02
52 16 0.35
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (51 bp):
AAACGGTTTTTGAAAACATATATAATATATATATTTGAAAACATATTATTA
Found at i:47578 original size:26 final size:25
Alignment explanation
Indices: 47513--47587 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 25
47503 AGTTTTTAAG
*
47513 AAACGGTTTTTGAAAACGTA-TATA
1 AAACGGTTTTTGAAAACATATTATA
* **
47537 ATATAGTTTTTGAAAACATATTATTA
1 AAACGGTTTTTGAAAACATATTA-TA
47563 AAACGGTTTTTGAAAACATA-TATA
1 AAACGGTTTTTGAAAACATATTATA
47587 A
1 A
47588 TATATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
24 19 0.45
25 4 0.10
26 19 0.45
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (25 bp):
AAACGGTTTTTGAAAACATATTATA
Found at i:47676 original size:5 final size:5
Alignment explanation
Indices: 47666--47738 Score: 60
Period size: 5 Copynumber: 14.2 Consensus size: 5
47656 TTAATATTAA
*
47666 TATTT TATTT TCCA-TT TATCTT TCTTTT TATTT TATTT TATTT TATTT
1 TATTT TATTT T--ATTT TAT-TT TATT-T TATTT TATTT TATTT TATTT
* * *
47714 CATTT CATTT CATTT TA-TT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
47739 TTCATTTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
4 5 0.09
5 41 0.71
6 11 0.19
7 1 0.02
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:47746 original size:5 final size:5
Alignment explanation
Indices: 47695--47755 Score: 65
Period size: 5 Copynumber: 12.8 Consensus size: 5
47685 CTTTCTTTTT
* * * *
47695 ATTTT ATTTT ATTTT ATTTC ATTTC ATTTC ATTTT ATTT- ATTT- -TTTC
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC
47742 ATTTC ATTTC ATTT
1 ATTTC ATTTC ATTT
47756 TTATTTCATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 45 0.87
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTC
Found at i:47751 original size:10 final size:10
Alignment explanation
Indices: 47695--47764 Score: 83
Period size: 10 Copynumber: 7.2 Consensus size: 10
47685 CTTTCTTTTT
*
47695 ATTTTATTTT
1 ATTTTATTTC
47705 ATTTTATTTC
1 ATTTTATTTC
*
47715 ATTTCATTTC
1 ATTTTATTTC
47725 ATTTTATTT-
1 ATTTTATTTC
47734 A-TTT-TTTC
1 ATTTTATTTC
*
47742 ATTTCATTTC
1 ATTTTATTTC
47752 ATTTTTATTTC
1 A-TTTTATTTC
47763 AT
1 AT
47765 GTCCAACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 3 0.06
10 32 0.63
11 9 0.18
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:47955 original size:40 final size:38
Alignment explanation
Indices: 47870--48004 Score: 164
Period size: 38 Copynumber: 3.5 Consensus size: 38
47860 TTTGAAGATA
* * *
47870 AATAGTATAGTTTTTGAAAATATTATTTTTGAAAACAAAT
1 AATA-TATAGTTTTT-AAAAAATGATTTTTGAAAACATAT
47910 AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
1 AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
* * * *
47948 AATATATAGTTTTTAAGAAACGGTTTTTGAAAACGTAT
1 AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
*
47986 -ATAATATAGTTTTTGAAAA
1 AAT-ATATAGTTTTTAAAAA
48005 CATATTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.02
38 69 0.81
39 10 0.12
