Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004166.1 Hibiscus syriacus cultivar Beakdansim tig00009108_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: 81777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:481 original size:102 final size:102
Alignment explanation
Indices: 342--531 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 102
332 ACTGGGAAAT
* * **
342 TGTTTGTTGACAGTCAGTCGCCCCTTTGCTGTGAAGTTGAGCTTGTGTTGTATCGAGTTTAATAT
1 TGTTTGTTGACAATCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTATCGAGTCCAATAT
*
407 CCTTCACTGTGAAGTTGGAATTGACTCCGAATAAAAC
66 CCTTCACTGTGAAGTTGAAATTGACTCCGAATAAAAC
* * * *
444 TGTTTGTTGATAATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATAT
1 TGTTTGTTGACAATCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTATCGAGTCCAATAT
509 CCTTCACTGTGAAGTTGAAATTG
66 CCTTCACTGTGAAGTTGAAATTG
532 GCTCTGAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (102 bp):
TGTTTGTTGACAATCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTATCGAGTCCAATAT
CCTTCACTGTGAAGTTGAAATTGACTCCGAATAAAAC
Found at i:1690 original size:10 final size:9
Alignment explanation
Indices: 1670--1728 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
1660 TCTCTTCTCA
*
1670 TTTTGTTTT
1 TTTTCTTTT
1679 TTTTCCTTTT
1 TTTT-CTTTT
*
1689 TTCTCTTTT
1 TTTTCTTTT
*
1698 TTTGT-TCTT
1 TTT-TCTTTT
1707 TTTTCTTTT
1 TTTTCTTTT
1716 TTGTTCTTTT
1 TT-TTCTTTT
1726 TTT
1 TTT
1729 CTTCTTCGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 1 0.02
9 23 0.56
10 17 0.41
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:1690 original size:17 final size:16
Alignment explanation
Indices: 1670--1727 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
1660 TCTCTTCTCA
*
1670 TTTTGTTTTTTTTCCTTT
1 TTTTCTTTTTTTT-C-TT
1688 TTTCTCTTTTTTTGTTCTT
1 TTT-TC-TTTTTT-TTCTT
1707 TTTTCTTTTTTGTTCTT
1 TTTTCTTTTTT-TTCTT
1724 TTTT
1 TTTT
1728 TCTTCTTCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 16 0.44
18 5 0.14
19 6 0.17
20 7 0.19
21 2 0.06
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTTTCTT
Found at i:1697 original size:18 final size:18
Alignment explanation
Indices: 1675--1731 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
1665 TCTCATTTTG
1675 TTTTTTTTCCTTTTTTCT
1 TTTTTTTTCCTTTTTTCT
*
1693 CTTTTTTTGTTCTTTTTTCT
1 -TTTTTTT-TCCTTTTTTCT
* *
1713 TTTTTGTTCTTTTTTTCT
1 TTTTTTTTCCTTTTTTCT
1731 T
1 T
1732 CTTCGAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 10 0.30
19 13 0.39
20 10 0.30
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTTTTCCTTTTTTCT
Found at i:1709 original size:28 final size:27
Alignment explanation
Indices: 1655--1734 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 27
1645 CCATCTTATT
1655 TTTTTTCTCTTCTCATTTTGTT-TTTTTTCC
1 TTTTTTCTCTT-T--TTTTGTTCTTTTTT-C
1685 TTTTTTCTCTTTTTTTGTTCTTTTTTC
1 TTTTTTCTCTTTTTTTGTTCTTTTTTC
* *
1712 TTTTTTGTTCTTTTTTTCTTCTT
1 TTTTTT-CTCTTTTTTTGTTCTT
1735 CGAATTAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.30
28 20 0.43
29 1 0.02
30 11 0.24
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTTTTCTCTTTTTTTGTTCTTTTTTC
Found at i:9491 original size:511 final size:516
Alignment explanation
Indices: 8518--9542 Score: 1846
Period size: 511 Copynumber: 2.0 Consensus size: 516
8508 TGACTTCTTT
8518 TGATGGACTCCATGGCACTTTGACTATTCTGAGCCATTTTGTCCTCCAATTCTTTCTGCAGCTTT
