Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 17 of 18
Found at i:2667715 original size:127 final size:127
Alignment explanation
Indices: 2667582--2667865 Score: 372
Period size: 127 Copynumber: 2.2 Consensus size: 127
2667572 TCTTTTAAAT
* * * *
2667582 CCACAACTTCATGGCACCTTTTTCTTTTTAAAGCTCATAACTTTGTGGCATCTT-TTCCTTTTCA
1 CCACAACTTCGTGGCACC-TTTTCTTTTTAAAGCTCACAACTCTGTGGCATCTTGTTCCTTTTAA
* * *
2667646 GTCTACAACTCCATGACACCCTTTTAAGTCCACAACCCCATGACACCTTTTTCTTTTCAAAGC
65 GCCCACAACTCCATGACACCCTTTTAAGTCCACAACCCCATGACACCTTTTTCTTTACAAAGC
* * *
2667709 CCACAACTTTGTGGCACCTTTTCTTTTCAAAGTTCACAACTCTGTGGCATCTTGTTCCTTTTAAG
1 CCACAACTTCGTGGCACCTTTTCTTTTTAAAGCTCACAACTCTGTGGCATCTTGTTCCTTTTAAG
* * * * * * *
2667774 CCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCGCCTTTTTCTTTACAAAGC
66 CCCACAACTCCATGACACCCTTTTAAGTCCACAACCCCATGACACCTTTTTCTTTACAAAGC
* * *
2667836 CCATAACTTCGTGGTATCTTTTCTTTTTAA
1 CCACAACTTCGTGGCACCTTTTCTTTTTAA
2667866 GTCCACAATT
Statistics
Matches: 134, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
126 31 0.23
127 103 0.77
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (127 bp):
CCACAACTTCGTGGCACCTTTTCTTTTTAAAGCTCACAACTCTGTGGCATCTTGTTCCTTTTAAG
CCCACAACTCCATGACACCCTTTTAAGTCCACAACCCCATGACACCTTTTTCTTTACAAAGC
Found at i:2667806 original size:93 final size:93
Alignment explanation
Indices: 2667709--2667895 Score: 234
Period size: 93 Copynumber: 2.0 Consensus size: 93
2667699 TTTTCAAAGC
** * **
2667709 CCACAACTTTGTGGCACC-TTTTCTTTTCAAAGTTCACAAC-TCTGTGGCATCTTGTTCCTTTTA
1 CCACAACTCCGTGGCACCTTTTTCTTTACAAAGCCCACAACTTC-GTGGCATCTT-TTCCTTTTA
*
2667772 AGCCCACAACTTCGTGGCACCCTTTTAAGT
64 AGCCCACAACTTCGTGACACCCTTTTAAGT
* * * *
2667802 CCACAACTCCGTGGCGCCTTTTTCTTTACAAAGCCCATAACTTCGTGGTATCTTTTCTTTTTAAG
1 CCACAACTCCGTGGCACCTTTTTCTTTACAAAGCCCACAACTTCGTGGCATCTTTTCCTTTTAAG
* *
2667867 TCCACAATTTCGTGACACCCTTTTAAGT
66 CCCACAACTTCGTGACACCCTTTTAAGT
2667895 C
1 C
2667896 TAAAACTTCG
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
93 51 0.64
94 27 0.34
95 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (93 bp):
CCACAACTCCGTGGCACCTTTTTCTTTACAAAGCCCACAACTTCGTGGCATCTTTTCCTTTTAAG
CCCACAACTTCGTGACACCCTTTTAAGT
Found at i:2667807 original size:220 final size:216
Alignment explanation
Indices: 2667382--2667895 Score: 561
Period size: 220 Copynumber: 2.4 Consensus size: 216
2667372 AGTGGCATCT
* * *
2667382 TTTTTCTTTTTTAAG-TCCACAACTTCATGGCACTCTTTTTCCTTTTAAGT-TCACAACTCCATG
1 TTTTTCTTTTTAAAGCT-CATAACTTCGTGGCA-TC-TTTTCCTTTTAAGTCT-ACAACTCCATG
* * ** ** * * * *
2667445 GCACCTTTTTAAGTCCACAATTCCATGGTATCTTTTCTCTAAGTCCACAACTCCGTGTCACCTTT
62 ACACCCTTTTAAGTCCACAACCCCATGACACCTTTTCTCAAAGCCCACAACTCCGTGGCACCTTT
* * *
2667510 TTTTTTAAGTCCACAACTCTGTGGCACATTTTTCTCTTTCAGAGCCCACAACTCCATGGCACTCT
127 TTTTTAAAGTCCACAACTCTGTGGCACATTGTTCTCTTTCAGAGCCCACAACTCCATGGCACCCT
*
2667575 TTTAAATCCACAACTTCATGGCACC
192 TTTAAATCCACAACTCCATGGCACC
* *
2667600 TTTTTCTTTTTAAAGCTCATAACTTTGTGGCATCTTTTCCTTTTCAGTCTACAACTCCATGACAC
1 TTTTTCTTTTTAAAGCTCATAACTTCGTGGCATCTTTTCCTTTTAAGTCTACAACTCCATGACAC
**
2667665 CCTTTTAAGTCCACAACCCCATGACACCTTTTTCTTTTCAAAGCCCACAACTTTGTGGCACCTTT
66 CCTTTTAAGTCCACAACCCCATGACACC-TTTTC---TCAAAGCCCACAACTCCGTGGCACCTTT
* * * *
2667730 TCTTTTCAAAGTTCACAACTCTGTGGCATC-TTGTTC-CTTTTA-AGCCCACAACTTCGTGGCAC
127 T-TTTT-AAAGTCCACAACTCTGTGGCA-CATTGTTCTCTTTCAGAGCCCACAACTCCATGGCAC
* * *
2667792 CCTTTTAAGTCCACAACTCCGTGGCGCC
189 CCTTTTAAATCCACAACTCCATGGCACC
** * * * * * * *
2667820 TTTTTCTTTACAAAGCCCATAACTTCGTGGTATCTTTTCTTTTTAAGTCCACAATTTCGTGACAC
1 TTTTTCTTTTTAAAGCTCATAACTTCGTGGCATCTTTTCCTTTTAAGTCTACAACTCCATGACAC
2667885 CCTTTTAAGTC
66 CCTTTTAAGTC
2667896 TAAAACTTCG
Statistics
Matches: 248, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
216 49 0.20
217 8 0.03
218 26 0.10
219 1 0.00
220 130 0.52
221 9 0.04
222 24 0.10
223 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (216 bp):
TTTTTCTTTTTAAAGCTCATAACTTCGTGGCATCTTTTCCTTTTAAGTCTACAACTCCATGACAC
CCTTTTAAGTCCACAACCCCATGACACCTTTTCTCAAAGCCCACAACTCCGTGGCACCTTTTTTT
TAAAGTCCACAACTCTGTGGCACATTGTTCTCTTTCAGAGCCCACAACTCCATGGCACCCTTTTA
AATCCACAACTCCATGGCACC
Found at i:2667905 original size:27 final size:27
Alignment explanation
Indices: 2667860--2667913 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2667850 TATCTTTTCT
* *
2667860 TTTTAAGTCCACAATTTCGTGACACCC
1 TTTTAAGTCCAAAACTTCGTGACACCC
*
2667887 TTTTAAGTCTAAAACTTCGTGACACCC
1 TTTTAAGTCCAAAACTTCGTGACACCC
2667914 CCTTCTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (27 bp):
TTTTAAGTCCAAAACTTCGTGACACCC
Found at i:2668125 original size:32 final size:32
Alignment explanation
Indices: 2668055--2668172 Score: 141
Period size: 32 Copynumber: 3.7 Consensus size: 32
2668045 ACCTACTTCA
* * **
2668055 AAAGCCTACACAAGTCGGTGGCAACCCCT-TC
1 AAAGCCCACACAAGTTGGTGGCAACCTTTCTC
2668086 AAAGCCCACACAAGTTGGTGGCAACCTTTCTC
1 AAAGCCCACACAAGTTGGTGGCAACCTTTCTC
* * *
2668118 AAAGCCCACTCAAGCTGGTGGCAACCATTTC-A
1 AAAGCCCACACAAGTTGGTGGCAACC-TTTCTC
*
2668150 AAAGCCCACATAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
2668173 TCTCCTTCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
31 25 0.33
32 46 0.61
33 4 0.05
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCTTTCTC
Found at i:2668242 original size:43 final size:43
Alignment explanation
Indices: 2668198--2668363 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 43
2668188 AATGTCGTTG
* *
2668198 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTATTG
1 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTACTA
* * * * * *
2668241 GCCTTTAATCAGTATATTAGCGCCTTTGTCATCTTTAAATCCAAT-TTCGCTA
1 GCCTTGAATCAGCACATT---G-----G-CACCTTTAAGTCCAATATT-ACTA
* *
2668293 GCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCACTA
1 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTACTA
*
2668336 GCCTTGAATCAGCATATTGGCACCTTTA
1 GCCTTGAATCAGCACATTGGCACCTTTA
2668364 CCATATTTAA
Statistics
Matches: 96, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
43 59 0.61
44 2 0.02
46 1 0.01
49 1 0.01
51 3 0.03
52 30 0.31
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (43 bp):
GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTACTA
Found at i:2668353 original size:95 final size:94
Alignment explanation
Indices: 2668198--2668411 Score: 275
Period size: 95 Copynumber: 2.3 Consensus size: 94
2668188 AATGTCGTTG
* * * * * * *
2668198 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTATTGGCCTTTAATCAGTATATTAGCG
1 GCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTAGCA
** * * *
2668263 CCTTTGTCATCTTTAAATCCAATTTCGCTA
66 CCTTTACCATATTTAAATCC-ATGTCACTA
*
2668293 GCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCA
1 GCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTAGCA
*
2668358 CCTTTACCATATTTAAGTCCATGTCACTA
66 CCTTTACCATATTTAAATCCATGTCACTA
* *
2668387 GCCTTAAATTAGCACATTGGCATCT
1 GCCTTGAATCAGCACATTGGCATCT
2668412 CCATCTTTAA
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
94 30 0.29
95 73 0.71
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (94 bp):
GCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTAGCA
CCTTTACCATATTTAAATCCATGTCACTA
Found at i:2668483 original size:143 final size:144
Alignment explanation
Indices: 2668270--2668598 Score: 426
Period size: 143 Copynumber: 2.3 Consensus size: 144
2668260 GCGCCTTTGT
* * * * * * * * *
2668270 CATCTTTAAATCCAATTTCGCTAGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCACT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACATATTGACACCTTTAAGTCCAAAATCACT
* * * *
2668335 AGCCTTGAATCAGCATATTGGCACCTTTACCATATTTAAGTCC-ATGTCACTAGCCTTAAATTAG
66 AGCCTTGAATCAGCATATTAGCACATTTACCACATTTAAGTCCAATATCACTAGCCTTAAATTAG
* * *
2668399 CACATTGGCATCTC
131 CACACTGCCACCTC
* * **
2668413 CATCTTTAAGTCTAATGTCGTTGGCCTTAAATCAACATATTGACACCTTTAAGTCCAAAATTGCT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACATATTGACACCTTTAAGTCCAAAATCACT
* * *
2668478 GGCCTTGAATCAGCATATTAGCACATTTACCACATTTAAGTCCAATATCGCTAGCCTTGAATTAG
66 AGCCTTGAATCAGCATATTAGCACATTTACCACATTTAAGTCCAATATCACTAGCCTTAAATTAG
*
2668543 CATACTGCCACCTC
131 CACACTGCCACCTC
*
2668557 CATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAACATATTG
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACATATTG
2668599 GCATCTTCAT
Statistics
Matches: 158, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
143 91 0.58
144 67 0.42
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (144 bp):
CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACATATTGACACCTTTAAGTCCAAAATCACT
AGCCTTGAATCAGCATATTAGCACATTTACCACATTTAAGTCCAATATCACTAGCCTTAAATTAG
CACACTGCCACCTC
Found at i:2668584 original size:49 final size:51
Alignment explanation
Indices: 2668459--2668595 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 51
2668449 ATATTGACAC
* * **
2668459 CTTTAAGTCCAAAATTGCTGGCCTTGAATCAGCATATTAGCACATTTACCA
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATACTAGCACACCTACCA
* * *
2668510 CATTTAAGTCCAATATCGCTAGCCTTGAATTAGCATACT-GC-CACCT-CCA
1 C-TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATACTAGCACACCTACCA
* * *
2668559 TCTTTAAGTCCAATGTTGTTGGCCTTGAATCAACATA
1 -CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATA
2668596 TTGGCATCTT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
49 32 0.45
50 4 0.06
51 3 0.04
52 32 0.45
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATACTAGCACACCTACCA
Found at i:2668610 original size:49 final size:48
Alignment explanation
Indices: 2668269--2668611 Score: 215
Period size: 43 Copynumber: 7.1 Consensus size: 48
2668259 AGCGCCTTTG
* * *
2668269 TCATCTTTAAATCCAATTTCGCTAGCCTTGAATCAGCACATTGG----
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACT
*
2668313 -CATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTT
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-C-T
* * * * * *
2668362 TACCATATTTAAGTCC-ATGTCACTAGCCTTAAATTAGCACATTGGCATCT
1 T--CATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CT
* * * * * * *
2668412 CCATCTTTAAGTCTAATGTCGTTGGCCTTAAATCAACATATT-G-A--
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACT
* * * * *
2668456 -CACCTTTAAGTCCAAAATTGCTGGCCTTGAATCAGCATATTAGCACATT
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCAC--T
* * *
2668505 TACCA-CATTTAAGTCCAATATCGCTAGCCTTGAATTAGCATACTGCCACCT
1 T--CATC-TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CT
* * * * * *
2668556 CCATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAACATATTGGCATCT
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CT
2668605 TCATCTT
1 TCATCTT
2668612 AAATATTGTT
Statistics
