Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014540.1 Corchorus olitorius cultivar O-4 contig14573, 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: 58095
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:246 original size:19 final size:19
Alignment explanation
Indices: 190--247 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
180 TTATGATCAG
*
190 AGTTGATCTCCTTTCAAGA
1 AGTTGATCTCATTTCAAGA
209 AGTT--T-TCATTGATC-A-A
1 AGTTGATCTCATT--TCAAGA
225 AGTTGATCTCATTTCAAGA
1 AGTTGATCTCATTTCAAGA
244 AGTT
1 AGTT
248 TTTTTTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
18 4 0.13
19 14 0.45
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
AGTTGATCTCATTTCAAGA
Found at i:305 original size:108 final size:106
Alignment explanation
Indices: 1--519 Score: 742
Period size: 108 Copynumber: 4.9 Consensus size: 106
* * ** *
1 TTTTCAATT-ATCAAAGTTGATCTCGTTTCAAGAAGTTTTCGT-TGATCAAAGTTGATCTCATTT
1 TTTTC-ATTGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTTATGATCAGAGTTGATCTCATTT
* *
64 CAAGAAGTTTTTT-TAATCAGAGTTGATCTCGTTTCAAGAAG
65 CAAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
* * * *
105 TTTT-TTATGATCAGAGTTGATCTCAGTTCAAGAAGTTTTTTTATGATTAGAGTTGATCTCGTTT
1 TTTTCAT-TGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTTATGATCAGAGTTGATCTCATTT
169 CAAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
65 CAAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
* *
211 TTTTCATTGATCAAAGTTGATCTCATTTCAAGAAGTTTTTTTTTATGATCAGAGTTGATCTCGTT
1 TTTTCATTGATCAGAGTTGATCTCATTTCAAGAAG--TTTTTTTATGATCAGAGTTGATCTCATT
276 TCAAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
64 TCAAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
*
319 TTTTCGTTGATCAGAGTTGATCTCATTTCAAGAAGGTTTTTTTTATGATCAGAGTTGATCTCATT
1 TTTTCATTGATCAGAGTTGATCTCATTTCAAGAA-G-TTTTTTTATGATCAGAGTTGATCTCATT
** *
384 TCAAGAAGTTTTCGATGATCAGAGTTGATCTCGTTTCAAGAAG
64 TCAAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
* * * *
427 TTTTGA-TGATCAGAGTTGATCTTATTTCAAGAAGTTTTTTTATGATCAGAGTTGATCTTATTTT
1 TTTTCATTGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTTATGATCAGAGTTGATCTCATTTC
**
491 AAGAAGTTTTCGATGATCAGAGTTGATCT
66 AAGAAGTTTTTTATGATCAGAGTTGATCT
520 TCACATTGAT
Statistics
Matches: 381, Mismatches: 26, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
102 1 0.00
103 1 0.00
104 32 0.08
105 88 0.23
106 57 0.15
107 27 0.07
108 174 0.46
109 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (106 bp):
TTTTCATTGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTTATGATCAGAGTTGATCTCATTTC
AAGAAGTTTTTTATGATCAGAGTTGATCTCCTTTCAAGAAG
Found at i:319 original size:143 final size:140
Alignment explanation
Indices: 10--519 Score: 697
Period size: 143 Copynumber: 3.6 Consensus size: 140
1 TTTTCAATT
* *
10 ATCAAAGTTGATCTCGTTTCAAGAAGTTTTCGTTGATCAAAGTTGATCTCATTTCAAGAAGTTTT
1 ATCAGAGTTGATCTCGTTTCAAGAAGTTTTCGTTGATCAGAGTTGATCTCATTTCAAGAAGTTTT
* * *
75 -TTTAATCAGAGTTGATCTCGTTTCAAGAAGTTTTTTATGATCAGAGTTGATCTCAG-TTCAAGA
66 CATTGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATGATCAGAGTTGATCTC-GTTTCAAGA
138 AGTTTTTTTATG
130 AG-TTTTTTATG
* * *
150 ATTAGAGTTGATCTCGTTTCAAGAAGTTTT-TTATGATCAGAGTTGATCTCCTTTCAAGAAGTTT
1 ATCAGAGTTGATCTCGTTTCAAGAAGTTTTCGT-TGATCAGAGTTGATCTCATTTCAAGAAGTTT
*
214 TCATTGATCAAAGTTGATCTCATTTCAAGAAGTTTTTTTTTATGATCAGAGTTGATCTCGTTTCA
65 TCATTGATCAGAGTTGATCTCATTTCAAGAAG---TTTTTTATGATCAGAGTTGATCTCGTTTCA
279 AGAAGTTTTTTATG
127 AGAAGTTTTTTATG
*
293 ATCAGAGTTGATCTCCTTTCAAGAAGTTTTCGTTGATCAGAGTTGATCTCATTTCAAGAAGGTTT
1 ATCAGAGTTGATCTCGTTTCAAGAAGTTTTCGTTGATCAGAGTTGATCTCATTTCAAGAA-G-TT
