Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016341.1 Corchorus capsularis cultivar CVL-1 contig16362, 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: 71281
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Found at i:3254 original size:48 final size:48
Alignment explanation
Indices: 3183--3280 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
3173 ATGTTAATTT
* * *
3183 AATACCAAAATATTATGAGATTAGAGCAAATCATAACACTTATGAATC
1 AATACAAAAATATTATGAGATTAGAACAAATCATAACACTCATGAATC
3231 AATACAAAAATATTATGAGATTAGAACAAATCATAACACTCATGAATC
1 AATACAAAAATATTATGAGATTAGAACAAATCATAACACTCATGAATC
3279 AA
1 AA
3281 ATTAGTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (48 bp):
AATACAAAAATATTATGAGATTAGAACAAATCATAACACTCATGAATC
Found at i:3722 original size:26 final size:26
Alignment explanation
Indices: 3681--3731 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
3671 ATATATAATT
3681 ATTATATAATAATAAGAAGTTTAACA
1 ATTATATAATAATAAGAAGTTTAACA
* * *
3707 ATTATATCATACTAAGATGTTTAAC
1 ATTATATAATAATAAGAAGTTTAAC
3732 GTAATATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (26 bp):
ATTATATAATAATAAGAAGTTTAACA
Found at i:3754 original size:29 final size:30
Alignment explanation
Indices: 3719--3792 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
3709 TATATCATAC
3719 TAAGATGTTTAACGTAATATCTAAAAAA-A
1 TAAGATGTTTAACGTAATATCTAAAAAAGA
*
3748 TAAGATGTTTAATGTAATATCTAAAAAAGA
1 TAAGATGTTTAACGTAATATCTAAAAAAGA
* *
3778 AAAGATGCTTAACGT
1 TAAGATGTTTAACGT
3793 GTAAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.31
Consensus pattern (30 bp):
TAAGATGTTTAACGTAATATCTAAAAAAGA
Found at i:7261 original size:19 final size:19
Alignment explanation
Indices: 7237--7278 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7227 TATTTATTAA
7237 TTTATTT-TAATATTAAATT
1 TTTATTTAT-ATATTAAATT
*
7256 TTTATTTATATATTACATT
1 TTTATTTATATATTAAATT
7275 TTTA
1 TTTA
7279 CTTAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATTTATATATTAAATT
Found at i:7417 original size:13 final size:13
Alignment explanation
Indices: 7399--7423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7389 TATATATTAA
7399 ATATGATTTATGG
1 ATATGATTTATGG
7412 ATATGATTTATG
1 ATATGATTTATG
7424 AGGTTATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
ATATGATTTATGG
Found at i:7579 original size:2 final size:2
Alignment explanation
Indices: 7567--7599 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7557 ATATGTAGTG
*
7567 TA TA TA AA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7600 ACATATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8047 original size:178 final size:178
Alignment explanation
Indices: 7776--8116 Score: 416
Period size: 178 Copynumber: 1.9 Consensus size: 178
7766 ATATTAGTTG
* * * * *
7776 TTTCGGTTAACGGGAATGGACGATCCACTTAATATAACATTACTTTTTCTCCAGATGTCTTATTG
1 TTTCGGTTAACGAGAATGAACGATCCACTTAATATAACATTAATTTTTCTCCAAATGTCTGATTG
* * * *
7841 AGCTGATTCAAGTGTCCCATAAAAGGTTATTTTGTGATCTACAACTTTCATGCAGGACTCGAAAG
66 AGCTGATTCAAGTATACCATAAAAGGTTATTTCGTGATCTACAACTTTCATGCAGAACTCGAAAG
* * *
7906 TTAAATTTAATGTTTCAAGTATAAAAAATGCTTTCAAAAAAGTAATTT
131 CTAAATTTAATGTTTCAAATACAAAAAATGCTTTCAAAAAAGTAATTT
* * *
7954 TTTCGGTTAGCGAGAATGAATGGTCCACTTAATA-ATACA-TAATTTTTGCTCCAAATGTCTGAT
1 TTTCGGTTAACGAGAATGAACGATCCACTTAATATA-ACATTAATTTTT-CTCCAAATGTCTGAT
* *** * * * *
8017 TGAGGTGATTCAAGTATATGTTATAAGGTTATTTCGTGATCTTCAACTTTCATGTAGAACTTGAA
