Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 12 of 23
Found at i:1672032 original size:156 final size:150
Alignment explanation
Indices: 1671749--1672116 Score: 479
Period size: 156 Copynumber: 2.4 Consensus size: 150
1671739 GCTTTGAAAG
* * *
1671749 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
* *
1671814 CCTGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTT
60 CCTGCTCTTTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTT
1671879 TGAGGACTAAAAGGCAAAAGGAGAGA
125 TGAGGACTAAAAGGCAAAAGGAGAGA
* * *
1671905 GTGTCTTTCTCTTTGAGGACTAGGAAGTGGCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* *
1671970 CTTTGAGGAC-AAAAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAAAACATCTTACTCT
66 CTTTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGC-TTTAAAAGG------CATCCTACTCT
* **
1672034 TTGAGGACTAAAGGGTGAAAGGAGAGA
124 TTGAGGACTAAAAGGCAAAAGGAGAGA
1672061 GCGTCTTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 GCGTCTTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG
1672117 AAAAGACGTC
Statistics
Matches: 188, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
149 25 0.13
150 33 0.18
155 3 0.02
156 127 0.68
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (150 bp):
GCGTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGA
CTAAAAGGCAAAAGGAGAGA
Found at i:1672056 original size:39 final size:40
Alignment explanation
Indices: 1672012--1672087 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
1672002 TGGGCTTTTA
1672012 AAAGGAAAAAACATCTTACTCTTTGAGGACTA-AAGGGTG
1 AAAGGAAAAAACATCTTACTCTTTGAGGACTAGAAGGGTG
* * * * *
1672051 AAAGGAGAGAGCGTCTTGCTCTTTGAGGACTAGAAGG
1 AAAGGAAAAAACATCTTACTCTTTGAGGACTAGAAGG
1672088 TGCCACCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 27 0.87
40 4 0.13
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (40 bp):
AAAGGAAAAAACATCTTACTCTTTGAGGACTAGAAGGGTG
Found at i:1692990 original size:32 final size:33
Alignment explanation
Indices: 1692931--1692994 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1692921 TACAAGCCAA
*
1692931 TGTATCGATACAATTTTTTGTGCATCGATACAT
1 TGTATCGATACAATATTTTGTGCATCGATACAT
*
1692964 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGCATCGATACA
1692995 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGCATCGATACAT
Found at i:1693099 original size:20 final size:20
Alignment explanation
Indices: 1693046--1693101 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1693036 ACATATTTTT
*
1693046 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
1693066 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
1693085 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
1693102 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:1696922 original size:163 final size:165
Alignment explanation
Indices: 1696384--1697144 Score: 746
Period size: 163 Copynumber: 4.6 Consensus size: 165
1696374 TTCAAACATC
* * *
1696384 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATAAATTTTCAAAAATTAATTCATTTTCA
* * * * ** * * *
1696449 TGAGTTTTTGATTTTTTTCCTTAAAATTTCCCTTTTCCAACAAATA-ATGTTTTTTACTCCGTAA
66 TAAGTTTTTGAATTTTTTCCTTGAAATTTCCTTTTTTGAA-ATATAGATGTTTTCTACTTCGTAA
*
1696513 A-TTTTTTCGAGAGGATTTTTCTGAGTTTTCAATTTTT
130 ATTTTTTTAG-GAGGATTTTTCTG-GTTTTCAATTTTT
* * * * * ** *
1696550 ATAATTCATCAAACATCATTATTTATTTCATTTTAAAT-TATTTTCCCAAATTAATTTATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATAAATTTTCAAAAATTAATTCATTTTCA
* * *
1696614 TTAGTTTTT-AATTTTTTCCTTAAAATTTTCCTTTTTTGAAATA-CGATGTTTTCTACTGT-GTA
66 TAAGTTTTTGAATTTTTTCCTTGAAA-TTTCCTTTTTTGAAATATAGATGTTTTCTACT-TCGTA
*
1696676 AATTTTTTTAGGA-GATTTTTCTTGTTTTCAA-TTTT
129 AATTTTTTTAGGAGGATTTTTCTGGTTTTCAATTTTT
* * * * * *
1696711 AAAATTCATCAAACATCATTATTTATTTTATATTAAATAATTTTTCAAAAATTCATTCATTTTTA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATAAATTTTCAAAAATTAATTCATTTTCA
* * *
1696776 TAAATTTTTGAAATTTTTCCTTGAAATTTCCTTTTTTGAAATATAG-TGTTTTCTACTTTGTAAA
66 TAAGTTTTTGAATTTTTTCCTTGAAATTTCCTTTTTTGAAATATAGATGTTTTCTACTTCGTAAA
*
1696840 -TTTTTT-GCGAGGATTTTTCTCGGTTTTTAA-TTTT
131 TTTTTTTAG-GAGGATTTTTCT-GGTTTTCAATTTTT
* * ** * * * ** *
1696874 AAAATTTATAAAATATTATTATTTAACTCACATTAAATCAGTTTTCAAAAATTTGTTCATCTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATAAATTTTCAAAAATTAATTCATTTTCA
* * * *
1696939 TGAGTCTTTGAATTTTTT-CTTGAAATTTTCCTGTTTTT-AAA-ATACGAAGTTTTCTACTTCAT
66 TAAGTTTTTGAATTTTTTCCTTGAAA-TTTCCT-TTTTTGAAATATA-GATGTTTTCTACTTCGT
** *
1697001 AAATTTTTTTAGGAGGATTTTTCTCAATTTTTAATTTTT
128 AAATTTTTTTAGGAGGATTTTTCT-GGTTTTCAATTTTT
* * * * * *
1697040 AAAATTCATAAAATATTTTTATTTAATTCACATTAAA-AAATTTTGAAAAATTAATTTATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATAAATTTTCAAAAATTAATTCATTTTCA
* * *
1697104 TAAGTTTTAG-ATTTTTTCTTTGAAATTCCCTTTTCTTGAAA
66 TAAGTTTTTGAATTTTTTCCTTGAAATTTCCTTTT-TTGAAA
1697145 AACTGAATTT
Statistics
Matches: 498, Mismatches: 76, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
160 1 0.00
161 48 0.10
162 86 0.17
163 113 0.23
164 69 0.14
165 110 0.22
166 71 0.14
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.52
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTATTTCATATTAAATAAATTTTCAAAAATTAATTCATTTTCA
TAAGTTTTTGAATTTTTTCCTTGAAATTTCCTTTTTTGAAATATAGATGTTTTCTACTTCGTAAA
TTTTTTTAGGAGGATTTTTCTGGTTTTCAATTTTT
Found at i:1697203 original size:164 final size:166
Alignment explanation
Indices: 1696384--1697208 Score: 473
Period size: 164 Copynumber: 5.0 Consensus size: 166
1696374 TTCAAACATC
* * ** * * * *
1696384 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTAACTCACATTAAATAAATTTTCAAAAATTAATTCATCTTCA
* * * * ** * * * *
1696449 TGAGTTTTTGATTTTTTTCCTTAAAATTTCCCT-TTTCCAACAAATA--ATGTTTTTTACTCCGT
66 TAAGTCTTTGAATTTTTT-CTTGAAATTTCCCTGTTT-TTA-AAATACGAAGTTTTCTACTTCAT
* * * * **
1696511 AAAT-TTTTTCGAGAGGATTTTTCTGAGTTTTCAATTTTT
128 AAATATTTCTAG-GAGGATTTTTCTCAATTTAAAATTTTT
* * * * ** ** * ** * *
1696550 ATAATTCATCAAACATCATTATTTATTTCATTTTAAAT-TATTTTCCCAAATTAATTTATTTTCA
1 AAAATTCATAAAATATTATTATTTAACTCACATTAAATAAATTTTCAAAAATTAATTCATCTTCA
* * * * * * *
1696614 TTAGT-TTTTAATTTTTTCCTTAAAATTTTCCT-TTTTTGAAATACGATGTTTTCTACTGT-GTA
66 TAAGTCTTTGAATTTTTT-CTTGAAATTTCCCTGTTTTTAAAATACGAAGTTTTCTACT-TCATA
* * ** **
1696676 AATTTTTTTAGGA-GATTTTTCT-TGTTTTCAA-TTTT
129 AATATTTCTAGGAGGATTTTTCTCAATTTAAAATTTTT
* * * ** * * * * * *
1696711 AAAATTCATCAAACATCATTATTTATTTTATATTAAATAATTTTTCAAAAATTCATTCATTTTTA
1 AAAATTCATAAAATATTATTATTTAACTCACATTAAATAAATTTTCAAAAATTAATTCATCTTCA
* * * * **
1696776 TAAATTTTTGAAATTTTTCCTTGAAATTT-CCT-TTTTTGAAATATA-G-TGTTTTCTACTTTGT
66 TAAGTCTTTG-AATTTTTTCTTGAAATTTCCCTGTTTTT-AAA-ATACGAAGTTTTCTACTTCAT
* ** **
1696837 AAAT-TTT-TTGCGAGGATTTTTCTCGGTTTTTAA-TTTT
128 AAATATTTCTAG-GAGGATTTTTCTCAATTTAAAATTTTT
* * * **
1696874 AAAATTTATAAAATATTATTATTTAACTCACATTAAATCAGTTTTCAAAAATTTGTTCATCTTCA
1 AAAATTCATAAAATATTATTATTTAACTCACATTAAATAAATTTTCAAAAATTAATTCATCTTCA
* *
1696939 TGAGTCTTTGAATTTTTTCTTGAAATTTTCCTGTTTTTAAAATACGAAGTTTTCTACTTCATAAA
66 TAAGTCTTTGAATTTTTTCTTGAAATTTCCCTGTTTTTAAAATACGAAGTTTTCTACTTCATAAA
* * **
1697004 TTTTTTTAGGAGGATTTTTCTCAATTTTTAATTTTT
131 TATTTCTAGGAGGATTTTTCTCAATTTAAAATTTTT
* * * * *
1697040 AAAATTCATAAAATATTTTTATTTAATTCACATTAAA-AAATTTTGAAAAATTAATTTATTTTCA
1 AAAATTCATAAAATATTATTATTTAACTCACATTAAATAAATTTTCAAAAATTAATTCATCTTCA
1697104 TAAGT-TTT-AGATTTTTTCTTTGAAA-TTCCCT-TTTCTTGAAAA-ACTGAA-TTTTCTA-TTC
66 TAAGTCTTTGA-ATTTTTTC-TTGAAATTTCCCTGTTT-TT-AAAATAC-GAAGTTTTCTACTT-
***
1697162 CATAAATATTTCT-GGAGGGA-TTTTCTTTGGTTTAAAATTTTT
125 CATAAATATTTCTAGGA-GGATTTTTC-TCAATTTAAAATTTTT
1697204 AAAAT
1 AAAAT
1697209 GTACCTAATA
Statistics
Matches: 548, Mismatches: 83, Indels: 58
0.80 0.12 0.08
Matches are distributed among these distances:
160 2 0.00
161 45 0.08
162 89 0.16
163 114 0.21
164 134 0.24
165 92 0.17
166 72 0.13
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (166 bp):
AAAATTCATAAAATATTATTATTTAACTCACATTAAATAAATTTTCAAAAATTAATTCATCTTCA
TAAGTCTTTGAATTTTTTCTTGAAATTTCCCTGTTTTTAAAATACGAAGTTTTCTACTTCATAAA
TATTTCTAGGAGGATTTTTCTCAATTTAAAATTTTT
Found at i:1701544 original size:20 final size:19
Alignment explanation
Indices: 1701519--1701562 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1701509 GCTGAAATAA
1701519 AAAAAAAGAGAAAAGAAAAG
1 AAAAAAAGAGAAAA-AAAAG
* *
1701539 AAAAAAAGTGAAAAAATAG
1 AAAAAAAGAGAAAAAAAAG
1701558 AAAAA
1 AAAAA
1701563 GTGAAGCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAAAGAGAAAAAAAAG
Found at i:1701554 original size:17 final size:17
Alignment explanation
Indices: 1701534--1701567 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1701524 AAGAGAAAAG
1701534 AAAAGAAAAAAAGTGAA
1 AAAAGAAAAAAAGTGAA
* *
1701551 AAAATAGAAAAAGTGAA
1 AAAAGAAAAAAAGTGAA
1701568 GCTCTAGGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
AAAAGAAAAAAAGTGAA
Found at i:1704151 original size:14 final size:14
Alignment explanation
Indices: 1704119--1704150 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
1704109 TTTTCCCTCA
1704119 TTTTTTCTCACTTT
1 TTTTTTCTCACTTT
1704133 TTTTTTCT--CTTT
1 TTTTTTCTCACTTT
1704145 TTTTTT
1 TTTTTT
1704151 TGCCTTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
14 8 0.44
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTCACTTT
Found at i:1704679 original size:20 final size:20
Alignment explanation
Indices: 1704647--1704699 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1704637 TCAATATATA
*
1704647 CAAAAA-AATTTAAAAATT-
1 CAAAAATAAATTAAAAATTC
**
1704665 CATAAAATAAATTAAATTTTC
1 CA-AAAATAAATTAAAAATTC
1704686 CAAAAATAAATTAA
1 CAAAAATAAATTAA
1704700 TGGGAGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 21 0.72
21 2 0.07
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAAAATAAATTAAAAATTC
Found at i:1705225 original size:163 final size:163
Alignment explanation
Indices: 1704791--1705552 Score: 743
Period size: 163 Copynumber: 4.7 Consensus size: 163
1704781 AAATTCAGTT
* * * * * *
1704791 TTTCAAGAAAAGGGAATTTCAAAGAAAAAA-TCTAAAACTTATGAAAATAAATTAATTTTT-CAA
1 TTTCAA-AAAAGGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAA
* * * * * *
1704854 AATTTTTTAATGTGAATTAAATAAAAATATTTTATGAATTTTAAAAATTAAAAATTGAGAAAAAT
65 AATTATTTAATATGAAATAAATAATAATATTTGATGAATTTT-AAAATTAAAAACTGAGAAAAAT
** *
1704919 CCTCCTAAAAAAATTTATGAAGTAGAAAAC-TTCGTA
129 CCTCC-AAAAAAATTTACAAAGTAGAAAACACT-GTA
* * * **
1704955 TTTTAAAAACAGGAAAATTTCAA-GAAAAAATTCAAAGACTCATGAAGATGAACAAATTTTTGAA
1 TTTCAAAAA-AGG-AAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAA
* * * ** * *
1705019 AACTGATTTAATGTGAGTTAAATAATAATATTTTATAAATTTTAAAATTAAAAACTGAGAAAAAT
64 AAATTATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAATTAAAAACTGAGAAAAAT
1705084 CCTCGC-AAAAAATTTACAAAGTAGAAAACACTGTA
129 CCTC-CAAAAAAATTTACAAAGTAGAAAACACTGTA
* * * * *
1705119 TTTCAAAAAAGGAAATTTCAAGGAAAAATTTCAAAAATTTATAAAAATGAATGAATTTTTGAAAA
