Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 8 of 11
Found at i:1401265 original size:65 final size:65
Alignment explanation
Indices: 1401147--1401326 Score: 186
Period size: 65 Copynumber: 2.8 Consensus size: 65
1401137 CATTCGACTT
* * * ** * *
1401147 AGAAGGTGATGCCACCAACTTGTGTGTGCTTT-TCAGAGGGTTGCCACTAACTTATGTGGGCTTT
1 AGAAGG-GTTGCCACCGACTTGTGTGGGCTTTAAAAG-GGGTTACCACCAACTTATGTGGGC-TT
1401211 TAA
63 TAA
* **
1401214 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTACCACCGACTTATGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTACCACCAACTTATGTGGGCTTTAA
* * *
1401278 AGAAGGGTTACCACTGACTTGTGTGGGCTGTTAGAA-GGGTTACCACCAA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCT-TTAAAAGGGGTTACCACCAA
1401327 TTGGTGCAGG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
64 5 0.05
65 79 0.82
66 10 0.10
67 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (65 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTACCACCAACTTATGTGGGCTTTAA
Found at i:1401339 original size:65 final size:64
Alignment explanation
Indices: 1401202--1401372 Score: 170
Period size: 65 Copynumber: 2.6 Consensus size: 64
1401192 ACTAACTTAT
* *
1401202 GTGGGCTTTTA-AAGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTACCACCGACTTA
1 GTGGGC-TTTAGAA-AGGGTTGCCACTGACTTGTGTGGGCTTTAAAAGGGGTTACCACCGAATTA
*
1401266 T
64 G
* * *
1401267 GTGGGCTTTGGAGAAGGGTTACCACTGACTTGTGTGGGCTGTTAGAA-GGGTTACCACC-AATT-
1 GTGGGCTTTAGA-AAGGGTTGCCACTGACTTGTGTGGGCT-TTAAAAGGGGTTACCACCGAATTA
1401329 G
64 G
* * *
1401330 GTGCAGGCTTTAGAAATGGGCTGCCATTGGCTTGTGTGGGCTT
1 GTG--GGCTTTAGAAA-GGGTTGCCACTGACTTGTGTGGGCTT
1401373 CTGAAGAGGT
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
63 3 0.03
64 9 0.10
65 71 0.80
66 6 0.07
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (64 bp):
GTGGGCTTTAGAAAGGGTTGCCACTGACTTGTGTGGGCTTTAAAAGGGGTTACCACCGAATTAG
Found at i:1406927 original size:34 final size:34
Alignment explanation
Indices: 1406841--1406968 Score: 177
Period size: 34 Copynumber: 3.7 Consensus size: 34
1406831 AAAGTGATTG
*
1406841 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGA
1 AGAGGTTCTATCTTAGCCTGTG-AAAAGATA--GAGA
* *
1406878 A-AGGTTCTATTTTAGCCTGTGAAAAGATAGAAA
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGAGA
*
1406911 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGAGA
*
1406945 AGAGGTTCTATCTTAGCTTGTGAA
1 AGAGGTTCTATCTTAGCCTGTGAA
1406969 TAGCCTGTGA
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
33 4 0.05
34 52 0.63
35 8 0.10
36 18 0.22
37 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTGTGAAAAGATAGAGA
Found at i:1407057 original size:30 final size:31
Alignment explanation
Indices: 1407001--1407059 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1406991 GTTGATAGGT
*
1407001 AGGTTCTATCTTAGCCTGTGAAAAGATAGAG
1 AGGTTCTATCTTAGCCTGTCAAAAGATAGAG
1407032 AGGTTCTATCTTAGCCT-TCAAAAGATAG
1 AGGTTCTATCTTAGCCTGTCAAAAGATAG
1407060 TGTTGTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (31 bp):
AGGTTCTATCTTAGCCTGTCAAAAGATAGAG
Found at i:1410785 original size:19 final size:19
Alignment explanation
Indices: 1410763--1410804 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1410753 CCTCAAAAGT
1410763 ACAAACACA-ACAAAAAAA
1 ACAAACACACACAAAAAAA
1410781 A-ACAACACACACAAAAAAA
1 ACA-AACACACACAAAAAAA
1410800 ACAAA
1 ACAAA
1410805 AAAAGTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 7 0.33
19 12 0.57
20 1 0.05
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (19 bp):
ACAAACACACACAAAAAAA
Found at i:1412196 original size:62 final size:61
Alignment explanation
Indices: 1412072--1412601 Score: 496
Period size: 62 Copynumber: 8.5 Consensus size: 61
1412062 AATTTTTCAA
* * * *
1412072 ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCCAAGTCCACGACTCAGTGGC
* * *
1412134 AATCTCTTCTCAAAGTCCACGACTCCGTGGCATCTTTTCTTCTAAGTCCACGACTTAGTGGC
1 -ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGC
* * * *
1412196 ATCCTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTTAGTGGC
1 AT-CTCTTC-TCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCCAAGTCCACGACTCAGTGGC
* * * * * *
1412260 ATCTCTT-TCCAAATTCCATGACTTAGTGGCAGCTTTTCTTCAAAGTCCATGACTCAGTGGC
1 ATCTCTTCT-CAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGC
* * * *
1412321 ATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCAAGACTCAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCCAAGTCCACGACTCAGTGGC
* * *
1412383 ATCTCTT-TCCAAAGTCCACGACTGAGTGGCATATTTTCTTCTAAGTCCACGACTCAGTGGC
1 ATCTCTTCT-CAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGC
* * * * * * * *
1412444 ATCATTTTCTTCCAAGTCCACAACTCAGTGGCATCTCTTC--CCAAAGTCTAAGACTTAGTGAC
1 ATC-TCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCC-AAGTCCACGACTCAGTGGC
* ** * *
1412506 ATCTTTCTTTTCAAAGTCCACGACTCAACGGCAT-TTCTT-TTCTAAGTCCACGACTCTGTGGC
1 ATC--TCTTCTCAAAGTCCACGACTCAGTGGCATCTT-TTCTTCCAAGTCCACGACTCAGTGGC
* * *
1412568 ACCTTTTTCTTCTCAAAGTCCACAACTCCGTGGC
1 A----TCTCTTCTCAAAGTCCACGACTCAGTGGC
1412602 CCCTTGTTCC
Statistics
Matches: 386, Mismatches: 62, Indels: 37
0.80 0.13 0.08
Matches are distributed among these distances:
61 87 0.23
62 164 0.42
63 81 0.21
64 53 0.14
66 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (61 bp):
ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGC
Found at i:1412358 original size:155 final size:154
Alignment explanation
Indices: 1412072--1412601 Score: 516
Period size: 155 Copynumber: 3.4 Consensus size: 154
1412062 AATTTTTCAA
* * * * * * *
1412072 ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGCA--
1 ATCTCTTTCCAAAGTCCACGACTGAGTGGCAT-ATTTTC-TCAAAGTCCACGACTCAGTGGCAGC
* *
1412135 ATCTCTTC-TCAAAGTCCACGACTCCGTGGCATCTTTTCTTCTAAGTCCACGACTTAGTGGCATC
64 AT-T-TTCTTCAAAGTCCACGACTCAGTGGCATCTCTT-TTCTAAGTCCACGACTTAGTGGCATC
*
1412199 CTTTTCTTCCAAGTCCATGACTCAGTGGC
126 CTTTTCTTCCAAGTCCAAGACTCAGTGGC
* * * * * *
1412228 ATC-CTTTTCTTCCAAGTCCACGACTTAGTGGCATCTCTTTC-CAAATTCCATGACTTAGTGGCA
1 ATCTC-TTTC--CAAAGTCCACGACTGAGTGGCATAT-TTTCTCAAAGTCCACGACTCAGTGGCA
*
1412291 GC-TTTTCTTCAAAGTCCATGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCC
62 GCATTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCC
1412355 TTTTCTTCCAAGTCCAAGACTCAGTGGC
127 TTTTCTTCCAAGTCCAAGACTCAGTGGC
* *
1412383 ATCTCTTTCCAAAGTCCACGACTGAGTGGCATATTTTCTTCTAAGTCCACGACTCAGTGGCATCA
1 ATCTCTTTCCAAAGTCCACGACTGAGTGGCATATTTTC-TCAAAGTCCACGACTCAGTGGCAGCA
* * ** * * * *
1412448 TTTTCTTCCAAGTCCACAACTCAGTGGCATCTCTTCCCAAAGTCTAAGACTTAGTGACAT-CTTT
65 TTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTT
* * * **
1412512 CTTTTCAAAGTCCACGACTCAACGGC
130 -TCTTCCAAGTCCAAGACTCAGTGGC
* * * ** * * *
1412538 ATTTCTTTTCTAAGTCCACGACTCTGTGGCACCTTTTTCTTCTCAAAGTCCACAACTCCGTGGC
1 ATCTCTTTCCAAAGTCCACGACTGAGTGGCA---TATT-TTCTCAAAGTCCACGACTCAGTGGC
1412602 CCCTTGTTCC
Statistics
Matches: 314, Mismatches: 44, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
152 4 0.01
153 22 0.07
154 23 0.07
155 162 0.52
156 51 0.16
157 3 0.01
158 46 0.15
159 3 0.01
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (154 bp):
ATCTCTTTCCAAAGTCCACGACTGAGTGGCATATTTTCTCAAAGTCCACGACTCAGTGGCAGCAT
TTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTT
CTTCCAAGTCCAAGACTCAGTGGC
Found at i:1412381 original size:123 final size:123
Alignment explanation
Indices: 1412072--1412601 Score: 599
Period size: 123 Copynumber: 4.2 Consensus size: 123
1412062 AATTTTTCAA
1412072 ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACA-ACTCAGTGGCAA
1 ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCA-AGACTCAGTGGC-A
* *
1412136 TCTC-TTCTCAAAGTCCACGACTCCGTGGCATCTTTTCTTCTAAGTCCACGACTTAGTGGC
64 TCTCTTTC-CAAAGTCCACGACTCAGTGGCATCTTTTCTTCTAAGTCCACGACTCAGTGGC
** * *
1412196 ATC-CTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTTAGTGGC
1 ATCTCTTTTC-T--AAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCAAGACTCAGTGGC
* * * * * *
1412260 ATCTCTTTCCAAATTCCATGACTTAGTGGCAGCTTTTCTTCAAAGTCCATGACTCAGTGGC
63 ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCTAAGTCCACGACTCAGTGGC
* *
1412321 ATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCAAGACTCAGTGGCATC
1 ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCAAGACTCAGTGGCATC
* *
1412386 TCTTTCCAAAGTCCACGACTGAGTGGCATATTTTCTTCTAAGTCCACGACTCAGTGGC
66 TCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCTAAGTCCACGACTCAGTGGC
* * * * * *
1412444 ATCATTTTCTTCCAAGTCCACAACTCAGTGGCAT-CTCTTC--CCAAAGTCTAAGACTTAGTGAC
1 ATC-TCTT-TTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCC-AAGTCCAAGACTCAGTGGC
* ** *
1412506 ATCTTTCTTTTCAAAGTCCACGACTCAACGGCAT-TTCTT-TTCTAAGTCCACGACTCTGTGGC
63 ATC--TCTTTCCAAAGTCCACGACTCAGTGGCATCTT-TTCTTCTAAGTCCACGACTCAGTGGC
* * *
1412568 ACCTTTTTCTTCTCAAAGTCCACAACTCCGTGGC
1 ATC-TCTT-TTCT--AAGTCCACAACTCAGTGGC
1412602 CCCTTGTTCC
Statistics
Matches: 352, Mismatches: 40, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.01
123 129 0.37
124 46 0.13
125 102 0.29
126 73 0.21
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (123 bp):
ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCAAGACTCAGTGGCATC
TCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCTAAGTCCACGACTCAGTGGC
Found at i:1412452 original size:93 final size:93
Alignment explanation
Indices: 1412083--1412601 Score: 452
Period size: 93 Copynumber: 5.5 Consensus size: 93
1412073 TCTCTTTTCT
* * *
1412083 AAGTCCACA-ACTCAGTGGCATC-CTTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTC-TC
1 AAGTCCA-AGACTCAGTGGCATCTC-TTTC-TCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTC
* *
1412145 AAAGTCCACGACTCCGTGGCATCTTTTCTTCT
62 AAAGTCCACGACTCAGTGGCATCTTTTCTTCC
* * * * *
1412177 AAGTCCACGACTTAGTGGCATC-CTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTCTTCC
1 AAGTCCAAGACTCAGTGGCATCTC-TTTC-TCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCA
* *
1412241 AAGTCCACGACTTAGTGGCATCTCTTTC--CA
63 AAGTCCACGACTCAGTGGCATCT-TTTCTTCC
* * * * * * *
1412271 AATTCCATGACTTAGTGGCAGCT-TTTCTTCAAAGTCCATGACTCAGTGGCATCTCTT-TTCTAA
1 AAGTCCAAGACTCAGTGGCATCTCTTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAA
*
1412334 GTCCACGACTTAGTGGCATCCTTTTCTTCC
65 GTCCACGACTCAGTGGCAT-CTTTTCTTCC
* * *
1412364 AAGTCCAAGACTCAGTGGCATCTCTTTC-CAAAGTCCACGACTGAGTGGCATATTTTCTTCTAAG
1 AAGTCCAAGACTCAGTGGCATCTCTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAG
1412428 TCCACGACTCAGTGGCATCATTTTCTTCC
66 TCCACGACTCAGTGGCATC-TTTTCTTCC
* * * * * *
1412457 AAGTCCACA-ACTCAGTGGCATCTC-TTCCCAAAGTCTAAGACTTAGTGACATCTTTCTTTTCAA
1 AAGTCCA-AGACTCAGTGGCATCTCTTTCTCAAAGTCCACGACTCAGTGGCATCTTT-TCTTCAA
** *
1412520 AGTCCACGACTCAACGGCAT-TTCTT-TTCT
64 AGTCCACGACTCAGTGGCATCTT-TTCTTCC
* * * * * *
1412549 AAGTCCACGACTCTGTGGCACCTTTTTCTTCTCAAAGTCCACAACTCCGTGGC
1 AAGTCCAAGACTCAGTGGCA--TCTCT-TTCTCAAAGTCCACGACTCAGTGGC
1412602 CCCTTGTTCC
Statistics
Matches: 359, Mismatches: 46, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
91 28 0.08
92 56 0.16
93 129 0.36
94 101 0.28
95 23 0.06
96 22 0.06
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.32
Consensus pattern (93 bp):
AAGTCCAAGACTCAGTGGCATCTCTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAG
TCCACGACTCAGTGGCATCTTTTCTTCC
Found at i:1412624 original size:33 final size:33
Alignment explanation
Indices: 1412582--1412913 Score: 159
Period size: 33 Copynumber: 10.8 Consensus size: 33
1412572 TTTTCTTCTC
*
1412582 AAAGTCCACAACTCCGTGGCCCCTTGTTCCTTT
1 AAAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
* *
1412615 AAAGCCCACAACTCCGTGGCACCC----T--TTT
1 AAAGTCCACAACTTCGTGGC-CCCTTGTTCCTTT
1412643 -AAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
1 AAAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
* * *
1412675 AAAGCCCACAACTTCGTGGCACCTTGCTCCTTTT
1 AAAGTCCACAACTTCGTGGCCCCTTGTTCC-TTT
*
1412709 AAA-TCCATAACTTCGTGGCACCC----T--TTT
1 AAAGTCCACAACTTCGTGGC-CCCTTGTTCCTTT
1412736 -AAGTCCACAAC-TCAGTGGCACCC----T--TTT
1 AAAGTCCACAACTTC-GTGGC-CCCTTGTTCCTTT
* * *
1412763 -AAGTCCACAACTCCGTGGCACCTTATTCCTTT
1 AAAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
* * *
1412795 TAAGTCCACAACTTCATGG-CAC-----CCTTT
1 AAAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
* * ** *
1412822 AAAGTCCACAACTCCATGGCATCTTTTTCCTTT
1 AAAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
* * * *
1412855 TAAGTCCACAACTCCATGGCATCCTT-TTCCTTT
1 AAAGTCCACAACTTCGTGGC-CCCTTGTTCCTTT
* *
1412888 TAAGTCCCCAAC-TCTGTGGCACCCTT
1 AAAGTCCACAACTTC-GTGGC-CCCTT
1412914 TTAAGCCTAC
Statistics
Matches: 244, Mismatches: 27, Indels: 56
0.75 0.08 0.17
Matches are distributed among these distances:
26 9 0.04
27 78 0.32
28 5 0.02
30 4 0.02
32 8 0.03
33 126 0.52
34 14 0.06
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (33 bp):
AAAGTCCACAACTTCGTGGCCCCTTGTTCCTTT
Found at i:1412650 original size:27 final size:27
Alignment explanation
Indices: 1412610--1413008 Score: 248
Period size: 27 Copynumber: 13.5 Consensus size: 27
1412600 GCCCCTTGTT
* *
1412610 CCTTTAAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
1412637 CCTTTTAAGTCCACAACTTCGTGGC-C
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
1412663 CCTTGTTCCTTTAAAGCCCACAACTTCGTGGCACCTTGC
1 CC----T--TTT-AAGTCCACAACTCCGTGGCA-----C
* * *
1412702 TCCTTTTAAATCCATAACTTCGTGGCAC
1 -CCTTTTAAGTCCACAACTCCGTGGCAC
*
1412730 CCTTTTAAGTCCACAACTCAGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
1412757 CCTTTTAAGTCCACAACTCCGTGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
* *
1412785 TTATTCCTTTTAAGTCCACAACTTCATGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
1412817 CCTTTAAAGTCCACAACTCCATGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
1412845 TTTTTCCTTTTAAGTCCACAACTCCATGGCATCC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA--C
* *
1412879 TTTTCCTTTTAAGTCCCCAACTCTGTGGCAC
1 ----CCTTTTAAGTCCACAACTCCGTGGCAC
1412910 CCTTTTAAG-CCTACAACTCCGTGGCACTC
1 CCTTTTAAGTCC-ACAACTCCGTGGCA--C
*
1412939 TTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
1412971 TCTTTTAAGTCCATAACTCCGTGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
1412997 CC-TTTAAGTCCA
1 CCTTTTAAGTCCA
1413009 ATATCACTAG
Statistics
Matches: 308, Mismatches: 28, Indels: 74
0.75 0.07 0.18
Matches are distributed among these distances:
25 10 0.03
26 6 0.02
27 138 0.45
28 3 0.01
29 1 0.00
30 1 0.00
31 1 0.00
32 5 0.02
33 111 0.36
34 26 0.08
35 2 0.01
36 1 0.00
39 1 0.00
40 2 0.01
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:1412653 original size:60 final size:60
Alignment explanation
Indices: 1412583--1412882 Score: 299
Period size: 60 Copynumber: 5.0 Consensus size: 60
1412573 TTTCTTCTCA
*
1412583 AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* * *
1412643 AAGTCCACAACTTCGTGGCCCCTTGTTCCTTTAAAGCCCACAACTTCGTGGCACCTTGCTCCTTT
1 AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGTCCACAACTCCGTGGCA-----C-CCTTT
1412708 T
60 T
* * * *
1412709 AAATCCATAACTTCGTGGCACCC----T--TTT-AAGTCCACAACTCAGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGC-CCCTTGTTCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* * * * * *
1412763 AAGTCCACAACTCCGTGGCACCTTATTCCTTTTAAGTCCACAACTTCATGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* ** * * * *
1412823 AAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT
1412883 CCTTTTAAGT
Statistics
Matches: 205, Mismatches: 21, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
53 2 0.01
54 22 0.11
55 1 0.00
57 1 0.00
59 3 0.01
60 145 0.71
61 3 0.01
63 1 0.00
65 1 0.00
66 23 0.11
67 3 0.01
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (60 bp):
AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1412794 original size:180 final size:180
Alignment explanation
Indices: 1412583--1412942 Score: 474
Period size: 180 Copynumber: 2.0 Consensus size: 180
1412573 TTTCTTCTCA
* * * *
1412583 AAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTC
1 AAGTCCACAACTCCGTGGCACCTTATTCCTTTAAAGCCCACAACTCCATGGCACCCTTTAAAGTC
* * * * *
1412648 CACAACTTCGTGGCCCCTTGTTCCTTTAAAGCCCACAACTTCGTGGCA-CCTTGCTCCTTTTAAA
66 CACAACTCCATGGCACCTTGTTCCTTTAAAGCCCACAACTCCATGGCATCCTT-CTCCTTTTAAA
*
1412712 TCCATAACT-TCGTGGCACCCTTTTAAGTCC-ACAACTCAGTGGCACCCTTTT
130 TCCACAACTCT-GTGGCACCCTTTTAAG-CCTACAACTCAGTGGCACCCTTTT
* * *