Matches: 232, Mismatches: 45, Indels: 39
0.73 0.14 0.12
Matches are distributed among these distances:
43 72 0.31
44 1 0.00
45 1 0.00
47 1 0.00
48 12 0.05
49 64 0.28
50 2 0.01
51 30 0.13
52 48 0.21
53 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (48 bp):
TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACT
Found at i:2678547 original size:24 final size:24
Alignment explanation
Indices: 2678493--2678549 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
2678483 CGTGGGGTTA
* *
2678493 ATGTGGCCAATGATGTGTTTGATG
1 ATGTGGCCAATGATGTGGTTAATG
** **
2678517 ACATGGCTGATGATGTGGTTAATG
1 ATGTGGCCAATGATGTGGTTAATG
2678541 ATGTGGCCA
1 ATGTGGCCA
2678550 TGAGATGACA
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (24 bp):
ATGTGGCCAATGATGTGGTTAATG
Found at i:2678663 original size:13 final size:13
Alignment explanation
Indices: 2678647--2678680 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2678637 TCGCTTATTG
2678647 ATGATGATATGGC
1 ATGATGATATGGC
*
2678660 ATGATGACATGGC
1 ATGATGATATGGC
*
2678673 TTGATGAT
1 ATGATGAT
2678681 TTCACTTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (13 bp):
ATGATGATATGGC
Found at i:2679189 original size:13 final size:13
Alignment explanation
Indices: 2679171--2679195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2679161 TACGATGAGC
2679171 AAGATATTCTAAT
1 AAGATATTCTAAT
2679184 AAGATATTCTAA
1 AAGATATTCTAA
2679196 CACCAACCAT
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
AAGATATTCTAAT
Found at i:2679796 original size:17 final size:16
Alignment explanation
Indices: 2679774--2679805 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2679764 TAAATAATGC
2679774 TTTCTTTTTCTTTTTTT
1 TTTCTTTTT-TTTTTTT
2679791 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
2679806 GCATTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTT
Found at i:2679805 original size:12 final size:11
Alignment explanation
Indices: 2679778--2679804 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2679768 TAATGCTTTC
2679778 TTTTTCTTTTT
1 TTTTTCTTTTT
2679789 TTTTTCTTTTT
1 TTTTTCTTTTT
2679800 TTTTT
1 TTTTT
2679805 TGCATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:2680115 original size:28 final size:28
Alignment explanation
Indices: 2680084--2680152 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
2680074 ACAAGCCATA
2680084 ATTTTTGACAAACAAAAAAGTAACCACC
1 ATTTTTGACAAACAAAAAAGTAACCACC
* *
2680112 ATTTTTGACAAA-TACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAAGTAACCACC
*
2680139 ATTTTTTACAAACA
1 ATTTTTGACAAACA
2680153 CAAAGGGTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 24 0.67
28 12 0.33
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (28 bp):
ATTTTTGACAAACAAAAAAGTAACCACC
Found at i:2681804 original size:400 final size:400
Alignment explanation
Indices: 2681063--2681863 Score: 1521
Period size: 400 Copynumber: 2.0 Consensus size: 400
2681053 CATTCTTCAG
2681063 ATACTGTTTTTGAGTCAAACAAAGCTTGCCTCTCTATCTGTCTCTATTTATCTCCATACCGAGAA
1 ATACTGTTTTTGAGTCAAACAAAGCTTGCCTCTCTATCTGTCTCTATTTATCTCCATACCGAGAA
*
2681128 TCTTTTTGGCCTCACCTTGATCCTTCATCTCAAACTCTTGATTCAACTGAGCCTTCAATTTGTCT
66 TCTTTTTGGCCTCACCTAGATCCTTCATCTCAAACTCTTGATTCAACTGAGCCTTCAATTTGTCT
* *
2681193 ATCTCTTTTTGACTCTTTGAAGCGATTAGTATATCATCAACGTACAAGAAGAGATAAATGAAAGA
131 ATCTCTTTTTGACTCTTTCAAACGATTAGTATATCATCAACGTACAAGAAGAGATAAATGAAAGA
* *
2681258 TCCATCTTGTAGCTTACGCAAATACACATAATGGTCGTATTTGCTTCTGGTGTACTTCTACCTTC
196 TCCATCTTGTAGCTTACGCAAATACACACAATGGTCATATTTGCTTCTGGTGTACTTCTACCTTC
*
2681323 TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCATATAGCGATTTG
261 TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCAAATAGCGATTTG
*
2681388 TTCAGCTTATAAACCTATTTTTCACCACCAGCATCCTTGTATCCTTCTGGCCGAGTCATGTAGAT
326 TTCAGCTTACAAACCTATTTTTCACCACCAGCATCCTTGTATCCTTCTGGCCGAGTCATGTAGAT
2681453 CTCCTCTTTT
391 CTCCTCTTTT
*
2681463 ATACTGTTTTTGAGTCAAACAAAGCTTGCCTCTCTATTTGTCTCTATTTATCTCCATACCGAGAA
1 ATACTGTTTTTGAGTCAAACAAAGCTTGCCTCTCTATCTGTCTCTATTTATCTCCATACCGAGAA
2681528 TCTTTTTGGCCTCACCTAGATCCTTCATCTCAAACTCTTGATTCAACTGAGCCTTCAATTTGTCT
66 TCTTTTTGGCCTCACCTAGATCCTTCATCTCAAACTCTTGATTCAACTGAGCCTTCAATTTGTCT
2681593 ATCTCTTTTTGACTCTTTCAAACGATTAGTATATCATCAACGTACAAGAAGAGATAAATGAAAGA
131 ATCTCTTTTTGACTCTTTCAAACGATTAGTATATCATCAACGTACAAGAAGAGATAAATGAAAGA
2681658 TCCATCTTGTAGCTTACGCAAATACACACAATGGTCATATTTGCTTCTGGTGTACTTCTACCTTC
196 TCCATCTTGTAGCTTACGCAAATACACACAATGGTCATATTTGCTTCTGGTGTACTTCTACCTTC
2681723 TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCAAATAGCGATTTG
261 TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCAAATAGCGATTTG
*
2681788 TTCAGCTTACAAACCTATTTTTCACCACCAGCATCCTTGTATCCTTTTGGCCGAGTCATGTAGAT
326 TTCAGCTTACAAACCTATTTTTCACCACCAGCATCCTTGTATCCTTCTGGCCGAGTCATGTAGAT
2681853 CTCCTCTTTT
391 CTCCTCTTTT
2681863 A
1 A
2681864 AATCATCGTG
Statistics
Matches: 392, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
400 392 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (400 bp):
ATACTGTTTTTGAGTCAAACAAAGCTTGCCTCTCTATCTGTCTCTATTTATCTCCATACCGAGAA
TCTTTTTGGCCTCACCTAGATCCTTCATCTCAAACTCTTGATTCAACTGAGCCTTCAATTTGTCT
ATCTCTTTTTGACTCTTTCAAACGATTAGTATATCATCAACGTACAAGAAGAGATAAATGAAAGA
TCCATCTTGTAGCTTACGCAAATACACACAATGGTCATATTTGCTTCTGGTGTACTTCTACCTTC
TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCAAATAGCGATTTG
TTCAGCTTACAAACCTATTTTTCACCACCAGCATCCTTGTATCCTTCTGGCCGAGTCATGTAGAT
CTCCTCTTTT
Found at i:2682473 original size:21 final size:22
Alignment explanation
Indices: 2682435--2682480 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2682425 TTATGTTGAA
* **
2682435 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
2682456 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
2682478 ACT
1 ACT
2682481 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:2684949 original size:13 final size:13
Alignment explanation
Indices: 2684931--2684961 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2684921 TGAATTGAAA
2684931 AGGGATACAAGAG
1 AGGGATACAAGAG
*
2684944 AGGGATACATGAG
1 AGGGATACAAGAG
2684957 AGGGA
1 AGGGA
2684962 GGACGGAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.42, T:0.10
Consensus pattern (13 bp):
AGGGATACAAGAG
Found at i:2685086 original size:29 final size:27
Alignment explanation
Indices: 2685046--2685113 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
2685036 ATAAGCCATA
**
2685046 ATTTTTTACAAATAAAAAAGTAACCATT
1 ATTTTTTACAAAT-AAAAAGTAACCACC
*
2685074 ATTTTTTTACAAATACAAAGTAACCACC
1 A-TTTTTTACAAATAAAAAGTAACCACC
2685102 ATTTTTTACAAA
1 ATTTTTTACAAA
2685114 CACAAATGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.31
28 13 0.36
29 12 0.33
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (27 bp):
ATTTTTTACAAATAAAAAGTAACCACC
Found at i:2685093 original size:28 final size:27
Alignment explanation
Indices: 2685046--2685119 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2685036 ATAAGCCATA
* **
2685046 ATTTTTTACAAATAAAAAAGTAACCATT
1 ATTTTTTACAAAT-ACAAAGTAACCACC
2685074 ATTTTTTTACAAATACAAAGTAACCACC
1 A-TTTTTTACAAATACAAAGTAACCACC
*
2685102 ATTTTTTACAAACACAAA
1 ATTTTTTACAAATACAAA
2685120 TGGTGGCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 16 0.39
28 13 0.32
29 12 0.29
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (27 bp):
ATTTTTTACAAATACAAAGTAACCACC
Found at i:2687793 original size:53 final size:54
Alignment explanation
Indices: 2687739--2687837 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 54
2687729 TATTATTTAA
*
2687739 TAATA-AAAAAT-A-TTTTTATTTAAATTTATTTATAAAATTT-ATAAAAATAT
1 TAATATAAAAATAATTTTTTATTTAAATTAATTTATAAAATTTAATAAAAATAT
** *
2687789 TAATATAAAAATAATTTTTTATTTTTATTAATTTATAAATTTTAATAAA
1 TAATATAAAAATAATTTTTTATTTAAATTAATTTATAAAATTTAATAAA
2687838 GAGTAATTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 5 0.12
51 6 0.15
52 1 0.02
53 24 0.59
54 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (54 bp):
TAATATAAAAATAATTTTTTATTTAAATTAATTTATAAAATTTAATAAAAATAT
Found at i:2690332 original size:19 final size:20
Alignment explanation
Indices: 2690286--2690344 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
2690276 AATAAAAAAT
*
2690286 ATTTTTAAT--TTTATATTT
1 ATTTTTAATAATTTATATTA
*
2690304 ATTATTAATAATTTAT-TTA
1 ATTTTTAATAATTTATATTA
2690323 ATTTTTAATAATTT-TATTA
1 ATTTTTAATAATTTATATTA
2690342 ATT
1 ATT
2690345 AAATCAACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 21 0.60
20 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTTAATAATTTATATTA
Found at i:2703013 original size:50 final size:50
Alignment explanation
Indices: 2702959--2703055 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
2702949 TTGAATATGA
* *
2702959 AATTAATTTTATTAATATTTAAATATTTTGTAACATTTAAATTAAAAGAC
1 AATTAATTTTATAAATATTTAAATATTTTGTAACATTTAAATAAAAAGAC
* * *
2703009 AATTACTTTTATAAATATTTAATTTTTTTGTAACATTTAAATAAAAA
1 AATTAATTTTATAAATATTTAAATATTTTGTAACATTTAAATAAAAA
2703056 AAAATACTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (50 bp):
AATTAATTTTATAAATATTTAAATATTTTGTAACATTTAAATAAAAAGAC
Found at i:2704117 original size:19 final size:19
Alignment explanation
Indices: 2704086--2704229 Score: 101
Period size: 20 Copynumber: 7.1 Consensus size: 19
2704076 ACCCAGATGT
2704086 ATGATACATTGTATCGATAC
1 ATGATA-ATTGTATCGATAC
*
2704106 ATGATTATTGTATCGATAC
1 ATGATAATTGTATCGATAC
2704125 ATGGATAATTGTATCGATAC
1 AT-GATAATTGTATCGATAC
* * * *
2704145 ATGA-AACTAGCAGTAGCTACCC
1 ATGATAA-TTGTA-TCGATA--C
** **
2704167 TACCACTGTTTGTATCGATAC
1 -ATGA-TAATTGTATCGATAC
*
2704188 ATGGTACATTGTATCGATAC
1 ATGATA-ATTGTATCGATAC
2704208 ATGATGAATTGTATCGATAC
1 ATGAT-AATTGTATCGATAC
2704228 AT
1 AT
2704230 TGTTTGTAAC
Statistics
Matches: 94, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.02
19 21 0.22
20 59 0.63
21 2 0.02
22 1 0.01
23 6 0.06
24 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ATGATAATTGTATCGATAC
Found at i:2707327 original size:13 final size:13
Alignment explanation
Indices: 2707309--2707333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2707299 CATAAAGTGT
2707309 TGTATCGATACAA
1 TGTATCGATACAA
2707322 TGTATCGATACA
1 TGTATCGATACA
2707334 TAAGTTTTGT
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:2707349 original size:32 final size:33
Alignment explanation
Indices: 2707289--2707357 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
2707279 TTCAACGATT
2707289 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2707322 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2707354 TGTA
1 TGTA
2707358 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2707413 original size:13 final size:13
Alignment explanation