1 TGATGGACTCCATGGCACTTTGACTATTCTGAGCCATTTTGTCCTCCAATTCTTTCTGCAGCTTT
*
8583 GTCATGTTCTCTTCGATCTTCTCGATTCTGGCCTCCATTTGTCTCTTTTTTGCTCGAGTATTGTG
66 GTCATGTTCTCTTCAATCTTCTCGATTCTGGCCTCCATTTGTCTCTTTTTTGCTCGAGTA-T-T-
8648 CGGGTGATGCGTATCTAATACTTTCGGTGGTAAGCTTGGTGTCTGAGACATGTTCTGTTAGTTAA
128 ---GTGAT-CGTATCTAATACTTTCGGTGGTAAGCTTGGTGTCTGAGACATGTTCTGTTAGTTAA
8713 TACGAATGTAAAAAACATGGAAAATATAAAAATAAACATGAAATATAAAATGCAAAGTATGCAAT
189 TACGAATGTAAAAAACATGGAAAATATAAAAATAAACATGAAATATAAAATGCAAAGTATGCAAT
8778 GTATGATGTATGCAATTTGGAGGCATTAATCCAGAAAAGCATCCATTATTATATATAATCCTTAT
254 GTATGATGTATGCAATTTGGAGGCATTAATCCAGAAAAGCATCCATTATTATATATAATCCTTAT
8843 TCAGACAAAAATGTTTTATATTATAAGAGACATAAAAACAAATTAAAGGTACATCCGGACTAAAT
319 TCAGACAAAAATGTTTTATATTATAAGAGACATAAAAACAAATTAAAGGTACATCCGGACTAAAT
8908 CCTCTAGACCCTGAACAACTTCAAGTAGGTTGACAAGTCTTCTGCCTTCATCTGTCACTGGTTGA
384 CCTCTAGACCCTGAACAACTTCAAGTAGGTTGACAAGTCTTCTGCCTTCATCTGTCACTGGTTGA
8973 ATGCCTTGTCAAACCACTCCCGCTTCCCTTGTCAGG-TCGTGAAGATGACGGACTGCCTTTGTCT
449 ATGCCTTGTCAAACCACTCCCGCTTCCCTTGTCAGGCT-GTGAAGATGACGGACTGCCTTTGTCT
9037 ATTC
513 ATTC
*
9041 TGATGGACTCCATGGTACTTTGACTATTCTGAGCCATTTTGTCCTCCAATTCTTTCTGCAGCTTT
1 TGATGGACTCCATGGCACTTTGACTATTCTGAGCCATTTTGTCCTCCAATTCTTTCTGCAGCTTT
9106 GTCATGTTCTCTTCAATCTTCTCGATTCTGGCCTCCATTTGTCTCTTTTTTGCTCGAGTA-T-TG
66 GTCATGTTCTCTTCAATCTTCTCGATTCTGGCCTCCATTTGTCTCTTTTTTGCTCGAGTATTGTG
*
9169 -T-G-ATCTAATACTTTCGGTGGTAAGCTTGGTGTCTGAGACATGTTCTGTTAGTTAATATGAAT
131 ATCGTATCTAATACTTTCGGTGGTAAGCTTGGTGTCTGAGACATGTTCTGTTAGTTAATACGAAT
9231 GTAAAAAACATGGAAAATATAAAAATAAACATGAAATATAAAATGCAAAGTATGCAATGTATGAT
196 GTAAAAAACATGGAAAATATAAAAATAAACATGAAATATAAAATGCAAAGTATGCAATGTATGAT
* * * **
9296 GTTTGCAATTTGGAGGTATTGATCCAGAAAAGTGTCCATTATTATATATAATCCTTATTCAGACA
261 GTATGCAATTTGGAGGCATTAATCCAGAAAAGCATCCATTATTATATATAATCCTTATTCAGACA
*
9361 AAAATGTTTTATATTTTAAGAGACATAAAAACAAATTAAAGGTACATCCGGACTAAATCCTCTAG
326 AAAATGTTTTATATTATAAGAGACATAAAAACAAATTAAAGGTACATCCGGACTAAATCCTCTAG
9426 ACCCTGAACAACTTCAAGTAGGTTGACAAGTCTTCTGCCTTCATCTGTCACTGGTTGAATGCCTT
391 ACCCTGAACAACTTCAAGTAGGTTGACAAGTCTTCTGCCTTCATCTGTCACTGGTTGAATGCCTT
*
9491 GTCAAACCACTCCCGCTTCCCTTGTCAGGCTGTGAAGATGACGGGCTGCCTT
456 GTCAAACCACTCCCGCTTCCCTTGTCAGGCTGTGAAGATGACGGACTGCCTT
9543 CTACACTTGA
Statistics
Matches: 491, Mismatches: 10, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
511 362 0.74
512 2 0.00
514 1 0.00
515 2 0.00
520 1 0.00
523 123 0.25
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (516 bp):
TGATGGACTCCATGGCACTTTGACTATTCTGAGCCATTTTGTCCTCCAATTCTTTCTGCAGCTTT
GTCATGTTCTCTTCAATCTTCTCGATTCTGGCCTCCATTTGTCTCTTTTTTGCTCGAGTATTGTG
ATCGTATCTAATACTTTCGGTGGTAAGCTTGGTGTCTGAGACATGTTCTGTTAGTTAATACGAAT
GTAAAAAACATGGAAAATATAAAAATAAACATGAAATATAAAATGCAAAGTATGCAATGTATGAT
GTATGCAATTTGGAGGCATTAATCCAGAAAAGCATCCATTATTATATATAATCCTTATTCAGACA
AAAATGTTTTATATTATAAGAGACATAAAAACAAATTAAAGGTACATCCGGACTAAATCCTCTAG
ACCCTGAACAACTTCAAGTAGGTTGACAAGTCTTCTGCCTTCATCTGTCACTGGTTGAATGCCTT
GTCAAACCACTCCCGCTTCCCTTGTCAGGCTGTGAAGATGACGGACTGCCTTTGTCTATTC
Found at i:12817 original size:29 final size:28
Alignment explanation
Indices: 12755--12820 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
12745 AAATATATAT
*
12755 AAATAATAATAATAATAATAAAGGCAAA
1 AAATAATAATAATAAAAATAAAGGCAAA
* *
12783 AGAATAATAATATTAAAAATGAAAATG-AAA
1 A-AATAATAATAATAAAAAT--AAAGGCAAA
12813 AAATAATA
1 AAATAATA