** **
358 TTTTTATGATCAGAGTTGATCTCATTTCAAGAAGTTTTCGATGATCAGAGTTGATCTCGTTTCAA
64 TTCAT-TGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATGATCAGAGTTGATCTCGTTTCAA
*
423 GAAG-TTTTGATG
128 GAAGTTTTTTATG
** ** * *
435 ATCAGAGTTGATCTTATTTCAAGAAGTTTTTTTATGATCAGAGTTGATCTTATTTTAAGAAGTTT
1 ATCAGAGTTGATCTCGTTTCAAGAAGTTTTCGT-TGATCAGAGTTGATCTCATTTCAAGAAGTTT
500 TCGA-TGATCAGAGTTGATCT
65 TC-ATTGATCAGAGTTGATCT
520 TCACATTGAT
Statistics
Matches: 331, Mismatches: 27, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
139 1 0.00
140 74 0.22
141 30 0.09
142 37 0.11
143 122 0.37
144 35 0.11
145 5 0.02
146 27 0.08
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (140 bp):
ATCAGAGTTGATCTCGTTTCAAGAAGTTTTCGTTGATCAGAGTTGATCTCATTTCAAGAAGTTTT
CATTGATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATGATCAGAGTTGATCTCGTTTCAAGAA
GTTTTTTATG
Found at i:487 original size:18 final size:18
Alignment explanation
Indices: 432--487 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
422 AGAAGTTTTG
432 ATGATCAGAGTTGATCTT
1 ATGATCAGAGTTGATCTT
* * *
450 AT-TTCAAGAAGTT-TTTTT
1 ATGATC-AG-AGTTGATCTT
468 ATGATCAGAGTTGATCTT
1 ATGATCAGAGTTGATCTT
486 AT
1 AT
488 TTTAAGAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 6 0.21
18 16 0.57
19 6 0.21
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.45
Consensus pattern (18 bp):
ATGATCAGAGTTGATCTT
Found at i:520 original size:35 final size:35
Alignment explanation
Indices: 10--519 Score: 670
Period size: 35 Copynumber: 14.4 Consensus size: 35
1 TTTTCAATT
* * *
10 ATCAAAGTTGATCTCGTTTCAAGAAGTTTTCGT-TG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTT-TTATG
* *
45 ATCAAAGTTGATCTCATTTCAAGAAGTTTTTT-TA
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
*
79 ATCAGAGTTGATCTCGTTTCAAGAAGTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
*
114 ATCAGAGTTGATCTCAGTTCAAGAAGTTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAAG-TTTTTTATG
* *
150 ATTAGAGTTGATCTCGTTTCAAGAAGTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
* *
185 ATCAGAGTTGATCTCCTTTCAAGAAG-TTTTCATTG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTA-TG
*
220 ATCAAAGTTGATCTCATTTCAAGAAGTTTTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAAG---TTTTTTATG
*
258 ATCAGAGTTGATCTCGTTTCAAGAAGTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
* *
293 ATCAGAGTTGATCTCCTTTCAAGAAGTTTTCGT-TG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTT-TTATG
328 ATCAGAGTTGATCTCATTTCAAGAAGGTTTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAA-G--TTTTTTATG
**
366 ATCAGAGTTGATCTCATTTCAAGAAGTTTTCGATG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
* *
401 ATCAGAGTTGATCTCGTTTCAAGAAG-TTTTGATG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
*
435 ATCAGAGTTGATCTTATTTCAAGAAGTTTTTTTATG
1 ATCAGAGTTGATCTCATTTCAAGAAG-TTTTTTATG
* * **
471 ATCAGAGTTGATCTTATTTTAAGAAGTTTTCGATG
1 ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
506 ATCAGAGTTGATCT
1 ATCAGAGTTGATCT
520 TCACATTGAT
Statistics
Matches: 428, Mismatches: 33, Indels: 28
0.88 0.07 0.06
Matches are distributed among these distances:
34 68 0.16
35 230 0.54
36 66 0.15
37 2 0.00
38 57 0.13
39 5 0.01
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (35 bp):
ATCAGAGTTGATCTCATTTCAAGAAGTTTTTTATG
Found at i:1080 original size:16 final size:16
Alignment explanation
Indices: 1059--1093 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1049 TAGCACTAAA
1059 ATTTGAGAGA-TTTGGT
1 ATTTGAGAGAGTTT-GT
1075 ATTTGAGAGAGTTTGT
1 ATTTGAGAGAGTTTGT
1091 ATT
1 ATT
1094 CAACCGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (16 bp):
ATTTGAGAGAGTTTGT
