Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012278.1 Corchorus olitorius cultivar O-4 contig12311, 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: 83274
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:565 original size:32 final size:32
Alignment explanation
Indices: 524--584 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
514 AAATATGTTT
* *
524 GAAAAATAAGGGTATAATGGTCGATTCAATTA
1 GAAAAATAAGGATATAATAGTCGATTCAATTA
*
556 GAAAAATAAGGATATAATAGTCTATTCAA
1 GAAAAATAAGGATATAATAGTCGATTCAA
585 AATTTTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (32 bp):
GAAAAATAAGGATATAATAGTCGATTCAATTA
Found at i:3603 original size:51 final size:50
Alignment explanation
Indices: 3502--3603 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 50
3492 GTTCTTCATA
* **
3502 TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCTTTTAGTGT
1 TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCGTACAGTGT
*
3552 TTTTCTCTTGTTTCA-ATCTTGTCTCCGGACATACAAACACT-GTACACGTGT
1 TTTTC-CTTGTTT-AGATCTTGTCTCCGGACAAACAAACACTCGTACA-GTGT
3603 T
1 T
3604 CTTCATTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
50 7 0.16
51 37 0.82
52 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (50 bp):
TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCGTACAGTGT
Found at i:6622 original size:29 final size:29
Alignment explanation
Indices: 6586--6641 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
6576 TGTTGAATTT
6586 TTTTCTTTTTAACTCCTTAAAATAATTCA
1 TTTTCTTTTTAACTCCTTAAAATAATTCA
* *
6615 TTTTCTTTTTAGCTTCTTAAAATAATT
1 TTTTCTTTTTAACTCCTTAAAATAATT
6642 TATCTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTCTTTTTAACTCCTTAAAATAATTCA
Found at i:8793 original size:49 final size:48
Alignment explanation
Indices: 8718--8858 Score: 180
Period size: 49 Copynumber: 2.9 Consensus size: 48
8708 CAAGCAATCC
**
8718 TTTACTTTTTAC-TGCACTTTTTCTCAATTTTTACTACAAAATTGAACT
1 TTTA-TTTTTACTTGCACTTTTTCTCAATTTTTAAGACAAAATTGAACT
* *
8766 TTTATTTTTACTTGCGTCTTTTTCTCAATTTTTAAGACAAAATTGATCT
1 TTTATTTTTACTTGC-ACTTTTTCTCAATTTTTAAGACAAAATTGAACT
* *
8815 TTTAATTTTTA-TTGCACTTTTTATCAATTTTT-GGACAAAATTGA
1 TTT-ATTTTTACTTGCACTTTTTCTCAATTTTTAAGACAAAATTGA
8859 TTGGCACACT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
47 18 0.22
48 22 0.27
49 36 0.43
50 7 0.08
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (48 bp):
TTTATTTTTACTTGCACTTTTTCTCAATTTTTAAGACAAAATTGAACT
Found at i:9229 original size:28 final size:28
Alignment explanation
Indices: 9189--9246 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9179 TTGAAGGCAG
9189 TTGAAGGTTGTAAAGCATGCAAGATATT
1 TTGAAGGTTGTAAAGCATGCAAGATATT
9217 TTGAAGGTTGTAAAGCATGCAAGATATT
1 TTGAAGGTTGTAAAGCATGCAAGATATT
9245 TT
1 TT
9247 TCACCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (28 bp):
TTGAAGGTTGTAAAGCATGCAAGATATT
Found at i:10888 original size:30 final size:31
Alignment explanation
Indices: 10848--10920 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
10838 GGAGAAAATG
* *
10848 CAATTCAGGATACACCGTTAT-GACTTGTGT
1 CAATTTAGGATACAACGTTATCGACTTGTGT
* *
10878 CAATTTAGGATATAACGTTATCGGCTTGTGT
1 CAATTTAGGATACAACGTTATCGACTTGTGT
**
10909 CAAAATAGGATA
1 CAATTTAGGATA
10921 AAAAATGACA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (31 bp):
CAATTTAGGATACAACGTTATCGACTTGTGT
Found at i:12670 original size:117 final size:117
Alignment explanation
Indices: 12464--12698 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
12454 ACAACGGTGT
