Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013303.1 Corchorus capsularis cultivar CVL-1 contig13324, 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: 75796
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Found at i:2197 original size:12 final size:12
Alignment explanation
Indices: 2182--2206 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2172 AAACTTCTTT
2182 AGCTGCTCCTTC
1 AGCTGCTCCTTC
2194 AGCTGCTCCTTC
1 AGCTGCTCCTTC
2206 A
1 A
2207 CAATTTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.40, G:0.16, T:0.32
Consensus pattern (12 bp):
AGCTGCTCCTTC
Found at i:13925 original size:32 final size:32
Alignment explanation
Indices: 13889--13998 Score: 141
Period size: 32 Copynumber: 3.4 Consensus size: 32
13879 AATCCGAGCT
*
13889 CGAACCCGAATTAACCTGACCCAAAATTAACC
1 CGAACCCGAATTAACCTGACCCAAATTTAACC
* *
13921 CGAACCTG-ATTCAACATGACCCAAATTTAACC
1 CGAACCCGAATT-AACCTGACCCAAATTTAACC
* *
13953 CGAACCCGAATCAACCCGACCCAAATTTAACC
1 CGAACCCGAATTAACCTGACCCAAATTTAACC
* *
13985 CAAACCCGACTTAA
1 CGAACCCGAATTAA
13999 ACCCGAACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
31 3 0.05
32 61 0.92
33 2 0.03
ACGTcount: A:0.39, C:0.35, G:0.09, T:0.16
Consensus pattern (32 bp):
CGAACCCGAATTAACCTGACCCAAATTTAACC
Found at i:13970 original size:16 final size:16
Alignment explanation
Indices: 13949--14011 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 16
13939 ACCCAAATTT
*
13949 AACCCGAACCCGAATC
1 AACCCGAACCCGAATA
* *
13965 AACCCG-ACCCAAATTT
1 AACCCGAACCCGAA-TA
* *
13981 AACCCAAACCCGACTTA
1 AACCCGAACCCGA-ATA
13998 AACCCGAACCCGAA
1 AACCCGAACCCGAA
14012 AACAGTCTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
15 6 0.17
16 12 0.33
17 18 0.50
ACGTcount: A:0.40, C:0.41, G:0.10, T:0.10
Consensus pattern (16 bp):
AACCCGAACCCGAATA
Found at i:14093 original size:2 final size:2
Alignment explanation
Indices: 14082--14115 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
14072 TACCGGCCCG
14082 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14116 AATTTATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14282 original size:6 final size:6
Alignment explanation
Indices: 14273--14301 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14263 TGTAATTAAA
14273 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
14302 AAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:15847 original size:210 final size:210
Alignment explanation
Indices: 15485--15904 Score: 831
Period size: 210 Copynumber: 2.0 Consensus size: 210
15475 ACATTAAACA
15485 GTACATTGTGAAGGGATGAGAAAGGAGAAGAAAGAGGAAAGAGATGCGAAGGAGAAAACATAGGG
1 GTACATTGTGAAGGGATGAGAAAGGAGAAGAAAGAGGAAAGAGATGCGAAGGAGAAAACATAGGG
15550 GAGTTATCAAAGGTTTGATTTTTGGCAAACCTGAAGATTGATCAGCACCGAGGAGTTGAAAGGAA
66 GAGTTATCAAAGGTTTGATTTTTGGCAAACCTGAAGATTGATCAGCACCGAGGAGTTGAAAGGAA
15615 GCAGTAGCTGAGTTGGTGAGAGGAAAAAAAGAAAACAGGGGAGAAACATTAATTAAAAGCAATTA
131 GCAGTAGCTGAGTTGGTGAGAGGAAAAAAAGAAAACAGGGGAGAAACATTAATTAAAAGCAATTA
15680 AGGGAGGGAAATATG
196 AGGGAGGGAAATATG
*
15695 GTACATTGTGAAGGGATGAGAAAGGAGAAGAAAGAGGAAAGAGATGTGAAGGAGAAAACATAGGG
1 GTACATTGTGAAGGGATGAGAAAGGAGAAGAAAGAGGAAAGAGATGCGAAGGAGAAAACATAGGG
15760 GAGTTATCAAAGGTTTGATTTTTGGCAAACCTGAAGATTGATCAGCACCGAGGAGTTGAAAGGAA
66 GAGTTATCAAAGGTTTGATTTTTGGCAAACCTGAAGATTGATCAGCACCGAGGAGTTGAAAGGAA
15825 GCAGTAGCTGAGTTGGTGAGAGGAAAAAAAGAAAACAGGGGAGAAACATTAATTAAAAGCAATTA
131 GCAGTAGCTGAGTTGGTGAGAGGAAAAAAAGAAAACAGGGGAGAAACATTAATTAAAAGCAATTA
15890 AGGGAGGGAAATATG
196 AGGGAGGGAAATATG
15905 TATTTACAAA
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 209 1.00
ACGTcount: A:0.42, C:0.07, G:0.32, T:0.18
Consensus pattern (210 bp):
GTACATTGTGAAGGGATGAGAAAGGAGAAGAAAGAGGAAAGAGATGCGAAGGAGAAAACATAGGG
GAGTTATCAAAGGTTTGATTTTTGGCAAACCTGAAGATTGATCAGCACCGAGGAGTTGAAAGGAA
GCAGTAGCTGAGTTGGTGAGAGGAAAAAAAGAAAACAGGGGAGAAACATTAATTAAAAGCAATTA
AGGGAGGGAAATATG
Found at i:16917 original size:53 final size:53
Alignment explanation
Indices: 16845--16978 Score: 184
Period size: 53 Copynumber: 2.5 Consensus size: 53
16835 CAGAGGTAAT
* *
16845 TCTATATCAAAAGTCCTCAAACACAAGGGTATTCACCCCTAAACACAGAGGCACC
1 TCTACATCAAAAGTCCTCAAACACAAGGGTATTCACCCCTAAACACAGA-G-ACA
* *
16900 TCT-C-TCAAAAGTCCTCAAACACAATGGTATTCATCCCTAAACACAGAGACA
1 TCTACATCAAAAGTCCTCAAACACAAGGGTATTCACCCCTAAACACAGAGACA
*
16951 TCTACATC-AAAGTCCTCAAGCACAAGGG
1 TCTACATCAAAAGTCCTCAAACACAAGGG
16979 CATCTATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
51 5 0.07
52 20 0.28
53 43 0.61
55 3 0.04
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (53 bp):
TCTACATCAAAAGTCCTCAAACACAAGGGTATTCACCCCTAAACACAGAGACA
Found at i:16993 original size:30 final size:30
Alignment explanation
Indices: 16933--17034 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
16923 ATGGTATTCA
* * *
16933 TCCCTAAACAC-AGAGACATCTACATCAAAG
1 TCCC-AAACACAAGAGGCATCTATATTAAAG
*
16963 TCCTCAAGCACAAG-GGCATCTATATTAAAG
1 TCC-CAAACACAAGAGGCATCTATATTAAAG
* *
16993 TCCCTAAACAC-AGATGCATCTATACTAAAG
1 TCCC-AAACACAAGAGGCATCTATATTAAAG
17023 TCCCCAAACACA
1 T-CCCAAACACA
17035 TATAACACAG
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
29 3 0.05
30 50 0.85
31 6 0.10
