Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 102 of 144
Found at i:31282539 original size:18 final size:19
Alignment explanation
Indices: 31282516--31282559 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
31282506 TTTGCAATCT
31282516 AAGGGGAAGGGAAAAGGG-
1 AAGGGGAAGGGAAAAGGGA
*
31282534 AAGGGGAAGGGAAAGGGGA
1 AAGGGGAAGGGAAAAGGGA
31282553 AAGGGGA
1 AAGGGGA
31282560 GAAGAAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGAAAAGGGA
Found at i:31282540 original size:6 final size:6
Alignment explanation
Indices: 31282516--31282559 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
31282506 TTTGCAATCT
* * *
31282516 AAGGGG AAGGGA AAAGGG AAGGGG AAGGGA AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
31282560 GAAGAAGGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:31282566 original size:24 final size:24
Alignment explanation
Indices: 31282516--31282567 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
31282506 TTTGCAATCT
* **
31282516 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
31282540 AAGGGAAAGGGGAAAGGGGAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
31282564 AAGG
1 AAGG
31282568 CATCATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:31283378 original size:39 final size:39
Alignment explanation
Indices: 31283327--31283502 Score: 176
Period size: 39 Copynumber: 4.5 Consensus size: 39
31283317 TGTTTTTGAG
*
31283327 TATTATGATATATGCTTAAATGTTATGAGATTATATGTA
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
* * * *
31283366 TATTGTGGTATATGCTTGAATGTTATGTGATTATACG-A
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
** * *
31283404 GGGTTGTGATATATGCTTAAATGTTATAAGATTAAATGTA
1 -TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
** * * * *
31283444 TATCATGATATATGCTTGAATGTTAGGTGATTATATGTG
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
*
31283483 TAATAG-GATATATGCTTAAA
1 T-ATTGTGATATATGCTTAAA
31283503 AGTGAATATG
Statistics
Matches: 108, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 104 0.96
40 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (39 bp):
TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
Found at i:31283421 original size:78 final size:78
Alignment explanation
Indices: 31283332--31283478 Score: 240
Period size: 78 Copynumber: 1.9 Consensus size: 78
31283322 TTGAGTATTA
* * ** * *
31283332 TGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGGTATATGCTTGAATGTTATGTGAT
1 TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
31283397 TATACGAGGGTTG
66 TATACGAGGGTTG
31283410 TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
1 TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
31283475 TATA
66 TATA
31283479 TGTGTAATAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (78 bp):
TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
TATACGAGGGTTG
Found at i:31283493 original size:78 final size:78
Alignment explanation
Indices: 31283332--31283502 Score: 227
Period size: 78 Copynumber: 2.2 Consensus size: 78
31283322 TTGAGTATTA
* * ** * *
31283332 TGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGGTATATGCTTGAATGTTATGTGAT
1 TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
** *
31283397 TATACGAGGGTTG
66 TATACGAGAATAG
31283410 TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
1 TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
* *
31283475 TATATGTGTAATAG
66 TATACGAG-AATAG
31283489 -GATATATGCTTAAA
1 TGATATATGCTTAAA
31283503 AGTGAATATG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 79 0.98
79 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (78 bp):
TGATATATGCTTAAATGTTATAAGATTAAATGTATATCATGATATATGCTTGAATGTTAGGTGAT
TATACGAGAATAG
Found at i:31285444 original size:26 final size:26
Alignment explanation
Indices: 31285408--31285488 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
31285398 AGAGCATAGT
31285408 AGGCTTCGTGCTGGTGTATATTTAGC
1 AGGCTTCGTGCTGGTGTATATTTAGC
* * * *
31285434 AGGCTTCGTGCTAGTGTTTCTGTAGC
1 AGGCTTCGTGCTGGTGTATATTTAGC
* *
31285460 AGACACTTTGTGCTGGTGTTATATTTAGC
1 AG--GCTTCGTGCTGGTG-TATATTTAGC
