Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1736
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: 28678
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Found at i:1152 original size:25 final size:25
Alignment explanation
Indices: 1090--1159 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
1080 AATAAAAATT
*
1090 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
1114 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
1139 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
1160 CAAAGGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:1205 original size:27 final size:27
Alignment explanation
Indices: 1144--1214 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
1134 AAACAAGCCT
* *
1144 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
1172 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
*
1199 CCATTTTTAACAAACA
1 CCATTTTTGACAAACA
1215 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:5704 original size:24 final size:25
Alignment explanation
Indices: 5676--5745 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
5666 AATAAAAATT
*
5676 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
5700 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
**
5725 AGCCTTC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
5746 CAAAGGAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.23
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:5791 original size:27 final size:27
Alignment explanation
Indices: 5735--5800 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
5725 AGCCTTCATA
*
5735 TTTGACAAATACAAAGGAAACCACCATT
1 TTTGACAAACACAAA-GAAACCACCATT
5763 TTTGACAAACACAAA-ATAACCACCATT
1 TTTGACAAACACAAAGA-AACCACCATT
5790 TTTGACAAACA
1 TTTGACAAACA
5801 AATGGGTGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 21 0.58
28 14 0.39
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.23
Consensus pattern (27 bp):
TTTGACAAACACAAAGAAACCACCATT
Found at i:5803 original size:24 final size:24
Alignment explanation
Indices: 5678--5803 Score: 83
Period size: 24 Copynumber: 4.9 Consensus size: 24
5668 TAAAAATTAG
* *
5678 CCACCAATTTTGACAAACAACA-AG
1 CCACCATTTTTGACAAACAA-ATAA
* * *
5702 CCACCAATTTTGACAAATAAACAA
1 CCACCATTTTTGACAAACAAATAA
** * *
5726 GCCTTCATATTTGACAAATACAAAGGAAA
1 -CCACCATTTTTGAC-AA-ACAAA--TAA
5755 CCACCATTTTTGACAAACACAAAATAA
1 CCACCATTTTTGAC-AA-AC-AAATAA
5782 CCACCATTTTTGACAAACAAAT
1 CCACCATTTTTGACAAACAAAT
5804 GGGTGGCTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.01
24 24 0.29
25 12 0.15
26 4 0.05
27 20 0.24
28 16 0.20
29 5 0.06
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (24 bp):
CCACCATTTTTGACAAACAAATAA
Found at i:17241 original size:27 final size:27
Alignment explanation
Indices: 17199--17277 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
17189 TGGCATTCCT
* *
17199 TTTTAAGTCCATAACTCCATGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
17226 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
17253 TTATAAAGACCACAACTCCGTGGCA
1 TT-TTAAGTCCACAACTCCGTGGCA
17278 GCCCTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 27 0.57
28 20 0.43
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCAACC
Found at i:17271 original size:28 final size:27
Alignment explanation
Indices: 17211--17716 Score: 131
Period size: 28 Copynumber: 18.1 Consensus size: 27
17201 TTAAGTCCAT
* * *
17211 AACTCCATGGCAACCTTTTAAGTCCAC
1 AACTCCGTGGCAACCTTTAAAGACCAC
17238 AACTCCGTGGCAACCTTATAAAGACCAC
1 AACTCCGTGGCAACCTT-TAAAGACCAC
*
17266 AACTCCGTGGCAGCCCTTTTTAAAGACCAC
1 AACTCCGTGGCA-ACC--TTTAAAGACCAC
* *** *
17296 AAGTCAAAGGCATCCTTTCAAAGACCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * *
17324 AAGTCAG-GG-ACACCTTTTCAAAGACCAA
1 AACTCCGTGGCA-ACC-TTT-AAAGACCAC
* * * *
17352 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* ** * *
17380 AAGTTGGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * *
17408 AAATCAGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * * *
17436 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * * *
17464 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* ** * *
17492 AAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * *
17520 AAGTCAGTGGCATCTTTTCAAAG-CCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * *
17547 AAGTCAGTGGCACCCTTTTAAAG-CTCAC
1 AACTCCGTGGCAACC-TTTAAAGAC-CAC
* ** * *
17575 AAGTTAAGTGGCATCCTTTCAAAGCCCAC
1 AA-CTCCGTGGCAACCTTT-AAAGACCAC
* * * * * *
17604 AAGTCAGTGGCATCTTTTCTAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * *
17632 AAGTCAGTGGCACCCTTTTAAAGCCCAC
1 AACTCCGTGGCAACC-TTTAAAGACCAC
* * ** * *
17660 AAATCAGTGGCGTCCTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTTAAAGACCAC
* * *
17687 AAGTCAGTGGC-ACTCTTTCAAAGCCCAC
1 AACTCCGTGGCAAC-CTTT-AAAGACCAC
17715 AA
1 AA
17717 GTTAGTGGCA
Statistics
Matches: 416, Mismatches: 46, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.00
27 69 0.17
28 293 0.70
29 30 0.07
30 20 0.05
31 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (27 bp):
AACTCCGTGGCAACCTTTAAAGACCAC
Found at i:17356 original size:56 final size:56
Alignment explanation
Indices: 17218--22374 Score: 4669
Period size: 56 Copynumber: 91.6 Consensus size: 56
17208 CATAACTCCA
* * * * * * *
17218 TGGCAACCTTTT--AAGTCCACAACTCCGTGGCAACCTTAT-AAAGACCACAACTCCG
1 TGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAG
* * ** *
17273 TGGCAGCCCTTTTTAAAGACCACAAGTCAAAGGCATCCTTTCAAAGACCACAAGTCAG
1 TGGCA--CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * **
17331 -GGACACCTTTTCAAAGACCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTGG
1 TGG-CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
17387 TGGCATCC-TTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
17443 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
17499 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG-CCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
17554 TGGCACCCTTTT-AAAGCTCACAAGTTAAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAG-TCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
17611 TGGCATCTTTTCTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