12821 GAAAAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.03
29 23 0.72
30 4 0.12
31 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (28 bp):
AAATAATAATAATAAAAATAAAGGCAAA
Found at i:12833 original size:2 final size:2
Alignment explanation
Indices: 12828--12870 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
12818 ATAGAAAAAC
*
12828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12870 A
1 A
12871 GGATATGGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12949 original size:15 final size:13
Alignment explanation
Indices: 12926--13030 Score: 55
Period size: 13 Copynumber: 8.2 Consensus size: 13
12916 AACTATACAA
*
12926 ATATTAATAATAAGT
1 ATATAAATAA-AA-T
12941 ATATAAATAAAAT
1 ATATAAATAAAAT
*
12954 ATATATAA-AAAAC
1 ATATA-AATAAAAT
* *
12967 ATATATAT-ATAT
1 ATATAAATAAAAT
*
12979 ATATAAAT---GT
1 ATATAAATAAAAT
12989 ATATACAATAAAAT
1 ATATA-AATAAAAT
13003 A-ATAATATAAAAT
1 ATATAA-ATAAAAT
13016 A-ATAAA-AATAAT
1 ATATAAATAA-AAT
13028 ATA
1 ATA
13031 AGGGTTAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
10 6 0.08
11 5 0.07
12 16 0.22
13 31 0.42
14 6 0.08
15 9 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATATAAATAAAAT
Found at i:13025 original size:9 final size:10
Alignment explanation
Indices: 12943--13031 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 10
12933 TAATAAGTAT
12943 ATAA-ATAAA
1 ATAATATAAA
12952 ATATATATAAA
1 ATA-ATATAAA
* *
12963 A-AACATATAT
1 ATAATATA-AA
12973 ATATATATATAA
1 ATA-ATATA-AA
* *
12985 ATGTATATACA
1 AT-AATATAAA
*
12996 ATAA-A-ATA
1 ATAATATAAA
13004 ATAATATAAA
1 ATAATATAAA
13014 ATAATA-AAA
1 ATAATATAAA
13023 ATAATATAA
1 ATAATATAA
13032 GGGTTAAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
8 6 0.10
9 18 0.29
10 15 0.24
11 10 0.16
12 13 0.21
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (10 bp):
ATAATATAAA
Found at i:15256 original size:24 final size:24
Alignment explanation
Indices: 15228--15278 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
15218 GTTCTATATT
15228 TATATGAAA-TAACA-AATTAAAAAA
1 TATATGAAAGTAA-ATAA-TAAAAAA
*
15252 TATATTAAAGTAAATAATAAAAAA
1 TATATGAAAGTAAATAATAAAAAA
15276 TAT
1 TAT
15279 GATTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (24 bp):
TATATGAAAGTAAATAATAAAAAA
Found at i:17908 original size:20 final size:20
Alignment explanation
Indices: 17852--17914 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 20
17842 GTATCAATAC
*
17852 TGGTAAGGGGTATCGATACCC
1 TGGTAA-GGGTATCGATACCA
* *
17873 TAGTAGGGTAGTATCGATACCA
1 TGGTAAGG--GTATCGATACCA
17895 TGGTAAGGGTATCGATACCA
1 TGGTAAGGGTATCGATACCA
17915 GGCAACATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.40
21 4 0.11
22 17 0.49
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (20 bp):
TGGTAAGGGTATCGATACCA
Found at i:17959 original size:95 final size:96
Alignment explanation
Indices: 17783--17955 Score: 278
Period size: 95 Copynumber: 1.8 Consensus size: 96
17773 ATACCGATGA
* *
17783 GGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCGAATCTATTTTTGGTATCA
1 GGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCAAACCTATTTTTGGTATCA
*
17848 ATACTGGTAAGGGGTATCGATACCCTAGTAG
66 ATACTCGTAAGGGGTATCGATACCCTAGTAG
* * *
17879 GGTAGTATCGATACCATGGTAAGGG-TATCGATACCAGGCAACATCAAACCTATTTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCAAACCTATTTTTGGTATCA
17943 ATACTCG-AAGGGG
66 ATACTCGTAAGGGG
