Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022945.1 Corchorus olitorius cultivar O-4 contig22978, 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: 72905
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:1439 original size:14 final size:13
Alignment explanation
Indices: 1414--1438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1404 CCTTTTTTCG
1414 TTTTTTTAAAAAC
1 TTTTTTTAAAAAC
1427 TTTTTTTAAAAA
1 TTTTTTTAAAAA
1439 ATTACCTTTT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTTTAAAAAC
Found at i:2435 original size:53 final size:53
Alignment explanation
Indices: 2350--2459 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
2340 TGTTTATTCA
* **
2350 ATTGGACCTACTAAATAAGGGCACATACCAAATAATACAAAATGCAATGAACT
1 ATTGAACCTACTAAATAAGCACACATACCAAATAATACAAAATGCAATGAACT
*
2403 ATTGAACCTATTAAATAAGCACACATACCAAATAATACAAAATGCAATGAACT
1 ATTGAACCTACTAAATAAGCACACATACCAAATAATACAAAATGCAATGAACT
2456 ATTG
1 ATTG
2460 GATTTAAAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (53 bp):
ATTGAACCTACTAAATAAGCACACATACCAAATAATACAAAATGCAATGAACT
Found at i:2723 original size:43 final size:44
Alignment explanation
Indices: 2664--2955 Score: 361
Period size: 43 Copynumber: 6.8 Consensus size: 44
2654 CCAATAACCA
*
2664 AAAAGTCCCCAAACACATATATAACACA-TGGCATTTCTATTCC
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTATTCC
* * *
2707 AAAAGTCCTCAAACACATATATAACATAGAGGCA--TCTATACC
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTATTCC
* * * *
2749 -CAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTATTCC
* *
2792 -AAAGTCCCCAAACACATATATAACACAGGGGCATTGCTATTCC
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTATTCC
*
2835 AAAAGTCCTCAAACACATATATAACACAGAGGCA--TCTATAT-C
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTAT-TCC
* * *
2877 -AAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTATTCC
* *
2920 AAAA-TCCTCAAACACATATATAACACAAAGGCATTT
1 AAAAGTCCCCAAACACATATATAACACAGAGGCATTT
2956 TTCCTTATGG
Statistics
Matches: 217, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
41 60 0.28
42 13 0.06
43 106 0.49
44 38 0.18
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.22
Consensus pattern (44 bp):
AAAAGTCCCCAAACACATATATAACACAGAGGCATTTCTATTCC
Found at i:2807 original size:84 final size:85
Alignment explanation
Indices: 2665--2952 Score: 363
Period size: 84 Copynumber: 3.4 Consensus size: 85
2655 CAATAACCAA
* * * *
2665 AAAGTCCCCAAACACATATATAACACA-TGGCATTTCTATTCCAAAAGTCCTCAAACACATATAT
1 AAAGTCCCCAAACACATATATAACACAGAGGCAATTCTATTAC-AAAGTCCCCAAACACATATAT
* *
2729 AACATAGAGGCA-TCTATACC
65 AACACAGGGGCATTCTATACC
* *
2749 CAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTACAAAGTCCCCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGAGGCAATTCTATTACAAAGTCCCCAAACACATATATA
*
2814 ACACAGGGGCATTGCTATTCC
66 ACACAGGGGCATT-CTATACC
*
2835 AAAAGTCCTCAAACACATATATAACACAGAGGC-A-TCTA-TATCAAAGTCCCCAAACACATATA
1 -AAAGTCCCCAAACACATATATAACACAGAGGCAATTCTATTA-CAAAGTCCCCAAACACATATA
2897 TAACACAGGGGCAATTCTATTA-C
64 TAACACAGGGGC-ATTCTA-TACC
* * *
2920 AAAATCCTCAAACACATATATAACACAAAGGCA
1 AAAGTCCCCAAACACATATATAACACAGAGGCA
2953 TTTTTCCTTA
Statistics
Matches: 182, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
84 88 0.48
85 54 0.30
86 11 0.06
87 29 0.16
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (85 bp):
AAAGTCCCCAAACACATATATAACACAGAGGCAATTCTATTACAAAGTCCCCAAACACATATATA
ACACAGGGGCATTCTATACC
Found at i:2848 original size:128 final size:127