12464 ATCCTGAATTGCATTTTCACCCAAACGTTATATCCTGAATTGAGCATTTAGCCCGTAGCTAGAAA
1 ATCCTGAATTGCATTTTCACCCAAACGTTATATCCTGAATTGAGCATTTAGCCCGTAGCTAGAAA
12529 AAGAAAGTTAATAAAACTATAAAAGTGAAGATGATACGGGTAAAGGAAGGAA
66 AAGAAAGTTAATAAAACTATAAAAGTGAAGATGATACGGGTAAAGGAAGGAA
*
12581 ATCCTGAATTGCATTTTCATCCAAACGTTATATCCTGAATTGAGCATTTAGCCCGTAGCTAGAAA
1 ATCCTGAATTGCATTTTCACCCAAACGTTATATCCTGAATTGAGCATTTAGCCCGTAGCTAGAAA
*
12646 AAGAGAGTTAATAAAACTATAAAAGTGAAGATGATACGGGTAAAGGAAGGAA
66 AAGAAAGTTAATAAAACTATAAAAGTGAAGATGATACGGGTAAAGGAAGGAA
12698 A
1 A
12699 GGCATTTAGA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (117 bp):
ATCCTGAATTGCATTTTCACCCAAACGTTATATCCTGAATTGAGCATTTAGCCCGTAGCTAGAAA
AAGAAAGTTAATAAAACTATAAAAGTGAAGATGATACGGGTAAAGGAAGGAA
Found at i:18686 original size:15 final size:16
Alignment explanation
Indices: 18666--18699 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18656 CATAAATGGG
*
18666 ATTTTTGCCT-TTTGA
1 ATTTTTGACTCTTTGA
18681 ATTTTTGACTCTTTGA
1 ATTTTTGACTCTTTGA
18697 ATT
1 ATT
18700 GGAAGTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (16 bp):
ATTTTTGACTCTTTGA
Found at i:37279 original size:12 final size:12
Alignment explanation
Indices: 37264--37297 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
37254 CTGACTCCTT
37264 TTTTTCCTCCCC
1 TTTTTCCTCCCC
37276 TTTTTCCTCCCC
1 TTTTTCCTCCCC
37288 TTTTTCCTCC
1 TTTTTCCTCC
37298 AGCGAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTTTCCTCCCC
Found at i:39675 original size:20 final size:20
Alignment explanation
Indices: 39652--39694 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
39642 TATTTTGATT
*
39652 AAAAAT-TATTTTTTTTAAA
1 AAAAATATATATTTTTTAAA
39671 AAAAATATATATTTTTTAAA
1 AAAAATATATATTTTTTAAA
39691 AAAA
1 AAAA
39695 TTGGGTGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATATATATTTTTTAAA
Found at i:40460 original size:30 final size:31
Alignment explanation
Indices: 40426--40493 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
40416 TTCTTTCTTT
*
40426 TTTTTTTCAAA-A-AAAGAAAAGAAAAAATG-G
1 TTTTTTT-AAACAGAAA-AAAAGAAAAAATGAA
*
40456 TTTTTTTAAACAGAAAAAAGGAAAAAATGAA
1 TTTTTTTAAACAGAAAAAAAGAAAAAATGAA
40487 TTTTTTT
1 TTTTTTT
40494 TATTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 20 0.61
31 10 0.30
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (31 bp):
TTTTTTTAAACAGAAAAAAAGAAAAAATGAA
Found at i:40640 original size:19 final size:18
Alignment explanation
Indices: 40615--40667 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
40605 CCCTCACCCA
40615 AATTTTTTTAAAAAAAAT
1 AATTTTTTTAAAAAAAAT
**
40633 ATATTTTTTTTTAAAAAAT
1 A-ATTTTTTTAAAAAAAAT
40652 AATTTTTTATAAAAAA
1 AATTTTTT-TAAAAAA
40668 TATGGCGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTTTTAAAAAAAAT
Found at i:40648 original size:17 final size:17
Alignment explanation
Indices: 40616--40670 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
40606 CCTCACCCAA
*
40616 ATTTTTTTAAAAAAAATAT
1 ATTTTTTT-ATAAAAA-AT
*
40635 ATTTTTTTTTAAAAAAT
1 ATTTTTTTATAAAAAAT
*
40652 AATTTTTTATAAAAAAT
1 ATTTTTTTATAAAAAAT
40669 AT
1 AT
40671 GGCGTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 18 0.58
18 5 0.16
19 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTTTTATAAAAAAT
Found at i:40853 original size:31 final size:30
Alignment explanation
Indices: 40778--40856 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
40768 GCCCGGTTAT
* * **
40778 CTCCACTTGAGGGACCAAATTACATATTTT
1 CTCCACTTGAGGGACCAAAATACAGATTCG
* * *
40808 TTTCACTTGGGGGACCAAAATACTAGATTCG