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (30 bp):
TCCCAAACACAAGAGGCATCTATATTAAAG
Found at i:28670 original size:53 final size:53
Alignment explanation
Indices: 28579--28725 Score: 192
Period size: 53 Copynumber: 2.8 Consensus size: 53
28569 TAAGTCCTAG
* *
28579 ACACAGAGGCAATTCTATATCAAAAGTCCTCAAACACAAGGGTATGCACCCCTAA
1 ACACAGAGGC-A-TCTACATCAAAAGTCCTCAAACACAAGGGTATGCACCCATAA
* *
28634 ACACAGAGGCACCTCT-C-TCAAAAGTCCTCAAACACAAGGGTATTCATCCATAA
1 ACACAGAGGCA--TCTACATCAAAAGTCCTCAAACACAAGGGTATGCACCCATAA
*
28687 ACACAGAGGCATCTACATC-AAAGTCCTCAAGCACAAGGG
1 ACACAGAGGCATCTACATCAAAAGTCCTCAAACACAAGGG
28726 CATCTATATT
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
51 3 0.04
52 20 0.24
53 46 0.55
54 1 0.01
55 13 0.16
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.17
Consensus pattern (53 bp):
ACACAGAGGCATCTACATCAAAAGTCCTCAAACACAAGGGTATGCACCCATAA
Found at i:31939 original size:44 final size:44
Alignment explanation
Indices: 31891--31979 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
31881 AGGGCATTTG
*
31891 TCTCTCCCCAAAGTCCCCAAACACAATTATAACACAGGGGCAAT
1 TCTCTCCCCAAAGTCCCCAAACACAATTATAACACAAGGGCAAT
** * * * *
31935 TCTCTTTCTAAAGTCCTCAAATACATTTATAACACAAGGGCAAT
1 TCTCTCCCCAAAGTCCCCAAACACAATTATAACACAAGGGCAAT
31979 T
1 T
31980 TCTATATGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (44 bp):
TCTCTCCCCAAAGTCCCCAAACACAATTATAACACAAGGGCAAT
Found at i:37270 original size:13 final size:14
Alignment explanation
Indices: 37247--37275 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
37237 ACTTCTACTC
37247 AATGCATGAATGCA
1 AATGCATGAATGCA
37261 AATG-ATGAATGCA
1 AATGCATGAATGCA
37274 AA
1 AA
37276 GTCCGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (14 bp):
AATGCATGAATGCA
Found at i:42725 original size:20 final size:20
Alignment explanation
Indices: 42700--42737 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42690 CAGATATGAG
* *
42700 AATGCCCGGAGGTCTTATAA
1 AATGCCCAGAGGACTTATAA
42720 AATGCCCAGAGGACTTAT
1 AATGCCCAGAGGACTTAT
42738 CAGAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AATGCCCAGAGGACTTATAA
Found at i:42774 original size:22 final size:21
Alignment explanation
Indices: 42749--42826 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 21
42739 AGAATTAATA
42749 CCCGGAGGTTTCTGAAGTTGTG
1 CCCGGAGGTTTCTGAA-TTGTG
* * *
42771 CCCGGAGGACTTATCAGAATTAATA
1 CCCGGAGG--TT-TCTGAATT-GTG
*
42796 CCTGGAGGTTTCTGAAATTGTG
1 CCCGGAGGTTTCTG-AATTGTG
42818 CCCGGAGGT
1 CCCGGAGGT
42827 CTTACCAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
22 20 0.47
23 6 0.14
24 4 0.09
25 13 0.30
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (21 bp):
CCCGGAGGTTTCTGAATTGTG
Found at i:42779 original size:47 final size:47
Alignment explanation
Indices: 42722--42830 Score: 182
Period size: 47 Copynumber: 2.3 Consensus size: 47
42712 TCTTATAAAA
* *
42722 TGCCCAGAGGACTTATCAGAATTAATACCCGGAGGTTTCTGAAGTTG
1 TGCCCGGAGGACTTATCAGAATTAATACCCGGAGGTTTCTGAAATTG
*
42769 TGCCCGGAGGACTTATCAGAATTAATACCTGGAGGTTTCTGAAATTG
1 TGCCCGGAGGACTTATCAGAATTAATACCCGGAGGTTTCTGAAATTG
*
42816 TGCCCGGAGGTCTTA
1 TGCCCGGAGGACTTA
42831 CCAATGCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (47 bp):
TGCCCGGAGGACTTATCAGAATTAATACCCGGAGGTTTCTGAAATTG
Found at i:43166 original size:69 final size:69
Alignment explanation
Indices: 42969--43381 Score: 616
Period size: 69 Copynumber: 6.0 Consensus size: 69
42959 CTTGTTTAAC
* * * * *
42969 TTGGCTTATGGAAAAGCCCTTTGTGGCTTGGATGAAACCAAAGCTT-GATCTGACTCGTATGGAA
1 TTGGCTTGTGGAAAAG-CCTATGTGGCTTGGATGGAACCAAGGCTTAAAT-TGACTCGTATGGAA
43033 ACGAGT
64 ACGAGT
*
43039 TTGGCTTGTGGAAAAGCCCCT-TGTGGCTTGGATAGAACCAAGGCTTAAATTGACTCGTATGGAA
1 TTGGCTTGTGGAAAAG--CCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAA
43103 ACGAGT
64 ACGAGT
*
43109 TTGGGTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
1 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
43174 GAG-
66 GAGT
* * *
43177 TTGGCTTGTGGAAAAGCCTATATGGCTTGGATAGAACCAAGGCTTAAATTGACTTGTATGGAAAC
1 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
43242 GAGT
66 GAGT
43246 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
1 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
43311 GAGT
66 GAGT
* * * * * **
43315 TTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCAAGACTTAGATTGACTTATATGGAAAC
1 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
43380 GA
66 GA
43382 TTAAATTGAC
Statistics
Matches: 318, Mismatches: 21, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
68 67 0.21
69 173 0.54
70 72 0.23
71 6 0.02
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (69 bp):
TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
GAGT
Found at i:43239 original size:137 final size:138
Alignment explanation
Indices: 42969--43381 Score: 634
Period size: 137 Copynumber: 3.0 Consensus size: 138
42959 CTTGTTTAAC
* * * * *
42969 TTGGCTTATGGAAAAGCCCTTTGTGGCTTGGATGAAACCAAAGCTT-GATCTGACTCGTATGGAA
1 TTGGCTTGTGGAAAAG-CCTATGTGGCTTGGATGGAACCAAGGCTTAAAT-TGACTCGTATGGAA
*
43033 ACGAGTTTGGCTTGTGGAAAAGCCCCT-TGTGGCTTGGATAGAACCAAGGCTTAAATTGACTCGT
64 ACGAGTTTGGCTTGTGGAAAAG--CCTATGTGGCTTGGATAGAACCAAGGCTTAAATTGACTTGT
