Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 38791
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Found at i:511 original size:18 final size:19
Alignment explanation
Indices: 467--525 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
457 TAAAACATGG
*
467 TATGTATGATATGCAATTGA
1 TATGTATGATATGC-ACTGA
*
487 CATGTATGATATGCACT-A
1 TATGTATGATATGCACTGA
505 TATGTATGATATGCACGTGA
1 TATGTATGATATGCAC-TGA
525 T
1 T
526 GTATCATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 16 0.47
19 3 0.09
20 15 0.44
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (19 bp):
TATGTATGATATGCACTGA
Found at i:608 original size:23 final size:23
Alignment explanation
Indices: 573--692 Score: 149
Period size: 23 Copynumber: 5.3 Consensus size: 23
563 AGGAGTGAAT
*
573 AAGGGCTTTTGCCCC-GATTATTA
1 AAGGGCTTATGCCCCAG-TTATTA
* *
596 AAGGGTTTGTGCCCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
619 AAGGGCTTATG-CCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
641 AAGGGCTTATGCCCCAGTTATTAA
1 AAGGGCTTATGCCCCAGTTATT-A
*
665 AAGGGCTT-T-TCCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
*
686 AAAGGCT
1 AAGGGCT
693 AGGCCTCAGA
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
21 7 0.08
22 32 0.36
23 39 0.44
24 10 0.11
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
AAGGGCTTATGCCCCAGTTATTA
Found at i:654 original size:45 final size:45
Alignment explanation
Indices: 573--692 Score: 161
Period size: 45 Copynumber: 2.6 Consensus size: 45
563 AGGAGTGAAT
* * *
573 AAGGGCTTTTGCCCCGATTATTAAAGGGTTTGTGCCCCAGTTATT-A
1 AAGGGC-TTTGCCCAG-TTATTAAAGGGCTTATGCCCCAGTTATTAA
619 AAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
1 AAGGGCTT-TGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
* *
665 AAGGGCTTTTCCCAGTTATTAAAAGGCT
1 AAGGGCTTTGCCCAGTTATTAAAGGGCT
693 AGGCCTCAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
45 46 0.69
46 21 0.31
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (45 bp):
AAGGGCTTTGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
Found at i:9387 original size:19 final size:19
Alignment explanation
Indices: 9363--9403 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9353 ATAGCTTATT
9363 TGATTTCATCATTCTCTCA
1 TGATTTCATCATTCTCTCA
9382 TGATTTCATCATTCTCTCA
1 TGATTTCATCATTCTCTCA
9401 TGA
1 TGA
9404 AAAAATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.46
Consensus pattern (19 bp):
TGATTTCATCATTCTCTCA
Found at i:11414 original size:326 final size:326
Alignment explanation
Indices: 10821--11474 Score: 1299
Period size: 326 Copynumber: 2.0 Consensus size: 326
10811 GAGGATCATC
10821 AGACGTCGGAGGCTACGATCACACTATTATCCTGAACACTCGGTACTGTTAGAATTCTTGTTTTT
1 AGACGTCGGAGGCTACGATCACACTATTATCCTGAACACTCGGTACTGTTAGAATTCTTGTTTTT
10886 GCATATGGCATGTATTGGGCTAGACCTTAATGTTGTGTGTCATCGAGAAATAGCCAAATTTGTTG
66 GCATATGGCATGTATTGGGCTAGACCTTAATGTTGTGTGTCATCGAGAAATAGCCAAATTTGTTG
*
10951 GCTTGGAATGAATACCTTTAATTTTGTATAAGGCCATGGATGATTTTCAATACTCATTTTGATAT
131 GCTTGGAATGAATACATTTAATTTTGTATAAGGCCATGGATGATTTTCAATACTCATTTTGATAT
11016 TCATAAATAGAAGATGATATTTTCATGGATGAGTATATTGCACAAATGAAATGTTAACCATTGTG
196 TCATAAATAGAAGATGATATTTTCATGGATGAGTATATTGCACAAATGAAATGTTAACCATTGTG
11081 GCTATTTTGGCTATGTGATGTACCCTTGTATTGGCATAGAGTGATTTTATAGAGGTTATGTATGT
261 GCTATTTTGGCTATGTGATGTACCCTTGTATTGGCATAGAGTGATTTTATAGAGGTTATGTATGT
11146 A
326 A
11147 AGACGTCGGAGGCTACGATCACACTATTATCCTGAACACTCGGTACTGTTAGAATTCTTGTTTTT
