Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold839
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: 50042
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Found at i:74 original size:28 final size:28
Alignment explanation
Indices: 23--1306 Score: 1154
Period size: 28 Copynumber: 45.9 Consensus size: 28
13 CATCAGCACA
* *
23 TTCAAAGCCCACAAGTCAGCGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
51 TTTAAGGCGCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
79 TTCAAATCACACAAGTTAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
106 ATTCAAAAG--AACAAGTCAGTGGCAT-CT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
133 CTTCAAAAGACCC-TAAGTCAGTGGCATCCT
1 -TTC-AAAG-CCCACAAGTCAGTGGCATCCT
163 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
190 TATCAAAGCCCACAAGTCAGTGGCACCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
219 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
247 TTCAAAGCCCACAAGTCAGTGGCATCCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
276 TT-AAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
303 TTCAAAACTCACAAGTGAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
331 TTCAAAGCCCACAGGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* **
359 TTCAAAACAAACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
386 CTTCAAAAGCCCACAAGTCAGTCGTATCTT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
416 TTCAAAGCCCATAA--AAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
442 TTCAAAACCCACAAGTTAGTGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
470 TTCAAAACCTACAAGTTAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
497 CTTCAAAAGACCACAAGTTAGTGGCATCTT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * * *
527 TTCAAAAGACCA-TAGTTAGTGGCAT-TT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
554 CTTCAAAAGACCACAGGTTAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
584 TTCAAAGGCCACAAGTTAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
611 TTC-AAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
638 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * **
666 TTCAAAACCCATAAGTTAGT-AAATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
*
695 TTCAAAGCCCACAAGTCAATGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * * *
724 TTAAAAAACCCACAAGTTAATGGCA-CCTT
1 TT-CAAAGCCCACAAGTCAGTGGCATCC-T
* * *
753 TTTAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
781 CATTCAAAGCCTACAAGTTAGTGGCATCC-
1 --TTCAAAGCCCACAAGTCAGTGGCATCCT
810 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
837 GTTCAAAAGACCACAAGTTAGTGGCATCTCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATC-CT
* * ***
868 TTAAAAGCCCACAAGT-AATGGCAAATT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
895 TTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
923 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *** *
951 TTTAAAGCCCACAAGTTAGTAATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
979 TTCAAAGCCTACAAGGTTAGTGGTATCCT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCT
* *
1008 TTTAAAGCCCACAATTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1036 TTCAAAGCCCACAAGTCAGT-GC-TACCTT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CC-T
* * *
1064 TTTAAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1092 TTCAAAGCCCAC-AGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1119 TTCAAAGCTCACAAGTCAATGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1146 CTCAAAAACCCAC-AGTCA-TGGCATCTT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
1173 TTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1201 TT-AAAGCCTACAAGTTAGAGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1228 TTC-AAG-CCACAAGTCAGTGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1254 TTCAAAGCCCACAAGTCA-TGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
1281 TTCAAAGCCCACAAGTTTAGTGGCAT
1 TTCAAAGCCCACAAG-TCAGTGGCAT
1307 GTCAGGTAGC
Statistics
Matches: 1038, Mismatches: 162, Indels: 110
0.79 0.12 0.08
Matches are distributed among these distances:
26 71 0.07
27 184 0.18
28 547 0.53
29 183 0.18
30 51 0.05
31 2 0.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:167 original size:84 final size:82
Alignment explanation
Indices: 60--5095 Score: 4064
Period size: 84 Copynumber: 59.5 Consensus size: 82
50 TTTTAAGGCG
* * * * *
60 CACAAGTTAGTGGCATCTTTTCAAATCACACAAGTTAGTGGCATCTATTCAAAAG-AACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTC-AAAGCCACAAGTTA
124 GTGGCATCTCTTCAAAAGACC
64 GTGGCATCTCTTC-AAAG-CC
* * * *
145 C-TAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTATCAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTT-TCAAAG-CCACAAGTTA
*
209 GTGGCA-CCCTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
*
228 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCATTT-AAAGCCCACAAGTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-C-TTTCAAAG-CCACAAGTT
* *
292 AGTGGCATC-CTTTCAAAACT
63 AGTGGCATCTC-TTCAAAGCC
* * * * * *
312 CACAAGTGAGTGGTATCCTTTCAAAGCCCACAGGTTAGTGGCATCTTTTCAAAACAAACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-TTTCAAAGC-CACAAGTTA
377 GTGGCATCTCTTCAAAAGCC
64 GTGGCATCTCTTC-AAAGCC
* * * * * * * *
397 CACAAGTCAGTCGTATCTTTTCAAAGCCCATAA--AAGTGGCACCCTTTCAAAACCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTC-AAAGCCACAAGTTA
* * *
460 GTGACATCTTTTCAAAACC
64 GTGGCATCTCTTCAAAGCC
* * *
479 TACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAGTTAGTGGCATCTTTTCAAAAGACCA-TAG
1 CACAAGTTAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATC-TTTC-AAAG-CCACAAG
* *
542 TTAGTGGCATTTCTTCAAAAGAC
61 TTAGTGGCATCTCTTC-AAAGCC
* * *
565 CACAGGTTAGTGGCATCCTTTCAAAGGCCACAAGTTAGTGGCATCTTTC-AAGCCCACAAGTCAG
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTCAAAG-CCACAAGTTAG
*
629 TGGCA-CCCTTTCAAAGCC
65 TGGCATCTC-TTCAAAGCC
* * **
647 CACAAGTTAGTGGCATCCTTTCAAAACCCATAAGTTAGT-AAATACCCTTTCAAAGCCCACAAGT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT---CTTTCAAAG-CCACAAGT
* * * *
711 CAATGGCATCTCTTTAAAAAACC
62 TAGTGGCATCTC-TT-CAAAGCC
* * * * *
734 CACAAGTTAATGGCA-CCTTTTTAAAGCCCACAAGTCAGTGACACCCTCATTCAAAGCCTACAAG
1 CACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCA---TCTTTCAAAGCC-ACAAG
798 TTAGTGGCATC-CTTCAAAGCC
61 TTAGTGGCATCTCTTCAAAGCC
* * *
819 CACAAGTCAGTGGCAT-CTGTTCAAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAG
1 CACAAGTTAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCA--TCTTTCAAAG-CCACAAG
* ** * *
883 -TAATGGCAAATTTTCAAAACC
61 TTAGTGGCATCTCTTCAAAGCC
* *
904 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
* *
969 GT--AATACCCTTTCAAAGCC
64 GTGGCAT-CTC-TTCAAAGCC
* * *
988 TACAAGGTTAGTGGTATCCTTTTAAAGCCCACAA-TTCAGTGGCATCCTTTCAAAGCCCACAAGT
1 CACAA-GTTAGTGGCATCCTTTCAAAGCCCACAAGTT-AGTGGCAT-CTTTCAAAG-CCACAAGT
* * * *
1052 CAGT-GCTACCTTTTTAAAGCC
62 TAGTGGC-ATCTCTTCAAAGCC
* * *
1073 CATAAGTTAGTGGCATCCTTTCAAAGCCCAC-AGTCAGTGGCATCCTTTCAAAGCTCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAGC-CACAAGTTA
* *
1137 ATGGCATCTC-TCAAAAACC
64 GTGGCATCTCTTC-AAAGCC
* * * * *
1156 CAC-AGTCA-TGGCATCTTTTCAAAGCCTACAAGTCAGTGGCACCCTTT-AAAGCCTACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAGCC-ACAAGTTA
*
1218 GAGGCATC-CTTTC-AAG-C
64 GTGGCATCTC-TTCAAAGCC
* * * *
1235 CACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCA-TGGCACTCTTTCAAAGCCCACAAGTTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAG-TT
1299 AGTGGCATGTCAGGTAGCACCCTTTCAAAGCC
63 AGTGGCA--TC---T------C-TTCAAAGCC
* * *
1331 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCTCTTCAAAGCTCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTCAAAGC-CACAAGTTA
*
1396 GTGGCAT-TTTTCCAAAGCC
64 GTGGCATCTCTT-CAAAGCC
* * * * *
1415 CACAAGTCAATGGTACCCTTTTTAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTT
1 CACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTT
* * * *
1480 AATGGCTTCTTTTCCAAGCC
63 AGTGGCATCTCTTCAAAGCC
* * * * *
1500 CAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCATAAGTTAG
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAGCCACAAGTTAG
1565 TGGCATC-CTTTCAAAGCC
65 TGGCATCTC-TTCAAAGCC
* * * *
1583 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACTCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
1648 GTGGCATC-CTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * ** * * *
1667 CACAAGTTAGTGGCATCTTTTCGAATACCACAAGTAAGTGGCACCCTTTCAAAGCCTACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAGCC-ACAAGTTA
*
1732 GGGGCATC-CTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* *
1751 CACAAGTAAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGCCTACAAG
1 CACAAGTTAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATCT-TTC-AAAGCC-ACAAG
*
1815 TCAGTGGCATCAT-TTCAAAGCC
61 TTAGTGGCATC-TCTTCAAAGCC
* * * * * * *
1837 CACAAGTCAGCGGCACCCTTTTAAGGCGCACAAGTTAGTGGCATCTTTTCAAATCACACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-TTTCAAAGC-CACAAGTTA
* **
1902 GTGGCATCTATTCAAAAGAAA
64 GTGGCATCTCTTC-AAAG-CC
* ** *
1923 CACAAGTCAGTGGCAT-CTCTTCAAAAGACCC-TGAGTCAGTGGCATCCTTTCAAAGCCCACAAG
1 CACAAGTTAGTGGCATCCT-TTC-AAAG-CCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAG
1986 TTAGTGGCATCT-TATCAAAGCC
61 TTAGTGGCATCTCT-TCAAAGCC
* * *
2008 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
* *
2073 GTGGCA-CCCTTTTAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * * * *
2092 CACAAGTTAGTGGCATCCTTTCAAAACTCACAAGTGAGTGGTATCCTTTCAAAGCCCACAGGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
* * *
2157 GTGGCATCTTTTCAAAACA
64 GTGGCATCTCTTCAAAGCC
* * * * * * * * * *
2176 AACAAGTCAGTAGCATCTTTTCAAAAGCCCACAAGTCAGTCGTATCTTTTCAAAGCCCATAAATG
1 CACAAGTTAGTGGCATCCTTTC-AAAGCCCACAAGTTAGTGGCATC-TTTCAAAG-CCACAAGTT
* *
2241 AGTGGCA-CCCTTTCAAAACC
63 AGTGGCATCTC-TTCAAAGCC
* * * *
2261 CACAAGTTAGTGACATCTTTTCAAAACCCACAAGTTAGTGGCATCTCTTCAAAAGACTACAAGTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTC-AAAG-CCACAAGTT
* *
2326 AGTGGCATCTTTTCAAATGAC
63 AGTGGCATCTCTTCAAA-GCC
* * * *
2347 CACAAGTCAGTGGCAT-TTCTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGT
1 CACAAGTTAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGT
*
2411 TAGTGGCATCTTTTCAAAGCC
62 TAGTGGCATCTCTTCAAAGCC
* * *
2432 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
* * *
2497 GT--AATACCCTTTTAAAGCC
64 GTGGCAT-CTC-TTCAAAGCC
* * * * * * * * *
2516 CACAAGTCAATGGCATCTCTTTAAAAACCCACAAGTCAATGGCACCTTTTAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATCTTTCAAAG-CCACAAGTTA
* * *
2581 GTGACA-CCCTTTAAAGCC
64 GTGGCATCTCTTCAAAGCC
* *
2599 TACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTGTTCAAAAGACCACAAGTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTC-AAAG-CCACAAGTT
*
2664 AGTGGCATCTCTTTAAAAGCC
63 AGTGGCATCTC-TTCAAAGCC
* * * * * *
2685 CACAAG-TAATGGCAACTTTTCAAAACCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
*
2749 GTGGCATC-CTTTTAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* *** * * * * *
2768 CATAAGTTAGTAATACCCTTTCAAAGCCTACAAGTTAGTGGTATCCTTTTAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
2833 GTGGCATC-CTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * * * * *
2852 CACAAGTCAGTGGTA-CCTTTTTAATGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
1 CACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTT
*
2916 AGTGGCATC-CTTTCAAAGCT
63 AGTGGCATCTC-TTCAAAGCC
* *
2936 CACAAGTCAGTGGCAT-CTATTCAAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAGGT
1 CACAAGTTAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGT
* * *
3000 CAGTGACA-CATTTTCAAAGCC
62 TAGTGGCATC-TCTTCAAAGCC
* * * * *
3021 TACAAGTTAGTAGCATCCTTTCAAAGCCTACAAGTCAGTTGCATCTCTTCAAAAGCTCACAAGTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTC-AAAGC-CACAAGTT
*
3086 AGTGGCAT-TTTTCCAAAGCC
63 AGTGGCATCTCTT-CAAAGCC
* * * *
3106 CACAAGTTAGTGGTACCCTTTTAAATCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
* * *
3171 ATGGCTTCTTTTCAAAGCC
64 GTGGCATCTCTTCAAAGCC
* * * * *
3190 CACAAGTAAGTGGCACCCTTTGAAAGCCCACAAGTAAGTGGCATCCTTTTAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
*
3255 GTGGCATC-CTTTCAAAACC
64 GTGGCATCTC-TTCAAAGCC
* * * * * *