17667 TGGCGTCC--TTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATG
1 TGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCAC-A---AGT--CA-G
*
17729 TTAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 -T-G--GCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
17789 TGGCATCTCTTCAAAAGCTCACAAGTTAGTGGCAT-TTTTCCAAAGCCCACAAGTCAA
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAG
* * * * *
17846 TGGTACCCTTTT-AAAGCCCACAAGTTACTGGCATCCTTTCAAAGCCCACAAGTTAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
** * *
17902 TGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
17958 TGGCATCC-TTTCAAAGCCCACAAGTCAATGGCAT-CTCTTCAAAACCCACAAGTCAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAG
* * * * *
18014 TGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACCCTTT-AAAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
18069 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
18125 TGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGT
1 TGGCACCT-TTTCAAAGCCCAC-A---AGT--CA-GT--G--GCATCCTTTCAAAGCCCACAAGT
18189 CAG
54 CAG
* * *
18192 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAT-ATCTTCAAAAGCTCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
18249 TGGCA-TTTTTCCAAAGCTCACAAGTCAATGGTACCCTTTTAAAGCCCACAAGTTAG
1 TGGCACCTTTT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
18305 TGGCATCC-TTTCAAAG-CCATAAGTTAATGGCTTCTTTTCAAA-CTCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC-CCACAAGTCAG
* * *
18360 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
18416 TGGCATCTCTTCAAAACCCACAAGTCAATGGAATCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
18472 TGGCACCCTTT-AAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
18527 TGACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCAC-A---AGT--CA-G
* *
18590 TCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAG
1 T--G--GCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
18650 TGGCATCTCTTCAAAAGCTCACAAGTTAGTGCCAT-TTTTCCAAAGCCCACAAGTCAA
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAG
* * * *
18707 TGGTACCCTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
18763 TCGCTTCC-TTTCAAAGCCCACAAGGT-AGTGGCACCCTTTCAAAGCCCACAAGTAAG
1 TGGC-ACCTTTTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
18819 TGGCATCC-TTTCGAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
18875 TGGCATCTTTTCAAAGCCCACAAGTCAGTAGCA-CTCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * *
18931 TGGCATCC-TTTCAAAACCCACAAGTCAGTGGCATCTTTTCGAAA-ACCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * *
18987 TGGCACCCTTTCCAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
19043 TGGCATCTCTTCAAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * *
19101 TGGCATCATTTCAAAGCCCACAAGTCAGCGGCACCCTTTTAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * **
19157 TGGCATCC-TTTCAAATCACACAAGTTAGTGGCAT-CTCTTCAAAGAACACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAG
* * *
19213 TGGCATCTCTTCAAAAGACCC-TAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAG-CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
19270 TGGCATCTTATCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
19326 TGGCATCC-TTTCAACGCCCACAAGTCAGTGGCACCCTTTTAAAGCCC-CAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
19381 TGGCATCC-TTTCAAAACTCACAAGTCAGTGGTATCCTTTCAAAGCCCACAGGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* ** *
19437 TGGCATCTTTTCAAAGCAAACAAGTCAATGGCAT-CTTTCAAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * * * * * *
19493 TGGCATCTTTTCAAAGCCCATAAATGAGTGGCACCCTTTCAAAACCCATAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
19549 TGACATCTTTTCAAAACACACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
19606 TGGTATCTCTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
19663 TGGCATCTTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
19719 TGGCATCC-TTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
19775 TGGCATCTCTTTAAAAACCCACAAGTCAATGGCATCTCTTTAAAAACCCACAAGTCAA
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * * * *
19833 TGGCATCTTTTTAAA-CCCACAAGTCAGTGACACCCTTT-AAAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
19887 TGGCATCC-TTTCAAAG-CCACAAGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * *
19943 TGGCATCTCTTTAAAAGCCCACAAGT-ACTGGCAACTTTTCAAAGCCCACAAGTCAG
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
19999 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAG
*** * * *
20056 TAATACCCTTTCAAAGCCCACAAGTTAGTGGTATCCTTT-AAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
20111 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGTA-CCTTTTCAATGCCCATAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAG
*
20167 TGGCATCC-TTTCAAAGCCCACAAGTCAAGTGGCATCCTTTCAAAGCTCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
20224 TGGCATCTCTTCAAAAGCCCACAAGTTAGTGGCATCC-TTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
20280 TGGCACCTTTTCAAAGCCTACAAGTTAGTAGCATCCTTTGAAAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
20336 TTGCATCTCTTCAAAGCTCACAAGTTAGTGGCAT-TTTTCTAAGGCCCACAAGGT-AG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAA-GTCAG
* * * *
20392 TGGTACCCTTTT--AATCCCATAAGT-AGTGGCATCCTTTC-AAG-CCACAAGTTAAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG-TCAG
** * * * *
20445 -GGCTTC-TTTCAAAGCCCATAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTAAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
20499 TGGCA-TTCTTTCAAAGTCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
20555 TGGCATCTTTTCAAAGCCCACAAGTTAGTAGCA-CTCTATGAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* ** * *
20611 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTTGAAGACCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
20667 TGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCGAAA-ACCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * *
20723 TGGCACCCTTTCAAAG-CTACAAGTTAGTGGCATCCTTTCAAAGCCTACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * **
20778 TGGCATCTCTTCAAAAGCCCATAAGTCAGTGGCATATTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