Alignment explanation
Indices: 2665--2946 Score: 492
Period size: 128 Copynumber: 2.2 Consensus size: 127
2655 CAATAACCAA
* *
2665 AAAGTCCCCAAACACATATATAACACATGGCATTTCTATTCCAAAAGTCCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGCATTGCTATTCCAAAAGTCCTCAAACACATATATA
* *
2730 ACATAGAGGCATCTATACCCAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
66 ACACAGAGGCATCTATACCAAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
2792 AAAGTCCCCAAACACATATATAACACAGGGGCATTGCTATTCCAAAAGTCCTCAAACACATATAT
1 AAAGTCCCCAAACACATATATAACACA-GGGCATTGCTATTCCAAAAGTCCTCAAACACATATAT
*
2857 AACACAGAGGCATCTATATCAAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
65 AACACAGAGGCATCTATACCAAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
* *
2920 AAAATCCTCAAACACATATATAACACA
1 AAAGTCCCCAAACACATATATAACACA
2947 AAGGCATTTT
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
127 27 0.18
128 120 0.82
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.22
Consensus pattern (127 bp):
AAAGTCCCCAAACACATATATAACACAGGGCATTGCTATTCCAAAAGTCCTCAAACACATATATA
ACACAGAGGCATCTATACCAAAGTCCCCAAACACATATATAACACAGGGGCAATTCTATTAC
Found at i:3076 original size:2 final size:2
Alignment explanation
Indices: 3069--3109 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
3059 TCCTATATTT
* *
3069 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3110 GTGACAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7929 original size:126 final size:126
Alignment explanation
Indices: 7704--8079 Score: 707
Period size: 126 Copynumber: 3.0 Consensus size: 126
7694 CATGTCTTAC
*
7704 TTCAAATGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTATCTACCTAGCTAAAAAGGA
1 TTCAAATGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTGTCTACCTAGCTAAAAAGGA
*
7769 AAAAGAGATTTGGTAGCAAACTATATTTCTCAATTTGTTAAGAGAAGATGAAAAGGCTAGG
66 AAAAGAGATTTGGTAGCAAACTATATTTCTCAATTTGTTAAGAGAAGATAAAAAGGCTAGG
7830 TTCAAATGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTGTCTACCTAGCTAAAAAGGA
1 TTCAAATGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTGTCTACCTAGCTAAAAAGGA
* *
7895 AAAAGAGATTCGGTGGCAAACTATATTTCTCAATTTGTTAAGAGAAGATAAAAAGGCTAGG
66 AAAAGAGATTTGGTAGCAAACTATATTTCTCAATTTGTTAAGAGAAGATAAAAAGGCTAGG
*
7956 TTCAAAAGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTGTCTACCTAGCTAAAAAGGA
1 TTCAAATGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTGTCTACCTAGCTAAAAAGGA
8021 AAAAGAGATTTGGTAGCAAACTATATTTCTCAATTTGTTAAGAGAAGATAAAAAGGCTA
66 AAAAGAGATTTGGTAGCAAACTATATTTCTCAATTTGTTAAGAGAAGATAAAAAGGCTA
8080 TGTCATATGC
Statistics
Matches: 243, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 243 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (126 bp):
TTCAAATGCTTCTCTCATTTGATGCTCTAGGTTTAACCTCTGGCTGTCTACCTAGCTAAAAAGGA
AAAAGAGATTTGGTAGCAAACTATATTTCTCAATTTGTTAAGAGAAGATAAAAAGGCTAGG
Found at i:9680 original size:30 final size:30
Alignment explanation
Indices: 9644--9734 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
9634 CAGTTAGTCC
9644 CTGTTGATGAGTCAGAGTCTGCTGAGAAAA
1 CTGTTGATGAGTCAGAGTCTGCTGAGAAAA
*
9674 CTGTTGATGAGTCGGAGTCTGCTGAGAAAA
1 CTGTTGATGAGTCAGAGTCTGCTGAGAAAA
9704 CTGTTGATGAGTCAGAGTCTGCTGAGAAAA
1 CTGTTGATGAGTCAGAGTCTGCTGAGAAAA
9734 C
1 C
9735 CAAGAAGCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (30 bp):
CTGTTGATGAGTCAGAGTCTGCTGAGAAAA
Found at i:14998 original size:27 final size:27
Alignment explanation
Indices: 14968--15026 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