3274 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACTCTATGAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
3339 GTGGCATC-CTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * ** * * *
3358 CACAAGTCAGTGGCATCTTTTTGAAGACCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
* * * *
3423 ATGACATCTTTTCGAAA-AC
64 GTGGCATCTCTTC-AAAGCC
* * *
3442 CACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCTACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAGCC-ACAAGTTA
*
3507 GTGGCATCTCTTCAAAAGCA
64 GTGGCATCTCTTC-AAAGCC
* * * * * * *
3527 CATAAGTTAGTGGCATCTTTTCAAAACCCACAAGTCAGTGGCACCCTATT-AAAGCCCACAGGTC
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT-TTCAAAG-CCACAAGTT
* *
3591 AGTGGCA-CCCTTTTAAAGCC
63 AGTGGCATCTC-TTCAAAGCC
* * * * *
3611 CACACGTTAGTGGCATCCTTTGAAAACCCACAGGTTAGTGGCATCTCTTCAAAAGAACACAAGTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTC-AAAG-CCACAAGTT
*
3676 AGTGGCATCTCTTCAAAAGAC
63 AGTGGCATCTCTTC-AAAGCC
* * * * * *
3697 CATAAGTCAGTGGTATCCTTTCAAAACCCACAAGTTAGTGGCATCTTATCAAAGCCCATAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTT-TCAAAG-CCACAAGTTA
*
3762 GTGGCA-CCCTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
*
3781 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
* *
3846 GTGGCATC-CTTTCAAAACT
64 GTGGCATCTC-TTCAAAGCC
* * * * *
3865 CACAAGTTAGTGGTATCATTACAAAGCGCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-TTTCAAAG-CCACAAGTTA
* *
3930 GTGGCATTTCTTCAAAAACC
64 GTGGCATCTCTTC-AAAGCC
* * * * * * *
3950 CATAAGTTAGTGGCATCTTTTCAAAGCCCATAAATGAATGGCACCCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
* * *
4015 GTGACATCTTTTCAAAACC
64 GTGGCATCTCTTCAAAGCC
* * * *
4034 CACAA-TTCAGTGGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCATCGCTTCAAAAGACCACAG
1 CACAAGTT-AGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATC-TTTC-AAAG-CCACAA
* *
4097 GTTAGTGGCATC-CTTTTAAAGCT
60 GTTAGTGGCATCTC-TTCAAAGCC
* * *
4120 CACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACGCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
4185 GTGGCATC-CTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * * *
4204 CATAAGTGAGTGGCATCCTTTCAAAGCCCATAAGTCTA-TGGCATCTCTTCAAAAAGCCAAAAGT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT-TAGTGGCATCT-TTC--AAAGCCACAAGT
* * *
4268 CAATGGCATCTTTTCAAAGCC
62 TAGTGGCATCTCTTCAAAGCC
* * * * *
4289 CACAAGTCAGTGGCACCCTTT-AAAACCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
* *
4353 GTGACATCTCTTCGAAAGAC
64 GTGGCATCTCTTC-AAAGCC
* * * * * *
4373 CACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAG-TAATGGTAACTTTTCAAAACCCACAAGTC
1 CACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATC-TTTC-AAAGCCACAAGTT
*
4437 AGTGGCA-CCCTTTCAAAGCC
63 AGTGGCATCTC-TTCAAAGCC
* ** *
4457 CACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAGTAACACCCTTTCAAAGCCCACAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAAGTTA
* *
4522 GTGGTATC-CTTTTAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * * * * *
4541 CACAAGTTAGTGGCATCTTTTAAAAGGCCACAAGTTAGTGGCACCTTTTCAATGCCCATAAGTTA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-TTTCAAAG-CCACAAGTTA
*
4606 GTGGCATC-CTTTGAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * * * *
4625 CATAAGTTAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCTCTTCAAAAGCCTAGAAGTC
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT-TTC-AAAGCC-ACAAGTT
* *
4690 AGTGGCATATTTTCAAAGCC
63 AGTGGCATCTCTTCAAAGCC
* * * ** *
4710 CATAAGTCAGTGGCA-CATTTTCAAAGCTTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
1 CACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTT
*
4774 AGTGGCATCTCTTCAAAAGAC
63 AGTGGCATCTCTTC-AAAGCC
* * *
4795 CACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATATTTTCAAAGCCCACAAGTCA
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTCAAAG-CCACAAGTTA
*
4860 GTGGCA-CCCTTTCAAAGCC
64 GTGGCATCTC-TTCAAAGCC
* * * *
4879 CATAAGTTAGTGGCATTCTTTTAAAGCCCACAAGTCA-TCGGCATCCTTTCAAAGCCCACAAGTT
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGT-GGCAT-CTTTCAAAG-CCACAAGTT
*
4943 AGTGGCA-CCCTTTCAAAGCC
63 AGTGGCATCTC-TTCAAAGCC
* * * * * * * *
4963 CACAAGTTAATGGCATACCATTTCAAAGCTTACACAAATCAATGGCACCCTTCCAAAGCCCATAA
1 CACAAGTTAGTGGCAT-CC-TTTCAAAGC--CCACAAGTTAGTGGCA-TCTTTCAAAG-CCACAA
* * *
5028 GTCAGTGGCA-CCCTTTTAAAGCC
60 GTTAGTGGCATCTC-TTCAAAGCC
* * * * * *
5051 TACAAGTCAGTGGTACCCCTTCAAAGCCCACAAGTCAGTGGCATC
1 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC
5096 CCCTTTCAAA
Statistics
Matches: 4124, Mismatches: 609, Indels: 438
0.80 0.12 0.08
Matches are distributed among these distances:
79 4 0.00
80 19 0.00
81 74 0.02
82 133 0.03
83 303 0.07
84 1853 0.45
85 1122 0.27
86 337 0.08
87 112 0.03
88 88 0.02
89 1 0.00
90 1 0.00
91 1 0.00
94 6 0.00
95 3 0.00
96 49 0.01
97 18 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (82 bp):
CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTCAAAGCCACAAGTTAGT
GGCATCTCTTCAAAGCC
Found at i:207 original size:56 final size:55
Alignment explanation
Indices: 23--5112 Score: 4056
Period size: 56 Copynumber: 90.7 Consensus size: 55
13 CATCAGCACA
* * * * *
23 TTCAAAGCCCACAAGTCAGCGGCACCCTTTTAAGGCGCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * * *
79 TTCAAATCACACAAGTTAGTGGCAT-CTATTCAAAAG--AACAAGTCAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATCT
* *
133 CTTCAAAAGACCC-TAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
1 -TTC-AAAG-CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
*
190 TATCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
247 TTCAAAGCCCACAAGTCAGTGGCATCCATTT-AAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * * *
303 TTCAAAACTCACAAGTGAGTGGTATCCTTTCAAAGCCCACAGGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* ** * * *
359 TTCAAAACAAACAAGTCAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAGTCGTATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATC-T
* * * * *
416 TTCAAAGCCCATAA--AAGTGGCACCCTTTCAAAACCCACAAGTTAGTGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * *
470 TTCAAAACCTACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATC-T
* * * * * *
527 TTCAAAAGACCA-TAGTTAGTGGCAT-TTCTTCAAAAGACCACAGGTTAGTGGCATCCT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCAT-CT
* * * *
584 TTCAAAGGCCACAAGTTAGTGGCAT-CTTTC-AAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * **
638 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAACCCATAAGTTAGT-AAATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT---CT
* * * * *
695 TTCAAAGCCCACAAGTCAATGGCATCTCTTTAAAAAACCCACAAGTTAATGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTT-CAAAGCCCACAAGTTAGTGGCATC-T
* * * * *
753 TTTAAAGCCCACAAGTCAGTGACACCCTCATTCAAAGCCTACAAGTTAGTGGCATCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT--TTCAAAGCCCACAAGTTAGTGGCATCT
*
810 TTCAAAGCCCACAAGTCAGTGGCAT-CTGTTCAAAAGACCACAAGTTAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCA--TCT
* * *** * *
868 TTAAAAGCCCACAAGT-AATGGCAAATTTTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * *** *
923 TTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAGTAATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * *
979 TTCAAAGCCTACAAGGTTAGTGGTATCCTTTTAAAGCCCACAA-TTCAGTGGCATCCT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTT-AGTGGCAT-CT
* *
1036 TTCAAAGCCCACAAGTCAGT-GC-TACCTTTTTAAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CC-TTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * *
1092 TTCAAAGCCCAC-AGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAATGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * * *
1146 CTCAAAAACCCAC-AGTCA-TGGCATCTTTTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * * *
1201 TT-AAAGCCTACAAGTTAGAGGCATCCTTTC-AAG-CCACAAGTCAGTGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
1254 TTCAAAGCCCACAAGTCA-TGGCA-CTCTTTCAAAGCCCACAAGTTTAGTGGCA--T
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAG-TTAGTGGCATCT
* * ** ** * *** ** * ** **
1307 GTCAGGTAGCACC-C-TTTCAAAGCCCA-CAAGTCAGTG-GCATC-CTTTCA-AAGC--C-
1 TTCA--AAGC-CCACAAGTCAGTG-GCATCCTTTCAAAGCCCA-CAAGTT-AGTGGCATCT
* * * ** * *** ** *** * ** ***
1359 --CACAAG-TCA-ATGGCA-TCTCTTCAAAGCTCACAAG-TTAGTGGCATT-TTTCCAAAG
1 TTCA-AAGCCCACAAGTCAGTGGCATC--CTTTCA-AAGCCCACAAG--TTAGTGGCATCT
** * * * * * *
1413 CCCACAAG---TCAA-T-GGT-AC-CCTTTTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCA-AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * * * * * *
1463 TTCAAAGCCCACAAGTTAATGGCTTCTTTTCCAAGCCCAAAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* *
1519 TTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAG-CCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * *
1574 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
*
1630 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* ** * * * * *
1686 TTCGAATACCACAAGTAAGTGGCACCCTTTCAAAGCCTACAAGTCAGGGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* *
1742 TTCAAAGCCCACAAGTAAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATCT
* * * * *
1798 CTTCAAAAGCCTACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGCGGCACCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * * * * *
1856 TTTAAGGCGCACAAGTTAGTGGCATCTTTTCAAATCACACAAGTTAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
** ** *
1911 ATTCAAAAGAAACACAAGTCAGTGGCAT-CTCTTCAAAAGACCC-TGAGTCAGTGGCATCCT
1 -TTC-AAAG-CCCACAAGTCAGTGGCATCCT-TTC-AAAG-CCCACAAGTTAGTGGCAT-CT
* * *
1971 TTCAAAGCCCACAAGTTAGTGGCAT-CTTATCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCA-TCT
* * *
2027 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * * * *
2083 TTTAAAGCCCACAAGTTAGTGGCATCCTTTCAAAACTCACAAGTGAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * * ** * *
2139 TTCAAAGCCCACAGGTTAGTGGCATCTTTTCAAAACAAACAAGTCAGTAGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * * * * *
2195 TTCAAAAGCCCACAAGTCAGTCGTATCTTTTCAAAGCCCATAAATGAGTGGCACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * * *
2252 TTCAAAACCCACAAGTTAGTGACATCTTTTCAAAACCCACAAGTTAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * * * *
2307 CTTCAAAAGACTACAAGTTAGTGGCATCTTTTCAAATGACCACAAGTCAGTGGCATTT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAA-GCCCACAAGTTAGTGGCATCT
* * *
2365 CTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
*
2423 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * *** * * * *
2479 TTCAAAGCCCATAAGTTAGTAATACCCTTTTAAAGCCCACAAGTCAATGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA--TCT
* * * * * * *
2536 TTAAAAACCCACAAGTCAATGGCA-CCTTTTAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * *
2591 TT-AAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * *
2645 GTTCAAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAG-TAATGGCAACTT
1 -TTC-AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATC-T
* *
2703 TTCAAAACCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * *** * * *
2759 TTTAAAGCCCATAAGTTAGTAATACCCTTTCAAAGCCTACAAGTTAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * *
2815 TTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGTACCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * * *
2871 TTTAATGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
*
2927 TTCAAAGCTCACAAGTCAGTGGCAT-CTATTCAAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCAT-CT
* * * * *
2984 TTCAAAGCCCACAGGTCAGTGACA-CATTTTCAAAGCCTACAAGTTAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * *
3040 TTCAAAGCCTACAAGTCAGTTGCAT-CTCTTCAAAAGCTCACAAGTTAGTGGCATTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATCT
* * * * *
3096 TTCCAAAGCCCACAAGTTAGTGGTACCCTTTTAAATCCCACAAGTTAGTGGCATCCT
1 TT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * * * *
3153 TTCAAAGCCCACAAGTTAATGGCTTCTTTTCAAAGCCCACAAGTAAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * *
3209 TTGAAAGCCCACAAGTAAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * *
3265 TTCAAAACCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * *
3321 ATGAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
** * * * * * *
3377 TTTGAAGACCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * *
3433 TTCGAAA-ACCACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCATCCT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * *
3489 TTCAAAGCCTACAAGTCAGTGGCAT-CTCTTCAAAAGCACATAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCATC-T
* * * * *
3546 TTCAAAACCCACAAGTCAGTGGCACCCTATT-AAAGCCCACAGGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * * * *
3602 TTTAAAGCCCACACGTTAGTGGCATCCTTTGAAAACCCACAGGTTAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
** * * * * *
3657 CTTCAAAAGAACACAAGTTAGTGGCAT-CTCTTCAAAAGACCATAAGTCAGTGGTATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCAT-CT
* * * * *
3716 TTCAAAACCCACAAGTTAGTGGCAT-CTTATCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCA-TCT
* *
3772 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * *
3828 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAACTCACAAGTTAGTGGTATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * * * *
3884 TACAAAGCGCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * * * * * *
3939 CTTCAAAAACCCATAAGTTAGTGGCATCTTTTCAAAGCCCATAAATGAATGGCACCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * *
3997 TTCAAAGCCCACAAGTTAGTGACATCTTTTCAAAACCCACAA-TTCAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTT-AGTGGCATCT
* * *
4052 CTTCAAAAGACCACAAGTCAGTGGCATCGC-TTCAAAAGACCACAGGTTAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATC-CTTTC-AAAGCCCACAAGTTAGTGGCAT-CT
* * * * * *
4111 TTTAAAGCTCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACGCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * *
4167 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTGAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * *
4223 TTCAAAGCCCATAAGTCTA-TGGCAT-CTCTTCAAAAAG-CCAAAAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTC-AGTGGCATCCT-TTC--AAAGCCCACAAGTTAGTGGCATC-T
* * *
4280 TTCAAAGCCCACAAGTCAGTGGCACCCTTT-AAAACCTACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* *
4335 TTCAAAGCCCACAAGTCAGTGACAT-CTCTTCGAAAGACCACAAGTTAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTTAGTGGCA--TCT
* * * * * * * *
4393 TTAAAAGCCCACAAGT-AATGGTAACTTTTCAAAACCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * ** *
4448 TTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAGTAACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * *
4504 TTCAAAGCCCACAAGTTAGTGGTATCCTTTTAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-T
* * * * *
4560 TTAAAAGGCCACAAGTTAGTGGCA-CCTTTTCAATGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * * * *
4616 TTGAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
* * ** * *
4671 CTTCAAAAGCCTAGAAGTCAGTGGCATATTTTCAAAGCCCATAAGTCAGTGGCA-CATT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC--T
** * *
4729 TTCAAAGCTTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
4784 CTTCAAAAGACCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATATT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAT-CT
* *
4842 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTTAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* *
4898 TTTAAAGCCCACAAGTCA-TCGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGT-GGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * * * * *
4954 TTCAAAGCCCACAAGTTAATGGCATACCATTTCAAAGCTTACACAAATCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CC-TTTCAAAGC--CCACAAGTTAGTGGCA-TCT
* * * * * * * * *
5014 TCCAAAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCTACAAGTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-TCT
5070 TTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACA
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACA
5113 CAAGTCGATG
Statistics
Matches: 4134, Mismatches: 678, Indels: 442
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.00
47 2 0.00
48 5 0.00
49 15 0.00
50 10 0.00
51 1 0.00
52 8 0.00
53 43 0.01
54 165 0.04
55 342 0.08
56 2261 0.55
57 907 0.22
58 289 0.07
59 44 0.01
60 41 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (55 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCT
Found at i:705 original size:29 final size:30
Alignment explanation
Indices: 160--5112 Score: 565
Period size: 28 Copynumber: 175.5 Consensus size: 30
150 TCAGTGGCAT
* **
160 CCTTTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
188 -CTTATCAAAGCCCACAAGTCAGTG--GCAC
1 CCTT-TCAAAGCCCACAAGTTAGTGAAATAC
**
216 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
244 CCTTTCAAAGCCCACAAGTCAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
273 CATTT-AAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * *
300 CCTTTCAAAACTCACAAGTGAGTG--GTAT
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
328 CCTTTCAAAGCCCACAGGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * ** * **
356 CTTTTCAAAACAAACAAGTCAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * *
385 TC-TTCAAAAGCCCACAAGTCAGTCG---TAT
1 CCTTTC-AAAGCCCACAAGTTAGT-GAAATAC
* * * **
413 CTTTTCAAAGCCCATAA--AAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
439 CCTTTCAAAACCCACAAGTTAGTGACAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
467 CTTTTCAAAACCTACAAGTTAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
496 TC-TTCAAAAGACCACAAGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * ** *
524 CTTTTCAAAAGACCA-TAGTTAGTGGCAT-T
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
553 TC-TTCAAAAGACCACAGGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* **
581 CCTTTCAAAGGCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
609 -CTTTC-AAGCCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
635 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
663 CCTTTCAAAACCCATAAGTTAGT-AAATAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
692 CCTTTCAAAGCCCACAAGTCAATGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * **
721 TCTTTAAAAAACCCACAAGTTAATG--GCAC
1 CCTTT-CAAAGCCCACAAGTTAGTGAAATAC
* * * *
750 CTTTTTAAAGCCCACAAGTCAGTG--ACAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
778 CCTCATTCAAAGCCTACAAGTTAGTGGCAT--
1 CCT--TTCAAAGCCCACAAGTTAGTGAAATAC
* **
808 CC-TTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
835 -CTGTTCAAAAGACCACAAGTTAGTGGCAT-C
1 CCT-TTC-AAAGCCCACAAGTTAGTGAAATAC
* * *
865 TCTTTAAAAGCCCACAAG-TAATGGCAAAT--
1 CCTTTCAAAGCCCACAAGTTAGT-G-AAATAC
* * **
894 --TTTCAAAACCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
920 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
*
948 CCTTTTAAAGCCCACAAGTTAGT--AATAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * *
976 CCTTTCAAAGCCTACAAGGTTAGTG--GTAT
1 CCTTTCAAAGCCCACAA-GTTAGTGAAATAC
* **
1005 CCTTTTAAAGCCCACAA-TTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTT-AGTGAAATAC
* *
1033 CCTTTCAAAGCCCACAAGTCAGTG--CTAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
1061 CTTTTTAAAGCCCATAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1089 CCTTTCAAAGCCCAC-AGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
1116 CCTTTCAAAGCTCACAAGTCAATGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
1144 -CTCTCAAAAACCCAC-AGTCA-TGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
1170 CTTTTCAAAGCCTACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
1198 CCTTT-AAAGCCTACAAGTTAGAGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
1225 CCTTTC-AAG-CCACAAGTCAGTGACAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
1251 CTTTTCAAAGCCCACAAGTCA-TG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
1278 TCTTTCAAAGCCCACAAGTTTAGTGGCATGTCAGGTAGCAC
1 CCTTTCAAAGCCCACAAG-TTAGT-G-A----A---A-TAC
* **
1319 CCTTTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
1347 CCTTTCAAAGCCCACAAGTCAATGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
1376 TC-TTCAAAGCTCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * *
1403 -TTTTCCAAAGCCCACAAGTCAATG--GTAC
1 CCTTT-CAAAGCCCACAAGTTAGTGAAATAC
* **
1431 CCTTTTTAAAGCCCACAAGTTAGTGGCAT--
1 CC-TTTCAAAGCCCACAAGTTAGTGAAATAC
* ** *
1460 CCTTTCAAAGCCCACAAGTTAATG-GCT-T
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * **
1488 CTTTTCCAAGCCCAAAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1516 CCTTTCAAAGCCCACAAGTAAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1544 CCTTTCAAAG-CCATAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1571 CCTTTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
1599 CTTTTCAAAGCCCACAAGTCAGT--AGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1627 TCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
1655 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * ** * **
1683 CTTTTCGAATACCACAAGTAAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
1711 CCTTTCAAAGCCTACAAGTCAGGGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1739 CCTTTCAAAGCCCACAAGTAAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
1768 TC-TTCAAAAGCCCACAAGTCAGTGGCAT-C
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
1797 TC-TTCAAAAGCCTACAAGTCAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
1825 CATTTCAAAGCCCACAAGTCAGCG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
1853 CCTTTTAAGGCGCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
1881 CTTTTCAAATCACACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
** * **
1909 -CTATTCAAAAGAAACACAAGTCAGTGGCAT-C
1 CCT-TTC-AAAG-CCCACAAGTTAGTGAAATAC
* ** * **
1940 TC-TTCAAAAGACCC-TGAGTCAGTGGCAT--
1 CCTTTC-AAAG-CCCACAAGTTAGTGAAATAC
**
1968 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
1996 -CTTATCAAAGCCCACAAGTCAGTG--GCAC
1 CCTT-TCAAAGCCCACAAGTTAGTGAAATAC
**
2024 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2052 CCTTTCAAAGCCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2080 CCTTTTAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * *
2108 CCTTTCAAAACTCACAAGTGAGTG--GTAT
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2136 CCTTTCAAAGCCCACAGGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * ** * *
2164 CTTTTCAAAACAAACAAGTCAGT-AGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGA-AATAC
* * *
2192 CTTTTCAAAAGCCCACAAGTCAGTCG---TAT
1 CCTTTC-AAAGCCCACAAGTTAGT-GAAATAC
* * * * **
2221 CTTTTCAAAGCCCATAAATGAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
2249 CCTTTCAAAACCCACAAGTTAGTGACAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
2277 CTTTTCAAAACCCACAAGTTAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
2306 TC-TTCAAAAGACTACAAGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * ** *
2334 CTTTTCAAATGACCACAAGTCAGTGGCAT-T
1 CCTTTCAAA-GCCCACAAGTTAGTGAAATAC
* * * **
2364 TC-TTCAAAAGACCACAGGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
**
2392 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
2420 CTTTTCAAAGCCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
2448 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
*
2476 CCTTTCAAAGCCCATAAGTTAGT--AATAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
2504 CCTTTTAAAGCCCACAAGTCAATGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * * **
2533 TCTTTAAAAACCCACAAGTCAATG--GCA-
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * *
2560 CCTTTTAAAGCCCACAAGTCAGTG--ACAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2588 CCTTT-AAAGCCTACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2615 CCTTTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2643 -CTGTTCAAAAGACCACAAGTTAGTGGCAT-C
1 CCT-TTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
2673 TCTTTAAAAGCCCACAAG-TAATGGCA-A-
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * **
2700 CTTTTCAAAACCCATAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
2728 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
2756 CCTTTTAAAGCCCATAAGTTAGT--AATAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * *
2784 CCTTTCAAAGCCTACAAGTTAGTG--GTAT
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
2812 CCTTTTAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
2840 CCTTTCAAAGCCCACAAGTCAGTG--GTAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * **
2868 CTTTTTAATGCCCATAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
2896 CCTTTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
2924 CCTTTCAAAGCTCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
2952 -CTATTCAAAAGCCCACAAGTTAGTGGCAT--
1 CCT-TTC-AAAGCCCACAAGTTAGTGAAATAC
* * *
2981 CCTTTCAAAGCCCACAGGTCAGTG--ACAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
** * *
3009 ATTTTCAAAGCCTACAAGTTAGT-AGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGA-AATAC
* * *
3037 CCTTTCAAAGCCTACAAGTCAGTTG-CAT-C
1 CCTTTCAAAGCCCACAAGTTAG-TGAAATAC
* * **
3066 TC-TTCAAAAGCTCACAAGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* *
3094 -TTTTCCAAAGCCCACAAGTTAGTG--GTAC
1 CCTTT-CAAAGCCCACAAGTTAGTGAAATAC
* * **
3122 CCTTTTAAATCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* ** *
3150 CCTTTCAAAGCCCACAAGTTAATG-GCT-T
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3178 CTTTTCAAAGCCCACAAGTAAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3206 CCTTTGAAAGCCCACAAGTAAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
3234 CCTTTTAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3262 CCTTTCAAAACCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3290 CTTTTCAAAGCCCACAAGTCAGT--AGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
3318 TCTATGAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
3346 CCTTTCAAAGCCCACAAGTCAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* ** * **
3374 CTTTTTGAAGACCACAAGTTAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * *
3402 CCTTTCAAAGCCCACAAGTCAATGACAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3430 CTTTTCGAAA-ACCACAAGTTAGTG--GCAC
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* **
3458 CCTTTCAAAGCCTACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3486 CCTTTCAAAGCCTACAAGTCAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
3515 TC-TTCAAAAGCACATAAGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
3543 CTTTTCAAAACCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3571 CCTATT-AAAGCCCACAGGTCAGTG--GCAC
1 CCT-TTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3599 CCTTTTAAAGCCCACACGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
3627 CCTTTGAAAACCCACAGGTTAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* ** **
3656 TC-TTCAAAAGAACACAAGTTAGTGGCAT-C
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * * * *
3685 TC-TTCAAAAGACCATAAGTCAGTG--GTAT
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* **
3713 CCTTTCAAAACCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
3741 -CTTATCAAAGCCCATAAGTCAGTG--GCAC
1 CCTT-TCAAAGCCCACAAGTTAGTGAAATAC
**
3769 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
3797 CCTTTCAAAGCCCACAAGTTAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
3825 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * *
3853 CCTTTCAAAACTCACAAGTTAGTG--GTAT
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
3881 CATTACAAAGCGCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * ** *
3909 CTTTTCAAAGCCCACAAGTCAGTGGCAT-T
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
3938 TC-TTCAAAAACCCATAAGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * * * **
3966 CTTTTCAAAGCCCATAAATGAATG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
*
3994 CCTTTCAAAGCCCACAAGTTAGTGACAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4022 CTTTTCAAAACCCACAA-TTCAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTT-AGTGAAATAC
* * * **
4051 TC-TTCAAAAGACCACAAGTCAGTGGCAT-C
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
4080 GC-TTCAAAAGACCACAGGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * **
4108 CCTTTTAAAGCTCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4136 CTTTTCAAAGCCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
4164 GCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4192 CCTTTCAAAGCCCATAAGTGAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
4220 CCTTTCAAAGCCCATAAGTCTA-TGGCAT-C
1 CCTTTCAAAGCCCACAAGT-TAGTGAAATAC
* * * * **
4249 TC-TTCAAAAAG-CCAAAAGTCAATGGCAT--
1 CCTTTC--AAAGCCCACAAGTTAGTGAAATAC
* * **
4277 CTTTTCAAAGCCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4305 CCTTT-AAAACCTACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
4332 CCTTTCAAAGCCCACAAGTCAGTGACAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4361 TC-TTCGAAAGACCACAAGTTAGTGGCAT-C
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * * *
4390 TCTTTAAAAGCCCACAAG-TAATG--GTAA
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
4417 CTTTTCAAAACCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
**
4445 CCTTTCAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
4473 CCTTTTAAAGCCCACAAGTTAGT--AACAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* *
4501 CCTTTCAAAGCCCACAAGTTAGTG--GTAT
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
4529 CCTTTTAAAGCCCACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
4557 CTTTTAAAAGGCCACAAGTTAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
4585 CTTTTCAATGCCCATAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4613 CCTTTGAAAGCCCATAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4641 CCTTTCAAAGCTCACAAGTCAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * **
4670 TC-TTCAAAAGCCTAGAAGTCAGTGGCATA-
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* * * **
4699 -TTTTCAAAGCCCATAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
** ** **
4726 ATTTTCAAAGCTTACAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
4754 CCTTTCAAAGCCCACAAGTCAGTGGCAT-C
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4783 TC-TTCAAAAGACCACAAGTTAGTGGCAT--
1 CCTTTC-AAAGCCCACAAGTTAGTGAAATAC
* **
4811 CCTTTTAAAGCCCACAAGTTAGTGGCATA-
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * **
4840 -TTTTCAAAGCCCACAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
4867 CCTTTCAAAGCCCATAAGTTAGTGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * **
4895 TCTTTTAAAGCCCACAAGTCA-TCGGCAT--
1 CCTTTCAAAGCCCACAAGTTAGT-GAAATAC
**
4923 CCTTTCAAAGCCCACAAGTTAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* **
4951 CCTTTCAAAGCCCACAAGTTAATGGCATAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * * * **
4981 CATTTCAAAGCTTACACAAATCAATG--GCAC
1 CCTTTCAAAGC--CCACAAGTTAGTGAAATAC
* * * **
5011 CCTTCCAAAGCCCATAAGTCAGTG--GCAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * * *
5039 CCTTTTAAAGCCTACAAGTCAGTG--GTAC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
* * ** *
5067 CCCTTCAAAGCCCACAAGTCAGTGGCATCC
1 CCTTTCAAAGCCCACAAGTTAGTGAAATAC
5097 CCTTTCAAAGCCCACA
1 CCTTTCAAAGCCCACA
5113 CAAGTCGATG
Statistics
Matches: 3855, Mismatches: 745, Indels: 648
0.73 0.14 0.12
Matches are distributed among these distances:
25 1 0.00
26 85 0.02
27 295 0.08
28 2623 0.68
29 668 0.17
30 140 0.04
31 6 0.00
32 12 0.00
39 1 0.00
40 4 0.00
41 20 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (30 bp):
CCTTTCAAAGCCCACAAGTTAGTGAAATAC
Found at i:1351 original size:28 final size:28
Alignment explanation
Indices: 1319--5112 Score: 3860
Period size: 28 Copynumber: 134.6 Consensus size: 28
1309 CAGGTAGCAC
*
1319 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
1347 CCTTTCAAAGCCCACAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1375 -CTCTTCAAAGCTCACAAGTTAGTGGCAT
1 CCT-TTCAAAGCCCACAAGTTAGTGGCAT
* * * * *
1403 -TTTTCCAAAGCCCACAAGTCAATGGTAC
1 CCTTT-CAAAGCCCACAAGTTAGTGGCAT
*
1431 CCTTTTTAAAGCCCACAAGTTAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTTAGTGGCAT
* *
1460 CCTTTCAAAGCCCACAAGTTAATGGCTT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * * *
1488 CTTTTCCAAGCCCAAAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1516 CCTTTCAAAGCCCACAAGTAAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1544 CCTTTCAAAG-CCATAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1571 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
1599 CTTTTCAAAGCCCACAAGTCAGTAGCA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1626 CTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
1655 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * ** * *
1683 CTTTTCGAATACCACAAGTAAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
1711 CCTTTCAAAGCCTACAAGTCAGGGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1739 CCTTTCAAAGCCCACAAGTAAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1767 -CTCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* *
1796 -CTCTTCAAAAGCCTACAAGTCAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * * *
1825 CATTTCAAAGCCCACAAGTCAGCGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
1853 CCTTTTAAGGCGCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
1881 CTTTTCAAATCACACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
** *
1909 -CTATTCAAAAGAAACACAAGTCAGTGGCAT
1 CCT-TTC-AAAG-CCCACAAGTTAGTGGCAT
** *
1939 -CTCTTCAAAAGACCC-TGAGTCAGTGGCAT
1 CCT-TTC-AAAG-CCCACAAGTTAGTGGCAT
1968 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
1996 -CTTATCAAAGCCCACAAGTCAGTGGCAC
1 CCTT-TCAAAGCCCACAAGTTAGTGGCAT
2024 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2052 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
2080 CCTTTTAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
2108 CCTTTCAAAACTCACAAGTGAGTGGTAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
2136 CCTTTCAAAGCCCACAGGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * ** * *
2164 CTTTTCAAAACAAACAAGTCAGTAGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
2192 CTTTTCAAAAGCCCACAAGTCAGTCGTAT
1 CCTTTC-AAAGCCCACAAGTTAGTGGCAT
* * * * *
2221 CTTTTCAAAGCCCATAAATGAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2249 CCTTTCAAAACCCACAAGTTAGTGACAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2277 CTTTTCAAAACCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2305 -CTCTTCAAAAGACTACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * *
2334 CTTTTCAAATGACCACAAGTCAGTGGCAT
1 CCTTTCAAA-GCCCACAAGTTAGTGGCAT
* * *
2363 -TTCTTCAAAAGACCACAGGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
2392 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
2420 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
2448 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *** *
2476 CCTTTCAAAGCCCATAAGTTAGTAATAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
2504 CCTTTTAAAGCCCACAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
2532 CTCTTTAAAAACCCACAAGTCAATGGCA-
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
2560 CCTTTTAAAGCCCACAAGTCAGTGACAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
2588 CCTTT-AAAGCCTACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
2615 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
2643 -CTGTTCAAAAGACCACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * *
2672 CTCTTTAAAAGCCCACAAG-TAATGGCAA
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
2700 CTTTTCAAAACCCATAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
2728 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *** *
2756 CCTTTTAAAGCCCATAAGTTAGTAATAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2784 CCTTTCAAAGCCTACAAGTTAGTGGTAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2812 CCTTTTAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2840 CCTTTCAAAGCCCACAAGTCAGTGGTA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
2867 CCTTTTTAATGCCCATAAGTTAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTTAGTGGCAT
*
2896 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
2924 CCTTTCAAAGCTCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
2952 -CTATTCAAAAGCCCACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * *
2981 CCTTTCAAAGCCCACAGGTCAGTGACA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3008 CATTTTCAAAGCCTACAAGTTAGTAGCAT
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3037 CCTTTCAAAGCCTACAAGTCAGTTGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
3065 -CTCTTCAAAAGCTCACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * *
3094 -TTTTCCAAAGCCCACAAGTTAGTGGTAC
1 CCTTT-CAAAGCCCACAAGTTAGTGGCAT
* *
3122 CCTTTTAAATCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3150 CCTTTCAAAGCCCACAAGTTAATGGCTT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3178 CTTTTCAAAGCCCACAAGTAAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3206 CCTTTGAAAGCCCACAAGTAAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