20835 TGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCAC-AGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * ** *
20890 TGGCATCC-TTTCAAAACCCACAGGTTAGTGGCAT-CTCTTCAAAAGAACACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
20947 TGGCATCTCTTCAAAGGACCATAAGTTAGTGGTATCCTTTCAAAACCCACAAGTCAG
1 TGGCACCTTTTCAAA-GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * *
21004 TGGCATCTTATCAAAGCTCATAAGTTAATGGC-TTCTTTCAAAG-CCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
21058 TGGCATCC-TTTCAAAGCCCACAAGTTAGTGACACCCTTTCAAAAG-CCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * * * * *
21114 TGGCATCC-TTTCAAAACTCACAAGTCAGTGGTATCATTAC-AAGCGCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
21169 TGGCAAC-TTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAACTCATAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
21225 TGGCATCTTTTCAAAGCCCATAAATGAATGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
21281 TGACATCTTTTCAAAACCCACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * *
21338 TGGCATCTCTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
21395 TGGCATC-TTTCAAAGCCCACAAGTCAGTGGCATGCTTTCAAAGCCCACAAGT-AG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
21449 TGGCATCC-TTTCAAAGCCCATAAGTGAGTGGCATCCTTTCAAAGCCCACAAGTCTA-
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC-AG
* * * * *
21505 TGGCATC-TCTCAAAAAG-CCAAAAGTCAAT-GCATCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC--AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
21560 T-GCACC-TTT-AAA-CCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
21612 T-G-ACTCTCTTCGAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAGT-AA
1 TGGCAC-CTTTTC-AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * *
21668 TGGTAACTTTTCACAA-CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCA-AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
21724 TGGCATCTTGT-AAAGCCCACAAGT-AGTAGTAACACCCTTTCAAAG-CCACAAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGT-G--GCATCCTTTCAAAGCCCAC-AAGTCAG
* * * * *
21781 T-GTATCC-TTT-AAAGCCCACAAGTCCGTGGCATCTTTTCAAAAG-GCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * *
21835 TGGCACCTTTTCAATGCCCATAAGTTAGTGGCATCCTTTC-AAG-CCATAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
21889 TGGCATCTTTTCAAAGCTCACAAGTCAGTGGCAT-CTCTTCAAAGCCTACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAG
** * * * * *
21945 TGGCATATTTTCAAAG-CCACAAGTCAGTGCCA-CATTTTCAAAGCCTACAATTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
*
22000 TGGCATCC-TTTCAAAGCCCAC-AGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
22056 TGGCATCTCTTCAAAAGACCACAAGTCAGTTGGCATCTTTTTAAAGCCCACATGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAG-TGGCATCCTTTCAAAGCCCACAAGTCAG
** * * *
22114 TGGCATATTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTTAAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG-TCAG
* * *
22171 TGGCA-TTCTTTCAAAGCCCA-AAGTCAGCGGCATCCTTTCAAAG-CCACAAGTTAG
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
22225 TGGCACCCTTTCAAAGCCCACAAGTCAATGGCATACCATTTCAAAGCCTACACAAATCAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAT-CC-TTTCAAAGCC--CACAAGTCAG
* * * * *
22285 TGGCACC-TTCCAAAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCTACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* ** *
22340 TGGTACCCCTTCAAAGCCCATAAGTCAGT-GCATCC
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
22375 CCTTTTTAAA
Statistics
Matches: 4244, Mismatches: 620, Indels: 476
0.79 0.12 0.09
Matches are distributed among these distances:
50 3 0.00
51 15 0.00
52 47 0.01
53 24 0.01
54 234 0.06
55 752 0.18
56 1989 0.47
57 726 0.17
58 229 0.05
59 39 0.01
60 26 0.01
61 8 0.00
62 5 0.00
63 14 0.00
64 1 0.00
65 4 0.00
66 5 0.00
67 120 0.03
68 2 0.00
69 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
Found at i:17399 original size:84 final size:84
Alignment explanation
Indices: 17304--22374 Score: 4878
Period size: 84 Copynumber: 60.1 Consensus size: 84
17294 ACAAGTCAAA
* * * *
17304 GGCATCCTTTCAAAGACCACAAGTCAG-GGACACCTTTTCAAAGACCAAAAGTCAGTGGCACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGG-CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
17368 TTCAAAGCCCACAAGTTGGT
65 TTCAAAGCCCACAAGTTAGT
* *
17388 GGCATCCTTTCAAAGCCCACAAATCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
17452 TTCAAAGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * *
17472 GGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
17536 TTCAAAG-CCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * *
17555 GGCACCCTTTTAAAGCTCACAAGTTAAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCT
1 GGCATCCTTTCAAAGCCCACAAG-TCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
17619 TTTCTAAGCCCACAAGTCAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
17640 GGCACCCTTTTAAAGCCCACAAATCAGTGGCGTCC--TTCAAAGCCCACAAGTCAGTGGCA-CTC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATC-C
17702 TTTCAAAGCCCACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
17723 GGCATGTTAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTC
1 GGC-----A-T-----CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTC
*
17787 AGTGGCAT-CTCTTCAAAAGCTCACAAGTTAGT
54 AGTGGCATCCT-TTC-AAAGCCCACAAGTTAGT
* * * * *
17819 GGCAT-TTTTCCAAAGCCCACAAGTCAATGGTACCCTTTT-AAAGCCCACAAGTTACTGGCATCC
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
17882 TTTCAAAGCCCACAAGTTAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
17903 GGCTTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
17968 TCAAAGCCCACAAGTCAAT
66 TCAAAGCCCACAAGTTAGT
* * * * *
17987 GGCAT-CTCTTCAAAACCCACAAGTCAATGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACCCT
1 GGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
18051 TT-AAAGCCTACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* *
18070 GGCATCCTTTCAAAGCCCACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
18134 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
18154 GGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTC
1 -G---G-CA-T-----CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTC
* *
18218 AGTGGCAT-ATCTTCAAAAGCTCACAAGTTAGT
54 AGTGGCATCCT-TTC-AAAGCCCACAAGTTAGT
* * * * *
18250 GGCAT-TTTTCCAAAGCTCACAAGTCAATGGTACCCTTTT-AAAGCCCACAAGTTAGTGGCATCC
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
18313 TTTCAAAG-CCATAAGTTAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
18333 GGCTTCTTTTCAAA-CTCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTTTCAAAGC-CCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
18397 TTCAAAGCCCACAAGTCAAT
65 TTCAAAGCCCACAAGTTAGT
* * * * *
18417 GGCAT-CTCTTCAAAACCCACAAGTCAATGGAATCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 GGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
18481 TT-AAAGCCTACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* *
18500 GGCATCCTTTCAAAGCCCACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
18564 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
*
18584 GGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
1 -G---G-CA-T-----CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
*
18649 GTGGCAT-CTCTTCAAAAGCTCACAAGTTAGT
55 GTGGCATCCT-TTC-AAAGCCCACAAGTTAGT
* * * * *
18680 GCCAT-TTTTCCAAAGCCCACAAGTCAATGGTACCCTTTT-AAAGCCCACAAGTTAGTGGCATCC
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
18743 TTTCAAAGCCCACAAGTTAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
18764 CGCTTCCTTTCAAAGCCCACAAGGT-AGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCT
1 GGCATCCTTTCAAAGCCCACAA-GTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
18828 TTCGAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* *
18848 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
18912 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * *
18932 GGCATCCTTTCAAAACCCACAAGTCAGTGGCATCTTTTCGAAA-ACCACAAGTTAGTGGCACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
18996 TTCCAAGCCTACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* *
19016 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGCCCACAAGTCAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
*
19080 CTTCAAAAGCCCACAAGTCAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * *
19102 GGCATCATTTCAAAGCCCACAAGTCAGCGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
19166 TTCAAATCACACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
** * * *
19186 GGCAT-CTCTTCAAAGAACACAAGTCAGTGGCATCTCTTCAAAAGACCC-TAAGTCAGTGGCATC
1 GGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAG-CCCACAAGTCAGTGGCATC
*
19249 CTTTCAAAGCCCACAAGTCAGT
63 CTTTCAAAGCCCACAAGTTAGT
* *
19271 GGCAT-CTTATCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTT-TCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
19335 TTCAACGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * * *
19355 GGCACCCTTTTAAAGCCC-CAAGTTAGTGGCATCC-TTTCAAAACTCACAAGTCAGTGGTATCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
19418 TTCAAAGCCCACAGGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* ** * * *
19438 GGCATCTTTTCAAAGCAAACAAGTCAATGGCATC-TTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
19502 TTCAAAGCCCATAAATGAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * * * * * *
19522 GGCACCCTTTCAAAACCCATAAGTTAGTGACATCTTTTCAAAACACACAAGTTAGTGGCAT-CTC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-
* *
19586 TTCAAAAGACCACAAGTCAGT
65 TTC-AAAGCCCACAAGTTAGT
* * * * *
19607 GGTAT-CTCTTCAAAAGACCACAGGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
19670 TTTTCAAAGCCCACAAGTCAGT
63 CTTTCAAAGCCCACAAGTTAGT
* * * *
19692 GACACCCTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCATAAGTCAGTGGCATCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
19756 TTCAAAGCCCACAAGTCAAT
65 TTCAAAGCCCACAAGTTAGT
* * * * * * * *
19776 GGCATCTCTTTAAAAACCCACAAGTCAATGGCATCTCTTTAAAAACCCACAAGTCAATGGCATCT
1 GGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
19841 TTTTAAA-CCCACAAGTCAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
19861 GACACCCTTT-AAAGCCTACAAGTTAGTGGCATCC-TTTCAAAG-CCACAAGTCAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
19922 CTTCAAAAGACCACAAGTTAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * * *
19944 GGCATCTCTTTAAAAGCCCACAAGT-ACTGGCAACTTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 GGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
20008 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* * *** * * *
20028 GGCATCCTTTTAAAAGCCCACAAGTTAGTAATACCCTTTCAAAGCCCACAAGTTAGTGGTATCCT
1 GGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
20093 TT-AAAGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * *
20112 GGCATCTTTTCAAAGCCCACAAGTCAGTGGTACCTTTTCAATGCCCATAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
20177 TCAAAGCCCACAAGTCAAGT
66 TCAAAGCCCACAAGT-TAGT
* * * *
20197 GGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCTCTTCAAAAGCCCACAAGTTAGTGGCATCC-
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
*
20261 TTCAAAGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * * * *
20281 GGCA-CCTTTTCAAAGCCTACAAGTTAGTAGCATCC-TTTGAAAGCCTACAAGTTAGTTGCAT-C
1 GGCATCC-TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
20343 TCTTCAAAGCTCACAAGTTAGT
64 T-TTCAAAGCCCACAAGTTAGT
* * * * *
20365 GGCAT-TTTTCTAAGGCCCACAAGGT-AGTGGTACCCTTTT--AATCCCATAAGT-AGTGGCATC
1 GGCATCCTTTC-AAAGCCCACAA-GTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC
20425 CTTTC-AAG-CCACAAGTTAAG-
63 CTTTCAAAGCCCACAAGTT-AGT
* * * * * *
20445 GGC-TTCTTTCAAAGCCCATAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATTCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
20509 TCAAAGTCCACAAGTTAGT
66 TCAAAGCCCACAAGTTAGT
* * *
20528 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTAGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
* *
20592 ATGAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* ** * * *
20612 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTGAAGACCACAAGTTAGTGGCACCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
20677 TCAAAGCCCACAAGTCAAT
66 TCAAAGCCCACAAGTTAGT
* * * * * *
20696 GGCATCTTTTCGAAA-ACCACAAGTTAGTGGCACCCTTTCAAAG-CTACAAGTTAGTGGCATCCT
1 GGCATCCTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