1 TTTCAAAAAAGGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAA
* * * * *
1705184 ATTATTTAATATAAAATAAATAATGATGTTTGATGAATTTTAAAATTGAAAAC-AAGAAAAAT-C
66 ATTATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAATTAAAAACTGAGAAAAATCC
* *
1705247 TCCTAAAAAAATTTACACAGTAGAAAACACCGTA
131 TCC-AAAAAAATTTACAAAGTAGAAAACACTGTA
* * * * *
1705281 TTTCAAAAAAAGGAAAATTTTAAGGAAAAAATT-AAAAACTAATGAAAATAAATTAA-TTTGGGA
1 TTTC-AAAAAAGG-AAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAA
* * * * * * *
1705344 AAATAATTTAAAATGAAATAAATAATGATGTTTGATGAATTATAAAAATTGAAAACTCAGAAAAA
64 AAATTATTTAATATGAAATAAATAATAATATTTGATGAATT-TTAAAATTAAAAACTGAGAAAAA
* ** * * * *
1705409 TCCTCTCGAAAAAATTTACGGAGTAAAAAACATTATT
128 TCCTC-CAAAAAAATTTACAAAGTAGAAAACACTGTA
** * * *
1705446 TGTTGGAAAAGGGAAATTTTAAGGAAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG-AA
1 T-TTCAAAAAAGGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAA
* *
1705510 AATTGAATTAATATGAAATAAATGATAATATTTGATGAATTTT
65 AATT-ATTTAATATGAAATAAATAATAATATTTGATGAATTTT
1705553 GATGTTTGAA
Statistics
Matches: 500, Mismatches: 79, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
160 1 0.00
161 3 0.01
162 91 0.18
163 122 0.24
164 90 0.18
165 116 0.23
166 77 0.15
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (163 bp):
TTTCAAAAAAGGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAA
ATTATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAATTAAAAACTGAGAAAAATCC
TCCAAAAAAATTTACAAAGTAGAAAACACTGTA
Found at i:1705588 original size:328 final size:326
Alignment explanation
Indices: 1704791--1705552 Score: 798
Period size: 328 Copynumber: 2.3 Consensus size: 326
1704781 AAATTCAGTT
* * * * * * * *
1704791 TTTCAAGAAAAGGGAATTTCAAAG-AAAAAATCTAAAACTTATGAAAATAAATTAATTTTT-CAA
1 TTTCAA-AAAAGGAAATTTCAAGGAAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAA
** * * * * * * **
1704854 AATTTTTTAATGTGAATTAAATAAAAATATTTTATGAATTTTAAAAATTAAAAATTGAGAAAAAT
65 AATTAATTAATATAAAATAAATAATAATATTTGATGAATTTT-AAAATTGAAAA-CAAGAAAAAT
* ** * *
1704919 CCTCCTAAAAAAATTTATGA-AGTAGAAAACTTCGTATTTTAAAAACAGGAAAATTTCAAGAAAA
128 -CTCCTAAAAAAATTTA-CACAGTAGAAAACACCGTATTTCAAAAAAAGGAAAATTTCAAGAAAA
* * * * ** * ** **
1704983 AATTCAAAGACTCATGAAGATGAACAAATTTTTGAAAACTGATTTAATGTGAGTTAAATAATAAT
191 AATTCAAAAACTAATGAAAATAAACAAATTTGGGAAAACTAATTTAAAATGAAATAAATAATAAT
* * * *
1705048 ATTTTATAAATTTTAAAATTAAAAACTGAGAAAAATCCTCGCAAAAAATTTACAAAGTAGAAAAC
256 ATTTGATAAATTTAAAAATTAAAAACTCAGAAAAATCCTCGCAAAAAATTTACAAAGTAAAAAAC
*
1705113 ACTGTA
321 ACTATA
** * *
1705119 TTTCAAAAAAGGAAATTTCAAGGAAAAATTTCAAAAATTTATAAAAATGAATGAATTTTTGAAAA
1 TTTCAAAAAAGGAAATTTCAAGGAAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAA
* * *
1705184 ATTATTTAATATAAAATAAATAATGATGTTTGATGAATTTTAAAATTGAAAACAAGAAAAATCTC
66 ATTAATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAATTGAAAACAAGAAAAATCTC
*
1705249 CTAAAAAAATTTACACAGTAGAAAACACCGTATTTCAAAAAAAGGAAAATTTTAAGGAAAAAATT
131 CTAAAAAAATTTACACAGTAGAAAACACCGTATTTCAAAAAAAGGAAAATTTCAA-GAAAAAATT
** * *
1705314 -AAAAACTAATGAAAATAAATTAATTTGGGAAAA-TAATTTAAAATGAAATAAATAATGATGTTT
195 CAAAAACTAATGAAAATAAACAAATTTGGGAAAACTAATTTAAAATGAAATAAATAATAATATTT
* * * ** *
1705377 GATGAATTATAAAAATTGAAAACTCAGAAAAATCCTCTCGAAAAAATTTACGGAGTAAAAAACAT
260 GATAAATT-TAAAAATTAAAAACTCAGAAAAATCCTCGC-AAAAAATTTACAAAGTAAAAAACAC
*
1705442 TATT
323 TATA
** * * * *
1705446 TGTTGGAAAAGGGAAATTTTAAGGAAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG-AA
1 T-TTCAAAAAAGGAAATTTCAAGGAAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAA
* *
1705510 AATTGAATTAATATGAAATAAATGATAATATTTGATGAATTTT
65 AATT-AATTAATATAAAATAAATAATAATATTTGATGAATTTT
1705553 GATGTTTGAA
Statistics
Matches: 357, Mismatches: 69, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
325 30 0.08
326 101 0.28
327 62 0.17
328 128 0.36
329 36 0.10
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (326 bp):
TTTCAAAAAAGGAAATTTCAAGGAAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAA
ATTAATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAATTGAAAACAAGAAAAATCTC
CTAAAAAAATTTACACAGTAGAAAACACCGTATTTCAAAAAAAGGAAAATTTCAAGAAAAAATTC
AAAAACTAATGAAAATAAACAAATTTGGGAAAACTAATTTAAAATGAAATAAATAATAATATTTG
ATAAATTTAAAAATTAAAAACTCAGAAAAATCCTCGCAAAAAATTTACAAAGTAAAAAACACTAT
A
Found at i:1708891 original size:20 final size:19
Alignment explanation
Indices: 1708837--1708892 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1708827 AAAACCCTTA
*
1708837 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
1708857 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1708877 AATGTATCGATACATG
1 AAAGTATCGATACATG
1708893 AAAAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1708990 original size:32 final size:33
Alignment explanation
Indices: 1708944--1709007 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1708934 TAGCCAAACT
*
1708944 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
1708976 TGTATCGATGCACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1709008 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1714228 original size:13 final size:13
Alignment explanation
Indices: 1714210--1714247 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1714200 CATTTTTCTT
1714210 TGTATCGATACAA
1 TGTATCGATACAA
*
1714223 TGTATCGATACAC
1 TGTATCGATACAA
1714236 TGTATCGATACA
1 TGTATCGATACA
1714248 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1715887 original size:23 final size:21
Alignment explanation
Indices: 1715845--1715888 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
1715835 GTTTAATGTT
**
1715845 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
1715866 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
1715889 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:1716724 original size:20 final size:19
Alignment explanation
Indices: 1716670--1716725 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1716660 AAAACCCTTA
*
1716670 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
1716690 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1716710 AATGTATCGATACATG
1 AAAGTATCGATACATG
1716726 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1716836 original size:33 final size:32
Alignment explanation
Indices: 1716778--1716840 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
1716768 AGCCAAACTT
*
1716778 GTATCGATACATAAAATATGTATCGATACAAC
1 GTATCGATACAAAAAATATGTATCGATACAAC
1716810 GTATCGATGCACAAAAAAT-TGTATCGATACA
1 GTATCGAT--ACAAAAAATATGTATCGATACA
1716841 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 8 0.29
33 12 0.43
34 8 0.29
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (32 bp):
GTATCGATACAAAAAATATGTATCGATACAAC
Found at i:1723101 original size:6 final size:7
Alignment explanation
Indices: 1723082--1723106 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1723072 AGAATAGAGT
1723082 ATAAAAA
1 ATAAAAA
1723089 ATAAAAA
1 ATAAAAA
1723096 ATAAAAA
1 ATAAAAA
1723103 ATAA
1 ATAA
1723107 TCCAGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:1727815 original size:28 final size:29
Alignment explanation
Indices: 1727753--1727815 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
1727743 TTCTTCTTTA
* *
1727753 TTGATTTTTTTTCCTTTGAAATTTCTTGC
1 TTGATTTTGTTTCCTTTCAAATTTCTTGC
*
1727782 TT-ATTTTGTTTCCTTTCATATTTCTTG-
1 TTGATTTTGTTTCCTTTCAAATTTCTTGC
1727809 TTGATTT
1 TTGATTT
1727816 CACTTCCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 2 0.07
28 26 0.87
29 2 0.07
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (29 bp):
TTGATTTTGTTTCCTTTCAAATTTCTTGC
Found at i:1730682 original size:13 final size:13
Alignment explanation
Indices: 1730664--1730689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1730654 CAATTTTTGG
1730664 TGTATCGATACAT
1 TGTATCGATACAT
1730677 TGTATCGATACAT
1 TGTATCGATACAT
1730690 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1730701 original size:32 final size:33
Alignment explanation
Indices: 1730644--1730707 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1730634 TACAAGCCAA
**
1730644 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1730677 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1730708 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1730714 original size:19 final size:18
Alignment explanation
Indices: 1730644--1730714 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
1730634 TACAAGCCAA
1730644 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
1730664 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1730677 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1730696 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1730715 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1733251 original size:13 final size:13
Alignment explanation
Indices: 1733233--1733257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1733223 ATAATCACCC
1733233 TGTATCGATACAA
1 TGTATCGATACAA
1733246 TGTATCGATACA
1 TGTATCGATACA
1733258 TTGAATTTCC
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:1735313 original size:12 final size:11
Alignment explanation
Indices: 1735294--1735365 Score: 71
Period size: 12 Copynumber: 6.5 Consensus size: 11
1735284 AGAGAAAGAA
1735294 GAGATAGGAGG
1 GAGATAGGAGG
1735305 GATGATAGGAGG
1 GA-GATAGGAGG
1735317 AGAGATAGGA--
1 -GAGATAGGAGG
*
1735327 GAGATAGTA--
1 GAGATAGGAGG
1735336 GAGATAGGAGG
1 GAGATAGGAGG
1735347 GATGATAGGAGG
1 GA-GATAGGAGG
1735359 AGAGATA
1 -GAGATA
1735366 AGAGAGATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
9 16 0.30
11 4 0.08
12 29 0.55
13 4 0.08
ACGTcount: A:0.40, C:0.00, G:0.46, T:0.14
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1735328 original size:9 final size:9
Alignment explanation
Indices: 1735314--1735386 Score: 62
Period size: 9 Copynumber: 8.4 Consensus size: 9
1735304 GGATGATAGG
1735314 AGGAGAGAT
1 AGGAGAGAT
1735323 AGGAGAGAT
1 AGGAGAGAT
*
1735332 AGTAGAGAT
1 AGGAGAGAT
*
1735341 AGGAGGGAT
1 AGGAGAGAT
* *
1735350 --GATAG-G
1 AGGAGAGAT
1735356 AGGAGAGAT
1 AGGAGAGAT
*
1735365 AAGAGAGAT
1 AGGAGAGAT
* *
1735374 AAGAGAGAG
1 AGGAGAGAT
1735383 AGGA
1 AGGA
1735387 AGGATGATAG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 43 0.86
ACGTcount: A:0.45, C:0.00, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1735343 original size:42 final size:41
Alignment explanation
Indices: 1735284--1735402 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 41
1735274 TAGCCCTCAA
* *
1735284 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAG-AGAGATAGGAGGGATGATAGGAGGAGAGATAAG
1735326 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAAG
1 AGAGATAG-AGAGATAGGAGGGATGATAGGAGGAGAGATAAG
* *
1735368 AGAGATAAGAGAGAGAGGAAGGATGATAGGAGGAG
1 AGAGAT-AGAGAGATAGGAGGGATGATAGGAGGAG