64 TGAGCTGATTCAAGTATACCATAAAAGGTTATTTCGTGATCTACAACTTTCATGCAGAACTCGAA
* * *
8082 AGCTAAATTTGATTTTTCAAATACCAAAAATGCTT
129 AGCTAAATTTAATGTTTCAAATACAAAAAATGCTT
8117 CTGAAAAATT
Statistics
Matches: 135, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
177 8 0.06
178 127 0.94
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (178 bp):
TTTCGGTTAACGAGAATGAACGATCCACTTAATATAACATTAATTTTTCTCCAAATGTCTGATTG
AGCTGATTCAAGTATACCATAAAAGGTTATTTCGTGATCTACAACTTTCATGCAGAACTCGAAAG
CTAAATTTAATGTTTCAAATACAAAAAATGCTTTCAAAAAAGTAATTT
Found at i:8941 original size:12 final size:12
Alignment explanation
Indices: 8906--8944 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8896 AGTTTTTCCA
*
8906 TATGTATATATA
1 TATGTATATATG
*
8918 TATATATATATG
1 TATGTATATATG
*
8930 TATGTATGTATG
1 TATGTATATATG
8942 TAT
1 TAT
8945 TCTTGGCTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (12 bp):
TATGTATATATG
Found at i:9796 original size:2 final size:2
Alignment explanation
Indices: 9783--9834 Score: 86
Period size: 2 Copynumber: 25.0 Consensus size: 2
9773 GTTAAAAATA
9783 AT AT AT AGT AT AT AT AT AT AT AT AGT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
9827 AT AT AT AT
1 AT AT AT AT
9835 TTCTTTGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 44 0.92
3 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10105 original size:127 final size:127
Alignment explanation
Indices: 9878--10132 Score: 449
Period size: 127 Copynumber: 2.0 Consensus size: 127
9868 GATTGAATCA
*
9878 AATTAATTCTTATAATTATTGGTTTGTTTTTTATCTTAATATCAAATATCAATGATACTAAAAGA
1 AATTAATTCCTATAATTATTGGTTTGTTTTTTATCTTAATATCAAATATCAATGATACTAAAAGA
9943 CAATAATTATTGTATTTTCCGTTATACTTTATATATGACTATATATATGGATTCACCTCTAT
66 CAATAATTATTGTATTTTCCGTTATACTTTATATATGACTATATATATGGATTCACCTCTAT
*
10005 AATTAATTCCTATAATTATTGGTTTGTTTTTTATCTTAATATCAAATATCAATGATACTAAATGA
1 AATTAATTCCTATAATTATTGGTTTGTTTTTTATCTTAATATCAAATATCAATGATACTAAAAGA
* * *
10070 TAATTATTATTGTCA-TTTCCGTTATACTTTGTATATGACTATATATATGGATTCACCTCTAT
66 CAATAATTATTGT-ATTTTCCGTTATACTTTATATATGACTATATATATGGATTCACCTCTAT
10132 A
1 A
10133 GCTCACTCTG
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
127 121 0.99
128 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (127 bp):
AATTAATTCCTATAATTATTGGTTTGTTTTTTATCTTAATATCAAATATCAATGATACTAAAAGA
CAATAATTATTGTATTTTCCGTTATACTTTATATATGACTATATATATGGATTCACCTCTAT
Found at i:13537 original size:34 final size:34
Alignment explanation
Indices: 13466--13537 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
13456 CGTTACTGAT
***
13466 TTGTACTAGTTGGTTAATTTTCATGCATTATGGA
1 TTGTACTAGTTGGTTAATTTTCATGCATTACAAA
* * * *
13500 TTGTACTAGTTGGTTGATTTTCGTGCGTTGCAAA
1 TTGTACTAGTTGGTTAATTTTCATGCATTACAAA
13534 TTGT
1 TTGT
13538 TTTGATTAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.47
Consensus pattern (34 bp):
TTGTACTAGTTGGTTAATTTTCATGCATTACAAA
Found at i:13647 original size:85 final size:84
Alignment explanation
Indices: 13482--13647 Score: 253
Period size: 85 Copynumber: 2.0 Consensus size: 84
13472 TAGTTGGTTA
* * * *
13482 ATTTTCATGCATTATGGATTGTACTAGTTGGTTGATTTTCGTGCGTTGCAAATTGTTTTGATTAG
1 ATTTTCATGCATTATGGATTGTACTAGCTAGTTGATTTTCGTGCATTACAAATTGTTTTGATTAG
13547 CTAATTCTAACAATTTCAG
66 CTAATTCTAACAATTTCAG
13566 ATTTTCATGCATTATGGATTGTACTAGCTAGTTGATTTTTCAG-GCATTACAAATTGTTTTGATT
1 ATTTTCATGCATTATGGATTGTACTAGCTAGTTGA-TTTTC-GTGCATTACAAATTGTTTTGATT
* *