14958 ATTGGTTGAT
14968 GCATTAACAACAATATCTAATTAATTA
1 GCATTAACAACAATATCTAATTAATTA
14995 GCATTAACAACAATATCTAATTAATTA
1 GCATTAACAACAATATCTAATTAATTA
15022 GCATT
1 GCATT
15027 CCCAAATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (27 bp):
GCATTAACAACAATATCTAATTAATTA
Found at i:26752 original size:12 final size:12
Alignment explanation
Indices: 26735--26770 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
26725 TCCCATTTAA
26735 TTTAATTTTGAT
1 TTTAATTTTGAT
*
26747 TTTAATTTTAAT
1 TTTAATTTTGAT
26759 TTTAATTGTTGA
1 TTTAATT-TTGA
26771 ACCAACGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
TTTAATTTTGAT
Found at i:26754 original size:6 final size:6
Alignment explanation
Indices: 26730--26765 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
26720 TTTATTCCCA
*
26730 TTTAA- TTTAAT TTTGAT TTTAAT TTTAAT TTTAAT T
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT T
26766 GTTGAACCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:30185 original size:21 final size:21
Alignment explanation
Indices: 30159--30227 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
30149 CTAATCAAGT
30159 CCACATAAAATGGCACAAAAC
1 CCACATAAAATGGCACAAAAC
* *
30180 CCACATAAAAGGGCACAAAGC
1 CCACATAAAATGGCACAAAAC
* *
30201 CCACATAAAGTGTG-ACAAAAT
1 CCACATAAAATG-GCACAAAAC
30222 CCACAT
1 CCACAT
30228 GCAATTTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.48, C:0.28, G:0.13, T:0.12
Consensus pattern (21 bp):
CCACATAAAATGGCACAAAAC
Found at i:35681 original size:8 final size:8
Alignment explanation
Indices: 35668--35692 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35658 TAATTTCAAT
35668 GTAGAACA
1 GTAGAACA
35676 GTAGAACA
1 GTAGAACA
35684 GTAGAACA
1 GTAGAACA
35692 G
1 G
35693 ACCATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.28, T:0.12
Consensus pattern (8 bp):
GTAGAACA
Found at i:48287 original size:6 final size:6
Alignment explanation
Indices: 48276--48318 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
48266 AATCATTTAC
* * *
48276 TAGAGG TAGAGG TAGAGG AAGAGG AAGAGG AAGAGG TAGAGG T
1 TAGAGG TAGAGG TAGAGG TAGAGG TAGAGG TAGAGG TAGAGG T
48319 GGATATAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.12
Consensus pattern (6 bp):
TAGAGG
Found at i:48293 original size:12 final size:12
Alignment explanation
Indices: 48276--48317 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
48266 AATCATTTAC
*
48276 TAGAGGTAGAGG
1 TAGAGGAAGAGG
48288 TAGAGGAAGAGG
1 TAGAGGAAGAGG
*
48300 AAGAGGAAGAGG
1 TAGAGGAAGAGG
48312 TAGAGG
1 TAGAGG
48318 TGGATATAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.50, T:0.10
Consensus pattern (12 bp):
TAGAGGAAGAGG
Found at i:48808 original size:6 final size:6
Alignment explanation
Indices: 48789--48825 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
48779 CTTTGTCGTT
*
48789 ATTTT- ATTTTA ATTTCA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
48826 ATATATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:52139 original size:21 final size:21
Alignment explanation
Indices: 52113--52157 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
52103 GGTGTGCTTG
* *
52113 TTTGATGTTATGGCATTTTCT
1 TTTGATGTCATGACATTTTCT
52134 TTTGATGTCATGACATTTTCT
1 TTTGATGTCATGACATTTTCT
52155 TTT
1 TTT
52158 TGTGGGCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (21 bp):
TTTGATGTCATGACATTTTCT
Found at i:53165 original size:22 final size:22
Alignment explanation
Indices: 53140--53185 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