1412763 AAGTCCACAACTCCGTGGCACCTTATTCCTTTTAAGTCCACAACTTCATGGCACCCTTTAAAGTC
1 AAGTCCACAACTCCGTGGCACCTTATTCCTTTAAAGCCCACAACTCCATGGCACCCTTTAAAGTC
* * * * * *
1412828 CACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCATGGCATCCTTTTCCTTTTAAGT
66 CACAACTCCATGGCACCTTGTTCCTTTAAAGCCCACAACTCCATGGCATCCTTCTCCTTTTAAAT
* * *
1412893 CCCCAACTCTGTGGCACCCTTTTAAGCCTACAACTCCGTGGCACTCTTTT
131 CCACAACTCTGTGGCACCCTTTTAAGCCTACAACTCAGTGGCACCCTTTT
1412943 TCCTTTTAAG
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
179 2 0.01
180 148 0.95
181 5 0.03
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (180 bp):
AAGTCCACAACTCCGTGGCACCTTATTCCTTTAAAGCCCACAACTCCATGGCACCCTTTAAAGTC
CACAACTCCATGGCACCTTGTTCCTTTAAAGCCCACAACTCCATGGCATCCTTCTCCTTTTAAAT
CCACAACTCTGTGGCACCCTTTTAAGCCTACAACTCAGTGGCACCCTTTT
Found at i:1412854 original size:120 final size:121
Alignment explanation
Indices: 1412582--1412882 Score: 332
Period size: 120 Copynumber: 2.5 Consensus size: 121
1412572 TTTTCTTCTC
* * * *
1412582 AAAGTCCACAACTCCGTGGCCCCTTGTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGT
1 AAAGTCCACAACTCCGTGG-CACTT-TTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTTAAGT
* * * *
1412647 CCACAACTTCGTGGCCCCTTGTTCCTTTAAAGCCCACAACTTCGTGGCACCTTGCTCCTTTT
64 CCACAACTCCGTGGCACCTTATTCCTTTAAAGCCCACAACTTCATGGCA-C---CTCCTTTT
* *
1412709 AAA-TCCATAACTTCGTGGCAC----CCTTTTAAGTCCACAACTCAGTGGCACCCTTTTAAGTCC
1 AAAGTCCACAACTCCGTGGCACTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTTAAGTCC
* *
1412769 ACAACTCCGTGGCACCTTATTCCTTTTAAGTCCACAACTTCATGGCA-C-CC-TTT
66 ACAACTCCGTGGCACCTTATTCCTTTAAAGCCCACAACTTCATGGCACCTCCTTTT
* *
1412822 AAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCA-TGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCA-C-TTTTCCTTTTAAGTCCACAACT-CAGTGGCACCCTTTT
1412883 CCTTTTAAGT
Statistics
Matches: 150, Mismatches: 16, Indels: 23
0.79 0.08 0.12
Matches are distributed among these distances:
113 6 0.04
114 16 0.11
115 2 0.01
120 106 0.71
121 2 0.01
125 2 0.01
126 13 0.09
127 3 0.02
ACGTcount: A:0.23, C:0.34, G:0.13, T:0.31
Consensus pattern (121 bp):
AAAGTCCACAACTCCGTGGCACTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCTTATTCCTTTAAAGCCCACAACTTCATGGCACCTCCTTTT
Found at i:1412914 original size:33 final size:33
Alignment explanation
Indices: 1412817--1412998 Score: 156
Period size: 33 Copynumber: 5.8 Consensus size: 33
1412807 TTCATGGCAC
* * * *
1412817 CCTTTAAAGTCCACAACTCCATGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1412850 CCTTTTAAGTCCACAACTCCATGGCATCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1412883 CCTTTTAAGTCCCCAACTCTGTGGCA--C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
1412910 CCTTTTAAG-CCTACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCC-ACAACTCCGTGGCAC-CCTTTT
*
1412944 CCTTTTAAGTCCACAACTCTGTGGCA--C---T
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
1412972 -CTTTTAAGTCCATAACTCCGTGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCACC
1412999 TTTAAGTCCA
Statistics
Matches: 126, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.02
27 44 0.35
28 1 0.01
31 1 0.01
33 54 0.43
34 22 0.17
35 2 0.02
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1412967 original size:61 final size:61
Alignment explanation
Indices: 1412850--1413001 Score: 229
Period size: 61 Copynumber: 2.5 Consensus size: 61
1412840 GCATCTTTTT
* * *
1412850 CCTTTTAAGTCCACAACTCCATGGCA-TCCTTTTCCTTTTAAGTCCCCAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1412910 CCTTTTAAG-CCTACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCC-ACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
* *
1412971 TCTTTTAAGTCCATAACTCCGTGGCAC-CTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTT
1413002 AAGTCCAATA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
59 2 0.02
60 26 0.31
61 54 0.64
62 2 0.02
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (61 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:1412968 original size:34 final size:34
Alignment explanation
Indices: 1412910--1412976 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
1412900 TCTGTGGCAC
1412910 CCTTTTAAGCCTACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCTACAACTCCGTGGCACTCTTTTT
*
1412944 CCTTTTAAGTCC-ACAACTCTGTGGCACTCTTTT
1 CCTTTTAAG-CCTACAACTCCGTGGCACTCTTTT
1412977 AAGTCCATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (34 bp):
CCTTTTAAGCCTACAACTCCGTGGCACTCTTTTT
Found at i:1413120 original size:52 final size:53
Alignment explanation
Indices: 1412998--1413287 Score: 163
Period size: 51 Copynumber: 5.8 Consensus size: 53
1412988 TCCGTGGCAC
* * * * *
1412998 CTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTGT-----T
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TAACCAT
*
1413047 -TTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGGCA-CTTTAACCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAACCAT
* * **
1413098 CTTTAAGACGAATGTCGTTGGCCTTGAATCAGTGCATTGG---C----A-C--
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAACCAT
* * * * * *
1413141 CTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCA-CTTTTACCCT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAACCAT
* * * * *** *
1413193 C-TTGAGTCCAATATTGCTGGCCTTGAATCAGTGTATTGGCACCCTT--CTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAC-CAT
* * *
1413244 CTTTTAAGACCAATGTCACTGGCTTTGAATCAGCACGTTGGCAC
1 C-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1413288 GAGTCCAATA
Statistics
Matches: 187, Mismatches: 35, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
43 33 0.18
45 2 0.01
46 2 0.01
47 3 0.02
48 35 0.19
49 1 0.01
50 3 0.02
51 39 0.21
52 38 0.20
53 31 0.17
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (53 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAACCAT
Found at i:1413180 original size:43 final size:43
Alignment explanation
Indices: 1413098--1413188 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
1413088 CTTTAACCAT
* * * **
1413098 CTTTAAGACGAATGTCGTTGGCCTTGAATCAGTGCATTGGCAC
1 CTTTAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCAC
* *
1413141 CTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCAC
*
1413184 TTTTA
1 CTTTA
1413189 CCCTCTTGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (43 bp):
CTTTAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCAC
Found at i:1413180 original size:95 final size:94
Alignment explanation
Indices: 1413047--1413235 Score: 243
Period size: 95 Copynumber: 2.0 Consensus size: 94
1413037 GCACCTTGTT
* * * * *
1413047 TTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGGCACTTTAACCATCTTTAAGACGAATG
1 TTTAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCACTTTAACCATC-TTAAGACCAATA
*
1413112 TCGTTGGCCTTGAATCAGTGCATTGGCACC
65 TCGCTGGCCTTGAATCAGTGCATTGGCACC
* * * * * *
1413142 TTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCACTTTTACCCTCTTGAGTCCAATAT
1 TTTAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCACTTTAACCATCTTAAGACCAATAT
* *
1413207 TGCTGGCCTTGAATCAGTGTATTGGCACC
66 CGCTGGCCTTGAATCAGTGCATTGGCACC
1413236 CTTCTCATCT
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
94 35 0.44
95 45 0.56
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (94 bp):
TTTAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCACTTTAACCATCTTAAGACCAATAT
CGCTGGCCTTGAATCAGTGCATTGGCACC
Found at i:1413384 original size:49 final size:49
Alignment explanation
Indices: 1413331--1413856 Score: 340
Period size: 49 Copynumber: 10.5 Consensus size: 49
1413321 GTCGCCTTTG
* * * *
1413331 TCATCTTTAAGACCAGTGTCGCTGGCCATGAATCAGCACATTAGCATCT
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCT
* ** * * * * *
1413380 TCATCTTTAAGTCCGGTATCGCTGGCCTTGAATTAGAATATTGGCGCCTTT
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT-G-GCATCT
* * *
1413431 GTCATTTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCT
1 -TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCT
* *** * * * *
1413481 TCATCTTTAAGTCTGGTATCGTTGGCCTTGAATCAGCATATTGGTGCCTTT
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT-G-GCATCT
* * * * *
1413532 GTTATCTTTAAAACCAATGTCACTGGCCTTGAGTCAGCACATTGGCA-CTT
1 -TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATC-T
* * * * * *
1413582 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCGGTATATTGGCGCCTTCG
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT-G-G-CATCT
* * *
1413634 TCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * *
1413683 TCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCT
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * * **
1413732 TTAACATTCCTAAG-CACAATGTCGTTGGCTTTGTCTCAGCACATTGGCA--T
1 TCATC-TT--TAAGAC-CAATATCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * * * * *
1413782 TCTTCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACGTTGTCATTCT
1 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-TCT
** *
1413832 TCGCATCTTCGAGCCCAATATCGCT
1 T--CATCTTTAAGACCAATATCGCT
1413857 ACCTGCATGT
Statistics
Matches: 359, Mismatches: 97, Indels: 39
0.73 0.20 0.08
Matches are distributed among these distances:
47 28 0.08
48 1 0.00
49 150 0.42
50 16 0.04
51 13 0.04
52 150 0.42
53 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (49 bp):
TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCT
Found at i:1413460 original size:52 final size:52
Alignment explanation
Indices: 1413292--1413727 Score: 367
Period size: 49 Copynumber: 8.6 Consensus size: 52
1413282 TGGCACGAGT
* * * *
1413292 CCAATATCGTTGGCCTTGACTCA-CATATTGTCGCCTTTGTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
* * * * * * *
1413343 CCAGTGTCGCTGGCCATGAATCAGCACATT--AGCATCT-TCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
** * * * *
1413392 CCGGTATCGCTGGCCTTGAATTAGAATATTGGCGCCTTTGTCATTTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
* * * * *
1413444 CCAATGTCGCTAGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
*** * * * * *
1413493 CTGGTATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTTATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
* * * * *
1413545 CCAATGTCACTGGCCTTGAGTCAGCACATTGGC-AC-TT-TCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
* * * * *
1413594 CCAATATCGCTGGCCTTGAATCGGTATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
* * * *
1413646 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
* *
1413695 CCAATATCGTTGGCCTTGAATCAGCATATTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGC
1413728 ATCTTTAACA
Statistics
Matches: 296, Mismatches: 79, Indels: 22
0.75 0.20 0.06
Matches are distributed among these distances:
49 143 0.48
50 12 0.04
51 29 0.10
52 112 0.38
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
Found at i:1413491 original size:101 final size:101
Alignment explanation
Indices: 1413289--1413819 Score: 606
Period size: 101 Copynumber: 5.3 Consensus size: 101
1413279 CGTTGGCACG
* * * * *
1413289 AGTCCAATATCGTTGGCCTTGACTCA-CATATTGTCGCCTTTGTCATCTTTAAGACCAGTGTCGC
1 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCAATGTCGC
* *
1413353 TGGCCATGAATCAGCACATTAGCATCTTCATCTTTA
66 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
** * * * *
1413389 AGTCCGGTATCGCTGGCCTTGAATTAGAATATTGGCGCCTTTGTCATTTTTAAGACCAATGTCGC
1 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCAATGTCGC
*
1413454 TAGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
66 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
*** * * * *
1413490 AGTCTGGTATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTTATCTTTAAAACCAATGTCAC
1 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCAATGTCGC
*
1413555 TGGCCTTGAGTCAGCACATTGGCA-CTTTCATCTTTA
66 TGGCCTTGAATCAGCACATTGGCATC-TTCATCTTTA
* * *
1413591 AGTCCAATATCGCTGGCCTTGAATCGGTATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGC
1 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCAATGTCGC
* *
1413656 TGGCCTTGAATCAGCACATTGGCACCTTCATCCTTA
66 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
* ** ** * *
1413692 AGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCCT-AAGCACAATGTC
1 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT-TTAAAAC-CAATGTC
* * ** * *
1413755 GTTGGCTTTGTCTCAGCACATTGGCA--TTCTTCTTCA
64 GCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
* * *
1413791 AGTCTAATGTCGCTGGCCATGAATCAGCA
1 AGTCCAATATCGCTGGCCTTGAATCAGCA
1413820 CGTTGTCATT
Statistics
Matches: 370, Mismatches: 56, Indels: 11
0.85 0.13 0.03
Matches are distributed among these distances:
99 32 0.09
100 26 0.07
101 311 0.84
102 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (101 bp):
AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCAATGTCGC
TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
Found at i:1413754 original size:202 final size:199
Alignment explanation
Indices: 1412998--1413817 Score: 699
Period size: 202 Copynumber: 4.2 Consensus size: 199
1412988 TCCGTGGCAC
* * * *
1412998 CTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTT-GT--T-TTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTTCGTCATCTTTAAGACCAAT
* * * * * *
1413059 GTCGCTGGCCTTGACTCAGCACATTGGCACTTTAACCATCTTTAAGACGAATGTCGTTGGCCTTG
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCCTTAAGTCCAATATCGTTGGCCTTG
*** * * *
1413124 AATCAGTGCATTGGCA-C-----CTTTAAG-TCCAATATCGA-TGGCCTTGAATCAGCATATTGG
128 AATCAGCATATTGGCATCTTTATCTTTAAGCACCAATGTC-ACTGGCCTTGAATCAGCACATTGG
* *
1413181 CACTTTTACC
192 CA-TTTCA-T
* * * *
1413191 CTCTTGAGTCCAATATTGCTGGCCTTGAATCAGTGTATTGGCACCCTTC-TCATCTTTTAAGACC
1 CT-TTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGC-GCCTTCGTCATC-TTTAAGACC
* * * *
1413255 AATGTCACTGGCTTTGAATCAGCACGTTGG------CA--C--GAGTCCAATATCGTTGGCCTTG
63 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTG
* * * * *
1413310 ACTCA-CATATTGTCGCCT-TTGTCATCTTTAAG-ACCAGTGTCGCTGGCCATGAATCAGCACAT
128 AATCAGCATATTG--GCATCTT-T-ATCTTTAAGCACCAATGTCACTGGCCTTGAATCAGCACAT
*
1413372 TAGCATCTTCAT
189 TGGCAT-TTCAT
** * * * *
1413384 CTTTAAGTCCGGTATCGCTGGCCTTGAATTAGAATATTGGCGCCTTTGTCATTTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTTCGTCATCTTTAAGACCAAT
* * * ***
1413449 GTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATCGTTGGCCTTGAAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAAT
* * * *
1413514 CAGCATATTGGTGCCTTTGTTATCTTTAA-AACCAATGTCACTGGCCTTGAGTCAGCACATTGGC
131 CAGCATATT-G-GCATCT-TTATCTTTAAGCACCAATGTCACTGGCCTTGAATCAGCACATTGGC
1413578 ACTTTCAT
193 A-TTTCAT
* *
1413586 CTTTAAGTCCAATATCGCTGGCCTTGAATCGGTATATTGGCGCCTTCGTCATCTTTAAAACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTTCGTCATCTTTAAGACCAAT
1413651 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAAT
* ** * **
1413716 CAGCATATTGGCATCTTTAACATTCCTAAGCA-CAATGTCGTTGGCTTTGTCTCAGCACATTGGC
131 CAGCATATTGGCATCTTTATC-TT--TAAGCACCAATGTCACTGGCCTTGAATCAGCACATTGGC
*
1413780 A-TTCTT
193 ATTTCAT
* * * *
1413786 CTTCAAGTCTAATGTCGCTGGCCATGAATCAG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1413818 CACGTTGTCA
Statistics
Matches: 502, Mismatches: 85, Indels: 73
0.76 0.13 0.11
Matches are distributed among these distances:
185 4 0.01
186 22 0.04
187 2 0.00
190 2 0.00
191 39 0.08
192 36 0.07
193 5 0.01
194 70 0.14
195 5 0.01
197 3 0.01
199 39 0.08
200 37 0.07
201 23 0.05
202 209 0.42
203 5 0.01
204 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (199 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTTCGTCATCTTTAAGACCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAAT
CAGCATATTGGCATCTTTATCTTTAAGCACCAATGTCACTGGCCTTGAATCAGCACATTGGCATT
TCAT
Found at i:1418126 original size:41 final size:41
Alignment explanation
Indices: 1418071--1418286 Score: 166
Period size: 42 Copynumber: 5.2 Consensus size: 41
1418061 TCGAGAGGCT
* * *
1418071 TTCTTTACCATTTGTCTGCTCGTCGGCTTAGACCCGAGGAC
1 TTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCCGAGGAC
* *
1418112 CTCTTTATCTTTTGTCTACCCGTCGGCTTAGACCCTTGA-GAC
1 TTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCC--GAGGAC
* * *
1418154 TTCTCTATCTTTTGTCTGCCCATCGACTTAGACCC-AGGAGAC
1 TTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCCGA-G-GAC
* * * * ** *
1418196 TTCTTTATCTTGTGTTTACCCATCAACTTAGGCCCGAGAGAC
1 TTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCCGAG-GAC
* * * * * *