1 CTCCACTTGAGGGACCAAAATAC-AGATTCG
40839 CTCCACTTGAGGGACCAA
1 CTCCACTTGAGGGACCAA
40857 TTCTGTACTT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 19 0.50
31 19 0.50
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (30 bp):
CTCCACTTGAGGGACCAAAATACAGATTCG
Found at i:41785 original size:15 final size:16
Alignment explanation
Indices: 41765--41797 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
41755 TGGCTCCGAA
41765 AATCAAAC-ACTACCC
1 AATCAAACGACTACCC
*
41780 AATCAAACGAGTACCC
1 AATCAAACGACTACCC
41796 AA
1 AA
41798 AGTTGCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.33, G:0.06, T:0.12
Consensus pattern (16 bp):
AATCAAACGACTACCC
Found at i:42875 original size:3 final size:3
Alignment explanation
Indices: 42867--42937 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
42857 ATTAATTAAT
42867 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42915 TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
42938 GTCAGAAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:44545 original size:72 final size:67
Alignment explanation
Indices: 44469--44607 Score: 197
Period size: 67 Copynumber: 2.0 Consensus size: 67
44459 CTTTTTTATA
* *
44469 CTTGCATTTTGGACATACATATATGTTTGGAGCATTGTTATTAATTTGGGCATTACAATCTTTAA
1 CTTGCATTTTGGACATAC----ATGTTTGAAGCATTGTTATT-ATTTGGGCATTACAATCTTAAA
44534 TCTTAAT
61 TCTTAAT
* *
44541 CTTGCATTTTGGACATACATGTTTGAAGCATTGTTATTATTTTGGCCTTACAATCTTAAATCTTA
1 CTTGCATTTTGGACATACATGTTTGAAGCATTGTTATTATTTGGGCATTACAATCTTAAATCTTA
44606 AT
66 AT
44608 ATTGACTTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
67 26 0.41
68 19 0.30
72 18 0.29
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (67 bp):
CTTGCATTTTGGACATACATGTTTGAAGCATTGTTATTATTTGGGCATTACAATCTTAAATCTTA
AT
Found at i:44585 original size:68 final size:68
Alignment explanation
Indices: 44469--44607 Score: 199
Period size: 68 Copynumber: 2.0 Consensus size: 68
44459 CTTTTTTATA
* *
44469 CTTGCATTTTGGACATACATATATGTTTGGAGCATTGTTATTAATTTGGGCATTACAATCTTTAA
1 CTTGCATTTTGGACATAC--A-ATGTTTGAAGCATTGTTATTAATTT-GGCATTACAATCTTAAA
44534 TCTTAAT
62 TCTTAAT
* *
44541 CTTGCATTTTGGACATAC-ATGTTTGAAGCATTGTTATTATTTTGGCCTTACAATCTTAAATCTT
1 CTTGCATTTTGGACATACAATGTTTGAAGCATTGTTATTAATTTGGCATTACAATCTTAAATCTT
44605 AAT
66 AAT
44608 ATTGACTTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
67 22 0.35
68 23 0.37
72 18 0.29
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (68 bp):
CTTGCATTTTGGACATACAATGTTTGAAGCATTGTTATTAATTTGGCATTACAATCTTAAATCTT
AAT
Found at i:45759 original size:54 final size:54
Alignment explanation
Indices: 45627--45731 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
45617 ATTGTTTCAC
45627 GATATGATGAGATTAATCCACC---TATAATTGGCTGACCTTTAGTATTGGCTT
1 GATATGATGAGATTAATCCACCTATTATAATTGGCTGACCTTTAGTATTGGCTT
45678 GATATGATGAGATTAATCCACCTATTATAATTGGCTGACCTTTAGTATTGGCTT
1 GATATGATGAGATTAATCCACCTATTATAATTGGCTGACCTTTAGTATTGGCTT
45732 ATTATAGTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
51 22 0.43
54 29 0.57
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (54 bp):
GATATGATGAGATTAATCCACCTATTATAATTGGCTGACCTTTAGTATTGGCTT
Found at i:51792 original size:31 final size:31
Alignment explanation
Indices: 51754--51815 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
51744 TTGTTATCAT
51754 AGTTTATCTTTTGAATAATTCATTTAACTGC
1 AGTTTATCTTTTGAATAATTCATTTAACTGC
51785 AGTTTATCTTTTGAATAATTCATTTAACTGC
1 AGTTTATCTTTTGAATAATTCATTTAACTGC
51816 TCGTCCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (31 bp):