20759 TTCAAAGCCTACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* ** *
20779 GGCAT-CTCTTCAAAAGCCCATAAGTCAGTGGCATATTTTCAAAGCCCACAAGTCAGTGGCACCC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
20843 TTTTAAAGCCCACAAGTCAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * *
20864 GGCACCCTTTTAAAGCCCAC-AGTTAGTGGCATCC-TTTCAAAACCCACAGGTTAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
**
20926 CTTCAAAAGAACACAAGTTAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * * * *
20948 GGCAT-CTCTTCAAAGGACCATAAGTTAGTGGTATCC-TTTCAAAACCCACAAGTCAGTGGCAT-
1 GGCATCCT-TTCAAA-GCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
21010 CTTATCAAAGCTCATAAGTTAAT
63 CTT-TCAAAGCCCACAAGTTAGT
* * * * *
21033 GGC-TTCTTTCAAAG-CCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGACACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
21095 TTCAAAAG-CCACAAGTTAGT
65 TTC-AAAGCCCACAAGTTAGT
* * * * * * * * *
21115 GGCATCCTTTCAAAACTCACAAGTCAGTGGTATCATTAC-AAGCGCACAAGTTAGTGGCA-ACTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
21178 TCAAAGCCCACAAGTCAGT
66 TCAAAGCCCACAAGTTAGT
* * * * * * * * *
21197 GGCAT-CTCTTCAAAAACTCATAAGTCAGTGGCATCTTTTCAAAGCCCATAAATGAATGGCACCC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
21261 TTTCAAAGCCCACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * * *
21282 GACATCTTTTCAAAACCCACAAGTTAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
21346 CTTCAAAAGACCACAGGTTAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * *
21368 GGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGGCATGCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
21432 TCAAAGCCCACAAG-TAGT
66 TCAAAGCCCACAAGTTAGT
* *
21450 GGCATCCTTTCAAAGCCCATAAGTGAGTGGCATCC-TTTCAAAGCCCACAAGTCTA-TGGCAT-C
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTC-AGTGGCATCC
* * * *
21512 TCTCAAAAAG-CCAAAAGTCAAT
64 TTTC--AAAGCCCACAAGTTAGT
* * *
21534 -GCATCTTTTCAAAGCCCACAAGTCAGT-GCACC-TTT-AAA-CCTACAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
21594 TCAAAGCCCACAAGTTAGT
66 TCAAAGCCCACAAGTTAGT
* * * * * * * *
21613 GAC-T-CTCTTCGAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAGT-AATGGTAAC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATC
* *
21675 TTTTCACAA-CCCACAAGTCAGT
63 CTTTCA-AAGCCCACAAGTTAGT
* * * * * *
21697 GGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCTTGT-AAAGCCCACAAGT-AGTAGTAACACC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGT-G--GCATC
21760 CTTTCAAAG-CCACAAAGTTAGT
63 CTTTCAAAGCCCAC-AAGTTAGT
* * * * *
21782 -GTATCCTTT-AAAGCCCACAAGTCCGTGGCATCTTTTCAAAAG-GCACAAGTTAGTGGCA-CCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCC-
* *
21843 TTTCAATGCCCATAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* * *
21864 GGCATCCTTTC-AAG-CCATAAGTCAGTGGCATCTTTTCAAAGCTCACAAGTCAGTGGCAT-CTC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-
* *
21926 TTCAAAGCCTACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
** * * * * *
21946 GGCATATTTTCAAAG-CCACAAGTCAGTGCCACATTTTCAAAGCCTACAATTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
22010 TCAAAGCCCAC-AGTCAGT
66 TCAAAGCCCACAAGTTAGT
* * * *
22028 GGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGTTGGCAT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAG-TGGCAT
* * *
22092 CTTTTTAAAGCCCACATGTTAGT
62 CCTTTCAAAGCCCACAAGTTAGT
** * * * *
22115 GGCATATTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTTAAGTGGCATTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG-TCAGTGGCATCCT
* *
22180 TTCAAAGCCCA-AAGTCAGC
65 TTCAAAGCCCACAAGTTAGT
* * *
22199 GGCATCCTTTCAAAG-CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATACCA
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAT-CC-
* * *
22263 TTTCAAAGCCTACACAAATCAAT
64 TTTCAAAGCC--CACAAGTTAGT
* * * * * *
22286 GGCA-CCTTCCAAAGCCCATAAGTCAGTGGCACCCTTTT-AAAGCCTACAAGTCAGTGGTACCCC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
22349 TTCAAAGCCCATAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
22369 -GCATCC
1 GGCATCC
22375 CCTTTTTAAA
Statistics
Matches: 4206, Mismatches: 558, Indels: 447
0.81 0.11 0.09
Matches are distributed among these distances:
78 13 0.00
79 43 0.01
80 49 0.01
81 59 0.01
82 274 0.07
83 862 0.20
84 1578 0.38
85 706 0.17
86 315 0.07
87 60 0.01
88 9 0.00
89 4 0.00
90 5 0.00
91 5 0.00
92 1 0.00
94 31 0.01
95 140 0.03
96 52 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
TCAAAGCCCACAAGTTAGT
Found at i:17717 original size:28 final size:27
Alignment explanation
Indices: 17287--17727 Score: 517
Period size: 28 Copynumber: 15.8 Consensus size: 27
17277 AGCCCTTTTT
* **
17287 AAAGACCACAAGTCAAAGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
* *
17315 AAAGACCACAAGTCAG-GGACACCTTTTC
1 AAAGCCCACAAGTCAGTGG-CATC-TTTC
* * *
17343 AAAGACCAAAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
**
17371 AAAGCCCACAAGTTGGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
*
17399 AAAGCCCACAAATCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
17427 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
17455 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
*
17483 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
17511 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* *
17539 AAAG-CCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
* *
17566 AAAGCTCACAAGTTAAGTGGCATCCTTTC
1 AAAGCCCACAAG-TCAGTGGCAT-CTTTC
17595 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* * *
17623 TAAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
* * *
17651 AAAGCCCACAAATCAGTGGCGTCCTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTC
17678 AAAGCCCACAAGTCAGTGGCACTCTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
*
17706 AAAGCCCACAAGTTAGTGGCAT
1 AAAGCCCACAAGTCAGTGGCAT
17728 GTTAGTAGCA
Statistics
Matches: 363, Mismatches: 35, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
27 52 0.14
28 282 0.78
29 29 0.08
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (27 bp):
AAAGCCCACAAGTCAGTGGCATCTTTC
Found at i:17779 original size:28 final size:28
Alignment explanation
Indices: 17739--18158 Score: 526