1735403 GAAAAAAAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 69 0.97
43 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.11
Consensus pattern (41 bp):
AGAGATAGAGAGATAGGAGGGATGATAGGAGGAGAGATAAG
Found at i:1740512 original size:73 final size:74
Alignment explanation
Indices: 1740433--1740576 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 74
1740423 TAGTATCTTT
*
1740433 TAATAAAAATGTGGTCTTTAAGAAAAGCAAGTC-TTTTTTCTATTCTGGTTGAATGGATAGTAAT
1 TAATAAAAATGTGGTCATTAAGAAAAGCAAGTCTTTTTTTCTATTCTGGTTGAATGGATAGTAAT
1740497 CTTTATCTC
66 CTTTATCTC
* * * *
1740506 TAATAAAAATGTGGTCATTAAGAAAAGCAAGTCTTTTTTTTTGTTTTGGTTGGATGGATAGTAAT
1 TAATAAAAATGTGGTCATTAAGAAAAGCAAGTCTTTTTTTCTATTCTGGTTGAATGGATAGTAAT
1740571 CTTTAT
66 CTTTAT
1740577 TTTATCAAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 32 0.49
74 33 0.51
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (74 bp):
TAATAAAAATGTGGTCATTAAGAAAAGCAAGTCTTTTTTTCTATTCTGGTTGAATGGATAGTAAT
CTTTATCTC
Found at i:1741663 original size:154 final size:152
Alignment explanation
Indices: 1741449--1741926 Score: 536
Period size: 154 Copynumber: 3.1 Consensus size: 152
1741439 CAGTTTTGAA
* * * * * *
1741449 TTATGAGTTTTAGAATTTTTCCTATTATCCAGATACGAAGTTTTTTACTTCGTAAATTTCTCCTG
1 TTATGAGTTTTAGAATTTTTCCTAATATCAAGATACGGAGTTTTCTACTCCGTAAATTTCTCCAG
* *
1741514 TAGGATATTTT-TAAGTTTATAATTTTTAAATTTCTTCAAATATTATTGTTTAATTCATATTAAA
66 TAGGAT-TTTTCTAAGTTTATAATTTTTAAA-TTCTTAAAATATTATTATTTAATTCATATTAAA
* *
1741578 TCAATTTTGAAAATTTTAATTTATT
129 TCAGTTTTGAAAA-TTCAATTTATT
* * ** * * * *
1741603 TTATAAGTTTTAAAATTTTTCCTGCTATCGAGATACGGAGTTTTCTACTCCATAAATTTCTTCGG
1 TTATGAGTTTTAGAATTTTTCCTAATATCAAGATACGGAGTTTTCTACTCCGTAAATTTCTCCAG
* * * * *
1741668 TAGAATTTTTCTAGGTTTATAATTTTCAAAATTCTTAAAATATTATTTTTTAACTCATATTAAAT
66 TAGGATTTTTCTAAGTTTATAATTTT-TAAATTCTTAAAATATTATTATTTAATTCATATTAAAT
1741733 CAGTTTTGAAAAATTCAATTTATT
130 CAGTTTTG-AAAATTCAATTTATT
* * * *
1741757 TTATGAGTTTTAGAATTTTT-CTAATACCAAGATACAGAGTTTTCTACTCCGTAAATTTTTTCGA
1 TTATGAGTTTTAGAATTTTTCCTAATATCAAGATACGGAGTTTTCTACTCCGTAAA-TTTCTCCA
* * * *
1741821 GTA-GATTTTTCTCAGTTTAAAATTTTT-AATTCATAAAATAGTT-TTATTAAATTCATATTAAA
65 GTAGGATTTTTCTAAGTTTATAATTTTTAAATTCTTAAAATA-TTATTATTTAATTCATATTAAA
*
1741883 TTAGTTTGTGAAAATTCAATTTATT
129 TCAGTTT-TGAAAATTCAATTTATT
* *
1741908 TTATGACTTTT-GCATTTTT
1 TTATGAGTTTTAGAATTTTT
1741927 TTACATATAA
Statistics
Matches: 275, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
150 7 0.03
151 59 0.21
152 4 0.01
153 52 0.19
154 146 0.53
155 7 0.03
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (152 bp):
TTATGAGTTTTAGAATTTTTCCTAATATCAAGATACGGAGTTTTCTACTCCGTAAATTTCTCCAG
TAGGATTTTTCTAAGTTTATAATTTTTAAATTCTTAAAATATTATTATTTAATTCATATTAAATC
AGTTTTGAAAATTCAATTTATT
Found at i:1743985 original size:157 final size:153
Alignment explanation
Indices: 1743785--1744276 Score: 565
Period size: 156 Copynumber: 3.1 Consensus size: 153
1743775 GTTACCGAGG
* * * *
1743785 TACTTTCATGTCGAAGGTATA-CTTCAGGGGCATTTCCATAATTTTCCTAAGAATTGAGTCCTAG
1 TACTTTTATGTC-AAAGTATACCTT-AGGGGCATTTTCATAATTTT-CT-AGAATTGAGTCCTAA
* * * * *
1743849 GTTGTCATTAGGATGCTCTTATGCCAAAGGTGTGTATTTAGGATAGGTTCGTCCCATTTATCATC
62 GTTGTCACTAGGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCACTTATCATC
*
1743914 ATTTTTAAGTATTTTAAGGTTATTGGGA
127 ATTTTTAAGT-TTTTAGGGTTATTGGGA
*
1743942 TACTTTTATGTCAAAGTTATACCTTAGGGGCATTTTCATAATTTTCTTAGAACTGAGTCCTAAGT
1 TACTTTTATGTCAAAG-TATACCTTAGGGGCATTTTCATAATTTTC-TAGAATTGAGTCCTAAGT
* * * *
1744007 TGTCACTGGGATGCTTTTATGCCAAAGGTATGCATTTAGGATAGGTCCATCCCACTTATGATCAT
64 TGTCACTAGGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCACTTATCATCAT
* * *
1744072 TTTTAAGTCCTTTAGGGTTATCGTGA
129 TTTTAAGT-TTTTAGGGTTATTGGGA
* * ** * * *
1744098 TAATTTCT-TGTCGAAGATATACCTTAAAGGCAATTTCATAATTTTTCTAGAATCGAGTCTTAAG
1 TACTTT-TATGTCAAAG-TATACCTTAGGGGCATTTTCATAA-TTTTCTAGAATTGAGTCCTAAG
* * * * *
1744162 TTGTCACTAGGATACTTTTATGCCAAAGGTGTGCATTTAAGATAAGTTCATCCCACTTATTATTA
63 TTGTCACTAGGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCACTTATCATCA
*
1744227 TTTTTAAGTTCTTTAGGGTTACTGGGA
128 TTTTTAAGTT-TTTAGGGTTATTGGGA
*
1744254 TACTTTTACGTCGAAAGTATACC
1 TACTTTTATGTC-AAAGTATACC
1744277 CTAAAAATAA
Statistics
Matches: 284, Mismatches: 43, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
155 1 0.00
156 236 0.83
157 44 0.15
158 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (153 bp):
TACTTTTATGTCAAAGTATACCTTAGGGGCATTTTCATAATTTTCTAGAATTGAGTCCTAAGTTG
TCACTAGGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCACTTATCATCATTT
TTAAGTTTTTAGGGTTATTGGGA
Found at i:1746013 original size:58 final size:58
Alignment explanation
Indices: 1745918--1746034 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
1745908 AACAATAGGC
**
1745918 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATACGAATTGGGCTCCAAG
* * * *
1745976 CCATGAATATATGCAAATTGGGCTTCATTTTTCTTGGACATACGAATTGGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATACGAATTGGGCTCCAAG
1746034 C
1 C
1746035 TTTATTCTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (58 bp):
CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATACGAATTGGGCTCCAAG
Found at i:1750948 original size:28 final size:28
Alignment explanation
Indices: 1750909--1750972 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
1750899 TCAAGAAAGT
* *
1750909 GAAATCAACAAGAAATATGAAAGGAAAC
1 GAAATCAACAAGAAATATCAAAGGAAAA
*
1750937 GAAAT-AAGCAAGAAATTTCAAAGGAAAA
1 GAAATCAA-CAAGAAATATCAAAGGAAAA
1750965 GAAATCAA
1 GAAATCAA
1750973 TACAAACGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 27 0.87
29 2 0.06
ACGTcount: A:0.61, C:0.09, G:0.17, T:0.12
Consensus pattern (28 bp):
GAAATCAACAAGAAATATCAAAGGAAAA
Found at i:1752605 original size:143 final size:143
Alignment explanation
Indices: 1752447--1752741 Score: 307
Period size: 143 Copynumber: 2.1 Consensus size: 143
1752437 ATTATTATTT
* * * *
1752447 AATTCACATTAAATCAGTTTT-AAAAAGTTCCTTT-TATTTCATGAAATTTT-C-ATTTTTCCTT
1 AATTCATAGTAAATCAGTTTTGAAAAA-TTCATTTAT-TTTCAT-AAATTTTCCAATTTTTCCAT
* * * * * * *
1752508 GAAATTCTCTCGTTTTCA-AAATATGGAGTTTTTTACTCCATAAATGTTTTC-AGGGGGATTTTT
63 AAAATT-TC-C-CTATCAGAAAAATCGAGTTTTCTACTCCATAAATATTTTCAAGGGGGATTTTT
**
1752571 ATTGGTTT-ATAATTTTTAA
125 ATCAGTTTAAT-ATTTTTAA
* *
1752590 AATTCATAGTAAATCATTTTTGAAAAATTCATTTATTTTCATAAGTTTTCCAATTTTTCCATAAA
1 AATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAATTTTCCAATTTTTCCATAAA
* *
1752655 ATTTCCCTATCATGAAAAATCGAGTTTTCTATTCCATAAATATTTTCAAGGGGGATTTTTCTCAG
66 ATTTCCCTATCA-GAAAAATCGAGTTTTCTACTCCATAAATATTTTCAAGGGGGATTTTTATCAG
*
1752720 TTTAATTTTTTTAA
130 TTTAATATTTTTAA
1752734 AATTCATA
1 AATTCATA
1752742 TAATATTGTC
Statistics
Matches: 126, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
141 4 0.03
142 7 0.06
143 61 0.48
144 52 0.41
145 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (143 bp):
AATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAATTTTCCAATTTTTCCATAAA
ATTTCCCTATCAGAAAAATCGAGTTTTCTACTCCATAAATATTTTCAAGGGGGATTTTTATCAGT
TTAATATTTTTAA
Found at i:1760231 original size:39 final size:41
Alignment explanation
Indices: 1760177--1760293 Score: 145
Period size: 37 Copynumber: 2.9 Consensus size: 41
1760167 AAGAGAAAGA
* *
1760177 AGAGAGAGGAGGGATGAAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGAAGGAGGAGAGACAAGAGAGATAAT
*
1760218 AGAGATA-GA-GGATG-A-GAGGAGAGACAAGAGAGATAAT
1 AGAGAGAGGAGGGATGAAGGAGGAGAGACAAGAGAGATAAT
*
1760255 AGAGAGAGGAGGGATGACAGGAGGAGGAGAGAAGA-AGAT
1 AGAGAGAGGAGGGATGA-AGGAGGA-GAGACAAGAGAGAT
1760294 GGAAGAGTGA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
37 26 0.40
38 3 0.05
39 10 0.15
40 2 0.03
41 7 0.11
42 9 0.14
43 8 0.12
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (41 bp):
AGAGAGAGGAGGGATGAAGGAGGAGAGACAAGAGAGATAAT
Found at i:1767553 original size:12 final size:11
Alignment explanation
Indices: 1767531--1767597 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
1767521 AGAGAAAGAA
*
1767531 GAGAGAGGAGG
1 GAGATAGGAGG
1767542 GATGATAGGAGG
1 GA-GATAGGAGG
*
1767554 AGAGACAGGA--
1 -GAGATAGGAGG
1767564 GAGATAGGAGG
1 GAGATAGGAGG
1767575 GATGATAGGAGG
1 GA-GATAGGAGG
*
1767587 AGAGACAGGAG
1 -GAGATAGGAG
1767598 AGATAATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 8 0.17
11 4 0.09
12 30 0.65
13 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.51, T:0.07
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1767587 original size:24 final size:24
Alignment explanation
Indices: 1767560--1767606 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1767550 GAGGAGAGAC
* * *
1767560 AGGAGAGATAGGAGGGATGATAGG
1 AGGAGAGACAGGAGAGATAATAGG
1767584 AGGAGAGACAGGAGAGATAATAG
1 AGGAGAGACAGGAGAGATAATAG
1767607 AGAGAGGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.45, T:0.11
Consensus pattern (24 bp):
AGGAGAGACAGGAGAGATAATAGG
Found at i:1767597 original size:42 final size:42
Alignment explanation
Indices: 1767551--1767630 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
1767541 GGATGATAGG
* * *
1767551 AGGAGAGACAGGAGAGATAGGAGGGATGATAGGAGGAGAGAC
1 AGGAGAGACAAGAGAGAGAGGAGGGATGACAGGAGGAGAGAC
* *
1767593 AGGAGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGGAGAGACAAGAGAGAGAGGAGGGATGACAGGAGGAG
1767631 GAGAGAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.47, T:0.07
Consensus pattern (42 bp):
AGGAGAGACAAGAGAGAGAGGAGGGATGACAGGAGGAGAGAC
Found at i:1767601 original size:33 final size:33
Alignment explanation
Indices: 1767521--1767602 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
1767511 TAGCCCTCAA
* * *
1767521 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGAGATAGGAGGGATGATAGGAGG
1767554 AGAGACAGGAGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGAGATAGGAGGGATGATAGGAGG
1767587 AGAGACAGGAGAGATA
1 AGAGACAGGAGAGATA
1767603 ATAGAGAGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.07
Consensus pattern (33 bp):
AGAGACAGGAGAGATAGGAGGGATGATAGGAGG
Found at i:1772922 original size:34 final size:34
Alignment explanation
Indices: 1772884--1773615 Score: 581
Period size: 34 Copynumber: 22.4 Consensus size: 34
1772874 GCATTTTTTC
* *
1772884 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
*
1772918 TTT-AAGTCCACAACTCCGTGGCA-C-----CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* * * *
1772945 TTTAAAGCCCACAATTCCGTGGAACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
*
1772979 CTTT-AAGTCCACAACTCCGTGGCA-C-----CCT
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* * * *
1773007 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
1773041 CTTT-AAGTCCACAACTCCGTGGCA-C-----CCG
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
1773069 TTT-AAGCCCACAACTCCGTGGCACCTTTTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
1773101 TTTAAAGCACACAACTCTGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCT
1773137 TTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
1773171 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CT
*
1773208 TTTCAAAGCCCACGACTCCGTGGCA-C----T-C-
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
* * *
1773236 TTTAAAGCCCACAACTCTGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
1773270 TTTAAAGCCCACAACTCCATGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
1773303 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
1773337 TTTCAAAGCCCACGACTCCGTGGCA-C----TCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
1773367 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCT
** *
1773402 CCT-AAGCCCACAACTCTGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCT
*
1773436 TCT-AAGCCCACAACTCCGTGGCA-C-----CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* * *
1773463 TTT-AAGCCCATAACTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* * *
1773496 CTTT-AAGTCCATAACTCCGTGGCACCTTTTTTTTCT
1 -TTTAAAGCCCACAACTCCGTGGCACC--TTTTTCCT
1773532 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCT
* * *
1773568 TTT-AAGTCCACAACTCCGTGGCATCTTTCTCCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT-TTCCT
*
1773602 TCCTAAAGCCCACA
1 T-TTAAAGCCCACA
1773616 CAAGTCGGTG
Statistics
Matches: 572, Mismatches: 64, Indels: 122
0.75 0.08 0.16
Matches are distributed among these distances:
27 74 0.13
28 42 0.07
29 22 0.04
30 4 0.01
31 2 0.00
32 7 0.01
33 44 0.08
34 233 0.41
35 49 0.09
36 52 0.09
37 43 0.08
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
Found at i:1773191 original size:131 final size:126
Alignment explanation
Indices: 1772884--1773590 Score: 619
Period size: 131 Copynumber: 5.4 Consensus size: 126
1772874 GCATTTTTTC
* * *
1772884 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAGCCCACAACTCCGTGGCACCCTTTTA
* * *
1772949 AAGCCCACAATTCCGTGGAACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA-C-----CCT
65 AAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAG-CCACAACTCCGTGGCACCTTTTTCCT
* * * * *
1773007 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCGTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAGCCCACAACTCCGTGGCACCCTTTT
*
1773072 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCACACAACTCTGTGGCACTCTTTTTCCC
64 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC-CACAACTCCGTGGCAC-CTTTTT-CC
1773136 T
126 T
1773137 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT-AAGCCCACAACTCCGTGGCA--C---
* *
1773202 TTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCTGTGGCAC
58 --C-CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-CCACAACTCCGTGGCAC
* *
1773261 CTTCTTCTT
118 CTTTTTCCT
* * *
1773270 TTTAAAGCCCACAACTCCATGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT--AAGCCCACAACTCCGTGGCA-C--C--
* *
1773335 CTTTTCAAAGCCCACGACTCCGTGGCA-C--TCT-TTTTAAAGCCCACAACTCCGTGGCACTCTT
59 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-CCACAACTCCGTGGCAC-CTT
1773396 TTTCCT
121 TTTCCT
** * *
1773402 CCT-AAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * *
1773466 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCATAACTCCGTGGCACCTTTTTTT
64 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAG-CCACAACTCCGTGGCACC--TTTTT
*
1773529 TCT
124 CCT
*
1773532 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAGCCCACAACTCCGTGGCA
1773591 TCTTTCTCCC
Statistics
Matches: 496, Mismatches: 45, Indels: 77
0.80 0.07 0.12
Matches are distributed among these distances:
121 4 0.01
122 21 0.04
123 50 0.10
124 48 0.10
126 5 0.01
127 2 0.00
128 5 0.01
129 49 0.10
130 22 0.04
131 139 0.28
132 85 0.17
133 10 0.02
134 5 0.01
135 23 0.05
136 3 0.01
138 1 0.00
139 4 0.01
140 1 0.00
141 19 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (126 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAA
AGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCACAACTCCGTGGCACCTTTTTCCT
Found at i:1773390 original size:97 final size:95
Alignment explanation
Indices: 1772884--1773563 Score: 566
Period size: 97 Copynumber: 7.0 Consensus size: 95
1772874 GCATTTTTTC
* * * *
1772884 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACC-----
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGCCCACAACTCTGTGGCACCTTTTT
* *
1772943 CTTTTAAAGCCCACAATTCCGTGGAACT-TT
65 CTTTTAAAGCCCACAACTCCGTGGCACTCTT
* * *
1772973 TTTCATCTTTAAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT
1 TTT-A-----AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACC
* **
1773033 TTTTTCATCTTT-AAGTCCACAACTCCGTGGCAC-CCG
60 TTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACTCTT
*
1773069 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCACACAACTCTGTGGCACTCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCAC-CTTTTT
*
1773133 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
65 --CTTTT-AAAGCCCACAACTCCGTGGCA-C----TCTT
* *
1773172 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C--
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTT-TCTTTT-AAAGCCCACAACTCTGTGGCACCTT
*
1773234 --TC-TTTAAAGCCCACAACTCTGTGGCACCTTCTTCTT
62 TTTCTTTTAAAGCCCACAACTCCGTGGCA----C-TCTT
* * *
1773270 TTTAAAGCCCACAACTCCATGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCTGTGGCACCTTTTT
*
1773335 CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
65 CTTTT-AAAGCCCACAACTCCGTGGCACTCTT
**
1773367 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCTGTGGCAC-CTTT
* *
1773431 TTCCTTCT-AAGCCCACAACTCCGTGGCAC-CCT
63 TT-CTTTTAAAGCCCACAACTCCGTGGCACTCTT
* * * * *
1773463 TTT-AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCATAACTCCGTGGCACCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCTGTGGCACC---T
1773526 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
61 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
1773561 TTT
1 TTT
1773564 CCCTTTTAAG
Statistics
Matches: 488, Mismatches: 46, Indels: 105
0.76 0.07 0.16
Matches are distributed among these distances:
89 29 0.06
90 19 0.04
93 1 0.00
94 32 0.07
95 94 0.19
96 36 0.07
97 119 0.24
98 65 0.13
99 10 0.02
100 3 0.01
101 4 0.01
102 20 0.04
103 5 0.01
104 21 0.04
105 1 0.00
106 5 0.01
107 6 0.01
108 18 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (95 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTTTTTC
TTTTAAAGCCCACAACTCCGTGGCACTCTT
Found at i:1773492 original size:27 final size:27
Alignment explanation
Indices: 1773433--1773486 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1773423 CACTCTTTTT
*
1773433 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
1773460 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
1773487 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:1773536 original size:35 final size:34
Alignment explanation
Indices: 1773461--1773595 Score: 155
Period size: 35 Copynumber: 3.9 Consensus size: 34
1773451 CCGTGGCACC
*
1773461 CTTTTAAGCCCATAACTCCGTGGCACTTTTTTCAT
1 CTTTTAAGCCCACAACTCCGTGGCACTTTTTT-AT
* * *
1773496 C-TTTAAGTCCATAACTCCGTGGCACCTTTTTTTT
1 CTTTTAAGCCCACAACTCCGTGGCA-CTTTTTTAT
**
1773530 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTT-AAGCCCACAACTCCGTGGCACT-TTTTTAT
*
1773566 CTTTTAAGTCCACAACTCCGTGGCATCTTT
1 CTTTTAAGCCCACAACTCCGTGGCA-CTTT
1773596 CTCCCTTCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
34 24 0.27
35 34 0.39
36 30 0.34
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (34 bp):
CTTTTAAGCCCACAACTCCGTGGCACTTTTTTAT
Found at i:1773643 original size:33 final size:35
Alignment explanation
Indices: 1773600--1773669 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1773590 ATCTTTCTCC
1773600 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1773634 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1773668 CT
1 CT
1773670 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:1773733 original size:49 final size:48
Alignment explanation
Indices: 1773669--1774692 Score: 1165
Period size: 49 Copynumber: 21.5 Consensus size: 48
1773659 GCAACCCTTC
* * *
1773669 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* *
1773718 TAAGTCCAATGTAGCTGGCTTTGACTCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * * *
1773761 TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC---TT-CATCTT
*
1773813 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* *
1773862 TAAGTCCAATGTAGCTGACCTTAAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * * *
1773905 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
1773954 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * *
1773997 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
1774046 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * * *
1774089 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
1774138 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
1774181 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * * *
1774224 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * *
1774273 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * * *
1774322 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * *
1774371 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * * *
1774420 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-TTCATCTT
* * *
1774469 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTT-CATCTT
* * *
1774518 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
*
1774566 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * *
1774615 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--TT-CATCTT
* *
1774667 TAAATTCAATGTAGCTGGCCTTGAAT
1 TAAGTCCAATGTAGCTGGCCTTGAAT
1774693 ATCGTTGGCC
Statistics
Matches: 835, Mismatches: 99, Indels: 79
0.82 0.10 0.08
Matches are distributed among these distances:
43 231 0.28
45 5 0.01
47 4 0.00
48 41 0.05
49 482 0.58
50 3 0.00
51 2 0.00
52 66 0.08
53 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
Found at i:1774180 original size:21 final size:21
Alignment explanation
Indices: 1774156--1774223 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1774146 ATGTAGCTGG
1774156 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
1774177 CCTTTAAGTC--CA-ATGTAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
1774199 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
1774220 CCTT
1 CCTT
1774224 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:1774202 original size:22 final size:22
Alignment explanation
Indices: 1774135--1774202 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1774125 GCATCTTCAT
1774135 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
1774157 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
1774178 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
1774200 CTT
1 CTT
1774203 GAATCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:1774701 original size:98 final size:98
