Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2201
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: 34499
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Found at i:10293 original size:23 final size:22
Alignment explanation
Indices: 10267--10330 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
10257 AATAATAAGG
10267 ATAACATATAAAAAATACATGAA
1 ATAACATATAAAAAATACAT-AA
* * *
10290 ATAATATATATAAAA-ACATAC
1 ATAACATATAAAAAATACATAA
10311 ATAACTAATAATAAAAAATA
1 ATAAC--AT-ATAAAAAATA
10331 TACATACAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 5 0.16
22 4 0.12
23 15 0.47
24 7 0.22
25 1 0.03
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (22 bp):
ATAACATATAAAAAATACATAA
Found at i:10333 original size:23 final size:24
Alignment explanation
Indices: 10272--10336 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
10262 TAAGGATAAC
10272 ATATAAAAAATACATGAAATAATAT
1 ATATAAAAAATACAT-AAATAATAT
*
10297 ATATAAAAACATACATAACTAATA-
1 ATATAAAAA-ATACATAAATAATAT
10321 ATA-AAAAATATACATA
1 ATATAAAAA-ATACATA
10337 CAACGACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.32
24 3 0.08
25 16 0.43
26 6 0.16
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.26
Consensus pattern (24 bp):
ATATAAAAAATACATAAATAATAT
Found at i:11186 original size:16 final size:16
Alignment explanation
Indices: 11165--11207 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
11155 AAAAAAAGAA
11165 AGAAGGGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
11181 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
11197 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
11208 CTCCGGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:13578 original size:210 final size:209
Alignment explanation
Indices: 13318--14164 Score: 1106
Period size: 210 Copynumber: 4.1 Consensus size: 209
13308 GATGCCAAAC
* * ** * *
13318 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTG-CTGTCTACC
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCATC
* *
13382 AAAGCT-AAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATTATCTTAGAT
65 AAAG-TGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* * * *
13446 TTGCTTCATTGAAAACACGTGAAAGCCAAGTCAGCTATATCTTCGATCTGTTCCTTGCCGAATAC
128 TTGCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAC
13511 AGAGAGATAAGATCTGT
193 AGAGAGATAAGATCTGT
* *
13528 CATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
* *
13593 AAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
66 AAGT-GAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
13658 GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAG
130 GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAG
13723 AGAGATAAGATCTGT
195 AGAGATAAGATCTGT
* * * *
13738 CATCTTGGATCTGTTTTAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTTTGCCTTCCATCA
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
* *
13803 AAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
66 AAGT-GAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
* * * * * * * ** *
13868 GTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACACA-
130 GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAG
13931 AG-GATGCCAA-A-C---
195 AGAGAT---AAGATCTGT
* * * * * *
13943 CATATTGGAT-TCGCTTCAGCATAAACATTTGAAGGTCAGACCTGCTATATGTCTGCTTTCCATC
1 CATCTTGGATCT-GCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATC
* *
14007 AAAGTGAAGATACCAAACTTCGATTCGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATT
65 AAAGTGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
* * * *
14072 TGCTTCATC-ATAAACACGTGAAAGCCAAACCAACTATATCTTCGATATGCTCCCCGCCGAATAC
129 TGCTTCATCGA-AAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAC
14136 AGAGAGATAAGATCTGT
193 AGAGAGATAAGATCTGT
*
14153 CATCTTAGATCT
1 CATCTTGGATCT
14165 ACCCCGATGA
Statistics
Matches: 560, Mismatches: 59, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
204 4 0.01
205 156 0.28
206 6 0.01
207 6 0.01
208 6 0.01
209 7 0.01
210 370 0.66
211 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (209 bp):
CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
AAGTGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTG
CTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGA
GAGATAAGATCTGT
Found at i:14100 original size:415 final size:418
Alignment explanation