3234 CCTTTTAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3262 CCTTTCAAAACCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3290 CTTTTCAAAGCCCACAAGTCAGTAGCA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3317 CTCTATGAAAGCCCACAAGTTAGTGGCAT
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
*
3346 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* ** * *
3374 CTTTTTGAAGACCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3402 CCTTTCAAAGCCCACAAGTCAATGACAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3430 CTTTTCGAAA-ACCACAAGTTAGTGGCAC
1 CCTTTC-AAAGCCCACAAGTTAGTGGCAT
*
3458 CCTTTCAAAGCCTACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3486 CCTTTCAAAGCCTACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3514 -CTCTTCAAAAGCACATAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * * *
3543 CTTTTCAAAACCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3571 CCTATT-AAAGCCCACAGGTCAGTGGCAC
1 CCT-TTCAAAGCCCACAAGTTAGTGGCAT
* *
3599 CCTTTTAAAGCCCACACGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3627 CCTTTGAAAACCCACAGGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
**
3655 -CTCTTCAAAAGAACACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * * *
3684 -CTCTTCAAAAGACCATAAGTCAGTGGTAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
*
3713 CCTTTCAAAACCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3741 -CTTATCAAAGCCCATAAGTCAGTGGCAC
1 CCTT-TCAAAGCCCACAAGTTAGTGGCAT
3769 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
3797 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
3825 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3853 CCTTTCAAAACTCACAAGTTAGTGGTAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3881 CATTACAAAGCGCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
3909 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
3937 -TTCTTCAAAAACCCATAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * * * * *
3966 CTTTTCAAAGCCCATAAATGAATGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
3994 CCTTTCAAAGCCCACAAGTTAGTGACAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4022 CTTTTCAAAACCCACAA-TTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTT-AGTGGCAT
* *
4050 -CTCTTCAAAAGACCACAAGTCAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* *
4079 CGC-TTCAAAAGACCACAGGTTAGTGGCAT
1 C-CTTTC-AAAGCCCACAAGTTAGTGGCAT
* *
4108 CCTTTTAAAGCTCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4136 CTTTTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
4163 CGCTTTCAAAGCCCACAAGTTAGTGGCAT
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4192 CCTTTCAAAGCCCATAAGTGAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4220 CCTTTCAAAGCCCATAAGTCTA-TGGCAT
1 CCTTTCAAAGCCCACAAGT-TAGTGGCAT
* * *
4248 -CTCTTCAAAAAG-CCAAAAGTCAATGGCAT
1 CCT-TTC--AAAGCCCACAAGTTAGTGGCAT
* * *
4277 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4305 CCTTT-AAAACCTACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4332 CCTTTCAAAGCCCACAAGTCAGTGACAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4360 -CTCTTCGAAAGACCACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
* * * *
4389 CTCTTTAAAAGCCCACAAG-TAATGGTAA
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
4417 CTTTTCAAAACCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
4445 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* ** *
4473 CCTTTTAAAGCCCACAAGTTAGTAACAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4501 CCTTTCAAAGCCCACAAGTTAGTGGTAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4529 CCTTTTAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4557 CTTTTAAAAGGCCACAAGTTAGTGGCA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4584 CCTTTTCAATGCCCATAAGTTAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTTAGTGGCAT
* *
4613 CCTTTGAAAGCCCATAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4641 CCTTTCAAAGCTCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4669 -CTCTTCAAAAGCCTAGAAGTCAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
** * *
4698 ATTTTCAAAGCCCATAAGTCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* **
4725 CATTTTCAAAGCTTACAAGTTAGTGGCAT
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
*
4754 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4782 -CTCTTCAAAAGACCACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTTAGTGGCAT
*
4811 CCTTTTAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
** * *
4839 ATTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4867 CCTTTCAAAGCCCATAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4895 TCTTTTAAAGCCCACAAGTCA-TCGGCAT
1 CCTTTCAAAGCCCACAAGTTAGT-GGCAT
*
4923 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
4951 CCTTTCAAAGCCCACAAGTTAATGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * * *
4979 ACCATTTCAAAGCTTACACAAATCAATGGCAC
1 -CC-TTTCAAAGC--CCACAAGTTAGTGGCAT
* * * *
5011 CCTTCCAAAGCCCATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * * *
5039 CCTTTTAAAGCCTACAAGTCAGTGGTAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
5067 CCCTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
5095 CCCCTTTCAAAGCCCACA
1 --CCTTTCAAAGCCCACA
5113 CAAGTCGATG
Statistics
Matches: 3155, Mismatches: 510, Indels: 200
0.82 0.13 0.05
Matches are distributed among these distances:
27 177 0.06
28 2344 0.74
29 523 0.17
30 91 0.03
31 7 0.00
32 13 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTTAGTGGCAT
Found at i:5297 original size:25 final size:25
Alignment explanation
Indices: 5269--5343 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
5259 ATTAGCTCAA
5269 TGTCGCTAGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
* * * *
5294 TGTC-C-A-CCTT-TATTAGCTCAA
1 TGTCGCTAGCCTTGAATCAGCACAT
*
5315 TGTCGCTGGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
5340 TGTC
1 TGTC
5344 CACTTTTCCC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
23 1 0.03
24 5 0.14
25 15 0.41
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (25 bp):
TGTCGCTAGCCTTGAATCAGCACAT
Found at i:5313 original size:46 final size:47
Alignment explanation
Indices: 5226--5437 Score: 268
Period size: 48 Copynumber: 4.5 Consensus size: 47
5216 AAGTCCGATA
* * *
5226 TCGCTGGCATTGAATCAGCATATTG-GCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTTCATTAGCTCAATG
*
5271 TCGCTAGCCTTGAATCAGCACATTGTCCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTTCATTAGCTCAATG
* *
5317 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTT-CATTAGCTCAATG
* * * *
5365 TCGCTGGCCTTGAATCAGCACATTGTCAACTTTTCCCTTAGCTCGATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTT-CATTAGCTCAATG
* **
5413 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
5438 GCACTCTTCT
Statistics
Matches: 152, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.14
46 51 0.34
48 79 0.52
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACCTTTCATTAGCTCAATG
Found at i:5318 original size:21 final size:22
Alignment explanation
Indices: 5251--5320 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
5241 CAGCATATTG
5251 GCACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
* * * *
5273 GCTAGCCTTGAATCAGCACATTGTC
1 GC-A-CCTT-TATTAGCTCAATGTC
5298 -CACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
5319 GC
1 GC
5321 TGGCCTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 11 0.31
22 7 0.19
23 2 0.06
24 5 0.14
25 11 0.31
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (22 bp):
GCACCTTTATTAGCTCAATGTC
Found at i:5384 original size:94 final size:92
Alignment explanation
Indices: 5226--5437 Score: 264
Period size: 94 Copynumber: 2.3 Consensus size: 92
5216 AAGTCCGATA
* * *
5226 TCGCTGGCATTGAATCAGCATATTGGCACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCA
1 TCGCTGGCCTTGAATCAGCACATTGCCACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCA
*
5291 CATTGTCCACCTTT-ATTAGCTCAATG
66 CATTGTCAACCTTTCATTAGCTCAATG
* * *
5317 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCACATTG-CCACCTTT--ATTAGCTCAATGTCGCTAGCCTTGAATCA
* * *
5382 GCACATTGTCAACTTTTCCCTTAGCTCGATG
63 GCACATTGTCAACCTTT-CATTAGCTCAATG
* **
5413 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
5438 GCACTCTTCT
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
91 23 0.22
92 6 0.06
94 42 0.41
96 32 0.31
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (92 bp):
TCGCTGGCCTTGAATCAGCACATTGCCACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCA
CATTGTCAACCTTTCATTAGCTCAATG
Found at i:6161 original size:20 final size:19
Alignment explanation
Indices: 6136--6300 Score: 132
Period size: 20 Copynumber: 7.7 Consensus size: 19
6126 TTTTACCCAG
6136 ATGTATCGATACAGTTTTCA
1 ATGTATCGATACA-TTTTCA
* *
6156 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
6176 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
6196 ATGTATCGATACATTCTATTTTTTTACCCA
1 ATGTATCGAT--A--C-A---TTTT---CA
6226 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACA-TTTTCA
* *
6247 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
6267 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTTTCA
6287 ATGTATCGATACAT
1 ATGTATCGATACAT
6301 CTAGTTAAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 33
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.03
20 87 0.72
21 3 0.02
22 1 0.01
24 6 0.05
25 1 0.01
26 1 0.01
27 3 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 10 0.08
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:6280 original size:91 final size:91
Alignment explanation
Indices: 6125--6300 Score: 334
Period size: 91 Copynumber: 1.9 Consensus size: 91
6115 AAAAGTCACA
6125 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
6190 TCTTCAATGTATCGATACATTCTATT
66 TCTTCAATGTATCGATACATTCTATT
*
6216 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
6281 TTTTCAATGTATCGATACAT
66 TCTTCAATGTATCGATACAT
6301 CTAGTTAAAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATGTATCGATACATTCTATT
Found at i:11120 original size:41 final size:41
Alignment explanation
Indices: 11061--11142 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
11051 CAAAGACAAT
* *
11061 GGAAATCAATTGGAGTAACTTTACA-AGTGATGGTATTTGAA
1 GGAAATCAATTGAAGTAACTTTACATA-TGATAGTATTTGAA
11102 GGAAATCAATT-AACGTAACTTTACATATGATAGTATTTGAA
1 GGAAATCAATTGAA-GTAACTTTACATATGATAGTATTTGAA
11143 TATCATTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 1 0.03
41 35 0.95
42 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (41 bp):
GGAAATCAATTGAAGTAACTTTACATATGATAGTATTTGAA
Found at i:14876 original size:15 final size:15
Alignment explanation
Indices: 14856--14886 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14846 TTTTGTCAAA
14856 TCAAGTAAGATTGTG
1 TCAAGTAAGATTGTG
14871 TCAAGTAAGATTGTG
1 TCAAGTAAGATTGTG
14886 T
1 T
14887 ACGAATTATT
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:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (15 bp):
TCAAGTAAGATTGTG
Found at i:21517 original size:28 final size:27
Alignment explanation
Indices: 21462--21532 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
21452 GCCACCCATT
21462 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
21489 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
21517 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
21533 AGGCTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:32715 original size:27 final size:27
Alignment explanation
Indices: 32673--32778 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
32663 TGGCATTCCT
* * *
32673 TTTTAAGTCCATAACTCCATGGCAACC
1 TTTTAAATCCACAACTCCGTGGCAACC
32700 TTTTAAATCCACAACTCCGTGGCAACC
1 TTTTAAATCCACAACTCCGTGGCAACC
*
32727 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAATCCACAACTCCGTGGCAACC
* *
32754 TTATAAAGACCACAACTCCGTGGCA
1 TTTTAAA-TCCACAACTCCGTGGCA
32779 GCCCTTTCTA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 55 0.77
28 16 0.23
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (27 bp):
TTTTAAATCCACAACTCCGTGGCAACC
