Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 11 of 14
Found at i:1302385 original size:125 final size:123
Alignment explanation
Indices: 1302161--1303194 Score: 833
Period size: 125 Copynumber: 8.3 Consensus size: 123
1302151 GGTGGCACCT
* * * * *
1302161 CCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTTCTCAAAGAGCATGATGCCT
1 CCTTTT-CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * *
1302226 TTTTT-TCTTATAAAGCCTATACGAGTTGGTGGCACCTATTAGTCCTTAAAAG-GCAAGACG
65 TTTTTCT-TTTTAAAGCCCACACGAGTTGGTGGCACCT-TTAGTCC-TAAAAGAGCAAGACG
* * * * * * * *
1302286 CGTTTTCTTTTGAAAAGCACACACAAGTCGGTGGAACCTTTTAGTCCTCAAAGAGTAAGATGCCT
1 CCTTTTCTTTT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
** * * *
1302351 TTTTTCTTTTTAAAGCCCACGTGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGACATT
65 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTAAAAGAGCAAGAC--G
** *
1302413 TTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGTC-T
1 CCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTT
* ** * * *
1302477 TTTCCTTTTCGAAGCCCACAAGAGTTGGTGGCACCTTTCAGT-CTACAAAGAGCATGACA
66 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTA-AAAGAGCAAGACG
* * * *
1302536 CCTTTTTTTCTTATAAAGCCCATATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGTC
1 CCTTTTCTT-TT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC
* * * * ** *
1302601 TTTTTTCATTTTAAAGCCCACATGAGTTGATGGCACCTTGTAGTCCTCAATTAGCAGGACG
64 TTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTT-TAGTCCTAAAAGAGCAAGACG
* * * * * * *
1302662 CCTTTTTATTTTTAAAGTCCACATGAGTTGATGGCACCTTTTAGTCCTCAAGGAGCAGGACGCTT
1 CC-TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * * * *
1302727 TTTTTCATTGTAAAGCCCACACGAGTTAGTGGCACCTTTTAGTCCTCAAAGTGCAGGATG
65 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC-TTTAGTCCTAAAAGAGCAAGACG
* ***
1302787 CCTTTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGGTAC
1 CC--TTTT-CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGC
* * ** ** * * * *
1302852 CTATTTT-TTTTTAAAGCTCACAAAAGTTCATGGCACTTATTAGTCTTCAAAGAGTAAGA-G
63 CTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT-TTAGTCCTAAAAGAGCAAGACG
* * * * * ** *
1302912 CTTTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCTTTTAGACGTCAAAGAACAGGACG-T
1 C--CTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC
* * * * * * * * *
1302976 TTTTTTCTTTTCAAAGCCTACAAGAGTGGGTGGCACCTTTTAGACCTCAAAGACCAGGATG
64 TTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC-TTTAGTCCTAAAAGAGCAAGACG
* * * * * * ** *
1303037 CTTTTTTCTTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGACCTTAAAGACCAGGATG-CT
1 C-CTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * ** * * *
1303101 TGTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCCAAGACCAGGATG
65 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC-TTTAGTCCTAAAAGAGCAAGACG
* *
1303161 CTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
1 C-CTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
1303195 TAGCTAGACA
Statistics
Matches: 755, Mismatches: 132, Indels: 45
0.81 0.14 0.05
Matches are distributed among these distances:
123 11 0.01
124 241 0.32
125 296 0.39
126 138 0.18
127 69 0.09
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (123 bp):
CCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTT
TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTAAAAGAGCAAGACG
Found at i:1302526 original size:62 final size:62
Alignment explanation
Indices: 1302162--1303194 Score: 906
Period size: 62 Copynumber: 16.5 Consensus size: 62
1302152 GTGGCACCTC
* * * * *
1302162 CTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTTCTCAAAGAGCATGATGC
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * * * *
1302224 CTTTTT-TTCTTATAAAGCCTATACGAGTTGGTGGCACCTATTAGTCCTTAAA-AGGCAAGACG-
1 CTTTTTCTT-TT-CAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GCAGGACGT
* * * * * * * * * *
1302286 CGTTTTCTTTTGAAAAGCACACACAAGTCGGTGGAACCTTTTAGTCCTCAAAGAGTAAGATGC
1 CTTTTTCTTTT-CAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* ** * * * *
1302349 CTTTTTTCTTTTTAAAGCCCACGTGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGACATT
1 C-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-GT
* * *
1302413 TTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGT
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * * * **
1302475 CTTTTCCTTTTCGAAGCCCACAAGAGTTGGTGGCACCTTTCAGT-CTACAAAGAGCATGACAC
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT-CAAAGAGCAGGACGT
* * * *
1302537 CTTTTT-TTCTTATAAAGCCCATATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGT
1 CTTTTTCTT-TT-CAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * ** *
1302600 CTTTTTTCATTTT-AAAGCCCACATGAGTTGATGGCACCTTGTAGTCCTCAATTAGCAGGACGC
1 C-TTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * * * *
1302663 CTTTTTATTTTTAAAGTCCACATGAGTTGATGGCACCTTTTAGTCCTCAAGGAGCAGGACGCT
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG-T
* * * * * *
1302726 TTTTTTCATTGT-AAAGCCCACACGAGTTAGTGGCACCTTTTAGTCCTCAAAGTGCAGGATGC
1 CTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * *
1302788 CTTTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGGTACC
1 C-TTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-GG-ACG
1302853 T
62 T
* * ** ** * * *
1302854 ATTTTT-TTTT-AAAGCTCACAAAAGTTCATGGCA-CTTATTAGTCTTCAAAGAGTAAGA-GCT
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT-TTAGTCCTCAAAGAGCAGGACG-T
* * * * *
1302914 TTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCTTTTAGACGTCAAAGAACAGGACGT
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * * * * *
1302976 TTTTTTCTTTTCAAAGCCTACAAGAGTGGGTGGCACCTTTTAGACCTCAAAGACCAGGATG-
1 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * * * *
1303037 CTTTTTTCTTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGACCTTAAAGACCAGGATG-
1 C-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
* * * * *
1303099 CTTGTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCCAAGACCAGGATG-
1 CTT-TTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
1303161 CTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
1 C-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
1303195 TAGCTAGACA
Statistics
Matches: 809, Mismatches: 130, Indels: 64
0.81 0.13 0.06
Matches are distributed among these distances:
60 7 0.01
61 20 0.02
62 422 0.52
63 288 0.36
64 60 0.07
65 9 0.01
66 3 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (62 bp):
CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
Found at i:1302528 original size:188 final size:184
Alignment explanation
Indices: 1302163--1303194 Score: 959
Period size: 188 Copynumber: 5.5 Consensus size: 184
1302153 TGGCACCTCC
* * * *
1302163 TTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTTCTCAAAGAGCATGATGCCTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CTTTT
* * * * * *
1302228 TTTTC-TTATAAAGCCTATACGAGTTGGTGGCACCTATTAGTCCTTAAA-AGGCAAGACGCGTTT
64 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GCAGGACGC-TTT
* * * * * *
1302291 TCTTTTGAAAAGCACACACA-AGTCGGTGGAACCTTTTAGTCCTCAAAGAGTAAGATGCCT
127 TCTTTT-CAAAGCCCACA-AGAGTTGGTGGCACCTTTTAGT-CTCAAAGAGCAAGACGCCT
* ** * * *
1302351 TTTTTCTTTTTAAAGCCCACGTGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGACATTTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-TTTTT
*
1302416 TTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGTCTTTTC
65 TTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG-CTTTT-
* * * *
1302481 CTTTTCGAAGCCCACAAGAGTTGGTGGCACCTTTCAGTCTACAAAGAGCATGACACCTT
128 CTTTTCAAAGCCCACAAGAGTTGGTGGCACCTTTTAGTCT-CAAAGAGCAAGACGCC-T
* * * * *
1302540 TTTTTCTTAT-AAAGCCCATATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGTCTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-TTTTT
* * * * **
1302604 TTTCATTTTAAAGCCCACATGAGTTGATGGCACCTTGTAGTCCTCAATTAGCAGGACGCCTTTTT
65 TTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG-C-TTTT
* * * * * * * *
1302669 ATTTTTAAAGTCCACATGAGTTGATGGCACCTTTTAGTCCTCAAGGAGCAGGACGCTT
128 CTTTTCAAAGCCCACAAGAGTTGGTGGCACCTTTTAGT-CTCAAAGAGCAAGACGCCT
* * * *
1302727 TTTTTCATTGT-AAAGCCCACACGAGTTAGTGGCACCTTTTAGTCCTCAAAGTGCAGGATGCCTT
1 TTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CTTT
* * *
1302791 TTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGGTAC-CTA
63 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-GG-ACGCT-
* * * * ** * *
1302855 TTTTTTTTTAAAGCTCACAAAAGTTCATGGCA-CTTATTAGTCTTCAAAGAGTAAGA-GCTT
125 TTTCTTTTCAAAGCCCACAAGAGTTGGTGGCACCTT-TTAGTC-TCAAAGAGCAAGACGCCT
* * * * *
1302915 TTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCTTTTAGACGTCAAAGAACAGGACGTTTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACTTTTTT
* * * * * * *
1302980 TTCTTTTCAAAGCCTACAAGAGTGGGTGGCACCTTTTAGACCTCAAAGACCAGGATGCTTTTTTC
66 TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC--TTTTC
* * * * * * *
1303045 TTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGACCTTAAAGACCAGGATG-CT
129 TTTTCAAAGCCCACAAGAGTTGGTGGCACCTTTTAG-TCTCAAAGAGCAAGACGCCT
* * * * * *
1303101 TGTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCCAAGACCAGGA-TGCTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACT-TTTT
*
1303165 TTTCTTTTCAAAGCCCACACGAGTTGGTGG
65 TTTCTTTTTAAAGCCCACACGAGTTGGTGG
1303195 TAGCTAGACA
Statistics
Matches: 698, Mismatches: 120, Indels: 54
0.80 0.14 0.06
Matches are distributed among these distances:
184 1 0.00
185 3 0.00
186 170 0.24
187 27 0.04
188 379 0.54
189 113 0.16
190 3 0.00
191 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (184 bp):
TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACTTTTTT
TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTTCTT
TTCAAAGCCCACAAGAGTTGGTGGCACCTTTTAGTCTCAAAGAGCAAGACGCCT
Found at i:1303315 original size:63 final size:63
Alignment explanation
Indices: 1303207--1304825 Score: 1055
Period size: 62 Copynumber: 25.7 Consensus size: 63
1303197 GCTAGACACC
* * * * * * *
1303207 TTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAGTCCTCAAAGAGTAGAATGCCA
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * ** *
1303270 TTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACACTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * * *
1303333 TTTTTCTCTTT-AAAGCTCGCACGAGTTGGTGGTACCATTTAGTCATCAAAGAGCAGGA--CATT
1 TTTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC-CT
* * * * * ** * *
1303395 TTTTTCTTTTTAAAGCCTATACTAGTTGGTGCCACCTTTTAGTCCTTGAAGAGAAGGATGCTTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC--CT
* * * * *
1303460 CTTTTTCTTTCTCAAAGCCTACACAAATTGGTGGGAACTTTTAGTCCTCAAAGAGCAGGATGCC-
1 -TTTTTCTTT-TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* ** * * * * * * * *
1303524 TTTTTCTTTTCAAAACCTGCACGTGTTGATGGCACTTTTTAGTCCTCTAACAGAAGGACGCTTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC-CT
* * * * * * * * * *
1303588 TTTTTCTTTT-AACGCTCACACAAGTTGATAGAACTTTTTAGTCCTCAAAGAGTAAGACGCC-
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * * * * * *
1303649 TTTTTCTTTTCAAAGACCACATGAGTTGATGGCACCTTGTAGTCCACCAAGAGTAGGACGGC-
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * ** *
1303711 ATTTTCATTTTC-AAGCCCACAAGAGTTGGTAGCATTTTTTAGTCCTCAAAGAGCAAGATGCC-
1 TTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * * * * * * * *
1303773 --TAT-TATTAAAAGCCTAAACAAGTTAGG-GGCACATTTTAGTCCTTAAAGAACATGTTGCC-
1 TTTTTCTTTTCAAAGCCCACACGAGTT-GGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * *
1303832 TTTTTCATTTCAAAAGCCCACACGAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCC-
1 TTTTTCTTTTC-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
** ** *
1303895 TTTTTCTTTTCAAAGCCCATGCGAGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAGGATG-CA
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * ** * *
1303957 TTTTCCTTTTGAAAGCCCACACGAGTTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC-
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * **
1304019 TTTTCCTTTTCAAAGCCCACACGAGTTTGTGGCACCTTTTAGTCCTCACCTTTTAGTCCTTAAAA
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCA-----AAG------AGC
* * *
1304084 AGTAAG-AT
55 AGGATGCCT
* ** * * *
1304092 GCTTTTTTTCTTCTCAAAGCCTGCACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGT
1 --TTTT--TCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC
*
1304157 TT
62 CT
* * * * * *
1304159 TTTTTCTTTTTAAAACCCACACGAATTGGTGGCACCTTTTAGTCTTCGAAGAGTAGG-T-CACT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC-CT
* * * * ** * *
1304221 TTTTACTTTTTC-AAGCCCACATGAGTTAGTGGCACCTTTTAGTCTTTGAATAGTAGGATGCTTT
1 TTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC---
*
1304285 CC
62 CT
* * *
1304287 TTTTTCTTTCTCAAAACCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAACAGCAGGATG-CT
1 TTTTTCTTT-TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * *
1304350 TTTTTACTTTTTAAAGCCCACACGAGTTGGTAGTACTTTTTAGTCCTC--AG-GC--CA--CC-
1 TTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * * * **
1304406 TTTTTCATTTT-AAGGCCCACATGAGTTGATGGTACCTTTTAGTCCTCAATGAGCAAGATATC-
1 TTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* ** * * * ****
1304468 ATTTTCTTTTTTAAGTCCACACGAGTTGATGGCACCTTTTAGTCCTTAAAGAGCAGGACATTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* *
1304531 TTTTTCTTTGT-AAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGATGCCT
1 TTTTTCTTT-TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * *
1304594 TTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCTA-CTTTTAGTCTTCAAAGAGCAGGATGCC-
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGC-ACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * * * * *
1304656 TTTTTCTTTTCAAAGCCCAAACGAGTTGGTGACACCTTCTAGTCCTTAAAAAGCATGATGCCTT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC-T
* * * * * * * * **
1304720 TTTTTCTTTT-ATAGCCCTCATGAGTTTGTGTCTCCTTTTAGTTCTCAAAGAGCAAGACACC-
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
* * *
1304781 ATTTTCTTTTCAAAGCCCACACGAGTTGGTGACATCTTTTA-TCCT
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT
1304826 TTTGTTGCTG
Statistics
Matches: 1215, Mismatches: 276, Indels: 132
0.75 0.17 0.08
Matches are distributed among these distances:
55 32 0.03
56 9 0.01
57 2 0.00
58 6 0.00
59 36 0.03
60 7 0.01
61 35 0.03
62 470 0.39
63 422 0.35
64 31 0.03
65 9 0.01
66 21 0.02
67 86 0.07
72 1 0.00
73 5 0.00
75 4 0.00
77 39 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (63 bp):
TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCT
Found at i:1303336 original size:169 final size:169
Alignment explanation
Indices: 1303039--1303366 Score: 410
Period size: 169 Copynumber: 1.9 Consensus size: 169
1303029 CCAGGATGCT
* * * * * *
1303039 TTTTTCTTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGACCTTAAAGACCAGGATGCTTGT
1 TTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCATTTAGACCTCAAAGACCAGAATGCTTGT
* * * **
1303104 TTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCCAAGACCAGGATGC-TTTTTT
66 TCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGACCTCAAAGACCAGGACACTTTTTTT
1303168 CT-TTTCAAAGCCCACACGAGTTGGTGGTAGCTAGACACC
131 CTCTTT-AAAGCCCACACGAGTTGGTGGTAGCTAGACACC
* * * **
1303207 TTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAGTCCTCAAAGAGTAGAATGCCATT
1 TTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCATTTAGACCTCAAAGACCAGAATG-C-TT
* * * *
1303272 -TTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACACTTTTT
64 GTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGACCTCAAAGACCAGGACACTTTTT
* *
1303336 TTCTCTTTAAAGCTCGCACGAGTTGGTGGTA
129 TTCTCTTTAAAGCCCACACGAGTTGGTGGTA
1303367 CCATTTAGTC
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
168 49 0.37
169 51 0.38
170 31 0.23
171 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (169 bp):
TTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCATTTAGACCTCAAAGACCAGAATGCTTGT
TCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGACCTCAAAGACCAGGACACTTTTTTT
CTCTTTAAAGCCCACACGAGTTGGTGGTAGCTAGACACC
Found at i:1303434 original size:126 final size:124
Alignment explanation
Indices: 1303207--1304820 Score: 307
Period size: 125 Copynumber: 12.8 Consensus size: 124
1303197 GCTAGACACC
* * * *
1303207 TTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAGTCCTCAAAGAGTAGAATGCCATT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAAT--CATT
*
1303272 TTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACACTT
64 TTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * *
1303333 TTTTTCTCTTTAAAGCTCGCACGAGTTGGTGGTACCATTTAGTCATCAAAGAGCAGGACAT-TTT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCA-GA-ATCATT
* * * * * * * ** * **
1303397 TTTCTTTTTAAAGCCTATACTAGTTGGTGCCACCTTTTAGTCCTTGAAGAGAAGGATGCTT
64 TTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * ** * * * * *
1303458 TTCTTTTTCTTTCTCAAAGCCTACACAAATTGGTGGGAACTTTTAGTCCTCAAAGAGCAGGATGC
1 TT-TTTCTC-TT-T-AAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAAT-C
* * * ** * * * * * * * *
1303523 CTTTTTCTTTTCAAAACCTGCACGTGTTGATGGCACTTTTTAGTCCTCTAACAGAAGGACGCTT
61 ATTTTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * * * * ** * * ** *
1303587 TTTTT-TCTTTTAACGCTCACACAAGTTGATAGAACTTTTTAGTCCTCAAAGAGTAAGACGCCTT
1 TTTTTCTC-TTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAG-CAGAATCATT
* * * * * * * * * * * *
1303651 TTTCTTTTCAAAGACCACATGAGTTGATGGCACCTTGTAGTCCACCAAGAGTAGGACGGC--
64 TTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGAC-ACTT
* * * * * *** * *
1303711 ATTTTCAT-TTTCAAGCCCACAAGAGTTGGTAGCATTTTTTAGTCCTCAAAGAGCA-AGATGC-C
1 TTTTTC-TCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGA-AT-CAT
* * * * * * * * * * * * *** *
1303773 TAT--TATTAAAAGCCTAAACAAGTTAGG-GGCACATTTTAGTCCTTAAAGAACATGTTGC-C
63 TTTCCTTTTCAAAGCCCACACGAGTT-GGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * * * ** *
1303832 TTTTTCAT-TTCAAAAGCCCACACGAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCT
1 TTTTTC-TCTT-TAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAG-CAGAATCAT
* ** * * * ** ** *
1303896 TTTTCTTTTCAAAGCCCATGCGAGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAGGATGC-A
63 TTTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * ** * * * ** *
1303957 TTTTCCT-TTTGAAAGCCCACACGAGTTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTT
1 TTTTTCTCTTT-AAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCA-GAATCATT
* * * *
1304021 TTCCTTTTCAAAGCCCACACGAGTTTGTGGCACCTTTTAGTCCTCACCTTTTAGTCCTTAAAAAG
64 TTCCTTTTCAAAGCCCACACGAG--T-TGG-------T-G--C-CACTTTTTTGTCCTCAAAGAG
* * **
1304086 TAAGATGCTT
115 CAGGACACTT
* ** * * * * * **
1304096 TTTTTCT-TCTCAAAGCCTGCACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGTTTT
1 TTTTTCTCT-TTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGC-AGA-ATCAT
* * * * * * * * * * *
1304160 TTTTCTTTTTAAAACCCACACGAATTGGTGGCACCTTTTAGTCTTCGAAGAGTAGGTCAC-T
63 TTTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * * * * * * * **
1304221 TTTTACTTTTTCAAGCCCACATGAGTTAGTGGCACCTTTTAGTCTTTGAATAGTAGGATGCTTTC
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTC-ATCAA-AG-AGCA-G-AATC
* * * * * * * * **
1304286 CTTTTTCTTTCTCAAAACCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAACAGCAGGATGCTT
61 ATTTTCCTTT-TCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * * ** * * * *
1304351 TTTTACTTTTTAAAGCCCACACGAGTTGGTAGTACTTTTTAGTCCTC--AG-GC--CACCTTTTT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAATCATTTT
* * * * ** * * * * * *
1304411 CATTTT-AAGGCCCACATGAGTTGATGGTACCTTTTAGTCCTCAATGAGCAAGATA-TC
66 CCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * * * * * * **
1304468 ATTTTCTTTTTTAAGTCCACACGAGTTGATGGCACCTTTTAGTCCTTAAAGAGCAGGACATTTTT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCA-GA-ATCATT
* * * * * ** *
1304533 TTTCTTTGT-AAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGATGCCT
64 TTCCTTT-TCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
* * * * * * * *
1304594 TTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCTA-CTTTTAGTCTTCAAAGAGCAGGATGCCTT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGC-ACCATTTAGTCATCAAAGAGCAGAAT-CATT
* * * * * * * * *
1304658 TTTCTTTTCAAAGCCCAAACGAGTTGGTGACACCTTCTAGTCCTTAAAAAGCATGATGC-CTT
64 TTCCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGA--CACTT
* * * * * * * * *
1304720 TTTTTCT-TTTATAGCCCTCATGAGTTTGTGTCTCCTTTTAGTTC-TCAAAGAGCAAGACACCAT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAG-TCATCAAAGAGC-AGA-ATCAT
*
1304783 TTT-CTTTTCAAAGCCCACACGAGTTGGTGACATCTTTT
63 TTTCCTTTTCAAAGCCCACACGAGTTGGTGCCA-CTTTT
1304821 ATCCTTTTGT
Statistics
Matches: 1144, Mismatches: 274, Indels: 140
0.73 0.18 0.09
Matches are distributed among these distances:
117 39 0.03
118 41 0.04
119 3 0.00
120 12 0.01
121 42 0.04
122 41 0.04
123 7 0.01
124 128 0.11
125 373 0.33
126 151 0.13
127 18 0.02
128 20 0.02
129 131 0.11
130 40 0.03
134 1 0.00
135 1 0.00
137 3 0.00
138 24 0.02
139 46 0.04
140 23 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (124 bp):
TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAATCATTTT
CCTTTTCAAAGCCCACACGAGTTGGTGCCACTTTTTTGTCCTCAAAGAGCAGGACACTT
Found at i:1303491 original size:67 final size:68
Alignment explanation
Indices: 1303395--1303533 Score: 165
Period size: 67 Copynumber: 2.1 Consensus size: 68
1303385 GCAGGACATT
* * * * * **
1303395 TTTTTCTTTTTAAAGCCTATACTAGTTGGTGCCACCTTTTAGTCCTTGAAGAGAAGGATG-C-TT
1 TTTTTCTTTTCAAAGCCTACACAAATTGGTGCCAACTTTTAGTCCTCAAAGAGAAGGATGCCTTT
1303458 TTC
66 TTC
** *
1303461 TTTTTCTTTCTCAAAGCCTACACAAATTGGTGGGAACTTTTAGTCCTCAAAGAGCAGGATGCCTT
1 TTTTTCTTT-TCAAAGCCTACACAAATTGGTGCCAACTTTTAGTCCTCAAAGAGAAGGATGCCTT
1303526 TTTC
65 TTTC
1303530 TTTT
1 TTTT
1303534 CAAAACCTGC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 9 0.15
67 41 0.68
68 1 0.02
69 9 0.15
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (68 bp):
TTTTTCTTTTCAAAGCCTACACAAATTGGTGCCAACTTTTAGTCCTCAAAGAGAAGGATGCCTTT
TTC
Found at i:1304070 original size:14 final size:14
Alignment explanation
Indices: 1304051--1304078 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1304041 GAGTTTGTGG
1304051 CACCTTTTAGTCCT
1 CACCTTTTAGTCCT
1304065 CACCTTTTAGTCCT
1 CACCTTTTAGTCCT
1304079 TAAAAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.07, T:0.43
Consensus pattern (14 bp):
CACCTTTTAGTCCT
Found at i:1304120 original size:77 final size:76
Alignment explanation
Indices: 1303989--1304143 Score: 211
Period size: 77 Copynumber: 2.0 Consensus size: 76
1303979 GAGTTAATGG
* * * *
1303989 CACCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTTGTGGCAC
1 CACCTTTTAGTCCTCAAAAAGTAAGACGCCTTTTCCTTCTCAAAGCCCACACGAGTTGGTGGCAC
1304054 CTTTTAGTCCT
66 CTTTTAGTCCT
* * * * **
1304065 CACCTTTTAGTCCTTAAAAAGTAAGATGCTTTTTTTCTTCTCAAAGCCTGCACGAGTTGGTGGCA
1 CACCTTTTAGTCCTCAAAAAGTAAGACGC-CTTTTCCTTCTCAAAGCCCACACGAGTTGGTGGCA
1304130 CCTTTTAGTCCT
65 CCTTTTAGTCCT
1304142 CA
1 CA
1304144 AAAAGCAAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
76 25 0.37
77 43 0.63
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (76 bp):
CACCTTTTAGTCCTCAAAAAGTAAGACGCCTTTTCCTTCTCAAAGCCCACACGAGTTGGTGGCAC
CTTTTAGTCCT
Found at i:1304239 original size:202 final size:199
Alignment explanation
Indices: 1303865--1304264 Score: 507
Period size: 202 Copynumber: 2.0 Consensus size: 199
1303855 GAGTTGGTAG
* *
1303865 CACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTTTCTTTTCAAAGCCCATGCGAGTTGGTGGCAC
1 CACCTTTTAGTCCTCAAAAAGTAAGACGCCTTTTTCTTCTCAAAGCCCA-GCGAGTTGGTGGCAC
** * * * *
1303930 CTTTTAGTTTTCAAAGAGCAGGATGCATTTTCCTTTTGAAAGCCCACACGAGTTAATGGCACCTT
65 CTTTTAGTCCTCAAAAAGCAAGATGCATTTTCCTTTTGAAAACCCACACGAATTAATGGCACCTT
* *
1303995 TTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTTGTGGCACCTTTTA
130 TTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTCAAAGCCCACACGAGTTAGTGGCACCTTTTA
1304060 GTCCT
195 GTCCT
* * *
1304065 CACCTTTTAGTCCTTAAAAAGTAAGATGCTTTTTTTCTTCTCAAAGCCTGCA-CGAGTTGGTGGC
1 CACCTTTTAGTCCTCAAAAAGTAAGACGC-CTTTTTCTTCTCAAAGCC--CAGCGAGTTGGTGGC
** * * **
1304129 ACCTTTTAGTCCTCAAAAAGCAAGATGTTTTTTTTCTTTTTAAAACCCACACGAATTGGTGGCAC
63 ACCTTTTAGTCCTCAAAAAGCAAGATG-CATTTTCCTTTTGAAAACCCACACGAATTAATGGCAC
* * * * * *
1304194 CTTTTAGTCTTCGAAGAGTAGGTCACTTTTTACTTTTTC-AAGCCCACATGAGTTAGTGGCACCT
127 CTTTTAGTCCTCAAAGAGTAGGACACCTTTT-CCTTTTCAAAGCCCACACGAGTTAGTGGCACCT
1304258 TTTAGTC
191 TTTAGTC
1304265 TTTGAATAGT
Statistics
Matches: 170, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
200 26 0.15
201 51 0.30
202 85 0.50
203 8 0.05
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (199 bp):
CACCTTTTAGTCCTCAAAAAGTAAGACGCCTTTTTCTTCTCAAAGCCCAGCGAGTTGGTGGCACC
TTTTAGTCCTCAAAAAGCAAGATGCATTTTCCTTTTGAAAACCCACACGAATTAATGGCACCTTT
TAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTCAAAGCCCACACGAGTTAGTGGCACCTTTTAG
TCCT
Found at i:1304291 original size:67 final size:64
Alignment explanation
Indices: 1304115--1304699 Score: 311
Period size: 63 Copynumber: 9.4 Consensus size: 64
1304105 TCAAAGCCTG
* * * * * * *
1304115 CACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATG-TTTTTTTTCTTTTTAAAACCCA
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
* * * * *
1304178 CACGAATTGGTGGCACCTTTTAGTCTTCGAAGAGTAGG-T-CACTTTTTACTTTTTCAAGCCCA
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
* * * * *
1304240 CATGAGTTAGTGGCACCTTTTAGTCTTTGAATAGTAGGATGCTTTCCTTTTT-CTTTCTCAAAAC
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAGGATGC--T-CTTTTTACTTT-TTAAAAC
1304304 CCA
62 CCA
* * * * *
1304307 CATGAGTTGGTGGCACCTTTTAGTCCTCAAACAGCAGGATGCT-TTTTTACTTTTTAAAGCCCA
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
* * * * * * **
1304370 CACGAGTTGGTAGTACTTTTTAGTC--C--TCAG--GCCA--C-CTTTTT-CATTTTAAGGCCCA
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAG-GATGCTCTTTTTACTTTTTAAAACCCA
* * * * * * * * * * **
1304425 CATGAGTTGATGGTACCTTTTAGTCCTC-AATGAGCAAGAT-ATCATTTT-CTTTTTTAAGTCCA
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAA-CAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
* * * * * * * *
1304487 CACGAGTTGATGGCACCTTTTAGTCCTT-AAAGAGCAGGA--CATTTTTTTTCTTTGTAAAGCCC
1 CACGAGTTGGTGGCACCTTTTAGT-CTTCGAACAGTAGGATGC-TCTTTTTACTTTTTAAAACCC
1304549 A
64 A
* * * * * * * *
1304550 CATGAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTTCCTTTTTAAAGCCCA
1 CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
* * * * * *
1304613 CATGAGTTGGTGGCTA-CTTTTAGTCTTCAAAGAGCAGGATGC-CTTTTT-CTTTTCAAAGCCCA
1 CACGAGTTGGTGGC-ACCTTTTAGTCTTCGAACAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
* * *
1304675 AACGAGTTGGTGACACCTTCTAGTC
1 CACGAGTTGGTGGCACCTTTTAGTC
1304700 CTTAAAAAGC
Statistics
Matches: 421, Mismatches: 74, Indels: 55
0.77 0.13 0.10
Matches are distributed among these distances:
55 33 0.08
56 6 0.01
57 2 0.00
58 1 0.00
59 5 0.01
60 1 0.00
61 2 0.00
62 134 0.32
63 176 0.42
64 6 0.01
65 2 0.00
66 4 0.01
67 49 0.12
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (64 bp):
CACGAGTTGGTGGCACCTTTTAGTCTTCGAACAGTAGGATGCTCTTTTTACTTTTTAAAACCCA
Found at i:1304558 original size:125 final size:124
Alignment explanation
Indices: 1304065--1304825 Score: 496
Period size: 125 Copynumber: 6.1 Consensus size: 124
1304055 TTTTAGTCCT
* * * * * * * **
1304065 CACCTTTTAGTCCTTAAAAAGTAAGATGCTTTTTTTCTTCTCAAAGCCTGCACGAGTTGGTGGCA
1 CACCTTTTAGTCCTCAAAGAGCAAGATAC-TTTTTACTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * ** * *
1304130 CCTTTTAGTCCTCAAAAAGCAAGATGTTTTTTTTCTTTTTAAAACCCACACGAATTGGTGG
65 CCTTTTAGTCCTTAAAGAGCAGGACATTTTTTTTC-TTTTAAAACCCACATGAGTTGGTGG
* * * * * * *
1304191 CACCTTTTAGTCTTCGAAGAG-TAGGTCACTTTTTACTTTTTCAAGCCCACATGAGTTAGTGGCA
1 CACCTTTTAGTCCTCAAAGAGCAAGAT-ACTTTTTACTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
1304255 CCTTTTAGTCTTTGAATAGTAGGATGC-TTTCCTTTTTCTTTCTCAAAACCCACATGAGTTGGTG
65 CCTTTTAGTCCTTAAAGAGCAGGA--CATTT--TTTTTCTTT-T-AAAACCCACATGAGTTGGTG
1304319 G
124 G
* * * * *
1304320 CACCTTTTAGTCCTCAAACAGCAGGATGCTTTTTTACTTTTTAAAGCCCACACGAGTTGGTAGTA
1 CACCTTTTAGTCCTCAAAGAGCAAGATAC-TTTTTACTTTTTAAAGCCCACACGAGTTGGTGGCA
* * ** ** *
1304385 CTTTTTAGTCC-T------CAGGCCA-CCTTTTTCATTTTAAGGCCCACATGAGTTGATGG
65 CCTTTTAGTCCTTAAAGAGCAGGACATTTTTTTTC-TTTTAAAACCCACATGAGTTGGTGG
* * * * * *
1304438 TACCTTTTAGTCCTCAATGAGCAAGATATCATTTT-CTTTTTTAAGTCCACACGAGTTGATGGCA
1 CACCTTTTAGTCCTCAAAGAGCAAGATA-CTTTTTACTTTTTAAAGCCCACACGAGTTGGTGGCA
* *
1304502 CCTTTTAGTCCTTAAAGAGCAGGACATTTTTTTTCTTTGTAAAGCCCACATGAGTTGGTGA
65 CCTTTTAGTCCTTAAAGAGCAGGACATTTTTTTTCTTT-TAAAACCCACATGAGTTGGTGG
* * * *
1304563 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCT
1 CACCTTTTAGTCCTCAAAGAGCAAGAT-ACTTTTTACTTTTTAAAGCCCACACGAGTTGGTGGC-
** * * * *
1304628 A-CTTTTAGT-CTTCAAAGAGCAGG--ATGCCTTTTTCTTTTCAAAGCCCAAACGAGTTGGTGA
64 ACCTTTTAGTCCTT-AAAGAGCAGGACAT-TTTTTTTCTTTT-AAAACCCACATGAGTTGGTGG
* * * * * * * * * * *
1304688 CACCTTCTAGTCCTTAAAAAGCATGATGCCTTTTT-TTCTTTTATAGCCCTCATGAGTTTGTGTC
1 CACCTTTTAGTCCTCAAAGAGCAAGAT-ACTTTTTACT-TTTTAAAGCCCACACGAGTTGGTGGC
* * * * *** * * *
1304752 TCCTTTTAGTTCTCAAAGAGCAAGACA-CCATTTTCTTTTCAAAGCCCACACGAGTTGGTGA
64 ACCTTTTAGTCCTTAAAGAGCAGGACATTTTTTTTCTTTT-AAAACCCACATGAGTTGGTGG
*
1304813 CATCTTTTA-TCCT
1 CACCTTTTAGTCCT
1304826 TTTGTTGCTG
Statistics
Matches: 511, Mismatches: 92, Indels: 66
0.76 0.14 0.10
Matches are distributed among these distances:
117 34 0.07
118 46 0.09
119 8 0.02
120 3 0.01
121 1 0.00
123 3 0.01
124 17 0.03
125 242 0.47
126 65 0.13
127 5 0.01
128 7 0.01
129 39 0.08
130 41 0.08
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (124 bp):
CACCTTTTAGTCCTCAAAGAGCAAGATACTTTTTACTTTTTAAAGCCCACACGAGTTGGTGGCAC
CTTTTAGTCCTTAAAGAGCAGGACATTTTTTTTCTTTTAAAACCCACATGAGTTGGTGG
Found at i:1305203 original size:186 final size:184
Alignment explanation
Indices: 1304836--1306642 Score: 658
Period size: 187 Copynumber: 9.5 Consensus size: 184
1304826 TTTGTTGCTG
* * * ** *
1304836 GCACGTTTTAGTCCTCAAAGAGTA-GAGCACC--TTTTTTAAATGTTCACACAAGTTGGTGGCAC
1 GCACCTTTTAGTCCTTAAAGAGTAGGA-TACCTTTTTTTTAAA-GCACACACGAGTTGGTGGCAC
* ** * ** * ** *
1304898 CTTTTAGTCCTCAAAAAGTAAGATGCCTTTTCCTTTTCAAAACCT-ACATAAGTTGTTCACACTT
64 CTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGCTCACACGAGTTGGTGGCACCT
* * * * * *
1304962 TTTAGT-CTTCAAAGAGTATGACGTCTTTTT-TTCTCATAAGGCCCATACGAGTTGGTA
129 TTTAGTCCTT-AAAGAGTAGGATGCCTTTTTCTTTTCA-AA-GCCCACACAAGTTGGTA
* *
1305019 GCACCTTTTTGTCCTTAAA-AGGTAGGATGCCTTTTTTTTTAACAGCACACACGAGTTGGTGGCA
1 GCACCTTTTAGTCCTTAAAGA-GTAGGATACC-TTTTTTTTAA-AGCACACACGAGTTGGTGGCA
* *
1305083 CCTTGTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTTTAAAGCTCACACGAGTTGGTGGCACC
63 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGCTCACACGAGTTGGTGGCACC
* *
1305148 TTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCGAAGCCCACACAAGTTGGTG
128 TTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTA
* * *
1305205 GCACCTTTTAGTCCTTAAAGAGTAGGCTACCTTTTTTTTAAAGCCCACACGAGTTAGTGGCACCT
1 GCACCTTTTAGTCCTTAAAGAGTAGGATACCTTTTTTTTAAAGCACACACGAGTTGGTGGCACCT
* * ** *
1305270 TTTAGTCCTGAAAGAGCAAGACACCTTTTCC-TTTTTAAAG-TC-CACCTGAGCTGGTGGCACCT
66 TTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGCTCACA-C-GAGTTGGTGGCACCT
* * *
1305332 TTTAGTCCTCAAAGAGTAGGATGCC-TTTTCTTTTTCAAAGCCTACCCAAGTTGGTGACACTTTT
129 TTTAGTCCTTAAAGAGTAGGATGCCTTTTTC-TTTTCAAAGCCCACACAAGTT-G-G--------
1305396 TA
183 TA
* * * * * * * *
1305398 GTCCCACCTTTTAGTCCTCAAGGAATAGGATGCTGTTTTTTTTTCAAAGCCCGCACAAGTTGGTG
1 G---CACCTTTTAGTCCTTAAAGAGTAGGATAC--CTTTTTTTT-AAAGCACACACGAGTTGGTG
* * * *** * * *
1305463 CCACCTTTTAGTCTTCAATGAGTAAGATATTTTTTTC-TTTTTAAAGCAT-ACATGAGTTGGTCG
60 GCACCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGC-TCACACGAGTTGGTGG
** * * * * * *
1305526 CACCTTTTTCTCC-TCAAGCAGGTA--AT--TTTTTTCTTTTTAAAGGCCACATGAA-TTGGTG
124 CACCTTTTAGTCCTTAAAG-A-GTAGGATGCCTTTTTCTTTTCAAAGCCCACA-CAAGTTGGTA
* ** * * * * *
1305584 GCAGCTTTTAGTCCTCGAAGAATAGAATGCTTTCCATTTTCCTTCTCAAAGCCCACACGAGTTGG
1 GCACCTTTTAGTCCTTAAAGAGTAG---G-ATACC-TTTT--TT-TTAAAGCACACACGAGTTGG
** * * * * * *
1305649 TGAAACCTTTTAGTCGTCAAAGAGTAGGACGCTTTCTTTT-TTCTTTTTAAAGCCCACATGAGTT
58 TGGCACCTTTTAGTCCTCAAAGAGTAAGATGC---CTTTTCCT-TTTTTAAAGCTCACACGAGTT
* * ** * * *
1305713 GGTGGTACCTTTTAGTTCAAAAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGACTTGGT
119 GGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGT
1305778 A
184 A
** * * * * * * *
1305779 GCACCTTTTAGTCCCAAAAGAGCAAGATGCCTTTTACTTTTTCAGAGCCCACCCAAGTTGGTGGT
1 GCACCTTTTAGTCCTTAAAGAGTAGGATACC-TTT--TTTTT-AAAGCACACACGAGTTGGT-G-
* * * * * * *
1305844 ACTTTTTAGTCCCCACCTTTTAGTCCTCAAAAAGCAAGACGTCTTTTTC-TTTTCAAAGCCCACA
60 --------G----CACCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGCTCACA
* * * * * * * *
1305908 TGAGTTGGTGGTACCTTTTAGTACC-CAAAGAGCAGGACG-TTTTTTCCATTTCAAAGCCCACCC
113 CGAGTTGGTGGCACCTTTTAGT-CCTTAAAGAGTAGGATGCCTTTTT-CTTTTCAAAGCCCACAC
1305971 AAGTTGGTGGCACTTTTTA
176 AAG-T--TGG-------TA
* * * * * *
1305990 GTCCCCACCTTTGAGTCCTCAAATAGTAGGATGCCCTTTTTTTTTCAAAGC-CTGCA-GAATTGG
1 G----CACCTTTTAGTCCTTAAAGAGTAGGAT-ACC-TTTTTTTT-AAAGCAC-ACACGAGTTGG
* * * * ** * * *
1306053 TGCCACCTTTTAGTCTTTAAAGAGCAAGATGTATTTTTC-TTTTTAAATCAT-ACACAAGTTGGT
58 TGGCACCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGC-TCACACGAGTTGGT
* * * * * * * * * ** *
1306116 TGCGCCTTTTACTCCTCAAAGAGCAGG-T-CATTTGTTTCTTTTTAAAGGCCATATGAGTTGGTG
122 GGCACCTTTTAGTCCTTAAAGAGTAGGATGC-CTT-TTTCTTTTCAAAGCCCACACAAGTTGGTA
* * ** * * * *
1306179 GCAGCTTTTAGTCATCGAAGAGTAGAACGTTTTCCTTTTTCTTTCTCAAAGCCCACACGAGTTAG
1 GCACCTTTTAGTCCTTAAAGAGTAG---G-ATACC-TTTT-TTT-T-AAAGCACACACGAGTTGG
** ** * * * * *
1306244 TGTAACCTTTTACACCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAGCTCACACAAGTTGGTG
58 TGGCACCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGCTCACACGAGTTGGTG
* * * * ** * * **
1306308 GCACCTTTTCGTCCTCAAAGAGCATGACACCTTTTCCTTTTCAAAGCCCACATAAGTTGGCC
123 GCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTA
* * * ** * *
1306370 GCACCTTTTAGT-TTTCAAAGAGCATGACGCCATTTTTTCTTATAAATC-CTATACGAGTTGGTG
1 GCACCTTTTAGTCCTT-AAAGAGTAGGATACC--TTTTT-TT-TAAAGCAC-ACACGAGTTGGTG
* * * * *
1306433 GCACCTTTTAGTCCTTAAA-AGGCAAGATGCCTTTT-CTTTTTAAAAGCACACATGAGTTGGTGG
60 GCACCTTTTAGTCCTCAAAGA-GTAAGATGCCTTTTCCTTTTTTAAAGCTCACACGAGTTGGTGG
* * ** * * * ** ** * * *
1306496 CATCTTCTAGTCCCCAAAAAGTAGGACGCCTTTTCCTTTTTGAAGCTTATACGAGTTGGTG
124 CACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTA
* * * * * * *
1306557 GCGCCTTTAAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTCGTGACA
1 GCACCTTTTAGTCCTTAAAGAGTAGGATACC-TTTT-TTTT-AAAGCACACACGAGTTGGTGGCA
* *
1306622 CCTTTTTGTTCTCAAAGAGTA
63 CCTTTTAGTCCTCAAAGAGTA
1306643 GGCTGCCCTT
Statistics
Matches: 1235, Mismatches: 270, Indels: 235
0.71 0.16 0.14
Matches are distributed among these distances:
181 2 0.00
182 9 0.01
183 107 0.09
184 50 0.04
185 31 0.03
186 153 0.12
187 178 0.14
188 68 0.06
189 7 0.01
190 12 0.01
191 148 0.12
192 37 0.03
193 8 0.01
194 2 0.00
195 43 0.03
196 40 0.03
197 7 0.01
198 16 0.01
199 159 0.13
200 11 0.01
201 65 0.05
202 7 0.01
204 3 0.00
205 23 0.02
211 3 0.00
212 1 0.00
213 7 0.01
214 11 0.01
215 21 0.02
216 6 0.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (184 bp):
GCACCTTTTAGTCCTTAAAGAGTAGGATACCTTTTTTTTAAAGCACACACGAGTTGGTGGCACCT
TTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTTTAAAGCTCACACGAGTTGGTGGCACCTTT
TAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTA
Found at i:1305207 original size:62 final size:62
Alignment explanation
Indices: 1304880--1306799 Score: 634
Period size: 62 Copynumber: 30.5 Consensus size: 62
1304870 TTTAAATGTT
* * * * * *
1304880 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAAGATGCCTTTTCCTTTTCAAAACC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* ** * ** * * * * *
1304942 TACATAAGTTGTTCACACTTTTTAGT-CTTCAAAGAGTATGACGTCTTTTT-TTCTCATAAGGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGATGCCTTTTTCTTTTCA-AA-GCC
* * * *
1305005 CATACGAGTTGGTAGCACCTTTTTGTCCTTAAA-AGGTAGGATGCCTTTTT-TTTT-AACAGCA
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGA-GTAGGATGCCTTTTTCTTTTCAA-AGCC
* * * * *
1305066 CACACGAGTTGGTGGCACCTTGTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTTTAAAGCT
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTC-TTTTCAAAGCC
*
1305129 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCGAAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * *
1305191 CACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGCTACC-TTTT-TTTT-AAAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * * ** * * *