Found at i:10010 original size:108 final size:109
Alignment explanation
Indices: 9808--10061 Score: 345
Period size: 108 Copynumber: 2.3 Consensus size: 109
9798 AATTTTCCCT
* *
9808 AAAAAATAAAACA-ACTTTATAATT-GGGCTAAATCTTACTTATAAGTGTTCAAACTTATTTTTC
1 AAAAAATAAAACATA-TTTATAATTGGGGCTAAACCTTACTTAAAAGTGTTCAAACTTATTTTTC
* * * **
9871 TAAAACCCTAAGATAGTGGATCTTACCATTTAAGATTTACCCTTA
65 TAAAACCCTAAAATAATGAATCTTAAAATTTAAGATTTACCCTTA
* * *
9916 AAAAAATAAAACATATTT-TAGTTGGGGCTGAACCTTATTTAAAAGTGTTCAAACTTATTTTTCT
1 AAAAAATAAAACATATTTATAATTGGGGCTAAACCTTACTTAAAAGTGTTCAAACTTATTTTTCT
*
9980 AAAACCCTAAAATAATGAATTTTAAAATTTAAGATTTACCCTTA
66 AAAACCCTAAAATAATGAATCTTAAAATTTAAGATTTACCCTTA
* *
10024 AAAAAACT-AAATATATTTATAATTGGGGTTAAACCTTA
1 AAAAAA-TAAAACATATTTATAATTGGGGCTAAACCTTA
10062 ATTATTGTTA
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
107 4 0.03
108 105 0.83
109 18 0.14
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (109 bp):
AAAAAATAAAACATATTTATAATTGGGGCTAAACCTTACTTAAAAGTGTTCAAACTTATTTTTCT
AAAACCCTAAAATAATGAATCTTAAAATTTAAGATTTACCCTTA
Found at i:12321 original size:18 final size:18
Alignment explanation
Indices: 12272--12325 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
12262 TATCCAATAA
*
12272 TATTTCCAATGATTAAAT
1 TATTTCCAATAATTAAAT
**
12290 TATTTTTTAATAATTAAAT
1 TA-TTTCCAATAATTAAAT
12309 TATTTCCAATAATTAAA
1 TATTTCCAATAATTAAA
12326 ACCTAAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (18 bp):
TATTTCCAATAATTAAAT
Found at i:16331 original size:129 final size:129
Alignment explanation
Indices: 16101--16346 Score: 404
Period size: 129 Copynumber: 1.9 Consensus size: 129
16091 GAACTATCTC
* *
16101 CTGCTTTGCAGCAGCAGTCACTTGAACTCCCTACTTCACCTGGTTACCTTGCACCTCAGCCTGCC
1 CTGCTTTGCAGCAGCAGCCACTTGAACTCCCTACTTCACCTGGTCACCTTGCACCTCAGCCTGCC
* * *
16166 TCTCCTGTTTCACCCCATCATGATGGTCTGAATAAGGGCAAGGAACTTGTAGCAGTTGGTCCCT
66 TCTCCTGTTTCACCCCATCAAGATGGTCGGAATAAGGGCAAGCAACTTGTAGCAGTTGGTCCCT
* * *
16230 CTGCTTTGCAGCGGCAGCCACTTGAACTGCCTACTTCACCTGGTCACCTTGCACCTCAGCCTGTC
1 CTGCTTTGCAGCAGCAGCCACTTGAACTCCCTACTTCACCTGGTCACCTTGCACCTCAGCCTGCC
16295 TCTCCTGTTTCACCCCATCAAGATGG-CAGGAATAAGGGCAAGCAACTTGTAG
66 TCTCCTGTTTCACCCCATCAAGATGGTC-GGAATAAGGGCAAGCAACTTGTAG
16347 TAGCTGAGCC
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 1 0.01
129 107 0.99
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (129 bp):
CTGCTTTGCAGCAGCAGCCACTTGAACTCCCTACTTCACCTGGTCACCTTGCACCTCAGCCTGCC
TCTCCTGTTTCACCCCATCAAGATGGTCGGAATAAGGGCAAGCAACTTGTAGCAGTTGGTCCCT
Found at i:26264 original size:42 final size:42
Alignment explanation
Indices: 26205--26320 Score: 200
Period size: 42 Copynumber: 2.8 Consensus size: 42
26195 GGAAGATATA
*
26205 TGTAGTTGGATTGGAATTCTGATATGAGAAGTTAAATTCATG
1 TGTAGCTGGATTGGAATTCTGATATGAGAAGTTAAATTCATG
*
26247 TGTAGCTGGATTGGAATTCTGATATGAGAAGTTAAATTTATG
1 TGTAGCTGGATTGGAATTCTGATATGAGAAGTTAAATTCATG
26289 TGTAGCTGGATTGG-ATT-TGATATGAGAAGTTA
1 TGTAGCTGGATTGGAATTCTGATATGAGAAGTTA
26321 TATGGGTATT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 15 0.21
41 3 0.04
42 54 0.75
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (42 bp):
TGTAGCTGGATTGGAATTCTGATATGAGAAGTTAAATTCATG
Found at i:27517 original size:104 final size:104
Alignment explanation
Indices: 27324--27745 Score: 819
Period size: 104 Copynumber: 4.1 Consensus size: 104
27314 AAACAGTGCT
27324 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGA-GGCAAGTTGCATTCCGAGCT
1 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
27388 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
66 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