1418238 TTCTTTATCCTTCGTCTGTCCATTGGCTTTGACCCGAGAGAC
1 TTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCCGAG-GAC
*
1418280 TTTTTTA
1 TTCTTTA
1418287 CCCTTCATCT
Statistics
Matches: 141, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
41 30 0.21
42 107 0.76
43 3 0.02
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.38
Consensus pattern (41 bp):
TTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCCGAGGAC
Found at i:1418226 original size:84 final size:83
Alignment explanation
Indices: 1418081--1418286 Score: 207
Period size: 84 Copynumber: 2.5 Consensus size: 83
1418071 TTCTTTACCA
* * * * * **
1418081 TTTGTCTGCTCGTCGGCTTAGACCC-GAGGACCTCTTTATCTTTTGTCTACCCGTCGGCTTAGAC
1 TTTGTCTGCCCATCGGCTTAGACCCGGA-GACTTCTTTATCTTGTGTCTACCCATCAACTTAGAC
** *
1418145 CCTTGAGACTTCTCTATCT
65 CCGAGAGACTTCTCTATCC
* * *
1418164 TTTGTCTGCCCATCGACTTAGACCCAGGAGACTTCTTTATCTTGTGTTTACCCATCAACTTAGGC
1 TTTGTCTGCCCATCGGCTTAGACCC-GGAGACTTCTTTATCTTGTGTCTACCCATCAACTTAGAC
*
1418229 CCGAGAGACTTCTTTATCC
65 CCGAGAGACTTCTCTATCC
* * * * *
1418248 TTCGTCTGTCCATTGGCTTTGACCCGAGAGACTTTTTTA
1 TTTGTCTGCCCATCGGCTTAGACCCG-GAGACTTCTTTA
1418287 CCCTTCATCT
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
83 23 0.23
84 75 0.75
85 2 0.02
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (83 bp):
TTTGTCTGCCCATCGGCTTAGACCCGGAGACTTCTTTATCTTGTGTCTACCCATCAACTTAGACC
CGAGAGACTTCTCTATCC
Found at i:1418449 original size:86 final size:86
Alignment explanation
Indices: 1418330--1419627 Score: 474
Period size: 86 Copynumber: 15.0 Consensus size: 86
1418320 ACTGCTTCAT
* * ** * * * *
1418330 CTTAAGTTTGCCTGTCAACTTTGACCTTGGAGACTTCCTAGCCTTTAAGTCTACCTATCAGCTTC
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAGCCTTTAAGTCTGCCTATCAGCTTT
*
1418395 GACCTTGGAGACTTCTTC-CC
66 GACCTTAGAGACTTCTTCGCC
* * * * *
1418415 CGTTAAGTC-AGCTAGTCGGCTTTGACCTTAGAGACTTTTTTGCCTTTAAGTATGCCTATCGGCT
1 C-TTAAGTCTACCT-GTCGGCTTTGACCTTAGAGACTTCTTAGCCTTTAAGTCTGCCTATCAGCT
* *
1418479 TTGACCCTAGAGATTTCTTCGCC
64 TTGACCTTAGAGACTTCTTCGCC
* * * * *
1418502 CTTAAGTCTACCTGTCGGCTTTAACCTGAGAGACTGT-TT--CATCTCAAGTTTGCCTATC-GAC
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACT-TCTTAGCCT-TTAAGTCTGCCTATCAG-C
*
1418563 TTTGACCTTAGAGACTTTTTC-CTC
63 TTTGACCTTAGAGACTTCTTCGC-C
* * * * *
1418587 CTTAAGTCTACCTGTCGACTTTAACCCTAGAGACTTCTTCA-CCCTTAAGTC-GCCCTGTCAGCT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTT-AGCCTTTAAGTCTG-CCTATCAGCT
* *
1418650 TTGACCTTGGAGACTTATTCGCC
64 TTGACCTTAGAGACTTCTTCGCC
* * * * * ** *
1418673 CTTAAATCTGCCTGTCAGCTTTGACCTTGGAGACTTATT-GGTTCTTAAATCTGCCTATCAGCTT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAGCCT-TTAAGTCTGCCTATCAGCTT
* * * * *
1418737 TGACCCTAAAGACTTATACACC
65 TGACCTTAGAGACTTCTTCGCC
* * * ** * * * * ** * * * *
1418759 TTTAAGTTTGCCTGTTAGCTTTGGCCTTAAAGACTTATTCACCCTAGAGACTTCTTCCCTTTTAA
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTT-AGCCTTTA-A-GTC-TGCC-TATCA
* *
1418824 G-TTTG-TCTCTCG-G-C-T-TT-GACC
61 GCTTTGACCT-TAGAGACTTCTTCG-CC
* * * * * ** * **
1418845 CTGAAGACTTCTTTGCCCTTAAGTCTG-TTTGTCGGCTTTGACCATAGAAACTTTTCTCCTTTAA
1 CTTAAG---TC--T-ACC-T--GTCGGCTTTGAC--C-TT----AGAG-ACTTCTTAGCCTTTAA
* * * ** * *
1418909 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTAATCTCT
49 GTCTGCCTATCAGCTTTGACCTTAGAGACTTCTTCGCC
* * * * *
1418947 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTT-CCTCTTTATGTCTG----T-AGCTT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAGC-CTTTAAGTCTGCCTATCAGCTT
* ** *
1419006 TGACCCTAGAGACTTAATCTG-T
65 TGACCTTAGAGACTTCTTC-GCC
* * * * * * * *
1419028 CTTAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTCTT-GCTCTTTATGTCTGCTTGTCGGCTT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAGC-CTTTAAGTCTGCCTATCAGCTT
* * * *
1419092 TAACCTTCGAAACTTCATCGCC
65 TGACCTTAGAGACTTCTTCGCC
** * * *
1419114 CTTAAGTCTGTCTGTCGACTTTGACCTTAGAGACTTCTTCGTCC-TTAAGTCTGCCTATCGGCTT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAG-CCTTTAAGTCTGCCTATCAGCTT
* *
1419178 TGACCTTATAGACTTCTTCACC
65 TGACCTTAGAGACTTCTTCGCC
* * * * ** * * * *
1419200 CTTAAGTTTGCCTGTCGGCTTTGACCTTGGACACTT-TTTCCCTTTTAAATCTACCTGTCGGCTT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAGCC-TTTAAGTCTGCCTATCAGCTT
* * *
1419264 TGACCTTAAAGACTTATTCACC
65 TGACCTTAGAGACTTCTTCGCC
* * * * ** * * * *
1419286 TTTAAGTTTGCCCGTTAGCTTTGACCTT-GTAGACTTCTTCA-CCGTTAACTCTGCCTGTCGGCT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAG-AGACTTCTT-AGCCTTTAAGTCTGCCTATCAGCT
* * *
1419349 TTGACCTT-GTACATTTCTTCACC
64 TTGACCTTAG-AGACTTCTTCGCC
* * * * * * *
1419372 CTCT-AGTCTGCCTATCGACTTTGACCTTGGAGACTTTCTTCACCCTCT-AGTCTGCCTGTCAGC
1 CT-TAAGTCTACCTGTCGGCTTTGACCTTAGAGAC-TTCTT-AGCCTTTAAGTCTGCCTATCAGC
* * *
1419435 TTTGACCTTGGAGACTTATTCACC
63 TTTGACCTTAGAGACTTCTTCGCC
* * * * * * * * *
1419459 CTTAACTTTACTTGTCGGCTTTGACCCTAGAGACTTTCTTCA-CCCTTAAGTTTGACTGTCGGCT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGAC-TTCTT-AGCCTTTAAGTCTGCCTATCAGCT
** *
1419523 TTGACCCAAGAGACTTCCTT-ACC
64 TTGACCTTAGAGACTT-CTTCGCC
* * * *
1419546 CTTAAGTCTGCCTGTCGGCTTTGACTTTGGAGACTTCCTTA-CCTTTAAGTCTGCCCATC-GACT
1 CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTT-CTTAGCCTTTAAGTCTGCCTATCAG-CT
* *
1419609 TAGACCTGAGAGACTTCTT
64 TTGACCTTAGAGACTTCTT
1419628 TACCCTTTGT
Statistics
Matches: 928, Mismatches: 209, Indels: 152
0.72 0.16 0.12
Matches are distributed among these distances:
81 75 0.08
82 1 0.00
84 7 0.01
85 81 0.09
86 515 0.55
87 153 0.16
88 10 0.01
89 5 0.01
90 8 0.01
91 6 0.01
92 3 0.00
93 5 0.01
94 10 0.01
95 4 0.00
96 3 0.00
97 6 0.01
98 9 0.01
99 6 0.01
100 2 0.00
101 8 0.01
102 11 0.01
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.37
Consensus pattern (86 bp):
CTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTAGCCTTTAAGTCTGCCTATCAGCTTT
GACCTTAGAGACTTCTTCGCC
Found at i:1418567 original size:214 final size:210
Alignment explanation
Indices: 1418262--1418698 Score: 479
Period size: 214 Copynumber: 2.0 Consensus size: 210
1418252 TCTGTCCATT
* * *
1418262 GGCTTTGACCCGAGAGACTTTTTTACCCTTCATCTACCCATCAGCTTAAACCTGGGAGACTGCTT
1 GGCTTTGACCCGAGAGACTTTTTCACCCTTAATCTACCCATCAGCTTAAACCTGAGAGACTGCTT
* * *
1418327 CATCTTAAGTTTGCCTGTCAACTTTGACCTTGGAGAC-TTCCTAGCCTTTAAGTCTACCTATC-A
66 CATCTCAAGTTTGCCTATCAACTTTGACCTTAGAGACTTTCCT--CC-TTAAGTCTACCTATCGA
* * * * *
1418390 GCTTCGACCTTGGAGACTTCTTC-CCCGTTAAGTCAG-CTAGTCGGCTTTGACCTTAGAGACTTT
128 -CTTCAACCCTAGAGACTTCTTCACCC-TTAAGTC-GCCT-GTCAGCTTTGACCTTAGAGACTTA
* * *
1418453 TTTGCCTTTAAGTATGCCTATC
189 TTCGCCCTTAAATATGCCTATC
* * ** * * *
1418475 GGCTTTGACCCTAGAGA-TTTCTTCGCCCTTAAGTCTACCTGTCGGCTTTAACCTGAGAGACTGT
1 GGCTTTGACCCGAGAGACTTT-TTCACCCTTAA-TCTACCCATCAGCTTAAACCTGAGAGACTGC
* *
1418539 TTCATCTCAAGTTTGCCTATCGACTTTGACCTTAGAGACTTTTTCCTCCTTAAGTCTACCTGTCG
64 TTCATCTCAAGTTTGCCTATCAACTTTGACCTTAGAGAC--TTTCCTCCTTAAGTCTACCTATCG
* *
1418604 ACTTTAACCCTAGAGACTTCTTCACCCTTAAGTCGCCCTGTCAGCTTTGACCTTGGAGACTTATT
127 ACTTCAACCCTAGAGACTTCTTCACCCTTAAGTCG-CCTGTCAGCTTTGACCTTAGAGACTTATT
* *
1418669 CGCCCTTAAATCTGCCTGTC
191 CGCCCTTAAATATGCCTATC
*
1418689 AGCTTTGACC
1 GGCTTTGACC
1418699 TTGGAGACTT
Statistics
Matches: 187, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
212 3 0.02
213 25 0.13
214 146 0.78
215 8 0.04
217 5 0.03
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (210 bp):
GGCTTTGACCCGAGAGACTTTTTCACCCTTAATCTACCCATCAGCTTAAACCTGAGAGACTGCTT
CATCTCAAGTTTGCCTATCAACTTTGACCTTAGAGACTTTCCTCCTTAAGTCTACCTATCGACTT
CAACCCTAGAGACTTCTTCACCCTTAAGTCGCCTGTCAGCTTTGACCTTAGAGACTTATTCGCCC
TTAAATATGCCTATC
Found at i:1418590 original size:85 final size:83
Alignment explanation
Indices: 1418395--1418621 Score: 244
Period size: 85 Copynumber: 2.7 Consensus size: 83
1418385 TATCAGCTTC
* * * * * *
1418395 GACCTTGGAGACTTCTTCCCCGTTAAGTC-AGCTAGTCGGCTTTGACCTTAGAGACTTTTTTGCC
1 GACCTTAGAGACTTTTTCCCC-TTAAGTCTACCT-GTCGGCTTTAACC-TAGAGAC-TGTTTGCA
* *
1418459 TTTAAGTATGCCTATCGGCTTT
62 TTCAAGTATGCCTATCGACTTT
*
1418481 GACCCTAGAGA-TTTCTTCGCCCTTAAGTCTACCTGTCGGCTTTAACCTGAGAGACTGTTT-CAT
1 GACCTTAGAGACTTT-TTC-CCCTTAAGTCTACCTGTCGGCTTTAACCT-AGAGACTGTTTGCAT
*
1418544 CTCAAGTTTGCCTATCGACTTT
63 -TCAAGTATGCCTATCGACTTT
*
1418566 GACCTTAGAGACTTTTTCCTCCTTAAGTCTACCTGTCGACTTTAACCCTAGAGACT
1 GACCTTAGAGACTTTTTCC-CCTTAAGTCTACCTGTCGGCTTTAA-CCTAGAGACT
1418622 TCTTCACCCT
Statistics
Matches: 121, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 69 0.57
86 43 0.36
87 6 0.05
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (83 bp):
GACCTTAGAGACTTTTTCCCCTTAAGTCTACCTGTCGGCTTTAACCTAGAGACTGTTTGCATTCA
AGTATGCCTATCGACTTT
Found at i:1418614 original size:128 final size:128
Alignment explanation
Indices: 1418434--1418664 Score: 315
Period size: 128 Copynumber: 1.8 Consensus size: 128
1418424 AGCTAGTCGG
* * * *
1418434 CTTTGACCTTAGAGACTTTTTTGCCTTTAAGTATGCCTATCGGCTTTGACCCTAGAGATTTCTTC
1 CTTTGACCTTAGAGACTTTTTTGCCTTTAAGTATACCTATCGACTTTAACCCTAGAGACTTCTTC
* * *
1418499 GCCCTTAAGTCTACCTGTCGGCTTTAACC-TGAGAGACTGTTTCATCTCAAGTTTGCCTATCGA
66 ACCCTTAAGTCGACCTGTCAGCTTTAACCTTG-GAGACTGTTTCATCTCAAGTTTGCCTATCGA
* *
1418562 CTTTGACCTTAGAGAC-TTTTT-CCTCCTTAAGTCTACCTGTCGACTTTAACCCTAGAGACTTCT
1 CTTTGACCTTAGAGACTTTTTTGCCT--TTAAGTATACCTATCGACTTTAACCCTAGAGACTTCT
* *
1418625 TCACCCTTAAGTCGCCCTGTCAGCTTTGACCTTGGAGACT
64 TCACCCTTAAGTCGACCTGTCAGCTTTAACCTTGGAGACT
1418665 TATTCGCCCT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
126 3 0.03
127 5 0.06
128 79 0.89
129 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (128 bp):
CTTTGACCTTAGAGACTTTTTTGCCTTTAAGTATACCTATCGACTTTAACCCTAGAGACTTCTTC
ACCCTTAAGTCGACCTGTCAGCTTTAACCTTGGAGACTGTTTCATCTCAAGTTTGCCTATCGA
Found at i:1418709 original size:43 final size:43
Alignment explanation
Indices: 1418311--1418803 Score: 284
Period size: 43 Copynumber: 11.5 Consensus size: 43
1418301 ATCAGCTTAA
* * * * **
1418311 ACCTGGGAGACTGCTTCA-TCTTAAGTTTGCCTGTCAACTTTG
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* * * * * *
1418353 ACCTTGGAGACTTCCT-AGCCTTTAAGTCTACCTATCAGCTTCG
1 ACCTTGGAGACTTCTTCA-CCCTTAAGTCTGCCTGTCGGCTTTG
*
1418396 ACCTTGGAGACTTCTTC-CCCGTTAAGTCAG-CTAGTCGGCTTTG
1 ACCTTGGAGACTTCTTCACCC-TTAAGTCTGCCT-GTCGGCTTTG
* * ** * * *
1418439 ACCTTAGAGACTTTTTTGCCTTTAAGTATGCCTATCGGCTTTG
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* * * * * *
1418482 ACCCTAGAGATTTCTTCGCCCTTAAGTCTACCTGTCGGCTTTA
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* * * * *
1418525 ACC-TGAGAGACTGT-TTCA-TCTCAAGTTTGCCTATCGACTTTG
1 ACCTTG-GAGACT-TCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* * * * *
1418567 ACCTTAGAGACTTTTTC-CTCCTTAAGTCTACCTGTCGACTTTA
1 ACCTTGGAGACTTCTTCAC-CCTTAAGTCTGCCTGTCGGCTTTG
* * *
1418610 ACCCTAGAGACTTCTTCACCCTTAAGTC-GCCCTGTCAGCTTTG
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTG-CCTGTCGGCTTTG
* * * *
1418653 ACCTTGGAGACTTATTCGCCCTTAAATCTGCCTGTCAGCTTTG
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* **** * * *
1418696 ACCTTGGAGACTTATTGGTTCTTAAATCTGCCTATCAGCTTTG
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* ** * * * * **
1418739 ACCCTAAAGACTTATACACCTTTAAGTTTGCCTGTTAGCTTTG
1 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
* ** *
1418782 GCCTTAAAGACTTATTCACCCT
1 ACCTTGGAGACTTCTTCACCCT
1418804 AGAGACTTCT
Statistics
Matches: 353, Mismatches: 82, Indels: 31
0.76 0.18 0.07
Matches are distributed among these distances:
41 2 0.01
42 47 0.13
43 297 0.84
44 7 0.02
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (43 bp):
ACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTCGGCTTTG
Found at i:1418750 original size:129 final size:129
Alignment explanation
Indices: 1418330--1419627 Score: 693
Period size: 129 Copynumber: 10.0 Consensus size: 129
1418320 ACTGCTTCAT
* ** * * * * * *
1418330 CTTAAGTTTGCCTGTCAACTTTGACCTTGGAGACTTCCT-AGCCTTTAAGTCTACCTATCAGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCA-CCCTTAAGTCTGCCTGTCAGCTT
* * * * * *
1418394 CGACCTTGGAGACTTCTTC-CCCGTTAAGTCAG-CTAGTCGGCTTTGACCTTAGAGACTTTTTTG
65 TGACCTTGGAGACTTATTCACCC-TTAAGTCTGCCT-GTCGGCTTTGACCTTGGAGACTTCTTCG
1418457 CC
128 CC
* * * * * * *
1418459 TTTAAGTATGCCTATCGGCTTTGACCCTAGAGATTTCTTCGCCCTTAAGTCTACCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTGTCAGCTTT
* * * * * * * *
1418524 AACC-TGAGAGACTGT-TTCA-TCTCAAGTTTGCCTATCGACTTTGACCTTAGAGACTTTTTC-C
66 GACCTTG-GAGACT-TATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTCGC
1418585 TC
129 -C
* * *
1418587 CTTAAGTCTACCTGTCGACTTTAACCCTAGAGACTTCTTCACCCTTAAGTC-GCCCTGTCAGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTG-CCTGTCAGCTT
* * * * * **
1418651 TGACCTTGGAGACTTATTCGCCCTTAAATCTGCCTGTCAGCTTTGACCTTGGAGACTTATTGGTT
65 TGACCTTGGAGACTTATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTCGCC
* * * * * * * * *
1418716 CTTAAATCTGCCTATCAGCTTTGACCCTAAAGACTTATACACCTTTAAGTTTGCCTGTTAGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTGTCAGCTTT
* ** * * * * ** * *** * *
1418781 GGCCTTAAAGACTTATTCACCC-TAGAGACT-TCT-TC-CCTTTTAAGTTTGTCTCTCGGCTTTG
66 GACCTTGGAGACTTATTCACCCTTA-AGTCTGCCTGTCGGCTTTGACCTTGGAGACT--TCTTCG
1418842 ACC
128 -CC
* * * * * ** * * *
1418845 CTGAAGACTTCTTTGCCCTTAAGTCTG-TTTGTCGGCTTTGACCATAGAAACTTTTCTCCTTTAA
1 CTTAAG---TC--TG-CC-T--GTCGGCTTTGAC--C-----CTAGAG-ACTTCTTCACCCTTAA
* * * * * * *
1418909 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTAATCTCTCTTAAGTCTGCCTGTCGGCTTTGACCC
49 GTCTGCCTGTCAGCTTTGACCTTGGAGACTTATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCT
*
1418974 TGGAGACTTCTTC-CT
114 TGGAGACTTCTTCGCC
* * * ** *** **
1418989 CTT---TATGTCTGT-AGCTTTGACCCTAGAGACTTAATCTGTCTTAAGTCTGCCTGTTGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTGTCAGCTTT
* * * * * * * * * *
1419050 GACCCTGGAGACTTCTTGC-TCTTTATGTCTGCTTGTCGGCTTTAACCTTCGAAACTTCATCGCC
66 GACCTTGGAGACTTATT-CACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTCGCC
* * * ** * *
1419114 CTTAAGTCTGTCTGTCGACTTTGACCTTAGAGACTTCTTCGTCCTTAAGTCTGCCTATCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTGTCAGCTTT
** * * * *
1419179 GACCTTATAGACTTCTTCACCCTTAAGTTTGCCTGTCGGCTTTGACCTTGGACACTTTTTC-CC
66 GACCTTGGAGACTTATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTCGCC
* * * * * * * * * *
1419242 TTTTAAATCTACCTGTCGGCTTTGACCTTAAAGACTTATTCACCTTTAAGTTTGCCCGTTAGCTT
1 -CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTGTCAGCTT
* * * * * * * *
1419307 TGACCTTGTAGACTTCTTCACCGTTAACTCTGCCTGTCGGCTTTGACCTTGTACATTTCTTCACC
65 TGACCTTGGAGACTTATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTCGCC
* * * *
1419372 CTCT-AGTCTGCCTATCGACTTTGACCTTGGAGACTTTCTTCACCCTCT-AGTCTGCCTGTCAGC
1 CT-TAAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTCACCCT-TAAGTCTGCCTGTCAGC
* * * * * *
1419435 TTTGACCTTGGAGACTTATTCACCCTTAACTTTACTTGTCGGCTTTGACCCTAGAGACTTTCTTC
63 TTTGACCTTGGAGACTTATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TTCTTC
*
1419500 ACC
127 GCC
* * * *
1419503 CTTAAGTTTGACTGTCGGCTTTGACCCAAGAGACTTCCTT-ACCCTTAAGTCTGCCTGTCGGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CTTCACCCTTAAGTCTGCCTGTCAGCTT
* * * ** * *
1419567 TGACTTTGGAGACTTCCTT-ACCTTTAAGTCTGCCCATCGACTTAGACC-TGAGAGACTTCTT
65 TGACCTTGGAGACTT-ATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTG-GAGACTTCTT
1419628 TACCCTTTGT
Statistics
Matches: 882, Mismatches: 231, Indels: 112
0.72 0.19 0.09
Matches are distributed among these distances:
124 71 0.08
125 9 0.01
126 10 0.01
127 4 0.00
128 117 0.13
129 395 0.45
130 137 0.16
131 41 0.05
132 9 0.01
134 3 0.00
135 3 0.00
136 3 0.00
137 5 0.01
138 4 0.00
139 1 0.00
144 7 0.01
145 45 0.05
146 7 0.01
147 2 0.00
148 9 0.01
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.37
Consensus pattern (129 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTGTCAGCTTT
GACCTTGGAGACTTATTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTCGCC
Found at i:1418867 original size:43 final size:43
Alignment explanation
Indices: 1418833--1419634 Score: 410
Period size: 43 Copynumber: 18.7 Consensus size: 43
1418823 AGTTTGTCTC
**
1418833 TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGTTTG
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGCCTG
* *
1418876 TCGGCTTTGACCATAGAA-ACTT-TTCT-CCTTTAAGTCTGCCTG
1 TCGGCTTTGACCCT-GAAGACTTCTT-TGCCCTTAAGTCTGCCTG
* * *