43097 ATGGAAACGAGT
127 ATGGAAACGAGT
*
43109 TTGGGTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
1 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
*
43174 GAG-TTGGCTTGTGGAAAAGCCTATATGGCTTGGATAGAACCAAGGCTTAAATTGACTTGTATGG
66 GAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCAAGGCTTAAATTGACTTGTATGG
43238 AAACGAGT
131 AAACGAGT
43246 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
1 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
* * ** * * *
43311 GAGTTTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCAAGACTTAGATTGACTTATATGG
66 GAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCAAGGCTTAAATTGACTTGTATGG
43376 AAACGA
131 AAACGA
43382 TTAAATTGAC
Statistics
Matches: 253, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
136 3 0.01
137 114 0.45
138 75 0.30
139 45 0.18
140 16 0.06
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (138 bp):
TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAAAC
GAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCAAGGCTTAAATTGACTTGTATGG
AAACGAGT
Found at i:43353 original size:206 final size:207
Alignment explanation
Indices: 42969--43381 Score: 627
Period size: 206 Copynumber: 2.0 Consensus size: 207
42959 CTTGTTTAAC
* * *
42969 TTGGCTTATGGAAAAGCCCTTTGTGGCTTGGATGAAACCAAAGCTTGATCTGACTCGTATGGAAA
1 TTGGCTTATGGAAAAGCCCTATATGGCTTGGATGAAACCAAAGCTTAATCTGACTCGTATGGAAA
43034 CGAGTTTGGCTTGTGGAAAAGCCCCTTGTGGCTTGGATAGAACCAAGGCTTAAATTGACTCGTAT
66 CGAGTTTGGCTTGTGGAAAAG-CCCTTGTGGCTTGGATAGAACCAAGGCTTAAATTGACTCGTAT
** * * *
43099 GGAAACGAGTTTGGGTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTC
130 GGAAACGAGTTTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCAAGACTTAAATTGACTC
*
43164 GTATGGAAACGAG
195 ATATGGAAACGAG
* * *
43177 TTGGCTTGTGGAAAAG-CCTATATGGCTTGGAT-AGAACCAAGGCTTAAAT-TGACTTGTATGGA
1 TTGGCTTATGGAAAAGCCCTATATGGCTTGGATGA-AACCAAAGCTT-AATCTGACTCGTATGGA
*
43239 AACGAGTTTGGCTTGTGGAAAAG-CCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGT
64 AACGAGTTTGGCTTGTGGAAAAGCCCT-TGTGGCTTGGATAGAACCAAGGCTTAAATTGACTCGT
*
43303 ATGGAAACGAGTTTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCAAGACTTAGATTGAC
128 ATGGAAACGAGTTTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCAAGACTTAAATTGAC
*
43368 TTATATGGAAACGA
193 TCATATGGAAACGA
43382 TTAAATTGAC
Statistics
Matches: 187, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
205 3 0.02
206 108 0.58
207 59 0.32
208 17 0.09
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (207 bp):
TTGGCTTATGGAAAAGCCCTATATGGCTTGGATGAAACCAAAGCTTAATCTGACTCGTATGGAAA
CGAGTTTGGCTTGTGGAAAAGCCCTTGTGGCTTGGATAGAACCAAGGCTTAAATTGACTCGTATG
GAAACGAGTTTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCAAGACTTAAATTGACTCA
TATGGAAACGAG
Found at i:43397 original size:93 final size:93
Alignment explanation
Indices: 43289--43567 Score: 468
Period size: 93 Copynumber: 3.0 Consensus size: 93
43279 GAACCAAGGC
* *
43289 TTAAATTGACTCGTATGGAAACGAGTTTGACTTATGGAAAAGCCTATGTGGCTTGGACGGAACCA
1 TTAAATTGACCCGTATGGAAACGAGTTTGGCTTATGGAAAAGCCTATGTGGCTTGGACGGAACCA
* *
43354 AGACTTAGATTGACTTATATGGAAACGA
66 AGGCTTAGATTGACTTGTATGGAAACGA
*
43382 TTAAATTGACCCGTATGGAAACGAGTTTGGCTTATGGAAAAGCTTATGTGGCTTGGACGGAACCA
1 TTAAATTGACCCGTATGGAAACGAGTTTGGCTTATGGAAAAGCCTATGTGGCTTGGACGGAACCA
43447 AGGCTTAGATTGACTTGTATGGAAACGA
66 AGGCTTAGATTGACTTGTATGGAAACGA
* **
43475 TTAAATTGACCCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCA
1 TTAAATTGACCCGTATGGAAACGAGTTTGGCTTATGGAAAAGCCTATGTGGCTTGGACGGAACCA
* *
43540 AGGCTTAAATTGAATTGTATGGAAACGA
66 AGGCTTAGATTGACTTGTATGGAAACGA
43568 GTTTGGCTTG
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 175 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (93 bp):
TTAAATTGACCCGTATGGAAACGAGTTTGGCTTATGGAAAAGCCTATGTGGCTTGGACGGAACCA
AGGCTTAGATTGACTTGTATGGAAACGA
Found at i:43400 original size:162 final size:155
Alignment explanation
Indices: 43177--43656 Score: 498
Period size: 162 Copynumber: 3.0 Consensus size: 155
43167 TGGAAACGAG
* * * * *
43177 TTGGCTTGTGGAAAAGCCTATATGGCTTGGATAGAACCAAGGCTTAAATTGACTTGTATGGAAAC
1 TTGGCTTGCGGAAAAGCCTATGTGACTT-GATAGAA-CAACGATTAAATTGACTTGTATGGAAAC
43242 GAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGG
64 GAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGG
43307 AAACGAGTTTGACTTATGGAAAAGCCT
129 AAACGAGTTTGACTTATGGAAAAGCCT
* * **
43334 ATGTGGCTTGGACGGAACCAAGACT-TAGATTGACTT-ATATGGA-AACGATTAAATTGACCCGT
1 -T-TGGCTT-G-CGGAA--AAGCCTAT-G--TGACTTGATA-GAACAACGATTAAATTGACTTGT
* * * *
43396 ATGGAAACGAGTTTGGCTTATGGAAAAGCTTATGTGGCTTGGACGGAACCAAGGCTTAGATTGAC
56 ATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGAC
* * * * **
43461 TTGTATGGAAACGATTAAATTGACCCGTATGGAAACGAGT
121 TCGTATGGAAACGAGT---TTGA--CTTATGGAAAAGCCT
* * * * *
43501 TTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCAAGGCTTAAATTGAATTGTATGGAAAC
1 TTGGCTTGCGGAAAAGCCTATGTGACTT-GATAGAA-CAACGATTAAATTGACTTGTATGGAAAC
* * * *
43566 GAGTTTGGCTTGTGGAAAAGCCTATGTGTCTTGGATAGAACCAAGACTTAACTTGACTCGTATGG
64 GAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGG
* *
43631 AAATGAGTTTGGCTTATGGAAAAGCC
129 AAACGAGTTTGACTTATGGAAAAGCC