Indices: 2707395--2707419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2707385 ATTACTCAAA
2707395 TGTATCGATACAT
1 TGTATCGATACAT
2707408 TGTATCGATACA
1 TGTATCGATACA
2707420 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2712142 original size:29 final size:29
Alignment explanation
Indices: 2712108--2712165 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2712098 AAATTTCACA
2712108 AAAATCATTATGATTATTCATAACTATAT
1 AAAATCATTATGATTATTCATAACTATAT
2712137 AAAATCATTATGATTATTCATAACTATAT
1 AAAATCATTATGATTATTCATAACTATAT
2712166 GTAATTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATCATTATGATTATTCATAACTATAT
Found at i:2712597 original size:153 final size:152
Alignment explanation
Indices: 2712307--2712657 Score: 392
Period size: 153 Copynumber: 2.3 Consensus size: 152
2712297 ATTAAGAAAA
* * *
2712307 AGTTTTGAAAATTTTAATTTATTTTATAAGTTTTAGAATTTTTTCTACTGCCGAGATACAGAGCT
1 AGTTTTGAAAATTTTAATTTATTTTATGAGTTTTAGAATTTTTT-TACTACCAAGATACAGAGCT
* * * *
2712372 TTCCTTTCTGTAAATTTCTCTTTCAGGATTTTTCTAAGTTTATAATTTTAAAAATTCTTTAAATA
65 TTCCTATCTATAAATTTCTCGTTCAGGATTTTTCTAAGTTTATAATTTTAAAAATTCATTAAATA
*
2712437 TTATTATTTAATTCATATTAAAT
130 TTATTATTAAATTCATATTAAAT
*
2712460 CAGTTTTGAAAATTTTAATTTATTTTATGAGTTTTAGAATTTTTTTGA-TACCAAGATACGGAG-
1 -AGTTTTGAAAATTTTAATTTATTTTATGAGTTTTAGAATTTTTTT-ACTACCAAGATACAGAGC
* * *
2712523 TTTTCTAATCTATAAATTTCTCGAGTT-A-GATTTTTCTCA--TTATGAAATTTTTAAAATTCAT
64 TTTCCT-ATCTATAAATTTCTC--GTTCAGGATTTTTCTAAGTTTAT--AATTTTAAAAATTCAT
* * *
2712584 TGAATATTTTTATTAAATTCATTTTAAAT
124 TAAATATTATTATTAAATTCATATTAAAT
** * * *
2712613 AACTTTGTAAAACTTCAATTTATTTTATGAGTTTT-GCATTTTTTT
1 AGTTTTG-AAAATTTTAATTTATTTTATGAGTTTTAGAATTTTTTT
2712658 TTATATAACA
Statistics
Matches: 170, Mismatches: 20, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
151 4 0.02
152 19 0.11
153 100 0.59
154 45 0.26
155 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (152 bp):
AGTTTTGAAAATTTTAATTTATTTTATGAGTTTTAGAATTTTTTTACTACCAAGATACAGAGCTT
TCCTATCTATAAATTTCTCGTTCAGGATTTTTCTAAGTTTATAATTTTAAAAATTCATTAAATAT
TATTATTAAATTCATATTAAAT
Found at i:2712604 original size:22 final size:19
Alignment explanation
Indices: 2712565--2712606 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
2712555 TTTCTCATTA
2712565 TGAAATTTTTAAAATTCAT
1 TGAAATTTTTAAAATTCAT
2712584 TGAATATTTTTATTAAATTCAT
1 TGAA-ATTTTTA--AAATTCAT
2712606 T
1 T
2712607 TTAAATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
22 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (19 bp):
TGAAATTTTTAAAATTCAT
Found at i:2712830 original size:14 final size:14
Alignment explanation
Indices: 2712811--2712849 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2712801 AATAATAACT
2712811 CTTAATTTTTATAA
1 CTTAATTTTTATAA
*
2712825 CTTAATCTTTATAA
1 CTTAATTTTTATAA
*
2712839 -TTAAATTTTAT
1 CTTAATTTTTAT
2712850 GGTATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (14 bp):
CTTAATTTTTATAA
Found at i:2713324 original size:21 final size:19
Alignment explanation
Indices: 2713285--2713327 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
2713275 ACTTTATGAA
2713285 TTTTGATGATTTAGTTGAT
1 TTTTGATGATTTAGTTGAT
*
2713304 TTTTGTTGTATTTAGGTTGAT
1 TTTTGATG-ATTTA-GTTGAT
2713325 TTT
1 TTT
2713328 CATTATGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.63
Consensus pattern (19 bp):
TTTTGATGATTTAGTTGAT
Found at i:2713387 original size:39 final size:38
Alignment explanation
Indices: 2713344--2713423 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 38
2713334 GATGTTTTAC
2713344 GTTCATTAGTAGAAATTAGATTATCTTCATGAACAATAT
1 GTTCATTAGTAGAAATTAGATTATCTTCATGAAC-ATAT
*
2713383 GTTCATTAGTAGAAATTATATTATCTTCATGAACATAT
1 GTTCATTAGTAGAAATTAGATTATCTTCATGAACATAT
2713421 GTT
1 GTT
2713424 TTGTGATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 7 0.17
39 33 0.82
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (38 bp):
GTTCATTAGTAGAAATTAGATTATCTTCATGAACATAT
Found at i:2714416 original size:163 final size:167
Alignment explanation
Indices: 2714117--2714436 Score: 422
Period size: 163 Copynumber: 1.9 Consensus size: 167
2714107 ATGTAGAGAC
* * *
2714117 TAAAATGAAAATTTTAAAAAATTTAGGGACTAAATAGTAAATTTGGTTTTTAGAAGAAAAATAGC
1 TAAAATGAAAATTTTAAAAAAGTTAGGGACTAAATAGCAAATTTGGATTTTAGAAGAAAAATAGC
* * * **
2714182 TATCTTAGTCATTTTCTTTAAATTTCTATTATTCCCATAGTCTTTCATAGGGTTATAGAAATTTT
66 TATCTTAGTCATCTTCTTTAAATTTCTATCATTCCCATAGTCTTCCATAGGAATATAGAAATTTT
*
2714247 TAAAACTTTTCATTTCCACTCGATTTTTCGTCAAGTA
131 TAAAACTTTTCATATCCACTCGATTTTTCGTCAAGTA
*
2714284 TAAAATG-AAATTTT-CAAAAGTT-GGG-CTAAATAGCAAATTTGGATTTTAGAAGAAAAA-A-C
1 TAAAATGAAAATTTTAAAAAAGTTAGGGACTAAATAGCAAATTTGGATTTTAGAAGAAAAATAGC
* *
2714343 GTCATCTTAGTCATCTTCTTTAGATTTCTATCA-TCCCTATGGTCTTCCATAGGAATATA-AAAT
66 -T-ATCTTAGTCATCTTCTTTAAATTTCTATCATTCCC-ATAGTCTTCCATAGGAATATAGAAA-
* *
2714406 TTTTTAAAACTTTTCGTATCCTCTCGATTTT
127 TTTTTAAAACTTTTCATATCCACTCGATTTT
2714437 CTATCAAGTA
Statistics
Matches: 135, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
161 1 0.01
162 9 0.07
163 102 0.76
164 3 0.02
165 6 0.04
166 7 0.05
167 7 0.05
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (167 bp):
TAAAATGAAAATTTTAAAAAAGTTAGGGACTAAATAGCAAATTTGGATTTTAGAAGAAAAATAGC
TATCTTAGTCATCTTCTTTAAATTTCTATCATTCCCATAGTCTTCCATAGGAATATAGAAATTTT
TAAAACTTTTCATATCCACTCGATTTTTCGTCAAGTA
Found at i:2714891 original size:156 final size:154
Alignment explanation
Indices: 2714611--2714933 Score: 389
Period size: 156 Copynumber: 2.1 Consensus size: 154
2714601 ATAGGGACAC
* * *
2714611 TTTTGTAATTTTTTTAAAATGAGTCTTAAGTTGTCATTGAGATGCTTTTATGCCAAAGGTTGGTA
1 TTTTGTAATTTTTTAAAAATGAGTCATAAGTTGTCATTGAGATGCTTTTATGCCAAAGGTGGGTA
* * ** * * ** *
2714676 TCTAGGATAGGTTCATCCCATCTATGATCCTTTTTAAGTATTTTAAGGTTACCGGATACTTTTAT
66 TCTAAGATAGGTTCATCCCATCTATGATCCTTTTTAAGCACCTCAAGGTCACCACATACTTTCAT
* *
2714741 GTCGAAGGTATACCCATAAAGGTA
131 ATCAAAGGTATACCCATAAAGGTA
* *
2714765 TTTTCGTAATTTTTTCAAAAATGAGTCATAGGTTGTCATTG-GAATGCTTTTATGCCAAATGTGG
1 TTTT-GTAATTTTTT-AAAAATGAGTCATAAGTTGTCATTGAG-ATGCTTTTATGCCAAAGGTGG
* * *
2714829 GTATTTAAGATAGGTTCAT-CCGTCTATGATCCTTTTTAAGCCCCTCAAGGTCACCTACATACTT
63 GTATCTAAGATAGGTTCATCCCATCTATGATCCTTTTTAAGCACCTCAAGGTCACC-ACATACTT
* **
2714893 TCATATCAAAGGTATACCTATAGGGGTA
127 TCATATCAAAGGTATACCCATAAAGGTA
2714921 TTTTTGTAATTTT
1 -TTTTGTAATTTT
2714934 CTTAGAACCT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
154 4 0.03
155 40 0.28
156 94 0.66
157 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (154 bp):
TTTTGTAATTTTTTAAAAATGAGTCATAAGTTGTCATTGAGATGCTTTTATGCCAAAGGTGGGTA
TCTAAGATAGGTTCATCCCATCTATGATCCTTTTTAAGCACCTCAAGGTCACCACATACTTTCAT
ATCAAAGGTATACCCATAAAGGTA
Found at i:2715702 original size:165 final size:164
Alignment explanation
Indices: 2715523--2716015 Score: 524
Period size: 166 Copynumber: 3.0 Consensus size: 164
2715513 AAAATTCCCT
* * *
2715523 AAATATTATTATTTAA-TCACCAGTAAATCAGTTTTAAAAAATTTCATTCATTTTTACAAGTTTT
1 AAATATTATTATTTAATTCA-TAGTAAATCATTTTTAAAAAA-TTCATTCATTTTTACGAGTTTT
* *
2715587 TCATTTTTTTCTTAAAATTCTCT-TGTTTCGAAATACAGAGTTTTCTACTCCATAAATGTTTTGA
64 TCATTTTTTTCTTGAAATTCTCTAT-TTTCGAAAAACAGAGTTTTCTACTCCATAAATGTTTTGA
2715651 TGGGGATTTTTCTTGTTTTATAA-TTTTAAAATTCATC
128 -GGGGATTTTTCTTGTTTTATAAGTTTTAAAATTCATC
* * * * *
2715688 AAATATTTTTATTTAATTCATATTAAATCATTTTTCAAAAATTCATTCA-TTTTCCTGAGATTTT
1 AAATATTATTATTTAATTCATAGTAAATCATTTTTAAAAAATTCATTCATTTTTAC-GAGTTTTT
* * * *
2715752 CATTTTTTTTCCTTGAAATTCTCTCATTTTTGAAAAACGGAG--TTCTGCTCCATAAATGTTTTC
65 CA-TTTTTTT-CTTGAAATTCTCT-ATTTTCGAAAAACAGAGTTTTCTACTCCATAAATGTTTTG
* *
2715815 AGGGGGATTTTTTTTAGTTTT-TAATTTTTAAAATTCATC
127 A-GGGGATTTTTCTT-GTTTTATAAGTTTTAAAATTCATC
* * * * *
2715854 AAATATTATTATTTAATTCATAGTATATTATTTTTTAAAAAA-TCATTTATTTTCATGAGTTTTT
1 AAATATTATTATTTAATTCATAGTAAATCA-TTTTTAAAAAATTCATTCATTTTTACGAGTTTTT
* *
2715918 CA-TTTTTTCTTTGAAA-TCTTCTAATTTTCGAAAAACTA-AGTTTTTTACTCCGTAAATGTTTT
65 CATTTTTTTC-TTGAAATTC-TCT-ATTTTCGAAAAAC-AGAGTTTTCTACTCCATAAATGTTTT
* *
2715980 CG-GGAGGATTTTTCTTGATTTAAAAGTTTTAAAATT
126 -GAGG-GGATTTTTCTTGTTTTATAAGTTTTAAAATT
2716016 TTTAAAATTC
Statistics
Matches: 273, Mismatches: 37, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
163 8 0.03
164 45 0.16
165 80 0.29
166 114 0.42
167 25 0.09
168 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (164 bp):
AAATATTATTATTTAATTCATAGTAAATCATTTTTAAAAAATTCATTCATTTTTACGAGTTTTTC
ATTTTTTTCTTGAAATTCTCTATTTTCGAAAAACAGAGTTTTCTACTCCATAAATGTTTTGAGGG
GATTTTTCTTGTTTTATAAGTTTTAAAATTCATC
Found at i:2715872 original size:22 final size:22
Alignment explanation
Indices: 2715846--2715891 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2715836 TAATTTTTAA
2715846 AATTCATCA-AATATTATTATTT
1 AATTCAT-AGAATATTATTATTT
* *
2715868 AATTCATAGTATATTATTTTTT
1 AATTCATAGAATATTATTATTT
2715890 AA
1 AA
2715892 AAAATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTCATAGAATATTATTATTT
Found at i:2717039 original size:154 final size:154
Alignment explanation
Indices: 2716750--2717166 Score: 504
Period size: 154 Copynumber: 2.7 Consensus size: 154
2716740 GTCATCACCA
* * *
2716750 AGATGCTTTTATGCCAAAAGTGTGCATTTAGGATAGATTCGTCACATTTATGATCCTTTTTAAGT
1 AGATGCTTTTATGCCAAAAGTGTGCATTTAGGATAGGTTCGTCCCATTTATGATCATTTTTAAGT
* * *
2716815 C-ATTAGGATTACCAAGATACTTTGATGTCGAAAGTATACCCTAAGGGTATTTTAATAATTTTTT
66 CTTTTAGGATTACCGAGATACTTTCATGTCGAAAGTATACCCTAAGGGTATTTTAATAATTTTTT
** *
2716879 GGAACCGAGTCTTAGGTTAG-TACT
131 AAAACCGAGTCCTAGGTT-GTTACT
* * *
2716903 GAGATGCTTTTATGTCAAATGTGTGCATTTAGGATAGGTTCATCCCATTTACT-ATCATTTTTAA
1 -AGATGCTTTTATGCCAAAAGTGTGCATTTAGGATAGGTTCGTCCCATTTA-TGATCATTTTTAA
* * * **
2716967 ATCTTTTAGGGTTACCGAGATACTTTCATGTCGAAAGTATA-CTTGAAGGGTATTTTTGTAA-TT
64 GTCTTTTAGGATTACCGAGATACTTTCATGTCGAAAGTATACCCT-AAGGGTATTTTAATAATTT
2717030 TTTAAAACCGAGTCCTAGGTTGTTACT
128 TTTAAAACCGAGTCCTAGGTTGTTACT
* * * *
2717057 AGGATGCTTTTCTGCCAAAGGTGTGCATTTAGGATAGGTCCGTCCCATTTATGCTCATTTTTAAG
1 A-GATGCTTTTATGCCAAAAGTGTGCATTTAGGATAGGTTCGTCCCATTTATGATCATTTTTAAG
* * * * *
2717122 TCCTTTT-GGACTACCGAGATACTTTCACGTTGAAGGTATGCCCTA
65 T-CTTTTAGGATTACCGAGATACTTTCATGTCGAAAGTATACCCTA
2717167 GGGACATTTA
Statistics
Matches: 224, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
153 3 0.01
154 166 0.74
155 55 0.25
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (154 bp):
AGATGCTTTTATGCCAAAAGTGTGCATTTAGGATAGGTTCGTCCCATTTATGATCATTTTTAAGT
CTTTTAGGATTACCGAGATACTTTCATGTCGAAAGTATACCCTAAGGGTATTTTAATAATTTTTT
AAAACCGAGTCCTAGGTTGTTACT
Found at i:2724807 original size:13 final size:13
Alignment explanation
Indices: 2724788--2724821 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2724778 TATGTTCTTA