17956 GTATTGGTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 6 0.08
95 40 0.56
96 25 0.35
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (96 bp):
GGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCAAACCTATTTTTGGTATCA
ATACTCGTAAGGGGTATCGATACCCTAGTAG
Found at i:17972 original size:95 final size:96
Alignment explanation
Indices: 17768--17972 Score: 276
Period size: 95 Copynumber: 2.2 Consensus size: 96
17758 ATTCAATCAA
*
17768 TATCGATACCGAT-G-A-GGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCG
1 TATCGATACC-ATAGTAGGGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCA
* *
17830 AATCTATTTTTGGTATCAATACTGGTAAGGGG
65 AACCTATTTTTGGTATCAATACTCGTAAGGGG
* * *
17862 TATCGATACCCTAGTAGGGTAGTATCGATACCATGGTAAGGG-TATCGATACCAGGCAACATCAA
1 TATCGATACCATAGTAGGGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCAA
*
17926 ACCTATTTTTGGTATCGATACTCG-AAGGGGG
66 ACCTATTTTTGGTATCAATACTCGTAA-GGGG
* *
17957 TATTGGTACCATAGTA
1 TATCGATACCATAGTA
17973 TAGAAGTATC
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
93 1 0.01
94 13 0.13
95 58 0.60
96 25 0.26
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (96 bp):
TATCGATACCATAGTAGGGTAGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCAA
ACCTATTTTTGGTATCAATACTCGTAAGGGG
Found at i:18002 original size:95 final size:95
Alignment explanation
Indices: 17786--18007 Score: 241
Period size: 95 Copynumber: 2.3 Consensus size: 95
17776 CCGATGAGGT
* * * *
17786 AGTATCGATACCATGGTAAGGGATATCGATACCAAGAAACATCGAATCTATTTTTGGTATCAATA
1 AGTATCGATACCAGGGTAAGAG-TATCGATACCAAGAAACATCAAACCTATTTTTGGTATCAATA
* * * *
17851 CTGGTAAGGGGTATCGATACCCTAGTAGGGT
65 CTCGTAAGGGGTATCGATACCATAGTAGAGA
* * * * *
17882 AGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCAAACCTATTTTTGGTATCGATAC
1 AGTATCGATACCAGGGTAAGAGTATCGATACCAAGAAACATCAAACCTATTTTTGGTATCAATAC
* * *
17947 TCG-AAGGGGGTATTGGTACCATAGTATAGA
66 TCGTAA-GGGGTATCGATACCATAGTAGAGA
* *
17977 AGTATCGGTACTAGGGT-AGTAGTATCGATAC
1 AGTATCGATACCAGGGTAAG-AGTATCGATAC
18008 TATGGAGCCA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
94 4 0.04
95 82 0.76
96 22 0.20
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCAGGGTAAGAGTATCGATACCAAGAAACATCAAACCTATTTTTGGTATCAATAC
TCGTAAGGGGTATCGATACCATAGTAGAGA
Found at i:18361 original size:59 final size:58
Alignment explanation
Indices: 18260--18426 Score: 192
Period size: 59 Copynumber: 2.9 Consensus size: 58
18250 ATTACCAAAT
* * * * * *
18260 GGCACTTCGTGTGCAAAATGTTAAGAAATTCATACTATGTGTACGAATTTCCATATAG
1 GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTACATATAG
* ** *
18318 GGCACTTTGTGTGCTAACATGATAAGAAATTCATGCTAAGTGTATGAATTTATGTATTG
1 GGCACTTTGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTACATATAG
* * *
18377 GGCACCTTGTGTACTAAAGGA-ATAGAAATTCATACTAAGTGTATGAATTT
1 GGCACTTTGTGTGCTAAATGATA-AGAAATTCATACTAAGTGTATGAATTT
18427 TCGTATGAGA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
57 1 0.01
58 44 0.47
59 48 0.52
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (58 bp):
GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTACATATAG
Found at i:18911 original size:68 final size:68
Alignment explanation
Indices: 18802--19127 Score: 445
Period size: 68 Copynumber: 4.9 Consensus size: 68
18792 AAAAGATCAA
* * * *
18802 GAGGCCTGACTGTGCATATGACAGAAAGGTGACATTTATGTCAGTTAGATGAAAGACAAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTGTC
18867 TTT
66 TTT
*
18870 GAGGCCTAACTGTGCATATGATAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTGTC
18935 --T
66 TTT
* *
18936 ------TAATTGTGCATATGACAGAAATGTGTCATTTATGTCAATTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTGTC
18995 TTT
66 TTT
* *
18998 GAGGCCTAACTGTGCATATGACATAAATGTGTCATTTAT-TCCAGTTTGATGAAAGACTAAGTGT
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGT-CAGTTAGATGAAAGACTAAGTGT
19062 CTTT
65 CTTT
* * * * * *
19066 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGGCAATTAGATGAACGATTAAGT
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGT
19128 ACCGTTGAGT
Statistics
Matches: 228, Mismatches: 20, Indels: 20
0.85 0.07 0.07
Matches are distributed among these distances:
60 56 0.25
62 1 0.00
66 1 0.00
67 1 0.00
68 169 0.74
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:19026 original size:128 final size:130
Alignment explanation
Indices: 18810--19127 Score: 444
Period size: 128 Copynumber: 2.4 Consensus size: 130
18800 AAGAGGCCTG
* * *
18810 ACTGTGCATATGACAGAAAGGTGACATTTATGTCAGTTAGATGAAAGACAAAGTGTCTTTGAGGC
1 ACTGTGCATATGACAGAAAGGTGTCATTTATGTCAATTAGATGAAAGACTAAGTGTCTTTGAGGC
*
18875 CTAACTGTGCATATGATAGAAATGTGTCATTTATGT-CAGTTAGATGAAAGACTAAGTGTC-T-T
66 CTAACTGTGCATATGACAGAAATGTGTCATTTAT-TCCAGTTAGATGAAAGACTAAGTGTCTTGT
18937 A
130 A
* *
18938 ATTGTGCATATGACAGAAATGTGTCATTTATGTCAATTAGATGAAAGACTAAGTGTCTTTGAGGC
1 ACTGTGCATATGACAGAAAGGTGTCATTTATGTCAATTAGATGAAAGACTAAGTGTCTTTGAGGC
* *
19003 CTAACTGTGCATATGACATAAATGTGTCATTTATTCCAGTTTGATGAAAGACTAAGTGTCTTTGA
66 CTAACTGTGCATATGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGACTAAGTGTC-TT--
19068 GGCCTA
128 -G--TA
* * * *
19074 ACTGTGCATATGACAGAAAGGTGTCAATTATGGCAATTAGATGAACGATTAAGT
1 ACTGTGCATATGACAGAAAGGTGTCATTTATGTCAATTAGATGAAAGACTAAGT
19128 ACCGTTGAGT
Statistics
Matches: 167, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
127 1 0.01
128 115 0.69
130 1 0.01
136 50 0.30
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (130 bp):
ACTGTGCATATGACAGAAAGGTGTCATTTATGTCAATTAGATGAAAGACTAAGTGTCTTTGAGGC
CTAACTGTGCATATGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGACTAAGTGTCTTGTA
Found at i:19267 original size:2 final size:2
Alignment explanation
Indices: 19260--19293 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19250 TGAAGGGATG
19260 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
19294 TGTACAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26139 original size:23 final size:23
Alignment explanation
Indices: 26109--26165 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
26099 TGAAGTAATG
26109 TTCTCAAATATAGCATTAGGGTA
1 TTCTCAAATATAGCATTAGGGTA
26132 TTCTCAAATATAGCATTAGGGTA
1 TTCTCAAATATAGCATTAGGGTA
26155 TTCTC-AATATA
1 TTCTCAAATATA
26166 CAAAGATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 6 0.18
23 28 0.82
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (23 bp):
TTCTCAAATATAGCATTAGGGTA
Found at i:27800 original size:41 final size:41
Alignment explanation
Indices: 27727--27812 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
27717 TCATCTACCA
*
27727 ACTACCCACAACGATATGACTTTTTACATCCACA-CCACCC
1 ACTACCCACAACGATATAACTTTTTACATCCACACCCACCC
* * *
27767 ACTACCCACAACATATATAACTTTTTACGTCCACACCCGCCC
1 ACTACCCACAAC-GATATAACTTTTTACATCCACACCCACCC
27809 ACTA
1 ACTA