Found at i:32732 original size:54 final size:55
Alignment explanation
Indices: 32673--32778 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 55
32663 TGGCATTCCT
* * *
32673 TTTTAAGTCCATAACTCCATGGCAACCTTTTAAA-TCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCATGGCAACCTTATAAAGACCACAACTCCGTGGCAACC
*
32727 TTTTAAGTCCACAACTCCGTGGCAACCTTATAAAGACCACAACTCCGTGGCA
1 TTTTAAGTCCACAACTCCATGGCAACCTTATAAAGACCACAACTCCGTGGCA
32779 GCCCTTTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 31 0.66
55 16 0.34
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (55 bp):
TTTTAAGTCCACAACTCCATGGCAACCTTATAAAGACCACAACTCCGTGGCAACC
Found at i:32775 original size:28 final size:27
Alignment explanation
Indices: 32685--32798 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
32675 TTAAGTCCAT
* *
32685 AACTCCATGGCAACCTTTTAAA-TCCAC
1 AACTCCGTGGCAACC-TTTAAAGACCAC
* *
32712 AACTCCGTGGCAACCTTTTAAGTCCAC
1 AACTCCGTGGCAACCTTTAAAGACCAC
32739 AACTCCGTGGCAACCTTATAAAGACCAC
1 AACTCCGTGGCAACCTT-TAAAGACCAC
*
32767 AACTCCGTGGCAGCCCTTTCTAAAGACCAC
1 AACTCCGTGGCA-ACC-TT-TAAAGACCAC
32797 AA
1 AA
32799 GTCAAAGGCA
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 5 0.06
27 36 0.47
28 20 0.26
29 2 0.03
30 14 0.18
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (27 bp):
AACTCCGTGGCAACCTTTAAAGACCAC
Found at i:32828 original size:28 final size:28
Alignment explanation
Indices: 32708--33089 Score: 371
Period size: 28 Copynumber: 13.6 Consensus size: 28
32698 CCTTTTAAAT
* * * * *
32708 CCACAACTCCGTGGCAACCTTT-TAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
32735 CCACAACTCCGTGGCAACCTTAT-AAAGA
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* * * *
32763 CCACAACTCCGTGGCAGCCCTTTCTAAAGA
1 CCACAAGTCAGTGGCA-TCCTTTC-AAAGC
**
32793 CCACAAGTCAAAGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
32821 CCACAAGTCAG-GGACA-CCTTTTCAAAGC
1 CCACAAGTCAGTGG-CATCC-TTTCAAAGC
* * * *
32849 CCAAAAGTCAGTGACACCCATTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
**
32877 CCACAAGTTGGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
32905 CCACAAATCAGTGGCATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
32933 CCACAAGTTAGTGGCATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
32961 CCACAAGTCAGTGGCACCCTTTTAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
32989 TCACAAGTTC-GTGCCATCCTTTCAAAGC
1 CCACAAG-TCAGTGGCATCCTTTCAAAGC
* *
33017 CCACAAGTCAGTGACATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
33045 CCACAAGTCAGTGGCA-CTCTTTCAAAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
*
33073 CCACAAGTTAGTGGCAT
1 CCACAAGTCAGTGGCAT
33090 GTATGTAGCA
Statistics
Matches: 304, Mismatches: 39, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.09
28 244 0.80
29 15 0.05
30 17 0.06
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:32858 original size:56 final size:56
Alignment explanation
Indices: 32805--36161 Score: 3496
Period size: 56 Copynumber: 59.4 Consensus size: 56
32795 ACAAGTCAAA
* * *
32805 GGCATCCTTTCAAAGCCCACAAGTCAG-GGACACCTTTTCAAAGCCCAAAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGG-CATCTTTTCAAAGCCCACAAGTTAGT
* * * ** * * *
32861 GACACCCATTCAAAGCCCACAAGTTGGTGGCATCCTTTCAAAGCCCACAAATCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
32917 GGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
32973 GGCACCCTTTTAAAGCTCACAAGTTC-GTGCCATCCTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAG-TCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* *
33029 GACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGCCCACAAGTTAGT
* *
33085 GGCATGTATGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGCTCACAAGTT
1 GGC----A--T-----CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTT
33150 AGT
54 AGT
* * *
33153 GGCAT-TTTTCCAAAGCCCACAAGTCAGTGGTACCCTTTT-AAAGCCCACAAGTTAGT
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTTAGT
* * * *
33209 GGCATCCTTTCAAAGCCCACAAGTTAATGGCTTCTTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
33265 GGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
*
33321 GGCATCCTTTCAAAGCCCACAAGTCAGTAGCA-CTCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGCCCACAAGTTAGT
* *
33377 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCGAAGACCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
33433 GGCACCCTTTCAAAGCCTACAAGTCACTGGCATCATTTCAAAGCTCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * *
33489 GGCATCTCTTTAAAAGCCCAAAAGTCAGTGGCATCTCTTCAAAAGCCCACAAGTCAGT
1 GGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGT
* * *
33547 GGCATCTTTTCAAAGCCCA-AAGTCAGCGGCA-CATTTTTAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTTAGT
*
33602 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTATCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
33658 GGCA-CCTTTTCAAAGCCCACAAGTTAATGGCATCCTTTCAAATCCCACAAGTCAGT
1 GGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
33714 GGCACCCTTTTAAAGCCCACAAGTTAGTGGCATCTTTTCAAAACTCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * ** *
33770 GGTATCCTTTCAAAGCCCAGAAGTTAGTGGCATTTTTTCAAAGCAAACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * *
33826 GGCAT-CTCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAACCCATAAATGAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
33883 AGCACCCATTCAAAAG-CCACAAGTTAGTGACATCTTTTCAAA-CCCATAAGTTAGT
1 GGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * *
33938 GGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGT
* * * *
33996 GGCATCCCTTCAAAAGACCACAGGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
34053 GGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
34109 GGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAAT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
34165 GGC-TTCTTCTCAAAGCTCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTAAGT
1 GGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* *
34221 GGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
34277 GACATCTTTTCAAAGCTCACAAGTCAGTAGCA-CTCTATCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGCCCACAAGTTAGT
* * * *
34333 GGCATCCTTTCAAAACCCACAAGTCAGTGGTATCTTTTCGAAGACCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
34389 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCGAAGACCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
34445 GGCACCCTTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCTACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
*
34501 GGCAT-CTCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
34558 GGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTTAGT
* * * * ** *
34614 GGCATCCTTTCAAAACCCACAGGTTAGTGGCATCTCTTCAAAAGAACA-AAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGT
* * * * * *
34670 GGCAT-CTCTTCAAAAGACCATAAGTTAGTGGCATCCTTTCAAAACCCACAAGTCAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
34727 GGAAT-CTTATCAAAGCCCATAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTTAGT
* * * *
34784 GGCATCCTTTCAAAGCCCACAAGTTAGTAGCACCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
34840 GGCATCCTTTCAAAACTCACAAGTCAGTGGTATCATTTCAAAGCGCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
34896 AGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAACCCATAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGT
* * * * * * *
34953 GGCATCTTTTCAAAGCCCATAAATGAATGGCACCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * * *
35009 GACATCTTTTCAAAACCCATAAGTCTGTGGCATCTCTTCAAAAGACCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGT
* * * *
35066 GGCAT-CTCTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * *
35123 GGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CGCTTTCAAAGCCCACAAGTTTGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTTAGT
* * *
35179 GGCATCCTTTCAAAGCCCATAAGTGAGT-GCATCCTTTCAAAGCCCACAAGTCTA-T
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGT-TAGT
* * * *
35234 GGCAT-CTCTTCAAAAAG-CCAAAAGTCAATGGCATCTTTTCAAAGCCCCCAAGTCAGT
1 GGCATCCT-TTC--AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
35291 GGCACCCTTT-AAAACCTACGAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
35346 GACAT-CTCTTCAAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAG-TAAT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGCCCACAAGTTAGT
* * * * * *
35403 GGCAACTTTTCAAAACCCGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * ** * *
35459 GGCATCCTTTTAAAGCCCACAAGTTAGTAACACCCTTTCAAAGCCCACAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
35515 GGTATCCTTTTAAAGCCCACAAGTCAGTGGCATCTTTTCAGAGGCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
35571 GGCA-CCTTTTCAATGCCCATAAGTTAGTGGCATCCTTTCAAAGCTCACAAGTTAGT
1 GGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * *
35627 GGCAT-CTCTTCAAAAGCCTACAAGTCTGTGGCATATTTTCAAAGCCCACAAGTCAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
35684 GGCA-CATTTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
1 GGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
35740 GGCAT-CTCTTCAAAAGACCACAAGTTAGTGGCATCTCTTCAAAAGACCACAAATCAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGT
* *
35798 GGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCATTCTTTT-AAAGCACACAAGTTAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTTAGT
* *
35855 GGCAT-ATCTTCAAAGCCCACAAGTCAGTGGCATATTTTCAAAGCCCACAAGTTAGT
1 GGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * * *
35911 GGCACCCTTTCAAAGCCCATAAGTTAGTGGCAT-TCTTTCAAAACCCACAAGTCAGC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGCCCACAAGTTAGT
* * * * *
35967 GGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAAT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
* * * * *
36023 GGCATACTCTTTCAAAGCCTACACAAATCAATGGCA-CTCTTCCAAAGCCCATAAGTCAGT
1 GGCAT-C-CTTTCAAAGCC--CACAAGTCAGTGGCATCT-TTTCAAAGCCCACAAGTTAGT
* * * * * * * *
36083 GGCACCCTTTTAAAGCCTACAAGTCAGTGGTACCTCTTCGAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
36139 GGCATCCCCTTTCAAAGCCCACA
1 GGCAT--CCTTTCAAAGCCCACA
36162 CAAGTCGGTG
Statistics
Matches: 2788, Mismatches: 415, Indels: 194
0.82 0.12 0.06
Matches are distributed among these distances:
54 8 0.00
55 178 0.06
56 1771 0.64
57 537 0.19
58 198 0.07
59 8 0.00
60 35 0.01
62 2 0.00
64 1 0.00
67 29 0.01
68 21 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (56 bp):
GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGT
Found at i:32895 original size:84 final size:84
Alignment explanation
Indices: 32708--36161 Score: 3158
Period size: 84 Copynumber: 40.7 Consensus size: 84
32698 CCTTTTAAAT
* * * * * * * * * *
32708 CCACAACTCCGTGGCAACCTTT-TAAGTCCACAACTCCGTGGCAACCTTAT-AAAGACCACAACT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGT
* *
32771 CCGTGGCAGCCCTTTCTAAAGA
65 CAGTGGCA-CCCTTTC-AAAGC
** *
32793 CCACAAGTCAAAGGCATCCTTTCAAAGCCCACAAGTCAG-GGACACCTTTTCAAAGCCCAAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG-CACCTTTTCAAAGCCCACAAGT
* *
32857 CAGTGACACCCATTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
** * * *
32877 CCACAAGTTGGTGGCATCCTTTCAAAGCCCACAAATCAGTGGCATCTTTTCAAAGCCCACAAGTT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* *
32942 AGTGGCATCTTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* * * *
32961 CCACAAGTCAGTGGCACCCTTTTAAAGCTCACAAGTTC-GTGCCATCC-TTTCAAAGCCCACAAG
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG-TCAGTGGCA-CCTTTTCAAAGCCCACAAG
* * *
33024 TCAGTGACATCTTTTCAAAGC
64 TCAGTGGCACCCTTTCAAAGC
*
33045 CCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATGTATGTAGCACCCTTTCAA
1 CCACAAGTCAGTGGCATC-CTTTCAAAGCCCAC-A---AGT--CA-G--TG--GCACCTTTTCAA
*
33109 AGCCCACAAGTCAGTGGCA-TCTCTTCAAAAGC
54 AGCCCACAAGTCAGTGGCACCCT-TTC-AAAGC
* * * *
33141 TCACAAGTTAGTGGCAT-TTTTCCAAAGCCCACAAGTCAGTGGTACCCTTTT-AAAGCCCACAAG
1 CCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAG
* *
33204 TTAGTGGCATCCTTTCAAAGC
64 TCAGTGGCACCCTTTCAAAGC
* * * * * *
33225 CCACAAGTTAATGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTA
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
*
33290 AGTGGCATCCTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* *