1 AGACGTCGGAGGCTACGATCACACTATTATCCTGAACACTCGGTACTGTTAGAATTCTTGTTTTT
11212 GCATATGGCATGTATTGGGCTAGACCTTAATGTTGTGTGTCATCGAGAAATAGCCAAATTTGTTG
66 GCATATGGCATGTATTGGGCTAGACCTTAATGTTGTGTGTCATCGAGAAATAGCCAAATTTGTTG
11277 GCTTGGAATGAATACATTTAATTTTGTATAAGGCCATGGATGATTTTCAATACTCATTTTGATAT
131 GCTTGGAATGAATACATTTAATTTTGTATAAGGCCATGGATGATTTTCAATACTCATTTTGATAT
11342 TCATAAATAGAAGATGATATTTTCATGGATGAGTATATTGCACAAATGAAATGTTAACCATTGTG
196 TCATAAATAGAAGATGATATTTTCATGGATGAGTATATTGCACAAATGAAATGTTAACCATTGTG
11407 GCTATTTTGGCTATGTGATGTACCCTTGTATTGGCATAGAGTGATTTTATAGAGGTTATGTATGT
261 GCTATTTTGGCTATGTGATGTACCCTTGTATTGGCATAGAGTGATTTTATAGAGGTTATGTATGT
11472 A
326 A
11473 AG
1 AG
11475 GGTGGCAAAG
Statistics
Matches: 327, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 327 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (326 bp):
AGACGTCGGAGGCTACGATCACACTATTATCCTGAACACTCGGTACTGTTAGAATTCTTGTTTTT
GCATATGGCATGTATTGGGCTAGACCTTAATGTTGTGTGTCATCGAGAAATAGCCAAATTTGTTG
GCTTGGAATGAATACATTTAATTTTGTATAAGGCCATGGATGATTTTCAATACTCATTTTGATAT
TCATAAATAGAAGATGATATTTTCATGGATGAGTATATTGCACAAATGAAATGTTAACCATTGTG
GCTATTTTGGCTATGTGATGTACCCTTGTATTGGCATAGAGTGATTTTATAGAGGTTATGTATGT
A
Found at i:12685 original size:27 final size:27
Alignment explanation
Indices: 12634--12733 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
12624 ATATTTGATG
12634 TCTCGCACACTAAGTGCCATACTCAACA
1 TCTCGCACACTAAGTGCCATACTCAA-A
* *
12662 TCTCGCACAC-AAGTGCCATTCTCAATG
1 TCTCGCACACTAAGTGCCATACTCAA-A
*
12689 TTTCGCACACTAAGTGCCATACTCAAA
1 TCTCGCACACTAAGTGCCATACTCAAA
* *
12716 TCTCACACATTAAGTGCC
1 TCTCGCACACTAAGTGCC
12734 GTACATAGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 38 0.61
28 24 0.39
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (27 bp):
TCTCGCACACTAAGTGCCATACTCAAA
Found at i:12783 original size:40 final size:41
Alignment explanation
Indices: 12739--12826 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
12729 GTGCCGTACA
*
12739 TAGCCGAAGCTA-TCTCTAACAGCACACTAAGTACCATATT
1 TAGCCGAAGCTATTCTCTAACAGCACACTAAGTACCACATT
* ** *
12779 TAGCCGAAGCTATTTTCTAACCTCACACTAAGTGCCACATT
1 TAGCCGAAGCTATTCTCTAACAGCACACTAAGTACCACATT
12820 TAGCCGA
1 TAGCCGA
12827 TATGTTGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 12 0.29
41 30 0.71
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (41 bp):
TAGCCGAAGCTATTCTCTAACAGCACACTAAGTACCACATT
Found at i:14176 original size:117 final size:117
Alignment explanation
Indices: 13970--14204 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
13960 GATTTTCGTC
13970 CCCGAAAATCTTATCAAAGAGGAGATTAGTGATTTACTTTCACTAGTCTCATCAATTTCTCACAT
1 CCCGAAAATCTTATCAAAGAGGAGATTAGTGATTTACTTTCACTAGTCTCATCAATTTCTCACAT
*
14035 ATCGTCAGATTTATCAACTTTTCAATCTCACGACCTAAGATTCTGATTTGTT
66 ATCGTCAGATTTATCAACTTTTCAATCTCACGACCTAAGATTCTGATCTGTT
*
14087 CCCGAAAATCTTATCAAAGAGTAGATTAGTGATTTACTTTCACTAGTCTCATCAATTTCTCACAT
1 CCCGAAAATCTTATCAAAGAGGAGATTAGTGATTTACTTTCACTAGTCTCATCAATTTCTCACAT
14152 ATCGTCAGATTTATCAACTTTTCAATCTCACGACCTAAGATTCTGATCTGTT
66 ATCGTCAGATTTATCAACTTTTCAATCTCACGACCTAAGATTCTGATCTGTT
14204 C
1 C
14205 TTTGCTATGC
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:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (117 bp):
CCCGAAAATCTTATCAAAGAGGAGATTAGTGATTTACTTTCACTAGTCTCATCAATTTCTCACAT
ATCGTCAGATTTATCAACTTTTCAATCTCACGACCTAAGATTCTGATCTGTT
Found at i:16455 original size:48 final size:47
Alignment explanation
Indices: 16385--16650 Score: 223