Alignment explanation
Indices: 1773669--1774690 Score: 1103
Period size: 92 Copynumber: 10.8 Consensus size: 98
1773659 GCAACCCTTC
* * *
1773669 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
*
1773733 TGGCTTTGACTCAGCACATTGGCACC-T-----T
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
* * *
1773761 TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCACATTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT--ATCTTTAAGTCCAATGTA
* *
1773826 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
64 GCTGGCCTTGACTCA-CACATTGGCACCTTCACCAT
* * * * * *
1773862 TAAGTCCAATGTAGCTGACCTTAAATCAGCACATTGGCA-C------CTTTAAGTCCAATATCGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
* * * * * *
1773920 TGGCCTTGAATCAGCATATTAGCATCTTCATCTT
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
* * * *
1773954 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C------CTTTAAGTCCAATATCGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
* * * * *
1774012 TGGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
* * * *
1774046 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C------CTTTAAGTCCAATATCGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
* * * * *
1774104 TGGCCTTGAATCAACATATTGGCATCTTCATCTT
66 TGGCCTTGACTC-ACACATTGGCACCTTCACCAT
* *
1774138 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C------CTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
*
1774196 TGGCCTTGAATCAGCACATTGGCACC-T-----T
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
* * * *
1774224 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-ATCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
1774288 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
*
1774322 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACC-TTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
1774386 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
*
1774420 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
1774484 TGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
66 TGGCCTTGACTCA-CACATTGGCACCTT-CACCAT
1774518 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
* *
1774581 TGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 TGGCCTTGACTCA-CACATTGGCACCTTCACCAT
* * *
1774615 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAATTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT--ATCTTTAAGTCCAATGTA
1774680 GCTGGCCTTGA
64 GCTGGCCTTGA
1774691 ATATCGTTGG
Statistics
Matches: 855, Mismatches: 44, Indels: 53
0.90 0.05 0.06
Matches are distributed among these distances:
86 37 0.04
87 1 0.00
91 2 0.00
92 382 0.45
93 4 0.00
95 45 0.05
96 1 0.00
97 93 0.11
98 226 0.26
99 3 0.00
101 61 0.07
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTATCTTTAAGTCCAATGTAGC
TGGCCTTGACTCACACATTGGCACCTTCACCAT
Found at i:1775656 original size:13 final size:13
Alignment explanation
Indices: 1775638--1775662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1775628 CATAAAATGT
1775638 TGTATCGATACAA
1 TGTATCGATACAA
1775651 TGTATCGATACA
1 TGTATCGATACA
1775663 TATTTTTTTG
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:1775838 original size:52 final size:52
Alignment explanation
Indices: 1775745--1775872 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1775735 CACTGATCTT
1775745 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1775796 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1775848 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1775873 TCATATTTCG
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
51 19 0.25
52 57 0.75
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
Found at i:1780779 original size:17 final size:17
Alignment explanation
Indices: 1780754--1780787 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1780744 ATACATTATG
1780754 CAAACGTATCAATACAT
1 CAAACGTATCAATACAT
* *
1780771 CAAATGTATTAATACAT
1 CAAACGTATCAATACAT
1780788 TTGCATTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
CAAACGTATCAATACAT
Found at i:1785379 original size:13 final size:13
Alignment explanation
Indices: 1785361--1785386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1785351 TACACCAAGT
1785361 ATGTATCGATACA
1 ATGTATCGATACA
1785374 ATGTATCGATACA
1 ATGTATCGATACA
1785387 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1785384 original size:32 final size:33
Alignment explanation
Indices: 1785343--1785406 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1785333 TAGCCAAACT
**
1785343 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1785375 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1785407 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1787017 original size:12 final size:12
Alignment explanation
Indices: 1787000--1787034 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1786990 ACGATGAAGA
1787000 TGATGAAGATGT
1 TGATGAAGATGT
1787012 TGATGAAGATGT
1 TGATGAAGATGT
1787024 TGATGAAGATG
1 TGATGAAGATG
1787035 GTGACTCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (12 bp):
TGATGAAGATGT
Found at i:1794810 original size:15 final size:15
Alignment explanation
Indices: 1794772--1794812 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1794762 AAAGAATACA
1794772 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
* * *
1794787 AATACAAAAAGAGAG
1 AAAAAAAAAAGAAAG
1794802 AAAAAAAAAAG
1 AAAAAAAAAAG
1794813 CCAGCATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:1795580 original size:12 final size:11
Alignment explanation
Indices: 1795558--1795624 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
1795548 AGAGAAAGAA
*
1795558 GAGAGAGGAGG
1 GAGATAGGAGG
1795569 GATGATAGGAGG
1 GA-GATAGGAGG
*
1795581 AGAGATAGTA--
1 -GAGATAGGAGG
1795591 GAGATAGGAGG
1 GAGATAGGAGG
1795602 GATGATAGGAGG
1 GA-GATAGGAGG
*
1795614 AGAGACAGGAG
1 -GAGATAGGAG
1795625 AGATAATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 8 0.17
11 4 0.09
12 30 0.65
13 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.49, T:0.10
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1795624 original size:42 final size:42
Alignment explanation
Indices: 1795578--1795657 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
1795568 GGATGATAGG
* * * *
1795578 AGGAGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGAC
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGAAGGAGAGAC
1795620 AGGAGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1795658 GAGAGAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.45, T:0.10
Consensus pattern (42 bp):
AGGAGAGATAATAGAGAGAGGAGGGATGACAGAAGGAGAGAC
Found at i:1795628 original size:33 final size:33
Alignment explanation
Indices: 1795548--1795629 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
1795538 TAGCCCTCAA
*
1795548 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGG
1 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGG
* *
1795581 AGAGATAGTAGAGATAGGAGGGATGATAGGAGG
1 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGG
* *
1795614 AGAGACAGGAGAGATA
1 AGAGAAAGAAGAGATA
1795630 ATAGAGAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.44, C:0.01, G:0.45, T:0.10
Consensus pattern (33 bp):
AGAGAAAGAAGAGATAGGAGGGATGATAGGAGG
Found at i:1805163 original size:18 final size:19
Alignment explanation
Indices: 1805140--1805189 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
1805130 TCCATCTTCT
*
1805140 TCTCTCCTCCTC-CTGTCA
1 TCTCTCCTCCTCTCTATCA
*
1805158 TCTCTCCT-CTCTCTATTA
1 TCTCTCCTCCTCTCTATCA
1805176 TCTCTCCT-CTCTCT
1 TCTCTCCTCCTCTCT
1805190 CCTCCTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.06, C:0.46, G:0.02, T:0.46
Consensus pattern (19 bp):
TCTCTCCTCCTCTCTATCA
Found at i:1805188 original size:9 final size:9
Alignment explanation
Indices: 1805158--1805255 Score: 55
Period size: 9 Copynumber: 11.6 Consensus size: 9
1805148 CCTCCTGTCA
1805158 TCTCTCCTC
1 TCTCTCCTC
** *
1805167 TCTCTATTA
1 TCTCTCCTC
1805176 TCTCTCCTC
1 TCTCTCCTC
1805185 TCTCTCCTC
1 TCTCTCCTC
* *
1805194 -CTATCATC
1 TCTCTCCTC
*
1805202 -C-CTCCTA
1 TCTCTCCTC
* *
1805209 TCTCTACTA
1 TCTCTCCTC
*
1805218 TCTCTCCTG
1 TCTCTCCTC
1805227 TCTCTCCTC
1 TCTCTCCTC
* *
1805236 -CTATCATC
1 TCTCTCCTC
1805244 -C-CTCCTC
1 TCTCTCCTC
1805251 TCTCT
1 TCTCT
1805256 TCTTTCTCTT
Statistics
Matches: 66, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
7 7 0.11
8 16 0.24
9 43 0.65
ACGTcount: A:0.09, C:0.47, G:0.01, T:0.43
Consensus pattern (9 bp):
TCTCTCCTC
Found at i:1805201 original size:42 final size:42
Alignment explanation
Indices: 1805140--1805264 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
1805130 TCCATCTTCT
* * *
1805140 TCTCTCCTCCTCCTGTCATCTCTCCTCTCTCTATTATCTCTCC
1 TCTCT-CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCC
*
1805183 TCTCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCC
1 TCTCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCC
* * *
1805225 TGTCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 TCTCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1805265 TTGAGGGCTA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 69 0.93
43 5 0.07
ACGTcount: A:0.08, C:0.46, G:0.02, T:0.44
Consensus pattern (42 bp):
TCTCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCC
Found at i:1805205 original size:12 final size:11
Alignment explanation
Indices: 1805179--1805254 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1805169 TCTATTATCT
*
1805179 CTCCTCTCTCTC
1 CTCCTATCTC-C
1805191 CTCCTATCATCC
1 CTCCTATC-TCC
1805203 CTCCTATCT--
1 CTCCTATCTCC
*
1805212 CTACTATCT--
1 CTCCTATCTCC
*
1805221 CTCCTGTCTCTC
1 CTCCTATCTC-C
1805233 CTCCTATCATCC
1 CTCCTATC-TCC
*
1805245 CTCCTCTCTC
1 CTCCTATCTC
1805255 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.50, G:0.01, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1812435 original size:21 final size:21
Alignment explanation
Indices: 1812409--1812450 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1812399 TACCATCTTG
*
1812409 TAATTCATTTATTTTCTTTTC
1 TAATTCAATTATTTTCTTTTC
1812430 TAATTCAATTATTTTCTTTTC
1 TAATTCAATTATTTTCTTTTC
1812451 GAGCACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATTCAATTATTTTCTTTTC
Found at i:1814088 original size:35 final size:34
Alignment explanation
Indices: 1814032--1814097 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
1814022 CCTTACAACA
*
1814032 CTATCTTTTCAAAGGCTAAGATAGAACCTCTTCC
1 CTATCTTTTCAAAGGCCAAGATAGAACCTCTTCC
1814066 CTATCTTTTGCAAAGGCCAAGATAGAACCTCT
1 CTATCTTTT-CAAAGGCCAAGATAGAACCTCT
1814098 CAATCACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (34 bp):
CTATCTTTTCAAAGGCCAAGATAGAACCTCTTCC
Found at i:1816196 original size:46 final size:48
Alignment explanation
Indices: 1816071--1816197 Score: 127
Period size: 48 Copynumber: 2.7 Consensus size: 48
1816061 AGAAAGGATT