31285489 CAGTACTCTG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
26 24 0.57
28 11 0.26
29 7 0.17
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (26 bp):
AGGCTTCGTGCTGGTGTATATTTAGC
Found at i:31290681 original size:50 final size:50
Alignment explanation
Indices: 31290608--31290899 Score: 363
Period size: 50 Copynumber: 5.9 Consensus size: 50
31290598 ACATTAATAG
*
31290608 GATGAGA--TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* *
31290656 GATGAGAGTTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* * *
31290706 GATGAGGGGTCCCATGTAAGACCATGTCTGGGACATAGTGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* * *
31290756 GATCAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * *
31290806 GATAAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * * * *
31290856 TATGAGAACTCTCATGCAAGACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
31290900 TAGTACAAGA
Statistics
Matches: 213, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
48 7 0.03
50 206 0.97
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:31290788 original size:100 final size:100
Alignment explanation
Indices: 31290615--31290950 Score: 363
Period size: 100 Copynumber: 3.4 Consensus size: 100
31290605 TAGGATGAGA
* * * *
31290615 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGTTCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATCAGAGGTCCCATGTAAGACCA
* * * *
31290680 TGTCTGGGACATGGTGTTGGCACCGAGATGAGGGG
66 TGTCTGGGACATGGCGTTGGCACCAAGATAAGAGG
*
31290715 TCCCATGTAAGACCATGTCTGGGACATAGTGTTGGCACCGAGATCAGAGGTCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATCAGAGGTCCCATGTAAGACCA
*
31290780 TGTTTGGGACATGGCGTTGGCACCAAGATAAGAGG
66 TGTCTGGGACATGGCGTTGGCACCAAGATAAGAGG
** * * * * * * ** * *
31290815 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCATGCAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATCAGAGGTCCCATGTAAGACCA
* * * * * *
31290880 TATCTGGGATATGGCATTGGTAGTACAAGA-AACA--
66 TGTCTGGGACATGGCGTTGGCA--CCAAGATAAGAGG
* *
31290914 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCA
31290951 TGTTATATTC
Statistics
Matches: 198, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
99 31 0.16
100 159 0.80
101 3 0.02
102 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATCAGAGGTCCCATGTAAGACCA
TGTCTGGGACATGGCGTTGGCACCAAGATAAGAGG
Found at i:31290886 original size:150 final size:150
Alignment explanation
Indices: 31290615--31290888 Score: 404
Period size: 150 Copynumber: 1.8 Consensus size: 150
31290605 TAGGATGAGA
* * * *
31290615 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGTTCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCACGTAAGACCA
** * *** * *
31290680 TGTCTGGGACATGGTGTTGGCACCGAGATGAGGGGTCCCATGTAAGACCATGTCTGGGACATAGT
66 TGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGCAAGACCATATCTGGGACATAGT
31290745 GTTGGCACCGAGATCAGAGG
131 GTTGGCACCGAGATCAGAGG
*
31290765 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCACGTAAGACCA
* * *
31290830 TGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCATGCAAGACCATATCTGGGA
66 TGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGCAAGACCATATCTGGGA
31290889 TATGGCATTG
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
150 108 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (150 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCACGTAAGACCA
TGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGCAAGACCATATCTGGGACATAGT
GTTGGCACCGAGATCAGAGG
Found at i:31301455 original size:34 final size:34
Alignment explanation
Indices: 31301417--31301482 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
31301407 CTAGATCAGA
*
31301417 TGTTGTGTCATCCATACGACTGCTTGAGATGTGC
1 TGTTGTGTCATCCAGACGACTGCTTGAGATGTGC
* *
31301451 TGTTGTGTCATTCAGATGACTGCTTGAGATGT
1 TGTTGTGTCATCCAGACGACTGCTTGAGATGT
31301483 ACTCTATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (34 bp):
TGTTGTGTCATCCAGACGACTGCTTGAGATGTGC
Found at i:31323827 original size:18 final size:19
Alignment explanation
Indices: 31323792--31323828 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31323782 AATACCCATA
