Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1332
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: 38493
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Found at i:173 original size:40 final size:40
Alignment explanation
Indices: 108--310 Score: 272
Period size: 40 Copynumber: 5.1 Consensus size: 40
98 GTTTAAGACA
* *
108 CGGATATATCACTAGCACGATATGCTCTTC-GAAC-TAGCC
1 CGGATACATCACTAGCATGA-ATGCTCTTCGGAACTTAGCC
*
147 CGGATACATCAACTAGCATGAAATGCTCTTGCGGGACTTAGCGC
1 CGGATACATC-ACTAGCATG-AATGCTCTT-CGGAACTTAGC-C
* *
191 C-GTTACATCACTAGCATGAA-GCTCTTCGGGACTTAGCC
1 CGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCC
229 CGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCC
1 CGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCC
*
269 CGGATACATCACTAGCATGAATGCTC-TCGGGACTTAGCC
1 CGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCC
308 CGG
1 CGG
311 TTATAGTACT
Statistics
Matches: 149, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
38 2 0.01
39 53 0.36
40 65 0.44
41 4 0.03
42 12 0.08
43 11 0.07
44 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCC
Found at i:227 original size:39 final size:40
Alignment explanation
Indices: 39--351 Score: 293
Period size: 39 Copynumber: 7.8 Consensus size: 40
29 CACGTCACAC
* * * * *
39 AGCATG-ATGCTCTT-GAGACCTAGCCCGGATATAACACC
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* ** * *
77 AGCAGCGAAATGCTCTTCGGGGTTTAAGACACGGATATATCACT
1 AGCA-TG-AATGCTCTTCGGGACTT-AG-CCCGGATACATCACT
* *
121 AGCACGATATGCTCTTC-GAAC-TAGCCCGGATACATCAACT
1 AGCATGA-ATGCTCTTCGGGACTTAGCCCGGATACATC-ACT
*
161 AGCATGAAATGCTCTTGCGGGACTTAGCGCC-GTTACATCACT
1 AGCATG-AATGCTCTT-CGGGACTTAGC-CCGGATACATCACT
203 AGCATGAA-GCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
242 AGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
282 AGCATGAATGCTC-TCGGGACTTAGCCCGGTTATAGT-ACT
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACT
* ** *
321 CGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGAT
352 TTAGTAACTC
Statistics
Matches: 232, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
38 7 0.03
39 85 0.37
40 68 0.29
41 13 0.06
42 17 0.07
43 24 0.10
44 18 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
Found at i:288 original size:79 final size:84
Alignment explanation
Indices: 108--310 Score: 289
Period size: 79 Copynumber: 2.5 Consensus size: 84
98 GTTTAAGACA
* * *
108 CGGATATATCACTAGCACGATATGCTCTTC-GAAC-TAGCCCGGATACATCAACTAGCATGAAAT
1 CGGATACATCACTAGCATGA-ATGCTCTTCGGGACTTAGCCCGGATACATCAACTAGCATGAAAT
*
171 GCTCTTGCGGGACTTAGCGC
65 GCTCTTGCGGAACTTAGCGC
*
191 C-GTTACATCACTAGCATGAA-GCTCTTCGGGACTTAGCCCGGATACATC-ACTAGCATG-AATG
1 CGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAACTAGCATGAAATG
252 CTCTT-CGGAACTTAGC-C
66 CTCTTGCGGAACTTAGCGC
269 CGGATACATCACTAGCATGAATGCTC-TCGGGACTTAGCCCGG
1 CGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
311 TTATAGTACT
Statistics
Matches: 110, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
78 2 0.02
79 44 0.40
80 20 0.18
81 13 0.12
82 30 0.27
83 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (84 bp):
CGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAACTAGCATGAAATG
CTCTTGCGGAACTTAGCGC
Found at i:331 original size:79 final size:79
Alignment explanation
Indices: 39--351 Score: 280
Period size: 79 Copynumber: 3.9 Consensus size: 79
29 CACGTCACAC
* * * * * * **
39 AGCATGATGCTCTT-GAGACCTAGCCCGGATATAACACCAGCAGCGAAATGCTCTTCGGGGTTTA
1 AGCATGAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA-C-AAATGCTCTTCGGGACTT-
* *
103 AGACACGGATATATCACT
63 AG-CCCGGATACATCACT
