Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012590.1 Corchorus capsularis cultivar CVL-1 contig12611, 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: 17246
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Found at i:873 original size:30 final size:31
Alignment explanation
Indices: 839--900 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
829 AATTGATCCG
839 TGAAG-TGAACTT-AGTGAGCAATTAAGTCCC
1 TGAAGTTG-ACTTAAGTGAGCAATTAAGTCCC
* * *
869 TGAAGTTGAGTTAATTGAGCAATTAGGTCCC
1 TGAAGTTGACTTAAGTGAGCAATTAAGTCCC
900 T
1 T
901 CACCAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (31 bp):
TGAAGTTGACTTAAGTGAGCAATTAAGTCCC
Found at i:929 original size:15 final size:16
Alignment explanation
Indices: 907--944 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
897 CCCTCACCAA
*
907 ATTTTTTTAAATATAT
1 ATTTTTTTAAATAAAT
923 ATTTTTTTAAA-AAAT
1 ATTTTTTTAAATAAAT
938 ATTTTTT
1 ATTTTTT
945 CAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTTTAAATAAAT
Found at i:4335 original size:31 final size:31
Alignment explanation
Indices: 4293--4366 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
4283 GTTATTGATT
*
4293 GGACTAAATTGACCCAATCTGCAAAGTAGAG
1 GGACTAAATTGACCCAAACTGCAAAGTAGAG
* * *
4324 GGACGAAATTGACCCAAAGTGCCAAGTAGAG
1 GGACTAAATTGACCCAAACTGCAAAGTAGAG
4355 GGACTAAATTGA
1 GGACTAAATTGA
4367 TACTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (31 bp):
GGACTAAATTGACCCAAACTGCAAAGTAGAG
Found at i:5108 original size:5 final size:5
Alignment explanation
Indices: 5094--5126 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5084 TCTTTTTTAA
*
5094 TTTCT CTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
5127 TCTCCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:5122 original size:15 final size:15
Alignment explanation
Indices: 5094--5139 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
5084 TCTTTTTTAA
5094 TTTCTCTTCTTTTCT
1 TTTCTCTTCTTTTCT
*
5109 TTTCTTTTCTTTTCT
1 TTTCTCTTCTTTTCT
* *
5124 TTT-TCTCCTTTCCT
1 TTTCTCTTCTTTTCT
5138 TT
1 TT
5140 GCTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTCTTCTTTTCT
Found at i:7156 original size:9 final size:9
Alignment explanation
Indices: 7142--7212 Score: 67
Period size: 9 Copynumber: 7.8 Consensus size: 9
7132 AGCTGGTTTT
7142 AAAATATAA
1 AAAATATAA
*
7151 AAAATACTTA
1 AAAATA-TAA
7161 AAAA-AT-A
1 AAAATATAA
7168 AAAATATTAA
1 AAAATA-TAA
7178 AAAATATTAA
1 AAAATA-TAA
7188 AAAAT-TAAA
1 AAAATAT-AA
*
7197 AAAATATTA
1 AAAATATAA
7206 AAAATAT
1 AAAATAT
7213 TTAAAAATGC
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
7 5 0.09
8 3 0.06
9 23 0.43
10 23 0.43
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATATAA
Found at i:7171 original size:19 final size:19
Alignment explanation
Indices: 7142--7220 Score: 85
Period size: 19 Copynumber: 4.3 Consensus size: 19
7132 AGCTGGTTTT
7142 AAAATATAAAAAATACTT-A
1 AAAATATAAAAAATA-TTAA
7161 AAAA-AT-AAAAATATTAA
1 AAAATATAAAAAATATTAA
*
7178 AAAATATTAAAAAAT-TAAA
1 AAAATA-TAAAAAATATTAA
* *
7197 AAAATATTAAAAATATTTA
1 AAAATATAAAAAATATTAA
7216 AAAAT
1 AAAAT
7221 GCCACGTAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
16 2 0.04
17 12 0.24
18 10 0.20
19 21 0.41
20 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATAAAAAATATTAA
Found at i:7213 original size:9 final size:9
Alignment explanation
Indices: 7142--7220 Score: 83
Period size: 10 Copynumber: 8.6 Consensus size: 9
7132 AGCTGGTTTT
*
7142 AAAATATAA
1 AAAATATTA
7151 AAAATACTTA
1 AAAATA-TTA
7161 AAAA-A-TA
1 AAAATATTA
7168 AAAATATTAA
1 AAAATATT-A
7178 AAAATATTA
1 AAAATATTA
7187 AAAA-ATTAAA
1 AAAATATT--A
7197 AAAATATTA
1 AAAATATTA
7206 AAAATATTTA
1 AAAATA-TTA
7216 AAAAT
1 AAAAT
7221 GCCACGTAGG
Statistics
Matches: 61, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
7 6 0.10
8 4 0.07
9 20 0.33
10 28 0.46
11 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATATTA
Found at i:9032 original size:119 final size:118
Alignment explanation
Indices: 8763--9295 Score: 644
Period size: 105 Copynumber: 4.6 Consensus size: 118
8753 ATTCGGTGCT
* ** * *
8763 AGCATTCTTCACTCGTGCGGTTGGCACTCTAAATTGAGCACTCTTTTTTCGCGCGTTGGTGATTG
1 AGCATTCTTCACTCGCGCGGTTGGCACT-TTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTG
* * * *
8828 CACGTGCTTAGG-GGAGTTGTACCTTTTTCAGAGGAGCATTCGGTGCTCTTCATTA
65 CACGTGCTT-GGAGGAGTTGCA-CGTGTTCAGGGGAGCATTCGGTGCTCTTCATTA
*
8883 AGCATTCTTCACTCGCGTGGTTGGCACTCTTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTG
1 AGCATTCTTCACTCGCGCGGTTGGCACT-TTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTG
8948 CACGTGCTTGGAGGAGTTGCACGTGTTCAGGGGAGCATTCGGTGCTCTTCATTA
65 CACGTGCTTGGAGGAGTTGCACGTGTTCAGGGGAGCATTCGGTGCTCTTCATTA
* * *
9002 ATCAGTCTTCACTCGCGCGG-T-G----------G-GCACTCTTCTTTCGCACATTGGTGATTGC
1 AGCATTCTTCACTCGCGCGGTTGGCACTTTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTGC
* * *
9054 ACGTGCTTCGAGGAGTTGTACATGTTCAGGGGAGCATTCGGTGCTCTTCATTA
66 ACGTGCTTGGAGGAGTTGCACGTGTTCAGGGGAGCATTCGGTGCTCTTCATTA
* * * * * *
9107 AGCATTCTTCATTCGCACGGTTGTCACTTTCATTGAGCACTCTTCTTTCCCGTATCGGTGATTGC
1 AGCATTCTTCACTCGCGCGGTTGGCACTTTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTGC
* * * * *
9172 ACGTGCTTGGGGGAGTTGCACGTGTTAAAGGGAACATTCAGTGCTCTTCATTA
66 ACGTGCTTGGAGGAGTTGCACGTGTTCAGGGGAGCATTCGGTGCTCTTCATTA
* * * *
9225 AGCATTCTTCATTCGTGCGGTTGGAACTTTTCATTGAGCACTCTTCTTTTGCGCATTGGTGATTG
1 AGCATTCTTCACTCGCGCGGTTGGCAC-TTTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTG
9290 CACGTG
65 CACGTG
9296 TTCAGGGGAG
Statistics
Matches: 356, Mismatches: 42, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
105 94 0.26
106 2 0.01
117 2 0.01
118 94 0.26
119 88 0.25
120 76 0.21
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (118 bp):
AGCATTCTTCACTCGCGCGGTTGGCACTTTCATTGAGCACTCTTCTTTCGCGCATTGGTGATTGC
ACGTGCTTGGAGGAGTTGCACGTGTTCAGGGGAGCATTCGGTGCTCTTCATTA
Found at i:9189 original size:223 final size:225
Alignment explanation
Indices: 8800--9245 Score: 662
Period size: 223 Copynumber: 2.0 Consensus size: 225
8790 TCTAAATTGA
* * * * * *
8800 GCACTCTTTTTTCGCGCGTTGGTGATTGCACGTGCTTAGGGGAGTTGTACCTTTTTCAGAGGAGC
1 GCACTCTTCTTTCGCACATTGGTGATTGCACGTGCTTAGAGGAGTTGTACCATGTTCAGAGGAGC
**
8865 ATTCGGTGCTCTTCATTAAGCATTCTTCACTCGCGTGGTTGGCACTCTTCATTGAGCACTCTTCT
66 ATTCGGTGCTCTTCATTAAGCATTCTTCACTCGCACGGTTGGCACTCTTCATTGAGCACTCTTCT
* * * * * *
8930 TTCGCGCATTGGTGATTGCACGTGCTTGGAGGAGTTGCACGTGTTCAGGGGAGCATTCGGTGCTC
131 TTCCCGCATCGGTGATTGCACGTGCTTGGAGGAGTTGCACGTGTTAAAGGGAACATTCAGTGCTC
*
8995 TTCATTAATCAGTCTTCACTCGCGCGGTGG
196 TTCATTAAGCAGTCTTCACTCGCGCGGTGG
* *
9025 GCACTCTTCTTTCGCACATTGGTGATTGCACGTGCTTCGAGGAGTTGTA-CATGTTCAGGGGAGC
1 GCACTCTTCTTTCGCACATTGGTGATTGCACGTGCTTAGAGGAGTTGTACCATGTTCAGAGGAGC
* *
9089 ATTCGGTGCTCTTCATTAAGCATTCTTCATTCGCACGGTTGTCACT-TTCATTGAGCACTCTTCT
66 ATTCGGTGCTCTTCATTAAGCATTCTTCACTCGCACGGTTGGCACTCTTCATTGAGCACTCTTCT
* *
9153 TTCCCGTATCGGTGATTGCACGTGCTTGGGGGAGTTGCACGTGTTAAAGGGAACATTCAGTGCTC
131 TTCCCGCATCGGTGATTGCACGTGCTTGGAGGAGTTGCACGTGTTAAAGGGAACATTCAGTGCTC
* * *
9218 TTCATTAAGCATTCTTCATTCGTGCGGT
196 TTCATTAAGCAGTCTTCACTCGCGCGGT
9246 TGGAACTTTT
Statistics
Matches: 197, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
223 99 0.50
224 54 0.27
225 44 0.22
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (225 bp):
GCACTCTTCTTTCGCACATTGGTGATTGCACGTGCTTAGAGGAGTTGTACCATGTTCAGAGGAGC
ATTCGGTGCTCTTCATTAAGCATTCTTCACTCGCACGGTTGGCACTCTTCATTGAGCACTCTTCT
TTCCCGCATCGGTGATTGCACGTGCTTGGAGGAGTTGCACGTGTTAAAGGGAACATTCAGTGCTC
TTCATTAAGCAGTCTTCACTCGCGCGGTGG
Found at i:9233 original size:118 final size:119
Alignment explanation
Indices: 9025--9295 Score: 382
Period size: 118 Copynumber: 2.3 Consensus size: 119
9015 CGCGCGGTGG
* * * * *
9025 GCACTCTTCTTTCGCACATTGGTGATTGCACGTGCTTCGAGGAGTTGTACATGTTCAGGGGAGCA
1 GCACTCTTCTTTCGCGCATTGGTGATTGCACGTGCTTCGAGGAGTTGCACATGTTAAAGGGAACA
* **
9090 TTCGGTGCTCTTCATTAAGCATTCTTCATTCGCACGGTTGTCAC-TTTCATTGA
66 TTCAGTGCTCTTCATTAAGCATTCTTCATTCGCACGGTTGGAACTTTTCATTGA
* * * * * *
9143 GCACTCTTCTTTCCCGTATCGGTGATTGCACGTGCTTGGGGGAGTTGCACGTGTTAAAGGGAACA
1 GCACTCTTCTTTCGCGCATTGGTGATTGCACGTGCTTCGAGGAGTTGCACATGTTAAAGGGAACA