* * * * * *
1816071 TTGAGTCAGTTTCATACAATTAGGCAGAAAATCAGTGGAGTTTTTCTA
1 TTGAGTCTGCTTCATTCAATTAGGTAGAAGATCAGTGAAGTTTTTCTA
*
1816119 TTGAGTCTGCTTCA-TCTAATTAGGTAAAAGATCAGTGAAGTTTTTCT-
1 TTGAGTCTGCTTCATTC-AATTAGGTAGAAGATCAGTGAAGTTTTTCTA
* *
1816166 TTTA-T-TAGCTTCATTCAGTTAGGTAGAAGATC
1 TTGAGTCT-GCTTCATTCAATTAGGTAGAAGATC
1816198 GACAAAGTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
45 1 0.02
46 21 0.32
47 6 0.09
48 38 0.58
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (48 bp):
TTGAGTCTGCTTCATTCAATTAGGTAGAAGATCAGTGAAGTTTTTCTA
Found at i:1817202 original size:25 final size:25
Alignment explanation
Indices: 1817173--1817222 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1817163 TGACTAGTAG
1817173 ACATCTCTTAAGAAGATTAGGCCAT
1 ACATCTCTTAAGAAGATTAGGCCAT
1817198 ACATCTCTTAAGAAGATTAGGCCAT
1 ACATCTCTTAAGAAGATTAGGCCAT
1817223 CATTGAGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ACATCTCTTAAGAAGATTAGGCCAT
Found at i:1822704 original size:12 final size:11
Alignment explanation
Indices: 1822682--1822757 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1822672 AGAGAAAGAA
*
1822682 GAGAGAGGAGG
1 GAGATAGGAGG
1822693 GATGATAGGAGG
1 GA-GATAGGAGG
*
1822705 AGAGACAGGA--
1 -GAGATAGGAGG
*
1822715 GAGATAGTA--
1 GAGATAGGAGG
1822724 GAGATAGGAGG
1 GAGATAGGAGG
1822735 GATGATAGGAGG
1 GA-GATAGGAGG
*
1822747 AGAGACAGGAG
1 -GAGATAGGAG
1822758 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1822714 original size:24 final size:24
Alignment explanation
Indices: 1822681--1822766 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1822671 AAGAGAAAGA
*
1822681 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1822705 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1822723 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1822747 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1822767 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1822733 original size:42 final size:42
Alignment explanation
Indices: 1822672--1822790 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1822662 TAGCCCTCAA
* *
1822672 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1822714 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1822756 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1822791 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1830849 original size:42 final size:42
Alignment explanation
Indices: 1830794--1830912 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1830784 TTCTTCTCTC
* *
1830794 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1830836 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1830878 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1830913 TTGCGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1830853 original size:12 final size:11
Alignment explanation
Indices: 1830827--1830902 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1830817 TCTATTATCT
*
1830827 CTCCTGTCTCTC
1 CTCCTATCTC-C
1830839 CTCCTATCATCC
1 CTCCTATC-TCC
1830851 CTCCTATCT--
1 CTCCTATCTCC
*
1830860 CTACTATCT--
1 CTCCTATCTCC
*
1830869 CTCCTGTCTCTC
1 CTCCTATCTC-C
1830881 CTCCTATCATCC
1 CTCCTATC-TCC
*
1830893 CTCCTCTCTC
1 CTCCTATCTC
1830903 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1830854 original size:24 final size:24
Alignment explanation
Indices: 1830818--1830903 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1830808 CCTCCTCTCT
* *
1830818 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1830842 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1830863 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1830884 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1830904 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1830878 original size:18 final size:18
Alignment explanation
Indices: 1830809--1830879 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1830799 CCTGTCATCC
* *
1830809 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1830827 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1830849 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1830869 CTCCTGTCTCT
1 CTCCTGTCTCT
1830880 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1832882 original size:548 final size:548
Alignment explanation
Indices: 1831846--1832941 Score: 2192
Period size: 548 Copynumber: 2.0 Consensus size: 548
1831836 GACAACCATG
1831846 AACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAATTATTGATGCA
1 AACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAATTATTGATGCA
1831911 AGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGAGTTAGAGATGGAGGATGG
66 AGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGAGTTAGAGATGGAGGATGG
1831976 CGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATA
131 CGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATA
1832041 AGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTTCT
196 AGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTTCT
1832106 GCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCCTCATAAGCCA
261 GCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCCTCATAAGCCA
1832171 TAGTTAACACAAACCCTAAGGGGCTTATTATGTTAACAAGCCCAACTCTTACTTAAACCCAAATA
326 TAGTTAACACAAACCCTAAGGGGCTTATTATGTTAACAAGCCCAACTCTTACTTAAACCCAAATA
1832236 ACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAAT
391 ACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAAT
1832301 AACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTG
456 AACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTG
1832366 GGCTCTTCTAACTCCAGATTGGGTCTAC
521 GGCTCTTCTAACTCCAGATTGGGTCTAC
1832394 AACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAATTATTGATGCA
1 AACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAATTATTGATGCA
1832459 AGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGAGTTAGAGATGGAGGATGG
66 AGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGAGTTAGAGATGGAGGATGG
1832524 CGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATA
131 CGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATA
1832589 AGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTTCT
196 AGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTTCT
1832654 GCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCCTCATAAGCCA
261 GCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCCTCATAAGCCA
1832719 TAGTTAACACAAACCCTAAGGGGCTTATTATGTTAACAAGCCCAACTCTTACTTAAACCCAAATA
326 TAGTTAACACAAACCCTAAGGGGCTTATTATGTTAACAAGCCCAACTCTTACTTAAACCCAAATA
1832784 ACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAAT
391 ACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAAT
1832849 AACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTG
456 AACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTG
1832914 GGCTCTTCTAACTCCAGATTGGGTCTAC
521 GGCTCTTCTAACTCCAGATTGGGTCTAC
1832942 TTTCAAATAG
Statistics
Matches: 548, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
548 548 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (548 bp):
AACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAATTATTGATGCA
AGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGAGTTAGAGATGGAGGATGG
CGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATA
AGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTTCT
GCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCCTCATAAGCCA
TAGTTAACACAAACCCTAAGGGGCTTATTATGTTAACAAGCCCAACTCTTACTTAAACCCAAATA
ACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAAT
AACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTG
GGCTCTTCTAACTCCAGATTGGGTCTAC
Found at i:1834582 original size:15 final size:15
Alignment explanation
Indices: 1834544--1834583 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1834534 TCAAGAATAC
1834544 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
* * *
1834559 AATACAAAAAGAGAG
1 AAAAAAAAAAGAAAG
1834574 AAAAAAAAAA
1 AAAAAAAAAA
1834584 CCAGTATTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:1835352 original size:12 final size:11
Alignment explanation
Indices: 1835330--1835405 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1835320 AGAGAAAGAA
*
1835330 GAGAGAGGAGG
1 GAGATAGGAGG
1835341 GATGATAGGAGG
1 GA-GATAGGAGG
*
1835353 AGAGACAGGA--
1 -GAGATAGGAGG
*
1835363 GAGATAGTA--
1 GAGATAGGAGG
1835372 GAGATAGGAGG
1 GAGATAGGAGG
1835383 GATGATAGGAGG
1 GA-GATAGGAGG
*
1835395 AGAGACAGGAG
1 -GAGATAGGAG
1835406 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1835362 original size:24 final size:24
Alignment explanation
Indices: 1835329--1835414 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1835319 AAGAGAAAGA
*
1835329 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1835353 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1835371 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1835395 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1835415 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1835381 original size:42 final size:42
Alignment explanation
Indices: 1835320--1835438 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1835310 TAGCCCTCAA
* *
1835320 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1835362 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
1835404 AGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1835439 TAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1844654 original size:29 final size:29
Alignment explanation
Indices: 1844566--1844654 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
1844556 ATTAATAAAT
* *
1844566 AAGAAAGATC-AAGGAAGTGAAATCAATG
1 AAGAAATATCAAAGGAAGAGAAATCAATG
* *
1844594 -AGAAATATGAAAGGGAA-ATGAAGT-AA-G
1 AAGAAATATCAAA-GGAAGA-GAAATCAATG
1844621 CAAGAAATATCAAAGGAAGAGAAATCAATG
1 -AAGAAATATCAAAGGAAGAGAAATCAATG
1844651 AAGA
1 AAGA
1844655 GGAACAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
27 8 0.17
28 12 0.26
29 26 0.55
30 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (29 bp):
AAGAAATATCAAAGGAAGAGAAATCAATG
Found at i:1851258 original size:44 final size:41
Alignment explanation
Indices: 1851195--1851298 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
1851185 CATCATACTT
* *
1851195 ACATGCATTTGCATCATTGACAACCTTGGCATTCACATTGTTTC
1 ACATGCATTTGCATTATTGAC-A-CTTGGAATT-ACATTGTTTC
* * *
1851239 ACATGCATTTGCATTATTGACATTTGTAATTGCATTGTTTC
1 ACATGCATTTGCATTATTGACACTTGGAATTACATTGTTTC
* *
1851280 TCATGCATTTGCACTATTG
1 ACATGCATTTGCATTATTG
1851299 GTAGCTCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 26 0.49
42 6 0.11
43 1 0.02
44 20 0.38
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (41 bp):
ACATGCATTTGCATTATTGACACTTGGAATTACATTGTTTC
Found at i:1859402 original size:42 final size:42
Alignment explanation
Indices: 1859347--1859465 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1859337 TTCTTCTCTC