* * *
121 AGCACGATATGCTCTTC-GAAC-TAGCCCGGATACATCAACTAGCATGAAATGCTCTTGCGGGAC
1 AGCATGA-A-GCTCTTCGGGACTTAGCCCGGATACATC-ACTAGCA-CAAATGCTCTT-CGGGAC
*
184 TTAGCGCC-GTTACATCACT
61 TTAGC-CCGGATACATCACT
** *
203 AGCATGAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGC
1 AGCATGAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAATGCTCTTCGGGACTTAGC
268 CCGGATACATCACT
66 CCGGATACATCACT
* * *
282 AGCATGAATGCTC-TCGGGACTTAGCCCGGTTATAGT-ACTCGCACAAATGC-CTTCGGGACTTA
1 AGCATGAA-GCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACAAATGCTCTTCGGGACTTA
*
344 ACCCGGAT
64 GCCCGGAT
352 TTAGTAACTC
Statistics
Matches: 193, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
78 20 0.10
79 58 0.30
80 21 0.11
81 11 0.06
82 37 0.19
83 26 0.13
84 20 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
AGCATGAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAATGCTCTTCGGGACTTAGC
CCGGATACATCACT
Found at i:357 original size:39 final size:41
Alignment explanation
Indices: 214--389 Score: 154
Period size: 40 Copynumber: 4.5 Consensus size: 41
204 GCATGAAGCT
* * * **
214 CTTCGGGACTTAGCCCGGA-TACA-TCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* * * * **
253 TCTTCGGAACTTAGCCCGGA-TACA-TCACTAGCATGAATG-
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
292 CTCTCGGGACTTAGCCCGG-TTATAGT-ACTCGCACAAATGC
1 CT-TCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* *
332 CTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
372 CTTCGGG-CTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
390 CATCATTCGT
Statistics
Matches: 121, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.02
39 57 0.47
40 62 0.51
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
Found at i:2857 original size:18 final size:17
Alignment explanation
Indices: 2834--2867 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2824 TTCGGCCTTA
2834 TCACATACATACACATGT
1 TCACATACAT-CACATGT
*
2852 TCACATTCATCACATG
1 TCACATACATCACATG
2868 GCCATTCGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (17 bp):
TCACATACATCACATGT
Found at i:2881 original size:48 final size:48
Alignment explanation
Indices: 2646--3099 Score: 534
Period size: 48 Copynumber: 9.7 Consensus size: 48
2636 CCCTTCGGGA
* * *
2646 CTTA-CACATTTATACAC-TTCCACATCCATCACATTGGCCA-TC-GC
1 CTTATCACATATATACACATTTCACATTCATCACATTGGCCATTCGGC
* *
2690 CTTATTACA-ATATACAC-TTTCACATTCATCACATTTATTGGCCATTCGAC
1 CTTATCACATATATACACATTTCACATTCATCAC----ATTGGCCATTCGGC
*
2740 CTTATCAC--ACATACAC-TGTTCAC-TTCATCACATTGGCCATTC-GC
1 CTTATCACATATATACACAT-TTCACATTCATCACATTGGCCATTCGGC
*
2784 CTTATCTCATATAT--ACATTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTTCACATTCATCACATTGGCCATTCGGC
*
2830 CTTATCACATACATACACATGTTCACATTCATCACA-TGGCCATTCGGC
1 CTTATCACATATATACACAT-TTCACATTCATCACATTGGCCATTCGGC
* *
2878 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACA-TTTCACATTCATCACATTGGCCATTCGGC
* *
2927 CTTATCACA-ATATACAC-TTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACATTTCACATTCATCACATTGGCCATTCGGC
*
2973 CTTATCACATATATACAC-TTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACATATATACACATTTCACATTCATCACATTGGCCATTCGGC
* * *
3019 CTTATCGCATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACA-TTTCACATTCATCACATTGGCCATTCGGC
*
3068 CTTATCACATAATATACAC--TTCACATTTATCA
1 CTTATCACAT-ATATACACATTTCACATTCATCA
3100 AATATTCCTT
Statistics
Matches: 361, Mismatches: 26, Indels: 43
0.84 0.06 0.10
Matches are distributed among these distances:
44 39 0.11
45 34 0.09
46 78 0.22
47 36 0.10
48 79 0.22
49 75 0.21
50 20 0.06
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACATATATACACATTTCACATTCATCACATTGGCCATTCGGC