43657 AAATTCTTGA
Statistics
Matches: 259, Mismatches: 44, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
157 10 0.04
158 1 0.00
159 14 0.05
160 3 0.01
161 13 0.05
162 176 0.68
163 12 0.05
164 3 0.01
165 15 0.06
166 1 0.00
167 11 0.04
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (155 bp):
TTGGCTTGCGGAAAAGCCTATGTGACTTGATAGAACAACGATTAAATTGACTTGTATGGAAACGA
GTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATGGAACCAAGGCTTAAATTGACTCGTATGGAA
ACGAGTTTGACTTATGGAAAAGCCT
Found at i:43552 original size:69 final size:69
Alignment explanation
Indices: 43475--43656 Score: 292
Period size: 69 Copynumber: 2.6 Consensus size: 69
43465 ATGGAAACGA
*
43475 TTAAATTGACCCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCA
1 TTAAATTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCA
*
43540 AGGC
66 AGAC
* * *
43544 TTAAATTGAATTGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGTCTTGGATAGAACCA
1 TTAAATTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCA
43609 AGAC
66 AGAC
* * *
43613 TTAACTTGACTCGTATGGAAATGAGTTTGGCTTATGGAAAAGCC
1 TTAAATTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCC
43657 AAATTCTTGA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 103 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (69 bp):
TTAAATTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTATGTGGCTTGGATAGAACCA
AGAC
Found at i:44223 original size:50 final size:48
Alignment explanation
Indices: 44166--44316 Score: 230
Period size: 50 Copynumber: 3.0 Consensus size: 48
44156 TAAAATGCCC
44166 TTTGAAAAGTAAATTTTGATCATGGACTCACAAATGGAATGCAATCTTAT
1 TTTGAAAA-TAAATTTTGAT-ATGGACTCACAAATGGAATGCAATCTTAT
*
44216 TTTGAAAATAGAATTTTGATATGAGACTCACGAATGGAATGCAATCTTAT
1 TTTGAAAATA-AATTTTGATATG-GACTCACAAATGGAATGCAATCTTAT
*
44266 TTTGAAAATCGAATTTTGATATAGGACTCACAAATGGAATGCAATCTTAT
1 TTTGAAAAT-AAATTTTGATAT-GGACTCACAAATGGAATGCAATCTTAT
44316 T
1 T
44317 ATAAAACTTC
Statistics
Matches: 94, Mismatches: 3, Indels: 8
0.90 0.03 0.08
Matches are distributed among these distances:
49 5 0.05
50 88 0.94
51 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (48 bp):
TTTGAAAATAAATTTTGATATGGACTCACAAATGGAATGCAATCTTAT
Found at i:44614 original size:11 final size:11
Alignment explanation
Indices: 44590--44647 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
44580 AGAGCCTATT
*
44590 TTTTTCATTCTC
1 TTTTTC-TTTTC
44602 TTTTTCTTTTC
1 TTTTTCTTTTC
44613 TTTTTCTTTTTC
1 TTTTTC-TTTTC
44625 TTCTTT-TTTTC
1 TT-TTTCTTTTC
*
44636 TTCTTTTTTTTC
1 TT-TTTCTTTTC
44648 CTTTCATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
11 21 0.50
12 18 0.43
13 3 0.07
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:44620 original size:17 final size:17
Alignment explanation
Indices: 44600--44647 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
44590 TTTTTCATTC
44600 TCTTTTTCTTTTCTTTT
1 TCTTTTTCTTTTCTTTT
44617 TCTTTTTCTTCTT-TTTT
1 TCTTTTTCTT-TTCTTTT
*
44634 TCTTCTTTTTTTTC
1 TCTT-TTTCTTTTC
44648 CTTTCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTTCTTTTCTTTT
Found at i:44645 original size:23 final size:23
Alignment explanation
Indices: 44590--44647 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
44580 AGAGCCTATT
* *
44590 TTTTTCATTCTCTTTTTCTTTTC
1 TTTTTCTTTTTCTTTTTCTTTTC
44613 TTTTTCTTTTTCTTCTTT-TTTTC
1 TTTTTCTTTTTCTT-TTTCTTTTC
44636 TTCTTT-TTTTTC
1 TT-TTTCTTTTTC
44648 CTTTCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTCTTTTTCTTTTTCTTTTC
Found at i:44657 original size:13 final size:14
Alignment explanation
Indices: 44641--44672 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
44631 TTTTCTTCTT
44641 TTTTTTCC-TTTCA
1 TTTTTTCCTTTTCA
44654 TTTTTTCCTTTTCA
1 TTTTTTCCTTTTCA
44668 TTTTT
1 TTTTT
44673 ACATGCCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTTCCTTTTCA
Found at i:44657 original size:14 final size:14
Alignment explanation
Indices: 44628--44672 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
44618 CTTTTTCTTC
*
44628 TTTTTTT-C-TTCT
1 TTTTTTTCCTTTCA
44640 TTTTTTTCCTTTCA
1 TTTTTTTCCTTTCA
44654 -TTTTTTCCTTTTCA
1 TTTTTTTCC-TTTCA
44668 TTTTT
1 TTTTT
44673 ACATGCCCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.25
13 9 0.32
14 8 0.29
15 4 0.14
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTTCCTTTCA
Found at i:44659 original size:28 final size:29
Alignment explanation
Indices: 44592--44659 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
44582 AGCCTATTTT
* *
44592 TTTCATTCTCTTTTTCTTTTCTTTTTCTT
1 TTTCATTCTTTTTTTCTTTTCTTTTTCTC
*
44621 TTTC-TTCTTTTTTTCTTCTTTTTTTTC-C
1 TTTCATTCTTTTTTTCTT-TTCTTTTTCTC
44649 TTTCATT-TTTT
1 TTTCATTCTTTT
44660 CCTTTTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTCATTCTTTTTTTCTTTTCTTTTTCTC
Found at i:45418 original size:45 final size:44
Alignment explanation
Indices: 45368--45465 Score: 169
Period size: 45 Copynumber: 2.2 Consensus size: 44
45358 CACAACTTTG
45368 GAAAACCATTTTATCAAAACCTTTTGAAAACCACGACTCTGTTT
1 GAAAACCATTTTATCAAAACCTTTTGAAAACCACGACTCTGTTT
* *
45412 GAAAAACCATTTTATCAAAACCTTTTGAAAACCATGACTCTTTTT
1 G-AAAACCATTTTATCAAAACCTTTTGAAAACCACGACTCTGTTT
45457 GAAAACCAT
1 GAAAACCAT