13630 GGCTAATTCTTACAATTT
64 AGCTAATTCTAACAATTT
13648 TAAACGTTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 33 0.45
85 40 0.54
86 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (84 bp):
ATTTTCATGCATTATGGATTGTACTAGCTAGTTGATTTTCGTGCATTACAAATTGTTTTGATTAG
CTAATTCTAACAATTTCAG
Found at i:17331 original size:24 final size:24
Alignment explanation
Indices: 17251--17332 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
17241 TTGGGAGAGT
* *
17251 GAGAGAT-GATTAACTTGCGAGAGA
1 GAGAGATCGATTAACTAGAG-GAGA
* * *
17275 GAGAGATCAATTGACTGGAGGAGA
1 GAGAGATCGATTAACTAGAGGAGA
17299 GAGAGATCGATTAACTAGAGGAGA
1 GAGAGATCGATTAACTAGAGGAGA
17323 GAGAGATCGA
1 GAGAGATCGA
17333 AGGGAGGGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 42 0.84
25 8 0.16
ACGTcount: A:0.39, C:0.09, G:0.35, T:0.17
Consensus pattern (24 bp):
GAGAGATCGATTAACTAGAGGAGA
Found at i:18635 original size:17 final size:17
Alignment explanation
Indices: 18613--18645 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18603 ATATTCTTGA
18613 ATGCTTCATCAAATTGT
1 ATGCTTCATCAAATTGT
18630 ATGCTTCATCAAATTG
1 ATGCTTCATCAAATTG
18646 ATAATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
ATGCTTCATCAAATTGT
Found at i:23544 original size:63 final size:63
Alignment explanation
Indices: 23441--23620 Score: 247
Period size: 63 Copynumber: 2.9 Consensus size: 63
23431 TCCGACGTGG
*
23441 CATGCCACGTGTACC-AAAAAGTGACATGTGGCACGCCACATGTATCAAAAAGTGACACATGT
1 CATGCCACGTGTACCAAAAAAGTGACATGTGGCACGCCACATGTATCAAAAAGTGACACATAT
* * * * *
23503 CATGCCACATGTACCAAAAAAGTGACATATGGCACGTCACATGTACCAAAAAGTCACACATAT
1 CATGCCACGTGTACCAAAAAAGTGACATGTGGCACGCCACATGTATCAAAAAGTGACACATAT
** * * *
23566 CACACCACGTGTA-CAAAAAAGTGACACGTGGCATGCCACATGTTTCAAAAAGTGA
1 CATGCCACGTGTACCAAAAAAGTGACATGTGGCACGCCACATGTATCAAAAAGTGA
23621 TACGTGCCAC
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
62 49 0.49
63 52 0.51
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (63 bp):
CATGCCACGTGTACCAAAAAAGTGACATGTGGCACGCCACATGTATCAAAAAGTGACACATAT
Found at i:23626 original size:31 final size:31
Alignment explanation
Indices: 23435--23631 Score: 187
Period size: 31 Copynumber: 6.3 Consensus size: 31
23425 ACGGTGTCCG
* *
23435 ACGTGGCATGCCACGTGTACCAAAAAGTGAC
1 ACGTGGCACGCCACATGTACCAAAAAGTGAC
* *
23466 ATGTGGCACGCCACATGTATCAAAAAGTGAC
1 ACGTGGCACGCCACATGTACCAAAAAGTGAC
* * *
23497 ACATGTCATGCCACATGTACCAAAAAAGTGAC
1 ACGTGGCACGCCACATGTACC-AAAAAGTGAC
** * *
23529 ATATGGCACGTCACATGTACCAAAAAGTCAC
1 ACGTGGCACGCCACATGTACCAAAAAGTGAC
* ** * * *
23560 ACATATCACACCACGTGTACAAAAAAGTGAC
1 ACGTGGCACGCCACATGTACCAAAAAGTGAC
* ** *
23591 ACGTGGCATGCCACATGTTTCAAAAAGTGAT
1 ACGTGGCACGCCACATGTACCAAAAAGTGAC
*
23622 ACGTGCCACG
1 ACGTGGCACG
23632 TGTCATTTTT
Statistics
Matches: 131, Mismatches: 34, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
31 104 0.79
32 27 0.21
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (31 bp):
ACGTGGCACGCCACATGTACCAAAAAGTGAC
Found at i:24756 original size:15 final size:16
Alignment explanation
Indices: 24736--24793 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
24726 CACCCAATAC
*
24736 AAATACTCACTTGGT-
1 AAATACTCACCTGGTG
24751 AAATACTCACCTGGTG
1 AAATACTCACCTGGTG
*
24767 CAATACTCACCTGGTG
1 AAATACTCACCTGGTG
*
24783 AGATACTCACC
1 AAATACTCACC
24794 CACACTCACC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 14 0.37
16 24 0.63