AGTTTATCTTTTGAATAATTCATTTAACTGC
Found at i:61836 original size:113 final size:118
Alignment explanation
Indices: 61687--61920 Score: 343
Period size: 120 Copynumber: 2.0 Consensus size: 118
61677 TTAAAAATTC
61687 TAATATATCTAAGTTTTTTAATTAATTAAAATAGTAAAATGGT-AA-AAAA-AGATATAAGGATA
1 TAATATATCTAAGTTTTTT-ATTAATTAAAATAGTAAAATGGTAAATAAAATAGATATAAGGATA
* * *
61749 TCAGATTTAATT-AATGAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAGTA
65 TCAGATTTAATTAAATAAAAATAGAGTTTTTAGTCGACTAAAACTATAAAAGTA
* *
61802 TAATATATTTAAGTTTTTT-TTAATTAAAATAGTAAAATGGTAAAAATAAAATAGTTATAAGGAT
1 TAATATATCTAAGTTTTTTATTAATTAAAATAGTAAAATGGT--AAATAAAATAGATATAAGGAT
*
61866 ATTAGATTTAATTAAAATAAAAATAGAGTTTTTAGTCGACTAAAACTATAAAAGT
64 ATCAGATTTAATT-AAATAAAAATAGAGTTTTTAGTCGACTAAAACTATAAAAGT
61921 TTAAATAATG
Statistics
Matches: 106, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
113 22 0.21
115 18 0.17
116 2 0.02
117 4 0.04
118 23 0.22
120 37 0.35
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.37
Consensus pattern (118 bp):
TAATATATCTAAGTTTTTTATTAATTAAAATAGTAAAATGGTAAATAAAATAGATATAAGGATAT
CAGATTTAATTAAATAAAAATAGAGTTTTTAGTCGACTAAAACTATAAAAGTA
Found at i:62620 original size:25 final size:24
Alignment explanation
Indices: 62592--62653 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
62582 GTGGATTGTA
*
62592 AAATAAATTGAATAATTAAGACATT
1 AAATAAATTGAAGAATTAAG-CATT
*
62617 AAATAAATTTAAGAATTAAGCATT
1 AAATAAATTGAAGAATTAAGCATT
*
62641 AAA-AAATTCAAGA
1 AAATAAATTGAAGA
62654 CTGACCCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 9 0.26
24 7 0.21
25 18 0.53
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATAAATTGAAGAATTAAGCATT
Found at i:70086 original size:14 final size:14
Alignment explanation
Indices: 70069--70096 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
70059 TATAGGTTAC
70069 ATTTAGAGATAGAG
1 ATTTAGAGATAGAG
70083 ATTTAGAGATAGAG
1 ATTTAGAGATAGAG
70097 TTACAATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
ATTTAGAGATAGAG
Found at i:72400 original size:2 final size:2
Alignment explanation
Indices: 72393--72534 Score: 122
Period size: 2 Copynumber: 71.0 Consensus size: 2
72383 TCAAGTTTGT
* * *
72393 TC TC TC TC TC TC TC TC TC TC TC TC AC TC AC TC AC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * *
72435 TC TC TC TC TC AC AC AC AC AC TC AC TC AC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * *
72477 TC TC AC AC TC AC TC AC TC AC TC AC TC AC TC AC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
72519 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
72535 CCCTTTCATT
Statistics
Matches: 114, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 114 1.00
ACGTcount: A:0.13, C:0.50, G:0.00, T:0.37
Consensus pattern (2 bp):
TC
Found at i:73961 original size:21 final size:21
Alignment explanation
Indices: 73936--73976 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
73926 AGTGCATATC
73936 ATATTTGCATTAGAAGGAAAT
1 ATATTTGCATTAGAAGGAAAT
73957 ATATTTGCATTAGAAGGAAA
1 ATATTTGCATTAGAAGGAAA
73977 AGCACTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (21 bp):
ATATTTGCATTAGAAGGAAAT
Found at i:76655 original size:22 final size:22
Alignment explanation
Indices: 76629--76672 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
76619 ACGCATGTAT
*
76629 ATGTTGTAAATGTGATGATATG
1 ATGTTGCAAATGTGATGATATG
76651 ATGTTGCAAATGTGATGATATG
1 ATGTTGCAAATGTGATGATATG
76673 CCTGAAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (22 bp):
ATGTTGCAAATGTGATGATATG
Done.