45466 CGTTGCTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 9 0.18
45 42 0.82
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (44 bp):
GAAAACCATTTTATCAAAACCTTTTGAAAACCACGACTCTGTTT
Found at i:45499 original size:18 final size:18
Alignment explanation
Indices: 45471--45515 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
45461 ACCATCGTTG
45471 CTTTTTCTCTTCTTTCTTT
1 CTTTTT-TCTTCTTTCTTT
* *
45490 CTTTTTTCTTTTTTTTTT
1 CTTTTTTCTTCTTTCTTT
45508 CATTTTTT
1 C-TTTTTT
45516 TATTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
CTTTTTTCTTCTTTCTTT
Found at i:45505 original size:11 final size:11
Alignment explanation
Indices: 45483--45516 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
45473 TTTTCTCTTC
*
45483 TTTCTTTCTTT
1 TTTCTTTTTTT
45494 TTTCTTTTTTT
1 TTTCTTTTTTT
45505 TTTCATTTTTTT
1 TTTC-TTTTTTT
45517 ATTCATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:45513 original size:8 final size:8
Alignment explanation
Indices: 45502--45559 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
45492 TTTTTCTTTT
45502 TTTTTTCA
1 TTTTTTCA
*
45510 TTTTTTTA
1 TTTTTTCA
45518 TTCATTTTCA
1 TT--TTTTCA
**
45528 TCATTTCA
1 TTTTTTCA
45536 TTTTTTTCA
1 -TTTTTTCA
45545 TTTTTTCCA
1 TTTTTT-CA
45554 TTTTTT
1 TTTTTT
45560 TGTTGGGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 20 0.50
9 14 0.35
10 6 0.15
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTTTCA
Found at i:45513 original size:12 final size:12
Alignment explanation
Indices: 45491--45525 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
45481 TCTTTCTTTC
45491 TTTTTTC-TTTT
1 TTTTTTCATTTT
45502 TTTTTTCATTTT
1 TTTTTTCATTTT
*
45514 TTTATTCATTTT
1 TTTTTTCATTTT
45526 CATCATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCATTTT
Found at i:45543 original size:9 final size:9
Alignment explanation
Indices: 45501--45560 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
45491 TTTTTTCTTT
45501 TTTTTTTCA
1 TTTTTTTCA
45510 TTTTTTT-A
1 TTTTTTTCA
*
45518 TTCATTTTCA
1 TT-TTTTTCA
**
45528 -TCATTTCA
1 TTTTTTTCA
45536 TTTTTTTCA
1 TTTTTTTCA
*
45545 TTTTTTCCA
1 TTTTTTTCA
45554 TTTTTTT
1 TTTTTTT
45561 GTTGGGAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 8 0.20
9 32 0.78
10 1 0.02
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:45544 original size:17 final size:18
Alignment explanation
Indices: 45522--45560 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
45512 TTTTTATTCA
45522 TTTTCATCATTT-CATTT
1 TTTTCATCATTTCCATTT
**
45539 TTTTCATTTTTTCCATTT
1 TTTTCATCATTTCCATTT
45557 TTTT
1 TTTT
45561 GTTGGGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCATCATTTCCATTT
Found at i:47038 original size:19 final size:18
Alignment explanation
Indices: 47014--47049 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47004 TGAAGACTTA
47014 TTGAAGATAATTTGAAGAC
1 TTGAAGATAA-TTGAAGAC
*
47033 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
47050 ATTATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAC
Found at i:47995 original size:20 final size:20
Alignment explanation
Indices: 47947--47996 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
47937 ATTATATAGA
47947 TTAGATCTAGAATTAACACC
1 TTAGATCTAGAATTAACACC
*
47967 TCAGATCTAGAATTAACACC
1 TTAGATCTAGAATTAACACC
*
47987 TTAGGTCTAG
1 TTAGATCTAG
47997 GTTTTTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (20 bp):
TTAGATCTAGAATTAACACC
Found at i:48311 original size:388 final size:388
Alignment explanation
Indices: 47595--48360 Score: 1424
Period size: 388 Copynumber: 2.0 Consensus size: 388
47585 TATAAATAGC
47595 CACCTTAGGTCTAGGTTTTTATGTATTCTCTTCTCATAAAAAATATATTGTAGAATTGCTTGAAG
1 CACCTTAGGTCTAGGTTTTTATGTATTCTCTTCTCATAAAAAATATATTGTAGAATTGCTTGAAG
47660 ATTTGGAGGAGAAAGCCCTAGGAGCCACCGCCCCCTCTTCTTCTTCATCCATAGATAAGTTTTCT
66 ATTTGGAGGAGAAAGCCCTAGGAGCCACCGCCCCCTCTTCTTCTTCATCCATAGATAAGTTTTCT
*
47725 TCTTCTTATTTGTGGATGCTCACTCAATCTATGAGTGAGTAATCCTTTTCTGTTCTCCAATGTAG
131 TCTTCTTATTTGTGGATGCTCACTCAATCTATGAGTGAGTAATCCTTTTCTGTTCCCCAATGTAG
*
47790 AATTTAATTGATCTCTTGACAATTATCATGATGAGATTTTGTGCTTATATATGAGAATTGTTTGG
196 AATTTAATTGATCTCTTGACAATTATCATGATGAGATTTTGTGCTTATAAATGAGAATTGTTTGG
*
47855 GTATTTCTTAGATCTCTATTTTAATCCCATGTTAACTTGTTTGATTGATTGAAGTCGACACTATC
261 GTATTGCTTAGATCTCTATTTTAATCCCATGTTAACTTGTTTGATTGATTGAAGTCGACACTATC
* *
47920 ATGATAATTATATTAGCATTATATAGATTAGATCTAGAATTAACACCTCAGATCTAGAATTAA
326 ATGATAATTAGATTAGCATTAGATAGATTAGATCTAGAATTAACACCTCAGATCTAGAATTAA
47983 CACCTTAGGTCTAGGTTTTTATGTATTCTCTTCTCATAAAAAATATATTGTAGAATTGCTTGAAG
1 CACCTTAGGTCTAGGTTTTTATGTATTCTCTTCTCATAAAAAATATATTGTAGAATTGCTTGAAG
*
48048 ATTTGGAGGAGAAAGCCCTAGGAGCCGCCGCCCCCTCTTCTTCTTCATCCATAGATAAGTTTTCT
66 ATTTGGAGGAGAAAGCCCTAGGAGCCACCGCCCCCTCTTCTTCTTCATCCATAGATAAGTTTTCT
*
48113 TCTTCTTATTTGTGGATGCTCACTCAATCTATGAGTGAGTAATCCTTTTCTTTTCCCCAATGTAG
131 TCTTCTTATTTGTGGATGCTCACTCAATCTATGAGTGAGTAATCCTTTTCTGTTCCCCAATGTAG
*
48178 AATTTAATTGATCTCTTGACAATTATCATGGTGAGATTTTGTGCTTATAAATGAGAATTGTTTGG
196 AATTTAATTGATCTCTTGACAATTATCATGATGAGATTTTGTGCTTATAAATGAGAATTGTTTGG
* *
48243 GTATTGCTTAGATCTTTGTTTTAATCCCATGTTAACTTGTTTGATTGATTGAAGTCGACACTATC
261 GTATTGCTTAGATCTCTATTTTAATCCCATGTTAACTTGTTTGATTGATTGAAGTCGACACTATC