Indices: 13318--14164 Score: 1142
Period size: 415 Copynumber: 2.0 Consensus size: 418
13308 GATGCCAAAC
* * *
13318 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTGTCTACCA
1 CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTGTCCACCA
* *
13383 AAGCTAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATTATCTTAGATTT
66 AAGCTAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
** * * *
13448 GCTTCATTGAAAACACGTGAAAGCCAAGTCAGCTATATCTTCGATCTGTTCCTTGCCGAATACAG
131 GCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCAAACACAG
* * * * *
13513 AGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGT
196 AGAGATAAGATC--TCATATTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGACCTGCTATAT
* * * *
13578 GTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACA
259 GTCTGCCTTCCATCAAAGTGGAAATACCAAACTTCGATTCGTTCTCTGACAATACAAAGACGACA
* * *
13643 AATCATCTTAGATTTGCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCT
324 AATCATCTTAGATTTGCTTCATCGAAAACACGTGAAAGCCAAACCAACTATATCTTCGATATGCT
*
13708 CCCTGCCGAATACAGAGAGATAAGATCTGT
389 CCCCGCCGAATACAGAGAGATAAGATCTGT
* * * * * * *
13738 CATCTTGGATCTGTTTTAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTTTGCCT-TCCATC
1 CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTG-CTGTCCACC
* *
13802 AAAG-TGGAA-ATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGA
65 AAAGCT--AAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGA
* * * * *
13865 TTTGTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACA
128 TTTGCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCAAACA
* *
13929 CA-AG-GATGCCAA-A-C-CATATTGGAT-TCGCTTCAGCATAAACATTTGAAGGTCAGACCTGC
193 CAGAGAGAT---AAGATCTCATATTGGATCT-GCTTCAGCATAAACATCTGAAGGTAAGACCTGC
*
13988 TATATGTCTGCTTTCCATCAAAGT-GAAGATACCAAACTTCGATTCGTTCTCTGACAATACAAAG
254 TATATGTCTGCCTTCCATCAAAGTGGAA-ATACCAAACTTCGATTCGTTCTCTGACAATACAAAG
14052 ACGACAAATCATCTTAGATTTGCTTCATC-ATAAACACGTGAAAGCCAAACCAACTATATCTTCG
318 ACGACAAATCATCTTAGATTTGCTTCATCGA-AAACACGTGAAAGCCAAACCAACTATATCTTCG
14116 ATATGCTCCCCGCCGAATACAGAGAGATAAGATCTGT
382 ATATGCTCCCCGCCGAATACAGAGAGATAAGATCTGT
*
14153 CATCTTAGATCT
1 CATCTTGGATCT
14165 ACCCCGATGA
Statistics
Matches: 377, Mismatches: 41, Indels: 23
0.85 0.09 0.05
Matches are distributed among these distances:
414 5 0.01
415 197 0.52
417 3 0.01
418 3 0.01
419 7 0.02
420 158 0.42
421 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (418 bp):
CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTGTCCACCA
AAGCTAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
GCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCAAACACAG
AGAGATAAGATCTCATATTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGACCTGCTATATGT
CTGCCTTCCATCAAAGTGGAAATACCAAACTTCGATTCGTTCTCTGACAATACAAAGACGACAAA
TCATCTTAGATTTGCTTCATCGAAAACACGTGAAAGCCAAACCAACTATATCTTCGATATGCTCC
CCGCCGAATACAGAGAGATAAGATCTGT
Found at i:22179 original size:13 final size:15
Alignment explanation
Indices: 22149--22179 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22139 TTCCAGATTT
22149 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
22164 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
22179 T
1 T
22180 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:22265 original size:15 final size:14
Alignment explanation
Indices: 22223--22272 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
22213 ATAACCTTGA
*
22223 ATGCAAATGATGTG
1 ATGCAAATGATGAG
22237 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
22252 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
22266 ATGCAAA
1 ATGCAAA
22273 AAGAATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:31346 original size:210 final size:210
Alignment explanation
Indices: 30793--31974 Score: 1519
Period size: 210 Copynumber: 5.7 Consensus size: 210
30783 CTTCATCAGG
* *** * *
30793 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAGCTG
*
30858 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
30923 GAACAAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
30986 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* * ** * * *
31003 GCGGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TATAAGGAACAAATCGAAGACATAG
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAG
* *
31060 CTGATTTGGCTTTCACGTGTTTACGTTGAAACACATCTAAGATGATTTGTCGTCTCTGTATTGTC
