Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_1362
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: 32331
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:1241 original size:24 final size:23
Alignment explanation
Indices: 1212--1265 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
1202 AGCACAAAAG
* *
1212 TAATAACATATAATTAAAAAAATA
1 TAATAAAATAAAATT-AAAAAATA
*
1236 TCATAAAAATAAAATTAAAAAATA
1 TAAT-AAAATAAAATTAAAAAATA
1260 TAATAA
1 TAATAA
1266 TATTAGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 14 0.56
25 9 0.36
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
TAATAAAATAAAATTAAAAAATA
Found at i:2968 original size:45 final size:45
Alignment explanation
Indices: 2919--3060 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 45
2909 GTCTTCGATT
*
2919 TGCTCCACTATCGAGGCAAGAAGGCAAGACCTGCTATCTTCAACC
1 TGCTCCACTATCGAAGCAAGAAGGCAAGACCTGCTATCTTCAACC
* * * * * * * * *
2964 TGCTCCACTA-C-AACCGAGGAGACAAGGCTTG-TGTCTTCGATC
1 TGCTCCACTATCGAAGCAAGAAGGCAAGACCTGCTATCTTCAACC
* * * * * *
3006 TGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACT
1 TGCTCCACTATCGAAGCAAGAAGGCAAGACCTGCTATCTTCAACC
3051 TGCTCCACTA
1 TGCTCCACTA
3061 CAACCGAGGG
Statistics
Matches: 67, Mismatches: 27, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
42 16 0.24
43 14 0.21
44 12 0.18
45 25 0.37
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (45 bp):
TGCTCCACTATCGAAGCAAGAAGGCAAGACCTGCTATCTTCAACC
Found at i:3077 original size:44 final size:44
Alignment explanation
Indices: 2940--3077 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
2930 CGAGGCAAGA
*
2940 AGGCAAGACCTGCTATCTTCAACCTGCTCCACTACAACCGA-GG
1 AGGCAAGACCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
* * * * * * * * * *
2983 AGACAAGGCTTG-TGTCTTCGA-TCTGCTTCACTGTCGA-TGCAGGA
1 AGGCAAGACCTGCTATCTTCAACT-TGCTCCACT-ACAACCG-AGGG
*
3027 AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
1 AGGCAAGACCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
3071 AGGCAAG
1 AGGCAAG
3078 GCTTGTGTCT
Statistics
Matches: 66, Mismatches: 22, Indels: 13
0.65 0.22 0.13
Matches are distributed among these distances:
42 16 0.24
43 12 0.18
44 21 0.32
45 16 0.24
46 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (44 bp):
AGGCAAGACCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
Found at i:3121 original size:88 final size:87
Alignment explanation
Indices: 2938--3248 Score: 498
Period size: 87 Copynumber: 3.6 Consensus size: 87
2928 ATCGAGGCAA
* *
2938 GAAGGCAAGACCTGCTATCTTCAACCTGCTCCACTACAACCGA-GGAGACAAGGCTTGTGTCTTC
1 GAAGGCAAGATCTGCTATC-TCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
* *
3002 GATCTGCTTCACTGTCGATGCAG
65 GATCTGCTTCGCTGTCGATGTAG
* *
3025 GAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTT
1 GAAGGCAAGATCTGCTATC-TCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
3090 GATCTGCTTCGCTGTCGATGTAG
65 GATCTGCTTCGCTGTCGATGTAG
* * *
3113 AAAGGCAAGATCTGTTATCTCAACCTGCTCCACTACAACCGAGGGAGATAAGGCTTGTGTCTTTG
1 GAAGGCAAGATCTGCTATCTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTTG
3178 ATCTGCTTCGCTGTCGATGTAG
66 ATCTGCTTCGCTGTCGATGTAG
*
3200 GAAGGCAAGATCTGCTATCTCAACCTACTCCACTACAAACCGAGGGAGA
1 GAAGGCAAGATCTGCTATCTCAACCTGCTCCACTAC-AACCGAGGGAGA
3249 TAAGATCTGT
Statistics
Matches: 208, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
87 139 0.67
88 69 0.33
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (87 bp):
GAAGGCAAGATCTGCTATCTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTTG
ATCTGCTTCGCTGTCGATGTAG
Found at i:3360 original size:44 final size:44