Period size: 48 Copynumber: 5.6 Consensus size: 47
16375 AAAATGCCAG
* * *
16385 TGCCATGTCCTAGACATGGTCTTACACTGGCTTACATGTCGAAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATC-AAGCCGA
* * * * * **
16433 TGTCATGTCCCAGACATGGTCTTACATTAGCTCT-CGTCTCATTGCTAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATATCA-AGCCGA
* *
16481 TGCCATGTCCCAGACATGGTCTTACACTAGC-CACATAACAACGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCAA-GCCGA
* * * * *** *
16528 TGCCATGTCCAAGACATGGTTTTACACTATCTCT-CGTAATGTGGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCT-TACAT-ATCAAGCCGA
* ** *
16576 TACCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCAA-GCCGA
*
16624 TGCCATGTCCCAAACATGGTCTTACAC
1 TGCCATGTCCCAGACATGGTCTTACAC
16651 GTATCACAAT
Statistics
Matches: 167, Mismatches: 42, Indels: 18
0.74 0.19 0.08
Matches are distributed among these distances:
47 38 0.23
48 127 0.76
49 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCAAGCCGA
Found at i:16553 original size:95 final size:96
Alignment explanation
Indices: 16380--16650 Score: 327
Period size: 95 Copynumber: 2.8 Consensus size: 96
16370 AGGGTAAAAT
* * * ** * * *
16380 GCCAGTGCCATGTCCTAGACATGGTCTTACACTGGCTTACATGTCGAA-GCCGATGTCATGTCCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AACGCCGATGCCATGTCCA
* *
16444 AGACATGGTCTTACATTAGCTCTCGTCTCAT-T-
65 AGACATGGTCTTACACTAGCTCTCG--TAATGTG
* *
16476 GCTAATGCCATGTCCCAGACATGGTCTTACACTAGC-CACATAACAACGCCGATGCCATGTCCAA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCAA
* *
16540 GACATGGTTTTACACTATCTCTCGTAATGTG
66 GACATGGTCTTACACTAGCTCTCGTAATGTG
* *
16571 GCCAATACCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGT-CCA
16636 A-ACATGGTCTTACAC
65 AGACATGGTCTTACAC
16651 GTATCACAAT
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
93 3 0.02
94 3 0.02
95 75 0.49
96 67 0.44
97 4 0.03
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCAA
GACATGGTCTTACACTAGCTCTCGTAATGTG
Found at i:16701 original size:37 final size:36
Alignment explanation
Indices: 16642--16724 Score: 121
Period size: 37 Copynumber: 2.3 Consensus size: 36
16632 CCCAAACATG
*
16642 GTCTTACACGTATCACAATGCCATAGCCTAGCTATA
1 GTCTTACACGTATCACAATGCCATAGCCCAGCTATA
* * *
16678 GTCTTACATGTCATCACGATGCCATAGCCCAGCTATG
1 GTCTTACACGT-ATCACAATGCCATAGCCCAGCTATA
16715 GTCTTACACG
1 GTCTTACACG
16725 CACTGACATG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 10 0.24
37 31 0.76
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (36 bp):
GTCTTACACGTATCACAATGCCATAGCCCAGCTATA
Found at i:19463 original size:28 final size:28
Alignment explanation
Indices: 19370--19464 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
19360 ACATCTCACG
* *
19370 CACTAAGTGCCATACTCAACATCTCGCA
1 CACTAAGTGTCATACTCAATATCTCGCA
* * * * * *
19398 CACCAAGT-TCCGTTCTCAATGTTTCGAA
1 CACTAAGTGT-CATACTCAATATCTCGCA
19426 CACTAAGTGTCATACTCAATATCTCGCA
1 CACTAAGTGTCATACTCAATATCTCGCA
19454 CACTAAGTGTC
1 CACTAAGTGTC
19465 GTACATAGCT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
28 50 0.98
29 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (28 bp):
CACTAAGTGTCATACTCAATATCTCGCA
Found at i:21441 original size:28 final size:28
Alignment explanation
Indices: 21386--21479 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 28
21376 GTGTGCATGA
*
21386 ATAT-AATGTGATTTGGGCCGGATCGGG-C
1 ATATAAATGTGAATTGGGCC-GAT-GGGCC
*
21414 ATATAAATGTGAATTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCC-GATGGGCC
* * *