*
2724788 GTATCGATACATT
1 GTATCGATACACT
*
2724801 TTATCGATACACT
1 GTATCGATACACT
2724814 GTATCGAT
1 GTATCGAT
2724822 GCATGGGCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACACT
Found at i:2724957 original size:21 final size:20
Alignment explanation
Indices: 2724914--2724957 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2724904 AATTCAATCC
* **
2724914 TCAAATTCTTCAAATATTTT
1 TCAAATTCATCAAATATACT
2724934 TCAAATTTCATCAAATATACT
1 TCAAA-TTCATCAAATATACT
2724955 TCA
1 TCA
2724958 TTACTCTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
TCAAATTCATCAAATATACT
Found at i:2727524 original size:19 final size:20
Alignment explanation
Indices: 2727480--2727551 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
2727470 ACACCCAAAT
2727480 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
2727500 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
* * *
2727519 GTATCGATACACACTGAATTA
1 GTATCGATACATATTG-CTTA
2727540 -TATCGATACATA
1 GTATCGATACATA
2727552 AAACTGGGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.36
20 25 0.60
21 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:2727596 original size:13 final size:13
Alignment explanation
Indices: 2727578--2727615 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
2727568 AACTCACTCA
2727578 GTATCGATACA-G
1 GTATCGATACATG
2727590 TGTATCGATACATG
1 -GTATCGATACATG
2727604 GTATCGATACAT
1 GTATCGATACAT
2727616 TGAGCCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:2733167 original size:156 final size:155
Alignment explanation
Indices: 2732883--2733196 Score: 520
Period size: 156 Copynumber: 2.0 Consensus size: 155
2732873 TCTATAATTG
* *
2732883 GTAGGGCACAAAATAGTTATACAACGGTGAGTCTTGACACATTCATTGAAGATGCAATATCATAA
1 GTAGGGCACAAAATAGTTATACAACGATAAGTCTTGACACATTCATTGAAGATGCAATATCATAA
* * *
2732948 GACAATTGCTCTTAAATGAAATTATCTTTATTGATTATGTAAAATCAAAGAATGATATTGCGGAT
66 AACAATTACTCTTAAATAAAATTATCTTTATTGATTATGTAAAATCAAAGAATGATATTGCGGAT
2733013 CGCTAACAAAAAATTTAACGAGAGTA
131 CGCTAACAAAAAATTTAACGAGAG-A
* * *
2733039 GTAGGGCACAAAATAGTTATATAACGATAAGTCTTGATACATTCATTGAAGATGTAATATCATAA
1 GTAGGGCACAAAATAGTTATACAACGATAAGTCTTGACACATTCATTGAAGATGCAATATCATAA
*
2733104 AACAATTACTCTTAAATAAAATTATCTTTATTGATTATGTAAAATCAAATAATGATATTGCGGAT
66 AACAATTACTCTTAAATAAAATTATCTTTATTGATTATGTAAAATCAAAGAATGATATTGCGGAT
**
2733169 CGCTAACAAAAGGTTTAACGAGAGA
131 CGCTAACAAAAAATTTAACGAGAGA
2733194 GTA
1 GTA
2733197 AGCCTTTAAA
Statistics
Matches: 147, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
155 4 0.03
156 143 0.97
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (155 bp):
GTAGGGCACAAAATAGTTATACAACGATAAGTCTTGACACATTCATTGAAGATGCAATATCATAA
AACAATTACTCTTAAATAAAATTATCTTTATTGATTATGTAAAATCAAAGAATGATATTGCGGAT
CGCTAACAAAAAATTTAACGAGAGA
Found at i:2735231 original size:79 final size:76
Alignment explanation
Indices: 2735090--2735243 Score: 220
Period size: 79 Copynumber: 2.0 Consensus size: 76
2735080 AGATCCAATT
2735090 TTTTAATTAAAACAACTTAACAAGCTCTTAAAAAAAGTTATATGATTGTCAAGTATTTAATTAAT
1 TTTTAATTAAAACAACTTAACAAGCTCTTAAAAAAAGTTATATGATTGTCAAGTATTTAATTAAT
2735155 ATTTAAAAAAA
66 ATTTAAAAAAA
* * * * *
2735166 TTTTAATTAAAACAATTTTACAAGCTTTTACTTAAAAGAA-TTTTATGATTGTCACGTATTTAAT
1 TTTTAATTAAAACAACTTAACAAGC---T-CTTAAAAAAAGTTATATGATTGTCAAGTATTTAAT
2735230 TAATATTTAAAAAA
62 TAATATTTAAAAAA
2735244 TTAAATATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
76 23 0.33
79 37 0.54
80 9 0.13
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (76 bp):
TTTTAATTAAAACAACTTAACAAGCTCTTAAAAAAAGTTATATGATTGTCAAGTATTTAATTAAT
ATTTAAAAAAA
Found at i:2735676 original size:5 final size:5
Alignment explanation
Indices: 2735666--2735696 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
2735656 ATTTGTCCAC
*
2735666 AATAG AATAG AATAA AATAG AATAG AATAG A
1 AATAG AATAG AATAG AATAG AATAG AATAG A
2735697 GGACAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:2738873 original size:2 final size:2
Alignment explanation
Indices: 2738868--2738893 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2738858 GGGGGGGGGG
2738868 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
2738894 TGAGGGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2741910 original size:2 final size:2
Alignment explanation
Indices: 2741905--2741933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2741895 TTTTTTTCAA
2741905 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2741934 AAGAAAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2743785 original size:21 final size:21
Alignment explanation
Indices: 2743738--2743787 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
2743728 TTTAACTAAA
2743738 AATTTAATCTTTTAAATATTT
1 AATTTAATCTTTTAAATATTT
* *
2743759 ATATTTAGTTTTTTAAA-ATTTT
1 A-ATTTAATCTTTTAAATA-TTT
2743781 AATTTAA
1 AATTTAA
2743788 CTCGTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTAATCTTTTAAATATTT
Found at i:2744142 original size:15 final size:15
Alignment explanation
Indices: 2744122--2744153 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2744112 GCAAATATAT
2744122 ATATAATTTTTTAAA
1 ATATAATTTTTTAAA
2744137 ATATAATTTTTTAAA
1 ATATAATTTTTTAAA
2744152 AT
1 AT
2744154 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATAATTTTTTAAA
Found at i:2745282 original size:21 final size:23
Alignment explanation
Indices: 2745256--2745304 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2745246 ATATTATATA
2745256 TATATATAA-ATTT-AAACATGT
1 TATATATAATATTTGAAACATGT
* *
2745277 TATATATAATATTTGACACATTT
1 TATATATAATATTTGAAACATGT
2745300 TATAT
1 TATAT
2745305 TATATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 11 0.46
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (23 bp):
TATATATAATATTTGAAACATGT
Found at i:2745357 original size:11 final size:11
Alignment explanation
Indices: 2745298--2745358 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
2745288 TTTGACACAT
2745298 TTTATATTATA
1 TTTATATTATA
* *
2745309 TTAATATTATT
1 TTTATATTATA
*
2745320 TTTATATTTTAA
1 TTTATATTAT-A
* *
2745332 TTAATTTTTATA
1 TTTA-TATTATA
2745344 TTTATATTATA
1 TTTATATTATA
2745355 TTTA
1 TTTA
2745359 AAAGATTTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
11 27 0.71
12 7 0.18
13 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTATATTATA
Found at i:2746114 original size:287 final size:268
Alignment explanation
Indices: 2745753--2746308 Score: 670
Period size: 287 Copynumber: 2.0 Consensus size: 268
2745743 AGCCCTTCCT
* *
2745753 CCACAATCGACTTTGACTCGGAACATTGGGGCCTTTCCTTTTTCTCATTTTTTAAAATAATTTCT
1 CCACAATCGACTTTCACTCGGAACATCGGGGCCTTTCCTTTTTCTCATTTTTTAAAATAATTTCT
2745818 CAAATTTCTTTTAATGATTTTTAAGTAAATCACTTGAAAAGTTAACTATAATTTATCAAAAATAG
66 CAAATTTCTTTTAATGATTTTTAAGTAAATCACTTG-AAA--T---T-T-A--T-T-AAAAATAG
** * *
2745883 CATACTTCTTCAAGAAAACCCAAAAAAAGAATATAAAATCTTAATTTTCTTTTTCACAGAAT-AA
119 CATACTTC-AAAAAAAAACCCAAAAAAAGAATATAAAATCTCAATTTTCTTTTTCACA-AATAAA
* *
2745947 AA-AGAAA-TAAGAAATCGAACATCTTCACAAAAGAAAAAAAATTGAATAATTTCTTTTTTTTTC
182 AACAGAAATTAA-AAATCGAAAATCTTCACAAAAG-AAAAAAATTGAATAATTTCTTTCTTTTTC
*
2746010 -TGACCTTAATCATCCTAAATATCC
245 GT-ACCCTAATCATCCTAAATATCC
* * * *
2746034 CCACAATCGACTTTCACTCGATGAGTAGCATCGGGGCTTTTCTTTTTTCTCGATTTTTTTAGATA
1 CCACAATCGACTTTCACTCG--GA--A-CATCGGGGCCTTTCCTTTTTCTC-ATTTTTTAAAATA
*
2746099 ATTTCTCAAATTTCTTTTAATGATTTTTAAGTAAATCACTTGAAATTTATTAAAAATAGTATACT
60 ATTTCTCAAATTTCTTTTAATGATTTTTAAGTAAATCACTTGAAATTTATTAAAAATAGCATACT
** *
2746164 TCAAAAAAAAACTTAAAAAAGGAATATAAAATCTCAATTTTCTTTTTCACAAATAAAAAAACGAG
125 TCAAAAAAAAACCCAAAAAAAGAATATAAAATCTCAATTTTCTTTTTCACAAAT--AAAAAC-AG
* *
2746229 AAATTAAAGATCGAAAATCTTCACAAAAGAAAAAAATTGAATAATTTCTTTCTTTTTCGTCCCCT
187 AAATTAAAAATCGAAAATCTTCACAAAAGAAAAAAATTGAATAATTTCTTTCTTTTTCGTACCCT
*
2746294 AATCATCCTATATAT
252 AATCATCCTAAATAT
2746309 TTTTTTCGTG
Statistics
Matches: 242, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
273 3 0.01
274 42 0.17
275 15 0.06
276 5 0.02
277 46 0.19
278 26 0.11
279 4 0.02
280 1 0.00
281 20 0.08
283 2 0.01
284 1 0.00
285 1 0.00
286 23 0.10
287 53 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (268 bp):
CCACAATCGACTTTCACTCGGAACATCGGGGCCTTTCCTTTTTCTCATTTTTTAAAATAATTTCT
CAAATTTCTTTTAATGATTTTTAAGTAAATCACTTGAAATTTATTAAAAATAGCATACTTCAAAA
AAAAACCCAAAAAAAGAATATAAAATCTCAATTTTCTTTTTCACAAATAAAAACAGAAATTAAAA
ATCGAAAATCTTCACAAAAGAAAAAAATTGAATAATTTCTTTCTTTTTCGTACCCTAATCATCCT
AAATATCC
Found at i:2746996 original size:27 final size:28
Alignment explanation
Indices: 2746944--2747001 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
2746934 TTTGTAAAAT
* *
2746944 TTTATTTTTTATATAGATTTTAATA-TA
1 TTTATTTTTTATATACATGTTAATATTA
*
2746971 TTTATTTATTTATAT-CATGTTCATATTA
1 TTTATTT-TTTATATACATGTTAATATTA
2746999 TTT
1 TTT
2747002 TTCATATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTATTTTTTATATACATGTTAATATTA
Found at i:2747007 original size:12 final size:12
Alignment explanation
Indices: 2746990--2747014 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2746980 TTATATCATG
2746990 TTCATATTATTT
1 TTCATATTATTT
2747002 TTCATATTATTT
1 TTCATATTATTT
2747014 T
1 T
2747015 ATATTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCATATTATTT
Found at i:2747366 original size:22 final size:23
Alignment explanation
Indices: 2747341--2747384 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2747331 TGAAGAACTA
* *
2747341 ATTTCATTAATTAAAAA-TATTT
1 ATTTCATAAACTAAAAACTATTT
2747363 ATTTCATAAACTAAAAACTATT
1 ATTTCATAAACTAAAAACTATT
2747385 ATAACATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTCATAAACTAAAAACTATTT
Found at i:2747540 original size:15 final size:16
Alignment explanation
Indices: 2747504--2747543 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
2747494 TTTAATATTT
*
2747504 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
2747521 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
2747536 ATAAAATT
1 ATAAAATT
2747544 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:2747546 original size:16 final size:17
Alignment explanation
Indices: 2747504--2747546 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2747494 TTTAATATTT
*
2747504 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
2747521 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
2747536 ATAAAATTTAT
1 ATAAAATTTAT
2747547 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:2747883 original size:58 final size:59
Alignment explanation
Indices: 2747813--2747929 Score: 155
Period size: 58 Copynumber: 2.0 Consensus size: 59
2747803 GAAATAATTT
* * *
2747813 TTTTTAATTAAATCATTATAATAAATTATA-AAAAAAAATCATGAATTGAGATATGATA