**
9208 TTCAGTGCTCTTCATTAAGCATTCTTCATTCGTGCGGTTGGAACTTTTCATTGA
66 TTCAGTGCTCTTCATTAAGCATTCTTCATTCGCACGGTTGGAACTTTTCATTGA
*
9262 GCACTCTTCTTTTGCGCATTGGTGATTGCACGTG
1 GCACTCTTCTTTCGCGCATTGGTGATTGCACGTG
9296 TTCAGGGGAG
Statistics
Matches: 132, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
118 93 0.70
119 39 0.30
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (119 bp):
GCACTCTTCTTTCGCGCATTGGTGATTGCACGTGCTTCGAGGAGTTGCACATGTTAAAGGGAACA
TTCAGTGCTCTTCATTAAGCATTCTTCATTCGCACGGTTGGAACTTTTCATTGA
Found at i:9593 original size:18 final size:18
Alignment explanation
Indices: 9570--9616 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
9560 TCCTTGCCAA
*
9570 CCCTTAAGAGGTGTTGGG
1 CCCTTAAGAGGCGTTGGG
9588 CCCTTAAGAGGCGTTGGG
1 CCCTTAAGAGGCGTTGGG
9606 CCCTTAAGAGG
1 CCCTTAAGAGG
9617 GATCTTTGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.23
Consensus pattern (18 bp):
CCCTTAAGAGGCGTTGGG
Found at i:9739 original size:24 final size:24
Alignment explanation
Indices: 9712--9758 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9702 CGATTGCTCG
* *
9712 CGCTCGCCCTTTTGTCTTGTTGGT
1 CGCTCACCCTTTTGACTTGTTGGT
9736 CGCTCACCCTTTTGACTTGTTGG
1 CGCTCACCCTTTTGACTTGTTGG
9759 AGATGGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.30, G:0.23, T:0.43
Consensus pattern (24 bp):
CGCTCACCCTTTTGACTTGTTGGT
Found at i:10252 original size:327 final size:327
Alignment explanation
Indices: 9680--10383 Score: 1212
Period size: 327 Copynumber: 2.1 Consensus size: 327
9670 TTGTTCTGAA
* *
9680 GTCAAGTATAGAGCTAATTTTACGATTGCTCGCGCTCGCCCTTTTGTCTTGTTGGTCGCTCACCC
1 GTCAAGTATAGAGCTAATTTTAC-AAT--T---GCTCGCCCTTTTGACTTGTTGGTCGCTCACCC
*
9745 TTTTGACTTGTTGGAGATGGTCATATGACCCACTGCTCCTTAGGCAGCGTTCACATATTGGTGAA
60 TTTTGACTTGTTGGAGATGGTCATATGACCCACTGCTCCTTAGGCAGCGCTCACATATTGGTGAA
*
9810 AACAAAGGATATTTAATACAAATGATAAGATGAATAACTGCTCTTATCTGGTCGGGATGGTTATA
125 AACAAAGGATATTTAATACAAATGATAAGATGAATAACTGCTCTTATCTGGTCGAGATGGTTATA
*
9875 CCAACCGCTTGCCAATTATCCTTAGTTTTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCG
190 CCAACCGCTTGCCAATTATCCTTAGTTTTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCA
*
9940 CCCTTTTGACTCGTGCTTTTATTAGGTCGAGGATAGTGAAACCAATCGCTCGCCAATTAACTTTG
255 CCCTTTTGACTCGTGCTTTTATTAGGTCGAGGATAGTGAAACCAATCGCTCGCCAATTAACATTG
10005 GTCTTGAG
320 GTCTTGAG
*
10013 GTCAAGTATAGAGCTAATTTTACAATTGCTCGCCCTTTTGACTTGTTGGTCGTTCACCCTTTTGA
1 GTCAAGTATAGAGCTAATTTTACAATTGCTCGCCCTTTTGACTTGTTGGTCGCTCACCCTTTTGA
* *
10078 CTTGTTGGAGATGGTCATATGACCCACTGCTCCTTAGGTAGCGCTCACATATTGGTGAAAGCAAA
66 CTTGTTGGAGATGGTCATATGACCCACTGCTCCTTAGGCAGCGCTCACATATTGGTGAAAACAAA
* *
10143 GGATATTTAATACAAGTGATAAGATGAATAACTGCTCTTATCTGGTCGAAGATGGTTATATC-AC