40 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.41
Consensus pattern (38 bp):
AATATATAGTTTTTAAAAAATGATTTTTGAAAACATAT
Found at i:48023 original size:50 final size:51
Alignment explanation
Indices: 47965--48064 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 51
47955 AGTTTTTAAG
*
47965 AAACGGTTTTTGAAAACGTATATAATATAGT-T-TTTGAAAACATATTATTA
1 AAACGGTTTTTGAAAACATATATAATATA-TATATTTGAAAACATATTATTA
48015 AAACGGTTTTTGAAAACATATATAATATATAATATTTGAAAACATATTAT
1 AAACGGTTTTTGAAAACATATATAATATAT-ATATTTGAAAACATATTAT
48065 ATTGTTTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
49 1 0.02
50 28 0.61
51 1 0.02
52 16 0.35
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (51 bp):
AAACGGTTTTTGAAAACATATATAATATATATATTTGAAAACATATTATTA
Found at i:48030 original size:26 final size:25
Alignment explanation
Indices: 47965--48039 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 25
47955 AGTTTTTAAG
*
47965 AAACGGTTTTTGAAAACGTA-TATA
1 AAACGGTTTTTGAAAACATATTATA
* **
47989 ATATAGTTTTTGAAAACATATTATTA
1 AAACGGTTTTTGAAAACATATTA-TA
48015 AAACGGTTTTTGAAAACATA-TATA
1 AAACGGTTTTTGAAAACATATTATA
48039 A
1 A
48040 TATATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
24 19 0.45
25 4 0.10
26 19 0.45
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (25 bp):
AAACGGTTTTTGAAAACATATTATA
Found at i:48128 original size:5 final size:5
Alignment explanation
Indices: 48118--48190 Score: 69
Period size: 5 Copynumber: 14.2 Consensus size: 5
48108 TTAATATTAA
*
48118 TATTT TATTT TCCA-TT TATCTT TCTTTT TATTT TATTT TATTT TATTT
1 TATTT TATTT T--ATTT TAT-TT TATT-T TATTT TATTT TATTT TATTT
* *
48166 TATTT CATTT CATTT TA-TT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
48191 TTCATTTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
4 5 0.09
5 41 0.71
6 11 0.19
7 1 0.02
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:48198 original size:5 final size:5
Alignment explanation
Indices: 48147--48207 Score: 56
Period size: 5 Copynumber: 12.8 Consensus size: 5
48137 CTTTCTTTTT
* * * * *
48147 ATTTT ATTTT ATTTT ATTTT ATTTC ATTTC ATTTT ATTT- ATTT- -TTTC
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC
48194 ATTTC ATTTC ATTT
1 ATTTC ATTTC ATTT
48208 TTATTTCATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 45 0.87
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (5 bp):
ATTTC
Found at i:48203 original size:10 final size:10
Alignment explanation
Indices: 48147--48216 Score: 74
Period size: 10 Copynumber: 7.2 Consensus size: 10
48137 CTTTCTTTTT
*
48147 ATTTTATTTT
1 ATTTTATTTC
*
48157 ATTTTATTTT
1 ATTTTATTTC
*
48167 ATTTCATTTC
1 ATTTTATTTC
48177 ATTTTATTT-
1 ATTTTATTTC
48186 A-TTT-TTTC
1 ATTTTATTTC
*
48194 ATTTCATTTC
1 ATTTTATTTC
48204 ATTTTTATTTC
1 A-TTTTATTTC
48215 AT
1 AT
48217 GTCCAACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 3 0.06
10 32 0.63
11 9 0.18
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:48220 original size:452 final size:452