33309 CCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCA-CTCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGT
* *
33373 TAGTGGCATCCTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * * * * *
33393 CCACAAGTCAGTGGCATCTTTTCGAAGACCACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* * *
33458 ACTGGCATCATTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* * * * *
33477 TCACAAGTCAGTGGCATCTCTTTAAAAGCCCAAAAGTCAGTGGCATCTCTTCAAAAGCCCACAAG
1 CCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAG
* *
33542 TCAGTGGCATCTTTTCAAAGC
64 TCAGTGGCACCCTTTCAAAGC
* * * *
33563 CCA-AAGTCAGCGGCA-CATTTTTAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAG
1 CCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAG
*
33625 TCAGTGGCA-TCTTATCAAAGC
64 TCAGTGGCACCCTT-TCAAAGC
* * * *
33646 CCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAGTTAATGGCATCC-TTTCAAATCCCACAAG
1 CCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAG
*
33709 TCAGTGGCACCCTTTTAAAGC
64 TCAGTGGCACCCTTTCAAAGC
* * * * * * *
33730 CCACAAGTTAGTGGCATCTTTTCAAAACTCACAAGTTAGTGGTATCC-TTTCAAAGCCCAGAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
* ***
33794 TAGTGGCATTTTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
** * * * *
33814 AAACAAGTCAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAACCCATAAA
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* * *
33878 TGAGTAGCACCCATTCAAAAG-
64 TCAGTGGCACCCTTTC-AAAGC
* * * * * * * *
33899 CCACAAGTTAGTGACATCTTTTCAAA-CCCATAAGTTAGTGGCATCTCTTCAAAAGACCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGT
* *
33963 CAGTGGCA-TCTCTTCAAAAGA
65 CAGTGGCACCCT-TTC-AAAGC
* * * * *
33984 CCACAAGTCAGTGGCATCCCTTCAAAAGACCACAGGTTAGTGGCATCTTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
* * *
34049 TAGTGGCATCTTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * *
34069 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
*
34133 CAGTGGCATCCTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * * * * *
34153 CCACGAGTCAATGGC-TTCTTCTCAAAGCTCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
* *
34217 AAGTGGCATCCTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * * * *
34237 CCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGACATCTTTTCAAAGCTCACAAGTC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* * *
34302 AGTAGCACTCTATCAAAGC
66 AGTGGCACCCTTTCAAAGC
* * * * * * *
34321 CCACAAGTTAGTGGCATCCTTTCAAAACCCACAAGTCAGTGGTATCTTTTCGAAGACCACAAGTT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
34386 AGTGGCACCCTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* * * * * * *
34405 CCACAAGTCAGTGGCATCTTTTCGAAGACCACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
*
34470 AGTGGCATCCTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* *
34489 CTACAAGTCAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAG
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
*
34553 TCAGTGGCACCCTTTTAAAGC
64 TCAGTGGCACCCTTTCAAAGC
* * * * *
34574 CCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAACCCACAGGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
* * *
34638 TAGTGGCA-TCTCTTCAAAAGA
65 CAGTGGCACCCT-TTC-AAAGC
* * * * *
34659 ACA-AAGTCAGTGGCAT-CTCTTCAAAAGACCATAAGTTAGTGGCATCC-TTTCAAAACCCACAA
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAA
**
34721 GTCAGTGG-AATCTTATCAAAGC
63 GTCAGTGGCACCCTT-TCAAAGC
* *
34743 CCATAAGTCAGTGGCA-CCTTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAA
1 CCACAAGTCAGTGGCATCC--TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAA
* *
34806 GTTAGTAGCACCCTTTCAAAGC
63 GTCAGTGGCACCCTTTCAAAGC
* * * * * * * *
34828 CCACAAGTTAGTGGCATCCTTTCAAAACTCACAAGTCAGTGGTATCATTTCAAAGCGCACAAGTT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* * *
34893 AGTAGCATCTTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* * * * * *
34912 CCACAAGTCAGTGGCAT-CTCTTCAAAAACCCATAAGTTAGTGGCATCTTTTCAAAGCCCATAAA
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* *
34976 TGAATGGCACCCTTTCAAAGC
64 TCAGTGGCACCCTTTCAAAGC
* * * * * * * * *
34997 CCACAAGTTAGTGACATCTTTTCAAAACCCATAAGTCTGTGGCATCTCTTCAAAAGACCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGT
* * *
35062 TAGTGGCA-TCTCTTCAAAAGA
65 CAGTGGCACCCT-TTC-AAAGC
* * * *
35083 CCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
*
35148 AGTGGCACGCTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
** * *
35167 CCACAAGTTTGTGGCATCCTTTCAAAGCCCATAAGTGAGT-GCATCC-TTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
*
35230 CTA-TGGCA-TCTCTTCAAAAAG-
65 C-AGTGGCACCCT-TTC--AAAGC
* * * * * * * * *
35251 CCAAAAGTCAATGGCATCTTTTCAAAGCCCCCAAGTCAGTGGCACCCTTT-AAAACCTACGAGTT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* *
35315 AGTGGCATCTTTTCAAAGC
66 AGTGGCACCCTTTCAAAGC
* * * * *
35334 CCACAAGTCAGTGACAT-CTCTTCAAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAA
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAA
* * * *
35398 GT-AATGGCAACTTTTCAAAAC
63 GTCAGTGGCACCCTTTCAAAGC
* * *
35419 CCGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTT-AAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
* **
35483 TAGTAACACCCTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * * * * *
35503 CCACAAGTTAGTGGTATCCTTTTAAAGCCCACAAGTCAGTGGCATCTTTTCAGAGGCCACAAGTC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* *
35568 AGTGGCACCTTTTCAATGC
66 AGTGGCACCCTTTCAAAGC
* * * * * * *
35587 CCATAAGTTAGTGGCATCCTTTCAAAGCTCACAAGTTAGTGGCATCTCTTCAAAAGCCTACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGT
* ***
35652 CTGTGGCATATTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * *
35672 CCACAAGTCAGTGGCA-CATTTTCAAAGCCTACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAG
1 CCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAG
* *
35735 TCAGTGGCA-TCTCTTCAAAAGA
64 TCAGTGGCACCCT-TTC-AAAGC
* * * * * *
35757 CCACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAATCAGTGGCATCTCTTCAAAAGACCACAA
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAA
** *
35821 GTCAGTGGCATTCTTTTAAAGC
63 GTCAGTGGCACCCTTTCAAAGC
* * * **
35843 ACACAAGTTAGTGGCAT-ATCTTCAAAGCCCACAAGTCAGTGGCATATTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
*
35907 TAGTGGCACCCTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * * * *
35927 CCATAAGTTAGTGGCATTCTTTCAAAACCCACAAGTCAGCGGCATCC-TTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
*
35991 TAGTGGCACCCTTTCAAAGC
65 CAGTGGCACCCTTTCAAAGC
* * * * *
36011 CCACAAGTCAATGGCATACTCTTTCAAAGCCTACACAAATCAATGGCA-CTCTTCCAAAGCCCAT
1 CCACAAGTCAGTGGCAT-C-CTTTCAAAGCC--CACAAGTCAGTGGCACCT-TTTCAAAGCCCAC
*
36075 AAGTCAGTGGCACCCTTTTAAAGC
61 AAGTCAGTGGCACCCTTTCAAAGC
* * * *
36099 CTACAAGTCAGTGGTA-CCTCTTCGAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACA
1 CCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCAAAGCCCACA
36162 CAAGTCGGTG
Statistics
Matches: 2808, Mismatches: 443, Indels: 235
0.81 0.13 0.07
Matches are distributed among these distances:
82 9 0.00
83 140 0.05
84 1540 0.55
85 684 0.24
86 249 0.09
87 48 0.02
88 63 0.02
89 2 0.00
90 2 0.00
91 1 0.00
92 3 0.00
93 2 0.00
94 3 0.00
95 33 0.01
96 29 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
AGTGGCACCCTTTCAAAGC
Found at i:33176 original size:28 final size:28
Alignment explanation
Indices: 33103--36161 Score: 3121
Period size: 28 Copynumber: 108.5 Consensus size: 28
33093 TGTAGCACCC
*
33103 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33131 CTTCAAAAGCTCACAAGTTAGTGGCAT-T
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * *
33159 TTTCCAAAGCCCACAAGTCAGTGGTACCCT
1 TTT-CAAAGCCCACAAGTTAGTGGCA-TCT
*
33189 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33216 TTTCAAAGCCCACAAGTTAATGGCTTCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
33244 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33272 TTTCAAAGCCCACAAGTAAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
33300 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33328 TTTCAAAGCCCACAAGTCAGTAGCA-CT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
33355 CTTTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCT
*
33384 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
33412 TTTCGAAGACCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
33440 TTTCAAAGCCTACAAGTCACTGGCATCA
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33468 TTTCAAAGCTCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
33496 CTTTAAAAGCCCAAAAGTCAGTGGCATCT
1 -TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33525 CTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* *
33554 TTTCAAAGCCCA-AAGTCAGCGGCA-CAT
1 TTTCAAAGCCCACAAGTTAGTGGCATC-T
* *
33581 TTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
33609 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33637 TATCAAAGCCCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33665 TTTCAAAGCCCACAAGTTAATGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
33693 TTTCAAATCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTTAGTGGCA-TCT
33722 TTT-AAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
33749 TTTCAAAACTCACAAGTTAGTGGTATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33777 TTTCAAAGCCCAGAAGTTAGTGGCATTT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
** *
33805 TTTCAAAGCAAACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33833 CTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * * * * * *
33862 TTTCAAAACCCATAAATGAGTAGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
33890 ATTCAAAAG-CCACAAGTTAGTGACATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
*
33918 TTTCAAA-CCCATAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
33945 CTTCAAAAGACCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * * *
33974 CTTCAAAAGACCACAAGTCAGTGGCATCC
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * *
34003 CTTCAAAAGACCACAGGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
34032 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
34060 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34088 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
34116 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
34144 TTTCAAAGCCCACGAGTCAATGGCTTCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * *
34172 TCTCAAAGCTCACAAGTAAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34200 TTTCAAAGCCCACAAGTAAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34228 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34256 TTTCAAAGCCCACAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
34284 TTTCAAAGCTCACAAGTCAGTAGCA-CT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34311 CTATCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
34340 TTTCAAAACCCACAAGTCAGTGGTATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
34368 TTTCGAAGACCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34396 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
34424 TTTCGAAGACCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34452 TTTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34480 TTTCAAAGCCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34508 CTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* *
34537 TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTTAGTGGCA-TCT
* *
34566 TTT-AAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTTAGTGGCA-TCT
*
34594 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34621 TTTCAAAACCCACAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* ** *
34649 CTTCAAAAGAACA-AAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * * *
34677 CTTCAAAAGACCATAAGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * *
34706 TTTCAAAACCCACAAGTCAGTGGAATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
34734 TATCAAAGCCCATAAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTTAGTGGCATC-T
*
34763 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
34791 TTTCAAAGCCCACAAGTTAGTAGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34819 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * *
34847 TTTCAAAACTCACAAGTCAGTGGTATCA
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