1305250 CACACGAGTTAGTGGCACCTTTTAGTCCTGAAAGAGCAAGACACCTTTTCCTTTTTAAAGTC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* *
1305312 CAC-CTGAGCTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC-TTTTCTTTTTCAAAGCC
1 CACAC-GAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTC-TTTTCAAAGCC
* * * * *
1305374 TACCCAAGTTGGTGACACTTTTTAGTCCCACCTTTTAGTCCTCAAG-GAATAGGATG-CTGTTTT
1 CACACGAGTTGGTGGCACCTTTTAGT----CC--TTA------AAGAG--TAGGATGCCT-TTTT
*
1305437 TTTTTCAAAGCC
51 CTTTTCAAAGCC
* * * * * *** * *
1305449 CGCACAAGTTGGTGCCACCTTTTAGT-CTTCAATGAGTAAGATATTTTTTTCTTTTTAAAGCA
1 CACACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * ** * * * *
1305511 TACATGAGTTGGTCGCACCTTTTTCTCC-TCAAGCAGGTA--AT--TTTTTTCTTTTTAAAGGC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAG-A-GTAGGATGCCTTTTTCTTTTCAAAGCC
* * * ** * * * *
1305570 CACATGAATTGGTGGCAGCTTTTAGTCCTCGAAGAATAGAATGCTTTCCATTTTCCTTCTCAAAG
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATG----CC-TTTTTCTTTTCAAAG
1305635 CC
61 CC
** * * * *
1305637 CACACGAGTTGGTGAAACCTTTTAGTCGTCAAAGAGTAGGACGCTTTCTTTTTTCTTTTTAAAGC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGC---C-TTTTTCTTTTCAAAGC
1305702 C
62 C
* * * ** *
1305703 CACATGAGTTGGTGGTACCTTTTAGTTCAAAAAAAGTAGGATGCCTTTTTCTTTTCAAAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * ** * * * *
1305765 CACACGACTTGGTAGCACCTTTTAGTCCCAAAAGAGCAAGATGCCTTTTACTTTTTCAGAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTC-TTTTCAAAGCC
* * * * ** ** * * * *
1305828 CACCCAAGTTGGTGGTACTTTTTAGTCCCCACCTTTTAGTCCTCAAAAAGCAAGACGTCTTT-TT
1 CACACGAGTTGGTGGCACCTTTTAGT-----CCTTAAAG------AGTAGGATG-CCTTTTTCTT
*** ***
1305892 CTTTTCAAAG
54 -TTCAAAGCC
* * * * * * *
1305902 CCCAC-A--TGAGTTGGTGGTACCTTTTAGTACC-CAAAGAGCAGGACG-TTTTTTCCATTTCAA
1 CACACGAGTTG-G-TGG---CACCTTTTAGT-CCTTAAAGAGTAGGATGCCTTTTT-CTTTTCAA
1305962 AGCC
59 AGCC
* * * ** * * ** ** *
1305966 CACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTTGAGTCCTCAAATAGTA-GGATGCCCTTTT
1 CACACGAGTTGGTGGCACCTTTTAGT-----CCTTAAAG------AGTAGGATGCCT--TTTTCT
1306030 TTTTTCAAAGCC
53 --TTTCAAAGCC
** * * * * * ** * * *
1306042 TGCA-GAATTGGTGCCACCTTTTAGTCTTTAAAGAGCAAGATGTATTTTTCTTTTTAAATCA
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * * * * * * * *
1306103 TACACAAGTTGGTTGCGCCTTTTACTCCTCAAAGAGCAGG-T-CATTTGTTTCTTTTTAAAGGC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGC-CTT-TTTCTTTTCAAAGCC
* * * * ** * *
1306165 CATATGAGTTGGTGGCAGCTTTTAGTCATCGAAGAGTAGAACGTTTTCCTTTTTCTTTCTCAAAG
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAG---G-ATGCCTTTTTCTTT-TCAAAG
1306230 CC
61 CC
* ** ** * * *
1306232 CACACGAGTTAGTGTAACCTTTTACACCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCT
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * * * ** *
1306294 CACACAAGTTGGTGGCACCTTTTCGTCCTCAAAGAGCATGACACCTTTTCCTTTTCAAAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
** ** * * * * * *
1306356 CACATAAGTTGGCCGCACCTTTTAGT-TTTCAAAGAGCATGACGCCATTTTTTCTTAT-AAATCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGATGCC--TTTTTCTTTTCAAAGCC
* * * * * *
1306419 TATACGAGTTGGTGGCACCTTTTAGTCCTTAAA-AGGCAAGATGCC-TTTTCTTTTTAAAAGCA
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGA-GTAGGATGCCTTTTTC-TTTTCAAAGCC
* * * ** * * * ** *
1306481 CACATGAGTTGGTGGCATCTTCTAGTCCCCAAAAAGTAGGACGCCTTTTCCTTTTTGAAGCT
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * *
1306543 TATACGAGTTGGTGGCGCCTTTAAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * * * * * *
1306605 CACACAAGTTCGTGACACCTTTTTGTTCTCAAAGAGTAGGCTGCC-CTTT-TTTT-AAAG--
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * ** * *
1306662 --C-C-A----GTGGCACCTTTTAGT-CTTGAAAGAGCAAGACACTTTTTTCTTTT-AAATCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* * * * *
1306715 CACCCGAGTTGGTGGCACCTTTTAGTCCTCACAGATTAGGACGCC-----CTTTTCAAAGCC
1 CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
* *
1306772 CAC-CTAAGTTGGTGGCACTTTTTAGTCC
1 CACAC-GAGTTGGTGGCACCTTTTAGTCC
1306800 ACACCTTTTA
Statistics
Matches: 1369, Mismatches: 362, Indels: 259
0.69 0.18 0.13
Matches are distributed among these distances:
48 2 0.00
49 22 0.02
50 3 0.00
51 7 0.01
53 1 0.00
54 1 0.00
55 2 0.00
56 7 0.01
57 30 0.02
58 2 0.00
59 86 0.06
60 21 0.02
61 113 0.08
62 552 0.40
63 192 0.14
64 26 0.02
65 14 0.01
66 63 0.05
67 87 0.06
68 9 0.01
69 1 0.00
70 6 0.00
71 4 0.00
72 5 0.00
73 12 0.01
74 14 0.01
75 62 0.05
76 25 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (62 bp):
CACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCC
Found at i:1305457 original size:75 final size:75
Alignment explanation
Indices: 1305327--1305475 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 75
1305317 GAGCTGGTGG
* * *
1305327 CACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTTCAAAGCCTACCCAAGTTGGTGACAC
1 CACCTTTTAGTCCTCAAAGAATAGGATGCCTTTTCTTTTTCAAAGCCCACACAAGTTGGTGACAC
*
1305392 TTTTTAGTCC
66 CTTTTAGTCC
* * * *
1305402 CACCTTTTAGTCCTCAAGGAATAGGATG-CTGTTTTTTTTTCAAAGCCCGCACAAGTTGGTGCCA
1 CACCTTTTAGTCCTCAAAGAATAGGATGCCT-TTTCTTTTTCAAAGCCCACACAAGTTGGTGACA
1305466 CCTTTTAGTC
65 CCTTTTAGTC
1305476 TTCAATGAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 2 0.03
75 63 0.97
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (75 bp):
CACCTTTTAGTCCTCAAAGAATAGGATGCCTTTTCTTTTTCAAAGCCCACACAAGTTGGTGACAC
CTTTTAGTCC
Found at i:1305624 original size:66 final size:66
Alignment explanation
Indices: 1305554--1305796 Score: 199
Period size: 67 Copynumber: 3.7 Consensus size: 66
1305544 CAGGTAATTT
* * * * * *
1305554 TTTTCTTTTTAAAGGCCACATGAATTGGTGGCAGCTTTTAGTCCTCGAAGAATAGAATGCTTTCC
1 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTCC
1305619 A
66 A
* * * * * * *
1305620 TTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAACCTTTTAGTCGTCAAAGAGTAGGACGCTTTC
1 TTTT-CTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTC
**
1305685 TT
65 CA
* * * ** *
1305687 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGTACCTTTTAGT--TCAAA-AAAAGTA-GGATGCC
1 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTCC
*
1305748 T
66 A
* * * * *
1305749 TTTTCTTTTCAAAGCCCACACGACTTGGTAGCACCTTTTAGTCC-CAAA
1 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAA
1305797 AGAGCAAGAT
Statistics
Matches: 142, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
62 41 0.29
63 8 0.06
64 5 0.04
66 37 0.26
67 51 0.36
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (66 bp):
TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTCC
A
Found at i:1305660 original size:67 final size:66
Alignment explanation
Indices: 1305588--1305728 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 66
1305578 TTGGTGGCAG
* *
1305588 CTTTTAGTCCTCGAAGAATAGAATGCTTTCCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAA
1 CTTTTAGTCCTCAAAGAATAGAACGCTTT-CATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAA
1305653 AC
65 AC
* * * * * * * * **
1305655 CTTTTAGTCGTCAAAGAGTAGGACGCTTTCTTTTTTCTTTTTAAAGCCCACATGAGTTGGTGGTA
1 CTTTTAGTCCTCAAAGAATAGAACGCTTTCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAA
1305720 C
66 C
1305721 CTTTTAGT
1 CTTTTAGT
1305729 TCAAAAAAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
66 38 0.61
67 24 0.39
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (66 bp):
CTTTTAGTCCTCAAAGAATAGAACGCTTTCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAA
C
Found at i:1305926 original size:77 final size:76
Alignment explanation
Indices: 1305780--1305934 Score: 197
Period size: 76 Copynumber: 2.0 Consensus size: 76
1305770 GACTTGGTAG
* * *
1305780 CACCTTTTAGTCCCAAAAGAGCAAGATGCCTTTTACTTTTTCAGAGCCCACCCAAGTTGGTGGTA
1 CACCTTTTAGTCCCAAAAGAGCAAGACGCCTTTTACTTTTTCAAAGCCCACACAAGTTGGTGGTA
*
1305845 CTTTTTAGTCCC
66 C-TTTTAGTACC
* * **
1305857 CACCTTTTAGTCCTCAAAA-AGCAAGACGTCTTTTTC-TTTTCAAAGCCCACATGAGTTGGTGGT
1 CACCTTTTAGTCC-CAAAAGAGCAAGACGCCTTTTACTTTTTCAAAGCCCACACAAGTTGGTGGT
1305920 ACCTTTTAGTACC
65 A-CTTTTAGTACC
1305933 CA
1 CA
1305935 AAGAGCAGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 35 0.51
77 28 0.41
78 5 0.07
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (76 bp):
CACCTTTTAGTCCCAAAAGAGCAAGACGCCTTTTACTTTTTCAAAGCCCACACAAGTTGGTGGTA
CTTTTAGTACC
Found at i:1306090 original size:138 final size:136
Alignment explanation
Indices: 1305733--1306091 Score: 416
Period size: 138 Copynumber: 2.6 Consensus size: 136
1305723 TTTAGTTCAA
*
1305733 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGACTTGGTAGCACCTTTTAGTCCCAAAA
1 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGT-GCACCTTTTAGT-CCAAAA
* * ** * *
1305798 GAGCAAGATGCCTTTTACTTTTTCAGAGCCCACCCAAGTTGGTGGTACTTTTTAGTCCCCACCTT
64 GAGCAAGATG-TTTTTTCCATTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTT
*
1305863 TTAGTCCTC
128 TGAGTCCTC
* * * * * * * *
1305872 AAAAAGCAAGACGTCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGTACCTTTTAGTACCCAAA
1 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGT-GCACCTTTTAGT-CCAAAA
* *
1305937 GAGCAGGACGTTTTTTCCATTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTT
64 GAGCAAGATGTTTTTTCCATTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTT
1306002 GAGTCCTC
129 GAGTCCTC
* ** **
1306010 AAATAGTAGGATGCCCTTTTT-TTTTCAAAGCCTGCA-GAATTGGTGCCACCTTTTAGTCTTTAA
1 AAAAAGTAGGATG-CCTTTTTCTTTTCAAAGCCCACACGAATTGGTG-CACCTTTTAGTC-CAAA
1306073 AGAGCAAGATGTATTTTTC
63 AGAGCAAGATGT-TTTTTC
1306092 TTTTTAAATC
Statistics
Matches: 184, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
136 2 0.01
137 29 0.16
138 84 0.46
139 69 0.38
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (136 bp):
AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGTGCACCTTTTAGTCCAAAAGA
GCAAGATGTTTTTTCCATTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTTGA
GTCCTC
Found at i:1306944 original size:66 final size:67
Alignment explanation
Indices: 1306820--1306958 Score: 167
Period size: 66 Copynumber: 2.1 Consensus size: 67
1306810 GTCCTTAAAA
*
1306820 AGTCCTCAAACAGTAGAATGCTTTCCTTTTTCTTTCTCAAAGCTCACACGAGTTGGTGGAACCTT
1 AGTCCTCAAACAGTAGAATGCTTTCCTTTTTCTTTCTCAAAGCCCACACGAGTTGGTGGAACCTT
1306885 AT
66 AT
** * * * *
1306887 AGTCCTCAAAGTGTAGGATGCTTT-CTTTTATCTTT-TTAAAGCCCACACG-GCTTGGTGGCACT
1 AGTCCTCAAACAGTAGAATGCTTTCCTTTT-TCTTTCTCAAAGCCCACACGAG-TTGGTGGAACC
*
1306949 TTTT
64 TTAT
1306953 AGTCCT
1 AGTCCT
1306959 TGAAGAGCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
65 1 0.02
66 35 0.56
67 26 0.42
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (67 bp):
AGTCCTCAAACAGTAGAATGCTTTCCTTTTTCTTTCTCAAAGCCCACACGAGTTGGTGGAACCTT
AT
Found at i:1307267 original size:62 final size:62
Alignment explanation
Indices: 1307126--1307533 Score: 188
Period size: 66 Copynumber: 6.4 Consensus size: 62
1307116 TCAAACCCCG
* ** * *
1307126 CACGAGTTGGTGCCACCTTTTAATCTTTAAAGAGCAAGATGTTTTTTTTCTTTTTAAAGCGTA
1 CACGAGTTGGTGGCACCTTTT-ATCTTTAAAGAGCAAGATCATTTTTTTCCTTTTAAAGCGCA
* *
1307189 CACGAGTTGGTCGCACCTTTT-TCTTCTTAAAGGGCAAG-TCATTTTTTTCCTTTTAAAG-GCCA
1 CACGAGTTGGTGGCACCTTTTATC-T-TTAAAGAGCAAGATCATTTTTTTCCTTTTAAAGCG-CA
* * * * *
1307251 CACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTATA-A-CGCTTTCCTTTTTCTTTCTCAAAG
1 CACGAGTTGGTGGCACCTTTTA-TCTTTAAAGAGCA-AGATC-ATTT--TTTTCCTTT-T-AAAG
*
1307314 CTCA
59 CGCA
* * * ** * *
1307318 CACAAGTTAGTGGAACCTTTTAGTCCTCAAAAAGTAG-AACGCT-TTCTTTTTTCCTTTTAAAGC
1 CACGAGTTGGTGGCACCTTTTA-T-CT-TTAAAG-AGCAA-GATCAT-TTTTTTCCTTTTAAAGC
*
1307381 CCA
60 GCA
* * * * * *
1307384 CACGAGTTGGTGGAACCTTTTAGTCCTCAAACAG-AAGGATGCTTTCTTTTTTCCTTTTAAAGCC
1 CACGAGTTGGTGGCACCTTTTA-TCTTTAAAGAGCAA-GAT-C-AT-TTTTTTCCTTTTAAAGCG
1307448 CA
61 CA
* * * * * * * *** *
1307450 CACGAGTTGGTGGTAACATTTAGTCCTCAAAGTGCAGGA-CGCCTTTTT-CTTTTCAAAGCCCA
1 CACGAGTTGGTGGCACCTTTTA-TCTTTAAAGAGCAAGATCATTTTTTTCCTTTT-AAAGCGCA
1307512 CACGAGTTGGTGGCACCTTTTA
1 CACGAGTTGGTGGCACCTTTTA
1307534 GTCCCCAAAG
Statistics
Matches: 275, Mismatches: 45, Indels: 51
0.74 0.12 0.14
Matches are distributed among these distances:
61 8 0.03
62 79 0.29
63 40 0.15
64 6 0.02
65 9 0.03
66 84 0.31
67 29 0.11
68 10 0.04
69 6 0.02
70 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (62 bp):
CACGAGTTGGTGGCACCTTTTATCTTTAAAGAGCAAGATCATTTTTTTCCTTTTAAAGCGCA
Found at i:1307387 original size:133 final size:129
Alignment explanation
Indices: 1307231--1307545 Score: 386
Period size: 133 Copynumber: 2.4 Consensus size: 129
1307221 GGCAAGTCAT
* * *
1307231 TTTTTTCCTTTTAAAGGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTATAACGCTTT
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGAACGCTTT
* * *
1307296 CCTTTTT-CTTTCTCAAAGCTCACACAAGTTAGTGG-AACCTTTTAGTCCTCAAAAAGTAGAACG
66 CCTTTTTCCTTT-T-AAAGCCCACACAAGTTAGTGGTAA-CATTTAGTCCTCAAAAAGCAGAACG
1307359 CTTTC
128 C---C
* * * *
1307364 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAACAGAAGGATGCTTT
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGAACGCTTT
* * * ** *
1307429 CTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGTAACATTTAGTCCTCAAAGTGCAGGACGCC
66 CCTTTTTCCTTTTAAAGCCCACACAAGTTAGTGGTAACATTTAGTCCTCAAAAAGCAGAACGCC
*
1307493 -TTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAG
1 TTTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
1307546 CAAGGTGTCT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
127 5 0.03
128 44 0.28
129 1 0.01
132 39 0.24
133 67 0.42
134 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (129 bp):
TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGAACGCTTT
CCTTTTTCCTTTTAAAGCCCACACAAGTTAGTGGTAACATTTAGTCCTCAAAAAGCAGAACGCC
Found at i:1307403 original size:66 final size:66
Alignment explanation
Indices: 1307231--1307545 Score: 383
Period size: 66 Copynumber: 4.8 Consensus size: 66
1307221 GGCAAGTCAT
* * *
1307231 TTTTTTCCTTTTAAAGGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTATAACGCTTT
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGAACGCTTT
1307296 C
66 C
* * * * *
1307297 CTTTTT-CTTTCTCAAAGCTCACACAAGTTAGTGGAACCTTTTAGTCCTCAAAAAGTAGAACGCT
1 TTTTTTCCTTT-T-AAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGAACGCT
1307361 TTC
64 TTC
* * * *
1307364 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAACAGAAGGATGCTTT
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGAACGCTTT
1307429 C
66 C
* * * *
1307430 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGTAA-CATTTAGTCCTCAAAGTGCAGGACGC--
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGG-AACCTTTTAGTCCTCAAAGAGTAGAACGCTT
1307492 -C
65 TC
* *
1307493 -TTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAG
1 TTTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAG
1307546 CAAGGTGTCT
Statistics
Matches: 218, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
61 6 0.03
62 41 0.19
63 1 0.00
65 4 0.02
66 107 0.49
67 55 0.25
68 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (66 bp):
TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGAACGCTTT
C
Found at i:1307534 original size:62 final size:61
Alignment explanation
Indices: 1307084--1307599 Score: 325
Period size: 62 Copynumber: 8.1 Consensus size: 61
1307074 AGTCCCCACA
* * * * * * *
1307084 TTTAGTCCTCAAAAAGCAGTATGCCTTTTT-TTTCAAACCCCGCACGAGTTGGTGCCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * ** ** *
1307144 TTTAATCTTTAAAGAGCAAGATGTTTTTTTTCTTTTTAAAGCGTACACGAGTTGGTCGCACCT
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT
** * * * * * *** *
1307207 TTTTCTTCTTAAAGGGCAAGTCATTTTTTTCCTTTTAAAGGCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACCT
* ** * * * *
1307269 TTTAGTCCTCAAAGAGTATAACGCTTTCCTTTTTCTTTCTCAAAGCTCACACAAGTTAGTGGAAC
1 TTTAGTCCTCAAAGAGCAGGACG----CCTTTTTCTTT-T-AAAGCCCACACGAGTTGGTGGCAC
1307334 CT
60 CT
* * * *
1307336 TTTAGTCCTCAAAAAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACC
1 TTTAGTCCTCAAAGAGCAGGACGC---C-TTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACC
1307401 T
61 T
* * * * *
1307402 TTTAGTCCTCAAACAGAAGGATGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGTAAC
1 TTTAGTCCTCAAAGAGCAGGACGC---C-TTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACC
*
1307467 A
61 T
*
1307468 TTTAGTCCTCAAAGTGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCT
* * * * * * * **
1307530 TTTAGTCCCCAAAGAGCAAGG-TGTCTTTTCCTTTTTAAAGCCCCCCCAAGTTGGTGGCATTT
1 TTTAGTCCTCAAAGAGC-AGGACGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT
1307592 TTTAGTCC
1 TTTAGTCC
1307600 CCTCCATTTA
Statistics
Matches: 365, Mismatches: 73, Indels: 34
0.77 0.15 0.07
Matches are distributed among these distances:
60 17 0.05
61 10 0.03
62 125 0.34
63 48 0.13
65 4 0.01
66 109 0.30
67 48 0.13
68 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCT
Found at i:1307757 original size:122 final size:123
Alignment explanation
Indices: 1307526--1307757 Score: 297
Period size: 122 Copynumber: 1.9 Consensus size: 123
1307516 AGTTGGTGGC
* * * * *
1307526 ACCTTTTAGTCCCCAAAGAGCAAGGTGTCTTTTCCTTTTTAAAGCCCCCCCAAGTTGGTGGCATT
1 ACCTTTTAGTCCCCAAAGAGCAAGGTGACTTTTCCTTTTTAAAGCCCACCCAAGCTAGTGGCACT
* * * * **
1307591 TTTTAGTCCCCTCCATTTAATCTTCAAAGAGCAGGACGTCTTTTTCTGAGTTAGTGAT
66 TTTTAATCCCCACCATTTAATCCTCAAAGAGCAAGACACCTTTTTCTGAGTTAGTGAT
*
1307649 ACCTTTTAGTCCCCAAAGAGCAGGGTGACTTTTCC-TTTTAAAGCCCACCCAAGCTAGTGGCACT
1 ACCTTTTAGTCCCCAAAGAGCAAGGTGACTTTTCCTTTTTAAAGCCCACCCAAGCTAGTGGCACT
* * * *
1307713 TTTTAATTCCCACC-TTTGAGTCCTCAAAGAGTAAGATACCTTTTT
66 TTTTAATCCCCACCATTT-AATCCTCAAAGAGCAAGACACCTTTTT
1307758 TTTCAAAACC
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
121 3 0.03
122 56 0.61
123 33 0.36
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (123 bp):
ACCTTTTAGTCCCCAAAGAGCAAGGTGACTTTTCCTTTTTAAAGCCCACCCAAGCTAGTGGCACT
TTTTAATCCCCACCATTTAATCCTCAAAGAGCAAGACACCTTTTTCTGAGTTAGTGAT
Found at i:1308077 original size:62 final size:62
Alignment explanation
Indices: 1307723--1310573 Score: 1452
Period size: 62 Copynumber: 45.6 Consensus size: 62
1307713 TTTTAATTCC
* * * * * * ** * *
1307723 CACCTTTGAGTCCTCAAAGAGTAAGATACC-TTTT-TTTTCAAAACCTGCACGAATTGGTGT
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * ** * *** * **
1307783 CAGCTTTCAGTCTTTAAAGAGCAAGATGTTTTTTTCTTTCTAAAGTGTACACGAGGTGGTCA
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * *
1307845 CACCTTTTACTCCTCAAAAAGCA--A-GTC-ATTT-TTTTTAAAGGCCACACGAGTTGAG-GG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTG-GTGG
* * * * * *
1307902 CACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCTTTTTCTTTCTCAAAGGCCACACAAGTTGGT
1 CACCTTTTAGTCCTCAAAGAGCAGGATGC----CTTTTTCTTT-TTAAAGCCCACACGAGTTGGT
1307967 GTG
61 G-G
* ** ** *
1307970 -ACCTTTTAGTCCTTAAAGAGTGGGACAT-TTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGG--ATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * *
1308032 CACTTTTTAGTGCTCAAAGAGCATGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * *
1308094 AACCTTTTAGTCCTCAAAGAGTAGGACGCTTTCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGC---C-TTTTTCTTTTTAAAGCCCACACGAGTTGGTG
1308159 G
62 G
* * * * * * * *
1308160 TACCATTTAGTTCTCAAAGAGCAGGACGCCTTTTTCTTTTCACATCCTACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * *
1308222 CACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTTCAAAGCCTACCCAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* *** * * * *
1308284 CACTTTTTAGTCCCCTCCATTTAATCTTCAAAGAGTAGGAC---GTCTTTTT--------C-TGA
1 CACCTTTTAGT--CCT-CA---AA-GAGC--AG-G-ATGCCTTTTTCTTTTTAAAGCCCACACGA
1308337 GTTGGTGG
55 GTTGGTGG
* * * * * * * *
1308345 TACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTTCAAAGCCAAC-CTAAGCTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACAC-GAGTTGGTGG
* * ** * ** ** * * ** *
1308407 CACTTTTTAATTCC-CACCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTTTTTCAAAACC-CGCA
1 CACCTTTT-AGTCCTCA---AAGAG----C-AGGA-T-GCCT-TTTTCTTTTTAAAGCCCACAC-
* ** *
1308470 CAAATTG-GTG
53 GAGTTGGTG-G
** **** ** * * ** *** *
1308480 C-CAGCTTTTAGTCTTTAA-AG-AGCAAGATGTTTTTTTTCTTTTTAAAGTGTACACGAGGTGGT
1 CAC-CTTTTAGTCCTCAAAGAGCAGGATG--CCTTT--TTCTTTTTAAAGCCCACACGAGTTGGT
*
1308542 CG
61 GG
* * * * **
1308544 CACCTTTTAGTCCTCAAAAAGCA--A-GTC-ATTT-TTTTTAAAGGCCACACGAGTTGAAGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * *
1308601 CACCTTTTAGTCCTCAAAGAGTAGAATGCTTTTCTTTTTCTTTCTCAAAGCCCACACGAATTGGT
1 CACCTTTTAGTCCTCAAAGAGCAGGATGC----CTTTTTCTTT-TTAAAGCCCACACGAGTTGGT
1308666 -G
61 GG
* ** * *
1308667 CAACCTTTTAGTCCTCAAAGAGTAGGACAT-TTTTTTTCTTTTTAAAGCCCACATGAGTTAGTGG
1 C-ACCTTTTAGTCCTCAAAGAGCAGG--ATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * *
1308731 CACTTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAGCTCACACGAGTTGGTGA
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * * *
1308793 CACCTTTTTGTCCTCAAATAGAATGATGCCTTTTTTTCTTTTATAGCCCCCATGAGTTGGTGTG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTTAAAGCCCACACGAGTTGGTG-G
* * ***
1308857 -ACTTTTTAGTCCTCAAAGAGCAAGACATCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * *
1308918 CACCTTTT-GTCCTTAAAGGGTAGGATGCCTTTTTCTTTTTAAAACTTC-CACGAGTTGCTAG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGC-CCACACGAGTTGGTGG
** * ** *
1308979 CAAATTTTAGTCCTCAAAGAGCAGGA--CAC-TTTT-TTTTGAAAGTTCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * ** * ** **
1309038 CAACTTTTAGTCATCAAAGAGCAAGACGTCTTTTCCTTTCCAAAGCCTACATAAGTTGGTCA
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * ** * *
1309100 CACCTTTTAGTCTTCAAAGAGCATGACGCTTTTTTTTATTATTATAAATCCCATGCAAGTTGGTA
1 CACCTTTTAGTCCTCAAAGAGCAGGATGC--CTTTTTCTT-TT-TAAAGCCCACACGAGTTGGTG
1309165 G
62 G
* * * *
1309166 CACCTTTTAGTCCTTAAA-AGGCAAGATGCC-TTTTCTTTTCAAAAGCACACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGA-GCAGGATGCCTTTTTCTTTT-TAAAGCCCACACGAGTTGGTGG
* * ** *
1309228 CACCTTCTAGTCCTCAAAGAGTAGGACACCTTTTT-TTTTTAAAGCCCACCCGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * *
1309289 CACCTTTTAGTCCTCAAAGAGTAGGACGCCATTTTC-----AAAGCCCACCCAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * ** * * * *
1309346 CACTTTTTAGTCCCCACCTTTTAGTCCTCGAAGA-GCAGTATGCCTTTTTTTTTTCAAAGCCTAC
1 CACCTTTTAGTCCTCA-----AAG--AGC-AGGATGC-CT-T---TTT-CTTTTT-AAAGCCCAC
* *
1309410 ATGAGTTGGTGC
51 ACGAGTTGGTGG
* * *** * *** *
1309422 CACCTTTTAGTCTTCAAAGAGCAAGATATTTTTTTCGTTTTAAAGTGTACACGAGTTGGTCG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * *
1309484 CACCTTTTACTCCTCAAAGTGTAGG-T-CGTTATTTCTTTTTAAAGCCCACACAAGTTTGCGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTT-TTTCTTTTTAAAGCCCACACGAGTTGGTGG
** ** * * *
1309545 CACCTTTTAGTCCTCGAAGAGTATAACGCTTTCCTTTTTCTTTCTCAAAGCCCACATGAGTTGGT
1 CACCTTTTAGTCCTC-AA-AG-AGCA-GGATGCCTTTTTCTTT-TTAAAGCCCACACGAGTTGGT
1309610 GG
61 GG
* * * * ** *
1309612 AACCTTTTAGTCCTCAAAGAGTAGGACACTTTCTTTTTTCTTTTTAAAGCTTACACGAGTTGATG
1 CACCTTTTAGTCCTCAAAGAGCAGG--A--TGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTG
1309677 G
62 G
* * * * *
1309678 CACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTTGTGA
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * * * *
1309740 CAACTTTTAGTCATCAAAGACCATGATGCCTTTTTTTCTTTTACAGCCCTCATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTTAAAGCCCACACGAGTTGGTGG
* *
1309803 CACCTTTTAGTCCTCAAAGAGTAAGG-CGCCTTTTT-TTTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAG-CAGGATGCCTTTTTCTTTTT-AAAGCCCACACGAGTTGGTGG
* * *** *
1309865 CACCTTTTA-TCCTTAAAGGGC-GTGATGCCTTTTTCTTTTTAAAGCTTGCACGAGTTGCTGG
1 CACCTTTTAGTCCTCAAAGAGCAG-GATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * *** ** *
1309926 CACGTTTTAGTCATCAAAGAGCA-G--GCCAACTT-TTTTTAAATGTTCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAA-GCCCACACGAGTTGGTGG
* * * * *
1309985 CACCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTCTTTTCAAAGCCCACATGACTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * * * *
1310047 CGCCTTTTAGTCTTCAAAGAGCATGA-GGCTTTTT-TTCTTAAAAAGCCCATACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTT-TT-TAAAGCCCACACGAGTTGGTGG
* * * * *
1310109 CACCTTTTAGTCCTTAAA-AGGTAGGATGCC-TTATCTTTTTAAAAGCACATACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGA-GCAGGATGCCTTTTTCTTTTT-AAAGCCCACACGAGTTGGTGG
* * * * * *
1310171 CACCTTATAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTGTAAAGCTCACACGAGTAGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* ** * *
1310233 CACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTTAAAGCACACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
** * * *
1310295 CACCTTTTAGTCCTCAAAGAGTTGGATGCC--ATT-TTTTTAAAGCCCACAAGAATTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * ** * * *
1310354 CACCTTTTAGTCCT-AAAGGAGTAAGACACTTTTTTCTTTTTAAAACCCACCCGAGTTGGTGG
1 CACCTTTTAGTCCTCAAA-GAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* * * ** * * *
1310416 CACCTTTTACTCCTCAAAAAGTAGGACACCTTTTT-TTTTTAATGCCCACACAAATTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* ** *
1310477 CACCTTTTAGTCCTCAAAGAGCTGGACACTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
* *
1310539 CACCTTTTAGTCCTCAAAGAGTAGGATGCATTTTT
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTT
1310574 TTCTCTTTGT
Statistics
Matches: 2116, Mismatches: 510, Indels: 328
0.72 0.17 0.11
Matches are distributed among these distances:
50 4 0.00
51 1 0.00
52 2 0.00
53 5 0.00
54 1 0.00
55 2 0.00
57 111 0.05
58 21 0.01
59 129 0.06
60 40 0.02
61 276 0.13
62 850 0.40
63 218 0.10
64 63 0.03
65 25 0.01
66 155 0.07
67 126 0.06
68 8 0.00
69 11 0.01
70 8 0.00
71 4 0.00
72 7 0.00
73 20 0.01
76 29 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (62 bp):
CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
Found at i:1308263 original size:190 final size:191
Alignment explanation
Indices: 1307813--1308296 Score: 529
Period size: 190 Copynumber: 2.6 Consensus size: 191
1307803 GCAAGATGTT
** * ** * * *
1307813 TTTTTC-TTTCTAAAGTGTACACGAGGTGGTCACACCTTTTACTCCTCAAAAAGCAAG-T-CATT
1 TTTTTCTTTTC-AAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTT
*
1307875 TT-TTTT-AAAGGCCACACGAGTTGAG-GGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCT
65 TTCTTTTCAAAGCCCACACGAGTTG-GTGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCT
* * * ** ***
1307937 TTTTCTTTCTCAAAGGCCACACAAGTTGGTGTGACCTTTTAGTCCTTAAAGAGTGGGACATTT
129 TTTTCTTTCTCAAAGCCCACACAAGTTGGTGTGACCATTTAGTCCTCAAAGAGCAGGACAGCC
* * * * * *
1308000 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTGCTCAAAGAGCATGATGCCTTT
1 TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCC-TT
* *
1308065 TTCTTTTCAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGGACGC-TTTCTT
65 TTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTC-T
* * *
1308129 TTTTCTTT-TTAAAGCCCACACGAGTTGGTG-GTACCATTTAGTTCTCAAAGAGCAGGAC-GCC
129 TTTTCTTTCTCAAAGCCCACACAAGTTGGTGTG-ACCATTTAGTCCTCAAAGAGCAGGACAGCC
* * *
1308190 TTTTTCTTTTCACATCCTACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTT
1 TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTT
* * * *
1308255 TCCTTTTCAAAGCCTACCCAAGTTGGTGGCACTTTTTAGTCC
66 T-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
1308297 CCTCCATTTA
Statistics
Matches: 245, Mismatches: 42, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
187 40 0.16
188 4 0.02
189 5 0.02
190 93 0.38
191 49 0.20
192 54 0.22
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (191 bp):
TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTT
TCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCTTT
TTCTTTCTCAAAGCCCACACAAGTTGGTGTGACCATTTAGTCCTCAAAGAGCAGGACAGCC
Found at i:1308356 original size:123 final size:123
Alignment explanation
Indices: 1308212--1308455 Score: 355
Period size: 123 Copynumber: 2.0 Consensus size: 123
1308202 CATCCTACAC
* *
1308212 GAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTTCAAAGCCTACCCAAG
1 GAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGACTTTTCCTTTTCAAAGCCAACCCAAG
* * * * *
1308277 TTGGTGGCACTTTTTAGTCCCCTCCATTT-AATCTTCAAAGAGTAGGACGTCTTTTTCT
66 CTGGTGGCACTTTTTAATCCCCACC-TTTGAATCCTCAAAGAGTAGGACGCCTTTTTCT
* * *
1308335 GAGTTGGTGGTACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTTCAAAGCCAACCTAAG
1 GAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGACTTTTCCTTTTCAAAGCCAACCCAAG
* * *
1308400 CTGGTGGCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTT
66 CTGGTGGCACTTTTTAATCCCCACCTTTGAATCCTCAAAGAGTAGGACGCCTTTTT
1308456 TTTCAAAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
122 3 0.03
123 104 0.97
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (123 bp):
GAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGACTTTTCCTTTTCAAAGCCAACCCAAG
CTGGTGGCACTTTTTAATCCCCACCTTTGAATCCTCAAAGAGTAGGACGCCTTTTTCT
Found at i:1308808 original size:699 final size:695
Alignment explanation
Indices: 1307243--1308956 Score: 2542
Period size: 697 Copynumber: 2.4 Consensus size: 695
1307233 TTTTCCTTTT
* ** *
1307243 AAAGGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTATAACGCTTTCCTTTTTCTTTC
1 AAAGGCCACACGAATTGGT-GCACCTTTTAGTCCTCAAAGAGTAGGAC-ATTT--TTTTTCTTT-
* * * * * * * *
1307308 TCAAAGCTCACACAAGTTAGTGGAACCTTTTAGTCCTCAAAAAGTA-GAACGCTTTCTTTTTTCC
61 TTAAAGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCATG-ATGC---C-TTTTTCT
1307372 TTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAACAGAAGGATGCTTTCTTTTTTC
121 TTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAACAGAAGGATGCTTTCTTTTTT-
* *
1307437 CTTTTAAAGCCCACACGAGTTGGTGGTAACATTTAGTCCTCAAAGTGCAGGACGCCTTTTTCTTT
185 CTTTTAAAGCCCACACGAGTTGGTGGTACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTT
* * *
1307502 TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGGTGTCTTTTCCTTTTTA
250 TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTTCA
* *
1307567 AAGCCCCCCCAAGTTGGTGGCATTTTTTAGTCCCCTCCATTTAATCTTCAAAGAGCAGGACGTCT
315 AAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCTCCATTTAATCTTCAAAGAGCAGGACGTCT
* *
1307632 TTTTCTGAGTTAGTGATACCTTTTAGTCCCCAAAGAGCAGGGTGACTTTTCCTTTTAAAGCCCAC
380 TTTTCTGAGTTAGTGATACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTTAAAGCCAAC
1307697 CCAAGCTAGTGGCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAAGATACCTTTTTTTTC
445 CCAAGCTAGTGGCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAAGATACCTTTTTTTTC
* * *
1307762 AAAACCTGCACGAATTGGTGTCAGCTTTCAGTCTTTAAAGAGCAAGATGTTTTTTTCTTTCTAAA
510 AAAACCCGCACAAATTGGTGCCAGCTTTCAGTCTTTAAAGAGCAAGATGTTTTTTTCTTTCTAAA
1307827 GTGTACACGAGGTGGTCACACCTTTTACTCCTCAAAAAGCAAGTCATTTTTTTTAAAGGCCACAC
575 GTGTACACGAGGTGGTCACACCTTTTACTCCTCAAAAAGCAAGTCATTTTTTTTAAAGGCCACAC
*
1307892 GAGTTGAGGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCTTTTTCTTTCTC
640 GAGTTGAAGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCTTTTTCTTTCTC
* * *
1307948 AAAGGCCACAC-AAGTTGGTGTGACCTTTTAGTCCTTAAAGAGTGGGACATTTTTTTTCTTTTTA
1 AAAGGCCACACGAA-TTGGTG-CACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTA
* * *
1308012 AAGCCCACACAAGTTGGTGGCACTTTTTAGTGCTCAAAGAGCATGATGCCTTTTTCTTTTCAAAG
64 AAGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAG
* * *
1308077 CCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGGACGCTTTCTTTTTTCTTTTTAAA
129 CCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAACAGAAGGATGCTTTCTTTTTTC-TTTTAAA
* * *
1308142 GCCCACACGAGTTGGTGGTACCATTTAGTTCTCAAAGAGCAGGACGCCTTTTTCTTTTCACATCC
193 GCCCACACGAGTTGGTGGTACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCC
* *
1308207 TACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTTCAAAGCCTAC
258 CACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTTCAAAGCCCAC
*
1308272 CCAAGTTGGTGGCACTTTTTAGTCCCCTCCATTTAATCTTCAAAGAGTAGGACGTCTTTTTCTGA
323 CCAAGTTGGTGGCACTTTTTAGTCCCCTCCATTTAATCTTCAAAGAGCAGGACGTCTTTTTCTGA
* * *
1308337 GTTGGTGGTACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTTCAAAGCCAACCTAAGCT
388 GTTAGTGATACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTT-AAAGCCAACCCAAGCT
* * *
1308402 GGTGGCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTTTTTCAAAACCC
452 AGTGGCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAAGATACCTTTTTTTTCAAAACCC
* *
1308467 GCACAAATTGGTGCCAGCTTTTAGTCTTTAAAGAGCAAGATGTTTTTTTTCTTTTTAAAGTGTAC
517 GCACAAATTGGTGCCAGCTTTCAGTCTTTAAAGAGCAAGATG-TTTTTTTCTTTCTAAAGTGTAC
* *
1308532 ACGAGGTGGTCGCACCTTTTAGTCCTCAAAAAGCAAGTCATTTTTTTTAAAGGCCACACGAGTTG
581 ACGAGGTGGTCACACCTTTTACTCCTCAAAAAGCAAGTCATTTTTTTTAAAGGCCACACGAGTTG
*
1308597 AAGGCACCTTTTAGTCCTCAAAGAGTAGAATGCTTTTCTTTTTCTTTCTC
646 AAGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCTTTTTCTTTCTC
*
1308647 AAAGCCCACACGAATTGGTGCAACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTAA
1 AAAGGCCACACGAATTGGTGC-ACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTAA
**
1308712 AGCCCACATGAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAGC
65 AGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAGC
* * * * * *
1308777 TCACACGAGTTGGT-GACACCTTTTTGTCCTCAAATAGAATGATGC-CT-TTTTTTCTTTTATAG
130 CCACACGAGTTGGTGGA-ACCTTTTAGTCCTCAAACAGAAGGATGCTTTCTTTTTTCTTTTAAAG
* * ** * ** *
1308839 CCCCCATGAGTTGGT-GTGACTTTTTAGTCCTCAAAGAGCAAGACATCTTTTTCTTTTTAAAGCC
194 CCCACACGAGTTGGTGGT-ACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCC
** * * * *
1308903 CACACGAGTTGGTGGCACCTTTT-GTCCTTAAAGGGTAGGATGCCTTTTTCTTTT
258 CACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTT
1308957 TAAAACTTCC
Statistics
Matches: 913, Mismatches: 86, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
695 27 0.03
696 80 0.09
697 307 0.34
698 118 0.13
699 285 0.31
700 2 0.00
701 41 0.04
702 10 0.01
704 5 0.01
705 38 0.04
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (695 bp):
AAAGGCCACACGAATTGGTGCACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTAAA
GCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAGCC
CACACGAGTTGGTGGAACCTTTTAGTCCTCAAACAGAAGGATGCTTTCTTTTTTCTTTTAAAGCC
CACACGAGTTGGTGGTACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCAC
ACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGATGCCTTTTCCTTTTCAAAGCCCACCCA
AGTTGGTGGCACTTTTTAGTCCCCTCCATTTAATCTTCAAAGAGCAGGACGTCTTTTTCTGAGTT
AGTGATACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTTAAAGCCAACCCAAGCTAGTG
GCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAAGATACCTTTTTTTTCAAAACCCGCAC
AAATTGGTGCCAGCTTTCAGTCTTTAAAGAGCAAGATGTTTTTTTCTTTCTAAAGTGTACACGAG
GTGGTCACACCTTTTACTCCTCAAAAAGCAAGTCATTTTTTTTAAAGGCCACACGAGTTGAAGGC
ACCTTTTAGTCCTCAAAGAGTAGAACGCTTTTCTTTTTCTTTCTC
Found at i:1309356 original size:57 final size:58
Alignment explanation
Indices: 1309201--1309358 Score: 201
Period size: 61 Copynumber: 2.7 Consensus size: 58
1309191 ATGCCTTTTC
* * * *
1309201 TTTTCAAAAGCACACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACACCTTTTT
1 TTTTC-AAAGCCCACCCGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACC---TA
* *
1309263 TTTTTAAAGCCCACCCGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC-A
1 TTTTCAAAGCCCACCCGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTA
* *
1309320 TTTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCC
1 TTTTCAAAGCCCACCCGAGTTGGTGGCACCTTTTAGTCC
1309359 CCACCTTTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 36 0.41
61 47 0.54
62 4 0.05
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (58 bp):
TTTTCAAAGCCCACCCGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTA
Found at i:1309418 original size:194 final size:189
Alignment explanation
Indices: 1309191--1309882 Score: 523
Period size: 195 Copynumber: 3.6 Consensus size: 189
1309181 AAAAGGCAAG
* * *
1309191 ATGCC-TTTTCTTTTCAAAAGCAC-ACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGA
1 ATGCCTTTTTTTTTTC-AAAGC-CTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA
*
1309254 CACCTTTTTTTTTTAAAGCCCACCCGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC
64 CACCTTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC
* * *
1309319 ATTTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTTTAGTCCTCGAAGAGCAG
129 ATTTTCAAAGCCCACACAAGTTTGTGGCAC-TTTTAGTCCCCA-CTTTTAGTCAT--AAGAGCA-
1309384 T
189 T
* * * * *
1309385 ATGCCTTTTTTTTTTCAAAGCCTACATGAGTTGGTGCCACCTTTTAGTCTTCAAAGAGCAAGATA
1 ATGCCTTTTTTTTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
* *** * * * * **
1309450 -TTTTTTTCGTTTTAAAGTGTACACGAGTTGGTCGCACCTTTTACTCCTCAAAGTGTAGGTCGTT
66 CCTTTTTT--TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC
* * * ** *
1309514 ATTTCTTTTTAAAGCCCACACAAGTTTGCGGCACCTTTTAGTCCTCGA---AGAGT-ATAA-CGC
129 A----TTTTCAAAGCCCACACAAGTTTGTGGCA-CTTTTAGTCC-CCACTTTTAGTCATAAGAGC
1309574 -T
188 AT
* * * *
1309575 -TTCCTTTTTCTTTCTCAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGGAC
1 ATGCCTTTTT-TTTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