21443 ATATGAACGTGAATTAGGCCGATGGGCC
1 ATATAAATGTGAATTGGGCCGATGGGCC
21471 ATATAAATG
1 ATATAAATG
21480 ATATTGGACC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGAATTGGGCCGATGGGCC
Found at i:26305 original size:40 final size:40
Alignment explanation
Indices: 26242--26462 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
26232 ATTCGGATTG
26242 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
26281 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
26321 GTAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26361 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26401 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
26441 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
26463 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.17
40 137 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:34206 original size:40 final size:38
Alignment explanation
Indices: 34151--34266 Score: 153
Period size: 38 Copynumber: 3.0 Consensus size: 38
34141 TTGGATAAGT
34151 AATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGC
1 AATTGTGCGAGTTACTATAACC-GGCTAA-TCCCGAAGGC
34191 AATTGTGCGAGTTACTATAACCGGCTAATCCCGAAGGC
1 AATTGTGCGAGTTACTATAACCGGCTAATCCCGAAGGC
* * * *
34229 ATTTGAGCGAG-TAGCTATATCCGGCTAAACCCCGAAGG
1 AATTGTGCGAGTTA-CTATAACCGGCT-AATCCCGAAGG
34267 TACTTGGTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
37 2 0.03
38 30 0.43
39 16 0.23
40 22 0.31
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (38 bp):
AATTGTGCGAGTTACTATAACCGGCTAATCCCGAAGGC
Found at i:36417 original size:31 final size:31
Alignment explanation
Indices: 36376--36439 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
36366 CCTTTTTAAA
*
36376 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
36407 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
36438 TT
1 TT
36440 ACTGTACGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:36712 original size:45 final size:45
Alignment explanation
Indices: 36646--36731 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
36636 GCCTAGCTCT
36646 TTTAATAACTGGGGAAAAAG-CCTTTAATAACTGGGGCATAAAGCC
1 TTTAATAACTGGGGAAAAAGCCCTTT-ATAACTGGGGCATAAAGCC
* *
36691 TTTAATAACTGGGGCACAAGCCCTTTATAACTGGGGCATAA
1 TTTAATAACTGGGGAAAAAGCCCTTTATAACTGGGGCATAA
36732 GCCCTTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 33 0.87
46 5 0.13
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (45 bp):
TTTAATAACTGGGGAAAAAGCCCTTTATAACTGGGGCATAAAGCC
Found at i:36737 original size:22 final size:22
Alignment explanation
Indices: 36646--36734 Score: 126
Period size: 22 Copynumber: 4.0 Consensus size: 22
36636 GCCTAGCTCT
* *
36646 TTTAATAACTGGGGAAAAAGCC
1 TTTAATAACTGGGGCATAAGCC
36668 TTTAATAACTGGGGCATAAAGCC
1 TTTAATAACTGGGGCAT-AAGCC
*
36691 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAG-CC
36714 TTT-ATAACTGGGGCATAAGCC
1 TTTAATAACTGGGGCATAAGCC
36735 CTTATTCACT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
21 2 0.03
22 33 0.54
23 26 0.43
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (22 bp):
TTTAATAACTGGGGCATAAGCC
Found at i:36817 original size:20 final size:20
Alignment explanation
Indices: 36789--36835 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
36779 TTATGATTAC
*
36789 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
36809 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
36829 ACCATGT
1 ATCATGT
36836 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Done.