* *
1859347 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1859389 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1859431 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1859466 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1859406 original size:12 final size:11
Alignment explanation
Indices: 1859380--1859455 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1859370 TCTATTATCT
*
1859380 CTCCTGTCTCTC
1 CTCCTATCTC-C
1859392 CTCCTATCATCC
1 CTCCTATC-TCC
1859404 CTCCTATCT--
1 CTCCTATCTCC
*
1859413 CTACTATCT--
1 CTCCTATCTCC
*
1859422 CTCCTGTCTCTC
1 CTCCTATCTC-C
1859434 CTCCTATCATCC
1 CTCCTATC-TCC
*
1859446 CTCCTCTCTC
1 CTCCTATCTC
1859456 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1859407 original size:24 final size:24
Alignment explanation
Indices: 1859371--1859456 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1859361 CCTCCTCTCT
* *
1859371 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1859395 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1859416 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1859437 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1859457 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1859431 original size:18 final size:18
Alignment explanation
Indices: 1859362--1859432 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1859352 CCTGTCATCC
* *
1859362 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1859380 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1859402 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1859422 CTCCTGTCTCT
1 CTCCTGTCTCT
1859433 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1862053 original size:19 final size:19
Alignment explanation
Indices: 1862029--1862067 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1862019 TTGAAATAGG
1862029 ATTTTGCTGATTAGTTGCT
1 ATTTTGCTGATTAGTTGCT
1862048 ATTTTGCTGATTAGTTGCT
1 ATTTTGCTGATTAGTTGCT
1862067 A
1 A
1862068 GAACAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.51
Consensus pattern (19 bp):
ATTTTGCTGATTAGTTGCT
Found at i:1864254 original size:18 final size:19
Alignment explanation
Indices: 1864227--1864262 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1864217 AAAATAAACT
*
1864227 TTTTTGATGGAAGCTTTGG
1 TTTTTGATGGAACCTTTGG
1864246 TTTTT-ATGGAACCTTTG
1 TTTTTGATGGAACCTTTG
1864263 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (19 bp):
TTTTTGATGGAACCTTTGG
Found at i:1865203 original size:21 final size:21
Alignment explanation
Indices: 1865179--1865222 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1865169 ATATATTGAC
* *
1865179 ACAATATTCAATCATATCTAT
1 ACAATATGCAATCATATCAAT
*
1865200 ACAATATGCAATTATATCAAT
1 ACAATATGCAATCATATCAAT
1865221 AC
1 AC
1865223 TTGCATTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.34
Consensus pattern (21 bp):
ACAATATGCAATCATATCAAT
Found at i:1866919 original size:61 final size:61
Alignment explanation
Indices: 1866800--1866916 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 61
1866790 TATTTAGTTA
* ** * **
1866800 TGTTTATCATCCATAAAAAAAAAGTTAAAAAAAAAAGTGTTGTAGTGTTCTAACCCTTTGC
1 TGTTCATCATCCATAAAAAAAAAGCAAAAAAAAAAAGTGTTCTAGTGTGATAACCCTTTGC
1866861 TGTTCATCATCCATTAAAAAAAAAGCAAAAAAAAAAAGTGTTCTAGTGTGATAACC
1 TGTTCATCATCCA-TAAAAAAAAAGCAAAAAAAAAAAGTGTTCTAGTGTGATAACC
1866917 TTTTTCCATC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 12 0.24
62 37 0.76
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (61 bp):
TGTTCATCATCCATAAAAAAAAAGCAAAAAAAAAAAGTGTTCTAGTGTGATAACCCTTTGC
Found at i:1867028 original size:28 final size:27
Alignment explanation
Indices: 1866996--1867075 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
1866986 GTCTTCATTG
1866996 ATTTCGCTTCCTTTGATATTTCTTGCTT-
1 ATTTCGCTTCC-TTGATATTTCTTG-TTC
* *
1867024 ATTTCGTTTCCCTTCATATTTCTTTGTTC
1 ATTTCGCTT-CCTTGATATTTC-TTGTTC
* *
1867053 ATTTCACTTCCTTGATCTTTCTT
1 ATTTCGCTTCCTTGATATTTCTT
1867076 ATTTATTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.05
28 29 0.67
29 12 0.28
ACGTcount: A:0.11, C:0.24, G:0.07, T:0.57
Consensus pattern (27 bp):
ATTTCGCTTCCTTGATATTTCTTGTTC
Found at i:1870112 original size:21 final size:21
Alignment explanation
Indices: 1870061--1870112 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
1870051 ATCACATTTT
*
1870061 GGTCCAAATGTATCGATACAT
1 GGTCCAAATGTATCGATACAA
* *
1870082 TGT-TATAATGTATCGATACAA
1 GGTCCA-AATGTATCGATACAA
*
1870103 GGTCCCAATG
1 GGTCCAAATG
1870113 GTCAAAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (21 bp):
GGTCCAAATGTATCGATACAA
Found at i:1873524 original size:21 final size:21
Alignment explanation
Indices: 1873499--1873541 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1873489 CATGTCAGGA
1873499 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
1873520 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
1873541 G
1 G
1873542 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:1886179 original size:42 final size:42
Alignment explanation
Indices: 1886124--1886242 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1886114 TTCTTCTCTC
* *
1886124 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1886166 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1886208 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1886243 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1886183 original size:12 final size:11
Alignment explanation
Indices: 1886157--1886232 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1886147 TCTATTATCT
*
1886157 CTCCTGTCTCTC
1 CTCCTATCTC-C
1886169 CTCCTATCATCC
1 CTCCTATC-TCC
1886181 CTCCTATCT--
1 CTCCTATCTCC
*
1886190 CTACTATCT--
1 CTCCTATCTCC
*
1886199 CTCCTGTCTCTC
1 CTCCTATCTC-C
1886211 CTCCTATCATCC
1 CTCCTATC-TCC
*
1886223 CTCCTCTCTC
1 CTCCTATCTC
1886233 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1886184 original size:24 final size:24
Alignment explanation
Indices: 1886148--1886233 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1886138 CCTCCTCTCT
* *
1886148 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1886172 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1886193 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1886214 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1886234 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1886208 original size:18 final size:18
Alignment explanation
Indices: 1886139--1886209 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1886129 CCTGTCATCC
* *
1886139 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1886157 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1886179 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1886199 CTCCTGTCTCT
1 CTCCTGTCTCT
1886210 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1888868 original size:42 final size:42
Alignment explanation
Indices: 1888813--1888931 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1888803 TTCTTCTCTC
* *
1888813 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1888855 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1888897 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1888932 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1888872 original size:12 final size:11
Alignment explanation
Indices: 1888846--1888921 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1888836 TCTATTATCT
*
1888846 CTCCTGTCTCTC
1 CTCCTATCTC-C
1888858 CTCCTATCATCC
1 CTCCTATC-TCC
1888870 CTCCTATCT--
1 CTCCTATCTCC
*
1888879 CTACTATCT--
1 CTCCTATCTCC
*
1888888 CTCCTGTCTCTC
1 CTCCTATCTC-C
1888900 CTCCTATCATCC
1 CTCCTATC-TCC
*
1888912 CTCCTCTCTC
1 CTCCTATCTC
1888922 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1888873 original size:24 final size:24
Alignment explanation
Indices: 1888837--1888922 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1888827 CCTCCTCTCT
* *
1888837 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1888861 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1888882 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1888903 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1888923 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1888897 original size:18 final size:18
Alignment explanation
Indices: 1888828--1888898 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1888818 CCTGTCATCC
* *
1888828 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1888846 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1888868 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1888888 CTCCTGTCTCT
1 CTCCTGTCTCT
1888899 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1892032 original size:12 final size:11
Alignment explanation
Indices: 1892013--1892085 Score: 64
Period size: 12 Copynumber: 6.6 Consensus size: 11
1892003 AGAGAAAGAA
1892013 GAGATAGGAGG
1 GAGATAGGAGG
1892024 GATGATAGGAGG
1 GA-GATAGGAGG
*
1892036 AAAGATAGGA--
1 -GAGATAGGAGG
*
1892046 GAGATAGTA--
1 GAGATAGGAGG
1892055 GAGATAGGAGG
1 GAGATAGGAGG
1892066 GATGATAGGAGG
1 GA-GATAGGAGG
1892078 AGAGATAG
1 -GAGATAG
1892086 TAGAGATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
9 15 0.29
11 4 0.08
12 30 0.58
13 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.45, T:0.14
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1892121 original size:42 final size:42
Alignment explanation
Indices: 1892012--1892126 Score: 187
Period size: 42 Copynumber: 2.8 Consensus size: 42
1892002 AAGAGAAAGA
* *
1892012 AGAGATAGGAGGGATGATAGGAGGAAAGATAGGAGAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
*
1892054 AGAGATAGGAGGGATGATAGGAGGAGAGATAGTAGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
*
1892096 AGAGAGAGGAGGGATGATAGGAGGAG-GATAG
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAG
1892127 AAGAAGATGG
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
41 5 0.07
42 64 0.93
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
Found at i:1899767 original size:42 final size:42
Alignment explanation
Indices: 1899711--1899829 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1899701 TTCTTCTCTC
* * *
1899711 CTCCTTCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1899753 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1899795 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1899830 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1899770 original size:12 final size:11
Alignment explanation
Indices: 1899744--1899819 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1899734 TCTATTATCT
*
1899744 CTCCTGTCTCTC
1 CTCCTATCTC-C
1899756 CTCCTATCATCC
1 CTCCTATC-TCC
1899768 CTCCTATCT--
1 CTCCTATCTCC
*
1899777 CTACTATCT--
1 CTCCTATCTCC
*
1899786 CTCCTGTCTCTC
1 CTCCTATCTC-C
1899798 CTCCTATCATCC
1 CTCCTATC-TCC
*
1899810 CTCCTCTCTC
1 CTCCTATCTC