** * *
1309639 ACTTTCTTTTTTCTTTTTAAAGCTTACACGAGTTGATGGCACCTTTTAGTCCTTAAAGAGTAGGA
65 AC---C-TTTTT-TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA
* * * *
1309704 TGCCTTTTTCTTTTCAAAGCCCACACGAGTTTGTGACAACTTTTAGT-----C----A-TCA-AA
125 CGCC-----ATTTTCAAAGCCCACACAAGTTTGTGGC-ACTTTTAGTCCCCACTTTTAGTCATAA
*
1309758 GACCAT
184 GAGCAT
* *
1309764 GATGCCTTTTTTTCTTTTACAGCCCT-CATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAG
1 -ATGCCTTTTTTT-TTTCAAAG-CCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGT-AG
* *
1309828 G-CGCCTTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTA-TCCTTAAAG
62 GACACCTTTTTTTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAG
1309883 GGCGTGATGC
Statistics
Matches: 399, Mismatches: 66, Indels: 74
0.74 0.12 0.14
Matches are distributed among these distances:
186 14 0.04
187 35 0.09
188 4 0.01
189 9 0.02
190 50 0.13
191 49 0.12
192 7 0.02
193 9 0.02
194 89 0.22
195 92 0.23
196 5 0.01
199 33 0.08
200 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (189 bp):
ATGCCTTTTTTTTTTCAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
CCTTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCAT
TTTCAAAGCCCACACAAGTTTGTGGCACTTTTAGTCCCCACTTTTAGTCATAAGAGCAT
Found at i:1309899 original size:947 final size:936
Alignment explanation
Indices: 1308335--1310581 Score: 2656
Period size: 947 Copynumber: 2.4 Consensus size: 936
1308325 GTCTTTTTCT
* * * * * * *
1308335 GAGTTGGTGGTACCTTTTAGTCCCCAAAGAGCAGGATGACTTTTCCTTTTCAAAGCCAACCTAAG
1 GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACG-C----CATTTTCAAAGCCCACCCAAG
* * * *
1308400 CTGGTGGCACTTTTTAATTCCCACCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTTTTTCAAAAC
61 TTGGTGGCACTTTTTAGTCCCCACCTTTGAGTCCTCAAAGAGCAGGATGCCTTTTTTTTCAAAAC
* * * * *
1308465 CCGCACAAATTGGTGCCAGCTTTTAGTCTTTAAAGAGCAAGATGTTTTTTTTCTTTTTAAAGTGT
126 CCACACAAATTGGTGCCACCTTTTAGTCTTCAAAGAGCAAGATGATTTTTTTCGTTTTAAAGTGT
* * *
1308530 ACACGAGGTGGTCGCACCTTTTAGTCCTCAAAAAGCAAGTCATTTTTTTTAAAGGCCACACGAGT
191 ACACGAGGTGGTCGCACCTTTTACTCCTCAAAAAGCAAGTCATTTTTTTTAAAGCCCACACAAGT
* *
1308595 TGAAGGCACCTTTTAGTCCTCAAAGAGTAGAATGCTTTTCTTTTTCTTTCTCAAAGCCCACACGA
256 TGAAGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTCCTTTTTCTTTCTCAAAGCCCACACGA
*
1308660 ATTGGTGCAACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTAAAGCCCACATGAGT
321 ATTGGTGCAACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTAAAGCCCACACGAGT
* * * *
1308725 TAGTGGCACTTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAGCTCACACGAGTTGG
386 TAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGG
* * * * * *
1308790 TGACACCTTTTTGTCCTCAAATAGAATGATGCCTTTTTTTCTTTTATAGCCCCCATGAGTTGGTG
451 TGACAACTTTTAGTCATCAAAGACAATGATGCCTTTTTTTCTTTTACAGCCCCCATGAGTTGGTG
* *
1308855 TGACTTTTTAGTCCTCAAAGAGCAAGACATCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
516 TGACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
*
1308920 CCTTTTGTCCTTAAAGGGTAGGATGCCTTTTTCTTTTTAAAACTTCCACGAGTTGCTAGCAAATT
581 CCTTTTATCCTTAAAGGGTAGGATGCCTTTTTCTTTTTAAAACTTCCACGAGTTGCTAGCAAATT
*
1308985 TTAGTCCTCAAAGAGCAGGAC-ACTTTTTTTTGAAA-GTTCACACAAGTTGGTGGCAACTTTTAG
646 TTAGTCATCAAAGAGCAGGACAAC-TTTTTTT-AAATGTTCACACAAGTTGGTGGCAACTTTTAG
* *
1309048 TCATCAAAGAGCAAGACG-TCTTTTCCTTTCCAAAGCCTACATAAGTTGGTCACACCTTTTAGTC
709 TCATCAAAGAGCAAGACGCT-TTTTCCTTTCCAAAGCCCACATAACTTGGTCACACCTTTTAGTC
* *
1309112 TTCAAAGAGCATGACGCTTTTTTTTATTATTATAAATCCCATGCAAGTTGGTAGCACCTTTTAGT
773 TTCAAAGAGCATGACGC-TTTTTTTATTA--A-AAAGCCCATACAAGTTGGTAGCACCTTTTAGT
* *
1309177 CCTTAAAAGGCAAGATGCCTTTTCTTTTCAAAAGCACACACGAGTTGGTGGCACCTTCTAGTCCT
834 CCTTAAAAGGCAAGATGCCTTATCTTTTCAAAAGCACACACGAGTTGGTGGCACCTTATAGTCCT
* * *
1309242 CAAAGAGTAGGACACCTTTT-TTTTTTAAAGCCCACCC
899 CAAAGAGTAGGACACCTTTTCCTTTGTAAAGCCCACAC
1309279 GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCATTTTCAAAGCCCACCCAAGTTGGT
1 GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCATTTTCAAAGCCCACCCAAGTTGGT
* * * * *
1309344 GGCACTTTTTAGTCCCCACCTTTTAGTCCTCGAAGAGCAGTATGCCTTTTTTTTTTCAAAGCCTA
66 GGCACTTTTTAGTCCCCACCTTTGAGTCCTCAAAGAGCAGGATGCC--TTTTTTTTCAAAACCCA
** *
1309409 CATGAGTTGGTGCCACCTTTTAGTCTTCAAAGAGCAAGAT-ATTTTTTTCGTTTTAAAGTGTACA
129 CACAAATTGGTGCCACCTTTTAGTCTTCAAAGAGCAAGATGATTTTTTTCGTTTTAAAGTGTACA
* ** * *
1309473 CGAGTTGGTCGCACCTTTTACTCCTCAAAGTGTAGGTCGTTATTTCTTTTTAAAGCCCACACAAG
194 CGAGGTGGTCGCACCTTTTACTCCTCAAAAAGCAAGTC---ATTT-TTTTTAAAGCCCACACAAG
* * * *
1309538 TTTG-CGGCACCTTTTAGTCCTCGAAGAGTATAACGCTTTCCTTTTTCTTTCTCAAAGCCCACAT
255 -TTGAAGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTCCTTTTTCTTTCTCAAAGCCCACAC
* * **
1309602 GAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAGGACACTTTCTTTTTTCTTTTTAAAGCTTACA
319 GAATTGGTGCAACCTTTTAGTCCTCAAAGAGTAGGACA--TT-TTTTTTCTTTTTAAAGCCCACA
* *
1309667 CGAGTT-GATGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACG
381 CGAGTTAG-TGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACG
* * *
1309731 AGTTTGTGACAACTTTTAGTCATCAAAGACCATGATGCCTTTTTTTCTTTTACAGCCCTCATGAG
445 AGTTGGTGACAACTTTTAGTCATCAAAGACAATGATGCCTTTTTTTCTTTTACAGCCCCCATGAG
* * *
1309796 TTGGTG-GCACCTTTTAGTCCTCAAAGAGTAAGGCGCCTTTTT-TTTTTCAAAGCCCACACGAGT
510 TTGGTGTG-ACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTT-AAAGCCCACACGAGT
* * *
1309859 TGGTGGCACCTTTTATCCTTAAAGGG-CGTGATGCCTTTTTCTTTTTAAAGCTTGCACGAGTTGC
573 TGGTGGCACCTTTTATCCTTAAAGGGTAG-GATGCCTTTTTCTTTTTAAAACTTCCACGAGTTGC
* ** * *
1309923 TGGCACGTTTTAGTCATCAAAGAGCAGGCCAACTTTTTTTAAATGTTCACACAAGTTGGTGGCAC
637 TAGCAAATTTTAGTCATCAAAGAGCAGGACAACTTTTTTTAAATGTTCACACAAGTTGGTGGCAA
* * * * * ** *
1309988 CTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTCTTTTCAAAGCCCACATGACTTGGTGGCGCCTT
702 CTTTTAGTCATCAAAGAGCAAGACGCTTTTTCCTTTCCAAAGCCCACATAACTTGGTCACACCTT
* * * *
1310053 TTAGTCTTCAAAGAGCATGAGGCTTTTTTTCTTAAAAAGCCCATACGAGTTGGTGGCACCTTTTA
767 TTAGTCTTCAAAGAGCATGACGCTTTTTTTATTAAAAAGCCCATACAAGTTGGTAGCACCTTTTA
* * * *
1310118 GTCCTTAAAAGGTAGGATGCCTTATCTTTTTAAAAGCACATACGAGTTGGTGGCACCTTATAGTC
832 GTCCTTAAAAGGCAAGATGCCTTATCTTTTCAAAAGCACACACGAGTTGGTGGCACCTTATAGTC
** *
1310183 CTCAAAGAGTAGGATGCCTTTTCCTTTGTAAAGCTCACAC
897 CTCAAAGAGTAGGACACCTTTTCCTTTGTAAAGCCCACAC
* * * * *
1310223 GAGTAGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTTAAAGCACACACAAG
1 GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCATTTTC-----AAAGCCCACCCAAG
* ** * *
1310288 TTGGT-G---------G----CACCTTTTAGTCCTCAAAGAGTTGGATGCCATTTTTTT-AAAGC
61 TTGGTGGCACTTTTTAGTCCCCACCTTTGAGTCCTCAAAGAGCAGGATGCCTTTTTTTTCAAAAC
* * * * * * **
1310338 CCACA-AGAATTGGTGGCACCTTTTAGTCCT-AAAGGAGTAAGA-CACTTTTTTCTTTTTAAAAC
126 CCACACA-AATTGGTGCCACCTTTTAGTCTTCAAA-GAGCAAGATGATTTTTTTCGTTTTAAAGT
** * * * * * * *
1310400 CCACCCGAGTTGGTGGCACCTTTTACTCCTCAAAAAGTAGGACACCTTTTTTTTTTAATGCCCAC
189 GTACACGAGGTGGTCGCACCTTTTACTCCTCAAAAAGCAAGTCA----TTTTTTTTAAAGCCCAC
* ** * * *
1310465 ACAAATTGGTGGCACCTTTTAGTCCTCAAAGAGCT-GGACAC--T--TTTTTCTTT-TTAAAGCC
250 ACAAGTTGAAGGCACCTTTTAGTCCTCAAAGAG-TAGAACGCTTTCCTTTTTCTTTCTCAAAGCC
*
1310524 CACACGAGTTGGTGGC-ACCTTTTAGTCCTCAAAGAGTAGGATGCATTTTTTTCTCTTT
314 CACACGAATTGGT-GCAACCTTTTAGTCCTCAAAGAGTAGGA--CATTTTTTT-TCTTT
1310582 GTCCTCAAAG
Statistics
Matches: 1129, Mismatches: 138, Indels: 89
0.83 0.10 0.07
Matches are distributed among these distances:
926 5 0.00
927 51 0.05
928 10 0.01
929 3 0.00
930 1 0.00
931 6 0.01
932 129 0.11
933 11 0.01
935 26 0.02
939 63 0.06
940 54 0.05
941 49 0.04
943 110 0.10
944 198 0.18
945 3 0.00
946 23 0.02
947 366 0.32
948 4 0.00
949 17 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (936 bp):
GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCATTTTCAAAGCCCACCCAAGTTGGT
GGCACTTTTTAGTCCCCACCTTTGAGTCCTCAAAGAGCAGGATGCCTTTTTTTTCAAAACCCACA
CAAATTGGTGCCACCTTTTAGTCTTCAAAGAGCAAGATGATTTTTTTCGTTTTAAAGTGTACACG
AGGTGGTCGCACCTTTTACTCCTCAAAAAGCAAGTCATTTTTTTTAAAGCCCACACAAGTTGAAG
GCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTCCTTTTTCTTTCTCAAAGCCCACACGAATTGG
TGCAACCTTTTAGTCCTCAAAGAGTAGGACATTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTG
GCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGACA
ACTTTTAGTCATCAAAGACAATGATGCCTTTTTTTCTTTTACAGCCCCCATGAGTTGGTGTGACC
TTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
TATCCTTAAAGGGTAGGATGCCTTTTTCTTTTTAAAACTTCCACGAGTTGCTAGCAAATTTTAGT
CATCAAAGAGCAGGACAACTTTTTTTAAATGTTCACACAAGTTGGTGGCAACTTTTAGTCATCAA
AGAGCAAGACGCTTTTTCCTTTCCAAAGCCCACATAACTTGGTCACACCTTTTAGTCTTCAAAGA
GCATGACGCTTTTTTTATTAAAAAGCCCATACAAGTTGGTAGCACCTTTTAGTCCTTAAAAGGCA
AGATGCCTTATCTTTTCAAAAGCACACACGAGTTGGTGGCACCTTATAGTCCTCAAAGAGTAGGA
CACCTTTTCCTTTGTAAAGCCCACAC
Found at i:1310318 original size:28 final size:28
Alignment explanation
Indices: 1310286--1310371 Score: 70
Period size: 30 Copynumber: 3.0 Consensus size: 28
1310276 AGCACACACA
1310286 AGTTGGTGGCACCTTTTAGTCCTCAAAG
1 AGTTGGTGGCACCTTTTAGTCCTCAAAG
* **
1310314 AGTTGGATGCCATTTTTTTAAAG-CC-CACAAG
1 AGTTGG-TGGCA-CCTTTT--AGTCCTCA-AAG
*
1310345 AATTGGTGGCACCTTTTAGTCCT-AAAG
1 AGTTGGTGGCACCTTTTAGTCCTCAAAG
1310372 GAGTAAGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 15
0.67 0.11 0.23
Matches are distributed among these distances:
27 5 0.11
28 9 0.20
29 8 0.18
30 10 0.23
31 10 0.23
32 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (28 bp):
AGTTGGTGGCACCTTTTAGTCCTCAAAG
Found at i:1310686 original size:42 final size:43
Alignment explanation
Indices: 1310571--1310693 Score: 126
Period size: 46 Copynumber: 2.8 Consensus size: 43
1310561 AGGATGCATT
* * *
1310571 TTTTTCT-CTTTGTCCTCAAAGAGCAAGATGCATTTTATTTCC
1 TTTTTCTCCTTTGTCTTCAAAGAGCAGGATGCATTTTATTACC
* * *
1310613 TGTTTTTTTCCCTTTGTCCTT-AAACAACAGGATGCATTTTATTACC
1 --TTTTTCT-CCTTTGT-CTTCAAAGAGCAGGATGCATTTTATTACC
*
1310659 -TTTTCTCCTTTGTCTTCAAAGAGCAGGACGCATTT
1 TTTTTCTCCTTTGTCTTCAAAGAGCAGGATGCATTT
1310694 CATTTTCTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.05
42 22 0.34
43 5 0.08
44 6 0.09
46 27 0.42
47 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (43 bp):
TTTTTCTCCTTTGTCTTCAAAGAGCAGGATGCATTTTATTACC
Found at i:1310763 original size:85 final size:87
Alignment explanation
Indices: 1310569--1310773 Score: 229
Period size: 85 Copynumber: 2.4 Consensus size: 87
1310559 GTAGGATGCA
* * * *
1310569 TTTTTTTCTCTTTGTCCTCAAAGAGCAAGATGCATTTTATTTCCTGTTTTTTTCCCTTTGTCCTT
1 TTTTTTTC-CTTTGTCCTCAAAGAGCAAGACGCATTTCATTT-CTCTTCTTTTCCCTTTGTCCTT
*
1310634 AAACAACAGGATGCATTTTATTAC
64 AAACAACAGGATGCACTTTATTAC
* * * * *
1310658 CTTTTCTCCTTTGTCTTCAAAGAGCAGGACGCATTTCATTT-TCTTCTTTTCCCTTT-TCTTTGA
1 TTTTTTTCCTTTGTCCTCAAAGAGCAAGACGCATTTCATTTCTCTTCTTTTCCCTTTGTCCTT-A
**
1310721 AA-AGTAGGATGCACTTTATCT-C
65 AACAACAGGATGCACTTTAT-TAC
*
1310743 TTTTTTTCCTTTATCCTCAAAGAGCAAGACG
1 TTTTTTTCCTTTGTCCTCAAAGAGCAAGACG
1310774 TACACCTTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
85 45 0.46
86 17 0.18
88 29 0.30
89 6 0.06
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (87 bp):
TTTTTTTCCTTTGTCCTCAAAGAGCAAGACGCATTTCATTTCTCTTCTTTTCCCTTTGTCCTTAA
ACAACAGGATGCACTTTATTAC
Found at i:1310870 original size:43 final size:43
Alignment explanation
Indices: 1310823--1311123 Score: 151
Period size: 43 Copynumber: 7.4 Consensus size: 43
1310813 CTTTTTTCCC
1310823 TTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCTCCT
1 TTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCTCCT
* * * * *
1310866 TTTTTCTTTTGTCCCTGAA-GAGCA--A--GATGT-A--CTCC-
1 TTTTTCCTTTGT-CCTCAAGGAGTAGGACCCATTTCATTCTCCT
* * * * *
1310901 TTTTCCCTTTGTCCTCAAGGAGTAGGACGC-TTTGCTTTTTCCCA
1 TTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTT-CATTCT-CCT
* *
1310945 TTTTT-CTTTGTCTTCAAGGAGTATTGACCCATTTCATTCTCCT
1 TTTTTCCTTTGTCCTCAAGGAGTA-GGACCCATTTCATTCTCCT
* ** *
1310988 TTTTTCCTTTGTCC-CTAA--AG-AGCA-AGATGT-A--CT-CT
1 TTTTTCCTTTGTCCTC-AAGGAGTAGGACCCATTTCATTCTCCT
* * * * * *
1311023 TTTTCCCTTTGTCCTTAAGGAGTAGGACAC-TTTCTTTTTTCCC
1 TTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTC-ATTCTCCT
* * * *
1311066 TTTCTCTTTTGTCCTTAAAGAGTAGGACCCATTTCATTCTCC-
1 TTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCTCCT
*
1311108 GTTTTCCTTTGTCCTC
1 TTTTTCCTTTGTCCTC
1311124 GAAGAGCAAG
Statistics
Matches: 186, Mismatches: 45, Indels: 55
0.65 0.16 0.19
Matches are distributed among these distances:
34 5 0.03
35 31 0.17
36 6 0.03
37 3 0.02
38 9 0.05
39 7 0.04
40 1 0.01
41 2 0.01
42 16 0.09
43 73 0.39
44 30 0.16
45 3 0.02
ACGTcount: A:0.16, C:0.26, G:0.14, T:0.44
Consensus pattern (43 bp):
TTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCTCCT
Found at i:1310912 original size:121 final size:121
Alignment explanation
Indices: 1310739--1311168 Score: 512
Period size: 122 Copynumber: 3.6 Consensus size: 121
1310729 ATGCACTTTA
* * * * * *
1310739 TCTCTTTTTTTCCTTTAT-CCTCAAAGAGCAAGACGTACACCTTTTCCCTTTGTCCTGAAAGAAC
1 TCTCCTTTTTTCCTTTGTCCCT-GAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAAGAGC
*
1310803 AAGACAATTTCTTTTTTCCCTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCAT
65 AAGACACTTTCTTTTTTCCCTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCAT
* * * *
1310860 TCTCCTTTTTTCTTTTGTCCCTGAAGAGCAAGATGTACTCCTTTTCCCTTTGTCCTCAAGGAGTA
1 TCTCCTTTTTTCCTTTGTCCCTGAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAAGAGCA
* * * *
1310925 GGACGCTTTGC-TTTTTCCCATTTTT-CTTTGTCTTCAAGGAGTATTGACCCATTTCAT
66 AGACACTTT-CTTTTTTCCC-TTTTTCCTTTGTCCTCAAGGAGTA-GGACCCATTTCAT
* * * * * *
1310982 TCTCCTTTTTTCCTTTGTCCCTAAAGAGCAAGATGTACTCTTTTTCCCTTTGTCCTTAAGGAGTA
1 TCTCCTTTTTTCCTTTGTCCCTGAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAAGAGCA
* * * * *
1311047 GGACACTTTCTTTTTTCCCTTTCTCTTTTGTCCTTAAAGAGTAGGACCCATTTCAT
66 AGACACTTTCTTTTTTCCCTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCAT
* * *
1311103 TCTCC-GTTTTCCTTTGT-CCTCGAAGAGCAAGACATACT-CTTTTTCCTTTGTCCTCAAAGAGC
1 TCTCCTTTTTTCCTTTGTCCCT-GAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAAGAGC
1311165 AAGA
65 AAGA
1311169 TGCCCCTTCT
Statistics
Matches: 266, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
119 25 0.09
120 25 0.09
121 104 0.39
122 112 0.42
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (121 bp):
TCTCCTTTTTTCCTTTGTCCCTGAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAAGAGCA
AGACACTTTCTTTTTTCCCTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCAT
Found at i:1311013 original size:122 final size:120
Alignment explanation
Indices: 1310739--1311159 Score: 512
Period size: 121 Copynumber: 3.5 Consensus size: 120
1310729 ATGCACTTTA
* * * * * **
1310739 TCTCTTTTTTTCCTTTATCCTCAAAGAGCAAGACGTACACCTTTTCCCTTTGTCCTGAAAGAACA
1 TCTCCTTTTTTCCTTTGTCCTCAAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAGGAGTA
* * *
1310804 AGACAATTTCTTTTTTCCCTTTTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCAT
66 GGACACTTTCTTTTTTCCCTTTTT-CTTTGTCTTCAAGGAGTAGGACCCATTTCAT
* * *
1310860 TCTCCTTTTTTCTTTTGTCC-CTGAAGAGCAAGATGTACTCCTTTTCCCTTTGTCCTCAAGGAGT
1 TCTCCTTTTTTCCTTTGTCCTC-AAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAGGAGT
* *
1310924 AGGACGCTTTGC-TTTTTCCCATTTTTCTTTGTCTTCAAGGAGTATTGACCCATTTCAT
65 AGGACACTTT-CTTTTTTCCC-TTTTTCTTTGTCTTCAAGGAGTA-GGACCCATTTCAT
* * *
1310982 TCTCCTTTTTTCCTTTGTCC-CTAAAGAGCAAGATGTACTCTTTTTCCCTTTGTCCTTAAGGAGT
1 TCTCCTTTTTTCCTTTGTCCTC-AAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAGGAGT
* *
1311046 AGGACACTTTCTTTTTTCCCTTTCTCTTTTGTCCTT-AAAGAGTAGGACCCATTTCAT
65 AGGACACTTTCTTTTTTCCCTTTTTC-TTTGT-CTTCAAGGAGTAGGACCCATTTCAT
* * * *
1311103 TCTCC-GTTTTCCTTTGTCCTCGAAGAGCAAGACATACT-CTTTTTCCTTTGTCCTCAA
1 TCTCCTTTTTTCCTTTGTCCTCAAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAA
1311160 AGAGCAAGAT
Statistics
Matches: 262, Mismatches: 30, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
119 16 0.06
120 28 0.11
121 108 0.41
122 107 0.41
123 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (120 bp):
TCTCCTTTTTTCCTTTGTCCTCAAAGAGCAAGACGTACTCCTTTTCCCTTTGTCCTCAAGGAGTA
GGACACTTTCTTTTTTCCCTTTTTCTTTGTCTTCAAGGAGTAGGACCCATTTCAT
Found at i:1312101 original size:19 final size:19
Alignment explanation
Indices: 1312065--1312116 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1312055 CAGTTTCATG
1312065 TATCGATACAATTGAGCATA
1 TATCGATACAA-TGAGCATA
* *
1312085 TATCAATACAATGAGCATG
1 TATCGATACAATGAGCATA
1312104 TATCGATACAATG
1 TATCGATACAATG
1312117 TATCGATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
TATCGATACAATGAGCATA
Found at i:1314492 original size:22 final size:19
Alignment explanation
Indices: 1314457--1314506 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
1314447 ATCTAATGAA
1314457 GATTTTG-ATGAAAAATAGAT
1 GATTTTGAATG-AAAA-AGAT
1314477 GATTTTGATATGAAAAAGAT
1 GATTTTGA-ATGAAAAAGAT
1314497 GAATTTTGAA
1 G-ATTTTGAA
1314507 AAGGAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 13 0.48
21 11 0.41
22 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (19 bp):
GATTTTGAATGAAAAAGAT
Found at i:1318578 original size:13 final size:13
Alignment explanation
Indices: 1318560--1318586 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1318550 ACATTATGCT
1318560 TTGTATCGATACA
1 TTGTATCGATACA
1318573 TTGTATCGATACA
1 TTGTATCGATACA
1318586 T
1 T
1318587 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1318616 original size:20 final size:19
Alignment explanation
Indices: 1318570--1318626 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1318560 TTGTATCGAT
*
1318570 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1318589 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
1318608 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
1318627 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1318698 original size:33 final size:33
Alignment explanation
Indices: 1318656--1318720 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1318646 TACCACTGTT
* *
1318656 TGTATCGATACATGGT-ACATTGTATTGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
1318689 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
1318721 TTGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:1327481 original size:21 final size:22
Alignment explanation
Indices: 1327445--1327485 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1327435 TTTTTTAAGA
1327445 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
1327467 TTTGATAAA-GGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