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (16 bp):
AAATACTCACCTGGTG
Found at i:24834 original size:58 final size:58
Alignment explanation
Indices: 24752--24878 Score: 227
Period size: 58 Copynumber: 2.2 Consensus size: 58
24742 TCACTTGGTA
24752 AATACTCACCTGGTGCAATACTCACCTGGTGAGATACTCACCCACACTCACCCAGTAC
1 AATACTCACCTGGTGCAATACTCACCTGGTGAGATACTCACCCACACTCACCCAGTAC
** *
24810 AATACTCACCTGGTTTAATGCTCACCTGGTGAGATACTCACCCACACTCACCCAGTAC
1 AATACTCACCTGGTGCAATACTCACCTGGTGAGATACTCACCCACACTCACCCAGTAC
24868 AATACTCACCT
1 AATACTCACCT
24879 AGTGAGACAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (58 bp):
AATACTCACCTGGTGCAATACTCACCTGGTGAGATACTCACCCACACTCACCCAGTAC
Found at i:24849 original size:16 final size:16
Alignment explanation
Indices: 24810--24851 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24800 CACCCAGTAC
*
24810 AATACTCACCTGGTTT
1 AATACTCACCTGGTTG
*
24826 AATGCTCACCTGG-TG
1 AATACTCACCTGGTTG
24841 AGATACTCACC
1 A-ATACTCACC
24852 CACACTCACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (16 bp):
AATACTCACCTGGTTG
Found at i:25915 original size:59 final size:59
Alignment explanation
Indices: 25823--25970 Score: 215
Period size: 59 Copynumber: 2.5 Consensus size: 59
25813 ATTATACTAG
* ** * * *
25823 TTGGTTGATTCCAACATTTTCAGGCACTACTGATTTTCATGCATTACATATTGTATTGA
1 TTGGTTGATTCTAACATTTTCAGGCGTTACTGATGTTCATGCATTACAGATTGTATTAA
**
25882 TTGGTTGATTCTAACATTTTCAGGCGTTACTGATGTTCATGTGTTACAGATTGTATTAA
1 TTGGTTGATTCTAACATTTTCAGGCGTTACTGATGTTCATGCATTACAGATTGTATTAA
*
25941 TTGGTTGATTTTAACATTTTCAGGCGTTAC
1 TTGGTTGATTCTAACATTTTCAGGCGTTAC
25971 AAATTGTACT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (59 bp):
TTGGTTGATTCTAACATTTTCAGGCGTTACTGATGTTCATGCATTACAGATTGTATTAA
Found at i:26030 original size:101 final size:100
Alignment explanation
Indices: 25855--26172 Score: 375
Period size: 101 Copynumber: 3.1 Consensus size: 100
25845 GGCACTACTG
* * * * * *
25855 ATTTTCATGCATTACATATTGTATTGATTGGTTGATTCTAACATTTTCAGGCGTTACTGATGTTC
1 ATTTTCAGGCGTTACAAATTGTACTGGTTGGTTGATTCTAACATTTTCAGGCGTTACTGAT-TAC
*
25920 ATGTGTTACAGATTGTATTAATTGGTTGATTTTAAC
65 ATGCGTTACAGATTGTATTAATTGGTTGATTTTAAC
* * * *
25956 ATTTTCAGGCGTTACAAATTGTACTGGTTGGCTGACTCTAACATTTTCAAGCGTTACTGATTAAA
1 ATTTTCAGGCGTTACAAATTGTACTGGTTGGTTGATTCTAACATTTTCAGGCGTTACTGATT-AC
* * * *
26021 ATGCGTTACAGATAGTATTAATTGGCTAATTCTAAC
65 ATGCGTTACAGATTGTATTAATTGGTTGATTTTAAC
* * * * * * *
26057 ATTCTCAAGCGTTACAAATTATACTAGTTGGTTAATTCTAACATTTTCAGGCGTTACTAATTTCC
1 ATTTTCAGGCGTTACAAATTGTACTGGTTGGTTGATTCTAACATTTTCAGGCGTTACTGA-TTAC
* * * *
26122 GTACGTTACAGATTGTATTGATTGGTTGCTTTTAAC
65 ATGCGTTACAGATTGTATTAATTGGTTGATTTTAAC
26158 ATTTTCAGGCGTTAC
1 ATTTTCAGGCGTTAC
26173 TGATTTTCAG
Statistics
Matches: 179, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
100 1 0.01
101 176 0.98
102 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (100 bp):
ATTTTCAGGCGTTACAAATTGTACTGGTTGGTTGATTCTAACATTTTCAGGCGTTACTGATTACA
TGCGTTACAGATTGTATTAATTGGTTGATTTTAAC
Found at i:26131 original size:160 final size:160
Alignment explanation
Indices: 25965--26320 Score: 414
Period size: 160 Copynumber: 2.2 Consensus size: 160
25955 CATTTTCAGG
* * *
25965 CGTTACAAATTGTACTGGTTGGCTGACTCTAACATTTTCAAGCGTTACTGATTAAAATGCGTTAC
1 CGTTACAAATTGTATTGATTGGCTGACTCTAACATTTTCAAGCGTTACTGATTAAAAGGCGTTAC
*
26030 AGA-TAGTATTAATTGGCTAATTCTAACA-TTCTCAAGCGTTACAAATTATACTA-GTTGGTTAA