Alignment explanation
Indices: 3266--3697 Score: 426
Period size: 44 Copynumber: 9.9 Consensus size: 44
3256 TGTAATTTCA
* * * ** * *
3266 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACCCTACAAT-TTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGA-TTTACAGTCTTCC
* * *
3310 AACTATTCCATTGCTGGTCAAGGAGCTAGGATTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
* * * *
3354 ACCTATTCCACTGCTGGTCAAGGGGGATAGGATTTACAATCTTCT
1 ACCTATTCCACTGCTGGTC-AGGGAGCTAGGATTTACAGTCTTCC
* * *
3399 GCCTATTCCAATGCTGTTCAGGGAGCTAGGACTTT-CAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGA-TTTACAGTCTTCC
* * *
3443 ACCTATTCCAATGCTGGTCA-GGAGCTAGGATTTATAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
* * * ** * *
3486 GCCTATTCCACTACTGTTCAGGGAGCTAGGGCTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
* *
3530 ACTTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATC-TCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
* * * * **
3573 ACATA-TCCACAGTTGGTCAGGGAACTAGGGCTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
* * **
3616 ACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
* *
3660 ACCTATTCCACTGCTGGTCAGGGAACTAGG-GTTACAGT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGT
3698 TGTAACGCCC
Statistics
Matches: 325, Mismatches: 56, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
42 31 0.10
43 58 0.18
44 197 0.61
45 39 0.12
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
Found at i:3510 original size:87 final size:88
Alignment explanation
Indices: 3266--3697 Score: 469
Period size: 87 Copynumber: 4.9 Consensus size: 88
3256 TGTAATTTCA
* * * ** * * *
3266 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACCCTACAAT-TTCTAACTATTCCATTGCTGGTCA
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGA-TTTACAATCTTCCACCTATTCCACTGCTGGTCA
* *
3330 AGGAGCTAGGATTTACAGTCTTCC
65 GGGAGCTAGGACTTACAGTCTTCC
* * ** * *
3354 ACCTATTCCACTGCTGGTCAAGGGGGATAGGATTTACAATCTTCTGCCTATTCCAATGCTGTTCA
1 ACCTATTCCACTGCTGGTC-AGGGAGCTAGGATTTACAATCTTCCACCTATTCCACTGCTGGTCA
*
3419 GGGAGCTAGGACTTTCAGTCTTCC
65 GGGAGCTAGGACTTACAGTCTTCC
* * * * *
3443 ACCTATTCCAATGCTGGTCA-GGAGCTAGGATTTATAATCTTCCGCCTATTCCACTACTGTTCAG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCACCTATTCCACTGCTGGTCAG
* * *
3507 GGAGCTAGGGCTTACAATCTTCT
66 GGAGCTAGGACTTACAGTCTTCC
* * * *
3530 ACTTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATC-TCCACATA-TCCACAGTTGGTCAG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCACCTATTCCACTGCTGGTCAG
* *
3593 GGAACTAGGGCTTACAGTCTTCC
66 GGAGCTAGGACTTACAGTCTTCC
* * ** *
3616 ACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTCAG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCACCTATTCCACTGCTGGTCAG
* *
3681 GGAACTAGG-GTTACAGT
66 GGAGCTAGGACTTACAGT
3698 TGTAACGCCC
Statistics
Matches: 292, Mismatches: 47, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
86 65 0.22
87 95 0.33
88 63 0.22
89 69 0.24
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (88 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCACCTATTCCACTGCTGGTCAG
GGAGCTAGGACTTACAGTCTTCC
Found at i:3639 original size:130 final size:131
Alignment explanation
Indices: 3266--3689 Score: 473
Period size: 130 Copynumber: 3.2 Consensus size: 131
3256 TGTAATTTCA
* * * * * * *
3266 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACCCTACAAT-TTCTA-ACTATTCCATTGCTGGTC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGA-CTTTCAATCTTCCACA-TATTCCAATGCTGGTC
* * * **
3329 AAGGAGCTAGGATTTACAGTCTTCCACCTATTCCACTGCTGGTCAAGGGGGATAGGATTTACAAT