Found at i:2955 original size:143 final size:140
Alignment explanation
Indices: 2656--3099 Score: 584
Period size: 141 Copynumber: 3.1 Consensus size: 140
2646 CTTACACATT
* * *
2656 TATACACTTCCACATCCATCACATTGGCCA-TC-GCCTTATTACA-ATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
* *
2718 TCACATTTATTGGCCATTCGACCTTATCAC----ACATACACTGTTCAC-TTCATCACATTGGCC
66 TCAC----A-TGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCC
*
2778 ATTCGCCTTATCTCATA
125 ATTCGCCTTATCACA-A
*
2795 TATACA-TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACATGTTCACATT
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC-T-TTCACATT
2859 CATCACATGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTC
64 CATCACATGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTC
2924 GACCTTATCACAA
129 G-CCTTATCACAA
* *
2937 TATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
* * *
3002 TCACATGGCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATTGGCCATTAGG
66 TCACATGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT-CG
3067 CCTTATCACATAA
130 CCTTATCAC--AA
*
3080 TATACAC-TTCACATTTATCA
1 TATACACTTTCACATTCATCA
3100 AATATTCCTT
Statistics
Matches: 276, Mismatches: 14, Indels: 27
0.87 0.04 0.09
Matches are distributed among these distances:
138 40 0.14
139 9 0.03
140 10 0.04
141 91 0.33
142 50 0.18
143 76 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (140 bp):
TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
TCACATGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGC
CTTATCACAA
Found at i:3133 original size:95 final size:95
Alignment explanation
Indices: 2656--3133 Score: 340
Period size: 95 Copynumber: 5.1 Consensus size: 95
2646 CTTACACATT
* * * *
2656 TATACACTTCCACATCCATCACATTGGCCA-T-CGCCTTATTAC--AATATACACTTTCACATTC
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAATATACACTTTCACATTC
* * *
2717 ATCACATTTATTGGCCAT-TCGACCT-TA-TCA-CA
66 ATCAC----ATT-GCCTTATCCACATATACT-ATCA
* * *
2749 CATACACTGTTCAC-TTCATCACATTGGCCATT-CGCCTTATCTCAT-ATATACA-TTTCACATT
1 TATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATAATATACACTTTCACATT
* *
2810 CATCACATTGGCCAT-TCGGC-CTTATCAC-AT-A
65 CATCACATT-GCCTTATC--CACATAT-ACTATCA
* *
2841 CATACACATGTTCACATTCATCACA-TGGCCATTCGGCCTTATCACATATATATACACTTTCACA
1 TATACAC-T-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATA-ATATACACTTTCACA
* * *
2905 TTCATCACATTGGCCAT-TCGACCT-TA-TCA-CAA
63 TTCATCACATT-GCCTTATCCACATATACT-ATC-A
* *
2937 TATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACAT-ATATACACTTTCACATTC
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAATATACACTTTCACATTC
* ** * *
3001 ATCACATGGCCATTAGGC-CTTATCGCATAT-A
66 ATCACATTGCC-TTATCCACATAT-AC-TATCA
*
3032 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAATATACAC-TTCACATTT
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAATATACACTTTCACATTC
* *
3096 ATCAAATATTCCTTATCCACATATACTATCA
66 ATCACAT-TGCCTTATCCACATATACTATCA
*
3127 TGTACAC
1 TATACAC
3134 ACTTGGTCTT
Statistics
Matches: 320, Mismatches: 32, Indels: 64
0.77 0.08 0.15
Matches are distributed among these distances:
90 11 0.03
91 2 0.01
92 13 0.04
93 66 0.21
94 69 0.22
95 101 0.32
96 31 0.10
97 27 0.08
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAATATACACTTTCACATTC
ATCACATTGCCTTATCCACATATACTATCA
Found at i:4607 original size:56 final size:56
Alignment explanation
Indices: 4540--4659 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
4530 TATTAGTTTA
4540 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
4596 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