66 AGATTA-TATTAATTGGCTAATTCTAACATTTC-CAAGCGTTACAAATTATAC-AGGTTGGCTAA
* *
26092 TTCTAACATTTTCAGGCGTTACTAATTTCCGTA
128 CTCTAACATTTTCAGGCGTTACTAATTTCCATA
* * * * ***
26125 CGTTACAGATTGTATTGATTGGTTG-CTTTTAACATTTTCAGGCGTTACTGATTTTCAGGCGTTA
1 CGTTACAAATTGTATTGATTGGCTGAC-TCTAACATTTTCAAGCGTTACTGATTAAAAGGCGTTA
* * * * * *
26189 CCGATTATATTGATTGGTTGATTTTAACATTTCCAAGCGTTACAAATTGTACAGGTTGGCTAACT
65 CAGATTATATTAATTGGCTAATTCTAACATTTCCAAGCGTTACAAATTATACAGGTTGGCTAACT
* * * *
26254 CTAACATTTTTAGGCGTTACTGATTTTCATG
130 CTAACATTTTCAGGCGTTACTAATTTCCATA
* * *
26285 TGTTACAAATTGTATTGATTGGCTAATTCTAACATT
1 CGTTACAAATTGTATTGATTGGCTGACTCTAACATT
26321 CTCAGACGTT
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
159 2 0.01
160 155 0.96
161 5 0.03
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (160 bp):
CGTTACAAATTGTATTGATTGGCTGACTCTAACATTTTCAAGCGTTACTGATTAAAAGGCGTTAC
AGATTATATTAATTGGCTAATTCTAACATTTCCAAGCGTTACAAATTATACAGGTTGGCTAACTC
TAACATTTTCAGGCGTTACTAATTTCCATA
Found at i:26159 original size:59 final size:58
Alignment explanation
Indices: 26066--26236 Score: 191
Period size: 59 Copynumber: 2.9 Consensus size: 58
26056 CATTCTCAAG
* * * * *
26066 CGTTACAAATTATACT-AGTTGGTTAATTCTAACATTTTCAGGCGTTACTAATTTCCGTA
1 CGTTACAGATTATATTGA-TTGGTTGATTTTAACATTTTCAGGCGTTACTAATTTCAG-A
* * * *
26125 CGTTACAGATTGTATTGATTGGTTGCTTTTAACATTTTCAGGCGTTACTGATTTTCAGG
1 CGTTACAGATTATATTGATTGGTTGATTTTAACATTTTCAGGCGTTACT-AATTTCAGA
* * * *
26184 CGTTACCGATTATATTGATTGGTTGATTTTAACATTTCCAAGCGTTACAAATT
1 CGTTACAGATTATATTGATTGGTTGATTTTAACATTTTCAGGCGTTACTAATT
26237 GTACAGGTTG
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
58 3 0.03
59 84 0.89
60 7 0.07
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (58 bp):
CGTTACAGATTATATTGATTGGTTGATTTTAACATTTTCAGGCGTTACTAATTTCAGA
Found at i:26180 original size:17 final size:17
Alignment explanation
Indices: 26158--26194 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
26148 TGCTTTTAAC
*
26158 ATTTTCAGGCGTTACTG
1 ATTTTCAGGCGTTACCG
26175 ATTTTCAGGCGTTACCG
1 ATTTTCAGGCGTTACCG
26192 ATT
1 ATT
26195 ATATTGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (17 bp):
ATTTTCAGGCGTTACCG
Found at i:26360 original size:41 final size:42
Alignment explanation
Indices: 26286--26372 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 42
26276 ATTTTCATGT
* *
26286 GTTACAAATTGTATTGATTGGCTAATTCTAACATTCTCAGAC
1 GTTACAAATTATATAGATTGGCTAATTCTAACATTCTCAGAC
* * * *
26328 GTTACAAATTATATAG-TTGGTTGATTCTAACATTTTCAGGC
1 GTTACAAATTATATAGATTGGCTAATTCTAACATTCTCAGAC
26369 GTTA
1 GTTA
26373 TTGATTTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 25 0.64
42 14 0.36
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (42 bp):
GTTACAAATTATATAGATTGGCTAATTCTAACATTCTCAGAC
Found at i:26386 original size:100 final size:99
Alignment explanation
Indices: 26124--26421 Score: 357
Period size: 101 Copynumber: 3.0 Consensus size: 99
26114 TAATTTCCGT
* * * * * *
26124 ACGTTACAGATTGTATTGATTGGTTGCTTTTAACATTTTCAGGCGTTACTGATTTTCAGGCGTTA
1 ACGTTACAAATTGTATAG-TTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTCATGTGTTA
** * *
26189 CCGATTATATTGATTGGTTGATTTTAACATTTCCA-
65 CAAATTGTATTGATTGGTTGATTCTAACATTT-CAG
* * * * *
26224 AGCGTTACAAATTGTACAGGTTGGCTAACTCTAACATTTTTAGGCGTTACTGATTTTCATGTGTT
1 A-CGTTACAAATTGTATA-GTTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTCATGTGTT
* *
26289 ACAAATTGTATTGATTGGCTAATTCTAACATTCTCAG