Alignment explanation
Indices: 47376--48281 Score: 1803
Period size: 452 Copynumber: 2.0 Consensus size: 452
47366 TAATATATAT
47376 AATAATTTTAAAAATATACAATATATATAGTTTTTGAAGATAAATAGTATAGTTTTTGAAAATAT
1 AATAATTTTAAAAATATACAATATATATAGTTTTTGAAGATAAATAGTATAGTTTTTGAAAATAT
47441 TATTTTTGAAAACAAATAATATATAGTTTTTAAAAAATGATTTTTGAAAACATATAATATATAGT
66 TATTTTTGAAAACAAATAATATATAGTTTTTAAAAAATGATTTTTGAAAACATATAATATATAGT
47506 TTTTAAGAAACGGTTTTTGAAAACGTATATAATATAGTTTTTGAAAACATATTATTAAAACGGTT
131 TTTTAAGAAACGGTTTTTGAAAACGTATATAATATAGTTTTTGAAAACATATTATTAAAACGGTT
47571 TTTGAAAACATATATAATATATAATATTTGAAAACATATTATATTGTTTTTGAAATATAATTTTA
196 TTTGAAAACATATATAATATATAATATTTGAAAACATATTATATTGTTTTTGAAATATAATTTTA
47636 ATTCATACATATTATTAATATTAATATTAATATTTTATTTTCCATTTATCTTTCTTTTTATTTTA
261 ATTCATACATATTATTAATATTAATATTAATATTTTATTTTCCATTTATCTTTCTTTTTATTTTA
47701 TTTTATTTTATTTCATTTCATTTCATTTTATTTATTTTTTCATTTCATTTCATTTTTATTTCATG
326 TTTTATTTTATTTCATTTCATTTCATTTTATTTATTTTTTCATTTCATTTCATTTTTATTTCATG
47766 TCCAACAAAGTCTAAATTTAGGTCCAGCAAGCGAGCCCAACCAAGCCATGCTAGCCTGACCC
391 TCCAACAAAGTCTAAATTTAGGTCCAGCAAGCGAGCCCAACCAAGCCATGCTAGCCTGACCC
47828 AATAATTTTAAAAATATACAATATATATAGTTTTTGAAGATAAATAGTATAGTTTTTGAAAATAT
1 AATAATTTTAAAAATATACAATATATATAGTTTTTGAAGATAAATAGTATAGTTTTTGAAAATAT
47893 TATTTTTGAAAACAAATAATATATAGTTTTTAAAAAATGATTTTTGAAAACATATAATATATAGT
66 TATTTTTGAAAACAAATAATATATAGTTTTTAAAAAATGATTTTTGAAAACATATAATATATAGT
47958 TTTTAAGAAACGGTTTTTGAAAACGTATATAATATAGTTTTTGAAAACATATTATTAAAACGGTT
131 TTTTAAGAAACGGTTTTTGAAAACGTATATAATATAGTTTTTGAAAACATATTATTAAAACGGTT
48023 TTTGAAAACATATATAATATATAATATTTGAAAACATATTATATTGTTTTTGAAATATAATTTTA
196 TTTGAAAACATATATAATATATAATATTTGAAAACATATTATATTGTTTTTGAAATATAATTTTA
48088 ATTCATACATATTATTAATATTAATATTAATATTTTATTTTCCATTTATCTTTCTTTTTATTTTA
261 ATTCATACATATTATTAATATTAATATTAATATTTTATTTTCCATTTATCTTTCTTTTTATTTTA
*
48153 TTTTATTTTATTTTATTTCATTTCATTTTATTTATTTTTTCATTTCATTTCATTTTTATTTCATG
326 TTTTATTTTATTTCATTTCATTTCATTTTATTTATTTTTTCATTTCATTTCATTTTTATTTCATG
48218 TCCAACAAAGTCTAAATTTAGGTCCAGCAAGCGAGCCCAACCAAGCCATGCTAGCCTGACCC
391 TCCAACAAAGTCTAAATTTAGGTCCAGCAAGCGAGCCCAACCAAGCCATGCTAGCCTGACCC
48280 AA
1 AA
48282 CAAAGTATGC
Statistics
Matches: 453, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
452 453 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (452 bp):
AATAATTTTAAAAATATACAATATATATAGTTTTTGAAGATAAATAGTATAGTTTTTGAAAATAT
TATTTTTGAAAACAAATAATATATAGTTTTTAAAAAATGATTTTTGAAAACATATAATATATAGT
TTTTAAGAAACGGTTTTTGAAAACGTATATAATATAGTTTTTGAAAACATATTATTAAAACGGTT
TTTGAAAACATATATAATATATAATATTTGAAAACATATTATATTGTTTTTGAAATATAATTTTA
ATTCATACATATTATTAATATTAATATTAATATTTTATTTTCCATTTATCTTTCTTTTTATTTTA
TTTTATTTTATTTCATTTCATTTCATTTTATTTATTTTTTCATTTCATTTCATTTTTATTTCATG
TCCAACAAAGTCTAAATTTAGGTCCAGCAAGCGAGCCCAACCAAGCCATGCTAGCCTGACCC
Found at i:52602 original size:57 final size:56
Alignment explanation
Indices: 52512--52953 Score: 638
Period size: 56 Copynumber: 7.9 Consensus size: 56