131 GGATATTTAATACAAATGATAAGATGAATAACTGCTCTTATCTGGTCG-AGATGGTTATACCAAC
10207 CGCTTGCCAATTATCCTTAGTTTTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCACCCTT
195 CGCTTGCCAATTATCCTTAGTTTTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCACCCTT
*
10272 TTGACTCGTGCTTTTATTAGGTCGAGGATAGTGAAACCAATCGCTCGCCAATTAGCATTGGTCTT
260 TTGACTCGTGCTTTTATTAGGTCGAGGATAGTGAAACCAATCGCTCGCCAATTAACATTGGTCTT
10337 GAG
325 GAG
*
10340 GTCAAGTATAGAGCTAATCTTTACGATTGCTCGCCCTTTTGACT
1 GTCAAGTATAGAGCTAAT-TTTACAATTGCTCGCCCTTTTGACT
10384 CGTGCTTTTA
Statistics
Matches: 356, Mismatches: 13, Indels: 9
0.94 0.03 0.02
Matches are distributed among these distances:
327 295 0.83
328 35 0.10
330 1 0.00
332 2 0.01
333 23 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (327 bp):
GTCAAGTATAGAGCTAATTTTACAATTGCTCGCCCTTTTGACTTGTTGGTCGCTCACCCTTTTGA
CTTGTTGGAGATGGTCATATGACCCACTGCTCCTTAGGCAGCGCTCACATATTGGTGAAAACAAA
GGATATTTAATACAAATGATAAGATGAATAACTGCTCTTATCTGGTCGAGATGGTTATACCAACC
GCTTGCCAATTATCCTTAGTTTTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCACCCTTT
TGACTCGTGCTTTTATTAGGTCGAGGATAGTGAAACCAATCGCTCGCCAATTAACATTGGTCTTG
AG
Found at i:10405 original size:106 final size:106
Alignment explanation
Indices: 10229--10488 Score: 450
Period size: 106 Copynumber: 2.5 Consensus size: 106
10219 ATCCTTAGTT
*
10229 TTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCACCCTTTTGACTCGTGCTTTTATTAGGT
1 TTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCGCCCTTTTGACTCGTGCTTTTATTAGGT
*
10294 CGAGGATAGTGAAACCAATCGCTCGCCAATTAGCATTGGTC
66 CGAGGATAGTGAAACCAATCGCTCGCCAATTAACATTGGTC
*
10335 TTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCGCCCTTTTGACTCGTGCTTTTATTGGGT
1 TTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCGCCCTTTTGACTCGTGCTTTTATTAGGT
* * *
10400 TGAGGATAGTGAAACCAATCGCTCGCCAATTAACTTTTGTC
66 CGAGGATAGTGAAACCAATCGCTCGCCAATTAACATTGGTC
*
10441 TTGAGGTCAAGTATAGAGCTAAT-TTTACAATTGCTCGCCCTTTTGACT
1 TTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCGCCCTTTTGACT
10489 TGTTGGTCGC
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
105 24 0.16
106 123 0.84
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (106 bp):
TTGAGGTCAAGTATAGAGCTAATCTTTACGATTGCTCGCCCTTTTGACTCGTGCTTTTATTAGGT
CGAGGATAGTGAAACCAATCGCTCGCCAATTAACATTGGTC
Found at i:10505 original size:24 final size:24
Alignment explanation
Indices: 10473--10518 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10463 TTTTACAATT
*
10473 GCTCGCCCTTTTGACTTGTTGGTC
1 GCTCACCCTTTTGACTTGTTGGTC
10497 GCTCACCCTTTTGACTTGTTGG
1 GCTCACCCTTTTGACTTGTTGG
10519 AGATGGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.07, C:0.28, G:0.24, T:0.41
Consensus pattern (24 bp):
GCTCACCCTTTTGACTTGTTGGTC
Done.