64 ACAAATTGTATTGATTGGTTGATTCTAACATT-TCAG
* *
26326 ACGTTACAAATTATATAGTTGGTTGATTCTAACATTTTCAGGCGTTATTGA-TTTCTATGTGTTA
1 ACGTTACAAATTGTATAGTTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTC-ATGTGTTA
26390 CAAATTGTATTGATTGGTTGATTCTAACATTT
65 CAAATTGTATTGATTGGTTGATTCTAACATTT
26422 TCAGGCATTA
Statistics
Matches: 167, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
99 5 0.03
100 67 0.40
101 92 0.55
102 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (99 bp):
ACGTTACAAATTGTATAGTTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTCATGTGTTAC
AAATTGTATTGATTGGTTGATTCTAACATTTCAG
Found at i:26419 original size:59 final size:59
Alignment explanation
Indices: 26327--26491 Score: 226
Period size: 59 Copynumber: 2.8 Consensus size: 59
26317 CATTCTCAGA
* * *
26327 CGTTACAAATTATATAG-TTGGTTGATTCTAACATTTTCAGGCGTTATTGA-TTTCTATG
1 CGTTACAAATTGTATTGATTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTC-ATG
* *
26385 TGTTACAAATTGTATTGATTGGTTGATTCTAACATTTTCAGGCATTACTGATTTTCATG
1 CGTTACAAATTGTATTGATTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTCATG
* * * *
26444 CATTACAGATTGTATTGATTGGTTGCTTTTAACATTTTCAGGCGTTAC
1 CGTTACAAATTGTATTGATTGGTTGATTCTAACATTTTCAGGCGTTAC
26492 AAATTGTACT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
58 14 0.15
59 76 0.81
60 4 0.04
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.45
Consensus pattern (59 bp):
CGTTACAAATTGTATTGATTGGTTGATTCTAACATTTTCAGGCGTTACTGATTTTCATG
Found at i:26440 original size:17 final size:17
Alignment explanation
Indices: 26418--26454 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26408 TGATTCTAAC
*
26418 ATTTTCAGGCATTACTG
1 ATTTTCAGGCATTACAG
*
26435 ATTTTCATGCATTACAG
1 ATTTTCAGGCATTACAG
26452 ATT
1 ATT
26455 GTATTGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (17 bp):
ATTTTCAGGCATTACAG
Found at i:26498 original size:42 final size:42
Alignment explanation
Indices: 26435--26533 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
26425 GGCATTACTG
* * * * * * *
26435 ATTTTCATGCATTACAGATTGTATTGATTGGTTGCTTTTAAC
1 ATTTTCAGGCGTTACAAATTGTACTGATTGGCTGATTCTAAC
*
26477 ATTTTCAGGCGTTACAAATTGTACTGGTTGGCTGATTCTAAC
1 ATTTTCAGGCGTTACAAATTGTACTGATTGGCTGATTCTAAC
26519 ATTTTCAGGCGTTAC
1 ATTTTCAGGCGTTAC
26534 TGATTATCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (42 bp):
ATTTTCAGGCGTTACAAATTGTACTGATTGGCTGATTCTAAC
Found at i:26517 original size:101 final size:101
Alignment explanation
Indices: 26386--26593 Score: 317
Period size: 101 Copynumber: 2.1 Consensus size: 101
26376 ATTTCTATGT
* * * *
26386 GTTACAAATTGTATTGATTGGTTGATTCTAACATTTTCAGGCATTACTGATTTTCATGCATTACA
1 GTTACAAATTGTACTGATTGGCTGATTCTAACATTTTCAGGCATTACTGATTATCATACATTACA
* * *
26451 GATTGTATTGATTGGTTGCTTTTAACATTTTCAGGC
66 GATTGTATTGATTGGTTGATTCTAACATTTTCAGAC
* *
26487 GTTACAAATTGTACTGGTTGGCTGATTCTAACATTTTCAGGCGTTACTGATTATCATACATTACA
1 GTTACAAATTGTACTGATTGGCTGATTCTAACATTTTCAGGCATTACTGATTATCATACATTACA
* *
26552 GATTGTATTGATTGGTTGATTCTAACTTTTTTAGAC
66 GATTGTATTGATTGGTTGATTCTAACATTTTCAGAC
26588 GTTACA
1 GTTACA
26594 GATTATCCTA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (101 bp):
GTTACAAATTGTACTGATTGGCTGATTCTAACATTTTCAGGCATTACTGATTATCATACATTACA
GATTGTATTGATTGGTTGATTCTAACATTTTCAGAC
Found at i:26591 original size:59 final size:59
Alignment explanation
Indices: 26488--26600 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
26478 TTTTCAGGCG
* * *