1327486 ATGTTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.22
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:1328186 original size:13 final size:13
Alignment explanation
Indices: 1328168--1328192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1328158 ACATGGTACA
1328168 TTGTATCGATACG
1 TTGTATCGATACG
1328181 TTGTATCGATAC
1 TTGTATCGATAC
1328193 ATGATGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:1331497 original size:33 final size:33
Alignment explanation
Indices: 1331452--1331518 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1331442 GTTGGGCATA
*
1331452 AATGTATCGATACAA-TTCTTCATATATCGATAC
1 AATGTATCGATACAATTTC-CCATATATCGATAC
* *
1331485 AATGTATTGATACAATTTCCCATGTATCGATAC
1 AATGTATCGATACAATTTCCCATATATCGATAC
1331518 A
1 A
1331519 TTTCACTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACAATTTCCCATATATCGATAC
Found at i:1332312 original size:20 final size:21
Alignment explanation
Indices: 1332268--1332341 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
1332258 TTCTACAATC
*
1332268 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
*
1332289 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
* *
1332309 TGTATCAATACATGCA-TAAAA
1 TGTATCGATACATACAGT-AAA
1332330 TGTATCGATACA
1 TGTATCGATACA
1332342 AAACCACCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:1334874 original size:28 final size:26
Alignment explanation
Indices: 1334822--1334874 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
1334812 TCGATTTTAC
*
1334822 ATTTCAAGGATACTCCAACCTCATTA
1 ATTTCAAGGATACTCCAACCCCATTA
1334848 ATTTCGAAGGGATACTCC-ACCGCCATT
1 ATTTC-AA-GGATACTCCAACC-CCATT
1334875 TTTACTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 5 0.22
28 13 0.57
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (26 bp):
ATTTCAAGGATACTCCAACCCCATTA
Found at i:1334937 original size:78 final size:78
Alignment explanation
Indices: 1334793--1335182 Score: 369
Period size: 78 Copynumber: 5.0 Consensus size: 78
1334783 AAATTTCTAA
* * * * ** * *
1334793 ATTTTTCCTTCCAAAAATATCGATTTTACATTTCAAGGATACTCCAACCTCATTAATTTCGAA-G
1 ATTTTTACTTCC-AAAATATTGATTTTTCATCTCGGGGATACTCCAACCCCATT-ATTTCTAAGG
1334857 GGATACTCC-ACCGCC
64 GGATACTCCAACC-CC
* * *
1334872 ATTTTTACTTCCAAAATATTGATTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCCTTA-GG
1 ATTTTTACTTCCAAAATATTGATTTTTCATCTCGGGGATACTCCAACCCCATTATTT-CTAAGGG
1334936 GATACTCCAACCCC
65 GATACTCCAACCCC
* * * * * * *
1334950 ATTTTTATTTCAAAAATATTAAAATTTTAATCTCGGGGATACTCCAACCCCATCAATTCTAAGGG
1 ATTTTTACTTCCAAAATATT-GATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCTAAGGG
* *
1335015 GATACTCTAACCTC
65 GATACTCCAACCCC
* * * *
1335029 GTTTTTACTTCCAAAATATCGATTTTTCATCTCGGGGATACTCCAATCCCATTATTTCCAAGGGG
1 ATTTTTACTTCCAAAATATTGATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCTAAGGGG
*
1335094 ATATTCCAACCCC
66 ATACTCCAACCCC
* * * * ** * *
1335107 ATTTTTATTTCAAAAATATTAAAATTTTCAATCTC-GGGATACTTTAACCTCA-TA-TTCTGAGG
1 ATTTTTACTTCCAAAATATT-GATTTTTC-ATCTCGGGGATACTCCAACCCCATTATTTCTAAGG
*
1335169 GGACACTCCAACCC
64 GGATACTCCAACCC
1335183 TGCCTTTTTT
Statistics
Matches: 254, Mismatches: 51, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
77 22 0.09
78 134 0.53
79 93 0.37
80 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (78 bp):
ATTTTTACTTCCAAAATATTGATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCTAAGGGG
ATACTCCAACCCC
Found at i:1335084 original size:157 final size:157
Alignment explanation
Indices: 1334829--1335149 Score: 470
Period size: 157 Copynumber: 2.0 Consensus size: 157
1334819 TACATTTCAA
* * * *
1334829 GGATACTCCAACCTCATTAATTTCGAAGGGATACTCCACCGCCATTTTTACTTCCAAAATATTGA
1 GGATACTCCAACCCCATCAATTTCGAAGGGATACTCAACCGCCATTTTTACTTCCAAAATATCGA
* * *
1334894 TTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCCTTA-GGGATACTCCAACCCCATTTTTAT
66 TTTTTCATCTCGGGGATACTCCAACCCCATTATTTCC-AAGGGGATACTCCAACCCCATTTTTAT
1334958 TTCAAAAATATTAAAATTTT-AATCTCGG
130 TTCAAAAATATTAAAATTTTCAATCTC-G
* * *
1334986 GGATACTCCAACCCCATCAA-TTCTAAGGGGATACTCTAACC-TCGTTTTTACTTCCAAAATATC
1 GGATACTCCAACCCCATCAATTTCGAA-GGGATACTC-AACCGCCATTTTTACTTCCAAAATATC
* *
1335049 GATTTTTCATCTCGGGGATACTCCAATCCCATTATTTCCAAGGGGATATTCCAACCCCATTTTTA
64 GATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCATTTTTA
1335114 TTTCAAAAATATTAAAATTTTCAATCTCG
129 TTTCAAAAATATTAAAATTTTCAATCTCG
1335143 GGATACT
1 GGATACT
1335150 TTAACCTCAT
Statistics
Matches: 148, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
156 6 0.04
157 133 0.90
158 9 0.06
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (157 bp):
GGATACTCCAACCCCATCAATTTCGAAGGGATACTCAACCGCCATTTTTACTTCCAAAATATCGA
TTTTTCATCTCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCATTTTTATT
TCAAAAATATTAAAATTTTCAATCTCG
Found at i:1335191 original size:157 final size:156
Alignment explanation
Indices: 1334829--1335191 Score: 466
Period size: 157 Copynumber: 2.3 Consensus size: 156
1334819 TACATTTCAA
* * * * *
1334829 GGATACTCCAACCTCATTAATTTCGAA-GGGATACTCC-ACCGCCATTTTTACTTCCAAAATATT
1 GGATACTCCAACCCCA-TAA-TTCTAAGGGGACACTCCAACCTCC-TTTTTACTTCCAAAATATC
* * *
1334892 GATTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCCTTAGGGATACTCCAACCCCATTTTTA
63 GATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCCTAAGGGATACTCCAACCCCATTTTTA
1334957 TTTCAAAAATATTAAAATTTTAATCTCGG
128 TTTCAAAAATATTAAAATTTTAATCTCGG
* * *
1334986 GGATACTCCAACCCCATCAATTCTAAGGGGATACTCTAACCTCGTTTTTACTTCCAAAATATCGA
1 GGATACTCCAACCCCAT-AATTCTAAGGGGACACTCCAACCTCCTTTTTACTTCCAAAATATCGA
* *
1335051 TTTTTCATCTCGGGGATACTCCAATCCCATTATTTCC-AAGGGGATATTCCAACCCCATTTTTAT
65 TTTTTCATCTCGGGGATACTCCAACCCCATTATTTCCTAA-GGGATACTCCAACCCCATTTTTAT
1335115 TTCAAAAATATTAAAATTTTCAATCTC-G
129 TTCAAAAATATTAAAATTTT-AATCTCGG
** * *
1335143 GGATACTTTAACCTCAT-ATTCTGAGGGGACACTCCAACCCTGCCTTTTT
1 GGATACTCCAACCCCATAATTCTAAGGGGACACTCCAA-CCT-CCTTTTT
1335192 TTTTTAATTT
Statistics
Matches: 181, Mismatches: 18, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
155 17 0.09
156 10 0.06
157 144 0.80
158 10 0.06
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (156 bp):
GGATACTCCAACCCCATAATTCTAAGGGGACACTCCAACCTCCTTTTTACTTCCAAAATATCGAT
TTTTCATCTCGGGGATACTCCAACCCCATTATTTCCTAAGGGATACTCCAACCCCATTTTTATTT
CAAAAATATTAAAATTTTAATCTCGG
Found at i:1336933 original size:21 final size:21
Alignment explanation
Indices: 1336903--1336945 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1336893 ATCGATACGA
* *
1336903 TACATGATGTATCGATACATT
1 TACATAATGTATCAATACATT
1336924 TACATAATGTATCAATACATT
1 TACATAATGTATCAATACATT
1336945 T
1 T
1336946 CCACTTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
TACATAATGTATCAATACATT
Found at i:1337027 original size:20 final size:20
Alignment explanation
Indices: 1337002--1337042 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1336992 GCCAACCATA
1337002 TGTATCAATACATATAGTAT
1 TGTATCAATACATATAGTAT
* *
1337022 TGTATCGATACATTTAGTAT
1 TGTATCAATACATATAGTAT
1337042 T
1 T
1337043 TTTACTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (20 bp):
TGTATCAATACATATAGTAT
Found at i:1341154 original size:21 final size:21
Alignment explanation
Indices: 1341130--1341181 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1341120 GAAACTAAGT
*
1341130 ACAAAATGAACTTAGAATATC
1 ACAAAATGAACTTAAAATATC
1341151 ACAAAATGAACTTAAAATATC
1 ACAAAATGAACTTAAAATATC
1341172 ACAAAATGAA
1 ACAAAATGAA
1341182 TACAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (21 bp):
ACAAAATGAACTTAAAATATC
Found at i:1341595 original size:21 final size:21
Alignment explanation
Indices: 1341538--1341595 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
1341528 TGCCAACAAG
*
1341538 ATGTATCGATACATTCACATA
1 ATGTATCGATACATTTACATA
*
1341559 ATGTATCGATATATTTACATA
1 ATGTATCGATACATTTACATA
1341580 ATGTATCGATACATTT
1 ATGTATCGATACATTT
1341596 TTACTTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATTTACATA
Found at i:1343970 original size:20 final size:20
Alignment explanation
Indices: 1343943--1343987 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1343933 ATAAAATGTT
1343943 AAAT-TTACTTGAAAAATAA
1 AAATATTACTTGAAAAATAA
** *
1343962 AAATATTACTTGTTAAATGA
1 AAATATTACTTGAAAAATAA
1343982 AAATAT
1 AAATAT
1343988 AAGGATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (20 bp):
AAATATTACTTGAAAAATAA
Found at i:1344583 original size:127 final size:128
Alignment explanation
Indices: 1344416--1344646 Score: 288
Period size: 127 Copynumber: 1.8 Consensus size: 128
1344406 ACGGGCAGAA
1344416 GATGGATAAAGGAAGTCTCCCGAGACTAAACCAACAGGCAGAC-AATGGATGAAGAAATCT-CTC
1 GATGGATAAAGGAAGTCTCCCGAGACTAAACCAACAGGCAGACGAAT-GATGAAGAAATCTCCT-
* * * * ** *
1344479 GGGTCTAAGATGACAGGTAGATGATTGGTAAAAGAAGTCTCCTAGAACTAAGCCGATGGGTAGAC
64 AGGTCTAAGACGACAGGCAGACGAAAGATAAAAGAAGTCTCCTAGAACTAAGCCGATGGGTAGAC
* * * * * * * *
1344544 GATGGAT-TAGGAAGTCTCCCGGGTCTGAGCCGACGGGCAGACGAATGATGAAGAAGTCTCCTAG
1 GATGGATAAAGGAAGTCTCCCGAGACTAAACCAACAGGCAGACGAATGATGAAGAAATCTCCTAG
1344608 GTCTAAGACGACAGGCAGACGAAAGATAAAAGAAGTCTC
66 GTCTAAGACGACAGGCAGACGAAAGATAAAAGAAGTCTC
1344647 TCGGGTCTGA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
127 74 0.86
128 12 0.14
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (128 bp):
GATGGATAAAGGAAGTCTCCCGAGACTAAACCAACAGGCAGACGAATGATGAAGAAATCTCCTAG
GTCTAAGACGACAGGCAGACGAAAGATAAAAGAAGTCTCCTAGAACTAAGCCGATGGGTAGAC
Found at i:1344611 original size:42 final size:42
Alignment explanation
Indices: 1344510--1344809 Score: 185
Period size: 42 Copynumber: 7.1 Consensus size: 42
1344500 TGATTGGTAA
** * *
1344510 AAGAAGTCTCCTAGAACTAAGCCGATGGGTAGACG-ATGGATT
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAAT-GATG
* ** * *
1344552 AGGAAGTCTCCCGGGTCTGAGCCGACGGGCAGACGAATGATG
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAATGATG
* ** * *
1344594 AAGAAGTCTCCTAGGTCTAAGACGACAGGCAGACGAAAGATAA
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAATGAT-G
* * * * *
1344637 AAGAAGTCT-CTCGGGTCTGAGCTGATAGGCA-AGCG-ATGGAAG
1 AAGAAGTCTCCT-AGGTCTAAGCCGATGGGCAGA-CGAAT-GATG
* * * * * *
1344679 AAAAAATTCTCCTAGGCCTAAGCCGATGGGCAGCCAAAAGATG
1 -AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAATGATG
* * * * * * * *
1344722 GAGAAGTTTCCCAAGACTAAACCGACGGGTAGACGAATGATG
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAATGATG
* * * *
1344764 AAGAAGTCTCCTAGGTCTAAGTCGATGGGTAGATGAAAGATG
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAATGATG
1344806 AAGA
1 AAGA
1344810 TTGGAATAAG
Statistics
Matches: 190, Mismatches: 59, Indels: 18
0.71 0.22 0.07
Matches are distributed among these distances:
42 133 0.70
43 54 0.28
44 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (42 bp):
AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAATGATG
Found at i:1344614 original size:84 final size:84
Alignment explanation
Indices: 1344510--1344804 Score: 245
Period size: 84 Copynumber: 3.5 Consensus size: 84
1344500 TGATTGGTAA
** * **
1344510 AAGAAGTCTCCTAGAACTAAGCCGATGGGTAGACGATGGATTAGGAAGTCTCCCGGGTCTGAGCC
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAAAGATTAGGAAGTCTCCCGGGTCTGAGCC
1344575 GACGGGCAGACGAATGATG
66 GACGGGCAGACGAATGATG
* ** * * *
1344594 AAGAAGTCTCCTAGGTCTAAGACGACAGGCAGACGAAAGATAAAAGAAGTCTCTCGGGTCTGAGC
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAAAGAT-TAGGAAGTCTCCCGGGTCTGAGC
* ** *
1344659 TGATAGGCA-AGCG-ATGGAAG
65 CGACGGGCAGA-CGAAT-GATG
* * * * * * * ** * * *
1344679 AAAAAATTCTCCTAGGCCTAAGCCGATGGGCAGCCAAAAGA-TGGAGAAGTTTCCCAAGACTAAA
1 -AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAAAGATTAG-GAAGTCTCCCGGGTCTGAG
*
1344743 CCGACGGGTAGACGAATGATG
64 CCGACGGGCAGACGAATGATG
* * *
1344764 AAGAAGTCTCCTAGGTCTAAGTCGATGGGTAGATGAAAGAT
1 AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAAAGAT
1344805 GAAGATTGGA
Statistics
Matches: 157, Mismatches: 46, Indels: 15
0.72 0.21 0.07
Matches are distributed among these distances:
84 68 0.43
85 54 0.34
86 35 0.22
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.18
Consensus pattern (84 bp):
AAGAAGTCTCCTAGGTCTAAGCCGATGGGCAGACGAAAGATTAGGAAGTCTCCCGGGTCTGAGCC
GACGGGCAGACGAATGATG
Found at i:1345640 original size:9 final size:9
Alignment explanation
Indices: 1345600--1345633 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1345590 AGACTTATTT
*
1345600 GAAAAAATA
1 GAAAAAAAA
*
1345609 CAAAAAAAA
1 GAAAAAAAA
1345618 GAAAAAAAA
1 GAAAAAAAA
1345627 GAAAAAA
1 GAAAAAA
1345634 GAAAAAAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:1346157 original size:48 final size:50
Alignment explanation
Indices: 1346105--1346218 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 50
1346095 TGAACAGTAC
*
1346105 ATGTATCGATACATTCTA-TTTTTACCCAGATATATTGATACATT-TTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATACATTGATACATTATTCA
* *
1346153 ATGTATCGATACATTCTATTTTTTTTACCCAGATGCATTGATACATTATTCC
1 ATGTATCGATACATTCTA--TTTTTTACCCAGATACATTGATACATTATTCA
1346205 ATGTATCGATACAT
1 ATGTATCGATACAT
1346219 CTAGTTAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
48 18 0.31
51 24 0.41
52 17 0.29
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (50 bp):
ATGTATCGATACATTCTATTTTTTACCCAGATACATTGATACATTATTCA
Found at i:1353524 original size:50 final size:49
Alignment explanation
Indices: 1353448--1353640 Score: 242
Period size: 50 Copynumber: 3.9 Consensus size: 49
1353438 TTTCACAACT
*
1353448 TGTATCGATACATCTTCATTGTATCGATACATTCTAGATTTTACCCAAA
1 TGTATCGATACATTTTCATTGTATCGATACATTCTAGATTTTACCCAAA
* * * * *
1353497 TGTATCGATACATTATTCATTGCATCGATACATTTTGGGTTTTACCCAGA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTAGATTTTACCCAAA
* * * *
1353547 TGTATCGATACATTTTTCATTGTATCAATACATTTTGGGTTTTACCCAAA
1 TGTATCGATACA-TTTTCATTGTATCGATACATTCTAGATTTTACCCAAA
* *
1353597 TGTATCGATACATTTCTCAATGTATCGATACATTCAAGCATTTT
1 TGTATCGATACATTT-TCATTGTATCGATACATTCTAG-ATTTT
1353641 TGGCCATTTC
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 16 0.13
50 103 0.82
51 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTTTCATTGTATCGATACATTCTAGATTTTACCCAAA
Found at i:1353556 original size:30 final size:29
Alignment explanation
Indices: 1353520--1353611 Score: 85
Period size: 30 Copynumber: 3.4 Consensus size: 29
1353510 TATTCATTGC
1353520 ATCGATACATTTTGGGTTTTACCCAGATGT
1 ATCGATACATTTTGGGTTTTACCCA-ATGT
*
1353550 ATCGATACA---T---TTTT---CATTGT
1 ATCGATACATTTTGGGTTTTACCCAATGT
*
1353570 ATCAATACATTTTGGGTTTTACCCAAATGT
1 ATCGATACATTTTGGGTTTTACCC-AATGT
1353600 ATCGATACATTT
1 ATCGATACATTT
1353612 CTCAATGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 20
0.67 0.06 0.28
Matches are distributed among these distances:
20 11 0.23
21 2 0.04
23 1 0.02
24 4 0.08
26 4 0.08
27 1 0.02
29 1 0.02
30 24 0.50
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (29 bp):
ATCGATACATTTTGGGTTTTACCCAATGT
Found at i:1353624 original size:100 final size:99
Alignment explanation
Indices: 1353448--1353630 Score: 278
Period size: 100 Copynumber: 1.8 Consensus size: 99
1353438 TTTCACAACT
*
1353448 TGTATCGATACATCTTCATTGTATCGATACATTCTAGATTTTACCCAAATGTATCGATACATTAT
1 TGTATCGATACATCTTCATTGTATCAATACATTCTAGATTTTACCCAAATGTATCGATACATTAT
*
1353513 TCATTGCATCGATACATTTTGGGTTTTACCCAGA
66 TCAATGCATCGATACATTTTGGGTTTTACCCAGA
* * * *
1353547 TGTATCGATACATTTTTCATTGTATCAATACATTTTGGGTTTTACCCAAATGTATCGATACATT-
1 TGTATCGATACA-TCTTCATTGTATCAATACATTCTAGATTTTACCCAAATGTATCGATACATTA
*
1353611 TCTCAATGTATCGATACATT
65 T-TCAATGCATCGATACATT
1353631 CAAGCATTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
99 13 0.17
100 62 0.83
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (99 bp):
TGTATCGATACATCTTCATTGTATCAATACATTCTAGATTTTACCCAAATGTATCGATACATTAT
TCAATGCATCGATACATTTTGGGTTTTACCCAGA
Found at i:1356009 original size:79 final size:78
Alignment explanation
Indices: 1355907--1356364 Score: 336
Period size: 79 Copynumber: 5.8 Consensus size: 78
1355897 TTTCATCTTG
** * * *
1355907 GGGATACTCCAACCTTGATTTTATTTCTAAAATATCAATTTTTCACTATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACC
* *
1355972 CCATTATTTTCCAA
66 CCGTTATTTT-CGA
* * *
1355986 GGGATACTCCAACCCCG-TCTTTATTTCCAAAATATTAAATTTTT---CATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGAT-TTTATTTCTAAAACA-TCAATTTTTCACCATCGGGGATACTCCAA
* * *
1356047 TCCCGTTATATTTGGG
64 CCCCGTTAT-TTTCGA
* * * * ** * *
1356063 GGGATATTCTAACCACGATTTTATTCCTAAAACATTGATTTTTCCACTATCGGGGATACTCCATC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTT-CACCATCGGGGATACTCCAAC
*
1356128 CTCGTTATTTTCGA
65 CCCGTTATTTTCGA
* * * * * *
1356142 GGCAATACTCCAACCCTGGTTTTA-TTCTTAAAACACCGA-TTTTCGACCATTGGGGATACTCCA
1 GG-GATACTCCAACCCCGATTTTATTTC-TAAAACATCAATTTTTC-ACCATCGGGGATACTCCA
** * *
1356205 ACTTCGTTATTTCCAA
63 ACCCCGTTATTTTCGA
* * * * * *
1356221 GTGGATACTCCTACCCTG-TTTTATTTCTAAAACACCTATTTTCCACCATCGGAGATACTCCAAC
1 G-GGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAAC
* **
1356285 CCTGTTACCTTCGA
65 CCCGTTATTTTCGA
* * * * * ** * *
1356299 GGGATACTCCAACCTCGATTTTATTCCTAAAACACCGATTTTCCATAATAGAGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACC
1356364 C
66 C
1356365 TGTTTTTATC
Statistics
Matches: 301, Mismatches: 63, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
76 7 0.02
77 61 0.20
78 88 0.29
79 90 0.30
80 55 0.18
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:1356368 original size:78 final size:78
Alignment explanation
Indices: 1355907--1356365 Score: 323
Period size: 78 Copynumber: 5.9 Consensus size: 78
1355897 TTTCATCTTG
* * * * * * * *
1355907 GGGATACTCCAACCTTGATTTTATTTCTAAAATATCAATTTTTCACTATCGGGGATACTCTAACC
1 GGGATACTCCAACCCTGATTTTATTCCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
* *
1355972 C-CATTATTTTCCAA
66 CTCGTTA-TTT-CGA
* * *** *
1355986 GGGATACTCCAACCCCG-TCTTTATTTCC-AAAATATTAAATTTT---TCATCGGGGATACTCCA
1 GGGATACTCCAACCCTGAT-TTTA-TTCCTAAAACA-CCGATTTTCCACCATCGGGGATACTCCA
* * *
1356046 ATCC-CGTTATATTTGGG
63 ACCCTCG-T-TATTTCGA
* * ** *
1356063 GGGATATTCTAACCAC-GATTTTATTCCTAAAACATTGATTTTTCCACTATCGGGGATACTCC-A
1 GGGATACTCCAACC-CTGATTTTATTCCTAAAACACCGA-TTTTCCACCATCGGGGATACTCCAA
*
1356126 TCCTCGTTATTTTCGA
64 CCCTCGTTA-TTTCGA
* * * * *
1356142 GGCAATACTCCAACCCTGGTTTTATTCTTAAAACACCGATTTTCGACCATTGGGGATACTCCAA-
1 GG-GATACTCCAACCCTGATTTTATTCCTAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