1 TTTTAAATTAAATCATTATAATAAATTATATAAAAAAAATCATGAATGGAGATACGATA
* * * **
2747871 TTTTAAATTAAATTATTATGATAAATTATATAAAATATGTCATGAATGGAGATACGATA
1 TTTTAAATTAAATCATTATAATAAATTATATAAAAAAAATCATGAATGGAGATACGATA
2747930 GAAATATAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
58 27 0.54
59 23 0.46
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (59 bp):
TTTTAAATTAAATCATTATAATAAATTATATAAAAAAAATCATGAATGGAGATACGATA
Found at i:2748041 original size:23 final size:24
Alignment explanation
Indices: 2748015--2748062 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2748005 ACATAACATG
*
2748015 AACACAACATAAAGAATAAT-TAA
1 AACACAACATAAAAAATAATATAA
*
2748038 AACATAACATAAAAAATAATATAA
1 AACACAACATAAAAAATAATATAA
2748062 A
1 A
2748063 TATAATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (24 bp):
AACACAACATAAAAAATAATATAA
Found at i:2748700 original size:21 final size:19
Alignment explanation
Indices: 2748670--2748721 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
2748660 AACACACAAA
2748670 TTTTTT-TCTTCGTATTCTAT
1 TTTTTTCTCTTC-TATTCT-T
*
2748690 TTTTTTCTCTTTCTTTTCTT
1 TTTTTTCTC-TTCTATTCTT
2748710 TTTTTCTCTCTT
1 TTTTT-TCTCTT
2748722 TTTCTTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 14 0.50
21 11 0.39
22 3 0.11
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTCTCTTCTATTCTT
Found at i:2748711 original size:17 final size:18
Alignment explanation
Indices: 2748691--2748728 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2748681 GTATTCTATT
*
2748691 TTTTTCTCTTTC-TTTTC
1 TTTTTCTCTCTCTTTTTC
*
2748708 TTTTTTTCTCTCTTTTTC
1 TTTTTCTCTCTCTTTTTC
2748726 TTT
1 TTT
2748729 CCTTTTCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTCTCTCTTTTTC
Found at i:2748711 original size:19 final size:18
Alignment explanation
Indices: 2748689--2748728 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
2748679 TCGTATTCTA
*
2748689 TTTTTTTCTCTTTCTTTTC
1 TTTTTTTCTCTCT-TTTTC
2748708 TTTTTTTCTCTCTTTTTC
1 TTTTTTTCTCTCTTTTTC
2748726 TTT
1 TTT
2748729 CCTTTTCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTCTCTCTTTTTC
Found at i:2749345 original size:33 final size:35
Alignment explanation
Indices: 2749281--2749345 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
2749271 ATTAATATGT
* * *
2749281 AAAAAATTATACAAAAATATAATATTTTAAATACA
1 AAAAAATAATACAAAAATATAACATTATAAATACA
*
2749316 AAAAAATAATACAAATATA-AACA-TATAAAT
1 AAAAAATAATACAAAAATATAACATTATAAAT
2749346 TTTTTCTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 6 0.23
34 3 0.12
35 17 0.65
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (35 bp):
AAAAAATAATACAAAAATATAACATTATAAATACA
Found at i:2749368 original size:18 final size:18
Alignment explanation
Indices: 2749345--2749401 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 18
2749335 AACATATAAA
2749345 TTTTTTCTCATTTTTTTC
1 TTTTTTCTCATTTTTTTC
2749363 TTTTTTCT--TTTTTCTT-
1 TTTTTTCTCATTTTT-TTC
*
2749379 TTTTTCTCCTCATTTCTTTC
1 TTTTT-T-CTCATTTTTTTC
2749399 TTT
1 TTT
2749402 CTTTTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 10 0.31
17 3 0.09
18 10 0.31
19 2 0.06
20 7 0.22
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTCATTTTTTTC
Found at i:2749373 original size:6 final size:7
Alignment explanation
Indices: 2749356--2749382 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2749346 TTTTTCTCAT
2749356 TTTTTTC
1 TTTTTTC
2749363 TTTTTTC
1 TTTTTTC
2749370 TTTTTTC
1 TTTTTTC
2749377 TTTTTT
1 TTTTTT
2749383 TCTCCTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:2749468 original size:2 final size:2
Alignment explanation
Indices: 2749461--2749494 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2749451 TGTAGTTAAT
*
2749461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2749495 GATAGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2749840 original size:10 final size:10
Alignment explanation
Indices: 2749825--2749866 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
2749815 ACTAAATTAG
2749825 TTTTATATAT
1 TTTTATATAT
2749835 TTTTATAT-T
1 TTTTATATAT
2749844 TTTTATATAAT
1 TTTTATAT-AT
* *
2749855 TTATATTTAT
1 TTTTATATAT
2749865 TT
1 TT
2749867 AATTTGACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
10 12 0.43
11 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATAT
Found at i:2749846 original size:9 final size:9
Alignment explanation
Indices: 2749825--2749871 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
2749815 ACTAAATTAG
2749825 TTTTATATAT
1 TTTTATAT-T
2749835 TTTTATATT
1 TTTTATATT
*
2749844 TTTTATATA
1 TTTTATATT
*
2749853 ATTTATATT
1 TTTTATATT
2749862 TATTTA-ATT
1 T-TTTATATT
2749871 T
1 T
2749872 GACTGTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 20 0.62
10 12 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:2749849 original size:19 final size:18
Alignment explanation
Indices: 2749825--2749867 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
2749815 ACTAAATTAG
*
2749825 TTTTATATATTTTTATATT
1 TTTTATATA-ATTTATATT
2749844 TTTTATATAATTTATATT
1 TTTTATATAATTTATATT
2749862 TATTTA
1 T-TTTA
2749868 ATTTGACTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATAATTTATATT
Found at i:2750259 original size:22 final size:22
Alignment explanation
Indices: 2750170--2750267 Score: 74
Period size: 22 Copynumber: 4.2 Consensus size: 22
2750160 TTCTTCTCAT
*
2750170 ATTATAATTATATTATATCAAATAA
1 ATTATAAATAT-TTATAT-AAAT-A
* *
2750195 TATTATATAATATATA-ATACATA
1 -ATTATA-AATATTTATATAAATA
* *
2750218 ATGTTTAAATATATTATATATATA
1 AT-TATAAATAT-TTATATAAATA
2750242 ATTATAAATATTTATATAAAT-
1 ATTATAAATATTTATATAAATA
2750263 ATTAT
1 ATTAT
2750268 GTATTTAACT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 5 0.08
22 16 0.27
23 14 0.23
24 11 0.18
25 2 0.03
26 8 0.13
27 4 0.07
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (22 bp):
ATTATAAATATTTATATAAATA
Found at i:2750412 original size:17 final size:18
Alignment explanation
Indices: 2750391--2750431 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
2750381 AATTATATTA
2750391 AATATTTA-ATTAATACAT
1 AATATTTATATT-ATACAT
2750409 -ATA-TTATATTATACAT
1 AATATTTATATTATACAT
2750425 AATATTT
1 AATATTT
2750432 CTTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTATATTATACAT
Found at i:2750645 original size:24 final size:24
Alignment explanation
Indices: 2750610--2750664 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
2750600 AATAGTTAAT
2750610 TAAT-TTA-GTTTTATAATTAA-TA
1 TAATATTATGTTTTAT-ATTAACTA
* *
2750632 TATTATTATGTTTTATTTTAACTA
1 TAATATTATGTTTTATATTAACTA
2750656 TAATATTAT
1 TAATATTAT
2750665 ACTTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 17 0.63
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TAATATTATGTTTTATATTAACTA
Found at i:2750670 original size:24 final size:23
Alignment explanation
Indices: 2750626--2750681 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
2750616 AGTTTTATAA
* **
2750626 TTAATATATTATTATGTTTTATT
1 TTAATATAATATTATACTTTATT
2750649 TTAACTATAATATTATACTTTATT
1 TTAA-TATAATATTATACTTTATT
*
2750673 TAAAT-TAAT
1 TTAATATAAT
2750682 TCTAGTGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.14
23 5 0.18
24 19 0.68
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTAATATAATATTATACTTTATT
Found at i:2751109 original size:15 final size:15
Alignment explanation
Indices: 2751085--2751129 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
2751075 CAAAGGTAAC
*
2751085 ATTTAGTATTATTAA
1 ATTTAATATTATTAA
2751100 ATTTAATATT-TTAA
1 ATTTAATATTATTAA
* *
2751114 TTTTTATATTATTAA
1 ATTTAATATTATTAA
2751129 A
1 A
2751130 ATTATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTAATATTATTAA
Found at i:2751809 original size:15 final size:12
Alignment explanation
Indices: 2751774--2751806 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
2751764 TTTTTTAAAA
2751774 CTTATTATTCAT
1 CTTATTATTCAT
2751786 CTTATTATTCAT
1 CTTATTATTCAT
2751798 CTTATTATT
1 CTTATTATT
2751807 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (12 bp):
CTTATTATTCAT
Found at i:2753820 original size:15 final size:15
Alignment explanation
Indices: 2753802--2753852 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
2753792 ATATCTATAG
*
2753802 TTAATAATTATATTA
1 TTAATATTTATATTA
2753817 TTAAT-TTTATCATT-
1 TTAATATTTAT-ATTA
*
2753831 TTAAATATTTTTATTA
1 TT-AATATTTATATTA
2753847 TTAATA
1 TTAATA
2753853 GAATTTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 6 0.20
15 18 0.60
16 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATATTTATATTA
Found at i:2754698 original size:18 final size:18
Alignment explanation
Indices: 2754677--2754721 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
2754667 AATAAAATAT
*
2754677 TATAAGCTCAGCCTTTGG
1 TATAAGCTCAGCATTTGG
*
2754695 TATAATGACTCATCATTTGG
1 TATAA-G-CTCAGCATTTGG
2754715 TATAAGC
1 TATAAGC
2754722 CAAATGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 15 0.65
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (18 bp):
TATAAGCTCAGCATTTGG
Found at i:2763174 original size:13 final size:13
Alignment explanation
Indices: 2763156--2763183 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2763146 ATATAAAGAT
2763156 CAATGTATCGATA
1 CAATGTATCGATA
2763169 CAATGTATCGATA
1 CAATGTATCGATA
2763182 CA
1 CA
2763184 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2763260 original size:19 final size:19
Alignment explanation
Indices: 2763236--2763287 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2763226 AGTGATACAT
2763236 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
2763255 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2763274 TGTATCGATACAAA
1 TGTATCGATACAAA
2763288 TTATTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2764106 original size:56 final size:55
Alignment explanation
Indices: 2763960--2764107 Score: 151
Period size: 53 Copynumber: 2.7 Consensus size: 55
2763950 ACCAATACAT
* * *
2763960 TGATTCACGGCCAATGATATTGGGTTTAAAGATGA-GAAAAAGGATGTCAATGTGC
1 TGATTCACGGCCAATGACATTGGGTTTAAAGATGATG-AAAAGAATGCCAATGTGC
* ** * **
2764015 TGATTCACGGTCAGCGACATTTAGACTTAAAGATGA-G--AAGAATGCCAATGTGC
1 TGATTCACGGCCAATGACA-TTGGGTTTAAAGATGATGAAAAGAATGCCAATGTGC
*
2764068 TGATTCAAGGCCAATGACATTGGGTTTTAAAGATGATGAA
1 TGATTCACGGCCAATGACATTGGG-TTTAAAGATGATGAA
2764108 GGCGCCAATA
Statistics
Matches: 72, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
52 3 0.04
53 39 0.54
54 1 0.01
55 15 0.21
56 14 0.19
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (55 bp):
TGATTCACGGCCAATGACATTGGGTTTAAAGATGATGAAAAGAATGCCAATGTGC
Found at i:2764168 original size:49 final size:49
Alignment explanation