1899820 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1899771 original size:24 final size:24
Alignment explanation
Indices: 1899735--1899820 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1899725 CCTCCTCTCT
* *
1899735 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1899759 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1899780 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1899801 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1899821 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1899795 original size:18 final size:18
Alignment explanation
Indices: 1899726--1899796 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1899716 TCTGTCATCC
* *
1899726 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1899744 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1899766 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1899786 CTCCTGTCTCT
1 CTCCTGTCTCT
1899797 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1904180 original size:58 final size:57
Alignment explanation
Indices: 1904081--1904248 Score: 221
Period size: 58 Copynumber: 2.9 Consensus size: 57
1904071 ACATTGGTCA
* * * *
1904081 AATGTGCTGATTAAAGACCAACGATATTGGGCTTGGCAAAGAAGGTTTGACAAGTGCC
1 AATGTGCTGAATCAAGGCCAACGA-ATTGGGCTTGACAAAGAAGGTTTGACAAGTGCC
* * *
1904139 AATGTGCTGAATCAAGGCCAGCGACATTGAGCTTGATAAAGAAGGTTTGACAAGTGCC
1 AATGTGCTGAATCAAGGCCAACGA-ATTGGGCTTGACAAAGAAGGTTTGACAAGTGCC
* *
1904197 AATGTGCT-AATTCAAGGCCAACTAATTGGGCTTGAGAAAGAAGGTTTGACAA
1 AATGTGCTGAA-TCAAGGCCAACGAATTGGGCTTGACAAAGAAGGTTTGACAA
1904249 ATACTGCATG
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
57 28 0.29
58 69 0.71
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (57 bp):
AATGTGCTGAATCAAGGCCAACGAATTGGGCTTGACAAAGAAGGTTTGACAAGTGCC
Found at i:1904385 original size:31 final size:30
Alignment explanation
Indices: 1904348--1904437 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 30
1904338 CTTTTGGGTG
*
1904348 CCACCAACTCATGTAGGCTTGGAAAAGGTTA
1 CCACCAACTCATGT-GGCTTTGAAAAGGTTA
* * *
1904379 CCACCAACTCGTGTGAACTTTGAAAAGGTTG
1 CCACCAACTCATGTG-GCTTTGAAAAGGTTA
1904410 CCACCAACTCATGTGGACTTTGAAAAGG
1 CCACCAACTCATGTGG-CTTTGAAAAGG
1904438 CTGCCAAGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
30 1 0.02
31 50 0.98
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (30 bp):
CCACCAACTCATGTGGCTTTGAAAAGGTTA
Found at i:1904443 original size:31 final size:29
Alignment explanation
Indices: 1904346--1904660 Score: 193
Period size: 29 Copynumber: 10.0 Consensus size: 29
1904336 GACTTTTGGG
*
1904346 TGCCACCAACTCATGTAGG-CTTGGAAAAGGT
1 TGCCACCAACT--TGT-GGACTTTGAAAAGGT
* *
1904377 TACCACCAACTCGTGTGAACTTTGAAAAGGT
1 TGCCACCAACT--TGTGGACTTTGAAAAGGT
*
1904408 TGCCACCAACTCATGTGGACTTTGAAAAGGC
1 TGCCACCAACT--TGTGGACTTTGAAAAGGT
* *
1904439 TGCCAAGGCCACTGGCTTGTGTGGACTTTAAAAAAGATTGGT
1 TGCC-A--CCA---AC-T-TGTGGACTTT--GAAA-A--GGT
1904481 TGCCACCAACTTGTGTGGACTTTGAAAATGG-
1 TGCCACCAAC-T-TGTGGACTTTGAAAA-GGT
* *
1904512 TGCCACTAACTTGTGGACTTTGAAAAGGG
1 TGCCACCAACTTGTGGACTTTGAAAAGGT
* ** *
1904541 TACCACTGACTTGTGGACTTTGAAAAGGG
1 TGCCACCAACTTGTGGACTTTGAAAAGGT
** *
1904570 TGCCACTGACTTGTGGACTTTGAAAAGGG
1 TGCCACCAACTTGTGGACTTTGAAAAGGT
* **
1904599 TACCACTGACTTGTGGACTTTGAAAAGGT
1 TGCCACCAACTTGTGGACTTTGAAAAGGT
* **
1904628 TGCTATTAACTTGTGTGGACTTTGAAAAAGGT
1 TGCCACCAAC-T-TGTGGACTTTG-AAAAGGT
1904660 T
1 T
1904661 ACTCCGCTAG
Statistics
Matches: 243, Mismatches: 24, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.01
29 103 0.42
30 3 0.01
31 76 0.31
32 12 0.05
33 1 0.00
34 6 0.02
36 14 0.06
37 11 0.05
38 1 0.00
39 6 0.02
40 1 0.00
41 1 0.00
42 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
TGCCACCAACTTGTGGACTTTGAAAAGGT
Found at i:1904536 original size:29 final size:29
Alignment explanation
Indices: 1904494--1904655 Score: 234
Period size: 29 Copynumber: 5.5 Consensus size: 29
1904484 CACCAACTTG
* *
1904494 TGTGGACTTTGAAAATGGTGCCACTAACT
1 TGTGGACTTTGAAAAGGGTGCCACTGACT
*
1904523 TGTGGACTTTGAAAAGGGTACCACTGACT
1 TGTGGACTTTGAAAAGGGTGCCACTGACT
1904552 TGTGGACTTTGAAAAGGGTGCCACTGACT
1 TGTGGACTTTGAAAAGGGTGCCACTGACT
*
1904581 TGTGGACTTTGAAAAGGGTACCACTGACT
1 TGTGGACTTTGAAAAGGGTGCCACTGACT
* * * *
1904610 TGTGGACTTTGAAAAGGTTGCTATTAACTT
1 TGTGGACTTTGAAAAGGGTGCCACTGAC-T
1904640 GTGTGGACTTTGAAAA
1 -TGTGGACTTTGAAAA
1904656 AGGTTACTCC
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
29 105 0.87
30 1 0.01
31 15 0.12
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (29 bp):
TGTGGACTTTGAAAAGGGTGCCACTGACT
Found at i:1904582 original size:58 final size:58
Alignment explanation
Indices: 1904494--1904655 Score: 261
Period size: 58 Copynumber: 2.8 Consensus size: 58
1904484 CACCAACTTG
*
1904494 TGTGGACTTTGAAAATGGTGCCACTAACTTGTGGACTTTGAAAAGGGTACCACTGACT
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGGTACCACTGACT
*
1904552 TGTGGACTTTGAAAAGGGTGCCACTGACTTGTGGACTTTGAAAAGGGTACCACTGACT
1 TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGGTACCACTGACT
* * *
1904610 TGTGGACTTTGAAAAGGTTGCTATTAACTTGTGTGGACTTTGAAAA
1 TGTGGACTTTGAAAAGGGTGCCACTAAC-T-TGTGGACTTTGAAAA
1904656 AGGTTACTCC
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
58 80 0.83
59 1 0.01
60 15 0.16
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (58 bp):
TGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGACTTTGAAAAGGGTACCACTGACT
Found at i:1909861 original size:15 final size:15
Alignment explanation
Indices: 1909838--1909870 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1909828 ACAGAATTAT
1909838 AAATTAAAGAA-CAA
1 AAATTAAAGAAGCAA
1909852 AAATTGAAAGAAGCAA
1 AAATT-AAAGAAGCAA
1909868 AAA
1 AAA
1909871 AAAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 6 0.35
16 6 0.35
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATTAAAGAAGCAA
Found at i:1914560 original size:18 final size:18
Alignment explanation
Indices: 1914537--1914644 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 18
1914527 ATCTTCTTCT
1914537 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
1914555 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
1914576 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
*
1914597 CTCCTATCTCTACTATC-TCTC
1 CTCC--TC-CTCCTATCATC-C
1914618 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
1914639 CTCCTC
1 CTCCTC
1914645 TCTCTTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
17 3 0.04
18 14 0.20
19 4 0.06
20 6 0.09
21 22 0.31
22 6 0.09
23 4 0.06
24 8 0.11
25 3 0.04
ACGTcount: A:0.10, C:0.48, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:1914592 original size:42 final size:42
Alignment explanation
Indices: 1914540--1914658 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
1914530 TTCTTCTCTC
*
1914540 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1914582 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1914624 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1914659 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1914599 original size:12 final size:11
Alignment explanation
Indices: 1914573--1914648 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1914563 TCTATTATCT
*
1914573 CTCCTGTCTCTC
1 CTCCTATCTC-C
1914585 CTCCTATCATCC
1 CTCCTATC-TCC
1914597 CTCCTATCT--
1 CTCCTATCTCC
*
1914606 CTACTATCT--
1 CTCCTATCTCC
*
1914615 CTCCTGTCTCTC
1 CTCCTATCTC-C
1914627 CTCCTATCATCC
1 CTCCTATC-TCC
*
1914639 CTCCTCTCTC
1 CTCCTATCTC
1914649 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1917821 original size:21 final size:20
Alignment explanation
Indices: 1917782--1917829 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 20
1917772 TTGTTCCTAC
1917782 TTTTTTTATTTTTCCTTTGCTT
1 TTTTTTTATTTTT-CTTTG-TT
1917804 TTTTTTTCATTTTT-TTTGTT
1 TTTTTTT-ATTTTTCTTTGTT
1917824 TCTTTT
1 T-TTTT
1917830 GTGTTTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.12
21 8 0.33
22 7 0.29
23 6 0.25
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (20 bp):
TTTTTTTATTTTTCTTTGTT
Found at i:1918627 original size:23 final size:23
Alignment explanation
Indices: 1918597--1918642 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1918587 AAGGTTCCCA
**
1918597 TGGCAGCAACTTCTTTCAGCTGC
1 TGGCAGCAACCACTTTCAGCTGC
1918620 TGGCAGCAACCACTTTCAGCTGC
1 TGGCAGCAACCACTTTCAGCTGC
1918643 CAACAGCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.26
Consensus pattern (23 bp):
TGGCAGCAACCACTTTCAGCTGC
Found at i:1918649 original size:23 final size:23
Alignment explanation
Indices: 1918600--1918650 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1918590 GTTCCCATGG
** ***
1918600 CAGCAACTTCTTTCAGCTGCTGG
1 CAGCAACCACTTTCAGCTGCCAA
1918623 CAGCAACCACTTTCAGCTGCCAA
1 CAGCAACCACTTTCAGCTGCCAA
1918646 CAGCA
1 CAGCA
1918651 GCTAATCACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (23 bp):
CAGCAACCACTTTCAGCTGCCAA
Found at i:1920788 original size:103 final size:102
Alignment explanation
Indices: 1920606--1920824 Score: 276
Period size: 103 Copynumber: 2.1 Consensus size: 102
1920596 TTTTATTCAT
* * * *
1920606 GGGATACTCTAACCTTGCTCTTAAAAATTTTTCTAGATTTGAACTCCTCCATTGTCAAAATTATT
1 GGGATACTCTAACCCTACTCTTAAAAATTTATCAAGATTTGAACTCCTCCATTGTCAAAATTATT
*
1920671 TGTTATCCAAGGGAAAACTCCAACCCTAACCTTTAAAG
66 TGTTATCCAAGGGAAAACTCCAACCCT-ACCTTCAAAG
* * ** **
1920709 GGGATACTCTAACCCTACTTTTCAAAATTTATCAAGATTTGAACTTTTCTTTTGTCAAAATTATT
1 GGGATACTCTAACCCTACTCTTAAAAATTTATCAAGATTTGAACTCCTCCATTGTCAAAATTATT
* * * * **
1920774 TGTTATCCACGGGAATACTCCAACTCTATCTTCCGAG
66 TGTTATCCAAGGGAAAACTCCAACCCTACCTTCAAAG
1920811 GGGATACTCTAACC
1 GGGATACTCTAACC
1920825 TCGTTTTTAA
Statistics
Matches: 99, Mismatches: 17, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
102 20 0.20
103 79 0.80
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (102 bp):
GGGATACTCTAACCCTACTCTTAAAAATTTATCAAGATTTGAACTCCTCCATTGTCAAAATTATT
TGTTATCCAAGGGAAAACTCCAACCCTACCTTCAAAG
Found at i:1926336 original size:42 final size:42
Alignment explanation
Indices: 1926281--1926399 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1926271 TTCTTCTCTC
* *
1926281 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1926323 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1926365 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1926400 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1926340 original size:12 final size:11
Alignment explanation
Indices: 1926314--1926389 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1926304 TCTATTATCT
*
1926314 CTCCTGTCTCTC
1 CTCCTATCTC-C
1926326 CTCCTATCATCC
1 CTCCTATC-TCC
1926338 CTCCTATCT--
1 CTCCTATCTCC
*
1926347 CTACTATCT--
1 CTCCTATCTCC
*
1926356 CTCCTGTCTCTC
1 CTCCTATCTC-C
1926368 CTCCTATCATCC
1 CTCCTATC-TCC
*
1926380 CTCCTCTCTC
1 CTCCTATCTC
1926390 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Done.