* *
1356206 CTTCGTTATTTCCAA
65 CCTCGTTATTT-CGA
* * * *
1356221 GTGGATACTCCTACCCTG-TTTTATTTCTAAAACACCTATTTTCCACCATCGGAGATACTCCAAC
1 G-GGATACTCCAACCCTGATTTTATTCCTAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
*
1356285 CCT-GTTACCTTCGA
65 CCTCGTTA-TTTCGA
** * *
1356299 GGGATACTCCAA-CCTCGATTTTATTCCTAAAACACCGATTTTCCATAATAGAGGATACTCCAAC
1 GGGATACTCCAACCCT-GATTTTATTCCTAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
1356363 CCT
65 CCT
1356366 GTTTTTATCT
Statistics
Matches: 305, Mismatches: 52, Indels: 47
0.75 0.13 0.12
Matches are distributed among these distances:
76 9 0.03
77 55 0.18
78 100 0.33
79 86 0.28
80 55 0.18
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCTGATTTTATTCCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
CTCGTTATTTCGA
Found at i:1359031 original size:13 final size:13
Alignment explanation
Indices: 1359013--1359038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1359003 TACACAAAGT
1359013 ATGTATCGATACA
1 ATGTATCGATACA
1359026 ATGTATCGATACA
1 ATGTATCGATACA
1359039 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1359036 original size:32 final size:33
Alignment explanation
Indices: 1358995--1359058 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1358985 TAGCCAAACT
**
1358995 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1359027 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1359059 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1361293 original size:21 final size:21
Alignment explanation
Indices: 1361260--1361309 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1361250 TTGCAAGTTG
*
1361260 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1361282 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1361303 AAATAAA
1 AAATAAA
1361310 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1363128 original size:15 final size:15
Alignment explanation
Indices: 1363108--1363138 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1363098 TAAAAATGTC
*
1363108 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1363123 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1363138 C
1 C
1363139 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1366918 original size:23 final size:21
Alignment explanation
Indices: 1366876--1366918 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
1366866 GTTTAATGTT
**
1366876 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
1366897 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
1366919 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:1367841 original size:13 final size:13
Alignment explanation
Indices: 1367823--1367848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1367813 TACACAAAGT
1367823 ATGTATCGATACA
1 ATGTATCGATACA
1367836 ATGTATCGATACA
1 ATGTATCGATACA
1367849 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1367867 original size:34 final size:32
Alignment explanation
Indices: 1367805--1367869 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1367795 TAGCCAAACT
**
1367805 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
1367837 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
1367870 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:1371985 original size:52 final size:52
Alignment explanation
Indices: 1371903--1372045 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 52
1371893 TGAAAAGTTA
* *
1371903 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTG
*
1371955 CCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTG
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTG
* *
1372007 CCTACATGTATCGATACA--AAGATCAATGTATCGATACAT
1 CCTGCATGTATCGATACATTTA-AT-AATGTATCGATACAT
1372046 TTTTTGGCAG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTG
Found at i:1372101 original size:33 final size:33
Alignment explanation
Indices: 1372064--1372130 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1372054 AGTAGCTTAA
1372064 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1372097 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1372130 A
1 A
1372131 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1372104 original size:13 final size:13
Alignment explanation
Indices: 1372086--1372110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1372076 CAAAAAAATA
1372086 TGTATCGATACAT
1 TGTATCGATACAT
1372099 TGTATCGATACA
1 TGTATCGATACA
1372111 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1374393 original size:23 final size:23
Alignment explanation
Indices: 1374367--1374415 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
1374357 GTGGCAAATC
1374367 AAAAATGTACAAAGTTCCCTT-A
1 AAAAATGTACAAAGTTCCCTTCA
1374389 AAAAATGTACAAAGTTCCCTTCA
1 AAAAATGTACAAAGTTCCCTTCA
1374412 AAAA
1 AAAA
1374416 TAATGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAAATGTACAAAGTTCCCTTCA
Found at i:1374520 original size:25 final size:26
Alignment explanation
Indices: 1374463--1374522 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
1374453 AACACAAAAG
1374463 AAACAAAAAAAGAAAAAAAAAAGTGA
1 AAACAAAAAAAGAAAAAAAAAAGTGA
** *
1374489 AGGCAAAATAA-AAAAAAAAAAG-GA
1 AAACAAAAAAAGAAAAAAAAAAGTGA
1374513 ACAACAAAAA
1 A-AACAAAAA
1374523 CCAAAAAGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
24 3 0.11
25 16 0.59
26 8 0.30
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (26 bp):
AAACAAAAAAAGAAAAAAAAAAGTGA
Found at i:1374973 original size:21 final size:21
Alignment explanation
Indices: 1374940--1374980 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1374930 CTAAGTAAAA
1374940 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1374961 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1374981 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1375045 original size:20 final size:19
Alignment explanation
Indices: 1375020--1375090 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1375010 ACCCTGAAAA
1375020 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1375040 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1375059 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1375080 GTATCGATACA
1 GTATCGATACA
1375091 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1375265 original size:13 final size:13
Alignment explanation
Indices: 1375247--1375272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1375237 ACATATTTGT
1375247 GTGTATCGATACA
1 GTGTATCGATACA
1375260 GTGTATCGATACA
1 GTGTATCGATACA
1375273 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1375814 original size:34 final size:35
Alignment explanation
Indices: 1375751--1375817 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1375741 CTAAGTGATT
1375751 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1375787 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1375818 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1380593 original size:21 final size:21
Alignment explanation
Indices: 1380560--1380600 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1380550 CTAAGTAAAA
1380560 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1380581 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1380601 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1380665 original size:20 final size:19
Alignment explanation
Indices: 1380640--1380710 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1380630 ACCCTGAAAA
1380640 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1380660 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1380679 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1380700 GTATCGATACA
1 GTATCGATACA
1380711 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1380885 original size:13 final size:13
Alignment explanation
Indices: 1380867--1380892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1380857 ACATATTTGT
1380867 GTGTATCGATACA
1 GTGTATCGATACA
1380880 GTGTATCGATACA
1 GTGTATCGATACA
1380893 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1381434 original size:34 final size:35
Alignment explanation
Indices: 1381371--1381437 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1381361 CTAAGTGATT
1381371 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1381407 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1381438 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1382936 original size:29 final size:29
Alignment explanation
Indices: 1382857--1383054 Score: 143
Period size: 29 Copynumber: 6.8 Consensus size: 29
1382847 ACATCCCCAA
* * *
1382857 TGGCACCCCTTTTTAAAGTCCACATCTCTG
1 TGGCA-CCCTTTCTAAAGTCCACAACTCAG
* *
1382887 TGGCACCCTTTCTCAATGTCCATAACTTC-G
1 TGGCACCCTTTCT-AAAGTCCACAAC-TCAG
1382917 TGGCA-CCTTTCCTAAAGTCCACAACTCAG
1 TGGCACCCTTT-CTAAAGTCCACAACTCAG
* * ** *
1382946 TGGCATCCTTTTTAAAGTCCAGGACTCAA
1 TGGCACCCTTTCTAAAGTCCACAACTCAG
* *
1382975 TGGCATCCCTTT-TCAAGTCCACGACTCAG
1 TGGCA-CCCTTTCTAAAGTCCACAACTCAG
* * * *
1383004 TGGCATCCTTT-TGAAATTCCACGACTCAA
1 TGGCACCCTTTCT-AAAGTCCACAACTCAG
** *
1383033 TGGCTTCCTTTCCAAAGTCCAC
1 TGGCACCCTTTCTAAAGTCCAC
1383055 GATTCAATGG
Statistics
Matches: 139, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
28 8 0.06
29 97 0.70
30 32 0.23
31 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCACCCTTTCTAAAGTCCACAACTCAG
Found at i:1382996 original size:58 final size:59
Alignment explanation
Indices: 1382854--1383340 Score: 272
Period size: 58 Copynumber: 8.0 Consensus size: 59
1382844 TCAACATCCC
* * * * * * **
1382854 CAATGGCACCCCTTTTTAAAGTCCACATCTCTGTGGCACCCTTTCTCAATGTCCATAACTT
1 CAATGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCATCCTTT-TCAAAGTCCACGAC-T
* * * *
1382915 C-GTGGCA--CCTTTCCTAAAGTCCACAACTCAGTGGCATCCTTTTTAAAGTCCAGGACT
1 CAATGGCATCCCTTTTC-AAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCACGACT
* * *
1382972 CAATGGCATCCCTTTTC-AAGTCCACGACTCAGTGGCATCCTTTTGAAATTCCACGACT
1 CAATGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCACGACT
* * * * * * * *
1383030 CAATGGC-TTCCTTTCCAAAGTCCACGATTCAATGGCTTTCTTTTCAAAGTCCATGACT
1 CAATGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCACGACT
* * * * *** *
1383088 -AAGTGGCACCTTTCTCAAACCTTTTTCAAAGTTCGCAACTTAGTGGCATCATTTTTTGAGACCA
1 CAA-TGGCA------TC---CC-TTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCA
*
1383152 CAACT
55 CGACT
* * * *
1383157 AAATGGCAT-CCTTTTCAAAGTCCACGACTTAGTGGCATCCTTTTCAAAGTCCAAGACT
1 CAATGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCACGACT
* * * * * * *
1383215 TAGTGGCATATTTCTCAAACTATTTTCAAAGTCTACAACTCAGTGACATTCTTTT-TAAGTCCAG
1 CAATGGC--A--TC-C---C--TTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCAC
1383279 GACT
56 GACT
* * * *
1383283 CAATGGCGT-CTTTTTCAAAGTCCACAACTCAGTAGCATCCTTTTCAAAGTCCATGACT
1 CAATGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCACGACT
1383341 TAGTGGTACC
Statistics
Matches: 325, Mismatches: 71, Indels: 63
0.71 0.15 0.14
Matches are distributed among these distances:
57 40 0.12
58 155 0.48
59 26 0.08
60 12 0.04
61 1 0.00
62 2 0.01
63 1 0.00
64 2 0.01
65 1 0.00
67 1 0.00
68 18 0.06
69 64 0.20
70 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (59 bp):
CAATGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCAAAGTCCACGACT
Found at i:1383042 original size:87 final size:86
Alignment explanation
Indices: 1382916--1383100 Score: 212
Period size: 87 Copynumber: 2.1 Consensus size: 86
1382906 CCATAACTTC
* * ** *
1382916 GTGGCACCTTTCCT-AAAGTCCACAACTCAGTGGCATCCTTTTTAAAGTCCAGGACTCAATGGCA
1 GTGGCACCTTT--TGAAATTCCACAACTCAATGGCATCCTTTCCAAAGTCCACGACTCAATGGC-
*
1382980 TCCCTTTTC-AAGTCCACGACTCA
63 TCCCTTTTCAAAGTCCACGACTAA
* * * *
1383003 GTGGCATCCTTTTGAAATTCCACGACTCAATGGCTTCCTTTCCAAAGTCCACGATTCAATGGCTT
1 GTGGCA-CCTTTTGAAATTCCACAACTCAATGGCATCCTTTCCAAAGTCCACGACTCAATGGCTC
* *
1383068 TCTTTTCAAAGTCCATGACTAA
65 CCTTTTCAAAGTCCACGACTAA
1383090 GTGGCACCTTT
1 GTGGCACCTTT
1383101 CTCAAACCTT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
86 13 0.16
87 65 0.78
88 5 0.06
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (86 bp):
GTGGCACCTTTTGAAATTCCACAACTCAATGGCATCCTTTCCAAAGTCCACGACTCAATGGCTCC
CTTTTCAAAGTCCACGACTAA
Found at i:1383094 original size:29 final size:29
Alignment explanation
Indices: 1382930--1383087 Score: 174
Period size: 29 Copynumber: 5.4 Consensus size: 29
1382920 CACCTTTCCT
* * * *
1382930 AAAGTCCACAACTCAGTGGCATCCTTTTT
1 AAAGTCCACGACTCAATGGCTTCCTTTTC
* *
1382959 AAAGTCCAGGACTCAATGGCATCCCTTTTC
1 AAAGTCCACGACTCAATGGC-TTCCTTTTC
* * *
1382989 -AAGTCCACGACTCAGTGGCATCCTTTTG
1 AAAGTCCACGACTCAATGGCTTCCTTTTC
* *
1383017 AAATTCCACGACTCAATGGCTTCCTTTCC
1 AAAGTCCACGACTCAATGGCTTCCTTTTC
* *
1383046 AAAGTCCACGATTCAATGGCTTTCTTTTC
1 AAAGTCCACGACTCAATGGCTTCCTTTTC
*
1383075 AAAGTCCATGACT
1 AAAGTCCACGACT
1383088 AAGTGGCACC
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
28 6 0.06
29 93 0.89
30 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
AAAGTCCACGACTCAATGGCTTCCTTTTC
Found at i:1383105 original size:29 final size:29
Alignment explanation
Indices: 1382916--1383106 Score: 160
Period size: 29 Copynumber: 6.6 Consensus size: 29
1382906 CCATAACTTC
* * *
1382916 GTGGCA-CCTTTCCTAAAGTCCACAACTCA
1 GTGGCATCCTTTTC-AAAGTCCACGACTAA
* *
1382945 GTGGCATCCTTTTTAAAGTCCAGGACTCAA
1 GTGGCATCCTTTTCAAAGTCCACGACT-AA
*
1382975 -TGGCATCCCTTTTC-AAGTCCACGACTCA
1 GTGGCAT-CCTTTTCAAAGTCCACGACTAA
* *
1383003 GTGGCATCCTTTTGAAATTCCACGACTCAA
1 GTGGCATCCTTTTCAAAGTCCACGACT-AA
* * *
1383033 -TGGCTTCCTTTCCAAAGTCCACGATTCAA
1 GTGGCATCCTTTTCAAAGTCCACGACT-AA
* * *
1383062 -TGGCTTTCTTTTCAAAGTCCATGACTAA
1 GTGGCATCCTTTTCAAAGTCCACGACTAA
1383090 GTGGCA-CCTTTCTCAAA
1 GTGGCATCCTTT-TCAAA
1383107 CCTTTTTCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
28 13 0.10
29 106 0.80
30 13 0.10
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
GTGGCATCCTTTTCAAAGTCCACGACTAA
Found at i:1383229 original size:127 final size:125
Alignment explanation
Indices: 1382984--1383456 Score: 506
Period size: 127 Copynumber: 3.7 Consensus size: 125
1382974 ATGGCATCCC
* * ** * * * * *
1382984 TTTTC-AAGTCCACGACTCAGTGGCATCCTTTTGAAATTCCACGACTCAATGGCTTCCTTTCCAA
1 TTTTCAAAGTCTACAACTCAGTGGCAT-CTTTTTTAAGTCCACAACTAAATGGCATCCTTTTCAA
* * * *
1383048 AGTCCACGATTCAATGGCTTTCTTTTCAAAGTCCATGACTAAGTGGCACCTTTCTCAAACCT
65 AGTCCACGATT-AGTGGCATCCTTTTCAAAGTCCATGACTTAGTGGCACCTTTCTCAAACCT
* * * *
1383110 TTTTCAAAGT-TCGCAACTTAGTGGCATCATTTTTTGAGACCACAACTAAATGGCATCCTTTTCA
1 TTTTCAAAGTCT-ACAACTCAGTGGCATC-TTTTTTAAGTCCACAACTAAATGGCATCCTTTTCA
* **
1383174 AAGTCCACGACTTAGTGGCATCCTTTTCAAAGTCCAAGACTTAGTGGCATATTTCTCAAA-CT
64 AAGTCCACGA-TTAGTGGCATCCTTTTCAAAGTCCATGACTTAGTGGCACCTTTCTCAAACCT
* ** * * *
1383236 ATTTTCAAAGTCTACAACTCAGTGACAT-TCTTTTTAAGTCCAGGACTCAATGGCGTCTTTTTCA
1 -TTTTCAAAGTCTACAACTCAGTGGCATCT-TTTTTAAGTCCACAACTAAATGGCATCCTTTTCA
* * * *
1383300 AAGTCCACAACTCAGTAGCATCCTTTTCAAAGTCCATGACTTAGTGGTACCTTTCTCAAACCT
64 AAGTCCACGA-TTAGTGGCATCCTTTTCAAAGTCCATGACTTAGTGGCACCTTTCTCAAACCT
* * * *
1383363 TTTTCAAAGTCTATAACCCAGTGGCATCCTTTTTTAAGTCCATAACTAAATGGCATCTTTTTCAA
1 TTTTCAAAGTCTACAACTCAGTGGCAT-CTTTTTTAAGTCCACAACTAAATGGCATCCTTTTCAA
*
1383428 AGTCCATGATTAGTGGCA-CCTTTCTCAAA
65 AGTCCACGATTAGTGGCATCCTTT-TCAAA
1383457 CCCTTTTCAA
Statistics
Matches: 288, Mismatches: 48, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
125 6 0.02
126 124 0.43
127 154 0.53
128 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (125 bp):
TTTTCAAAGTCTACAACTCAGTGGCATCTTTTTTAAGTCCACAACTAAATGGCATCCTTTTCAAA
GTCCACGATTAGTGGCATCCTTTTCAAAGTCCATGACTTAGTGGCACCTTTCTCAAACCT
Found at i:1383232 original size:29 final size:29
Alignment explanation
Indices: 1383125--1383233 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
1383115 AAAGTTCGCA
*** *
1383125 ACTTAGTGGCATCATTTTTTGAGACCACA-
1 ACTTAGTGGCATCATTTTCAAAGTCCA-AG
* * * *
1383154 ACTAAATGGCATCCTTTTCAAAGTCCACG
1 ACTTAGTGGCATCATTTTCAAAGTCCAAG
*
1383183 ACTTAGTGGCATCCTTTTCAAAGTCCAAG
1 ACTTAGTGGCATCATTTTCAAAGTCCAAG
1383212 ACTTAGTGGCAT-ATTTCTCAAA
1 ACTTAGTGGCATCATTT-TCAAA
1383234 CTATTTTCAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.05
29 63 0.95
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (29 bp):
ACTTAGTGGCATCATTTTCAAAGTCCAAG
Found at i:1383312 original size:29 final size:29
Alignment explanation
Indices: 1383237--1383335 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
1383227 TCTCAAACTA
* *
1383237 TTTTCAAAGTCTACAACTCAGTGACATTCT
1 TTTTCAAAGTCCACAACTCAGTGGCA-TCT
** * *
1383267 TTTT--AAGTCCAGGACTCAATGGCGTCT
1 TTTTCAAAGTCCACAACTCAGTGGCATCT
* *
1383294 TTTTCAAAGTCCACAACTCAGTAGCATCC
1 TTTTCAAAGTCCACAACTCAGTGGCATCT
1383323 TTTTCAAAGTCCA
1 TTTTCAAAGTCCA
1383336 TGACTTAGTG
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
27 7 0.13
28 14 0.25
29 30 0.55
30 4 0.07
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (29 bp):
TTTTCAAAGTCCACAACTCAGTGGCATCT
Found at i:1383331 original size:253 final size:252
Alignment explanation
Indices: 1382984--1383456 Score: 637
Period size: 253 Copynumber: 1.9 Consensus size: 252
1382974 ATGGCATCCC
* * * *
1382984 TTTTCAAGTCCACGACTCAGTGGCATCCTTTTGAAATTCCACGACTCAATGGCTTCCTTTCCAAA
1 TTTTCAAGTCCACAACTCAGTGACATCCTTTTGAAAGTCCACGACTCAATGGCGTCCTTTCCAAA
* * * * *
1383049 GTCCACGATTCAATGGCTTTCTTTTCAAAGTCCATGACTAAGTGGCACCTTTCTCAAACCTTTTT
66 GTCCACAACTCAATAGCATCCTTTTCAAAGTCCATGACTAAGTGGCACCTTTCTCAAACCTTTTT
* ** *
1383114 CAAAGT-TCGCAACTTAGTGGCATCATTTTTTGAGACCACAACTAAATGGCATCCTTTTCAAAGT
131 CAAAGTCT-ACAACCCAGTGGCATCATTTTTTAAGACCACAACTAAATGGCATCCTTTTCAAAGT
1383178 CCACGACTTAGTGGCATCCTTT-TCAAAGTCCAAGACTTAGTGGCATATTTCTCAAACTA
195 CCACGA-TTAGTGGCA-CCTTTCTCAAAGTCCAAGACTTAGTGGCATATTTCTCAAACTA
* * * * * *
1383237 TTTTCAAAGTCTACAACTCAGTGACATTCTTTT-TAAGTCCAGGACTCAATGGCGTCTTTTTCAA
1 TTTTC-AAGTCCACAACTCAGTGACATCCTTTTGAAAGTCCACGACTCAATGGCGTCCTTTCCAA
* * *
1383301 AGTCCACAACTCAGTAGCATCCTTTTCAAAGTCCATGACTTAGTGGTACCTTTCTCAAACCTTTT
65 AGTCCACAACTCAATAGCATCCTTTTCAAAGTCCATGACTAAGTGGCACCTTTCTCAAACCTTTT
* * * * *
1383366 TCAAAGTCTATAACCCAGTGGCATCCTTTTTTAAGTCCATAACTAAATGGCATCTTTTTCAAAGT
130 TCAAAGTCTACAACCCAGTGGCATCATTTTTTAAGACCACAACTAAATGGCATCCTTTTCAAAGT
*
1383431 CCATGATTAGTGGCACCTTTCTCAAA
195 CCACGATTAGTGGCACCTTTCTCAAA
1383457 CCCTTTTCAA
Statistics
Matches: 189, Mismatches: 28, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
251 5 0.03
252 14 0.07