27427 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
1 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
27492 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
66 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
27531 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
1 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
*
27596 TAATGCCTTGAAATTCTGCAATGGCAATATCAGTGATTC
66 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
*
27635 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAATACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
1 CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
27700 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
66 TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
27739 CAAGGAA
1 CAAGGAA
27746 ACATGAAAAT
Statistics
Matches: 315, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
103 44 0.14
104 271 0.86
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (104 bp):
CAAGGAATCAGTCTCTATCCAAAGTCTTGGAACACCAGAATTGAGGGCAAGTTGCATTCCGAGCT
TAATGCCTTGAAGTTCTGCAATGGCAATATCAGTGATTC
Found at i:27895 original size:56 final size:56
Alignment explanation
Indices: 27809--27917 Score: 200
Period size: 56 Copynumber: 1.9 Consensus size: 56
27799 AACCTGAGAA
*
27809 ACCAGGATTACCAATACACGACCCATCGGTGTTTAGTTTGAAAATATTGGGAGGGG
1 ACCAGGATTACCAATACACGACCCATCGGTGTTTAGTTTGAAAACATTGGGAGGGG
*
27865 ACCAGGATTACCAATACATGACCCATCGGTGTTTAGTTTGAAAACATTGGGAG
1 ACCAGGATTACCAATACACGACCCATCGGTGTTTAGTTTGAAAACATTGGGAG
27918 AGGAGGGGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (56 bp):
ACCAGGATTACCAATACACGACCCATCGGTGTTTAGTTTGAAAACATTGGGAGGGG
Found at i:37730 original size:2 final size:2
Alignment explanation
Indices: 37723--37789 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
37713 ATGCATACAT
37723 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
37765 AT AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
37790 TATATATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.48, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:38995 original size:18 final size:18
Alignment explanation
Indices: 38972--39007 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38962 AGAAAGTGTA
38972 GAACTAATTTCTTTTCAT
1 GAACTAATTTCTTTTCAT
38990 GAACTAATTTCTTTTCAT
1 GAACTAATTTCTTTTCAT
39008 TTCATTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
GAACTAATTTCTTTTCAT
Found at i:57008 original size:75 final size:75
Alignment explanation
Indices: 56885--57109 Score: 351
Period size: 75 Copynumber: 3.0 Consensus size: 75
56875 TTAACTAAAT
*
56885 TGAGAAAAGACCAAAACGGGGCGAAAAGGTTCTCCCACGTTAAAAGTTGATGGGAGCTATCAATA
1 TGAGAAAAGACCAAAACGGGGCGAAAAGGTTCTCCCACGTTAAAAGTTGATGGGAGCTATCAGTA
*
56950 AATTCCAGAG
66 ATTTCCAGAG
* * * **
56960 TGAGAAAAGACCGAAACGGGGCAAAAAGGTTCTCCCACATTAAAAGTTGATGGGAGCTATTGGTA
1 TGAGAAAAGACCAAAACGGGGCGAAAAGGTTCTCCCACGTTAAAAGTTGATGGGAGCTATCAGTA
57025 ATTTCCAGAG
66 ATTTCCAGAG
* * * *
57035 TGTGAAAATACCAAAACGGGGCGAAAAGGTTTTCCCACGTTAAAAGTTGATTGGAGCTATCAGTA
1 TGAGAAAAGACCAAAACGGGGCGAAAAGGTTCTCCCACGTTAAAAGTTGATGGGAGCTATCAGTA
57100 ATTTCCAGAG
66 ATTTCCAGAG
57110 GGTATTCAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 134 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (75 bp):
TGAGAAAAGACCAAAACGGGGCGAAAAGGTTCTCCCACGTTAAAAGTTGATGGGAGCTATCAGTA
ATTTCCAGAG
Found at i:58041 original size:2 final size:2
Alignment explanation
Indices: 58036--58095 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
58026 ATATATATAT
58036 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
58078 AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.