63 CTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
*
31125 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATACCAGATCTTACCT
128 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCT
31190 TCAGATGTTTACGCTGAA
193 TCAGATGTTTACGCTGAA
31208 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAGCTG
* *
31273 ATTTGGCTTTCACGTGTTTACGTTGAAACACATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
31338 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
31403 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
31418 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAGGGAGCAGATCAAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAGCTG
* * *
31483 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
31548 GAACAAATCGAAGCCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
*
31613 GATGTTTACACTGAA
196 GATGTTTACGCTGAA
* * * * * *
31628 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCAAAGATATAACTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAGCTG
* * *
31693 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCCCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
** * * * * * *
31758 GAATGAATCAAATTTTGGCATCTT-CACTTTGGTAG-AGAGCAGACACATAGCAGATCTTGCCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
* *
31821 CGGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* * ** * * *
31838 GCGGATCCGAGATG---G-T-TTGGCATC-CT-TATGC-TTACAAGGAGCAAATCG-A-ATCATA
1 GCAGATCCAAGATGACAGATCTTATC-TCTCTGTATTCGGT--AAGGAGCAGATCGAAGAT-ATA
* * * * * *
31893 GTTGATTTGGGTTTCACGTGCTTACG-TTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTG
62 GCTGATTTGGCTTTCACGTGTTTACGATGAAA-CAAATCTAAGATGATTTGTCGTCTCTGTATTG
*
31957 TCAGGGAACAAATCGAAG
126 TCAGAGAACAAATCGAAG
31975 AAGCAGATTT
Statistics
Matches: 868, Mismatches: 84, Indels: 46
0.87 0.08 0.05
Matches are distributed among these distances:
203 5 0.01
204 73 0.08
205 180 0.21
206 11 0.01
207 7 0.01
208 6 0.01
209 8 0.01
210 576 0.66
211 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAAGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:32134 original size:45 final size:45
Alignment explanation
Indices: 32068--32153 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
32058 GAAGAAGCAA
* * * *
32068 ATTTGGCGTCTCTGTATTAGACGG-GGAGCAGATCGAAGATAATAG
1 ATTTGGCATCTCTATAGTAGACGGAGG-GCAGATCAAAGATAATAG
*
32113 ATTTGGCATCTCTATAGTAGACGGAGGGTAGATCAAAGATA
1 ATTTGGCATCTCTATAGTAGACGGAGGGCAGATCAAAGATA
32154 GCAGATATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 33 0.94
46 2 0.06
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (45 bp):
ATTTGGCATCTCTATAGTAGACGGAGGGCAGATCAAAGATAATAG
Found at i:33415 original size:38 final size:37
Alignment explanation
Indices: 33373--33493 Score: 149
Period size: 38 Copynumber: 3.3 Consensus size: 37
33363 ATAAAGTATG
* * *
33373 GTTTTAATTAATAATAAAAAAAATGGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAAAAAATAGTATG-GGGAGTA
33411 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAGTA
1 GTTTTAATTAACAATAAAA-AAAATAGTATGGGGAGTA
* *
33449 GTTTT--TTAACAACAAAAAAAATAGCATGGGGAGT-
1 GTTTTAATTAACAATAAAAAAAATAGTATGGGGAGTA
*
33483 GTTTTGATTAA
1 GTTTTAATTAA
33494 TATAAACAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
34 5 0.07
35 16 0.21
36 15 0.20
38 29 0.39
39 10 0.13
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.31
Consensus pattern (37 bp):
GTTTTAATTAACAATAAAAAAAATAGTATGGGGAGTA
Found at i:34053 original size:24 final size:24
Alignment explanation
Indices: 34007--34073 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
33997 TTTATTTTTT
* **
34007 ACATTATTATGTATATACCATGTAA
1 ACATT-TTATATATATATTATGTAA
* *
34032 ATATTTTA-ATATTATATTATGTAT
1 ACATTTTATATA-TATATTATGTAA
34056 ACATTTTATATATATATT
1 ACATTTTATATATATATT
34074 CTTTTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 25 0.74
25 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (24 bp):
ACATTTTATATATATATTATGTAA
Found at i:34328 original size:20 final size:21
Alignment explanation
Indices: 34290--34332 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
34280 AATATTATAA
*
34290 TACGTATATTTCTAATACTAT
1 TACGTATATTACTAATACTAT
*
34311 TACGT-TATTACTACTACTAT
1 TACGTATATTACTAATACTAT
34331 TA
1 TA
34333 TATTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (21 bp):
TACGTATATTACTAATACTAT
Done.