1418918 TCGGCTTTGACCCT-AGAGACTTAATCT-CTCTTAAGTCTGCCTG
1 TCGGCTTTGACCCTGA-AGACTT-CTTTGCCCTTAAGTCTGCCTG
* * *
1418961 TCGGCTTTGACCCTGGAGACTTC-TT-CCTCTT---TATGTCTG
1 TCGGCTTTGACCCTGAAGACTTCTTTGCC-CTTAAGTCTGCCTG
* * * *
1419000 T-AGCTTTGACCCT-AGAGACTTAATCTG-TCTTAAGTCTGCCTG
1 TCGGCTTTGACCCTGA-AGACTT-CTTTGCCCTTAAGTCTGCCTG
* * * * *
1419042 TTGGCTTTGACCCTGGAGACTTC-TTGCTCTTTATGTCTGCTTG
1 TCGGCTTTGACCCTGAAGACTTCTTTGC-CCTTAAGTCTGCCTG
* * * * *
1419085 TCGGCTTTAACCTTCGAA-ACTTCATCGCCCTTAAGTCTGTCTG
1 TCGGCTTTGACCCT-GAAGACTTCTTTGCCCTTAAGTCTGCCTG
* * * * *
1419128 TCGACTTTGA-CCTTAGAGACTTCTTCGTCCTTAAGTCTGCCTA
1 TCGGCTTTGACCCTGA-AGACTTCTTTGCCCTTAAGTCTGCCTG
* ** *
1419171 TCGGCTTTGA-CCTTATAGACTTCTTCACCCTTAAGTTTGCCTG
1 TCGGCTTTGACCCTGA-AGACTTCTTTGCCCTTAAGTCTGCCTG
* * * * *
1419214 TCGGCTTTGACCTTGGACACTT-TTT-CCCTTTTAAATCTACCTG
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCC--TTAAGTCTGCCTG
* * * ** * * *
1419257 TCGGCTTTGACCTTAAAGACTTATTCACCTTTAAGTTTGCCCG
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGCCTG
** * * ** * *
1419300 TTAGCTTTGACCTTGTAGACTTCTTCACCGTTAACTCTGCCTG
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGCCTG
* * * * ** *
1419343 TCGGCTTTGACCTTGTACATTTCTTCACCCTCT-AGTCTGCCTA
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCCT-TAAGTCTGCCTG
* * * **
1419386 TCGACTTTGACCTTGGAGACTTTCTTCACCCTCT-AGTCTGCCTG
1 TCGGCTTTGACCCTGAAGAC-TTCTTTGCCCT-TAAGTCTGCCTG
* * * * ** * * * *
1419430 TCAGCTTTGACCTTGGAGACTTATTCACCCTTAACTTTACTTG
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGCCTG
** * *
1419473 TCGGCTTTGACCCT-AGAGACTTTCTTCACCCTTAAGTTTGACTG
1 TCGGCTTTGACCCTGA-AGAC-TTCTTTGCCCTTAAGTCTGCCTG
* * *
1419517 TCGGCTTTGACCC-AAGAGACTTCCTTACCCTTAAGTCTGCCTG
1 TCGGCTTTGACCCTGA-AGACTTCTTTGCCCTTAAGTCTGCCTG
** * * * * **
1419560 TCGGCTTTGACTTTGGAGACTTCCTTACCTTTAAGTCTGCCCA
1 TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGCCTG
* * *
1419603 TCGACTTAGA-CCTGAGAGACTTCTTTACCCTT
1 TCGGCTTTGACCCTGA-AGACTTCTTTGCCCTT
1419635 TGTCTACCCA
Statistics
Matches: 600, Mismatches: 123, Indels: 72
0.75 0.15 0.09
Matches are distributed among these distances:
38 17 0.03
39 10 0.02
40 2 0.00
41 9 0.01
42 50 0.08
43 419 0.70
44 91 0.15
45 2 0.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (43 bp):
TCGGCTTTGACCCTGAAGACTTCTTTGCCCTTAAGTCTGCCTG
Found at i:1419006 original size:38 final size:39
Alignment explanation
Indices: 1418964--1419080 Score: 119
Period size: 38 Copynumber: 2.9 Consensus size: 39
1418954 CTGCCTGTCG
1418964 GCTTTGACCCTGGAGACTTCTTCCTCTTTATGTCTG-TA
1 GCTTTGACCCTGGAGACTTCTTCCTCTTTATGTCTGTTA
* ** * * * *
1419002 GCTTTGACCCTAGAGACTTAATCTGTCTTAAGTCTGCCTGTTG
1 GCTTTGACCCTGGAGACTTCTTC-CTCTT---TATGTCTGTTA
*
1419045 GCTTTGACCCTGGAGACTTCTTGCTCTTTATGTCTG
1 GCTTTGACCCTGGAGACTTCTTCCTCTTTATGTCTG
1419081 CTTGTCGGCT
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
38 20 0.33
39 10 0.17
42 10 0.17
43 20 0.33
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (39 bp):
GCTTTGACCCTGGAGACTTCTTCCTCTTTATGTCTGTTA
Found at i:1419687 original size:42 final size:42
Alignment explanation
Indices: 1419595--1419782 Score: 159
Period size: 42 Copynumber: 4.5 Consensus size: 42
1419585 TACCTTTAAG
* * * * *
1419595 TCTGCCCATCGACTTAGAC-CTGAGAGACTTCTTTACCCTTT-G
1 TCTGCCCATCGGCTTAGACTC-AAGAGACTTCTTCA-TCTTTCA
* * *
1419637 TCTACCCATCGGTTTAGTCTCAAGAGACTTCTTCATCTTTCA
1 TCTGCCCATCGGCTTAGACTCAAGAGACTTCTTCATCTTTCA
* *
1419679 TCTGCCCATCGGCTTAGACCCGAA-AGAC-TCTTTCATCTTTCG
1 TCTGCCCATCGGCTTAGACTC-AAGAGACTTC-TTCATCTTTCA
* * * * *
1419721 TCTGCCTATCGGCTTAGACTCGAGAAATTTCCTTCATTTTTCA
1 TCTGCCCATCGGCTTAGACTCAAGAGACTT-CTTCATCTTTCA
*
1419764 TCTACCCATCGGCTTAGAC
1 TCTGCCCATCGGCTTAGAC
1419783 CCAGAAGACT
Statistics
Matches: 117, Mismatches: 22, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
41 7 0.06
42 79 0.68
43 30 0.26
44 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (42 bp):
TCTGCCCATCGGCTTAGACTCAAGAGACTTCTTCATCTTTCA
Found at i:1419696 original size:84 final size:85
Alignment explanation
Indices: 1419578--1419793 Score: 226
Period size: 84 Copynumber: 2.6 Consensus size: 85
1419568 GACTTTGGAG
* * * * *
1419578 ACTTCCTT-ACCTTTAAGTCTGCCCATCGACTTAGACCTGAGAGACTTCTTT-ACCCTTT-GTCT
1 ACTTCCTTCATCTTTCA-TCTGCCCATCGGCTTAGACCCGAAAGAC-TCTTTCA-CCTTTCGTCT
* * *
1419640 ACCCATCGGTTTAGTCTCAAGAG
63 ACCCATCGGCTTAGACTCAAGAA
* *
1419663 ACTT-CTTCATCTTTCATCTGCCCATCGGCTTAGACCCGAAAGACTCTTTCATCTTTCGTCTGCC
1 ACTTCCTTCATCTTTCATCTGCCCATCGGCTTAGACCCGAAAGACTCTTTCACCTTTCGTCTACC
* *
1419727 TATCGGCTTAGACTCGAGAA
66 CATCGGCTTAGACTCAAGAA
* * *
1419747 ATTTCCTTCATTTTTCATCTACCCATCGGCTTAGACCC-AGAAGACTC
1 ACTTCCTTCATCTTTCATCTGCCCATCGGCTTAGACCCGA-AAGACTC
1419794 CTTTATCATT
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
83 9 0.08
84 54 0.49
85 48 0.43
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (85 bp):
ACTTCCTTCATCTTTCATCTGCCCATCGGCTTAGACCCGAAAGACTCTTTCACCTTTCGTCTACC
CATCGGCTTAGACTCAAGAA
Found at i:1419841 original size:85 final size:85
Alignment explanation
Indices: 1419659--1419847 Score: 226
Period size: 85 Copynumber: 2.2 Consensus size: 85
1419649 TTTAGTCTCA
* *
1419659 AGAGAC-TTCTTCATCTTTCATCTGCCCATCGGCTTAGACCCGAAAGACTCTTTCATCTTTCGTC
1 AGAGACTTTCTTCATTTTTCATCTACCCATCGGCTTAGACCCGAAAGACTCTTTCATCTTTCGTC
* *
1419723 TGCCTATCGGCTTAGACTCG
66 TGCCTATCAGCCTAGACTCG
*
1419743 AGA-AATTTCCTTCATTTTTCATCTACCCATCGGCTTAGACCC-AGAAGACTCCTTT-ATCATTT
1 AGAGACTTT-CTTCATTTTTCATCTACCCATCGGCTTAGACCCGA-AAGACT-CTTTCATC-TTT
* * *
1419805 -GTCTGCCTATTAGCCTAGGCTTG
62 CGTCTGCCTATCAGCCTAGACTCG
1419828 AGAGACTTTCTTCATCTTTT
1 AGAGACTTTCTTCAT-TTTT
1419848 GTTTGCCCGT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
83 1 0.01
84 6 0.07
85 67 0.75
86 15 0.17
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.37
Consensus pattern (85 bp):
AGAGACTTTCTTCATTTTTCATCTACCCATCGGCTTAGACCCGAAAGACTCTTTCATCTTTCGTC
TGCCTATCAGCCTAGACTCG
Found at i:1421997 original size:35 final size:35
Alignment explanation
Indices: 1421951--1422040 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 35
1421941 AAGCTCAACA
* *
1421951 CCCTTCATCCTCAAAGAGCAGGACA-CATTTC-TTTT
1 CCCTTTATCCTCAAAGAGCAGGA-AGC-TCTCTTTTT
*
1421986 CCCTTTATCCTC-GAGAAGCAGGAAGCTCTCTTTTT
1 CCCTTTATCCTCAAAG-AGCAGGAAGCTCTCTTTTT
* *
1422021 CCTTTTATCCTCAAGGAGCA
1 CCCTTTATCCTCAAAGAGCA
1422041 AGACTCACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
34 6 0.13
35 38 0.84
36 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (35 bp):
CCCTTTATCCTCAAAGAGCAGGAAGCTCTCTTTTT
Found at i:1422095 original size:42 final size:42
Alignment explanation
Indices: 1422016--1422212 Score: 147
Period size: 42 Copynumber: 4.6 Consensus size: 42
1422006 GGAAGCTCTC
* * * *
1422016 TTTTTCCTTTTATCCTCAAGGAGCAAGACTCACTTCATCTCCT
1 TTTTTCC-TTTGTCCTCAAAGAGCAAGACGCATTTCATCTCCT
*
1422059 TTTTTCCTTTGTCCTCAAGGAGCAAGA-GCCATTTCAT-T-CT
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACG-CATTTCATCTCCT
* * * ** *
1422099 TCTTTTCCATTTGTCCTTAAGAAAG-AGGACGCATTCCTTTTCTCTT
1 T-TTTTCC-TTTGTCCTCAA-AGAGCAAGACGCATT--TCATCTCCT
* *
1422145 TTTTTCCTTTGTCCTCAAAGAACAGGAC-CTATTTCATTCTCC-
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACGC-ATTTCA-TCTCCT
1422187 TTTTT-CTTTGTCCTCAAAGAGCAAGA
1 TTTTTCCTTTGTCCTCAAAGAGCAAGA
1422213 TGCTCACTCC
Statistics
Matches: 124, Mismatches: 18, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
40 3 0.02
41 26 0.21
42 49 0.40
43 17 0.14
44 20 0.16
45 7 0.06
46 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (42 bp):
TTTTTCCTTTGTCCTCAAAGAGCAAGACGCATTTCATCTCCT
Found at i:1422172 original size:44 final size:43
Alignment explanation
Indices: 1422053--1422206 Score: 115
Period size: 41 Copynumber: 3.6 Consensus size: 43
1422043 ACTCACTTCA
* * * * *
1422053 TCTCCTTTTTTCCTTTGTCCTCAAGGAGCAAGAGCC-ATTTCA-
1 TCTCTTTTTTTCCTTTGTCCTCAAAGAACAGGA-CCTATTCCAT
* * * *
1422095 T-TCTTCTTTTCCATTTGTCCT-TAAGAAAGAGGACGC-ATTCCTTT
1 TCTCTTTTTTTCC-TTTGTCCTCAAAG-AACAGGAC-CTATTCC-AT
*
1422139 TCTCTTTTTTTCCTTTGTCCTCAAAGAACAGGACCTATTTCAT
1 TCTCTTTTTTTCCTTTGTCCTCAAAGAACAGGACCTATTCCAT
*
1422182 TCTC-CTTTTT-CTTTGTCCTCAAAGA
1 TCTCTTTTTTTCCTTTGTCCTCAAAGA
1422207 GCAAGATGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 27 0.30
42 23 0.26
43 6 0.07
44 20 0.22
45 13 0.15
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (43 bp):
TCTCTTTTTTTCCTTTGTCCTCAAAGAACAGGACCTATTCCAT
Found at i:1422325 original size:31 final size:31
Alignment explanation
Indices: 1422228--1422344 Score: 94
Period size: 31 Copynumber: 3.8 Consensus size: 31
1422218 ACTCCTTTTT
* *
1422228 AAGCCCACACGAGTTGGTGGTACCCTAGTCA
1 AAGCCCACACGAGTTGGTGGCACCCTAGTTA
* ** * * *
1422259 AAGACCGTACAAGCTGGTGGCA-CTTGAGTCT-
1 AAGCCCACACGAGTTGGTGGCACCCT-AGT-TA
*
1422290 AAGCCCACACGAGTTAGTGGCACCCTAGTTA
1 AAGCCCACACGAGTTGGTGGCACCCTAGTTA
* * *
1422321 AAGCCCACACAAGCTGATGGCACC
1 AAGCCCACACGAGTTGGTGGCACC
1422345 TAAGTTCGGT
Statistics
Matches: 63, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
30 3 0.05
31 58 0.92
32 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (31 bp):
AAGCCCACACGAGTTGGTGGCACCCTAGTTA
Found at i:1422333 original size:62 final size:62
Alignment explanation
Indices: 1422227--1422343 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 62
1422217 CACTCCTTTT
* * ** *
1422227 TAAGCCCACACGAGTTGGTGGTACCCTAGTCAAAGACCGTACAAGCTGGTGGCACTTGAGTC
1 TAAGCCCACACGAGTTAGTGGCACCCTAGTCAAAGACCACACAAGCTGATGGCACTTGAGTC
* *
1422289 TAAGCCCACACGAGTTAGTGGCACCCTAGTTAAAGCCCACACAAGCTGATGGCAC
1 TAAGCCCACACGAGTTAGTGGCACCCTAGTCAAAGACCACACAAGCTGATGGCAC
1422344 CTAAGTTCGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (62 bp):
TAAGCCCACACGAGTTAGTGGCACCCTAGTCAAAGACCACACAAGCTGATGGCACTTGAGTC
Found at i:1422441 original size:31 final size:32
Alignment explanation
Indices: 1422403--1422942 Score: 354
Period size: 31 Copynumber: 16.9 Consensus size: 32
1422393 GCCTTAGAAT
*
1422403 GTCAAAGCCCACACGAGTTGGCGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * * * * * *
1422434 GTCAAAGCTCGCACAAGCTAGTGACA-CCTAA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * * *
1422465 GTCAAAGCCAACACAAATTGGCAGCA-CTTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * *
1422496 GTCAAAGCCCACACAAGTTGGCAGCA-CTTCA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
*
1422527 GTCAAAGCCCACACAAGTTGGTGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
** * *
1422558 GTCAAAGCCCGTACAAGATGGCGGCA-CTTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * *
1422589 GTCAAAGCCCATATAAGTTGGCAGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * * *
1422620 GTCAAAGCCTACACAAGTTGGCGGTACAC-AA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* *
1422651 GTCAAAGCCCACACAAGCCCATATAAGGTGGCAGCACTTGA
1 GTCAAAGCCCACACAAG----T-T--GGCGGCA-C-CCTGA
*
1422692 GTCAAAGCCCACACAAGTTGGGGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
** *
1422723 GTCAAAGCCTGCATAAGTTGGCGGCACCC-GA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * *
1422754 GTCAAAGCCCACACAAATTAGTGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * * *
1422785 CTAAAAGCCTACACAAGCTGGCGGCA-CCTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * * *
1422816 GTCTAAGCCTACATAAGTTGGCGGCA-CTTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
* * * *
1422847 GTCTAAGTCTAAGCCCATACAAGTTGGTGACACCAT-A
1 GTC--A----AAGCCCACACAAGTTGGCGGCACCCTGA
* * * * *
1422884 GTCAAAGCACGCACGAGTTGGTGGCA-CTTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
*
1422915 GTCAAAGCCCACACAAGTTGGTGGCACC
1 GTCAAAGCCCACACAAGTTGGCGGCACC
1422943 TATGTCCGAG
Statistics
Matches: 395, Mismatches: 87, Indels: 53
0.74 0.16 0.10
Matches are distributed among these distances:
30 10 0.03
31 319 0.81
32 7 0.02
33 1 0.00
34 6 0.02
35 2 0.01
36 2 0.01
37 22 0.06
38 7 0.02
39 1 0.00
41 18 0.05
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (32 bp):
GTCAAAGCCCACACAAGTTGGCGGCACCCTGA
Found at i:1422710 original size:72 final size:72
Alignment explanation
Indices: 1422593--1422731 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
1422583 ACTTGAGTCA
* * *
1422593 AAGCCCATATAAGTTGGCAGCACCCTAGTCAAAGCCTACACAAGTTGGCGGTACACAAGTCAAAG
1 AAGCCCATATAAGGTGGCAGCACCCTAGTCAAAGCCCACACAAGTTGGCGGCACACAAGTCAAAG
1422658 CCCACAC
66 CCCACAC
* * * *
1422665 AAGCCCATATAAGGTGGCAGCA-CTTGAGTCAAAGCCCACACAAGTTGGGGGCACCCTAGTCAAA
1 AAGCCCATATAAGGTGGCAGCACCCT-AGTCAAAGCCCACACAAGTTGGCGGCACACAAGTCAAA
1422729 GCC
65 GCC
1422732 TGCATAAGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.15
Consensus pattern (72 bp):
AAGCCCATATAAGGTGGCAGCACCCTAGTCAAAGCCCACACAAGTTGGCGGCACACAAGTCAAAG
CCCACAC
Found at i:1422741 original size:103 final size:103
Alignment explanation
Indices: 1422562--1422769 Score: 299
Period size: 103 Copynumber: 2.0 Consensus size: 103
1422552 ACCCTAGTCA
* * * *
1422562 AAGCCCGTACAAGATGGCGGCACTTGAGTCAAAGCCCATATAAGTTGGCAGCACCCTAGTCAAAG
1 AAGCCCATACAAGATGGCAGCACTTGAGTCAAAGCCCACACAAGTTGGCAGCACCCTAGTCAAAG
*
1422627 CCTACACAAGTTGGCGGTACACAAGTCAAAGCCCACAC
66 CCTACACAAGTTGGCGGCACACAAGTCAAAGCCCACAC
* * **
1422665 AAGCCCATATAAGGTGGCAGCACTTGAGTCAAAGCCCACACAAGTTGGGGGCACCCTAGTCAAAG
1 AAGCCCATACAAGATGGCAGCACTTGAGTCAAAGCCCACACAAGTTGGCAGCACCCTAGTCAAAG
* * * *
1422730 CCTGCATAAGTTGGCGGCACCCGAGTCAAAGCCCACAC
66 CCTACACAAGTTGGCGGCACACAAGTCAAAGCCCACAC
1422768 AA
1 AA
1422770 ATTAGTGGCA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (103 bp):
AAGCCCATACAAGATGGCAGCACTTGAGTCAAAGCCCACACAAGTTGGCAGCACCCTAGTCAAAG
CCTACACAAGTTGGCGGCACACAAGTCAAAGCCCACAC
Found at i:1422783 original size:165 final size:165
Alignment explanation
Indices: 1422500--1422808 Score: 438
Period size: 165 Copynumber: 1.9 Consensus size: 165
1422490 ACTTGAGTCA
* *
1422500 AAGCCCACACAAGTTGGCAGCACTTCAGTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAG
1 AAGCCCACACAAGGTGGCAGCACTTCAGTCAAAGCCCACACAAGTTGGGGGCACCCTAGTCAAAG
* ** * * * * * *
1422565 CCCGTACAAGATGGCGGCACTTGAGTCAAAGCCCATATAAGTTGGCAGCACCCTAGTCAAAGCCT
66 CCCGCACAAGATGGCGGCACCCGAGTCAAAGCCCACACAAATTAGCAGCACCCTACTAAAAGCCT
*
1422630 ACACAAGTTGGCGGTACACAAGTCAAAGCCCACAC
131 ACACAAGCTGGCGGTACACAAGTCAAAGCCCACAC
* * *
1422665 AAGCCCATATAAGGTGGCAGCACTTGAGTCAAAGCCCACACAAGTTGGGGGCACCCTAGTCAAAG
1 AAGCCCACACAAGGTGGCAGCACTTCAGTCAAAGCCCACACAAGTTGGGGGCACCCTAGTCAAAG
* * * **
1422730 CCTGCATAAGTTGGCGGCACCCGAGTCAAAGCCCACACAAATTAGTGGCACCCTACTAAAAGCCT
66 CCCGCACAAGATGGCGGCACCCGAGTCAAAGCCCACACAAATTAGCAGCACCCTACTAAAAGCCT
1422795 ACACAAGCTGGCGG
131 ACACAAGCTGGCGG
1422809 CACCTGAGTC
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
165 124 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (165 bp):
AAGCCCACACAAGGTGGCAGCACTTCAGTCAAAGCCCACACAAGTTGGGGGCACCCTAGTCAAAG
CCCGCACAAGATGGCGGCACCCGAGTCAAAGCCCACACAAATTAGCAGCACCCTACTAAAAGCCT
ACACAAGCTGGCGGTACACAAGTCAAAGCCCACAC
Found at i:1426865 original size:5 final size:5
Alignment explanation
Indices: 1426815--1426845 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1426805 CAACTATTTG
1426815 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1426846 TTTAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1430298 original size:20 final size:20
Alignment explanation
Indices: 1430273--1430311 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1430263 AGATAGAAAT
1430273 AGTGAATGTATCAATACTTA
1 AGTGAATGTATCAATACTTA
*
1430293 AGTGAATGTATCATTACTT
1 AGTGAATGTATCAATACTT
1430312 GTATCGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
AGTGAATGTATCAATACTTA
Found at i:1431453 original size:42 final size:42
Alignment explanation
Indices: 1431406--1431490 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
1431396 CATTCTTCCA
1431406 TATTCACATCTTTACCTCATATTTGGATGTCATTTTAACATG
1 TATTCACATCTTTACCTCATATTTGGATGTCATTTTAACATG
1431448 TATTCACATCTTTACCTCATATTTGGATGTCATTTTAACATG
1 TATTCACATCTTTACCTCATATTTGGATGTCATTTTAACATG
1431490 T
1 T
1431491 TCATGCATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (42 bp):
TATTCACATCTTTACCTCATATTTGGATGTCATTTTAACATG
Found at i:1432910 original size:81 final size:80
Alignment explanation
Indices: 1432769--1432981 Score: 259
Period size: 81 Copynumber: 2.6 Consensus size: 80
1432759 TAAATTTCTT
* * * * ** *
1432769 CTTCCAAAAGTATTGCATTTTTAACCGTTGAGGATACTCCAAAGCTATCATTTCCTAGGGGATAC