53130 TCTAAAGATT
53140 TCCCATTGTATACAAATTAGAC
1 TCCCATTGTATACAAATTAGAC
53162 TCCCATTGTATACAAATTAGAC
1 TCCCATTGTATACAAATTAGAC
53184 TC
1 TC
53186 GGGCTTGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.33
Consensus pattern (22 bp):
TCCCATTGTATACAAATTAGAC
Found at i:53402 original size:52 final size:52
Alignment explanation
Indices: 53324--53428 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
53314 ACAAATTCTA
53324 ATCACTCTAGTAAGGTTTGGAGTTAAAGTTAAATAGAGATTAGTAGGGATTT
1 ATCACTCTAGTAAGGTTTGGAGTTAAAGTTAAATAGAGATTAGTAGGGATTT
53376 ATCACTCTAGTAAGGTTTGGAGTTAAAGTTAAATAGAGATTAGTAGGGATTT
1 ATCACTCTAGTAAGGTTTGGAGTTAAAGTTAAATAGAGATTAGTAGGGATTT
53428 A
1 A
53429 CTGCTTTAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (52 bp):
ATCACTCTAGTAAGGTTTGGAGTTAAAGTTAAATAGAGATTAGTAGGGATTT
Found at i:54909 original size:14 final size:14
Alignment explanation
Indices: 54890--54919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54880 GTCTGTCCCA
54890 ACCCACTTCCCATT
1 ACCCACTTCCCATT
*
54904 ACCCACTTTCCATT
1 ACCCACTTCCCATT
54918 AC
1 AC
54920 TAAGGCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (14 bp):
ACCCACTTCCCATT
Found at i:55098 original size:1 final size:1
Alignment explanation
Indices: 55092--55126 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
55082 TCTATTGGGG
55092 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
55127 GTCAAAGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:69667 original size:49 final size:50
Alignment explanation
Indices: 69582--69714 Score: 147
Period size: 49 Copynumber: 2.8 Consensus size: 50
69572 ATCTTTTACA
*
69582 TTTCC-TGCA-CTTTTTCTCAA-TTTTACA-ACAAAATTGAATCTTTA-TT
1 TTTCCTTGCACCTTTTTCTCAATTTTTA-AGACAAAATTGAATATTTACTT
69628 TTTCCTTGCACCTTTTTCTCAATTTTTAAGACAAAATTGAATATTTACTT
1 TTTCCTTGCACCTTTTTCTCAATTTTTAAGACAAAATTGAATATTTACTT
* * * * *
69678 TTT-ATTGCTCC-TTTTATCAATTTCT-GGACAAAATTGA
1 TTTCCTTGCACCTTTTTCTCAATTTTTAAGACAAAATTGA
69715 TTGGCACGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
46 5 0.07
47 15 0.20
48 24 0.32
49 27 0.36
50 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (50 bp):
TTTCCTTGCACCTTTTTCTCAATTTTTAAGACAAAATTGAATATTTACTT
Found at i:70473 original size:18 final size:18
Alignment explanation
Indices: 70452--70494 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
70442 GCCACACTGT
70452 ACCAAGTAGCCGCACCAC
1 ACCAAGTAGCCGCACCAC
* **
70470 ACCAAGTGGTTGCACCAC
1 ACCAAGTAGCCGCACCAC
70488 ACCAAGT
1 ACCAAGT
70495 TGCCACACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.19, T:0.12
Consensus pattern (18 bp):
ACCAAGTAGCCGCACCAC
Found at i:72232 original size:76 final size:76
Alignment explanation
Indices: 72082--72224 Score: 175
Period size: 76 Copynumber: 1.9 Consensus size: 76
72072 ACAAGGACCC
* *
72082 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTTGTTTGCTTGAGAACCCAGGT
1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTTGTTTGCCTGAGAACCCAGAT
72147 GGATAGTGTCA
66 GGATAGTGTCA
* * * **
72158 CGACTCCAGCTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATG-TGTTTCGCCTGATCACCCA
1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTTGTTT-GCCTGAGAACCCA
72220 GATGG
63 GATGG
72225 GCTGTGTCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
75 5 0.09
76 46 0.81
77 6 0.11
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.25
Consensus pattern (76 bp):
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTTGTTTGCCTGAGAACCCAGAT
GGATAGTGTCA
Done.