27813 TCTACTAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 12 0.30
41 19 0.47
42 9 0.22
ACGTcount: A:0.33, C:0.40, G:0.05, T:0.23
Consensus pattern (41 bp):
ACTACCCACAACGATATAACTTTTTACATCCACACCCACCC
Found at i:28684 original size:2 final size:2
Alignment explanation
Indices: 28677--28720 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
28667 CTATGTATGC
28677 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
28719 AT
1 AT
28721 TGAATGAAAT
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:34486 original size:3 final size:3
Alignment explanation
Indices: 34478--34673 Score: 131
Period size: 3 Copynumber: 66.7 Consensus size: 3
34468 TATTTTACTT
* * *
34478 TAA TAA TAA TAA TAA TAA TAA TAA TTAG TAA TAA TAC TAA CAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* * ** *
34523 TAA TAG TAA TAA TAG T-A TAA TAA TAA TGCT TAA -AA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * *
34567 TAA TAC TAA T-A TAA T-A TAG TAA T-A TAA CTATA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA
* * * **
34611 TAA T-A TAA TAA TAG T-A TAA TAA TAA TAC TAA -CA TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
34656 TAG TAA TATA TAA TAA TA
1 TAA TAA TA-A TAA TAA TA
34674 TGGTTGGATA
Statistics
Matches: 145, Mismatches: 34, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
2 15 0.10
3 119 0.82
4 10 0.07
5 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:34522 original size:25 final size:25
Alignment explanation
Indices: 34481--34672 Score: 106
Period size: 25 Copynumber: 7.9 Consensus size: 25
34471 TTTACTTTAA
*
34481 TAATAATAATAATAATAATAATTAG
1 TAATAATACTAATAATAATAATTAG
*
34506 TAATAATACTAACAAT-ATAA-TAG
1 TAATAATACTAATAATAATAATTAG
*
34529 TAATAATAGT-ATAATAATAATGCTTA-
1 TAATAATACTAATAATAATAA---TTAG
* *
34555 AAATAATACTAATAATACTAA-TA-
1 TAATAATACTAATAATAATAATTAG
*
34578 TAAT-ATAGTAAT-ATAACTATATAATAG
1 TAATAATACTAATAATAA-TA-AT--TAG
* * *
34605 TAATAATAAT-ATAATAATAGTATAA
1 TAATAATACTAATAATAATAAT-TAG
*
34630 TAATAATACTAA-CATAAT--TT--
1 TAATAATACTAATAATAATAATTAG
*
34650 TAATAATAGTAATATATAATAAT
1 TAATAATACTAATA-ATAATAAT
34673 ATGGTTGGAT
Statistics
Matches: 131, Mismatches: 17, Indels: 39
0.70 0.09 0.21
Matches are distributed among these distances:
20 11 0.08
21 3 0.02
22 19 0.15
23 23 0.18
24 5 0.04
25 31 0.24
26 12 0.09
27 19 0.15
28 8 0.06
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
TAATAATACTAATAATAATAATTAG
Found at i:37316 original size:25 final size:24
Alignment explanation
Indices: 37278--37325 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
37268 CGGTCTGACT
37278 ATATATTTAACCTTCAAACTTTTTA
1 ATATATTTAACCTT-AAACTTTTTA
*
37303 ATAT-TTTAATCCTTTAACTTTTT
1 ATATATTTAA-CCTTAAACTTTTT
37326 CTTATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATTTAACCTTAAACTTTTTA
Found at i:37321 original size:24 final size:25
Alignment explanation
Indices: 37294--37363 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
37284 TTAACCTTCA
*
37294 AACTTTTTAATATTTTAAT-CCTTT
1 AACTTTTTAATATTTTAATAACTTT
** *
37318 AACTTTTTCTTATTTTTTATAACTTT
1 AACTTTTTAATA-TTTTAATAACTTT
*
37344 AA-TTTTTAATTTTTTAATAA
1 AACTTTTTAATATTTTAATAA
37364 TATAAAATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 18 0.50
25 12 0.33
26 6 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (25 bp):
AACTTTTTAATATTTTAATAACTTT
Found at i:37672 original size:19 final size:19