64 -AGGAGCTAGGATTTACAGTCTTCCACCTATTCCACTACTGGTC-AGGGAGCTAGGGCTTACAAT
3394 CTTCT
127 CTTCT
* * * * *
3399 GCCTATTCCAATGCTGTTCAGGGAGCTAGGACTTTCAGTCTTCCACCTATTCCAATGCTGGTCAG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTTCAATCTTCCACATATTCCAATGCTGGTCAG
* * * *
3464 GAGCTAGGATTTATAATCTTCCGCCTATTCCACTACTGTTCAGGGAGCTAGGGCTTACAATCTTC
66 GAGCTAGGATTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAGCTAGGGCTTACAATCTTC
3529 T
131 T
* *
3530 ACTTATTCCACTGCTGGTCAGGGAGCTAGGA-TTTACAATC-TCCACATA-TCCACA-GTTGGTC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTT-CAATCTTCCACATATTCCA-ATGCTGGTC
* ** * *
3591 AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTC
64 A-GGAGCTAGGATTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAGCTAGGGCTTACAATC
*
3656 TTCC
128 TTCT
*
3660 ACCTATTCCACTGCTGGTCAGGGAACTAGG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGG
3690 GTTACAGTTG
Statistics
Matches: 247, Mismatches: 39, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
129 11 0.04
130 96 0.39
131 52 0.21
132 43 0.17
133 45 0.18
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (131 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTTCAATCTTCCACATATTCCAATGCTGGTCAG
GAGCTAGGATTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAGCTAGGGCTTACAATCTTC
T
Found at i:5507 original size:48 final size:47
Alignment explanation
Indices: 5425--5655 Score: 279
Period size: 47 Copynumber: 4.7 Consensus size: 47
5415 CCCTTCGGGA
* * *
5425 CTTATCACATTTATACACTTCCGACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTC-ACATTCATCACATTGGCCATTCGGC
* *
5473 CTTAT-ATCACATACACA-TGTTCACATTCATTCACATTGGCCATTCGGC
1 CTTATCA-CATATATACACT-TTCACATTCA-TCACATTGGCCATTCGGC
5521 CTTATCACATATATATACACTTTCACATTCCATCACATTGGCCATTC-GC
1 CTTATCAC--ATATATACACTTTCACATT-CATCACATTGGCCATTCGGC
* *
5570 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
5617 CTTATCACATATTATTATTCACTTTCACATTCATCACAT
1 CTTATCACATA-TA-TA--CACTTTCACATTCATCACAT
5656 CATGTAAAGA
Statistics
Matches: 161, Mismatches: 9, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
46 15 0.09
47 40 0.25
48 40 0.25
49 13 0.08
50 30 0.19
51 23 0.14
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:5643 original size:98 final size:98
Alignment explanation
Indices: 5425--5655 Score: 307
Period size: 98 Copynumber: 2.4 Consensus size: 98
5415 CCCTTCGGGA
*
5425 CTTATCACAT-T-TATACACTTCCGACA-TCCATCACATTGGCCATTCGGCCTTATATCACATAC
1 CTTATCACATATATATACACTTTC-ACATTCCATCACATTGGCCATTCGGCCTTATATCACATAC
* *
5487 ACATGTTCACATTCATTCACATTGGCCATTCGGC
65 ACATGTTCACATTCATTCACATCGGCCATTAGGC
* *
5521 CTTATCACATATATATACACTTTCACATTCCATCACATTGGCCATTC-GCCTTATCA-CATATAT
1 CTTATCACATATATATACACTTTCACATTCCATCACATTGGCCATTCGGCCTTAT-ATCACATAC
5584 ACACT-TTCACATTCA-TCACATCGGCCATTAGGC
65 ACA-TGTTCACATTCATTCACATCGGCCATTAGGC
*
5617 CTTATCACATATTATTATTCACTTTCACATT-CATCACAT
1 CTTATCACATA-TA-TATACACTTTCACATTCCATCACAT
5656 CATGTAAAGA
Statistics
Matches: 122, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
96 37 0.30
97 39 0.32
98 46 0.38
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (98 bp):
CTTATCACATATATATACACTTTCACATTCCATCACATTGGCCATTCGGCCTTATATCACATACA
CATGTTCACATTCATTCACATCGGCCATTAGGC
Found at i:5649 original size:51 final size:47
Alignment explanation
Indices: 5425--5656 Score: 240
Period size: 48 Copynumber: 4.8 Consensus size: 47
5415 CCCTTCGGGA
* * * *
5425 CTTATCACATTTATA-CACTTCCGACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATCACTTTC-ACATTCATCACATCGGCCATT-GGC
* * *
5473 CTTAT-ATCACATACA-CA-TGTTCACATTCATTCACATTGGCCATTCGGC