1 CTTCCAAAAGTATTG-ATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCCTAGGGGATAC
*
1432834 TCTAACCCCATTTTTA
65 TCAAACCCCATTTTTA
*
1432850 CTTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTT-CTCAGGGGATA
1 CTTCCAAAAGTATTG-ATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCCT-AGGGGATA
*
1432914 CTCAAACCCCTTTTTTA
64 CTCAAACCCCATTTTTA
* * * *
1432931 TTTCTAACA-TATTGATTTTTCACTATCGGGGATACTCCAACCCCATCATTT
1 CTTCCAAAAGTATTGATTTTTCACCATCGGGGATACTCCAACCCCATCATTT
1432982 TTGAAGGGAT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.31
80 6 0.05
81 73 0.63
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.34
Consensus pattern (80 bp):
CTTCCAAAAGTATTGATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCCTAGGGGATACT
CAAACCCCATTTTTA
Found at i:1433008 original size:79 final size:79
Alignment explanation
Indices: 1432800--1433053 Score: 235
Period size: 79 Copynumber: 3.2 Consensus size: 79
1432790 TAACCGTTGA
** * * * * * *
1432800 GGATACTCCAAAGCTATCATTTC-CTAGGGGATACTCTAACCCCATTTTTACTTCCAAAAGCATT
1 GGATACTCCAACCCCATCATTTCTC-AAGGGATACTCAAACCCCGTTTTTACTTCCAACA-TATT
*
1432864 GAATTTTTCACCATCGG
64 G-ATTTTTCACTATCGG
* * * *
1432881 GGATACTCCAACCCCATCATTTCTCAGGGGATACTCAAACCCCTTTTTTATTTCTAACATATTGA
1 GGATACTCCAACCCCATCATTTCTCAAGGGATACTCAAACCCCGTTTTTACTTCCAACATATTGA
1432946 TTTTTCACTATCGG
66 TTTTTCACTATCGG
* * ** * * *
1432960 GGATACTCCAACCCCATCATTTTTGAAGGGATACTTC-GGCCTCGTTTTTACTTCCAAGATGTTA
1 GGATACTCCAACCCCATCATTTCTCAAGGGATAC-TCAAACCCCGTTTTTACTTCCAACATATT-
* * *
1433024 AATTTTTCA-TATTGA
64 GATTTTTCACTATCGG
1433039 GGATACTCCAACCCC
1 GGATACTCCAACCCC
1433054 GATTTTCACC
Statistics
Matches: 146, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
79 82 0.56
80 14 0.10
81 49 0.34
82 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCATCATTTCTCAAGGGATACTCAAACCCCGTTTTTACTTCCAACATATTGA
TTTTTCACTATCGG
Found at i:1433089 original size:17 final size:18
Alignment explanation
Indices: 1433069--1433102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1433059 TCACCAGAAA
*
1433069 TTGAA-TTTCCACTCTTG
1 TTGAAGTTTCCAATCTTG
1433086 TTGAAGTTTCCAATCTT
1 TTGAAGTTTCCAATCTT
1433103 TTCTAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (18 bp):
TTGAAGTTTCCAATCTTG
Found at i:1439968 original size:21 final size:20
Alignment explanation
Indices: 1439921--1439974 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1439911 AATTTCAAGC
*
1439921 ATGTTTCAATACATTCACAT
1 ATGTATCAATACATTCACAT
*
1439941 ATGTATCAATACATTTACTAT
1 ATGTATCAATACATTCAC-AT
* *
1439962 TTGTATCGATACA
1 ATGTATCAATACA
1439975 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (20 bp):
ATGTATCAATACATTCACAT
Found at i:1440722 original size:52 final size:52
Alignment explanation
Indices: 1440643--1441084 Score: 308
Period size: 52 Copynumber: 8.3 Consensus size: 52
1440633 GAAAGGTGTT
* * * **
1440643 AATGTGCTGATTCAAGGCCAACAACATTGGACTTGAAGGTGAAAAGAATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAATGAAAAGAATGCC
* *
1440695 AATGTGATGATTCAAGGCC-GACGACATTAGACTTGAAGAT-AAGAAGAATGCC
1 AATGTGCTGATTCAAGGCCAG-CGACATTAGACTTGAAAATGAA-AAGAATGCC
* * * * ** *
1440747 AATGTGCTAATTTAAGGCCAGCGGCATTAGACTT-AAAATGACAAGGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAATGAAAAGAATGCC
* * * * * *
1440798 AATGTGTTGATTCAAGGCCAGCAACATTGGGCTTAAAAATGACAAA-AGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAATGA-AAAGAATGCC
* * * *
1440850 TATGTGATGATTCAAGGCTAGCGACATTAGACTTAGAAAGA-GATAAAG-GTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTT-GAAA-ATGA-AAAGAATGCC
* * * ** *
1440903 GATATGCTGATTCAAGGCCAACGATGTTAGACTT-AAAGATGAAAAGGGTGAGAAGGTGTC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAA-ATG-AAA-----AGAA--TGCC
* * *
1440963 AATGTGCTGATTCACA-GCCACCGACATTAGACTTGAAGATGATAAGAATGCC
1 AATGTGCTGATTCA-AGGCCAGCGACATTAGACTTGAAAATGAAAAGAATGCC
* * * * *
1441015 AATGTGCTGATTCAAGGCCAACGATATT-GTACTTAAAAATTAGAAGAATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAG-ACTTGAAAATGAAAAGAATGCC
* *
1441067 AATATGTTGATTCAAGGC
1 AATGTGCTGATTCAAGGC
1441085 TAGTAGCATT
Statistics
Matches: 310, Mismatches: 57, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
51 46 0.15
52 175 0.56
53 44 0.14
54 5 0.02
57 2 0.01
59 2 0.01
60 33 0.11
61 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (52 bp):
AATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAATGAAAAGAATGCC
Found at i:1441434 original size:32 final size:32
Alignment explanation
Indices: 1441327--1441606 Score: 305
Period size: 31 Copynumber: 8.7 Consensus size: 32
1441317 AAGGAGATGA
* * *
1441327 CACCAACTTGTGTGGGCTTTTGAACAAGGTTAC
1 CACCAACTTGTGTGGGCTTTAGAA-AGGGTTGC
*
1441360 CATCAACTTGTGTGGGCTTTAGAAAGAGGTTGC
1 CACCAACTTGTGTGGGCTTTAGAAAG-GGTTGC
* *
1441393 CACCTACTTGTTTGGGCTTTAGAAAGGGTTGC
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGC
* *
1441425 CATCAACTTGTGTGGGCTTTCGAAAAGGGGTTGC
1 CACCAACTTGTGTGGGCTTTAG-AAA-GGGTTGC
* *
1441459 CACCAACTTGTGTGAGCTTTAGAAAGGGTTGT
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGC
* * * *
1441491 CATCGACTTGTGTGAGCTTTAG-AAGGGCTGC
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGC
** * *
1441522 CACTGACTTGTTTGGGCTTTAG-ACGGGTTGC
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGC
**
1441553 CACTGACTTGTGTGGGCTTTAG-AAGGGTTGC
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGC
* *
1441584 CACCGACTTGTGTAGGCTTTAGA
1 CACCAACTTGTGTGGGCTTTAGA
1441607 GGAAAAGATG
Statistics
Matches: 214, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
31 81 0.38
32 51 0.24
33 56 0.26
34 26 0.12
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (32 bp):
CACCAACTTGTGTGGGCTTTAGAAAGGGTTGC
Found at i:1441459 original size:66 final size:63
Alignment explanation
Indices: 1441327--1441606 Score: 312
Period size: 66 Copynumber: 4.4 Consensus size: 63
1441317 AAGGAGATGA
* * *
1441327 CACCAACTTGTGTGGGCTTTTGAACAAGGTTACCATCAACTTGTGTGGGCTTTAGAAAGAGGTTG
1 CACCAACTTGTGTGGGCTTTAGAA-AGGGTTGCCATCAACTTGTGTGGGCTTTA-AAAG-GGTTG
1441392 C
63 C
* *
1441393 CACCTACTTGTTTGGGCTTTAGAAAGGGTTGCCATCAACTTGTGTGGGCTTTCGAAAAGGGGTTG
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCATCAACTTGTGTGGGCTTT--AAAA-GGGTTG
1441458 C
63 C
* * * * * *
1441459 CACCAACTTGTGTGAGCTTTAGAAAGGGTTGTCATCGACTTGTGTGAGCTTTAGAAGGGCTGC
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCATCAACTTGTGTGGGCTTTAAAAGGGTTGC
** * * * *
1441522 CACTGACTTGTTTGGGCTTTAG-ACGGGTTGCCA-CTGACTTGTGTGGGCTTTAGAAGGGTTGC
1 CACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCATC-AACTTGTGTGGGCTTTAAAAGGGTTGC
* *
1441584 CACCGACTTGTGTAGGCTTTAGA
1 CACCAACTTGTGTGGGCTTTAGA
1441607 GGAAAAGATG
Statistics
Matches: 185, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
61 1 0.01
62 53 0.29
63 24 0.13
64 3 0.02
65 26 0.14
66 76 0.41
67 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (63 bp):
CACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCATCAACTTGTGTGGGCTTTAAAAGGGTTGC
Found at i:1441653 original size:27 final size:27
Alignment explanation
Indices: 1441623--1441721 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
1441613 GATGCCACAA
1441623 AGTTGTGGACTTAGAAAGGTGCAATGG
1 AGTTGTGGACTTAGAAAGGTGCAATGG
*
1441650 AGTTGTGGACTTTAAAAGAAAAAGGTGCTATGG
1 AGTTGTGGAC-TT---AG--AAAGGTGCAATGG
* *
1441683 AGTTGTAGACTTA-AAATGGTGCCATGG
1 AGTTGTGGACTTAGAAA-GGTGCAATGG
*
1441710 AATTGTGGACTT
1 AGTTGTGGACTT
1441722 TAAAAGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
26 3 0.05
27 29 0.48
28 2 0.03
29 1 0.02
31 2 0.03
32 2 0.03
33 21 0.35
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (27 bp):
AGTTGTGGACTTAGAAAGGTGCAATGG
Found at i:1441675 original size:33 final size:32
Alignment explanation
Indices: 1441637--1441789 Score: 158
Period size: 33 Copynumber: 4.9 Consensus size: 32
1441627 GTGGACTTAG
*
1441637 AAAGGTGCAATGGAGTTGTGGACTTTAAAAGAA
1 AAAGGTGCCATGGAGTTGTGGACTTTAAAA-AA
* *
1441670 AAAGGTGCTATGGAGTTGTAGAC-TT----AA
1 AAAGGTGCCATGGAGTTGTGGACTTTAAAAAA
* *
1441697 AATGGTGCCATGGAATTGTGGACTTTAAAAGAA
1 AAAGGTGCCATGGAGTTGTGGACTTTAAAA-AA
* * *
1441730 AACGGTGCCATGGAGTTATGGGCTTTAAAAAA
1 AAAGGTGCCATGGAGTTGTGGACTTTAAAAAA
*
1441762 AAA-GTACCATGGAGTTGTGGAC-TTAAAA
1 AAAGGTGCCATGGAGTTGTGGACTTTAAAA
1441790 TGGTACCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
27 21 0.21
28 2 0.02
30 6 0.06
31 16 0.16
32 6 0.06
33 49 0.49
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (32 bp):
AAAGGTGCCATGGAGTTGTGGACTTTAAAAAA
Found at i:1441687 original size:60 final size:60
Alignment explanation
Indices: 1441623--1441746 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 60
1441613 GATGCCACAA
* * *
1441623 AGTTGTGGACTTAGAAA-GGTGCAATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCTATGG
1 AGTTGTAGACTTA-AAATGGTGCAATGGAATTGTGGACTTTAAAAGAAAAAGGTGCCATGG
* *
1441683 AGTTGTAGACTTAAAATGGTGCCATGGAATTGTGGACTTTAAAAGAAAACGGTGCCATGG
1 AGTTGTAGACTTAAAATGGTGCAATGGAATTGTGGACTTTAAAAGAAAAAGGTGCCATGG
1441743 AGTT
1 AGTT
1441747 ATGGGCTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 3 0.05
60 55 0.95
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (60 bp):
AGTTGTAGACTTAAAATGGTGCAATGGAATTGTGGACTTTAAAAGAAAAAGGTGCCATGG
Found at i:1441795 original size:27 final size:27
Alignment explanation
Indices: 1441679--1441816 Score: 78
Period size: 27 Copynumber: 4.7 Consensus size: 27
1441669 AAAAGGTGCT
* *
1441679 ATGGAGTTGTAGACTTAAAATGGTGCC
1 ATGGAGTTGTGGACTTAAAATGGTACC
* * *
1441706 ATGGAATTGTGGACTTTAAAAGAAAACGGTGCC
1 ATGGAGTTGTGGAC-TT-----AAAATGGTACC
* * **
1441739 ATGGAGTTATGGGCTTTAAAAAAAAAGTACC
1 ATGGAGTTGTGGAC-TT---AAAATGGTACC
1441770 ATGGAGTTGTGGACTTAAAATGGTACC
1 ATGGAGTTGTGGACTTAAAATGGTACC
***
1441797 ACAAAGTTGTGGACTTAAAA
1 ATGGAGTTGTGGACTTAAAA
1441817 AAAAGAGGTG
Statistics
Matches: 88, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
27 38 0.43
28 2 0.02
30 2 0.02
31 22 0.25
33 24 0.27
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (27 bp):
ATGGAGTTGTGGACTTAAAATGGTACC
Found at i:1441807 original size:91 final size:91
Alignment explanation
Indices: 1441617--1441850 Score: 250
Period size: 91 Copynumber: 2.6 Consensus size: 91
1441607 GGAAAAGATG
* *
1441617 CCACAAAGTTGTGGACTT---AG-AAAGGTGCAATGGAGTTGTGGACTTTAAAAGAAAAAGGTGC
1 CCACAAAGTTGTGGACTTAAAAGAAAAGGTGCAATGGAGTTATGGACTTTAAAAGAAAAAGGTAC
* *
1441678 TATGGAGTTGTAGACTTAAAATGGTG
66 CATGGAGTTGTAGACTTAAAATGGTA
** * *
1441704 CCATGGAA-TTGTGGACTTTAAAAGAAAACGGTGCCATGGAGTTATGGGCTTTAAAA-AAAAA-G
1 CCA-CAAAGTTGTGGAC-TTAAAAGAAAA-GGTGCAATGGAGTTATGGACTTTAAAAGAAAAAGG
*
1441766 TACCATGGAGTTGTGGACTTAAAATGGTA
63 TACCATGGAGTTGTAGACTTAAAATGGTA
* * ** *
1441795 CCACAAAGTTGTGGACTTAAAAAAAAGAGGTGCGACAGAGTTGTGGAC-TTAAAAGA
1 CCACAAAGTTGTGGACTTAAAAGAAA-AGGTGCAATGGAGTTATGGACTTTAAAAGA
1441851 GTGCCTTGGA
Statistics
Matches: 120, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
87 11 0.09
88 4 0.03
89 6 0.05
90 27 0.22
91 40 0.33
92 8 0.07
93 24 0.20
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (91 bp):
CCACAAAGTTGTGGACTTAAAAGAAAAGGTGCAATGGAGTTATGGACTTTAAAAGAAAAAGGTAC
CATGGAGTTGTAGACTTAAAATGGTA
Found at i:1445670 original size:20 final size:20
Alignment explanation
Indices: 1445645--1445720 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
1445635 AAAAACCCAA
1445645 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAT
* *
1445665 AATGTATTGATACAATTGTAAG
1 AATGTATCGATACAA-TG-AAT
* * * *
1445687 CATGTATCGATACATTTATT
1 AATGTATCGATACAATGAAT
*
1445707 TATGTATCGATACA
1 AATGTATCGATACA
1445721 TTTCCTTTCC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 28 0.62
21 3 0.07
22 14 0.31
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACAATGAAT
Found at i:1445798 original size:20 final size:21
Alignment explanation
Indices: 1445775--1445821 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1445765 GGCATTTATT
1445775 GATACATTCACT-TATGTATC
1 GATACATTCACTATATGTATC
* * *
1445795 GATACTTTTACTATTTGTATC
1 GATACATTCACTATATGTATC
1445816 GATACA
1 GATACA
1445822 AATTATAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (21 bp):
GATACATTCACTATATGTATC
Found at i:1446387 original size:20 final size:20
Alignment explanation
Indices: 1446362--1446412 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1446352 AAGTGAAATA
*
1446362 TATCGATACAT-AGGAATTTG
1 TATCGATACATGAAGAA-TTG
1446382 TATCGATACATGAAGAATTG
1 TATCGATACATGAAGAATTG
1446402 TATCGATACAT
1 TATCGATACAT
1446413 TATGCCCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACATGAAGAATTG
Found at i:1457462 original size:13 final size:13
Alignment explanation
Indices: 1457444--1457468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1457434 CAAAGATCAT
1457444 TGTATCGATACAA
1 TGTATCGATACAA
1457457 TGTATCGATACA
1 TGTATCGATACA
1457469 TTGAATAATC
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:1457566 original size:20 final size:18
Alignment explanation
Indices: 1457514--1457571 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
1457504 CTTTGTAGTG
*
1457514 ATACATTGTATCGATACA
1 ATACTTTGTATCGATACA
*
1457532 ATACTTATGTGTCGATACA
1 ATACTT-TGTATCGATACA
*
1457551 TTTACTGTTGTATCGATACA
1 -ATACT-TTGTATCGATACA
1457571 A
1 A
1457572 ATTGTTGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.16
19 11 0.34
20 15 0.47
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (18 bp):
ATACTTTGTATCGATACA
Found at i:1458250 original size:52 final size:51
Alignment explanation
Indices: 1458194--1458486 Score: 274
Period size: 52 Copynumber: 5.7 Consensus size: 51
1458184 ATATTGGGCA
* * * *
1458194 TAAAGATGTAAAGAATGTCAATGTGCTGATTCACGGTCAGCGACATTAGACT
1 TAAAGATGTAAAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATTAGACT
* **
1458246 TAAAGAT-AAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATT-GGGT
1 TAAAGATGTA-AAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATTAGACT
* * * *
1458297 TAAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCAGACT
1 TAAAG-ATG-TAAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGACT
** *
1458350 TAAAGATG--AAGATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGACT
1 TAAAGATGTAAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGACT
* * * * ** *
1458399 TAAAGATGGTTAAGGTGCCAATGTGCTGATTTAAGGCTAACGACATCGGTCT
1 TAAAGAT-GTAAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGACT
* * *
1458451 TAAAGATG--AAGGTGTCAATATGCTGATTCAAGGCCA
1 TAAAGATGTAAAGATGCCAATGTGCTGATTCAAGGCCA
1458487 GCGATATTGG
Statistics
Matches: 201, Mismatches: 32, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
49 66 0.33
50 1 0.00
51 8 0.04
52 116 0.58
53 9 0.04
54 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (51 bp):
TAAAGATGTAAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGACT
Found at i:1458391 original size:101 final size:101
Alignment explanation
Indices: 1458165--1458497 Score: 352
Period size: 101 Copynumber: 3.3 Consensus size: 101
1458155 AGTGCTAATA
* * * *
1458165 TGCTGATTC-AGGACCAGTGATATTGGGCATAAAGAT-G-TAAAGAATGTCAATGTGCTGATTCA
1 TGCTGATTCAAGG-CCAGCGACATTGGG-TTAAAGATGGTTAAAG-ATGCCAATGTGCTGATTCA
* * * *
1458227 CGGTCAGCGACATTAGACTTAAAGATAAGAAGAATGCCAATG
63 AGGCCAACGACATCAGACTTAAAGAT--GAAG-ATGCCAATG
* * *
1458269 TGCTGATTCAAGGCCAACGACATTGGGTTAAGGAAT-GTTAAAGATGCCAATATGCTGATTCAAG
1 TGCTGATTCAAGGCCAGCGACATTGGGTTAAAG-ATGGTTAAAGATGCCAATGTGCTGATTCAAG
*
1458333 GCCAACGATATCAGACTTAAAGATGAAGATGCCAATG
65 GCCAACGACATCAGACTTAAAGATGAAGATGCCAATG
* * * *
1458370 TGCTGATTCAAGGCCGGCGACATTGGACTTAAAGATGGTT-AAGGTGCCAATGTGCTGATTTAAG
1 TGCTGATTCAAGGCCAGCGACATTGG-GTTAAAGATGGTTAAAGATGCCAATGTGCTGATTCAAG
* * * * * *
1458434 GCTAACGACATCGGTCTTAAAGATGAAGGTGTCAATA
65 GCCAACGACATCAGACTTAAAGATGAAGATGCCAATG
*
1458471 TGCTGATTCAAGGCCAGCGATATTGGG
1 TGCTGATTCAAGGCCAGCGACATTGGG
1458498 CTTGTGCCAA
Statistics
Matches: 195, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
101 110 0.56
102 12 0.06
103 4 0.02
104 61 0.31
105 8 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (101 bp):
TGCTGATTCAAGGCCAGCGACATTGGGTTAAAGATGGTTAAAGATGCCAATGTGCTGATTCAAGG
CCAACGACATCAGACTTAAAGATGAAGATGCCAATG
Found at i:1458617 original size:39 final size:39
Alignment explanation
Indices: 1458551--1458883 Score: 189
Period size: 39 Copynumber: 7.8 Consensus size: 39
1458541 AAATATGAAG
* *
1458551 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