31323792 CCAACCCTACATCTCCTGT
1 CCAACCCTACATCTCCTGT
31323811 CCAACCCTACA-CTCCTGT
1 CCAACCCTACATCTCCTGT
31323829 GGGGATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.22, C:0.49, G:0.05, T:0.24
Consensus pattern (19 bp):
CCAACCCTACATCTCCTGT
Found at i:31333205 original size:27 final size:27
Alignment explanation
Indices: 31333164--31333606 Score: 410
Period size: 27 Copynumber: 16.4 Consensus size: 27
31333154 GAATTGGGCC
* * * * *
31333164 TAAAATGACCGAAATACCCTTGATAGT
1 TAAAATGACTGAAATGCCCTCGATGGG
* *
31333191 TAAAATGACTAAAATGCCATCGATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
* * *
31333218 TAAAATGACTGAATTGTCCTCAATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
** *
31333245 TAAAATGACCAAAATGCCCTTGATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
*
31333272 TAAAATGACTGAAATACCCTCGATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
* *
31333299 TAAAATGA-TCGAAATACCGTCGATGGG
1 TAAAATGACT-GAAATGCCCTCGATGGG
* * *
31333326 TAAAATAACTAAAATGCCCTCAATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
** *
31333353 TAAAATGACCAAAATGCCTTCGATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
31333380 TAAAATGA-TCGAAATGCCCTCGATGGG
1 TAAAATGACT-GAAATGCCCTCGATGGG
* * * * *
31333407 TAAAACGACCGAAATACCCTCAAGGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
31333434 TAAAATGA-TCGAAATGCCCTCGATGGG
1 TAAAATGACT-GAAATGCCCTCGATGGG
* * *
31333461 TAAAATGATTGAAATACCCTCGATAGG
1 TAAAATGACTGAAATGCCCTCGATGGG
** * *
31333488 TAAAATGACCAAAATGCCATCAATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
* * **
31333515 TAAAATGACCGAAATACCCTTTATGGG
1 TAAAATGACTGAAATGCCCTCGATGGG
* *
31333542 TAAAATAACCT-AAATACCCTCGATGGG
1 TAAAATGA-CTGAAATGCCCTCGATGGG
* * * *
31333569 TAAAATGAC-CAGAATACCCTCGACGAG
1 TAAAATGACTGA-AATGCCCTCGATGGG
31333596 TAAAATGACTG
1 TAAAATGACTG
31333607 TTATTGCCTT
Statistics
Matches: 339, Mismatches: 67, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.01
27 333 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
TAAAATGACTGAAATGCCCTCGATGGG
Found at i:31333299 original size:81 final size:80
Alignment explanation
Indices: 31333164--31333606 Score: 467
Period size: 81 Copynumber: 5.5 Consensus size: 80
31333154 GAATTGGGCC
* ** * * * *
31333164 TAAAATGACCGAAATACCCTTGATAGTTAAAATGACTAAAATGCCATCGATGGGTAAAATGACTG
1 TAAAATGACCAAAATACCCTCAATGGGTAAAATGACTGAAATGCCCTCGATGGGTAAAATGA-TG
* ** *
31333229 AATTGTCCTCAATGGG
65 AAATACCCTCGATGGG
* ** *
31333245 TAAAATGACCAAAATGCCCTTGATGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCTCAATGGGTAAAATGACTGAAATGCCCTCGATGGGTAAAATGAT-G
*
31333310 AAATACCGTCGATGGG
65 AAATACCCTCGATGGG
* * * ** *
31333326 TAAAATAACTAAAATGCCCTCAATGGGTAAAATGACCAAAATGCCTTCGATGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCTCAATGGGTAAAATGACTGAAATGCCCTCGATGGGTAAAATGAT-G
*
31333391 AAATGCCCTCGATGGG
65 AAATACCCTCGATGGG
* * *
31333407 TAAAACGACCGAAATACCCTCAAGGGGTAAAATGA-TCGAAATGCCCTCGATGGGTAAAATGATT
1 TAAAATGACCAAAATACCCTCAATGGGTAAAATGACT-GAAATGCCCTCGATGGGTAAAATGA-T
*
31333471 GAAATACCCTCGATAGG
64 GAAATACCCTCGATGGG
* * * * ** *
31333488 TAAAATGACCAAAATGCCATCAATGGGTAAAATGACCGAAATACCCTTTATGGGTAAAATAACCT
1 TAAAATGACCAAAATACCCTCAATGGGTAAAATGACTGAAATGCCCTCGATGGGTAAAATGA--T
31333553 -AAATACCCTCGATGGG
64 GAAATACCCTCGATGGG
* * * *
31333569 TAAAATGACCAGAATACCCTCGACGAGTAAAATGACTG
1 TAAAATGACCAAAATACCCTCAATGGGTAAAATGACTG
31333607 TTATTGCCTT
Statistics
Matches: 305, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.00
81 302 0.99
82 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (80 bp):
TAAAATGACCAAAATACCCTCAATGGGTAAAATGACTGAAATGCCCTCGATGGGTAAAATGATGA
AATACCCTCGATGGG
Found at i:31333643 original size:25 final size:26
Alignment explanation
Indices: 31333600--31333655 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
31333590 GACGAGTAAA
* * *
31333600 ATGACTGTTATTGCCTTATGTTATGT
1 ATGACTGATATTGCCTTATGATATAT
*
31333626 ATGACTGAT-TTGCTTTATGATATAT
1 ATGACTGATATTGCCTTATGATATAT
31333651 ATGAC
1 ATGAC
31333656 CGTTACTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (26 bp):
ATGACTGATATTGCCTTATGATATAT