52502 AATGGTACTG
*
52512 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * *
52568 TGTGTGCAAAAAGCTAAGAAATTCATAATAAGTTTAAGAATTTACGTATGAGCACTT
1 TGTGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * *
52625 TGTGTGCAAAAAGCTAAGGAATTCATAATAAGCTTATGAATTT-CTTCATGGGCACTTT
1 TGTGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGT-ATGGGCAC-TT
* *
52683 TGTGTGCAAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATAGGCACTT
1 TGTGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * *
52740 TGTGTGC-AAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCATTT
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
52795 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * *
52851 TGTGTGCAAACACTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * * * *
52907 TGTGTGC-AAGATTAAGAAATTTATAATAAGTATATGAATTTACGTAT
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
52954 TGGTAGTGCG
Statistics
Matches: 349, Mismatches: 32, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
55 80 0.23
56 122 0.35
57 96 0.28
58 50 0.14
59 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (56 bp):
TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
Found at i:52851 original size:111 final size:112
Alignment explanation
Indices: 52512--52953 Score: 642
Period size: 111 Copynumber: 3.9 Consensus size: 112
52502 AATGGTACTG
*
52512 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTT-CGTATGGGCACTTTGTGTGCAA
* *
52577 AAAGCTAAGAAATTCATAATAAGTTTAAGAATTTACGTATGAGCACTT
65 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTACGTATGGGCACTT
* * *
52625 TGTGTGCAAAAAGCTAAGGAATTCATAATAAGCTTATGAATTTCTTCATGGGCACTTTTGTGTGC
1 TGTGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCGT-ATGGGCAC-TTTGTGTGC
*
52690 AAAAAGCTAAGAAATTCATAATAAGTTTATGAATTT-CTGTATAGGCACTT
63 AAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTAC-GTATGGGCACTT
* *
52740 TGTGTGC-AAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCATTTTGTGTGCAA
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTCGTATGGGCACTTTGTGTGCAA
*
52804 AAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
65 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTACGTATGGGCACTT
* *
52851 TGTGTGCAAACACTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTGTGTGC-A
1 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTC-GTATGGGCACTTTGTGTGCAA
* * * *
52915 AGA-TTAAGAAATTTATAATAAGTATATGAATTTACGTAT
65 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTACGTAT
52954 TGGTAGTGCG
Statistics
Matches: 299, Mismatches: 22, Indels: 18
0.88 0.06 0.05
Matches are distributed among these distances:
111 87 0.29
112 61 0.20
113 46 0.15
114 44 0.15
115 61 0.20
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (112 bp):
TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGCACTTTGTGTGCAAA
AAGCTAAGAAATTCATAATAAGTTTATGAATTTACGTATGGGCACTT
Found at i:55568 original size:91 final size:91
