Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2190
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: 43701
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Found at i:7651 original size:19 final size:20
Alignment explanation
Indices: 7610--7651 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
7600 GTTTCTATGC
* *
7610 CATTGTGATATTTATTATTG
1 CATTGTGATATTTAATATAG
*
7630 CATTGT-ATATTTAATGTAG
1 CATTGTGATATTTAATATAG
7649 CAT
1 CAT
7652 CGCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTGATATTTAATATAG
Found at i:14047 original size:44 final size:42
Alignment explanation
Indices: 13987--14577 Score: 260
Period size: 44 Copynumber: 13.6 Consensus size: 42
13977 CATCTAGTCA
* *
13987 TATCTCCCTGAGGTTGCAGTGGAGCAGACTATGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TATG-AAGCAAATCT
* * * *
14031 TATCCCCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGA-T-ATGA-AGCAAATCT
* *
14076 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATATGAAG-C-A-AATCT
* * * *
14120 TATCTCTCTGAAGTTGCAGTGAAGCAGAT-TAAAACCTCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAT-GAA--GCAAATCT
* * * * *** * *
14164 TACCTCTCTGAAGTTGCAG-AGAGCA-A-ATCGCATTTAGTCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAT-GAAGCAAATCT
* * *
14204 TATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TATG-AAGCAAATCT
* *
14248 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-ATGA-AGCAAATCT
* * * * *
14293 TATCTCCTTGAAGTTACAGTGAAGCAGAT-TAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATATGAAG-C-A-AATCT
* * * *
14337 TATCTCCCTGAAGTTGCAGTGGAGCGGAT-TAAAACCTCAAATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAT-GAA--GCAAATCT
* * * * * * * *
14381 TACCTCTCTGAAATTGCAG-AGAGCAGAT-T-ACATCTAGTCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATATGA-AGCAAATCT
* * **
14421 TATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAAGCAAGCCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TATG-AAGCAAATCT
* * *
14465 TATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-ATGA-AGCAAATCT
* *
14510 TATCTCCCTGAAGTTGCAGTGGAGCATAT-TGAAGCTGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATATGAAGC--A-AATCT
*
14554 TATCTCCCTGAAGTTACAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
14578 TGGATTAAAA
Statistics
Matches: 421, Mismatches: 83, Indels: 86
0.71 0.14 0.15
Matches are distributed among these distances:
40 40 0.10
41 17 0.04
42 12 0.03
43 24 0.06
44 219 0.52
45 100 0.24
46 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATATGAAGCAAATCT
Found at i:14338 original size:217 final size:217
Alignment explanation
Indices: 13958--14668 Score: 1163
Period size: 217 Copynumber: 3.3 Consensus size: 217
13948 AGTCACATCT
* *
13958 AGTTACAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTATGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
* *
14023 GCAAGTCTTATCCCCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCAAATCTTATCTCCCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* * *
14088 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTGCAGTGAAGCAGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
14153 ACCTCAAATCTTACCTCTCTGA
196 ACCTCAAATCTTACCTCTCTGA
* *
14175 AGTTGCAGAGAGCAAATCGCATTTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
*
14240 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* *
14305 GTTACAGTGAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
*
14370 ACCTCAAATCGTACCTCTCTGA
196 ACCTCAAATCTTACCTCTCTGA
* **
14392 AATTGCAGAGAGCAGATTACATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
* *
14457 GCAAGCCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* * * * *
14522 GTTGCAGTGGAGCATATTGAAGCTGATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
* *
14587 ACCTTAGATCTTATCCT-TCTGA
196 ACCTCAAATCTTA-CCTCTCTGA
* *
14609 AGTTGCAGAGAACAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGTAGACTA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTA
14669 AGATAGCAAA
Statistics
Matches: 457, Mismatches: 36, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
217 454 0.99
218 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
ACCTCAAATCTTACCTCTCTGA
Found at i:16715 original size:19 final size:20
Alignment explanation
Indices: 16674--16715 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
16664 GTTTCTATGC
* *
16674 CATTGTGATATTTATTATTG
1 CATTGTGATATTTAATATAG
*
16694 CATTGT-ATATTTAATGTAG
1 CATTGTGATATTTAATATAG
16713 CAT
1 CAT
16716 CGCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTGATATTTAATATAG
Found at i:23460 original size:217 final size:217
Alignment explanation
Indices: 23050--23759 Score: 1199
Period size: 217 Copynumber: 3.3 Consensus size: 217
23040 AGTCATATCT
*