* * **
1458590 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCCTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGG-------G-C-TT
* * *
1458638 GTGCCAATATGCTGGTTCAAGGCCAGCAATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
1458677 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * *
1458716 AAAGACAAGGTGCCAATATGCTGATTGAACGCCAGTGATATTAGGCTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
1458764 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC-TT
* *
1458804 GAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --------GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * *
1458851 ATGCCAATGTGTTGATTCAAGGCCGGTGATATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATT
1458884 AGTCTTAAAG
Statistics
Matches: 225, Mismatches: 42, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
39 121 0.54
40 3 0.01
41 1 0.00
46 1 0.00
47 3 0.01
48 96 0.43
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:1458661 original size:48 final size:46
Alignment explanation
Indices: 1458590--1458846 Score: 184
Period size: 48 Copynumber: 5.8 Consensus size: 46
1458580 TATTGGGCTT
* *
1458590 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCCTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCCT--AGACAAG
* * * **
1458638 GTGCCAATATGCTGGTTCAAGGCCAGCAATATTGG-----G-C-TT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCCTAGACAAG
* * *
1458677 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCCT--AGACAAG
* * * * *
1458725 GTGCCAATATGCTGATTGAACGCCAGTGATATTAGG--CT----TA-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGTCCTAGACAAG
* *
1458765 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTC-CT-AGACAAG
*
1458812 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
1458847 ACTTATGCCA
Statistics
Matches: 158, Mismatches: 31, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
38 2 0.01
39 57 0.36
40 1 0.01
41 3 0.02
46 2 0.01
47 2 0.01
48 90 0.57
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (46 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCCTAGACAAG
Found at i:1458682 original size:87 final size:88
Alignment explanation
Indices: 1458413--1458934 Score: 708
Period size: 87 Copynumber: 6.0 Consensus size: 88
1458403 GATGGTTAAG
* * * * * *
1458413 GTGCCAATGTGCTGATTTAAGGCTAACGACATCGGTCTTAAAGATGAAGGTGTCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
1458478 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * *
1458501 GTGCCAATGTGCTGAATTCAAGGCTAGTGACATTGGTCTTAAATATGAAGGTGCTAATATGCTGA
1 GTGCCAATGTGCTG-ATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGA
1458566 TTCAAGGCCAGCGATATTGGGCTT
65 TTCAAGGCCAGCGATATTGGGCTT
* * *
1458590 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCCTAAAGA-CAAGGTGCCAATATGCTGGT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
*
1458654 TCAAGGCCAGCAATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
*
1458677 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
* * * *
1458741 TGAACGCCAGTGATATTAGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* **
1458764 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTGAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
*
1458828 TCAAGGCCAGCGATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * * * * *
1458851 ATGCCAATGTGTTGATTCAAGGCCGGTGATATTAGTCTTAAAGATAAAAGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
*
1458916 TCAAAGCCAGCGATATTGG
66 TCAAGGCCAGCGATATTGG
1458935 ACTTAGAAGA
Statistics
Matches: 387, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 232 0.60
88 75 0.19
89 80 0.21
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1459093 original size:33 final size:33
Alignment explanation
Indices: 1459037--1459606 Score: 302
Period size: 33 Copynumber: 17.6 Consensus size: 33
1459027 TTGGAAAGGG
* *
1459037 TGCCACTGACTTGTAGG-CTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGT-GGACTTAAAAGGAGAAAGA
* * *
1459070 TGCCATGGAGTTGTGGACATAAAAGG-GAAAAGGC
1 TGCCACGGAGTTGTGGACTTAAAAGGAG-AAA-GA
* * *
1459104 TGCCACGGAGTCGTAGACTTCAAAA-GA-AAAGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGAGAAAGA
* * * *
1459136 TGCCGCGAAGTTGTGAACTTAAAAGGA-ACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
* *
1459169 TGCCACGGAGTTGTGGACTTAAAAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
1459202 TGCCACGGAGTTGTGGACTTCAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * * *
1459229 TGCCATGGAGTTATGGACTTAAAAGGAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
** * *
1459262 GTATCACGGAGTTGTGGACTTAAAA--TGAAAGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * * * *
1459294 TGCCATGGAGTTGTGGGATTTAAAAAGAAAAAAAAAGG
1 TGCCACGGAGTTGT-GGACTT-AAAAG---GAGAAAGA
*
1459332 TGCCACGGAGTTATGGACTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* *
1459359 TGCCACGGAGTTGTGGTCTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
** **
1459392 TGCCACATAGTTGTGGACTT--TGGGA-AGAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
* * *
1459423 TGCCACAGAGTTATGGACTTTAAAGG-GAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAG-AAAGA
* *
1459456 GTGCCACGAAGTTGTGGACTTAAAA-G-GAAAGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * * *
1459488 TGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT--AAAAG---GAGAAAGA
*
1459527 TGCCATGGAGTTGTGGACTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
1459554 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
** *
1459587 TGCCATAGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
1459607 TGGGAAGAAA
Statistics
Matches: 412, Mismatches: 77, Indels: 96
0.70 0.13 0.16
Matches are distributed among these distances:
27 66 0.16
28 6 0.01
30 1 0.00
31 56 0.14
32 38 0.09
33 124 0.30
34 64 0.16
35 4 0.01
36 8 0.02
37 5 0.01
38 19 0.05
39 21 0.05
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
Found at i:1459238 original size:27 final size:27
Alignment explanation
Indices: 1459202--1459254 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1459192 AGAAAAAAGA
* *
1459202 TGCCACGGAGTTGTGGACTTCAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
*
1459229 TGCCATGGAGTTATGGACTTAAAAGG
1 TGCCACGGAGTTATGGACTTAAAAGG
1459255 AAAAAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (27 bp):
TGCCACGGAGTTATGGACTTAAAAGGG
Found at i:1459325 original size:65 final size:62
Alignment explanation
Indices: 1459076--1459584 Score: 309
Period size: 65 Copynumber: 7.9 Consensus size: 62
1459066 AAGATGCCAT
* * * * * * *
1459076 GGAGTTGTGGACATAAAAGGGAAAAGGCTGCCACGGAGTCGTAGACTTCAAAAG-AAAAGGTGCC
1 GGAGTTGTGGACTTAAAA--G--AAGG-TGCCACGGAGTTGTGGATTTAAAAAGAAAAAAGTACC
*
1459140 GC
61 AC
* * * *
1459142 GAAGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT-AAAAGAAAAAAGATGCC
1 GGAGTTGTGGACTTAAAA-G---AAGGTGCCACGGAGTTGTGGATTTAAAAAGAAAAAAG-TACC
1459206 AC
61 AC
* * * * * *
1459208 GGAGTTGTGGACTTCAAAG--GGTGCCATGGAGTTATGGACTTAAAAGGAAAAAAAGTATCAC
1 GGAGTTGTGGACTTAAAAGAAGGTGCCACGGAGTTGTGGATTTAAAAAG-AAAAAAGTACCAC
* *
1459269 GGAGTTGTGGACTTAAAATGAAAGGTGCCATGGAGTTGTGGGATTTAAAAAGAAAAAAAAAGGTG
1 GGAGTTGTGGACTTAAAA-G-AAGGTGCCACGGAGTTGT-GGATTTAAAAAG---AAAAAA-GTA
1459334 CCAC
59 CCAC
* * *
1459338 GGAGTTATGGACTTAAAAG--GGTGCCACGGAGTTGTGG-TCTT-AAAAGGAAAAAGATGCCAC
1 GGAGTTGTGGACTTAAAAGAAGGTGCCACGGAGTTGTGGAT-TTAAAAAGAAAAAAG-TACCAC
** ** * * * ** * *
1459398 ATAGTTGTGGACTTTGGGAAGAAGATGCCACAGAGTTATGGACTTTAAAGGGAAAAGAGTGCCAC
1 GGAGTTGTGGAC-TT-AAAAGAAGGTGCCACGGAGTTGTGGA-TTTAAAAAGAAAAAAGTACCAC
* *
1459463 GAAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAAAAAGGT
1 GGAGTTGTGGACTTAAAA-G-AAGGTGCCACGGAGTTGT-GGATTT-AAAAAG---AAAAAA-GT
* *
1459528 GCCAT
58 ACCAC
* *
1459533 GGAGTTGTGGACTTAAAAG--GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GGAGTTGTGGACTTAAAAGAAGGTGCCACGGAGTTGTGGATTTAAAAAGAAAAA
1459585 GATGCCATAG
Statistics
Matches: 360, Mismatches: 53, Indels: 65
0.75 0.11 0.14
Matches are distributed among these distances:
59 1 0.00
60 40 0.11
61 32 0.09
62 11 0.03
63 8 0.02
64 32 0.09
65 96 0.27
66 81 0.22
68 8 0.02
69 28 0.08
70 23 0.06
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (62 bp):
GGAGTTGTGGACTTAAAAGAAGGTGCCACGGAGTTGTGGATTTAAAAAGAAAAAAGTACCAC
Found at i:1459360 original size:130 final size:127
Alignment explanation
Indices: 1459144--1459591 Score: 369
Period size: 130 Copynumber: 3.5 Consensus size: 127
1459134 GGTGCCGCGA
1459144 AGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGATGCCACG
1 AGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGATGCCACG
* * *
1459209 GAGTTGTGGACTTCAAAGGGTGCCATGGAGTTATGGACTTAAAAGGAAAAAAAGTATCACGG
66 GAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAGTATCACGG
* * * * *
1459271 AGTTGTGGACTTAAAATG-A-AAGGTGCCATGGAGTTGTGGGATTTAAAAAGAAAAAAAAAGGTG
1 AGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGT-GGACTT-AAAAG---AAAAAAGATG
* * * **
1459334 CCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGAAAAAGA-TGCCAC
61 CCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAGTATCAC
**
1459398 AT
126 GG
* ** * * * * * **
1459400 AGTTGTGGACTT--TGGGAAGAAGATGCCACAGAGTTATGGACTTTAAAGGGAAAAGAGTGCCAC
1 AGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGA-TGCCAC
* * * * *
1459463 GAAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAAAAAGGT
65 GGAGTTATGGACTTAAAA-G---GGTGCCACGGAGTTATGGAC-TT--AAAAG-GAAAAAAA-GT
** *
1459528 GCCATGG
121 ATCACGG
* *
1459535 AGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCA
1 AGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGATGCCA
1459592 TAGAGTCGTG
Statistics
Matches: 259, Mismatches: 42, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
124 5 0.02
125 39 0.15
126 7 0.03
127 26 0.10
128 6 0.02
129 49 0.19
130 68 0.26
131 30 0.12
132 5 0.02
133 6 0.02
135 17 0.07
136 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (127 bp):
AGTTGTGAACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGATGCCACG
GAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAGTATCACGG
Found at i:1459363 original size:27 final size:27
Alignment explanation
Indices: 1459325--1459384 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1459315 AAAAAGAAAA
*
1459325 AAAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTATGGACTT
* *
1459352 AAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTATGGACTT
1459379 AAAAGG
1 AAAAGG
1459385 AAAAAGATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTATGGACTT
Found at i:1459546 original size:70 final size:66
Alignment explanation
Indices: 1459450--1459577 Score: 177
Period size: 70 Copynumber: 1.9 Consensus size: 66
1459440 CTTTAAAGGG
*
1459450 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAA-G---GGTGCCACGGAGTTGTGGAC-TTAAAAAA
1459515 GAAAAA
61 GAAAAA
* *
1459521 AAAAG-GTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1459578 GGAAAAAGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
65 6 0.11
66 19 0.35
69 1 0.02
70 23 0.43
71 5 0.09
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (66 bp):
AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAGAAAA
A
Found at i:1459558 original size:27 final size:27
Alignment explanation
Indices: 1459520--1459579 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
1459510 AAAAAGAAAA
* *
1459520 AAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1459547 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1459574 AAAAGG
1 AAAAGG
1459580 AAAAAGATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1459585 original size:195 final size:194
Alignment explanation
Indices: 1459167--1459621 Score: 668
Period size: 195 Copynumber: 2.4 Consensus size: 194
1459157 AAAGGAACAA
* * * *
1459167 GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGATGCCACGGAGTTGTGGAC-TT--CAA-AGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTTGGGAAGAAG
* ** * * *
1459228 GTGCCATGGAGTTATGGACTTAAAAGGAAAAAAAGTATCACGGAGTTGTGGACTTAAAATGAAAG
66 ATGCCACAGAGTTATGGACTTAAAAGGAAAAAAAGTACCACGAAGTTGTGGACTTAAAAGGAAAG
*
1459293 GTGCCATGGAGTTGTGGGATTTAAAAAGAAAAAAAAAGGTGCCACGGAGTTATGGACTTAAAAG
131 GTGCCACGGAGTTGTGGGATTTAAAAAGAAAAAAAAAGGTGCCACGGAGTTATGGACTTAAAAG
* *
1459357 GGTGCCACGGAGTTGTGGTCTTAAAAGGAAAAAGATGCCACATAGTTGTGGACTTTGGGAAGAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTTGGGAAGAAG
* * * *
1459422 ATGCCACAGAGTTATGGACTTTAAAGGGAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAAAG
66 ATGCCACAGAGTTATGGACTTAAAAGGAAAAAAAGTACCACGAAGTTGTGGACTTAAAAGGAAAG
* * *
1459487 GTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAAAAAGGTGCCATGGAGTTGTGGACTTAAAAG
131 GTGCCACGGAGTTGTGGGATTT-AAAAAGAAAAAAAAAGGTGCCACGGAGTTATGGACTTAAAAG
* *
1459552 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATAGAGTCGTGGACTTTGGGAAGAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTTGGGAAGAAG
1459616 ATGCCA
66 ATGCCA
1459622 TTGAATCGTA
Statistics
Matches: 236, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
190 49 0.21
191 2 0.01
193 2 0.01
194 83 0.35
195 100 0.42
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (194 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTTGGGAAGAAG
ATGCCACAGAGTTATGGACTTAAAAGGAAAAAAAGTACCACGAAGTTGTGGACTTAAAAGGAAAG
GTGCCACGGAGTTGTGGGATTTAAAAAGAAAAAAAAAGGTGCCACGGAGTTATGGACTTAAAAG
Found at i:1459620 original size:30 final size:31
Alignment explanation
Indices: 1459586--1459700 Score: 112
Period size: 31 Copynumber: 3.8 Consensus size: 31
1459576 AAGGAAAAAG
*
1459586 ATGCCA-TAGAGTCGTGGACTTTGGGAAGAA
1 ATGCCACTAGAGTCGTGGACTTTGAGAAGAA
* * *
1459616 ATGCCA-TTGAATCGTAGACTTTGAGAAGAGA
1 ATGCCACTAGAGTCGTGGACTTTGAGAAGA-A
* * *
1459647 TTGCCACTA-AGTCGTGGACTTTAAAGAAAAA
1 ATGCCACTAGAGTCGTGGACTTT-GAGAAGAA
*
1459678 ATGCCACT-CAGTCGTGGACTTTG
1 ATGCCACTAGAGTCGTGGACTTTG
1459701 GGACAAGATA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
30 25 0.36
31 38 0.55
32 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (31 bp):
ATGCCACTAGAGTCGTGGACTTTGAGAAGAA
Found at i:1459721 original size:30 final size:31
Alignment explanation
Indices: 1459650--1459733 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
1459640 GAAGAGATTG
*
1459650 CCACTAAGTCGTGGACTTTAAAGAAAAAATG
1 CCACTAAGTCGTGGACTTTAAAGAAAAAATA
* ** * *
1459681 CCACTCAGTCGTGGACTTT-GGGACAAGATA
1 CCACTAAGTCGTGGACTTTAAAGAAAAAATA
* *
1459711 CCACTAAGTCGTGAACTTAAAAG
1 CCACTAAGTCGTGGACTTTAAAG
1459734 GGTGCCACGG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
30 22 0.54
31 19 0.46
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (31 bp):
CCACTAAGTCGTGGACTTTAAAGAAAAAATA
Found at i:1459770 original size:92 final size:90
Alignment explanation
Indices: 1459542--1459768 Score: 225
Period size: 92 Copynumber: 2.5 Consensus size: 90
1459532 TGGAGTTGTG
* * *
1459542 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATAGAGTCGTGGACTT
1 GACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGAAAAAAATGCCATACAGTCGTGGACTT
* *
1459607 TGGGAAGAAATGCCATTGAATCGTA
66 TGGGAAGAAATACCACTGAATCGTA
** * * *
1459632 GACTTTGAGAAGAGATTGCCAC-TAAGTCGTGGACTTTAAA-G-AAAAAATGCCACT-CAGTCGT
1 GAC-TT-A-AA-AGGGTGCCACGGAA-TTGTGGACTTAAAAGGAAAAAAATGCCA-TACAGTCGT
*
1459693 GGACTTTGGGACA-AGATACCACT-AAGTCGT-
60 GGACTTTGGGA-AGAAATACCACTGAA-TCGTA
1459723 GAACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGAAAAAAA
1 G-ACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGAAAAAAA
1459769 AAAGAGTGCC
Statistics
Matches: 109, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
88 20 0.18
89 5 0.05
90 10 0.09
91 7 0.06
92 41 0.38
93 6 0.06
94 20 0.18
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (90 bp):
GACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGAAAAAAATGCCATACAGTCGTGGACTT
TGGGAAGAAATACCACTGAATCGTA
Found at i:1459836 original size:30 final size:30
Alignment explanation
Indices: 1459788--1459952 Score: 204
Period size: 30 Copynumber: 5.3 Consensus size: 30
1459778 CGCGAAGTTG
*
1459788 TGGACTTTGAAGAAAAGATGCCACTAAGTCA
1 TGGACTTTGAA-AAAAGATGCCACTGAGTCA
*
1459819 TGGACTTTGGAAAAAGATGCCACTGAGTCA
1 TGGACTTTGAAAAAAGATGCCACTGAGTCA
* *
1459849 TGGACTTTTAAGAAAAAAGAAGCCACTGAGTCG
1 TGGAC-TTT--GAAAAAAGATGCCACTGAGTCA
* * * **
1459882 TGGACATAGAAAAGAGATGCCACTGAGTTG
1 TGGACTTTGAAAAAAGATGCCACTGAGTCA
1459912 TGGACTTTGAAGAAAAGATGCCACTGAGTCA