Found at i:31333793 original size:26 final size:26
Alignment explanation
Indices: 31333762--31333817 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
31333752 ATGCCACATA
*
31333762 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTAGCAGCTTTGCTGCAT
*
31333788 TACTGTTACTAGCAGCTTTGCTGCGT
1 TACTGTTACTAGCAGCTTTGCTGCAT
31333814 TACT
1 TACT
31333818 ATAGGAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTTGCTGCAT
Found at i:31339062 original size:7 final size:7
Alignment explanation
Indices: 31339047--31339077 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
31339037 TTCACACTTT
31339047 CACTTAA
1 CACTTAA
*
31339054 CAGTTAA
1 CACTTAA
31339061 CACTTAA
1 CACTTAA
31339068 CACTTAA
1 CACTTAA
31339075 CAC
1 CAC
31339078 CCCTAGCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (7 bp):
CACTTAA
Found at i:31345263 original size:17 final size:17
Alignment explanation
Indices: 31345243--31345339 Score: 68
Period size: 17 Copynumber: 5.4 Consensus size: 17
31345233 ATTTCAATAC
31345243 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
31345260 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
31345279 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
31345297 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
31345316 TTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
31345334 TTATGT
1 TTATGT
31345340 TGTGATTCAA
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 24 0.41
18 8 0.14
19 8 0.14
20 18 0.31
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:31345284 original size:37 final size:37
Alignment explanation
Indices: 31345241--31345349 Score: 200
Period size: 37 Copynumber: 2.9 Consensus size: 37
31345231 TAATTTCAAT
31345241 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
1 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
31345278 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
1 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
* *
31345315 ATTTATGTAATGTTTTTAATTATGTTGTGATTCAA
1 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAA
31345350 TTCGGATAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.49
Consensus pattern (37 bp):
ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
Found at i:31345285 original size:20 final size:19
Alignment explanation
Indices: 31345259--31345323 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
31345249 AATGTTTTTA
31345259 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
31345278 ACTTATGTAATG-TTTTTA-
1 A-TTATGTAGTGATTCAAAG
31345296 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
31345315 ATTTATGTA
1 A-TTATGTA
31345324 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
19 5 0.15
20 16 0.47
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:31348713 original size:47 final size:47
Alignment explanation
Indices: 31348662--31348860 Score: 353
Period size: 47 Copynumber: 4.2 Consensus size: 47
31348652 TAGTATTAAT
*
31348662 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
31348709 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
31348756 TATGTGATAACGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
31348803 TATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
31348850 AATGTGATAAG
1 TATGTGATAAG
31348861 TCCCAAAGGG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 145 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:31352641 original size:21 final size:22
Alignment explanation
Indices: 31352601--31352641 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31352591 ATTCCACATC
*
31352601 TCTTTTCCCACACCTCTTTTTT
1 TCTTTTCCCACACATCTTTTTT
*
31352623 TCTTTTCCC-CTCATCTTTT
1 TCTTTTCCCACACATCTTTT
31352642 CGATTTCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.56
Consensus pattern (22 bp):
TCTTTTCCCACACATCTTTTTT
Found at i:31361137 original size:37 final size:37
Alignment explanation
Indices: 31361087--31361162 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
31361077 TCTATAGAAA
*
31361087 CTAAACTCAGAGAGGAATCTATACATATATGGCATGG
1 CTAAACTCAGAGAGAAATCTATACATATATGGCATGG
31361124 CTAAACTCAGAGAGAAATCTATACATATATGGCATGG