Indices: 2764007--2765069 Score: 1026
Period size: 49 Copynumber: 21.8 Consensus size: 49
2763997 AAAAGGATGT
* * * * *
2764007 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTAAAGATGAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGC
* ** ** *
2764060 CAATGTGCTGATTCAAGGCCAATGACATTGGGTTTTAAAGATGATGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTT-AA-A-GATGAAGGTGC
* * * *
2764113 CAATATGTTAATTCAAGGCCAGCGATACTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
2764162 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAACGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
2764211 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
2764263 CAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
2764312 CAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *** * *
2764361 CAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGATGT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
2764410 CAATATGATGATTCAAGGCTAGCGACATTAGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
2764459 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
2764511 CAATATGCTGATTCAAAGCCAGCGATATTGGACTTAAAGATGAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
2764560 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACA-GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AGGTGC
* * * ** *
2764609 CAATATGCTGATTCAAGGCTAGTGATACCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
2764658 CAATGTGCTAATTCAAAGCCAGTGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
2764710 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-CAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
2764758 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
2764801 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
2764849 CAATATGCTGATTCAAGGCCATCGATATTGGGCTT----A--CA----C
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** * * *
2764888 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGA-CAATGTGT
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAAGGTGC
*
2764937 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
2764980 CAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* *
2765032 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
2765070 AAAAGATGCC
Statistics
Matches: 842, Mismatches: 129, Indels: 79
0.80 0.12 0.08
Matches are distributed among these distances:
39 27 0.03
40 4 0.00
43 75 0.09
44 4 0.00
45 1 0.00
47 2 0.00
48 80 0.10
49 409 0.49
50 1 0.00
51 2 0.00
52 177 0.21
53 50 0.06
54 6 0.01
55 1 0.00
56 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:2764362 original size:199 final size:196
Alignment explanation
Indices: 2764007--2765069 Score: 1100
Period size: 199 Copynumber: 5.4 Consensus size: 196
2763997 AAAAGGATGT
* * * * *
2764007 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTAAAGATGAGAAGAATGCCAATGTGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGA-AAG-GTGCCAATATGCTGAT
** ** * * *
2764072 TCAAGGCCAATGACATTGGGTTTTAAAGATGATGAAGGCGCCAATATGTTAATTCAAGGCCAGCG
63 TCAAGGCCAGCGACATT-GGACTT-AA-A-GATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCG
* *
2764137 ATACTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAACGA
124 ACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-GA
2764202 TGAAGGTGC
188 TGAAGGTGC
*
2764211 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATT
* * * * *
2764276 CAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGCTAATTCAAGGCCAGCAACATT
64 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACATT
* * ***
2764341 GGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAG
129 GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAG
* *
2764406 ATGT
193 GTGC
* * * * * *
2764410 CAATATGATGATTCAAGGCTAGCGACATTAGACTTAAAGATG-AAGGTGCCAATGTGTTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
* * *
2764474 AGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAAGCCAGCGATAT
66 AGGCCAGCGACATTGGACTTAAAGATG---AAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
* * * **
2764539 TGGACTTAAAGATGAGGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
128 TGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGA-
2764604 A-GTGC
191 AGGTGC
* * * * ** * * *
2764609 CAATATGCTGATTCAAGGCTAGTGATACCGGACTTAAAGATG-AAGATGCCAATGTGCTAATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
* * *
2764673 AAGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATGTGCTGATTCAAGGCCAACGACAT
66 AGGCCAGCGACATTGGACTTAAAGATG---AAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
* *
2764738 TGGACTTAAAGA-CAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---A--AAG
128 TGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAG
2764797 GTGC
193 GTGC
* *
2764801 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--CAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
* * * *
2764864 AGGCCATCGATATTGGGC-T-----T--A--CACCAATGTGCTGATTCAAGGCCAGCGACATTGG
66 AGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACATT-G
** * * *
2764919 GTTTTAAAGA-CAATGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---A--AAGGT
130 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGT
2764978 GC
195 GC
* * *
2764980 CAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAATGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATT
* *
2765045 CAAGGCCAGCGATATTGGGCTTAAA
64 CAAGGCCAGCGACATTGGACTTAAA
2765070 AAAAGATGCC
Statistics
Matches: 743, Mismatches: 98, Indels: 53
0.83 0.11 0.06
Matches are distributed among these distances:
178 30 0.04
179 97 0.13
180 1 0.00
183 38 0.05
184 1 0.00
185 1 0.00
190 1 0.00
191 33 0.04
192 38 0.05
194 1 0.00
196 45 0.06
198 36 0.05
199 341 0.46
200 4 0.01
201 2 0.00
202 4 0.01
203 41 0.06
204 28 0.04
205 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (196 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
AGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
ACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTG
C
Found at i:2764416 original size:248 final size:248
Alignment explanation
Indices: 2763998--2765069 Score: 1218
Period size: 248 Copynumber: 4.4 Consensus size: 248
2763988 AAGATGAGAA
* * * * * * *
2763998 AAAGGATGTCAATGTGCTGATTCACGGTCAGCGACATTTAGACTTAAAGATGAGAAGAATGCCAA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGATGAG--G-GTGCCAA
** * * * *
2764063 TGTGCTGATTCAAGGCCAATGACATTGGGTTTTAAAGATGATGAAGGCGCCAATATGTTAATTCA
61 TGTGCTGATTCAAGGCCAGCGACATT-GGTCTT-AA-A-GATGAAGGTGCCAATATGCTGATTCA
* * *
2764128 AGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
122 AGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGG
*
2764193 ACTTAACGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
187 ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
*
2764255 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGC
* * *
2764320 TAATTCAAGGCCAGCAACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCG
66 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * * * *
2764385 ATACCAGACTTAAAGATGAAGATGTCAATATGATGATTCAAGGCTAGCGACATTAGACTTAAAGA
131 ATACCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
*
2764450 TGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
196 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
* *
2764503 AAAGGCGCCAATATGCTGATTCAAAGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGC
* * *
2764568 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACA-GTGCCAATATGCTGATTCAAGGCTAGT
66 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGA-AGGTGCCAATATGCTGATTCAAGGCCAGC
* * * *
2764632 GATACCGGACTTAAAGATGAAGATGCCAATGTGCTAATTCAAAGCCAGTGACATTGGACTTAAAG
130 GATACCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* *
2764697 ATGACAAAGGCGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT-AA-A-GAC
195 ATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
2764751 AAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--A-GGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGC
* *
2764809 TGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCATCG
66 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
** * * * **
2764873 ATATTGGGC-T-----T--ACA--CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAG
131 ATACCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAG
* * * * *
2764928 A-CAATGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
195 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
* * * * ** *
2764972 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAATGTGCCAATA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AGGGTGCCAATG
* *
2765037 TGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
63 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
2765070 AAAAGATGCC
Statistics
Matches: 719, Mismatches: 79, Indels: 60
0.84 0.09 0.07
Matches are distributed among these distances:
221 3 0.00
222 35 0.05
224 1 0.00
225 1 0.00
226 1 0.00
227 34 0.05
230 28 0.04
231 48 0.07
232 2 0.00
234 1 0.00
239 2 0.00
240 32 0.04
241 44 0.06
242 1 0.00
244 1 0.00
245 1 0.00
247 37 0.05
248 323 0.45
249 2 0.00
250 4 0.01
251 44 0.06
252 28 0.04
253 1 0.00
255 16 0.02
256 24 0.03
257 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (248 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGGTGCCAATGTGC
TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
ATACCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
Found at i:2764815 original size:43 final size:43
Alignment explanation
Indices: 2764702--2765069 Score: 303
Period size: 48 Copynumber: 8.1 Consensus size: 43
2764692 TAAAGATGAC
* * *
2764702 AAAGGCGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
*
2764745 AAAGACAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG-----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
2764793 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
2764836 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCATCGATATTGGGCTT
1 ----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * **
2764884 ACA----CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTT
* *
2764924 AAAGACAATGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG-----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
2764972 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
2765015 AAAGATGACAAATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -AA-A-G------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
2765067 AAA
1 AAA
2765070 AAAAGATGCC
Statistics
Matches: 264, Mismatches: 32, Indels: 51
0.76 0.09 0.15
Matches are distributed among these distances:
39 27 0.10
40 6 0.02
43 75 0.28