4652 TTGCCCAT
1 TTGCCCAT
4660 CATCCCTTGC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:5587 original size:14 final size:14
Alignment explanation
Indices: 5568--5603 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5558 AAATGAATGA
5568 TTGAATTGTTGAAT
1 TTGAATTGTTGAAT
5582 TTGAATTGTTGAAT
1 TTGAATTGTTGAAT
5596 TT-AATTGT
1 TTGAATTGT
5604 ACTAGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (14 bp):
TTGAATTGTTGAAT
Found at i:13424 original size:44 final size:43
Alignment explanation
Indices: 13362--13478 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 43
13352 GACTTTAATC
* * **
13362 TGAGATATT-GTGTAAGACCGTGTCTGGGACACAGGCCTCGATT-
1 TGAGATTTTCGTGTAAGACCATGTCTGGGACACAGGAATC--TTA
*
13405 TGAGATTTTCGTGTAAGACCATGTCTGGGACATAGGAATCTTA
1 TGAGATTTTCGTGTAAGACCATGTCTGGGACACAGGAATCTTA
** *
13448 TCTGA-TTTCGTGTAAGACCCTGTCTGGGACA
1 TGAGATTTTCGTGTAAGACCATGTCTGGGACA
13479 GAGACATCGA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 27 0.42
43 11 0.17
44 26 0.41
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGAGATTTTCGTGTAAGACCATGTCTGGGACACAGGAATCTTA
Found at i:17337 original size:24 final size:24
Alignment explanation
Indices: 17287--17340 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
17277 AATCGAATTT
*
17287 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
17311 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
17335 GCACAC
1 GCACAC
17341 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:23628 original size:29 final size:29
Alignment explanation
Indices: 23575--23700 Score: 159
Period size: 29 Copynumber: 4.4 Consensus size: 29
23565 AGTAAGTCCA
23575 CACACTTAGTG-TTATATAATCAAACTCG
1 CACACTTAGTGCTTATATAATCAAACTCG
* *
23603 CACAATTAGTGCTTACATAATCAAACTCG
1 CACACTTAGTGCTTATATAATCAAACTCG
*
23632 CACACTTAGTGC-TATATAATCAAACTTG
1 CACACTTAGTGCTTATATAATCAAACTCG
** * *
23660 CACACTTAGTGC-TATGCAATTTAAACCCG
1 CACACTTAGTGCTTATATAA-TCAAACTCG
23689 CACACTTAGTGC
1 CACACTTAGTGC
23701 CAATCTCATG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 41 0.48
29 45 0.52
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCTTATATAATCAAACTCG
Found at i:23648 original size:57 final size:57
Alignment explanation
Indices: 23575--23700 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 57
23565 AGTAAGTCCA
* *
23575 CACACTTAGTGTTATATAATCAAACTCGCACAATTAGTGCT-TACATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCGCACAATTAGTGCTATACA-AATCAAACCCG
* * * * *
23632 CACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAACCCG
1 CACACTTAGTGCTATATAATCAAACTCGCACAATTAGTGCTATACAAATCAAACCCG
23689 CACACTTAGTGC
1 CACACTTAGTGC
23701 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 58 0.95
58 3 0.05
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (57 bp):
CACACTTAGTGCTATATAATCAAACTCGCACAATTAGTGCTATACAAATCAAACCCG
Found at i:28516 original size:24 final size:24
Alignment explanation
Indices: 28466--28519 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
28456 AATCGAATTT
*
28466 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
28490 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
28514 GCACAC
1 GCACAC
28520 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:36401 original size:24 final size:24
Alignment explanation
Indices: 36351--36404 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
36341 AATCGAATTT
*
36351 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
36375 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
36399 GCACAC
1 GCACAC
36405 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Done.