34875 TTTCAAAGCGCACAAGTTAGTAGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34903 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
34931 CTTCAAAAACCCATAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * * * * *
34960 TTTCAAAGCCCATAAATGAATGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
34988 TTTCAAAGCCCACAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35016 TTTCAAAACCCATAAGTCT-GTGGCATCT
1 TTTCAAAGCCCACAAGT-TAGTGGCATCT
* *
35044 CTTCAAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * * *
35073 CTTCAAAAGACCACAGGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
35102 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35130 TTTCAAAGCCCACAAGTCAGTGGCA-CGC
1 TTTCAAAGCCCACAAGTTAGTGGCATC-T
* *
35158 TTTCAAAGCCCACAAGTTTGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
35186 TTTCAAAGCCCATAAGTGAGT-GCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
35213 TTTCAAAGCCCACAAGTCTA-TGGCATCT
1 TTTCAAAGCCCACAAGT-TAGTGGCATCT
* * * *
35241 CTTCAAAAAG-CCAAAAGTCAATGGCATCT
1 TTTC--AAAGCCCACAAGTTAGTGGCATCT
* * * *
35270 TTTCAAAGCCCCCAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
35298 TTT-AAAACCTACGAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35325 TTTCAAAGCCCACAAGTCAGTGACATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35353 CTTCAAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * *
35382 CTTTAAAAGCCCACAAG-TAATGGCAACT
1 -TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * * *
35410 TTTCAAAACCCGCAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
35438 TTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTTAGTGGCAT-CT
** * *
35467 TTT-AAAGCCCACAAGTTAGTAACACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
35494 TTTCAAAGCCCACAAGTTAGTGGTATCCT
1 TTTCAAAGCCCACAAGTTAGTGGCAT-CT
*
35523 TTT-AAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
35550 TTTCAGAGGCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
35578 TTTCAATGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
35606 TTTCAAAGCTCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
35634 CTTCAAAAGCCTACAAGTCT-GTGGCATAT
1 TTTC-AAAGCCCACAAGT-TAGTGGCATCT
*
35663 TTTCAAAGCCCACAAGTCAGTGGCA-CAT
1 TTTCAAAGCCCACAAGTTAGTGGCATC-T
* *
35691 TTTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
35719 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35747 CTTCAAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * * *
35776 CTTCAAAAGACCACAAATCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTTAGTGGCATCT
* * *
35805 CTTCAAAAGACCACAAGTCAGTGGCATTCT
1 TTTC-AAAGCCCACAAGTTAGTGGCA-TCT
* *
35835 TTT-AAAGCACACAAGTTAGTGGCATAT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * *
35862 CTTCAAAGCCCACAAGTCAGTGGCATAT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35890 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
*
35918 TTTCAAAGCCCATAAGTTAGTGGCAT-T
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
35945 CTTTCAAAACCCACAAGTCAGCGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
35974 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* *
36002 TTTCAAAGCCCACAAGTCAATGGCATACT
1 TTTCAAAGCCCACAAGTTAGTGGCAT-CT
* * *
36031 CTTTCAAAGCCTACACAAATCAATGGCA-CT
1 -TTTCAAAGCC--CACAAGTTAGTGGCATCT
* * * *
36061 CTTCCAAAGCCCATAAGTCAGTGGCACCCT
1 -TTTCAAAGCCCACAAGTTAGTGGCA-TCT
* * * *
36091 TTT-AAAGCCTACAAGTCAGTGGTACCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCT
* * * *
36118 CTTCGAAGCCCACAAGTCAGTGGCATCCCC
1 TTTCAAAGCCCACAAGTTAGTGGCAT--CT
36148 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
36162 CAAGTCGGTG
Statistics
Matches: 2548, Mismatches: 417, Indels: 130
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.00
27 141 0.06
28 1849 0.73
29 490 0.19
30 53 0.02
32 14 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCT
Found at i:36345 original size:25 final size:25
Alignment explanation
Indices: 36317--36391 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
36307 ATTAGCTCAA
36317 TGTCGCTAGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
* * * *
36342 TGTC-C-A-CCTT-TATTAGCTCAA
1 TGTCGCTAGCCTTGAATCAGCACAT
*
36363 TGTCGCTGGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
36388 TGTC
1 TGTC
36392 CACTTTTCCC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
23 1 0.03
24 5 0.14
25 15 0.41
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (25 bp):
TGTCGCTAGCCTTGAATCAGCACAT
Found at i:36356 original size:46 final size:46
Alignment explanation
Indices: 36277--36434 Score: 228
Period size: 46 Copynumber: 3.4 Consensus size: 46
36267 TCCGATATCA
* * *
36277 CTGGCATTGAATCAGCATATTG-GCACCTTTATTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACCTTTATTAGCTCAATGTCG
*
36322 CTAGCCTTGAATCAGCACATTGTCCACCTTTATTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACCTTTATTAGCTCAATGTCG
* *
36368 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACCTTT--ATTAGCTCAATGTCG
*
36416 CTGGCCTTAAATCAGCACA
1 CTGGCCTTGAATCAGCACA
36435 ATGTTAACTT
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
45 19 0.19
46 51 0.50
48 32 0.31
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (46 bp):
CTGGCCTTGAATCAGCACATTGTCCACCTTTATTAGCTCAATGTCG
Found at i:36366 original size:21 final size:22
Alignment explanation
Indices: 36299--36368 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
36289 CAGCATATTG
36299 GCACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
* * * *
36321 GCTAGCCTTGAATCAGCACATTGTC
1 GC-A-CCTT-TATTAGCTCAATGTC
36346 -CACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
36367 GC
1 GC
36369 TGGCCTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 11 0.31
22 7 0.19
23 2 0.06
24 5 0.14
25 11 0.31
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (22 bp):
GCACCTTTATTAGCTCAATGTC
Found at i:36429 original size:48 final size:48
Alignment explanation
Indices: 36308--36485 Score: 227
Period size: 48 Copynumber: 3.8 Consensus size: 48
36298 GGCACCTTTA
* * * *
36308 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACCTTT--A
1 TTAGCTCAATGTCGCTGGCCTTAAATCAGCACATTGTCCACTTTTCCC
*
36354 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTAAATCAGCACATTGTCCACTTTTCCC
* **
36402 TTAGCTCAATGTCGCTGGCCTTAAATCAGCACAATGTTAACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTAAATCAGCACATTGTCCACTTTTCCC
* * *
36450 TTAGCTCGATGTCGTTGGCCTTGAAAT-GGCACATTG
1 TTAGCTCAATGTCGCTGGCCTT-AAATCAGCACATTG
36486 GTACTCTTCT
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 43 0.36
48 71 0.60
49 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTAAATCAGCACATTGTCCACTTTTCCC
Found at i:37207 original size:20 final size:19
Alignment explanation
Indices: 37182--37347 Score: 116
Period size: 20 Copynumber: 7.8 Consensus size: 19
37172 TTTTACCCAG
37182 ATGTATCGATACAGTTTTCA
1 ATGTATCGATACA-TTTTCA
* *
37202 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
37222 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
37242 ATGTATCGATACATTCTATTTTTTTACCCA
1 ATGTATCGAT--A--C-A---TTTT---CA
*
37272 GATGTATCGATACATTTTTTA
1 -ATGTATCGATACA-TTTTCA
* *
37293 ATGTATCGATACATGTATAA
1 ATGTATCGATACAT-TTTCA
37313 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
*
37333 ATGTATCGTTACATT
1 ATGTATCGATACATT
37348 CTATCTTTTT
Statistics
Matches: 120, Mismatches: 10, Indels: 32
0.74 0.06 0.20
Matches are distributed among these distances:
19 4 0.03
20 88 0.73
21 1 0.01
22 1 0.01
24 6 0.05
25 1 0.01
26 1 0.01
27 3 0.03
28 2 0.02
29 1 0.01
30 2 0.02
31 10 0.08
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:37298 original size:51 final size:49
Alignment explanation
Indices: 37221--37397 Score: 201
Period size: 51 Copynumber: 3.7 Consensus size: 49
37211 TACATGTATG
37221 AATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTTACCC
1 AATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTTA-CC
* * *
37271 AGATGTATCGATACATTTTTTAATGTATCGATACA-TGTA------TA--
1 A-ATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTTACC
* *
37312 AATGTATCGATACATTCTTCAATGTATCGTTACATTCTATCTTTTTTTCC
1 AATGTATCGATACATTCTTCAATGTATCGATACATTCTAT-TTTTTTACC
*
37362 AAATGTATCGATACATTTTTCAATGTATCGATACAT
1 -AATGTATCGATACATTCTTCAATGTATCGATACAT
37398 CTAGTTAAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
40 30 0.29
41 4 0.04
44 2 0.02
48 1 0.01
50 4 0.04
51 64 0.61
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (49 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTTACC
Found at i:37326 original size:91 final size:92
Alignment explanation
Indices: 37171--37397 Score: 386
Period size: 91 Copynumber: 2.5 Consensus size: 92
37161 AAAAGTCACA
* *
37171 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATAAATGTATCGATACAT
37236 TCTTCAATGTATCGATACATTCTAT-T
66 TCTTCAATGTATCGATACATTCTATCT
*
37262 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATAAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATAAATGTATCGATACAT
*
37327 TCTTCAATGTATCGTTACATTCTATCT
66 TCTTCAATGTATCGATACATTCTATCT
* *
37354 TTTTT-TCCAAATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
37398 CTAGTTAAAA
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
91 122 0.95
92 6 0.05
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (92 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATAAATGTATCGATACAT
TCTTCAATGTATCGATACATTCTATCT
Found at i:37380 original size:21 final size:20
Alignment explanation
Indices: 37356--37397 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
37346 TTCTATCTTT
37356 TTTTCCAAATGTATCGATACA
1 TTTTCC-AATGTATCGATACA
*
37377 TTTTTCAATGTATCGATACA
1 TTTTCCAATGTATCGATACA
37397 T
1 T
37398 CTAGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTTCCAATGTATCGATACA
Found at i:41069 original size:23 final size:23
Alignment explanation
Indices: 41041--41097 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
41031 TTATAATAAC
41041 TTAAACTCGATTTAATCCGAATA-
1 TTAAACTCGATTTAATCCGAA-AG
* *
41064 TTAAACTC-AATTAATTCGAAAG
1 TTAAACTCGATTTAATCCGAAAG
41086 TTAAACTCGATT
1 TTAAACTCGATT
41098 GCTCTGTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 18 0.62
23 10 0.34
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (23 bp):
TTAAACTCGATTTAATCCGAAAG
Found at i:43666 original size:41 final size:41
Alignment explanation
Indices: 43607--43688 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
43597 CAAAGACAAC
* *
43607 GGAAATCAATTGGAGTAACTTTACA-AGTGATGGTATTTGAA
1 GGAAATCAATTGAAGTAACTTTACATA-TGATAGTATTTGAA
43648 GGAAATCAATT-AACGTAACTTTACATATGATAGTATTTGAA
1 GGAAATCAATTGAA-GTAACTTTACATATGATAGTATTTGAA
43689 TATCATTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 1 0.03
41 35 0.95
42 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (41 bp):
GGAAATCAATTGAAGTAACTTTACATATGATAGTATTTGAA
Found at i:45057 original size:43 final size:43
Alignment explanation
Indices: 44996--45083 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
44986 CCCTTGCTAC
*
44996 ATCATGAGTATTGAGGCCCCTTACTTAAGAGGTAAGTAGCTTA
1 ATCATCAGTATTGAGGCCCCTTACTTAAGAGGTAAGTAGCTTA
45039 ATCATCAGTATTGAGGCCCCTTACTTAAGAGGTAAGTAGCTTA
1 ATCATCAGTATTGAGGCCCCTTACTTAAGAGGTAAGTAGCTTA
45082 AT
1 AT
45084 TAAGATGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
ATCATCAGTATTGAGGCCCCTTACTTAAGAGGTAAGTAGCTTA
Found at i:45299 original size:20 final size:20
Alignment explanation
Indices: 45274--45319 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45264 AAGAATTGAA
*
45274 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
45294 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
45314 GAGGGA
1 GAGGGA
45320 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:45457 original size:27 final size:27
Alignment explanation
Indices: 45396--45490 Score: 147
Period size: 27 Copynumber: 3.5 Consensus size: 27
45386 AAACAAGCCT
* *
45396 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
45424 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
45451 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
45478 CCATTTTTGACAA
1 CCATTTTTGACAA
45491 CAAATGGGTG
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.70
28 18 0.28
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Done.