44 3 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 85 0.32
49 27 0.10
50 1 0.00
51 2 0.01
52 35 0.13
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:2764857 original size:91 final size:91
Alignment explanation
Indices: 2764702--2765069 Score: 555
Period size: 91 Copynumber: 4.0 Consensus size: 91
2764692 TAAAGATGAC
* * * *
2764702 AAAGGCGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAGTGCCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAATGTGCCAATATGCT
2764767 GATTCAAGGCCAGCGATATTGGACTT
66 GATTCAAGGCCAGCGATATTGGACTT
*
2764793 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAATGTGCCAATATGCT
* *
2764858 GATTCAAGGCCATCGATATTGGGCTT
66 GATTCAAGGCCAGCGATATTGGACTT
* * *
2764884 ACA----CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGACAATGTGTCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGACAATGTGCCAATATGC
2764945 TGATTCAAGGCCAGCGATATTGGACTT
65 TGATTCAAGGCCAGCGATATTGGACTT
*
2764972 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAATGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AATGTGCCAATA
*
2765037 TGCTGATTCAAGGCCAGCGATATTGGGCTT
62 TGCTGATTCAAGGCCAGCGATATTGGACTT
2765067 AAA
1 AAA
2765070 AAAAGATGCC
Statistics
Matches: 251, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
87 30 0.12
88 51 0.20
91 92 0.37
92 31 0.12
93 1 0.00
94 3 0.01
95 43 0.17
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (91 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAATGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTT
Found at i:2765008 original size:179 final size:182
Alignment explanation
Indices: 2764709--2765067 Score: 609
Period size: 179 Copynumber: 2.0 Consensus size: 182
2764699 GACAAAGGCG
2764709 CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAGTGCCAATATGCTGATTCAA
*
2764774 GGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA
66 GGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAA
*
2764838 -A-GAC-AAGGTGCCAATATGCTGATTCAAGGCCATCGATATTGGGCTTACA
131 GATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTACA
* ** * *
2764887 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGACAATGTGTCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGACAAAGTGCCAATATGCTGATTCA
2764952 AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAA
65 AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAA
*
2765017 AGATGACAAATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
130 AGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
2765068 AAAAAAGATG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
178 29 0.17
179 92 0.55
180 2 0.01
181 1 0.01
182 3 0.02
183 41 0.24
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (182 bp):
CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAA
GATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTACA
Found at i:2765164 original size:35 final size:33
Alignment explanation
Indices: 2765123--2765547 Score: 381
Period size: 35 Copynumber: 12.5 Consensus size: 33
2765113 ATGCCAAGAA
2765123 AGTTGTGGACTTAAAAGGAACAAGGGATGCCACTG
1 AGTTGTGGACTTAAAAGGAACAA-GGATGCCAC-G
**
2765158 AGTTGTGGACTTTGAAGG-A-AAGAGATGCCACG
1 AGTTGTGGACTTAAAAGGAACAAG-GATGCCACG
* *
2765190 AAGTTGTGGACTTTAAAAAGAA-AAAGAGTGCCACGG
1 -AGTTGTGGAC-TTAAAAGGAACAAGGA-TGCCAC-G
* * * *
2765226 AGTTATAGG-CTTTAAAGGAA-AAAGATACCACAG
1 AGTTGT-GGACTTAAAAGGAACAAGGATGCCAC-G
* *
2765259 AGTTGTGGATTTAAAAAGGAACAAGGATGCCATGG
1 AGTTGTGGACTT-AAAAGGAACAAGGATGCCA-CG
2765294 AGTTGTGGACTTAAAAGGAACAAGGATGCCACGG
1 AGTTGTGGACTTAAAAGGAACAAGGATGCCAC-G
*
2765328 AGTTGTGGACTTAAAAAGGAACAAGGATGCCATGG
1 AGTTGTGGACTT-AAAAGGAACAAGGATGCCA-CG
*
2765363 AAG-TGTGGGCTTAAAAGGAACAAGG-TGCCACGG
1 -AGTTGTGGACTTAAAAGGAACAAGGATGCCAC-G
* *
2765396 AGGTGT-GAGCTTAAAAGGAACAAAGGGTGCCACG
1 AGTTGTGGA-CTTAAAAGGAAC-AAGGATGCCACG
*
2765430 AAGTTGTGGACTTAAAAGGAA-AATG-TGCCACG
1 -AGTTGTGGACTTAAAAGGAACAAGGATGCCACG
*
2765462 AAGTTGTGGACTTTAAAAGGAA-AAAGATGCCACAG
1 -AGTTGTGGAC-TTAAAAGGAACAAGGATGCCAC-G
*
2765497 AGTTGTGGACTTAAAAGGAACAAGG-TGTCACGG
1 AGTTGTGGACTTAAAAGGAACAAGGATGCCAC-G
*
2765530 AGGTGTAGG-CTTAAAAGG
1 AGTTGT-GGACTTAAAAGG
2765548 GAAAAAAGGT
Statistics
Matches: 333, Mismatches: 30, Indels: 56
0.79 0.07 0.13
Matches are distributed among these distances:
32 25 0.08
33 100 0.30
34 99 0.30
35 102 0.31
36 7 0.02
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAGGAACAAGGATGCCACG
Found at i:2765564 original size:35 final size:33
Alignment explanation
Indices: 2765123--2765670 Score: 445
Period size: 34 Copynumber: 16.4 Consensus size: 33
2765113 ATGCCAAGAA
* *
2765123 AGTTGTGGACTTAAAAGGAACAAGGGATGCCACTG
1 AGTTGTGGACTTAAAAGGAA-AAAGG-TGCCACGG
** * * *
2765158 AGTTGTGGACTTTGAAGGAAAGAGATGCCACGA
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
2765191 AGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGG
1 AGTTGTGGAC-TTAAAAGGAAAAAG-GTGCCACGG
* * * * *
2765226 AGTTATAGG-CTTTAAAGGAAAAAGATACCACAG
1 AGTTGT-GGACTTAAAAGGAAAAAGGTGCCACGG
* * *
2765259 AGTTGTGGATTTAAAAAGGAACAAGGATGCCATGG
1 AGTTGTGGACTT-AAAAGGAAAAAGG-TGCCACGG
*
2765294 AGTTGTGGACTTAAAAGGAACAAGGATGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGG-TGCCACGG
* *
2765328 AGTTGTGGACTTAAAAAGGAACAAGGATGCCATGG
1 AGTTGTGGACTT-AAAAGGAAAAAGG-TGCCACGG
* *
2765363 AAG-TGTGGGCTTAAAAGGAACAAGGTGCCACGG
1 -AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
* *
2765396 AGGTGT-GAGCTTAAAAGGAACAAAGGGTGCCACGA
1 AGTTGTGGA-CTTAAAAGGAA-AAA-GGTGCCACGG
* *
2765431 AGTTGTGGACTTAAAAGG-AAAATGTGCCACGA
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
* *
2765463 AGTTGTGGACTTTAAAAGGAAAAAGATGCCACAG
1 AGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGG
* *
2765497 AGTTGTGGACTTAAAAGGAACAAGGTGTCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
2765530 AGGTGTAGG-CTTAAAAGGGAAAAAAGGTGCCACGG
1 AGTTGT-GGACTTAAAA-GG-AAAAAGGTGCCACGG
* * * * *
2765565 AGTTATGGGCTT-TAA--AAAGA-GTGCCACAG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
2765594 AGTTGTGGACTTTGAAAA-GAAAAAGGTGTCACGG
1 AGTTGTGGAC-TT-AAAAGGAAAAAGGTGCCACGG
** * * * *
2765628 AGTCATGGACTTTAAA-G-AACAGATGCCACTG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
2765659 AATTGTGGACTT
1 AGTTGTGGACTT
2765671 TGAGACAAGA
Statistics
Matches: 420, Mismatches: 69, Indels: 52
0.78 0.13 0.10
Matches are distributed among these distances:
29 16 0.04
30 6 0.01
31 19 0.05
32 30 0.07
33 98 0.23
34 126 0.30
35 119 0.28
36 6 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
Found at i:2765591 original size:29 final size:29
Alignment explanation
Indices: 2765550--2765613 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2765540 TTAAAAGGGA
* *
2765550 AAAAAG-GTGCCACGGAGTTATGGGCTTT
1 AAAAAGAGTGCCACAGAGTTATGGACTTT
*
2765578 AAAAAGAGTGCCACAGAGTTGTGGACTTT
1 AAAAAGAGTGCCACAGAGTTATGGACTTT
*
2765607 GAAAAGA
1 AAAAAGA
2765614 AAAAGGTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (29 bp):
AAAAAGAGTGCCACAGAGTTATGGACTTT
Found at i:2765669 original size:31 final size:30
Alignment explanation
Indices: 2765628--2765700 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
2765618 GGTGTCACGG
*
2765628 AGTCATGGACTTTAAAGA-ACAGATGCCACTGA
1 AGTCGTGGACTTT-AAGACA-AGATGCCACT-A
* *
2765660 A-TTGTGGACTTTGAGACAAGATGCCACTA
1 AGTCGTGGACTTTAAGACAAGATGCCACTA
2765689 AGTCGTGGACTT
1 AGTCGTGGACTT
2765701 AAAAAAGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 22 0.63
31 10 0.29
32 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (30 bp):
AGTCGTGGACTTTAAGACAAGATGCCACTA
Found at i:2767014 original size:13 final size:13
Alignment explanation
Indices: 2766998--2767037 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
2766988 TACCTTTGCA
2766998 TTTTTTTTTGTGT
1 TTTTTTTTTGTGT
*
2767011 TTTTTTTCT-TGT
1 TTTTTTTTTGTGT
*
2767023 TTTGTTTTTGTGT
1 TTTTTTTTTGTGT
2767036 TT
1 TT
2767038 ACTTTTGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:2767023 original size:12 final size:12
Alignment explanation
Indices: 2766998--2767037 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
2766988 TACCTTTGCA
2766998 TTTTTTTTTGTG
1 TTTTTTTTTGTG
2767010 TTTTTTTTCT-TG
1 TTTTTTTT-TGTG
2767022 TTTTGTTTTTGTG
1 TTTT-TTTTTGTG
2767035 TTT
1 TTT
2767038 ACTTTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:2767425 original size:13 final size:13
Alignment explanation
Indices: 2767407--2767432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2767397 CCATAGGGCG
2767407 ATCTTATGGCGTT
1 ATCTTATGGCGTT
2767420 ATCTTATGGCGTT
1 ATCTTATGGCGTT
2767433 GCTCCAAATT
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:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
ATCTTATGGCGTT
Found at i:2770837 original size:52 final size:52
Alignment explanation
Indices: 2770689--2770817 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2770679 CGAAATATGA
2770689 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
2770741 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2770793 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2770818 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2770844 original size:13 final size:13
Alignment explanation
Indices: 2770826--2770850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2770816 CAAAGATCAG
2770826 TGTATCGATACAA
1 TGTATCGATACAA
2770839 TGTATCGATACA
1 TGTATCGATACA
2770851 TTTGGGTAAT
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:2770933 original size:31 final size:32
Alignment explanation
Indices: 2770894--2770963 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
2770884 AGCTTCGTAG
2770894 CGATACATTGTATCGATACAA-ACTTATGTAT
1 CGATACATTGTATCGATACAATACTTATGTAT
*
2770925 TGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAATACTTATGTAT
2770957 CGATACA
1 CGATACA
2770964 ACATTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAATACTTATGTAT
Found at i:2770957 original size:19 final size:18
Alignment explanation
Indices: 2770902--2770984 Score: 86
Period size: 19 Copynumber: 4.8 Consensus size: 18
2770892 AGCGATACAT
2770902 TGTATCGATACAAACTTA
1 TGTATCGATACAAACTTA
*
2770920 TGTATTGATAC--A--T-
1 TGTATCGATACAAACTTA
2770933 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
* *
2770952 TGTATCGATACAACATTTT
1 TGTATCGATACAA-ACTTA
2770971 TGTATCGATACAAA
1 TGTATCGATACAAA
2770985 TCGTTCAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
16 2 0.04
18 12 0.22
19 29 0.54
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2775444 original size:22 final size:20
Alignment explanation
Indices: 2775394--2775445 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 20
2775384 GTTTTAAACA
2775394 TTAATTTGTTGATATTTATTT
1 TTAATTT-TTGATATTTATTT
* * *