1 CTTATCA-CATATATATCACT-TTCACATTCA-TCACATCGGCCATT-GGC
* *
5521 CTTATCACATATATATACACTTTCACATTCCATCACATTGGCCATTCGC
1 CTTATCACATATATAT-CACTTTCACATT-CATCACATCGGCCATTGGC
5570 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATCACTTTCACATTCATCACATCGGCCATT-GGC
5617 CTTATCACATATTATTATTCACTTTCACATTCATCACATC
1 CTTATCACATA-TA-TA-TCACTTTCACATTCATCACATC
5657 ATGTAAAGAC
Statistics
Matches: 161, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
46 15 0.09
47 33 0.20
48 45 0.28
49 20 0.12
50 24 0.15
51 24 0.15
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATATCACTTTCACATTCATCACATCGGCCATTGGC
Found at i:9143 original size:23 final size:23
Alignment explanation
Indices: 9123--9168 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9113 TCCATTTTTT
*
9123 TTTTCA-TTATTTTTTATTTTTCA
1 TTTTCAGTT-TTTTTCATTTTTCA
9146 TTTTCAGTTTTTTTCATTTTTCA
1 TTTTCAGTTTTTTTCATTTTTCA
9169 CATTTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTCAGTTTTTTTCATTTTTCA
Found at i:14210 original size:19 final size:19
Alignment explanation
Indices: 14174--14210 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14164 TTGATGTAAA
*
14174 TAAAATATATTAAAATAGG
1 TAAAATATAATAAAATAGG
*
14193 TAAAATATAATAACATAG
1 TAAAATATAATAAAATAG
14211 TTTTTAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (19 bp):
TAAAATATAATAAAATAGG
Found at i:14575 original size:4 final size:4
Alignment explanation
Indices: 14566--14606 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
14556 TAATAGAGCT
*
14566 AGTA AGTA AGCA AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
14607 TTAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.02, G:0.24, T:0.22
Consensus pattern (4 bp):
AGTA
Found at i:14659 original size:3 final size:3
Alignment explanation
Indices: 14608--14643 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
14598 AGTAAGTAAT
14608 TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA
14644 TAAAAGGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15101 original size:16 final size:16
Alignment explanation
Indices: 15069--15114 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
15059 CTTCATTTTC
*
15069 AAAACAAAAGAAAAAAT
1 AAAATAAAAG-AAAAAT
15086 AAAATAAAAGAAAAAT
1 AAAATAAAAGAAAAAT
15102 AAAATAAAA-AAAA
1 AAAATAAAAGAAAA
15115 CAAGAACCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 4 0.14
16 15 0.54
17 9 0.32
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (16 bp):
AAAATAAAAGAAAAAT
Found at i:24720 original size:19 final size:19
Alignment explanation
Indices: 24698--24734 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24688 AATATAAAAT
* *
24698 TATTATTTTTATATTATAA
1 TATTATTTGTATAATATAA
24717 TATTATTTGTATAATATA
1 TATTATTTGTATAATATA
24735 TTAACTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTATTTGTATAATATAA
Found at i:24733 original size:22 final size:22
Alignment explanation
Indices: 24682--24733 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
24672 CATTACATAA
*
24682 TATAATAATATAAAATTATTAT
1 TATAATATTATAAAATTATTAT
* * *
24704 TTTTATATTATAATATTATT-T
1 TATAATATTATAAAATTATTAT
24725 GTATAATAT
1 -TATAATAT
24734 ATTAACTCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATAATATTATAAAATTATTAT
Found at i:31587 original size:12 final size:12
Alignment explanation
Indices: 31570--31595 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31560 GTTGTTTGAT
31570 TCACCGTCATCA
1 TCACCGTCATCA
31582 TCACCGTCATCA
1 TCACCGTCATCA
31594 TC
1 TC
31596 GTCGTTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.42, G:0.08, T:0.27
Consensus pattern (12 bp):
TCACCGTCATCA
Done.