1 TGGACTTTGAA-AAAAGATGCCACTGAGTCA
1459943 TGGACTTTGA
1 TGGACTTTGA
1459953 GAAGAGAGAT
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
30 51 0.44
31 39 0.34
32 1 0.01
33 24 0.21
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (30 bp):
TGGACTTTGAAAAAAGATGCCACTGAGTCA
Found at i:1459874 original size:63 final size:62
Alignment explanation
Indices: 1459788--1459962 Score: 228
Period size: 63 Copynumber: 2.8 Consensus size: 62
1459778 CGCGAAGTTG
*
1459788 TGGACTTTGAAGAAAAGATGCCACTAAGTCATGGACTTTGGAAAA-AGATGCCACTGAGTCA
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGGAAAAGAGATGCCACTGAGTCA
* * * * * **
1459849 TGGACTTTTAAGAAAAAAGAAGCCACTGAGTCGTGGAC-ATAGAAAAGAGATGCCACTGAGTTG
1 TGGACTTTGAAG--AAAAGATGCCACTGAGTCATGGACTTTGGAAAAGAGATGCCACTGAGTCA
*
1459912 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAGAAGAGAGAT
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTG-GAAAAGAGAT
1459963 TTGAAGAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
61 33 0.35
62 7 0.07
63 55 0.58
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (62 bp):
TGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGGAAAAGAGATGCCACTGAGTCA
Found at i:1464620 original size:50 final size:53
Alignment explanation
Indices: 1464518--1464622 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 53
1464508 CCATTTCTGA
1464518 GGGGATACTCCAACACCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATC
1 GGGGATACTCCAACACCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATC
* * * * *
1464571 GGGGATACTCTAAC-CCCTTTTTATTTCCAAAA-TA-TCAATTTTTCACCATC
1 GGGGATACTCCAACACCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATC
1464621 GG
1 GG
1464623 CTCCAACCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
50 17 0.36
51 1 0.02
52 16 0.34
53 13 0.28
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (53 bp):
GGGGATACTCCAACACCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATC
Found at i:1472129 original size:20 final size:20
Alignment explanation
Indices: 1472088--1472130 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1472078 GTATCGATAC
* *
1472088 ATTCACTTATGTACTAATAT
1 ATTCACTCATGTACTAACAT
1472108 ATTCACTCATGTA-TCAACAT
1 ATTCACTCATGTACT-AACAT
1472128 ATT
1 ATT
1472131 TGGATCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (20 bp):
ATTCACTCATGTACTAACAT
Found at i:1472195 original size:21 final size:21
Alignment explanation
Indices: 1472168--1472236 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
1472158 TGCCAAGCCT
1472168 TGTATCAATATATTGAGCAAA
1 TGTATCAATATATTGAGCAAA
* *
1472189 TTTATCAATATAATGAGCAAA
1 TGTATCAATATATTGAGCAAA
* ** *
1472210 GGTATTGATACATTGAGCAAA
1 TGTATCAATATATTGAGCAAA
1472231 TGTATC
1 TGTATC
1472237 GATACATTCA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (21 bp):
TGTATCAATATATTGAGCAAA
Found at i:1472240 original size:21 final size:21
Alignment explanation
Indices: 1472168--1472244 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
1472158 TGCCAAGCCT
*
1472168 TGTATCAATATATTGAGCAAA
1 TGTATCAATACATTGAGCAAA
* * *
1472189 TTTATCAATATAATGAGCAAA
1 TGTATCAATACATTGAGCAAA
* **
1472210 GGTATTGATACATTGAGCAAA
1 TGTATCAATACATTGAGCAAA
*
1472231 TGTATCGATACATT
1 TGTATCAATACATT
1472245 CACTTTGGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (21 bp):
TGTATCAATACATTGAGCAAA
Found at i:1472743 original size:15 final size:15
Alignment explanation
Indices: 1472723--1472751 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1472713 CCACATATTA
1472723 TCTTAACATATTTGT
1 TCTTAACATATTTGT
1472738 TCTTAACATATTTG
1 TCTTAACATATTTG
1472752 GTCCTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (15 bp):
TCTTAACATATTTGT
Found at i:1473911 original size:21 final size:20
Alignment explanation
Indices: 1473870--1473924 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
1473860 TATAAATAAA
1473870 TGTATCGATACATTTGCCATT
1 TGTATCGATACATTTGCCA-T
*
1473891 TGTATCGATACATTAT-TCAT
1 TGTATCGATACATT-TGCCAT
*
1473911 TGTATTGATACATT
1 TGTATCGATACATT
1473925 CTTGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 14 0.45
21 16 0.52
22 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTGCCAT
Found at i:1477390 original size:21 final size:23
Alignment explanation
Indices: 1477366--1477413 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1477356 ATTTCGGTCA
1477366 TTAT-TTGGTTA-TGATTCCCTT
1 TTATATTGGTTACTGATTCCCTT
* * *
1477387 TTATATTGTTTACTGATTTCTTT
1 TTATATTGGTTACTGATTCCCTT
1477410 TTAT
1 TTAT
1477414 GAGATGGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (23 bp):
TTATATTGGTTACTGATTCCCTT
Found at i:1478127 original size:27 final size:27
Alignment explanation
Indices: 1478087--1478261 Score: 190
Period size: 27 Copynumber: 6.5 Consensus size: 27
1478077 GCTTTGAAAG
*
1478087 GGGTGCCATGGAGTCATGGACTTAAAT
1 GGGTGCCATGGAGTCATGGACTTAAAA
**
1478114 GGGTGCCACAGAGTCATGGACTTAAAA
1 GGGTGCCATGGAGTCATGGACTTAAAA
** *
1478141 GGGTGCCATAAAGTCGTGGACTTAAAA
1 GGGTGCCATGGAGTCATGGACTTAAAA
* *
1478168 GGGTGCCATGGAGCCGT-GACCTTAAAA
1 GGGTGCCATGGAGTCATGGA-CTTAAAA
** *
1478195 GGGTGCCATGGAGTTGTGGGCTTAAAA
1 GGGTGCCATGGAGTCATGGACTTAAAA
* * *
1478222 GAGTGCCACGAAGTCATGGACTTAAAA
1 GGGTGCCATGGAGTCATGGACTTAAAA
* *
1478249 GGTTGCCACGGAG
1 GGGTGCCATGGAG
1478262 CTGTGGGCTT
Statistics
Matches: 125, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 122 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (27 bp):
GGGTGCCATGGAGTCATGGACTTAAAA
Found at i:1478192 original size:81 final size:81
Alignment explanation
Indices: 1478087--1478277 Score: 213
Period size: 81 Copynumber: 2.4 Consensus size: 81
1478077 GCTTTGAAAG
* * * *
1478087 GGGTGCCATGGAGTCATGGACTTAAATGGGTGCCACAGAGTCATGGACTTAAAAGGGTGCCATAA
1 GGGTGCCATGGAGCCATGGACTTAAAAGGGTGCCACAGAGTCATGGACTTAAAAGAGTGCCACAA
*
1478152 AGTCGTGGACTTAAAA
66 AGTCATGGACTTAAAA
* ** ** * *
1478168 GGGTGCCATGGAGCCGT-GACCTTAAAAGGGTGCCATGGAGTTGTGGGCTTAAAAGAGTGCCACG
1 GGGTGCCATGGAGCCATGGA-CTTAAAAGGGTGCCACAGAGTCATGGACTTAAAAGAGTGCCACA
1478232 AAGTCATGGACTTAAAA
65 AAGTCATGGACTTAAAA
* * ** *
1478249 GGTTGCCACGGAGCTGTGGGCTTAAAAGG
1 GGGTGCCATGGAGCCATGGACTTAAAAGG
1478278 TTGAAGAGTG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 2 0.02
81 89 0.97
82 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (81 bp):
GGGTGCCATGGAGCCATGGACTTAAAAGGGTGCCACAGAGTCATGGACTTAAAAGAGTGCCACAA
AGTCATGGACTTAAAA
Found at i:1479754 original size:9 final size:9
Alignment explanation
Indices: 1479740--1479777 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
1479730 TTGTTGCTTG
1479740 TTTGTTTTT
1 TTTGTTTTT
1479749 TTTGTTTTT
1 TTTGTTTTT
*
1479758 TAT-TTTTT
1 TTTGTTTTT
*
1479766 TCTGTTTTT
1 TTTGTTTTT
1479775 TTT
1 TTT
1479778 ATGGAGGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (9 bp):
TTTGTTTTT
Found at i:1492223 original size:20 final size:20
Alignment explanation
Indices: 1492198--1492248 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1492188 CTACCACTGT
*
1492198 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1492218 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
1492238 TTGTATCGATA
1 TTGTATCGATA
1492249 AATTGCTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1492962 original size:34 final size:35
Alignment explanation
Indices: 1492924--1492990 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1492914 CCTTACAACA
1492924 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1492958 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1492991 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1493490 original size:26 final size:22
Alignment explanation
Indices: 1493431--1493473 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1493421 TTAAATAGTG
*
1493431 TGAACAGTGATGTATCGATACA
1 TGAATAGTGATGTATCGATACA
1493453 TGAATAGTGATGTATCGATAC
1 TGAATAGTGATGTATCGATAC
1493474 TTTGATGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (22 bp):
TGAATAGTGATGTATCGATACA
Found at i:1493629 original size:13 final size:13
Alignment explanation
Indices: 1493611--1493635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1493601 TGCCAATGCT
1493611 ATGTATCGATACA
1 ATGTATCGATACA
1493624 ATGTATCGATAC
1 ATGTATCGATAC
1493636 TTAGCAAAAT
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):
ATGTATCGATACA
Found at i:1493756 original size:21 final size:21
Alignment explanation
Indices: 1493716--1493756 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1493706 GTCAACCTTG
*
1493716 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
1493737 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
1493757 TTTTACTTAG
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:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:1496501 original size:21 final size:21
Alignment explanation
Indices: 1496476--1496530 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1496466 CACTTGCAAC
*
1496476 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
1496497 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
1496518 TCACTTAATTTCT
1 TCATTTATTTTCT
1496531 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:1496531 original size:21 final size:21
Alignment explanation
Indices: 1496491--1496534 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1496481 TCTTTTCTCC
* *
1496491 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
1496512 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
1496533 TC
1 TC
1496535 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:1498129 original size:34 final size:35
Alignment explanation
Indices: 1498091--1498157 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
1498081 CCTTACAGCA
*
1498091 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAAGCTAAGATAG-AACCTCTCTCT
1498125 CTATCTTTTTCAAAAGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAAGCTAAGATAGAACCTCTC
1498158 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAAGCTAAGATAGAACCTCTCTCT
Found at i:1498657 original size:26 final size:22
Alignment explanation
Indices: 1498598--1498640 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1498588 TTAAATAGTG
*
1498598 TGAACAGTGATGTATCGATACA
1 TGAATAGTGATGTATCGATACA
1498620 TGAATAGTGATGTATCGATAC
1 TGAATAGTGATGTATCGATAC
1498641 TTTGATGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (22 bp):
TGAATAGTGATGTATCGATACA
Found at i:1498724 original size:22 final size:22
Alignment explanation
Indices: 1498698--1498753 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
1498688 TGTACAGTGC
*
1498698 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGCATCGATACA
1498720 TGAACAGTGATGCATCGATACA
1 TGAACAGTGATGCATCGATACA
*
1498742 TGAACAATGATG
1 TGAACAGTGATG
1498754 AATATTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (22 bp):
TGAACAGTGATGCATCGATACA
Found at i:1498818 original size:13 final size:13
Alignment explanation
Indices: 1498800--1498824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1498790 TGCCAATGCT
1498800 ATGTATCGATACA
1 ATGTATCGATACA
1498813 ATGTATCGATAC
1 ATGTATCGATAC
1498825 TTAGCAAAAT
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):
ATGTATCGATACA
Found at i:1498945 original size:21 final size:21
Alignment explanation
Indices: 1498905--1498945 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1498895 GTCAACCTTG
*
1498905 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
1498926 TGTATTGAT-CCAACACGTAT
1 TGTATTGATACCAACA-GTAT
1498946 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:1499383 original size:47 final size:47
Alignment explanation
Indices: 1499314--1499408 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
1499304 AGGACGTAGG
*
1499314 TACCGGTTTGGACTGAACCTCTATAAACTCTTGTGTCGATT-ATTTCT
1 TACCGGTTTGGACCGAACCTCTATAAACTCTTGTGTCG-TTCATTTCT
1499361 TACCGGTTTGGACCGAACCTCTATAAACTCTTGTGTCGTTCATTTCT
1 TACCGGTTTGGACCGAACCTCTATAAACTCTTGTGTCGTTCATTTCT
1499408 T
1 T
1499409 CTTTAACCCT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 2 0.04
47 44 0.96
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (47 bp):
TACCGGTTTGGACCGAACCTCTATAAACTCTTGTGTCGTTCATTTCT
Found at i:1506729 original size:13 final size:13
Alignment explanation
Indices: 1506708--1506766 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
1506698 ACATTATGCT
*
1506708 TTGTGTCGATACA
1 TTGTATCGATACA
1506721 TTGTATCGATACA
1 TTGTATCGATACA
1506734 TCTTCATTGTATCGATACA
1 ------TTGTATCGATACA
1506753 TTGTATCGATACA
1 TTGTATCGATACA
1506766 T
1 T
1506767 GGATAATTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 26 0.67
19 13 0.33
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1506777 original size:20 final size:21
Alignment explanation
Indices: 1506747--1506787 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
1506737 TCATTGTATC
1506747 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
1506768 GATA-ATTGTATCGATACATG
1 GATACATTGTATCGATACATG
1506788 AAACTGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:1506850 original size:13 final size:13
Alignment explanation
Indices: 1506832--1506861 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1506822 CGATACATGG
*
1506832 TACATTGTATCGA
1 TACATTATATCGA
1506845 TACATTATATCGA
1 TACATTATATCGA
1506858 TACA
1 TACA
1506862 ATATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:1510143 original size:68 final size:69
Alignment explanation
Indices: 1510020--1510147 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 69
1510010 ATTGGGTTTT
* * *
1510020 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATT
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATT
1510085 GAGA
66 GAGA
* * * *
1510089 AAAG-TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1510148 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
68 48 0.92
69 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (69 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATT
GAGA
Found at i:1510368 original size:49 final size:49
Alignment explanation
Indices: 1510164--1511304 Score: 1448
Period size: 49 Copynumber: 23.7 Consensus size: 49
1510154 GGATGTCAAC
* *
1510164 GTGCTGGTTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* * *
1510216 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AA-GTGTCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1510259 GTGCTGATTTAAGGCCAGCTACATTGGACTTAGAGGTG-AGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1510307 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
1510356 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
1510405 ATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
1510454 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
1510503 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1510552 GTGCTGAGTCAAGGCCAGCTACATTGTACTTAAAGGTGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1510604 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1510647 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1510699 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1510742 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1510790 GTACTGATTCAAGGCCAGCTACATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1510839 GTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
1510888 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
1510937 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1510989 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1511032 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1511084 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1511127 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
1511175 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1511224 GTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1511273 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
1511305 GAAGGGTTGC
Statistics
Matches: 952, Mismatches: 92, Indels: 93
0.84 0.08 0.08
Matches are distributed among these distances:
43 195 0.20
44 2 0.00
45 1 0.00
47 5 0.01
48 135 0.14
49 427 0.45
50 3 0.00
52 184 0.19
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:1510766 original size:483 final size:478
Alignment explanation
Indices: 1510164--1511304 Score: 1896
Period size: 483 Copynumber: 2.4 Consensus size: 478
1510154 GGATGTCAAC
* *
1510164 GTGCTGGTTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