23050 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCT-CCTGAGGTTGCAGTGGAGCAGACTATGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
* *
23114 GCAAGTCTTATCCCCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCAAATCTTATCTCCCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
**
23179 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTTCTGAAGTTGCAGTGGAGCGGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
*
23244 ACCTCAAATCTTACCTCTCTGA
196 ACCTTAAATCTTACCTCTCTGA
* * * *
23266 AGTTGTAGAGAGTAAATCGCATTTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
23331 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* * *
23396 GTTACAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
*
23461 ACCTTAAATCGTACCTCTCTGA
196 ACCTTAAATCTTACCTCTCTGA
23483 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
* * *
23548 GCAAGCCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* *
23613 GTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
*
23678 ACCTTAGATCTTATCCT-TCTGA
196 ACCTTAAATCTTA-CCTCTCTGA
* *
23700 AGTTGCAGAGAACAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGTAGACTA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTA
23760 AGATAGCAAA
Statistics
Matches: 462, Mismatches: 30, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
216 30 0.06
217 429 0.93
218 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (217 bp):
AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
ACCTTAAATCTTACCTCTCTGA
Found at i:23669 original size:44 final size:43
Alignment explanation
Indices: 23079--23707 Score: 293
Period size: 44 Copynumber: 14.4 Consensus size: 43
23069 CATCTAGTCA
* * *
23079 TATCT-CCTGAGGTTGCAGTGGAGCAGACTATGTAAG-CA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-T-T-AAAGCCATAATCT
* * * *
23122 TATCCCCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCA-AATCT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCATAATCT
*
23167 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCT
** * *
23211 TATCTTTCTGAAGTTGCAGTGGAGCGGATTAAAACC-TCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT--AATCT
* * * * * *
23255 TACCTCTCTGAAGTT---GT--AG-AGAGTAAATCGCATTTAGTCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CA--TAATCT
* * *
23295 TATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAAG-CA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA---AAGCCATAATCT
* *
23339 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-AATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCATAATCT
* * *
23384 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCT
* * *
23428 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAAATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT-AATCT
* * * *** * * *
23472 TACCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC-TAGTCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCT
* * **
23512 TATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAAG-CA-AGCCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA---AAGCCATAATCT
* * *
23556 TATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCA-AATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCATAATCT
* * *
23601 TATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCT
** * *
23645 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATA-ATCT
*
23689 TATC-CTTCTGAAGTTGCAG
1 TATCTC-CCTGAAGTTGCAG
23708 AGAACAGATC
Statistics
Matches: 455, Mismatches: 79, Indels: 103
0.71 0.12 0.16
Matches are distributed among these distances:
38 7 0.02
39 3 0.01
40 34 0.07
41 10 0.02
42 12 0.03
43 36 0.08
44 250 0.55
45 86 0.19
46 13 0.03
47 2 0.00
49 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCT
Found at i:25824 original size:19 final size:20
Alignment explanation
Indices: 25783--25824 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
25773 GTTTCTATGC
* *
25783 CATTGTGATATTTATTATTG
1 CATTGTGATATTTAATATAG
*
25803 CATTGT-ATATTTAATGTAG
1 CATTGTGATATTTAATATAG
25822 CAT
1 CAT
25825 CGCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTGATATTTAATATAG
Found at i:35434 original size:19 final size:20
Alignment explanation
Indices: 35393--35434 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
35383 GTTTCTATGC
* *
35393 CATTGTGATATTTATTATTG
1 CATTGTGATATTTAATATAG
*
35413 CATTGT-ATATTTAATGTAG
1 CATTGTGATATTTAATATAG
35432 CAT
1 CAT
35435 CGCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTGATATTTAATATAG
Found at i:41920 original size:44 final size:42
Alignment explanation
Indices: 41776--42369 Score: 289
Period size: 44 Copynumber: 13.7 Consensus size: 42
41766 TCTAGTCATA
* * *
41776 TCCCTGAGGTTGCAGTGGAGCAGACTATGTAAG-CAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-T-T-AAAGCCAAATCTTATC
* * *
41820 -CCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCAAATCTTATC
1 TCCCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAAATCTTATC
*
41864 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-A-AATCTTATC
* * * *
41908 TCTCTGAAGTTGCAGTGAAGCAGATTAAAACCTCAAATCTTACC
1 TCCCTGAAGTTGCAGTGGAGCAGATT-AAAGC-CAAATCTTATC
* * * *** *** * *
41952 TCTCTGAAGTTGCAG-AGAGCAAATCGCA-TTTAGTCATATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATCTTATC
* * *
41992 TCCCTGAGGTTGCAGTGGAGCAGACTACGTAAG-CAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTA---AAGCCAAATCTTATC
* *
42036 -CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATC
1 TC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAAATCTTATC
* * *
42081 T-CCTGAAGTTACAGTGAAGCAGATTAAAGCCGATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-A-AATCTTATC
* * * *
42124 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCGTACC
1 TCCCTGAAGTTGCAGTGGAGCAGATT-AAAGC-CAAATCTTATC
* * * * * * * *
42168 TCTCTGAAATTGCAG-AGAGCAGATTACA-TCTAGTCATATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATCTTATC
* * **
42208 TCCCTGAGGTTGCAGTGGAGCAGACTACGTAAG-CAAGCCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTA---AAGCCAAATCTTATC
* * *
42252 -CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCAAATCTTATC
1 TC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAAATCTTATC
* * * *
42297 TCCCTGAAGTTGCAGTGGAGCATATTGAAGCTGATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CA-AATCTTATC
* **
42341 TCCCTGAAGTTACAGTGGAGTGGATTAAA
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAA
42370 ACCTTAGATC
Statistics
Matches: 418, Mismatches: 89, Indels: 86
0.70 0.15 0.15
Matches are distributed among these distances:
40 38 0.09
41 18 0.04
42 13 0.03
43 59 0.14
44 215 0.51
45 68 0.16
46 7 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATCTTATC
Found at i:42088 original size:128 final size:128
Alignment explanation
Indices: 41860--42090 Score: 283
Period size: 128 Copynumber: 1.8 Consensus size: 128
41850 TGGCAAATCT
*
41860 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCGATAATCCTATCTCTCTGAAGTTGCAGTG
* *
41925 AAGCAGATTAAAACCTCAAATCTTACCTCTCTGAAGTTGCAGAGAGCAAATCGCATTTAGTCA
66 AAGCAGATGAAAACCGCAAATCTTACCTCTCTGAAGTTGCAGAGAGCAAATCGCATTTAGTCA
* * *
41988 TATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAAG-C-A-AGTCTTATC-CTCCTGAAGTTGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA---AAGCCGATAATCCTATCTCT-CTGAAGTTGC
* * ** *
42049 AGTGAGGCAGACTGAAGATGGCAAATCTTATCTC-CTGAAGTT
62 AGTGAAGCAGA-TGAAAACCGCAAATCTTACCTCTCTGAAGTT
42091 ACAGTGAAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
127 2 0.02
128 64 0.74
129 17 0.20
130 1 0.01
131 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCGATAATCCTATCTCTCTGAAGTTGCAGTG
AAGCAGATGAAAACCGCAAATCTTACCTCTCTGAAGTTGCAGAGAGCAAATCGCATTTAGTCA
Found at i:42117 original size:216 final size:217
Alignment explanation
Indices: 41745--42451 Score: 1154
Period size: 216 Copynumber: 3.3 Consensus size: 217
41735 AGTCACATCT
*
41745 AGTTGCAGAGAGCAGATCGCATCTAGTCATA--TCCCTGAGGTTGCAGTGGAGCAGACTATGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
*
41808 GCAAGTCTTATCC-CCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCAAATCTTATCTCCCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* * *
41872 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTGCAGTGAAGCAGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
41937 ACCTCAAATCTTACCTCTCTGA
196 ACCTCAAATCTTACCTCTCTGA
* *
41959 AGTTGCAGAGAGCAAATCGCATTTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
42024 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCT-CCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* *
42088 GTTACAGTGAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
*
42153 ACCTCAAATCGTACCTCTCTGA
196 ACCTCAAATCTTACCTCTCTGA
* **
42175 AATTGCAGAGAGCAGATTACATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
* *
42240 GCAAGCCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
66 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
* * * * *
42305 GTTGCAGTGGAGCATATTGAAGCTGATAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAA
131 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
* *
42370 ACCTTAGATCTTATCCT-TCTGA
196 ACCTCAAATCTTA-CCTCTCTGA
* *
42392 AGTTGCAGAGAACAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGTAGACTA
1 AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTA
42452 AGATAGCAAA
Statistics
Matches: 456, Mismatches: 32, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
214 29 0.06
216 247 0.54
217 177 0.39
218 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (217 bp):
AGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAGCAGACTACGTAA
GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
ACCTCAAATCTTACCTCTCTGA
Done.