2775415 TCATTTTTTGAATGTTATATTT
1 TTAATTTTTG-ATATT-TATTT
2775437 TTAATTTTT
1 TTAATTTTT
2775446 ACATAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.12
21 9 0.38
22 12 0.50
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (20 bp):
TTAATTTTTGATATTTATTT
Found at i:2775768 original size:2 final size:2
Alignment explanation
Indices: 2775761--2775788 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2775751 GAATCCTATT
2775761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2775789 AATTTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2777111 original size:16 final size:16
Alignment explanation
Indices: 2777092--2777123 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2777082 AATTATCTTT
2777092 AATTATCATTAAATTA
1 AATTATCATTAAATTA
*
2777108 AATTATTATTAAATTA
1 AATTATCATTAAATTA
2777124 TATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTATCATTAAATTA
Found at i:2777320 original size:6 final size:6
Alignment explanation
Indices: 2777281--2777307 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2777271 AAAATATTTT
2777281 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
2777308 ATTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:2779702 original size:2 final size:2
Alignment explanation
Indices: 2779695--2779720 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2779685 CAGTTTATAT
2779695 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
2779721 CCCCTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2781929 original size:140 final size:135
Alignment explanation
Indices: 2781668--2781946 Score: 328
Period size: 140 Copynumber: 2.0 Consensus size: 135
2781658 ATACCATTTT
* * * * *
2781668 ATTTTGAGTGCAGAAATGCTTATTAGGGATTATGCTGGTTCTAAATGTACCTAAAGTTGATTTTT
1 ATTTTGACTGCAGAAATGCTCATTAGAGATTATGCTGATTATAAATGTACCTAAAGTTGATTTTT
* ** * ** * * *
2781733 TTTCATCAAATTTTGGAAATAATTTTTTTCTTAATAAGGACAAATGTTGGTTGCAAAATTGAACT
66 TTTCATCAAATTTTGGAAATAAATTCGTTCTTAAAAAGGACAAATGCGGGTAGCAAAATAGAACC
2781798 AGAGA
131 AGAGA
* *
2781803 ATTTTGACTGCAGAAATGCTCATTAGAGA-TAT-CTTGATTATTAATGTACCTAAGGTTGATTGC
1 ATTTTGACTGCAGAAATGCTCATTAGAGATTATGC-TGATTATAAATGTACCTAAAGTTGATT--
*
2781866 CTTTTTTCATCAAATTTTGGGAATAAAATTCGTTCTTAAAGAAAGGACAAATGCGGGTAGCAAAA
63 -TTTTTTCATCAAATTTTGGAAAT-AAATTCGTTCTT-AA-AAAGGACAAATGCGGGTAGCAAAA
2781931 TAGAACCAGAGA
124 TAGAACCAGAGA
2781943 ATTT
1 ATTT
2781947 CTTGTTGAGA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
133 1 0.01
134 26 0.22
135 26 0.22
137 22 0.18
138 9 0.08
139 2 0.02
140 34 0.28
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (135 bp):
ATTTTGACTGCAGAAATGCTCATTAGAGATTATGCTGATTATAAATGTACCTAAAGTTGATTTTT
TTTCATCAAATTTTGGAAATAAATTCGTTCTTAAAAAGGACAAATGCGGGTAGCAAAATAGAACC
AGAGA
Found at i:2784051 original size:2 final size:2
Alignment explanation
Indices: 2784044--2784078 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2784034 AATGGAAATA
2784044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2784079 CATAAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2784868 original size:17 final size:17
Alignment explanation
Indices: 2784848--2784880 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2784838 TCATTTAATC
2784848 AAATATATATT-TATTTT
1 AAATAT-TATTATATTTT
2784865 AAATATTATTATATTT
1 AAATATTATTATATTT
2784881 AATATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATATTATTATATTTT
Found at i:2784877 original size:21 final size:20
Alignment explanation
Indices: 2784820--2784906 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
2784810 TAATTTTTAA
*
2784820 ATTTATATTAATATTA-TAT
1 ATTTATATTAAAATTATTAT
*
2784839 CATTTA-A-TCAAA-TA-TAT
1 -ATTTATATTAAAATTATTAT
*
2784856 ATTTATTTTAAATATTATTAT
1 ATTTATATTAAA-ATTATTAT
2784877 ATTTAATATTAAAATTATT-T
1 ATTT-ATATTAAAATTATTAT
2784897 ATTTAATATT
1 ATTT-ATATT
2784907 TAATTTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
16 5 0.09
17 5 0.09
18 6 0.11
19 2 0.04
20 18 0.32
21 13 0.23
22 7 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATATTAAAATTATTAT
Found at i:2784909 original size:21 final size:23
Alignment explanation
Indices: 2784853--2784909 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
2784843 TAATCAAATA
2784853 TATATTT-AT-TTTAAATATTAT
1 TATATTTAATATTTAAATATTAT
2784874 TATATTTAATA-TTAAA-ATTAT
1 TATATTTAATATTTAAATATTAT
2784895 T-TATTTAATATTTAA
1 TATATTTAATATTTAA
2784910 TTTTTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.27
21 17 0.52
22 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATATTTAATATTTAAATATTAT
Found at i:2784917 original size:20 final size:20
Alignment explanation
Indices: 2784863--2784906 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
2784853 TATATTTATT
2784863 TTAAATATTATTATATTTAATA
1 TTAAA-ATTATT-TATTTAATA
2784885 TTAAAATTATTTATTTAATA
1 TTAAAATTATTTATTTAATA
2784905 TT
1 TT
2784907 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.50
21 6 0.27
22 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAAATTATTTATTTAATA
Found at i:2784922 original size:20 final size:20
Alignment explanation
Indices: 2784863--2784922 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
2784853 TATATTTATT
*
2784863 TTAAATATTATTATATTTAATA
1 TTAAA-ATTATT-TAATTAATA
*
2784885 TTAAAATTATTTATTTAATA
1 TTAAAATTATTTAATTAATA
* * *
2784905 TTTAATTTTTTTAATTAA
1 TTAAAATTATTTAATTAA
2784923 ATCGATCATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 23 0.68
21 6 0.18
22 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAAATTATTTAATTAATA
Found at i:2785266 original size:16 final size:16
Alignment explanation
Indices: 2785156--2785277 Score: 95
Period size: 17 Copynumber: 7.5 Consensus size: 16
2785146 TGACCACTTA
*
2785156 AAATTTAGATTATTTT
1 AAATTTAAATTATTTT
*
2785172 GTAATTTAAATTATTTAT
1 -AAATTTAAATTATTT-T
* * *
2785190 GATTTTAAATT-TTAAT
1 AAATTTAAATTATT-TT
*
2785206 AAATTTTAATTATTTT
1 AAATTTAAATTATTTT
* *
2785222 AAGATTTGAGTTATTTT
1 AA-ATTTAAATTATTTT
* * *
2785239 AAGTTCATATTATTTT
1 AAATTTAAATTATTTT
2785255 AAATTTAAATTA-TTT
1 AAATTTAAATTATTTT
2785270 AAATTTAA
1 AAATTTAA
2785278 TATTTAAATA
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
15 11 0.13
16 32 0.39
17 38 0.46
18 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.55
Consensus pattern (16 bp):
AAATTTAAATTATTTT
Found at i:2785298 original size:22 final size:21
Alignment explanation
Indices: 2785252--2785303 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
2785242 TTCATATTAT
*
2785252 TTTAAATTTAAATTATTTAAA
1 TTTAAATTTAAATAATTTAAA
* *
2785273 TTTAATATTTAAATAATTTGAG
1 TTTAA-ATTTAAATAATTTAAA
2785295 TTTAAATTT
1 TTTAAATTT
2785304 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAATTTAAATAATTTAAA
Found at i:2786998 original size:49 final size:53
Alignment explanation
Indices: 2786939--2787059 Score: 126
Period size: 52 Copynumber: 2.4 Consensus size: 53
2786929 ATTCAAAAAA
* * * * *
2786939 TTAATTAAATTAAAAAATTTATGTT-A-AAA-TCACATATTACTTATTAT-TT
1 TTAATAAAATTAAAAAATTTATATTAACAAATTAAAATATTAATTATTATGTT
***
2786988 TTAATAAAATTTTCAAATTTATATTAACAAATTAAAATATTAATTATTATGTT
1 TTAATAAAATTAAAAAATTTATATTAACAAATTAAAATATTAATTATTATGTT
*
2787041 TTTA-AAAATTAAAAAATTT
1 TTAATAAAATTAAAAAATTT
2787060 TAAATTAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
49 20 0.36
50 1 0.02
51 3 0.05
52 27 0.48
53 5 0.09
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (53 bp):
TTAATAAAATTAAAAAATTTATATTAACAAATTAAAATATTAATTATTATGTT
Found at i:2787058 original size:52 final size:49
Alignment explanation
Indices: 2786939--2787074 Score: 121
Period size: 52 Copynumber: 2.7 Consensus size: 49
2786929 ATTCAAAAAA
* * * * *
2786939 TTAATTAAATTAAAAAATTTATGTTAAAATCACATATTACTTATTATTT
1 TTAATAAAATTAAAAAATTTATATTAAAATAAAATATTAATTATTATTT
***
2786988 TTAATAAAATTTTCAAATTTATATTAACAAATTAAAATATTAATTATTATGTT
1 TTAATAAAATTAAAAAATTTATATT-A-AAA-TAAAATATTAATTATTAT-TT
* * *
2787041 TTTA-AAAATTAAAAAATTTTAAATTAAAAAAAAA
1 TTAATAAAATTAAAAAA-TTTATATTAAAATAAAA
2787075 GGTCACGGGT
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
49 20 0.29
50 5 0.07
51 6 0.09
52 25 0.37
53 12 0.18
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (49 bp):
TTAATAAAATTAAAAAATTTATATTAAAATAAAATATTAATTATTATTT
Found at i:2787717 original size:27 final size:27
Alignment explanation
Indices: 2787682--2787746 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
2787672 AGAAAGGAGG
* **
2787682 GAAACAAAAAGGAAA-AAAAGAATGAGA
1 GAAA-AAAAAGGAAAGAAAAAAAAAAGA
2787709 GAAGAAAAAA-GAAAGAAAAAAAAAAGA
1 GAA-AAAAAAGGAAAGAAAAAAAAAAGA
2787736 GAAAAAAAAGG
1 GAAAAAAAAGG
2787747 CCATTAGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 21 0.66
28 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (27 bp):
GAAAAAAAAGGAAAGAAAAAAAAAAGA
Found at i:2787731 original size:13 final size:14
Alignment explanation
Indices: 2787706--2787745 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
2787696 AAAAAGAATG
2787706 AGAGAAGAAAAAAGA
1 AGAGAA-AAAAAAGA
2787721 A-AGAAAAAAAA-A
1 AGAGAAAAAAAAGA
2787733 AGAGAAAAAAAAG
1 AGAGAAAAAAAAG
2787746 GCCATTAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.09
13 16 0.70
14 4 0.17
15 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAAAAGA
Found at i:2788589 original size:13 final size:13
Alignment explanation
Indices: 2788571--2788596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2788561 TACACCAAGT
2788571 ATGTATCGATACA
1 ATGTATCGATACA
2788584 ATGTATCGATACA
1 ATGTATCGATACA
2788597 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2788594 original size:32 final size:33
Alignment explanation
Indices: 2788553--2788616 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2788543 TAGCCAAACT
* **
2788553 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2788585 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2788617 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2790849 original size:21 final size:21
Alignment explanation
Indices: 2790816--2790865 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2790806 TTGTAAGTTG
*
2790816 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2790838 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2790859 AAATAAA
1 AAATAAA
2790866 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2792682 original size:15 final size:15
Alignment explanation
Indices: 2792662--2792692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2792652 TAAAAATGTC
*
2792662 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2792677 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2792692 C
1 C
2792693 CACAAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Done.