Period size: 28 Copynumber: 15.0 Consensus size: 28
17729 TTAGTAGCAC
17739 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
17767 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
17795 -CTCTTCAAAAGCTCACAAGTTAGTGGCAT
1 CCT-TTC-AAAGCCCACAAGTCAGTGGCAT
* * * *
17824 -TTTTCCAAAGCCCACAAGTCAATGGTAC
1 CCTTT-CAAAGCCCACAAGTCAGTGGCAT
* * *
17852 CCTTTTAAAGCCCACAAGTTACTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
17880 CCTTTCAAAGCCCACAAGTTAATGGCTT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
17908 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
17936 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
17964 CCTTTCAAAGCCCACAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
17992 -CTCTTCAAAACCCACAAGTCAATGGCAT
1 CCT-TTCAAAGCCCACAAGTCAGTGGCAT
* * *
18020 CTTTTCAAAGCCCACAAGTCAGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
18048 CCTTT-AAAGCCTACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
18075 CCTTTCAAAGCCCACAAGTCAGTGACAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
18103 CTTTTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
18130 CTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAT
18159 GTCAGTAGCA
Statistics
Matches: 338, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
27 28 0.08
28 284 0.84
29 26 0.08
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:18175 original size:39 final size:39
Alignment explanation
Indices: 18120--18197 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
18110 AAGCCCACAA
* * *
18120 GTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
18159 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
18198 CCTTTCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:18201 original size:28 final size:28
Alignment explanation
Indices: 18159--18588 Score: 487
Period size: 28 Copynumber: 15.4 Consensus size: 28
18149 TTAGTGGCAT
* *
18159 GTCAGTAGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
18187 GTCAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
18215 GTCAGTGGCAT-ATCTTCAAAAGCTCACAA
1 GTCAGTGGCATCCT-TTC-AAAGCCCACAA
* * *
18244 GTTAGTGGCAT-TTTTCCAAAGCTCACAA
1 GTCAGTGGCATCCTTT-CAAAGCCCACAA
* * * *
18272 GTCAATGGTACCCTTTTAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
18300 GTTAGTGGCATCCTTTCAAAG-CCATAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* * * *
18327 GTTAATGGCTTCTTTTCAAA-CTCCACAA
1 GTCAGTGGCATCCTTTCAAAGC-CCACAA
*
18355 GTCAGTGGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
18383 GTTAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
18411 GTCAATGGCAT-CTCTTCAAAACCCACAA
1 GTCAGTGGCATCCT-TTCAAAGCCCACAA
* * *
18439 GTCAATGGAATCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
18467 GTCAGTGGCACCCTTT-AAAGCCTACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
18494 GTTAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
18522 GTCAGTGACATCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
18550 GTCAGTGGCA-CTCTTTCAAAGCCCACAA
1 GTCAGTGGCATC-CTTTCAAAGCCCACAA
*
18578 GTTAGTGGCAT
1 GTCAGTGGCAT
18589 GTCAGTAGCA
Statistics
Matches: 340, Mismatches: 50, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
27 50 0.15
28 263 0.77
29 27 0.08
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (28 bp):
GTCAGTGGCATCCTTTCAAAGCCCACAA
Found at i:18605 original size:39 final size:39
Alignment explanation
Indices: 18550--18627 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
18540 AAGCCCACAA
* * *
18550 GTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
18589 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
18628 CTTTTCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:18633 original size:28 final size:28
Alignment explanation
Indices: 18602--22391 Score: 3540
Period size: 28 Copynumber: 135.5 Consensus size: 28
18592 AGTAGCACCC
18602 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
18630 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
18658 CTTCAAAAGCTCACAAGTTAGTGCCAT-T
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
18686 TTTCCAAAGCCCACAAGTCAATGGTACCCT
1 TTT-CAAAGCCCACAAGTCAGTGGCA-TCT
* *
18716 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
18743 TTTCAAAGCCCACAAGTTAATCGCTTCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
18771 TTTCAAAGCCCACAAGGT-AGTGGCACCC
1 TTTCAAAGCCCACAA-GTCAGTGGCATCT
* *
18799 TTTCAAAGCCCACAAGTAAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
18827 TTTCGAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
18855 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
18883 TTTCAAAGCCCACAAGTCAGTAGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
18910 CTTTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
*
18939 TTTCAAAACCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
18967 TTTCGAAA-ACCACAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
18995 TTTCCAAGCCTACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
19023 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
19051 CTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
19080 CTTCAAAAGCCCACAAGTCAGTGGCATCA
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
19109 TTTCAAAGCCCACAAGTCAGCGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* *
19138 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19165 TTTCAAATCACACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* **
19193 CTTCAAAGAACACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19221 CTTCAAAAGACCC-TAAGTCAGTGGCATCC
1 TTTC-AAAG-CCCACAAGTCAGTGGCATCT
19250 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19278 TATCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
19306 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
19334 TTTCAACGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* *
19363 TTT-AAAGCCC-CAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
19389 TTTCAAAACTCACAAGTCAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
19417 TTTCAAAGCCCACAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
** *
19445 TTTCAAAGCAAACAAGTCAATGGCATC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