1 CTAAACTCAGAGAGAAATCTATACATATATGGCATGG
31361161 CT
1 CT
31361163 CCTAATTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (37 bp):
CTAAACTCAGAGAGAAATCTATACATATATGGCATGG
Found at i:31363652 original size:27 final size:27
Alignment explanation
Indices: 31363195--31363652 Score: 452
Period size: 27 Copynumber: 17.0 Consensus size: 27
31363185 GGCTGTCACA
*
31363195 GAAATACCCTCGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
31363222 -AACATGCTCTAGATAGGTAAAATGACC
1 GAA-ATACCCTCGATGGGTAAAATGACC
* * * * *
31363249 AAAATGCCCTCAATAGGTAAAATGACT
1 GAAATACCCTCGATGGGTAAAATGACC
* *
31363276 GAAATACCATCAATGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
31363303 GAAAAACCCTCGATGGCTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
31363330 AAAATACCCTCGAAGGGTAAAATAACT
1 GAAATACCCTCGATGGGTAAAATGACC
* *
31363357 AAAATACCCTCGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
** * *
31363384 GAAATATGCTCGATGAGTAAAATGGA-A
1 GAAATACCCTCGATGGGTAAAAT-GACC
* * *
31363411 AAAATATCCTCGATGGGTAAAATGACT
1 GAAATACCCTCGATGGGTAAAATGACC
*
31363438 GAAATACCCTCGATGGGTAAAATGACT
1 GAAATACCCTCGATGGGTAAAATGACC
* *
31363465 AAAATACCCTCGATGGGTAAAATAACC
1 GAAATACCCTCGATGGGTAAAATGACC
* * ** *
31363492 GAGATGCCCTTAATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
*
31363519 GAAATACCCTCGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * **
31363546 GAAATACACTCGGTGGCTAAAATGATA
1 GAAATACCCTCGATGGGTAAAATGACC
* **
31363573 GAAATGCCCTCGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGACC
***
31363600 GAAATACCCTTTTTGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
*
31363627 GAAATACCCTCGATGAGTAAAATGAC
1 GAAATACCCTCGATGGGTAAAATGAC
31363653 TGTTATGGCC
Statistics
Matches: 355, Mismatches: 72, Indels: 8
0.82 0.17 0.02
Matches are distributed among these distances:
26 4 0.01
27 347 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGACC
Found at i:31364823 original size:22 final size:22
Alignment explanation
Indices: 31364798--31364840 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
31364788 TTCTTAAAAC
31364798 ATTTAGGAAAATAGTTAGCAAA
1 ATTTAGGAAAATAGTTAGCAAA
*
31364820 ATTTAGGACAATAGTTAGCAA
1 ATTTAGGAAAATAGTTAGCAA
31364841 TTCCCCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.28
Consensus pattern (22 bp):
ATTTAGGAAAATAGTTAGCAAA
Found at i:31367227 original size:40 final size:40
Alignment explanation
Indices: 31367042--31367227 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
31367032 GCTCCTCGAT
*
31367042 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
* *
31367082 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
31367122 CAAATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
31367162 CAAAGGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
31367203 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31367228 CAGCATTCAA
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 14 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:31377051 original size:41 final size:41
Alignment explanation
Indices: 31376993--31377144 Score: 180
Period size: 41 Copynumber: 3.7 Consensus size: 41
31376983 TCAGTGATAT
* * * * *
31376993 TCAGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATA
* *
31377034 GCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATA
*
31377075 TCAGGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATA
* * * *
31377116 TCTA-ACTTTGTGCCTAGAAGGCTTTATGC
1 TC-AGGCTTTATGCCTAGCAGGCTTCATGC
31377145 TGGCATATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 94 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.32
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATA
Found at i:31377053 original size:16 final size:16
Alignment explanation
Indices: 31377032--31377063 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31377022 CGGTGAATTA
*
31377032 TAGCAGGCTTTATGCC
1 TAGCAGGCTTCATGCC
31377048 TAGCAGGCTTCATGCC
1 TAGCAGGCTTCATGCC
31377064 GGTGTACCAT
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:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (16 bp):
TAGCAGGCTTCATGCC