* * * *
1510229 GCCAGCTATATTGGACTTAAAAGTGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAGAG
66 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
1510294 GTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
131 ATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
*
1510359 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
196 CTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
*
1510424 TATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
261 TATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
1510489 AT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
326 ATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-----AAGGTGCCAATG
* *
1510553 TGCTGAGTCAAGGCCAGCTACATTGTACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAGG
385 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1510618 CCAGCTATATTGGACTTAAAGGTGCCAAT
450 CCAGCTATATTGGACTTAAAGGTGCCAAT
1510647 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1510712 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
66 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
1510777 ATGAGGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAATGGTGAAGGTGCCAATGTG
131 ATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
1510842 CTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
196 CTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1510907 TATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
261 TATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
*
1510972 GTGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
326 AT-G-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
*
1511037 GATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
389 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
1511102 CTATATTGGACTTAAAGGTGCCAAT
454 CTATATTGGACTTAAAGGTGCCAAT
*
1511127 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGCCAATGTGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
* * *
1511188 GCCAGCTACATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTC
66 GCCAGCTATATTGGACTT-A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
1511253 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
125 TTAAAGAT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1511305 GAAGGGTTGC
Statistics
Matches: 623, Mismatches: 25, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
476 39 0.06
477 1 0.00
479 1 0.00
480 140 0.22
482 46 0.07
483 352 0.57
485 1 0.00
486 43 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (478 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
ATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
CTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
TATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
ATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
ATATTGGACTTAAAGGTGCCAAT
Found at i:1510901 original size:385 final size:385
Alignment explanation
Indices: 1510164--1511304 Score: 2004
Period size: 385 Copynumber: 3.0 Consensus size: 385
1510154 GGATGTCAAC
*
1510164 GTGCTG-GTTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
1 GTGCTGAG-TCAAGGCCAGCTACATTGAACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAA
* * *
1510228 GGCCAGCTATATTGGACTTAAAAGTGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTT--A
65 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
** * *
1510291 GA-GG-TGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
130 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCA
* * *
1510354 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
189 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGCCAATGTGCTGATTCAAGG
* *
1510419 CCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
253 CCAGCTACATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
1510484 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCC
318 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCC
1510549 AAT
383 AAT
*
1510552 GTGCTGAGTCAAGGCCAGCTACATTGTACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAG
1510617 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
66 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1510682 ATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
131 ATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
*
1510747 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTACTGATTCAAGGCCAGCTAC
196 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
*
1510812 ATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATA
261 ATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
1510877 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
326 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
*
1510937 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAG
1511002 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
66 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1511067 ATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
131 ATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
1511132 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
196 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
*
1511197 ATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATA
261 ATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
*
1511262 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
326 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1511305 GAAGGGTTGC
Statistics
Matches: 727, Mismatches: 21, Indels: 13
0.96 0.03 0.02
Matches are distributed among these distances:
385 515 0.71
386 47 0.06
388 120 0.17
389 1 0.00
390 3 0.00
391 2 0.00
392 39 0.05
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (385 bp):
GTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
ATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
GATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
ATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
Found at i:1511345 original size:32 final size:32
Alignment explanation
Indices: 1511297--1511428 Score: 202
Period size: 32 Copynumber: 4.2 Consensus size: 32
1511287 CCAGCTATAT
1511297 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1511327 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
1511359 TGGGCTTT-GAG-GGAGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGG-GTTGCCACCGACTTGTG
1511390 TGGGCTTTAG-GAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
1511422 TGGGCTT
1 TGGGCTT
1511429 AAAGGGAAAA
Statistics
Matches: 94, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
30 7 0.07
31 33 0.35
32 52 0.55
33 2 0.02
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:1511395 original size:63 final size:62
Alignment explanation
Indices: 1511297--1511434 Score: 217
Period size: 63 Copynumber: 2.2 Consensus size: 62
1511287 CCAGCTATAT
*
1511297 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTA-GAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGA-AGGGTTGCCACCGACTTGTG
* *
1511359 TGGGCTTTGAGGGAGTTGCCACCAACTTGTGTGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGG-GTTGCCACCAACTTGTGTGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
1511422 TGGGCTTA-AAGGG
1 TGGGCTTAGAAGGG
1511435 AAAAAGAGTG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
61 1 0.01
62 14 0.20
63 52 0.75
64 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.28
Consensus pattern (62 bp):
TGGGCTTAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
Found at i:1511480 original size:34 final size:34
Alignment explanation
Indices: 1511420--1512356 Score: 766
Period size: 34 Copynumber: 29.2 Consensus size: 34
1511410 CACCGACTTG
** *
1511420 TGTGGGC-TTAAAGGGAAAAAGAGTGCCACTGAGT
1 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1511454 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* *
1511488 TGTGGGCTTTGAAAAGAAAAAGGTTGCCACGGAAT
1 TGTGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGT
* *
1511523 TGTGGGCTTT-AACAG-----GGTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * *
1511551 TGTGGAC-TTAAAAGGAACAAGGTGCCACGAAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * *
1511584 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGT
* * *
1511619 TCTGGGGTTTAAAAGGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAA-GGTGCCACGGAGT
* * *
1511654 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1511688 TGTGGGCTTTAAAAAG----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * *
1511717 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGAAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1511751 TGTGGGCTTTAAAAAG----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * * * *
1511780 TGTGGGCTTTGAGATGAAAAAAGTGCCACAGAAT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
*
1511814 TGTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAA-GGTGCCACGGAGT
* * *
1511849 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1511883 TGTGGGCTTTAAAAAG----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* *
1511912 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1511946 TGTGGGCTTTAAAAAG----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * * * *
1511975 TGTGGGCTTTGAGATGAAAAAAGTGCCACAGAAT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1512009 TGTGGGCTTT-AAAAG-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * *
1512037 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAAT
1 TGTGGGCTTTAAA-AAGAAAAAGGTGCCACGGAGT
*
1512071 TGTGGGCTTT-AAAAG-----GGTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * *
1512099 TGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1512133 TGTGGGCTTTAAAAAG----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * * * *
1512162 TGTGGGCTTTGAGATGAAAAAAGTGCCACAGAAT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1512196 TGTGGGCTTT-AAAAG-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * *
1512224 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAAT
1 TGTGGGCTTTAAA-AAGAAAAAGGTGCCACGGAGT
1512258 TGTGGGCTTT-AAAAG-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* *
1512286 TGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1512320 TGTGGGCTTTAAAAAG----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1512349 TGTGGGCT
1 TGTGGGCT
1512357 ATGAGACAAA
Statistics
Matches: 742, Mismatches: 91, Indels: 145
0.76 0.09 0.15
Matches are distributed among these distances:
27 6 0.01
28 93 0.13
29 162 0.22
30 4 0.01
31 2 0.00
33 41 0.06
34 323 0.44
35 104 0.14
36 7 0.01
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (34 bp):
TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
Found at i:1511743 original size:63 final size:63
Alignment explanation
Indices: 1511435--1512356 Score: 939
Period size: 63 Copynumber: 14.4 Consensus size: 63
1511425 GCTTAAAGGG
* * *
1511435 AAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * * *
1511498 GAAAAGAAAAAGGTTGCCACGGAATTGTGGGCTTT-AACAG-----GGTGCCACAGAGTTGTGGA
1 ---AA-AAAGA-G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGG
*
1511557 CTTA
60 CTTT
* * * *
1511561 AAAGGAACAAGGTGCCACGAAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCAC-GAAGTTCTG
1 AAA--AA-GA-GTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAAG-GTGCCACAG-AGTTGTG
*
1511623 GGGTTT
58 GGCTTT
* * *
1511629 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTAG-AAGGAAAAAGAGTGCCACAGAGTTGTGG
1 ------AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCACAGAGTTGTGG
1511693 GCTTT
59 GCTTT
*
1511698 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCAC-GAAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAG-AGTTGTGGGCTTT
* * * *
1511761 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * *
1511824 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTAG-AAGGAAAAAGAGTGCCACAGAGTTGTGG
1 ------AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCACAGAGTTGTGG
1511888 GCTTT
59 GCTTT
* *
1511893 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * * *
1511956 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * * * *
1512019 -AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * * * *
1512081 -AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * * *
1512143 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * * * *
1512206 -AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * *
1512268 -AAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
1512330 AAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAAAGAGTGCCACGGAGTTGTGGGCT
1512357 ATGAGACAAA
Statistics
Matches: 735, Mismatches: 76, Indels: 93
0.81 0.08 0.10
Matches are distributed among these distances:
59 1 0.00
60 11 0.01
61 21 0.03
62 210 0.29
63 313 0.43
64 23 0.03
66 2 0.00
67 6 0.01
68 28 0.04
69 94 0.13
70 18 0.02
71 3 0.00
72 2 0.00
74 3 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.22
Consensus pattern (63 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
Found at i:1512170 original size:187 final size:188
Alignment explanation
Indices: 1511636--1512362 Score: 1187
Period size: 187 Copynumber: 3.8 Consensus size: 188
1511626 TTTAAAAGGA
* *
1511636 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAATTGTGGGCTTTAAA
* *
1511701 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGAAGTTGTGGGCTTTAAAAA
66 AAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
1511766 GAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
131 GAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
* *
1511824 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGG
1 -------AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAATTGTGGG
*
1511889 CTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
59 CTTTAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1511954 TTAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
124 TTAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
*
1512019 AAAAGGGTGCCACGGAGTTGTGGACTTA-AAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTT-
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAG--GAAAAAGAGTGCCACAGAATTGTGGGCTTTA
* *
1512081 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
64 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1512146 AAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
129 AAGAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
*
1512206 AAAAGGGTGCCACGGAGTTGTGGACTTA-AAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTT-
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAG--GAAAAAGAGTGCCACAGAATTGTGGGCTTTA
* *
1512268 AAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
64 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
*
1512333 AAGAGTGCCACGGAGTTGTGGGCTATGAGA
129 AAGAGTGCCACGGAGTTGTGGGCTTTGAGA
1512363 CAAAATGCCA
Statistics
Matches: 520, Mismatches: 10, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
187 279 0.54
188 48 0.09
189 6 0.01
195 187 0.36
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (188 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAATTGTGGGCTTTAAA
AAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
GAGTGCCACGGAGTTGTGGGCTTTGAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
Found at i:1512437 original size:31 final size:31
Alignment explanation
Indices: 1512275--1512513 Score: 211
Period size: 31 Copynumber: 7.7 Consensus size: 31
1512265 TTTAAAAGGG
* * * *
1512275 TGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAG-AGAA
* * * * *
1512307 GGTGCCACGGAGTTGTGGGCTTT-A-AAAAGAG
1 --TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
* * * *
1512338 TGCCACGGAGTTGTGGGCTATGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAA
1512368 TGCCACTGAGTCGTGGACTTT-A-AAGAGAAGGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAG-A--A
*
1512400 TGCCACTGCGTCGTGGACTTTGAGAAGAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
* *
1512431 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
*
1512462 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
*
1512493 TGCCACTTAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1512514 AAAAAGGTTT
Statistics
Matches: 179, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 21 0.12
30 20 0.11
31 83 0.46
32 24 0.13
33 3 0.02
34 25 0.14
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
Done.