Alignment explanation
Indices: 37648--37685 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37638 AGTTGATTTG
37648 ATTTAACAA-AAGATATAAA
1 ATTTAACAATAA-ATATAAA
*
37667 ATTTAAGAATAAATATAAA
1 ATTTAACAATAAATATAAA
37686 TAAAAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (19 bp):
ATTTAACAATAAATATAAA
Found at i:39236 original size:45 final size:46
Alignment explanation
Indices: 39187--39274 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
39177 GAACATTGAA
* * **
39187 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATGCACAAGACCAAACATCGATGCACTTAG
39232 TGCATTTGATGCATCGATGCACAAGACCAAACATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGACCAAACATCGATGCACT
39275 CAGGCTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCAAACATCGATGCACTTAG
Found at i:47518 original size:26 final size:26
Alignment explanation
Indices: 47488--47553 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
47478 TGCACATACT
47488 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
47514 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
47540 ATGCATCGATGCAC
1 ATGCATCGATGCAC
47554 AAGACCATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (26 bp):
ATGCATCGATGCACTCAGTGCATTTG
Found at i:48556 original size:15 final size:15
Alignment explanation
Indices: 48536--48569 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48526 TTTCTTTAAA
*
48536 AAATATGTTTCTTTT
1 AAATATGTTTATTTT
*
48551 AAATATTTTTATTTT
1 AAATATGTTTATTTT
48566 AAAT
1 AAAT
48570 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
AAATATGTTTATTTT
Found at i:49241 original size:2 final size:2
Alignment explanation
Indices: 49234--49292 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
49224 GTGTTTAAAC
49234 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
49276 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
49293 TTAGGTTTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52048 original size:14 final size:14
Alignment explanation
Indices: 52029--52057 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
52019 ATTCAAACGC
52029 CATGATCAAATGTT
1 CATGATCAAATGTT
52043 CATGATCAAATGTT
1 CATGATCAAATGTT
52057 C
1 C
52058 TGTAGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (14 bp):
CATGATCAAATGTT
Found at i:55454 original size:18 final size:16
Alignment explanation
Indices: 55431--55465 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
55421 TTTTATTATT
55431 TATATA-AATAAATATA
1 TATATATAATAAATA-A
55447 TATATATAATAAATAA
1 TATATATAATAAATAA
55463 TAT
1 TAT
55466 TTGTTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATATAATAAATAA
Found at i:55756 original size:120 final size:119
Alignment explanation
Indices: 55527--55749 Score: 283
Period size: 120 Copynumber: 1.9 Consensus size: 119
55517 TTTTAATATA
* * *
55527 TATTTATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAACAACTGTATGTCCATTTTCTGAT
1 TATTTATTTATTTTTCAATATGAAGAAAGAGCAGTCTTAAAACAACTGTAAGTCCATTTTCTGAT
* *
55592 ATTTTTAAATAAATAAATATCATATTTTTTAAATCATATATTAATTGTTTTAAT
66 ATTTCTAAATAAATAAATATCATATTTTATAAATCATATATTAATTGTTTTAAT
* * ** *
55646 TATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAG-AAGTCC-TTTTCT
1 TATTTATTTATTTTTCAATAT-GAAG-AAAGAGCAGTCTTAAAACAACT-GTAAGTCCATTTTCT
**
55709 GATATTTCTAAATAAATAAATATTTTA-TTTATAAAT-ATATA
63 GATATTTCTAAATAAATAAATATCATATTTTATAAATCATATA