253 146 0.77
254 24 0.13
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (252 bp):
TTTTCAAGTCCACAACTCAGTGACATCCTTTTGAAAGTCCACGACTCAATGGCGTCCTTTCCAAA
GTCCACAACTCAATAGCATCCTTTTCAAAGTCCATGACTAAGTGGCACCTTTCTCAAACCTTTTT
CAAAGTCTACAACCCAGTGGCATCATTTTTTAAGACCACAACTAAATGGCATCCTTTTCAAAGTC
CACGATTAGTGGCACCTTTCTCAAAGTCCAAGACTTAGTGGCATATTTCTCAAACTA
Found at i:1383407 original size:29 final size:30
Alignment explanation
Indices: 1383360--1383434 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
1383350 CTTTCTCAAA
* * *
1383360 CCTTTTTCAAAGTCTATAACCCAGTGGCAT
1 CCTTTTTCAAAGTCCATAACCAAATGGCAT
* *
1383390 CCTTTTT-TAAGTCCATAACTAAATGGCAT
1 CCTTTTTCAAAGTCCATAACCAAATGGCAT
1383419 -CTTTTTCAAAGTCCAT
1 CCTTTTTCAAAGTCCAT
1383435 GATTAGTGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 6 0.16
29 25 0.66
30 7 0.18
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (30 bp):
CCTTTTTCAAAGTCCATAACCAAATGGCAT
Found at i:1383428 original size:69 final size:69
Alignment explanation
Indices: 1383292--1383428 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 69
1383282 TCAATGGCGT
* * * * *
1383292 CTTTTTCAAAGTCCACAACTCAGTAGCATCCTTTTCAAAGTCCATGACTTAGTGGTACCTTTCTC
1 CTTTTTCAAAGTCCACAACCCAGTAGCATCCTTTTCAAAGTCCATAACTAAATGGCACCTTTCTC
1383357 AAAC
66 AAAC
* * * ** * *
1383361 CTTTTTCAAAGTCTATAACCCAGTGGCATCCTTTTTTAAGTCCATAACTAAATGGCATCTTTTTC
1 CTTTTTCAAAGTCCACAACCCAGTAGCATCCTTTTCAAAGTCCATAACTAAATGGCACCTTTCTC
1383426 AAA
66 AAA
1383429 GTCCATGATT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (69 bp):
CTTTTTCAAAGTCCACAACCCAGTAGCATCCTTTTCAAAGTCCATAACTAAATGGCACCTTTCTC
AAAC
Found at i:1383444 original size:28 final size:29
Alignment explanation
Indices: 1383361--1383456 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
1383351 TTTCTCAAAC
* **
1383361 CTTTTTCAAAGTCTATAACCCAGTGGCAT
1 CTTTTTCAAAGTCCATAACTAAGTGGCAT
* *
1383390 CCTTTTT-TAAGTCCATAACTAAATGGCAT
1 -CTTTTTCAAAGTCCATAACTAAGTGGCAT
* * *
1383419 CTTTTTCAAAGTCCATGA-TTAGTGGCAC
1 CTTTTTCAAAGTCCATAACTAAGTGGCAT
*
1383447 CTTTCTCAAA
1 CTTTTTCAAA
1383457 CCCTTTTCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
28 22 0.41
29 26 0.48
30 6 0.11
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (29 bp):
CTTTTTCAAAGTCCATAACTAAGTGGCAT
Found at i:1383499 original size:29 final size:28
Alignment explanation
Indices: 1383460--1383788 Score: 237
Period size: 29 Copynumber: 11.3 Consensus size: 28
1383450 TCTCAAACCC
* *
1383460 TTTTCAAGTCCATAACTCTGTGGTATCCT
1 TTTTAAAGTCCATAACTCTGTGGCA-CCT
* * * *
1383489 TTTTAAAGTCCACAATTCCGTGACACCT
1 TTTTAAAGTCCATAACTCTGTGGCACCT
* * *
1383517 CTTGTAAAGTCCATGACTCAGTGGCACCCT
1 -TTTTAAAGTCCATAACTCTGTGGCA-CCT
* * * *
1383547 TCTCAAAGTCCACAACTTTGTGGCACCCT
1 TTTTAAAGTCCATAACTCTGTGGCA-CCT
* *
1383576 TTTTTAAGTCCATAACTTTGTGGCACCTT
1 TTTTAAAGTCCATAACTCTGTGGCACC-T
* * * *
1383605 TTTTAAAGTCTACAACTCTTTTGCACTCCT
1 TTTTAAAGTCCATAACTCTGTGGCA--CCT
*
1383635 TTTTCAAAGTCCACT-ACTCTATGGCACCAT
1 TTTT-AAAGTCCA-TAACTCTGTGGCACC-T
* * *
1383665 TTTTAAAGTCCAAAACTCCGTGGTACCTT
1 TTTTAAAGTCCATAACTCTGTGGCACC-T
* * *
1383694 TTTTTAAGTCTATAACTCCGTGGCACCCCT
1 TTTTAAAGTCCATAACTCTGTGGCA--CCT
* * * * *
1383724 TTTTTAAGTCCACAACTCTATGACACCC
1 TTTTAAAGTCCATAACTCTGTGGCACCT
*
1383752 TTTTAAAGTCCATAACTCTATGGCACCT
1 TTTTAAAGTCCATAACTCTGTGGCACCT
1383780 TTTTCAAAG
1 TTTT-AAAG
1383789 CCCACACAAG
Statistics
Matches: 236, Mismatches: 52, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
28 35 0.15
29 147 0.62
30 34 0.14
31 20 0.08
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (28 bp):
TTTTAAAGTCCATAACTCTGTGGCACCT
Found at i:1383552 original size:97 final size:98
Alignment explanation
Indices: 1383292--1383553 Score: 282
Period size: 96 Copynumber: 2.7 Consensus size: 98
1383282 TCAATGGCGT
* * *
1383292 CTTTTTCAAAGTCCACAACTCAGT-AGCATCCTTT-TCAAAGTCCATGACTTAGTGGTACCTTTC
1 CTTTTT-AAAGTCCACAACTAAATGA-CA-CCTTTGTCAAAGTCCATGACTTAGTGGCACCTTTC
* *
1383355 TCAAACCTTTTTCAAAGTCTATAACCCAGTGGCATC
63 TCAAACCCTTTTCAAAGTCCATAACCCAGTGGCATC
* * * * *
1383391 CTTTTTTAAGTCCATAACTAAATGGCATCTTTTTCAAAGTCCATGA-TTAGTGGCACCTTTCTCA
1 CTTTTTAAAGTCCACAACTAAATGACACCTTTGTCAAAGTCCATGACTTAGTGGCACCTTTCTCA
* * *
1383455 AACCCTTTTC-AAGTCCATAACTCTGTGGTATC
66 AACCCTTTTCAAAGTCCATAACCCAGTGGCATC
* *** * *
1383487 CTTTTTAAAGTCCACAATTCCGTGACACCTCTTGT-AAAGTCCATGACTCAGTGGCACCCTTCTC
1 CTTTTTAAAGTCCACAACTAAATGACACCT-TTGTCAAAGTCCATGACTTAGTGGCACCTTTCTC
1383551 AAA
65 AAA
1383554 GTCCACAACT
Statistics
Matches: 136, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
96 51 0.38
97 51 0.38
98 28 0.21
99 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (98 bp):
CTTTTTAAAGTCCACAACTAAATGACACCTTTGTCAAAGTCCATGACTTAGTGGCACCTTTCTCA
AACCCTTTTCAAAGTCCATAACCCAGTGGCATC
Found at i:1383585 original size:58 final size:58
Alignment explanation
Indices: 1383456--1383814 Score: 282
Period size: 58 Copynumber: 6.1 Consensus size: 58
1383446 CCTTTCTCAA
* * * * * * *
1383456 ACCC-TTTTCAAGTCCATAACTCTGTGGTATCCTTTTTAAAGTCCACAATTCCGTGAC
1 ACCCTTTTTAAAGTCCATAACTCAGTGGCACCCTTTTTAAAGTCCACAACTCTGTGGC
* * * * *
1383513 A-CCTCTTGTAAAGTCCATGACTCAGTGGCACCCTTCTCAAAGTCCACAACTTTGTGGC
1 ACCCT-TTTTAAAGTCCATAACTCAGTGGCACCCTTTTTAAAGTCCACAACTCTGTGGC
* ** * * * *
1383571 ACCCTTTTTTAAGTCCATAACTTTGTGGCACCTTTTTTAAAGTCTACAACTCTTTTGC
1 ACCCTTTTTAAAGTCCATAACTCAGTGGCACCCTTTTTAAAGTCCACAACTCTGTGGC
* * * *
1383629 ACTCCTTTTTCAAAGTCCACT-ACTCTA-TGGCACCATTTTTAAAGTCCAAAACTCCGTGGT
1 AC-CCTTTTT-AAAGTCCA-TAACTC-AGTGGCACCCTTTTTAAAGTCCACAACTCTGTGGC
* * * * * * *
1383689 ACCTTTTTTTAAGTCTATAACTCCGTGGCACCCCTTTTTTAAGTCCACAACTCTATGAC
1 ACCCTTTTTAAAGTCCATAACTCAGTGGCA-CCCTTTTTAAAGTCCACAACTCTGTGGC
* *
1383748 ACCC-TTTTAAAGTCCATAACTCTA-TGGCA-CCTTTTTCAAAGCCCACACAAGTCTGTGGC
1 ACCCTTTTTAAAGTCCATAACTC-AGTGGCACCCTTTTT-AAAG-TC-CACAACTCTGTGGC
*
1383807 AACCTTTT
1 ACCCTTTT
1383815 AAAATCCCAC
Statistics
Matches: 232, Mismatches: 55, Indels: 27
0.74 0.18 0.09
Matches are distributed among these distances:
56 9 0.04
57 5 0.02
58 122 0.53
59 54 0.23
60 41 0.18
61 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (58 bp):
ACCCTTTTTAAAGTCCATAACTCAGTGGCACCCTTTTTAAAGTCCACAACTCTGTGGC
Found at i:1383668 original size:89 final size:88
Alignment explanation
Indices: 1383460--1383788 Score: 306
Period size: 87 Copynumber: 3.8 Consensus size: 88
1383450 TCTCAAACCC
* * * * * * * * *
1383460 TTTTC-AAGTCCATAACTCTGTGGTATCCTTTTTAAAGTCCACAATTCCGTGACACCTCTTGTAA
1 TTTTCAAAGTCCACAACTCTATGGCA-CCTTTTTAAAGTCCATAACTCTGTGGCACCTTTTTTAA
* ** *
1383524 AGTCCATGACTCAGTGGCA-CCC-
65 AGTCTACAACTCCGTGGCACCCCT
* * * * *
1383546 TTCTCAAAGTCCACAACTTTGTGGCACCCTTTTTTAAGTCCATAACTTTGTGGCACCTTTTTTAA
1 TTTTCAAAGTCCACAACTCTATGGCA-CCTTTTTAAAGTCCATAACTCTGTGGCACCTTTTTTAA
** * *
1383611 AGTCTACAACTCTTTTGCACTCCT
65 AGTCTACAACTCCGTGGCACCCCT
* * * * *
1383635 TTTTCAAAGTCCACTACTCTATGGCACCATTTTTAAAGTCCAAAACTCCGTGGTACCTTTTTTTA
1 TTTTCAAAGTCCACAACTCTATGGCACC-TTTTTAAAGTCCATAACTCTGTGGCACCTTTTTTAA
*
1383700 AGTCTATAACTCCGTGGCACCCCT
65 AGTCTACAACTCCGTGGCACCCCT
* * * * *
1383724 TTTT-TAAGTCCACAACTCTATGACACCCTTTTAAAGTCCATAACTCTATGGCACCTTTTTCAAA
1 TTTTCAAAGTCCACAACTCTATGGCACCTTTTTAAAGTCCATAACTCTGTGGCACCTTTTTTAAA
1383788 G
66 G
1383789 CCCACACAAG
Statistics
Matches: 194, Mismatches: 45, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
86 4 0.02
87 91 0.47
88 24 0.12
89 75 0.39
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (88 bp):
TTTTCAAAGTCCACAACTCTATGGCACCTTTTTAAAGTCCATAACTCTGTGGCACCTTTTTTAAA
GTCTACAACTCCGTGGCACCCCT
Found at i:1383812 original size:32 final size:32
Alignment explanation
Indices: 1383772--1383895 Score: 130
Period size: 32 Copynumber: 3.9 Consensus size: 32
1383762 CATAACTCTA
1383772 TGGC-ACCTTTTTCAAAGCCCACACAAGTCTG
1 TGGCAACCTTTTTCAAAGCCCACACAAGTCTG
* *
1383803 TGGCAACC-TTTTAAAATCCCACACAAG-CTAGG
1 TGGCAACCTTTTTCAAAGCCCACACAAGTCT--G
* * **
1383835 TGGCAACCCTTTT-AAAGCCTACACAAGTCAA
1 TGGCAACCTTTTTCAAAGCCCACACAAGTCTG
* *
1383866 TGGCAACCTTTTGCAAAGCCCACATAAGTC
1 TGGCAACCTTTTTCAAAGCCCACACAAGTC
1383896 GGAGGTAACC
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
30 2 0.03
31 32 0.42
32 38 0.49
33 5 0.06
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (32 bp):
TGGCAACCTTTTTCAAAGCCCACACAAGTCTG
Found at i:1383906 original size:63 final size:64
Alignment explanation
Indices: 1383780--1383926 Score: 156
Period size: 63 Copynumber: 2.3 Consensus size: 64
1383770 TATGGCACCT
** * *
1383780 TTTTCAAAGCCCACACAAGTCTGTGGCAACCTTTTAAAATCCCACACAAGCTAGGTGGCAACCC
1 TTTTCAAAGCCCACACAAGTCAATGGCAACCTTTTAAAAGCCCACACAAGCTAGGAGGCAACCC
* * * * *
1383844 TTTT-AAAGCCTACACAAGTCAATGGCAACCTTTTGCAAAGCCCACATAAG-TCGGAGGTAACCC
1 TTTTCAAAGCCCACACAAGTCAATGGCAACCTTTT-AAAAGCCCACACAAGCTAGGAGGCAACCC
* *
1383907 -TCTCAAAACCCCACACAAGT
1 TTTTC-AAAGCCCACACAAGT
1383927 TAGTGGCATA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
62 2 0.03
63 37 0.54
64 29 0.43
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (64 bp):
TTTTCAAAGCCCACACAAGTCAATGGCAACCTTTTAAAAGCCCACACAAGCTAGGAGGCAACCC
Found at i:1384066 original size:52 final size:52
Alignment explanation
Indices: 1383956--1384605 Score: 570
Period size: 52 Copynumber: 12.5 Consensus size: 52
1383946 GCTAATATCA
* * * *
1383956 CTAGCATTGAATCAGCATATTGGCACTTTTTATCATCTTTAAGTCCAATGTCG
1 CTAGCCTTGAATCAGCACATTGGCAC-CTTTCTCATCTTTAAGTCCAATGTCG
* * * * * *
1384009 C-AGCCTCGAATCAACATATTGGTACCATTCTCATCTTTAAGTTCAATGTCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * * *
1384060 CTAGCCTTTAATCAGTACATTGGCACTTTTCTAATCTTTAAGTCCAATATCA
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * * * *
1384112 CTGGCCTTGAATCAGCATATTAGCACCTTTATTATCTTCAAGTCCAATGTTG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * * * *
1384164 TTGGCCTTGAATCAGCACATTAGCACC-CTCATCATCTTTAAGTTCGATATCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTC-TCATCTTTAAGTCCAATGTCG
* * * * * * *
1384216 CTATCCTTGAATCAACATATTGGCACATTTCTTATCTTTAAGTCCGATATCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * *
1384268 CTAGCCTTGAATTAGCATATTGGCACCCTTCTTATCTTTAAGTCCAATGTCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * * * *
1384320 TTGGACTTGAATTAGCACATTGACACTTTTCTCATCTTTAAGTCCAATATCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * * * * * *
1384372 CTGGCCTTGAATCAGCATAGTGGCACCATTATCGTCTTTAAATCCATTATCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * *
1384424 CTGGCCTTAAATCAGCACATTGGCACCCTTATCATCTTTAAGTCTAATGTCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * *
1384476 CTAGCCTTGAATTACCACATTAGCACCTTTATCATATTTAAGTCCAATGTCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
* * * * * *
1384528 CTAGCCTTGAATCAGCACATTGACACCCTTATCATCTTTAAGTCTAGTGTCA
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
*
1384580 C-AGGCCTTAAATCTA-CACATTGGCAC
1 CTA-GCCTTGAATC-AGCACATTGGCAC
1384606 ATTTGTCAAG
Statistics
Matches: 484, Mismatches: 108, Indels: 11
0.80 0.18 0.02
Matches are distributed among these distances:
51 25 0.05
52 455 0.94
53 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (52 bp):
CTAGCCTTGAATCAGCACATTGGCACCTTTCTCATCTTTAAGTCCAATGTCG
Found at i:1385206 original size:20 final size:20
Alignment explanation
Indices: 1385181--1385218 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1385171 TTTTAACCCA
1385181 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTT
1385201 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
1385219 AGTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTCTTT
Found at i:1385209 original size:52 final size:48
Alignment explanation
Indices: 1385080--1385218 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 48
1385070 TTTGGAAAGA
* * * *
1385080 AAATGTATCAATACATTTTTATTGTATCGATACATTCTGGTTTGATCT
1 AAATGTATCGATACATTTTTATTGTATCGATACATTCTGGTTTAACCC
* * *
1385128 AAATATATCGATACATTATTCATTGTATCGATATATTCTGGATTTTTAACCC
1 AAATGTATCGATACATT-TTTATTGTATCGATACATTCTGG---TTTAACCC
*
1385180 AAATGTATCGATACATTCTTTAATGTATCGATACATTCT
1 AAATGTATCGATACATT-TTTATTGTATCGATACATTCT
1385219 AGTTAAATTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
48 15 0.20
49 21 0.28
52 39 0.52
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (48 bp):
AAATGTATCGATACATTTTTATTGTATCGATACATTCTGGTTTAACCC
Found at i:1385661 original size:12 final size:12
Alignment explanation
Indices: 1385626--1385661 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1385616 GAACTTTTCC
1385626 TTTCATCCATAT
1 TTTCATCCATAT
*
1385638 TTTCAACCATAT
1 TTTCATCCATAT
*
1385650 TTTCATCAATAT
1 TTTCATCCATAT
1385662 CTTAGGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTCATCCATAT
Found at i:1387315 original size:125 final size:126
Alignment explanation
Indices: 1387141--1387393 Score: 361
Period size: 125 Copynumber: 2.0 Consensus size: 126
1387131 TTGATATCAA
* * *
1387141 ATGAGTCTGGGATGATTTTTCAAAGTTTGATACCTCATTTCCTTTATATGTTCTACTAGTAGCAT
1 ATGAGTCTGGGATGATTTTTCAAAGTTTGACACCTCATTTCCTTCATATGTTCTACTAATAGCAT
*
1387206 AATTCACCAAAATTTAAAAATTTATTCCTACTAAAA-A-GCAATTTTTTAAGATTTTAGAAAT
66 AATTCACCAAAATTTAAAAATTTATTCCTACTAAAATATG--ATTTTTCAAGATTTTAGAAAT
* *
1387267 ATGAGTCT-GGATGATTTTTCAAAGTTTGACACAC-CATTTCCTTCATATGTTCTGCTAATAGCG
1 ATGAGTCTGGGATGATTTTTCAAAGTTTGACAC-CTCATTTCCTTCATATGTTCTACTAATAGCA
** * *
1387330 TAATTCACCCTAATTTAAAAATTTATTCCTCCTAAAATATGATTTTTCAATATTTTAGAAAT
65 TAATTCACCAAAATTTAAAAATTTATTCCTACTAAAATATGATTTTTCAAGATTTTAGAAAT
1387392 AT
1 AT
1387394 TTTTGGATTG
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
125 103 0.90
126 10 0.09
127 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (126 bp):
ATGAGTCTGGGATGATTTTTCAAAGTTTGACACCTCATTTCCTTCATATGTTCTACTAATAGCAT
AATTCACCAAAATTTAAAAATTTATTCCTACTAAAATATGATTTTTCAAGATTTTAGAAAT
Found at i:1388271 original size:13 final size:13
Alignment explanation
Indices: 1388230--1388278 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1388220 CCGTTACAAG
*
1388230 CAATGTATTGATA
1 CAATGTATCGATA
1388243 CAAT-T-TC-AT-
1 CAATGTATCGATA
1388252 C-ATGTATCGATA
1 CAATGTATCGATA
1388264 CAATGTATCGATA
1 CAATGTATCGATA
1388277 CA
1 CA
1388279 TTGTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 3 0.10
12 2 0.07
13 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1388298 original size:33 final size:34
Alignment explanation
Indices: 1388230--1388299 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
1388220 CCGTTACAAG
* * *
1388230 CAATGTATTGATACAATTTCATCATGTATCGATA
1 CAATGTATCGATACAATTTCACCATGTATCAATA
1388264 CAATGTATCGATAC-ATTGTC-CCATGTATCAATA
1 CAATGTATCGATACAATT-TCACCATGTATCAATA
1388297 CAA
1 CAA
1388300 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 17 0.53
34 15 0.47
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (34 bp):
CAATGTATCGATACAATTTCACCATGTATCAATA
Found at i:1388347 original size:13 final size:13
Alignment explanation
Indices: 1388329--1388355 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1388319 TGCCAGTTTC
1388329 ATGTATCGATACA
1 ATGTATCGATACA
1388342 ATGTATCGATACA
1 ATGTATCGATACA
1388355 A
1 A
1388356 AGCAGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1399155 original size:20 final size:19
Alignment explanation
Indices: 1399132--1399215 Score: 81
Period size: 20 Copynumber: 4.6 Consensus size: 19
1399122 CACCCAGATA
1399132 TATCGATACATGCTACTTTG
1 TATCGATACATG-TACTTTG
1399152 TATCGATACA---A---TG
1 TATCGATACATGTACTTTG
*
1399165 TATCGATACATGCTGCTTTG
1 TATCGATACATG-TACTTTG
* *
1399185 TATCGATACATGTTCATTG
1 TATCGATACATGTACTTTG
1399204 TATCGATACATG
1 TATCGATACATG
1399216 AAACTGGCGG
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.22
16 1 0.02
19 17 0.31
20 24 0.44
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (19 bp):
TATCGATACATGTACTTTG
Found at i:1399168 original size:13 final size:13
Alignment explanation
Indices: 1399150--1399174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1399140 CATGCTACTT
1399150 TGTATCGATACAA
1 TGTATCGATACAA
1399163 TGTATCGATACA
1 TGTATCGATACA
1399175 TGCTGCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1399174 original size:33 final size:33
Alignment explanation
Indices: 1399132--1399194 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
1399122 CACCCAGATA
1399132 TATCGATACATGCTACTTTGTATCGATACAATG
1 TATCGATACATGCTACTTTGTATCGATACAATG
*
1399165 TATCGATACATGCTGCTTTGTATCGATACA
1 TATCGATACATGCTACTTTGTATCGATACA
1399195 TGTTCATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (33 bp):
TATCGATACATGCTACTTTGTATCGATACAATG
Found at i:1399206 original size:19 final size:20
Alignment explanation
Indices: 1399163--1399215 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
1399153 ATCGATACAA
*
1399163 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCAT
*
1399183 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
1399202 TGTATCGATACATG
1 TGTATCGATACATG
1399216 AAACTGGCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:1403574 original size:13 final size:13
Alignment explanation
Indices: 1403556--1403580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1403546 CCGATTGCAT
1403556 TGTATCGATACAA
1 TGTATCGATACAA
1403569 TGTATCGATACA
1 TGTATCGATACA
1403581 TGACCAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1403592 original size:20 final size:21
Alignment explanation
Indices: 1403567--1403621 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1403557 GTATCGATAC
**
1403567 AATGTATCGATACATGACCA-
1 AATGTATCGATACATGAAAAG
*
1403587 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACATGAAAAG
1403608 AATGTATCGATACA
1 AATGTATCGATACA
1403622 AGTCATTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAG
Found at i:1403691 original size:13 final size:13
Alignment explanation
Indices: 1403673--1403697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1403663 ACACACAGTA
1403673 TATATCGATACAT
1 TATATCGATACAT
1403686 TATATCGATACA
1 TATATCGATACA
1403698 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:1411774 original size:21 final size:22
Alignment explanation
Indices: 1411743--1411786 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1411733 CGAAAGTCTT
1411743 AAATTATTTTACTAAGAGGGAG
1 AAATTATTTTACTAAGAGGGAG
* *
1411765 AAATT-TTTTATTAAGGGGGAG
1 AAATTATTTTACTAAGAGGGAG
1411786 A
1 A
1411787 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (22 bp):
AAATTATTTTACTAAGAGGGAG
Done.