19472 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * *
19501 TTTCAAAGCCCATAAATGAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
19529 TTTCAAAACCCATAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19557 TTTCAAAACACACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19585 CTTCAAAAGACCACAAGTCAGTGGTATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * *
19614 CTTCAAAAGACCACAGGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
19643 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19671 TTTCAAAGCCCACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
19699 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
19727 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
19755 TTTCAAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19783 CTTTAAAAACCCACAAGTCAATGGCATCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19812 CTTTAAAAACCCACAAGTCAATGGCATCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
19841 TTTTAAA-CCCACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19868 TTT-AAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
19895 TTTCAAAG-CCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
19922 CTTCAAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
19951 CTTTAAAAGCCCACAAGT-ACTGGCAACT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
19979 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
20007 TTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
* * *** * *
20036 TTTAAAAGCCCACAAGTTAGTAATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
20064 TTTCAAAGCCCACAAGTTAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
20092 TTT-AAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
20119 TTTCAAAGCCCACAAGTCAGTGGTACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
20147 TTTCAATGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
20175 TTTCAAAGCCCACAAGTCAAGTGGCATCC
1 TTTCAAAGCCCACAAGTC-AGTGGCATCT
*
20204 TTTCAAAGCTCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
20232 CTTCAAAAGCCCACAAGTTAGTGGCATC-
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
20260 CTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
20288 TTTCAAAGCCTACAAGTTAGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
20316 TTTGAAAGCCTACAAGTTAGTTGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
20344 CTTCAAAGCTCACAAGTTAGTGGCAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
20371 TTTCTAAGGCCCACAAGGT-AGTGGTACCCT
1 TTTC-AAAGCCCACAA-GTCAGTGGCA-TCT
* * *
20401 TTT--AATCCCATAAGT-AGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
20426 TTTC-AAG-CCACAAGTTAAG-GGCTTC-
1 TTTCAAAGCCCACAAG-TCAGTGGCATCT
* * * *
20451 TTTCAAAGCCCATAAGTAAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
20479 TTTCAAAGCCCACAAGTAAGTGGCAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
20506 CTTTCAAAGTCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
20535 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
20563 TTTCAAAGCCCACAAGTTAGTAGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
20590 CTATGAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
20619 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
** * * * *
20647 TTTTGAAGACCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
20675 TTTCAAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
20703 TTTCGAAA-ACCACAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
20731 TTTCAAAG-CTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
20758 TTTCAAAGCCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
20786 CTTCAAAAGCCCATAAGTCAGTGGCATAT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
20815 TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
*
20844 TTT-AAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* *
20872 TTT-AAAGCCCAC-AGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
20898 TTTCAAAACCCACAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* ** *
20926 CTTCAAAAGAACACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * * *
20955 CTTCAAAGGACCATAAGTTAGTGGTATCC
1 TTTCAAA-GCCCACAAGTCAGTGGCATCT
*
20984 TTTCAAAACCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * *
21012 TATCAAAGCTCATAAGTTAATGGCTTC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21039 TTTCAAAG-CCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
21066 TTTCAAAGCCCACAAGTTAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21094 TTTCAAAAG-CCACAAGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * *
21122 TTTCAAAACTCACAAGTCAGTGGTATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
21150 TTAC-AAGCGCACAAGTTAGTGGCAAC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
21176 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
21204 CTTCAAAAACTCATAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * * *
21233 TTTCAAAGCCCATAAATGAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21261 TTTCAAAGCCCACAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21289 TTTCAAAACCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21317 CTTCAAAAGACCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * *
21346 CTTCAAAAGACCACAGGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
21375 TTTCAAAGCCCACAAGTTAGTGGCATC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
21402 TTTCAAAGCCCACAAGTCAGTGGCATGC-
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
*
21430 TTTCAAAGCCCACAAGT-AGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
21457 TTTCAAAGCCCATAAGTGAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
21485 TTTCAAAGCCCACAAGTCTA-TGGCATC-
1 TTTCAAAGCCCACAAGTC-AGTGGCATCT
* * *
21512 TCTCAAAAAG-CCAAAAGTCAAT-GCATCT
1 TTTC--AAAGCCCACAAGTCAGTGGCATCT
*
21540 TTTCAAAGCCCACAAGTCAGT-GCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
21566 TTT-AAA-CCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21592 TTTCAAAGCCCACAAGTTAGTGAC-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
21619 CTTCGAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * *
21648 CTTTAAAAGCCCACAAGT-AATGGTAACT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
21676 TTTCACAA-CCCACAAGTCAGTGGCACCC