* *
48308 ATGATAATTAGGTTAGCATTAGCTAGATTAGATCTAGAATTAACACCTCAGAT
326 ATGATAATTAGATTAGCATTAGATAGATTAGATCTAGAATTAACACCTCAGAT
48361 TTAATTCTAT
Statistics
Matches: 366, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
388 366 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (388 bp):
CACCTTAGGTCTAGGTTTTTATGTATTCTCTTCTCATAAAAAATATATTGTAGAATTGCTTGAAG
ATTTGGAGGAGAAAGCCCTAGGAGCCACCGCCCCCTCTTCTTCTTCATCCATAGATAAGTTTTCT
TCTTCTTATTTGTGGATGCTCACTCAATCTATGAGTGAGTAATCCTTTTCTGTTCCCCAATGTAG
AATTTAATTGATCTCTTGACAATTATCATGATGAGATTTTGTGCTTATAAATGAGAATTGTTTGG
GTATTGCTTAGATCTCTATTTTAATCCCATGTTAACTTGTTTGATTGATTGAAGTCGACACTATC
ATGATAATTAGATTAGCATTAGATAGATTAGATCTAGAATTAACACCTCAGATCTAGAATTAA
Found at i:48733 original size:13 final size:13
Alignment explanation
Indices: 48715--48739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48705 ATTCACTGTT
48715 TTTTCTTTAATTG
1 TTTTCTTTAATTG
48728 TTTTCTTTAATT
1 TTTTCTTTAATT
48740 TTCTTAATTG
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:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTCTTTAATTG
Found at i:48749 original size:22 final size:23
Alignment explanation
Indices: 48715--48757 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
48705 ATTCACTGTT
*
48715 TTTTCTTTAATTGTTTTCTTTAA
1 TTTTCTTTAATTGCTTTCTTTAA
48738 TTTTC-TTAATTGCTTTCTTT
1 TTTTCTTTAATTGCTTTCTTT
48758 GTTAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTCTTTAATTGCTTTCTTTAA
Found at i:52143 original size:11 final size:11
Alignment explanation
Indices: 52127--52152 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52117 CATCTTTTAA
52127 TTTTTTCATTT
1 TTTTTTCATTT
52138 TTTTTTCATTT
1 TTTTTTCATTT
52149 TTTT
1 TTTT
52153 GATTTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:52864 original size:42 final size:40
Alignment explanation
Indices: 52772--52890 Score: 127
Period size: 42 Copynumber: 3.0 Consensus size: 40
52762 AGTTTTATTA
* ** *
52772 ATTTCCCAAAAGTCTTCTCTTG-GATT--TTTAAAACTTTT
1 ATTT-CCAAAAGTCTTCTCTTGAAATTGCTAAAAAACATTT
* *
52810 ATTTCCAAAAGTCTTCTTTTGAATTTGCTAAAAAAACATTT
1 ATTTCCAAAAGTCTTCTCTTGAAATTGCT-AAAAAACATTT
*
52851 ATTTTCCAAAAGTCTTCTCTTGAAATTGCTTAAAAACATT
1 A-TTTCCAAAAGTCTTCTCTTGAAATTGCTAAAAAACATT
52891 CTTTTTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
37 16 0.24
38 6 0.09
40 1 0.01
41 18 0.27
42 26 0.39
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.43
Consensus pattern (40 bp):
ATTTCCAAAAGTCTTCTCTTGAAATTGCTAAAAAACATTT
Found at i:62801 original size:36 final size:37
Alignment explanation
Indices: 62774--62871 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
62764 ATTGACTCCC
* *
62774 CTTAATTACCATGAATTAAG-CCTTTTATTTACGCTA
1 CTTAATTACCCTGAATTAAGTCCTTTTATTAACGCTA
*
62810 CTTAATTACCCTGAATTAAGTCCCTTTATTAACGCTA
1 CTTAATTACCCTGAATTAAGTCCTTTTATTAACGCTA
62847 CTTAATTACCCTGAATTAAGTCCTT
1 CTTAATTACCCTGAATTAAGTCCTT
62872 GACTCTACTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 19 0.33
37 38 0.67
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (37 bp):
CTTAATTACCCTGAATTAAGTCCTTTTATTAACGCTA
Found at i:62935 original size:32 final size:35
Alignment explanation
Indices: 62860--62941 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 35
62850 AATTACCCTG
*
62860 AATTAAGTCCTTGACTCTACTTAATTTCCTTCCTTGA
1 AATTAAGTCCTTGACTCTACCTAA-TTCC-TCCTTGA
62897 AATTAAGTCCTTGACTCTACCTAA-TCC-CCTTG-
1 AATTAAGTCCTTGACTCTACCTAATTCCTCCTTGA
**
62929 GGTTAAGTCCTTG
1 AATTAAGTCCTTG
62942 TCTGATCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 11 0.26
33 5 0.12
35 3 0.07
37 23 0.55
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (35 bp):
AATTAAGTCCTTGACTCTACCTAATTCCTCCTTGA
Found at i:62972 original size:37 final size:34
Alignment explanation
Indices: 62926--63029 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 34
62916 CCTAATCCCC
* *
62926 TTGGGTTAAGTCCTTGTCTGATCTTACTTAATCATCT
1 TTGGATTAAGTCTTTGTCTGAT-TTACTTAAT--TCT
62963 TTGGATTAAGTCTTTGT-TGATATTACTTAATTCT
1 TTGGATTAAGTCTTTGTCTGAT-TTACTTAATTCT
*
62997 TGTGAAATTAAGTCTTTG-CTGATTTACTTAATT
1 T-TG-GATTAAGTCTTTGTCTGATTTACTTAATT
63030 ACCCTGAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.07
35 12 0.20
36 29 0.48
37 15 0.25
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.49
Consensus pattern (34 bp):
TTGGATTAAGTCTTTGTCTGATTTACTTAATTCT
Found at i:63045 original size:34 final size:35
Alignment explanation
Indices: 62931--63050 Score: 109
Period size: 36 Copynumber: 3.4 Consensus size: 35
62921 TCCCCTTGGG
* * * * *
62931 TTAAGTCCTTGTCTGATCTTACTTAATCATCTTTGGA
1 TTAAGTCTTTG-CTGATATTACTTAATTA-CTCTGAA
* *
62968 TTAAGTCTTTGTTGATATTACTTAATT-CTTGTGAAA
1 TTAAGTCTTTGCTGATATTACTTAATTAC-TCTG-AA
*
63004 TTAAGTCTTTGCTGAT-TTACTTAATTACCCTGAA
1 TTAAGTCTTTGCTGATATTACTTAATTACTCTGAA
*
63038 TTAAGTCTGTGCT
1 TTAAGTCTTTGCT
63051 TGGCTTTACC
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
34 15 0.21
35 15 0.21
36 30 0.43
37 10 0.14
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (35 bp):
TTAAGTCTTTGCTGATATTACTTAATTACTCTGAA
Found at i:63093 original size:41 final size:41
Alignment explanation
Indices: 63036--63258 Score: 346