26488 TTACAAATTGTACTGGTTGGCTGATTCTAACATTTTCAGGCGTTACTGATTATCATACA
1 TTACAAATTGTACTGATTGGCTGATTCTAACATTTTCAGACGTTACAGATTATCATACA
* * * * *
26547 TTACAGATTGTATTGATTGGTTGATTCTAACTTTTTTAGACGTTACAGATTATC
1 TTACAAATTGTACTGATTGGCTGATTCTAACATTTTCAGACGTTACAGATTATC
26601 CTAGTCGGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (59 bp):
TTACAAATTGTACTGATTGGCTGATTCTAACATTTTCAGACGTTACAGATTATCATACA
Found at i:31990 original size:3 final size:3
Alignment explanation
Indices: 31982--32008 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31972 CCATTGTAAG
31982 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
32009 GTGGGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:33366 original size:14 final size:15
Alignment explanation
Indices: 33338--33366 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33328 TGATCCAATT
33338 TTTTCTTTCTTGTTA
1 TTTTCTTTCTTGTTA
33353 TTTTCTTT-TTGTTA
1 TTTTCTTTCTTGTTA
33367 GTCAGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTTCTTTCTTGTTA
Found at i:33702 original size:13 final size:13
Alignment explanation
Indices: 33684--33727 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
33674 ATGAACAATT
33684 AAAAATGTCCAAG
1 AAAAATGTCCAAG
* * *
33697 AAAAATTATCTAAA
1 AAAAA-TGTCCAAG
33711 AAAAATGTCCAAG
1 AAAAATGTCCAAG
33724 AAAA
1 AAAA
33728 CTTTACATTC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAATGTCCAAG
Found at i:33727 original size:14 final size:14
Alignment explanation
Indices: 33684--33727 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
33674 ATGAACAATT
33684 AAAAATGTCCAAGA
1 AAAAATGTCCAAGA
* * *
33698 AAAATTATCTAA-A
1 AAAAATGTCCAAGA
33711 AAAAATGTCCAAGA
1 AAAAATGTCCAAGA
33725 AAA
1 AAA
33728 CTTTACATTC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.18
Consensus pattern (14 bp):
AAAAATGTCCAAGA
Found at i:36873 original size:37 final size:32
Alignment explanation
Indices: 36770--36875 Score: 149
Period size: 32 Copynumber: 3.3 Consensus size: 32
36760 GCCGTCCCAT
* * *
36770 TGGGGCAGCTTAGCCAGGGCAGGCCGCCCCGG
1 TGGGGCGGCTTCGCCACGGCAGGCCGCCCCGG
*
36802 TGGGGCGGCTTCGCCACGGTAGGCCGCCCCGG
1 TGGGGCGGCTTCGCCACGGCAGGCCGCCCCGG
* *
36834 TGGGGTGGCTTCGCCACGGCAGGGCGCCCCGG
1 TGGGGCGGCTTCGCCACGGCAGGCCGCCCCGG
*
36866 TGGGGTGGCT
1 TGGGGCGGCT
36876 CGGCTATTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.08, C:0.33, G:0.46, T:0.13
Consensus pattern (32 bp):
TGGGGCGGCTTCGCCACGGCAGGCCGCCCCGG
Found at i:39039 original size:27 final size:27
Alignment explanation
Indices: 38985--39054 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
38975 GAATATGTTT
* *
38985 GCTTTGTTCAACCTT---TTTGGAAGT
1 GCTTTGTTCAACCTTGGACTTGGAAGA
39009 GCTTTGTTCAACCTTGGACTTGGAAGA
1 GCTTTGTTCAACCTTGGACTTGGAAGA
39036 GCTTTGTTCAACCTTGGAC
1 GCTTTGTTCAACCTTGGAC
39055 ATTGTTAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 15 0.37
27 26 0.63
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (27 bp):
GCTTTGTTCAACCTTGGACTTGGAAGA
Found at i:41219 original size:15 final size:15
Alignment explanation
Indices: 41199--41256 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
41189 GATAACTTGT
41199 AAATATTTTTGTTAG
1 AAATATTTTTGTTAG
41214 AAATATTTTTGTT--
1 AAATATTTTTGTTAG
*
41227 --ACATTTTTGTTAG
1 AAATATTTTTGTTAG
*
41240 AAATATTTTTTTTAG
1 AAATATTTTTGTTAG
41255 AA
1 AA
41257 TCCACGGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 10 0.28
15 26 0.72