Alignment explanation
Indices: 55413--55604 Score: 366
Period size: 91 Copynumber: 2.1 Consensus size: 91
55403 AGAGCATAAA
*
55413 GAATAAGTTAAGTACATGAACTATATTAATGTGTATATGATAAATATGTGTTCTATAGTATATAA
1 GAATAAGTTAAGTACATGAACTATATTAATGTGTATATGATAAATATGTGTTATATAGTATATAA
55478 TAATAACTTATGTCTCACATAGTAAT
66 TAATAACTTATGTCTCACATAGTAAT
*
55504 GAATAAGTTAAGTACATGAACTATATTAATGTGTATATGATAAATATGTGTTATATAGTTTATAA
1 GAATAAGTTAAGTACATGAACTATATTAATGTGTATATGATAAATATGTGTTATATAGTATATAA
55569 TAATAACTTATGTCTCACATAGTAAT
66 TAATAACTTATGTCTCACATAGTAAT
55595 GAATAAGTTA
1 GAATAAGTTA
55605 TTATCATTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 99 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (91 bp):
GAATAAGTTAAGTACATGAACTATATTAATGTGTATATGATAAATATGTGTTATATAGTATATAA
TAATAACTTATGTCTCACATAGTAAT
Found at i:58103 original size:20 final size:20
Alignment explanation
Indices: 58078--58115 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
58068 GATTGCCCAT
58078 AGGGTACCGATACCCCCAAG
1 AGGGTACCGATACCCCCAAG
58098 AGGGTACCGATACCCCCA
1 AGGGTACCGATACCCCCA
58116 TGTAAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.37, G:0.24, T:0.11
Consensus pattern (20 bp):
AGGGTACCGATACCCCCAAG
Found at i:58437 original size:94 final size:94
Alignment explanation
Indices: 58282--58469 Score: 340
Period size: 94 Copynumber: 2.0 Consensus size: 94
58272 CCAAGCTATT
58282 TTATTAATTGTTTTCACACAATAACAACTCTATTGACTCCACTAATGATCCCCAACATTCAGAAG
1 TTATTAATTGTTTTCACACAATAACAACTCTATTGACTCCACTAATGATCCCCAACATTCAGAAG
58347 TGATCCAAGGAGTATTTAAACAAGCTTAG
66 TGATCCAAGGAGTATTTAAACAAGCTTAG
* * * *
58376 TTATTAATTGTTTTCACACAATAATAGCTCTATTGACTCCACTAATGATCCCGAACTTTCAGAAG
1 TTATTAATTGTTTTCACACAATAACAACTCTATTGACTCCACTAATGATCCCCAACATTCAGAAG
58441 TGATCCAAGGAGTATTTAAACAAGCTTAG
66 TGATCCAAGGAGTATTTAAACAAGCTTAG
58470 AAGCCATTGA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (94 bp):
TTATTAATTGTTTTCACACAATAACAACTCTATTGACTCCACTAATGATCCCCAACATTCAGAAG
TGATCCAAGGAGTATTTAAACAAGCTTAG
Found at i:63983 original size:23 final size:23
Alignment explanation
Indices: 63937--63998 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
63927 TTCTGGGCTA
63937 GGTATCGATACCCCC-TTGCATG
1 GGTATCGATACCCCCTTTGCATG
*
63959 GGTACCGATACCCCCTTTG-AGTG
1 GGTATCGATACCCCCTTTGCA-TG
63982 GGTATCGATACCCCCTT
1 GGTATCGATACCCCCTT
63999 AAGGGTACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (23 bp):
GGTATCGATACCCCCTTTGCATG
Found at i:64105 original size:21 final size:23
Alignment explanation
Indices: 64074--64148 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
64064 CCTTTTCTCG
*
64074 TATTCTCTCTCGCCATTCACTCC
1 TATTCTCTCTCGCCGTTCACTCC
64097 TATTCTCTCTCGCCGTTCACTCC
1 TATTCTCTCTCGCCGTTCACTCC
*
64120 TATTCTCTCTCGCCGTTCACTTC
1 TATTCTCTCTCGCCGTTCACTCC
64143 TATTCT
1 TATTCT
64149 TACTCCTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.11, C:0.40, G:0.07, T:0.43
Consensus pattern (23 bp):
TATTCTCTCTCGCCGTTCACTCC
Done.