Period size: 41 Copynumber: 5.5 Consensus size: 41
63026 AATTACCCTG
63036 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
* *
63077 AATTATGTTTGTGCTT-G-TTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
* * *
63116 AATTAAGTATGTGCTTGTCTTTACCTAATTGCCTTCCTTGA
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
*
63157 AATTAAGTCTGTGCTTGTCTTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
63198 AATTAAGTCTGTGCTT-G-TTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
* *
63237 AATTAAGTTTGTGCTTGTCTTT
1 AATTAAGTCTGTGCTTGGCTTT
63259 TCTTAATTAA
Statistics
Matches: 167, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 73 0.44
40 1 0.01
41 93 0.56
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (41 bp):
AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGA
Found at i:63266 original size:80 final size:81
Alignment explanation
Indices: 63036--63258 Score: 371
Period size: 80 Copynumber: 2.8 Consensus size: 81
63026 AATTACCCTG
*
63036 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGAAATTATGTTTGTGCTTG--TTTAC
1 AATTAAGTCTGTGCTT-GCTTTACCTAATTTCCTTCCTTGAAATTAAGTTTGTGCTTGTCTTTAC
63099 CTAATTTCCTTCCTTGA
65 CTAATTTCCTTCCTTGA
* * *
63116 AATTAAGTATGTGCTTGTCTTTACCTAATTGCCTTCCTTGAAATTAAGTCTGTGCTTGTCTTTAC
1 AATTAAGTCTGTGCTTG-CTTTACCTAATTTCCTTCCTTGAAATTAAGTTTGTGCTTGTCTTTAC
63181 CTAATTTCCTTCCTTGA
65 CTAATTTCCTTCCTTGA
63198 AATTAAGTCTGTGCTTG-TTTACCTAATTTCCTTCCTTGAAATTAAGTTTGTGCTTGTCTTT
1 AATTAAGTCTGTGCTTGCTTTACCTAATTTCCTTCCTTGAAATTAAGTTTGTGCTTGTCTTT
63259 TCTTAATTAA
Statistics
Matches: 133, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
79 1 0.01
80 94 0.71
82 38 0.29
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (81 bp):
AATTAAGTCTGTGCTTGCTTTACCTAATTTCCTTCCTTGAAATTAAGTTTGTGCTTGTCTTTACC
TAATTTCCTTCCTTGA
Found at i:63266 original size:121 final size:121
Alignment explanation
Indices: 63036--63258 Score: 410
Period size: 121 Copynumber: 1.8 Consensus size: 121
63026 AATTACCCTG
* *
63036 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGAAATTATGTTTGTGCTTGTTTACCT
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTGTTTACCT
63101 AATTTCCTTCCTTGAAATTAAGTATGTGCTTGTCTTTACCTAATTGCCTTCCTTGA
66 AATTTCCTTCCTTGAAATTAAGTATGTGCTTGTCTTTACCTAATTGCCTTCCTTGA
*
63157 AATTAAGTCTGTGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTGTTTACCT
1 AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTGTTTACCT
*
63222 AATTTCCTTCCTTGAAATTAAGTTTGTGCTTGTCTTT
66 AATTTCCTTCCTTGAAATTAAGTATGTGCTTGTCTTT
63259 TCTTAATTAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 98 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (121 bp):
AATTAAGTCTGTGCTTGGCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTGTTTACCT
AATTTCCTTCCTTGAAATTAAGTATGTGCTTGTCTTTACCTAATTGCCTTCCTTGA
Found at i:63371 original size:39 final size:39
Alignment explanation
Indices: 63300--63771 Score: 498
Period size: 39 Copynumber: 11.5 Consensus size: 39
63290 CTTTTACTTT
* *
63300 ATTATCCTGAATTAAGTCCTTTACTGACTGTGTTCTCTTA
1 ATTACCCTGAATTAAG-ACTTTACTGACTGTGTTCTCTTA
* *
63340 ATCACCCTGAATTAAGACTTTACTGATTGTGTTATCTTTTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTG-T-TC---TCTTA
63384 ATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTA
* *
63423 ATTACCCTGAATTTAGACTTTACTAACTGTGTTTACTTTTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTG-TT-C---TCTTA
*
63467 ATTACCCTGAATTAAGACTTTACTAACTGTGTTCTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTA
*
63506 ATTACCCTGAATTAAGACTTTACTAACTGTGTTTACTTTTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTG-TT-C---TCTTA
*
63550 ATTACCCTGAAATAAGACTTTACTGACTGTGTTCTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTA
*
63589 ATTACCCTGAATTAAGACTTTACTAACTGTGTTCTCTTA
1 ATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTA
** *
63628 ATTACCCTGAATTAAGACTTTAACTGTGTTTGACTT-TCTTA
1 ATTACCCTGAATTAAGACTTT-ACTGACTGTG--TTCTCTTA
* ** * * *
63669 ATTACTCTGAATTAAGACTTTGACTGTGTTTACTTTTCTTA
1 ATTACCCTGAATTAAGACTTT-ACTGACTGT-GTTCTCTTA
* ** *
63710 ATTACCATGAATTAAGACTTTAACTGTGTTTGACTT-TCTTA
1 ATTACCCTGAATTAAGACTTT-ACTGACTGTG--TTCTCTTA
*
63751 ATTACTCTGAATTAAGACTTT
1 ATTACCCTGAATTAAGACTTT
63772 GACTTTGTTT
Statistics
Matches: 384, Mismatches: 26, Indels: 43
0.85 0.06 0.09
Matches are distributed among these distances:
39 146 0.38
40 27 0.07
41 95 0.25
42 8 0.02
43 5 0.01
44 103 0.27
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (39 bp):
ATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTA
Found at i:63411 original size:83 final size:82
Alignment explanation
Indices: 63288--63809 Score: 638
Period size: 83 Copynumber: 6.4 Consensus size: 82
63278 AGTCTTTGAC
* * * *
63288 TTCTTTTACTTTATTATCCTGAATTAAGTCCTTTACTGACTGTGTTCTCTTAATCACCCTGAATT
1 TTCTTTT-CTTAATTACCCTGAATTAAG-ACTTTACTGACTGTGTTCTCTTAATTACCCTGAATT
* *
63353 AAGACTTTACTGATTGTGT
64 AAGACTTTACTAACTGTGT
*
63372 TATCTTTTCTTAATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTAATTACCCTGAATTT
1 T-TCTTTTCTTAATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTAATTACCCTGAATTA
63437 AGACTTTACTAACTGTGT
65 AGACTTTACTAACTGTGT
*