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (15 bp):
AAATATTTTTGTTAG
Found at i:51306 original size:33 final size:32
Alignment explanation
Indices: 51269--51360 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
51259 CTTCACTGGT
*
51269 CGTGGTGGACTGAGGGATGGTGGCTTTGGTAGC
1 CGTGGAGGA-TGAGGGATGGTGGCTTTGGTAGC
* * * * *
51302 CGTGGCGGTATGAGAGATGGTGGTTTTGGTGGG
1 CGTGGAGG-ATGAGGGATGGTGGCTTTGGTAGC
*
51335 CGTGGCAGTATGAGGGATGGTGGCTT
1 CGTGG-AGGATGAGGGATGGTGGCTT
51361 CAGTGGTCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
33 46 0.96
34 2 0.04
ACGTcount: A:0.13, C:0.10, G:0.49, T:0.28
Consensus pattern (32 bp):
CGTGGAGGATGAGGGATGGTGGCTTTGGTAGC
Found at i:51727 original size:12 final size:12
Alignment explanation
Indices: 51710--51753 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
51700 ACGTGGTCGT
51710 AGCCGCAGCTAC
1 AGCCGCAGCTAC
*
51722 AGCCGCAGC-CC
1 AGCCGCAGCTAC
51733 ACGCCGCAGCTAC
1 A-GCCGCAGCTAC
51746 AGCCGCAG
1 AGCCGCAG
51754 TCCGGACCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.23, C:0.45, G:0.27, T:0.05
Consensus pattern (12 bp):
AGCCGCAGCTAC
Found at i:52549 original size:45 final size:45
Alignment explanation
Indices: 52485--52574 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
52475 TCGCCGCACC
52485 AAACACTTCATTTCTCATCGCTAATTAAGTTTACACAGCTACAAT
1 AAACACTTCATTTCTCATCGCTAATTAAGTTTACACAGCTACAAT
52530 AAACACTTCATTTCTCATCGCTAATTAAGTTTACACAGCTACAAT
1 AAACACTTCATTTCTCATCGCTAATTAAGTTTACACAGCTACAAT
52575 TTTAATATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (45 bp):
AAACACTTCATTTCTCATCGCTAATTAAGTTTACACAGCTACAAT
Found at i:56368 original size:14 final size:14
Alignment explanation
Indices: 56349--56377 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56339 GTTTAGTAAG
56349 TGTGTTGGTACTAA
1 TGTGTTGGTACTAA
56363 TGTGTTGGTACTAA
1 TGTGTTGGTACTAA
56377 T
1 T
56378 TTGACTATGT
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:0.21, C:0.07, G:0.28, T:0.45
Consensus pattern (14 bp):
TGTGTTGGTACTAA
Found at i:61624 original size:18 final size:18
Alignment explanation
Indices: 61601--61643 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
61591 GGTTTGTGAC
61601 AGTTTTTTTTTAATAGGT
1 AGTTTTTTTTTAATAGGT
61619 AGTTTTTTTTTAATAGGT
1 AGTTTTTTTTTAATAGGT
61637 AGTTTTT
1 AGTTTTT
61644 CTAAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (18 bp):
AGTTTTTTTTTAATAGGT
Found at i:69549 original size:43 final size:44
Alignment explanation
Indices: 69478--69564 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
69468 TGATTTGCCT
* *
69478 TCACACCGCCTTGGTCAAATTGAAAAG-CCAACATGGCTTTTTA
1 TCACACCACCTTGGTCAAATTGAAAAGCCCAACATGGCCTTTTA
*
69521 TCACAGCCACCTTGGTCAAATTG-AAAGCCCGACATGGCCTTTTA
1 TCACA-CCACCTTGGTCAAATTGAAAAGCCCAACATGGCCTTTTA
69565 AAATTCTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (44 bp):
TCACACCACCTTGGTCAAATTGAAAAGCCCAACATGGCCTTTTA
Found at i:69805 original size:22 final size:22
Alignment explanation
Indices: 69752--69818 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
69742 CTTTTGAACG
*
69752 ATGGCCGAATCTCACGACCACC
1 ATGGCCGAATCTCACGGCCACC
*
69774 ATGTGGCCGAATCTTACGGCCACC
1 A--TGGCCGAATCTCACGGCCACC
69798 ATGGCCGAATCTCACGGCCAC
1 ATGGCCGAATCTCACGGCCAC
69819 ATACTAACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 20 0.50
24 20 0.50
ACGTcount: A:0.24, C:0.37, G:0.22, T:0.16
Consensus pattern (22 bp):
ATGGCCGAATCTCACGGCCACC
Done.