55750 AATTAATATA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
118 5 0.06
119 28 0.31
120 33 0.37
121 22 0.25
122 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (119 bp):
TATTTATTTATTTTTCAATATGAAGAAAGAGCAGTCTTAAAACAACTGTAAGTCCATTTTCTGAT
ATTTCTAAATAAATAAATATCATATTTTATAAATCATATATTAATTGTTTTAAT
Found at i:57540 original size:3 final size:3
Alignment explanation
Indices: 57534--57591 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
57524 AAAAATAGTA
* * *
57534 TAT TAT TAT TAT TAT TAAA AAT TAT TAT TAT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57580 TAT TAT TAT TAT
1 TAT TAT TAT TAT
57592 ATTTATAGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 47 0.98
4 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:59137 original size:49 final size:49
Alignment explanation
Indices: 59082--59179 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
59072 TGCCTTTTAG
59082 TTTTTTAATGACTTTTTGTCCATTAGCTTGATGAATAATTAAGCAATAT
1 TTTTTTAATGACTTTTTGTCCATTAGCTTGATGAATAATTAAGCAATAT
59131 TTTTTTAATGACTTTTTGTCCATTAGCTTGATGAATAATTAAGCAATAT
1 TTTTTTAATGACTTTTTGTCCATTAGCTTGATGAATAATTAAGCAATAT
59180 CCTCGGGATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (49 bp):
TTTTTTAATGACTTTTTGTCCATTAGCTTGATGAATAATTAAGCAATAT
Found at i:62596 original size:14 final size:13
Alignment explanation
Indices: 62574--62612 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
62564 TGACTTTTTG
62574 GTCAAAGTCAACAA
1 GTCAAAGTCAAC-A
*
62588 GTTAAAGTCAACA
1 GTCAAAGTCAACA
62601 GTCAAAGTCAAC
1 GTCAAAGTCAAC
62613 GGGTTGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (13 bp):
GTCAAAGTCAACA
Found at i:71532 original size:23 final size:23
Alignment explanation
Indices: 71468--71533 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
71458 TATGAATTTG
*
71468 TCCCGAAGGACCGCGTAGAAATG
1 TCCCGAAGGACCGCGTAGAAATA
** * *** *
71491 TAACGAATGACCATATAGAATTA
1 TCCCGAAGGACCGCGTAGAAATA
71514 TCCCGAAGGACCGCGTAGAA
1 TCCCGAAGGACCGCGTAGAA
71534 CTCTCAACTC
Statistics
Matches: 29, Mismatches: 14, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (23 bp):
TCCCGAAGGACCGCGTAGAAATA
Found at i:78771 original size:21 final size:23
Alignment explanation
Indices: 78741--78796 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
78731 GTACCGATAC
78741 GTGTATCGATACA-T-ATTGAAT
1 GTGTATCGATACACTCATTGAAT
* *
78762 GTGTACCGATACACTCCTTGAAT
1 GTGTATCGATACACTCATTGAAT
78785 GTGTATCGATAC
1 GTGTATCGATAC
78797 CCGAGGGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 1 0.03
23 17 0.57
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (23 bp):
GTGTATCGATACACTCATTGAAT
Found at i:80737 original size:26 final size:26
Alignment explanation
Indices: 80707--80759 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
80697 ATGGTTAAAC
*
80707 TTGAATGTTTGAATATTGTGGTTGTT
1 TTGAATGTTTGAATATTATGGTTGTT
**
80733 TTGAATGTTTTTATATTATGGTTGTT
1 TTGAATGTTTGAATATTATGGTTGTT
80759 T
1 T
80760 GGATTTGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (26 bp):
TTGAATGTTTGAATATTATGGTTGTT
Found at i:81090 original size:13 final size:13
Alignment explanation
Indices: 81061--81095 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
81051 GGGGAGTAAT
*
81061 TTTTCAAAATTGA
1 TTTTCAAAAATGA
81074 -TTTCAAAAATGA
1 TTTTCAAAAATGA
81086 TTTTCAAAAA
1 TTTTCAAAAA
81096 GAAAATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAATGA
Done.