63455 TTACTTTTCTTAATTACCCTGAATTAAGACTTTACTAACTGTGTTCTCTTAATTACCCTGAATTA
1 TT-CTTTTCTTAATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTAATTACCCTGAATTA
63520 AGACTTTACTAACTGTGT
65 AGACTTTACTAACTGTGT
*
63538 TTACTTTTCTTAATTACCCTGAAATAAGACTTTACTGACTGTGTTCTCTTAATTACCCTGAATTA
1 TT-CTTTTCTTAATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTAATTACCCTGAATTA
63603 AGACTTTACTAACTGTG-
65 AGACTTTACTAACTGTGT
** * *
63620 TTC---TCTTAATTACCCTGAATTAAGACTTTAACTGTGTTTGACTT-TCTTAATTACTCTGAAT
1 TTCTTTTCTTAATTACCCTGAATTAAGACTTT-ACTGACTGTG--TTCTCTTAATTACCCTGAAT
*
63681 TAAGAC-TT--TGACTGTGT
63 TAAGACTTTACTAACTGTGT
* ** * *
63698 TTACTTTTCTTAATTACCATGAATTAAGACTTTAACTGTGTTTGACTT-TCTTAATTACTCTGAA
1 TT-CTTTTCTTAATTACCCTGAATTAAGACTTT-ACTGACTGTG--TTCTCTTAATTACCCTGAA
63762 TTAAGACTTTGACT---T-TGT
62 TTAAGACTTT-ACTAACTGTGT
* *
63780 TTACTCTTCTTAATTACCATGAATTAAGAC
1 TT-CTTTTCTTAATTACCCTGAATTAAGAC
63810 CTTAACTGTG
Statistics
Matches: 405, Mismatches: 19, Indels: 30
0.89 0.04 0.07
Matches are distributed among these distances:
77 7 0.02
78 27 0.07
79 10 0.02
80 22 0.05
81 3 0.01
82 98 0.24
83 212 0.52
84 19 0.05
85 6 0.01
86 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.44
Consensus pattern (82 bp):
TTCTTTTCTTAATTACCCTGAATTAAGACTTTACTGACTGTGTTCTCTTAATTACCCTGAATTAA
GACTTTACTAACTGTGT
Found at i:63846 original size:41 final size:41
Alignment explanation
Indices: 63446--63846 Score: 251
Period size: 41 Copynumber: 9.9 Consensus size: 41
63436 TAGACTTTAC
*
63446 TAACTGTGTTT-ACTTTTCTTAA-TTACCCTGAATTAAGACTTT
1 TAACTGTGTTTGAC-TTTCTTAATTTA-TCTGAATTAAGAC-TT
*
63488 ACTAACTGTG-TT--C--TCTTAA-TTACCCTGAATTAAGACTTT
1 --TAACTGTGTTTGACTTTCTTAATTTA-TCTGAATTAAGAC-TT
* *
63527 ACTAACTGTGTTT-ACTTTTCTTAA-TTACCCTGAAATAAGACTT
1 --TAACTGTGTTTGAC-TTTCTTAATTTA-TCTGAATTAAGACTT
** * *
63570 T-ACTGACTGTG--TTCTCTTAA-TTACCCTGAATTAAGACTTT
1 TAACTGTGTTTGACTT-TCTTAATTTA-TCTGAATTAAGAC-TT
*
63610 ACTAACTGTG-TT--C--TCTTAA-TTACCCTGAATTAAGACTT
1 --TAACTGTGTTTGACTTTCTTAATTTA-TCTGAATTAAGACTT
63648 TAACTGTGTTTGACTTTCTTAA-TTACTCTGAATTAAGACTT
1 TAACTGTGTTTGACTTTCTTAATTTA-TCTGAATTAAGACTT
* *
63689 TGACTGTGTTT-ACTTTTCTTAA-TTACCATGAATTAAGACTT
1 TAACTGTGTTTGAC-TTTCTTAATTTATC-TGAATTAAGACTT
63730 TAACTGTGTTTGACTTTCTTAA-TTACTCTGAATTAAGACTT
1 TAACTGTGTTTGACTTTCTTAATTTA-TCTGAATTAAGACTT
* * * *
63771 TGACTTTGTTT-ACTCTTCTTAA-TTACCATGAATTAAGACCT
1 TAACTGTGTTTGACT-TTCTTAATTTATC-TGAATTAAGACTT
* * *
63812 TAACTGTGTTTGACTTTCCTAATTTTTCTTAATTA
1 TAACTGTGTTTGACTTTCTTAATTTATCTGAATTA
63847 CACTGAATTA
Statistics
Matches: 309, Mismatches: 23, Indels: 53
0.80 0.06 0.14
Matches are distributed among these distances:
36 8 0.03
37 2 0.01
38 4 0.01
39 82 0.27
40 17 0.06
41 146 0.47
42 12 0.04
43 8 0.03
44 30 0.10
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (41 bp):
TAACTGTGTTTGACTTTCTTAATTTATCTGAATTAAGACTT
Found at i:63846 original size:123 final size:123
Alignment explanation
Indices: 63338--63835 Score: 417
Period size: 122 Copynumber: 4.0 Consensus size: 123
63328 TGTGTTCTCT
* *
63338 TAATCACCCTGAATTAAGACTTT-ACTGATTGTGTT-ATCTTTTCTTAATTACCCTGAATTAAGA
1 TAATTACCATGAATTAAGACTTTAACTG--TGT-TTGA-C-TTTCTTAATTACCCTGAATTAAGA
** * * * *
63401 CTTT-ACTGACTGTG--TTCTCTTAATTACCCTGAATTTAGACTTTACTAACTGTGTTTACTTTT
61 CTTTAACTGTGTTTGACTT-TCTTAATTACTCTGAATTAAGAC-CT--TAACTGTGTTTACTTTT
*
63463 CT
122 CC
*
63465 TAATTACCCTGAATTAAGACTTTACTAACTGTG-TT--C--TCTTAATTACCCTGAATTAAGACT
1 TAATTACCATGAATTAAGAC-TT--TAACTGTGTTTGACTTTCTTAATTACCCTGAATTAAGAC-
* * * ** * * * *
63525 TTACTAACTGTGTTT-ACTTTTCTTAATTACCCTGAAATAAGA-CTTTACTGACTGT-GTTCTCT
62 TT--TAACTGTGTTTGAC-TTTCTTAATTACTCTGAATTAAGACCTTAACTGTGTTTACTTTTCC
*
63587 TAATTACCCTGAATTAAGACTTTACTAACTGTG-TT--C--TCTTAATTACCCTGAATTAAGACT
1 TAATTACCATGAATTAAGAC-TT--TAACTGTGTTTGACTTTCTTAATTACCCTGAATTAAGACT
* * *
63647 TTAACTGTGTTTGACTTTCTTAATTACTCTGAATTAAGACTTTGACTGTGTTTACTTTTCT
63 TTAACTGTGTTTGACTTTCTTAATTACTCTGAATTAAGACCTTAACTGTGTTTACTTTTCC
* *
63708 TAATTACCATGAATTAAGACTTTAACTGTGTTTGACTTTCTTAATTACTCTGAATTAAGACTTTG
1 TAATTACCATGAATTAAGACTTTAACTGTGTTTGACTTTCTTAATTACCCTGAATTAAGACTTTA
*
63773 ACTTTGTTT-ACTCTTCTTAATTAC-CATGAATTAAGACCTTAACTGTGTTTGAC-TTTCC
66 ACTGTGTTTGACT-TTCTTAATTACTC-TGAATTAAGACCTTAACTGTGTTT-ACTTTTCC
63831 TAATT
1 TAATT
63836 TTTCTTAATT
Statistics
Matches: 320, Mismatches: 29, Indels: 48
0.81 0.07 0.12
Matches are distributed among these distances:
118 8 0.03
119 35 0.11
120 12 0.04
121 27 0.08
122 91 0.28
123 84 0.26
124 2 0.01
125 3 0.01
126 6 0.02
127 41 0.13
128 4 0.01
129 2 0.01
130 1 0.00
131 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (123 bp):
TAATTACCATGAATTAAGACTTTAACTGTGTTTGACTTTCTTAATTACCCTGAATTAAGACTTTA
ACTGTGTTTGACTTTCTTAATTACTCTGAATTAAGACCTTAACTGTGTTTACTTTTCC
Found at i:68997 original size:26 final size:25
Alignment explanation
Indices: 68944--68991 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
68934 TTTCCCTCTG
68944 AAAAAAAAATGAGTGTTAGTAACCT
1 AAAAAAAAATGAGTGTTAGTAACCT
*
68969 AAAAAAAAA-GGGTGTTAGTAACC
1 AAAAAAAAATGAGTGTTAGTAACC
68992 CCTAAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.52, C:0.08, G:0.19, T:0.21
Consensus pattern (25 bp):
AAAAAAAAATGAGTGTTAGTAACCT
Done.