1 TTTCA-AAGCCCACAAGTCAGTGGCATCT
*
21704 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
21732 TGT-AAAGCCCACAAGT-AGTAGTAACACCC
1 TTTCAAAGCCCACAAGTCAGT-G--GCATCT
* * *
21761 TTTCAAAG-CCACAAAGTTAGT-GTATCC
1 TTTCAAAGCCCAC-AAGTCAGTGGCATCT
*
21788 TTT-AAAGCCCACAAGTCCGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
21815 TTTCAAAAG-GCACAAGTTAGTGGCACCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * *
21843 TTTCAATGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
21871 TTTC-AAG-CCATAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
21897 TTTCAAAGCTCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
21925 CTTCAAAGCCTACAAGTCAGTGGCATAT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
21953 TTTCAAAG-CCACAAGTCAGTGCCA-CAT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* * * *
21980 TTTCAAAGCCTACAATTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
22008 TTTCAAAGCCCAC-AGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
22035 CTTCAAAAGACCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
22064 CTTCAAAAGACCACAAGTCAGTTGGCATCT
1 TTTC-AAAGCCCACAAGTCAG-TGGCATCT
* * * *
22094 TTTTAAAGCCCACATGTTAGTGGCATAT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
22122 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
22150 TTTCAAAGCCCATAAGTTAAGTGGCAT-T
1 TTTCAAAGCCCACAAG-TCAGTGGCATCT
* *
22178 CTTTCAAAGCCCA-AAGTCAGCGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
22206 TTTCAAAG-CCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
22233 TTTCAAAGCCCACAAGTCAATGGCATACCA
1 TTTCAAAGCCCACAAGTCAGTGGCAT--CT
* * *
22263 TTTCAAAGCCTACACAAATCAATGGCA-CC
1 TTTCAAAGCC--CACAAGTCAGTGGCATCT
* * *
22292 TTCCAAAGCCCATAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* * * *
22321 TTT-AAAGCCTACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
22348 CTTCAAAGCCCATAAGTCAGT-GCATCCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT---CT
*
22378 TTTTAAAGCCCACA
1 TTTCAAAGCCCACA
22392 CAAGTCGGTG
Statistics
Matches: 3151, Mismatches: 491, Indels: 238
0.81 0.13 0.06
Matches are distributed among these distances:
24 11 0.00
25 20 0.01
26 102 0.03
27 505 0.16
28 1852 0.59
29 590 0.19
30 54 0.02
31 3 0.00
32 14 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:22599 original size:21 final size:22
Alignment explanation
Indices: 22532--22600 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 22
22522 CAGCATATTG
22532 GCACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
* * * *
22554 GCTAGCCTTGAATCAGCACATTGTC
1 GC-A-CCTT-TATTAGCTCAATGTC
22579 -CACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
22600 G
1 G
22601 GTGGCCTTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
21 11 0.31
22 6 0.17
23 2 0.06
24 5 0.14
25 11 0.31
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (22 bp):
GCACCTTTATTAGCTCAATGTC
Found at i:22653 original size:47 final size:47
Alignment explanation
Indices: 22507--22706 Score: 237
Period size: 47 Copynumber: 4.3 Consensus size: 47
22497 AAGTCCGATA
* * * * *
22507 TCGCTGGCATTGAATCAGCATATTG-GCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTAGCTCAATG
* * *
22552 TCGCTAGCCTTGAATCAGCACATTGTCCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTAGCTCAATG
*
22598 TCGGTGGCCTTG-ATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTT-CCTTAGCTCAATG
* * * *
22645 TCGCTGGCCTTGAATCATCACATGGTCAACTTTTCCTTAGCTCGATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTAGCTCAATG
*
22692 TCGTTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
22707 TGGCACATGG
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 42 0.31
46 29 0.21
47 48 0.35
48 18 0.13
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTAGCTCAATG
Found at i:23434 original size:20 final size:19
Alignment explanation
Indices: 23409--23573 Score: 130
Period size: 20 Copynumber: 8.8 Consensus size: 19
23399 TTTTACCCAG
23409 ATGTATCGATACAGTTTTCA
1 ATGTATCGATACA-TTTTCA
* *
23429 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
23449 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
23469 ATGTATCGATACATTTT--
1 ATGTATCGATACATTTTCA
*** *
23486 AT-T-TTTTTAC----CCA
1 ATGTATCGATACATTTTCA
23499 GATGTATCGATACATTTTCA
1 -ATGTATCGATACATTTTCA
* * *
23519 ATGTATCAATACATGTATGA
1 ATGTATCGATACAT-TTTCA
23539 ATGTATCGATACATTATTCA
1 ATGTATCGATACATT-TTCA
*
23559 ATGTATCGTTACATT
1 ATGTATCGATACATT
23574 CTATCTTTTT
Statistics
Matches: 113, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
14 2 0.02
15 5 0.04
16 5 0.04
17 2 0.02
19 18 0.16
20 81 0.72
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:23551 original size:90 final size:92
Alignment explanation
Indices: 23398--23623 Score: 368
Period size: 90 Copynumber: 2.5 Consensus size: 92
23388 AAAAGTCACA
23398 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
* *
23463 TCTTCAATGTATCGATACATTTTAT-T
66 TATTCAATGTATCGATACATTCTATCT
*
23489 TTTTTACCCAGATGTATCGATACA-TTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
23553 TATTCAATGTATCGTTACATTCTATCT
66 TATTCAATGTATCGATACATTCTATCT
* * *
23580 TTTTT-TCCAAATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACAT
23624 CTAGTTAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
90 77 0.61
91 49 0.39
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (92 bp):
TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TATTCAATGTATCGATACATTCTATCT
Found at i:23606 original size:21 final size:20
Alignment explanation
Indices: 23582--23623 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
23572 TTCTATCTTT
23582 TTTTCCAAATGTATCGATACA
1 TTTTCC-AATGTATCGATACA
*
23603 TTTTTCAATGTATCGATACA
1 TTTTCCAATGTATCGATACA
23623 T
1 T
23624 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:27287 original size:23 final size:23
Alignment explanation
Indices: 27261--27316 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
27251 CTTATATAAC
*
27261 TAAACTCGATTTAATCCGAATAT
1 TAAACTCGATTTAATCCAAATAT
* * *
27284 TAAACTC-AATTAATTCAAATGT
1 TAAACTCGATTTAATCCAAATAT
27306 TAAACTCGATT
1 TAAACTCGATT
27317 GCTCTGTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (23 bp):
TAAACTCGATTTAATCCAAATAT
Done.