Found at i:31385420 original size:27 final size:27
Alignment explanation
Indices: 31385390--31385445 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
31385380 GTACAGTGTG
*
31385390 GGCCTTAGCCCAATACAGAAACAGTAT
1 GGCCTAAGCCCAATACAGAAACAGTAT
* * * *
31385417 GGCCTAAGCTCGATACAGTATCAGTAT
1 GGCCTAAGCCCAATACAGAAACAGTAT
31385444 GG
1 GG
31385446 TGCAAGTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
GGCCTAAGCCCAATACAGAAACAGTAT
Found at i:31385748 original size:64 final size:63
Alignment explanation
Indices: 31385672--31385947 Score: 272
Period size: 64 Copynumber: 4.3 Consensus size: 63
31385662 TACAGAAATG
* * * * *
31385672 TGATTGGCACAAAGCCATTAGTAGAAGTGATATAATCGACACACAGCCATCAGTAACGGTAAC-A
1 TGATCGGCACAAAGCCATCAGTA-AAGTGATATGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* * * * *
31385736 TGATCGGCACAAAGCCATCAGTATCAGTGATATGATCGGTACATAGCCATCAGTAACAGTGA-AA
1 TGATCGGCACAAAGCCATCAGTA-AAGTGATATGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* * ** * * *
31385800 TGATCGACACACAA-CCATCGGTAATTCTAATATGATCGGCACAAAGCCATCAGTGATGGTACTA
1 TGATCGGCACA-AAGCCATCAGTAA-AGTGATATGATCGGCACAAAGCCATCAGTAACGGTACTA
* *
31385864 TGATCGGCACAAAGCCATCAGTAACG-GTACTATGATCGGCACAAAGCCATTAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAAAGTG-A-TATGATCGGCACAAAGCCATCAGTAACGGTACTA
*
31385928 TGATCGACACAAAGCCATCA
1 TGATCGGCACAAAGCCATCA
31385948 ATAGCATCAT
Statistics
Matches: 174, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
63 4 0.02
64 168 0.97
65 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (63 bp):
TGATCGGCACAAAGCCATCAGTAAAGTGATATGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:31385752 original size:32 final size:31
Alignment explanation
Indices: 31385706--31385947 Score: 234
Period size: 32 Copynumber: 7.6 Consensus size: 31
31385696 AAGTGATATA
* *
31385706 ATCGACACACAGCCATCAGTAACGGTAACATG
1 ATCGGCACAAAGCCATCAGTAACGGT-ACATG
* * *
31385738 ATCGGCACAAAGCCATCAGTATCAGTGATATG
1 ATCGGCACAAAGCCATCAGTAACGGT-ACATG
* * * *
31385770 ATCGGTACATAGCCATCAGTAACAGTGAAATG
1 ATCGGCACAAAGCCATCAGTAACGGT-ACATG
* * *** *
31385802 ATCGACACACAA-CCATCGGTAATTCTAATATG
1 ATCGGCACA-AAGCCATCAGTAACGGT-ACATG
* *
31385834 ATCGGCACAAAGCCATCAGTGATGGTACTATG
1 ATCGGCACAAAGCCATCAGTAACGGTAC-ATG
31385866 ATCGGCACAAAGCCATCAGTAACGGTACTATG
1 ATCGGCACAAAGCCATCAGTAACGGTAC-ATG
*
31385898 ATCGGCACAAAGCCATTAGTAACGGTACTATG
1 ATCGGCACAAAGCCATCAGTAACGGTAC-ATG
*
31385930 ATCGACACAAAGCCATCA
1 ATCGGCACAAAGCCATCA
31385948 ATAGCATCAT
Statistics
Matches: 177, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
31 3 0.02
32 173 0.98
33 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (31 bp):
ATCGGCACAAAGCCATCAGTAACGGTACATG
Found at i:31385848 original size:96 final size:96
Alignment explanation
Indices: 31385672--31385947 Score: 276
Period size: 96 Copynumber: 2.9 Consensus size: 96
31385662 TACAGAAATG
* * * * *
31385672 TGATTGGCACAAAGCCATTAGTAGA-AGTGATATAATCGACACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTA-ACAGTGAAATAATCGACACACAACCATCAGTAACGCTAACA
31385736 TGATCGGCACAAAGCCATCAGT-ATCAGTGA-TA
65 TGATCGGCACAAAGCCATCAGTGAT-AGT-ACTA
* * * * ** *
31385768 TGATCGGTACATAGCCATCAGTAACAGTGAAATGATCGACACACAACCATCGGTAATTCTAATAT
1 TGATCGGCACAAAGCCATCAGTAACAGTGAAATAATCGACACACAACCATCAGTAACGCTAACAT
*
31385833 GATCGGCACAAAGCCATCAGTGATGGTACTA
66 GATCGGCACAAAGCCATCAGTGATAGTACTA
* * * * * *
31385864 TGATCGGCACAAAGCCATCAGTAACGGT-ACTATGATCGGCACA-AAGCCATTAGTAACGGT-AC
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-AATAATCGACACACAA-CCATCAGTAACGCTAAC
*
31385926 TATGATCGACACAAAGCCATCA
64 -ATGATCGGCACAAAGCCATCA
31385948 ATAGCATCAT
Statistics
Matches: 149, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
95 6 0.04
96 141 0.95
97 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (96 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGAAATAATCGACACACAACCATCAGTAACGCTAACAT
GATCGGCACAAAGCCATCAGTGATAGTACTA
Found at i:31386026 original size:27 final size:27
Alignment explanation
Indices: 31385986--31386057 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
31385976 AGTATCGCAC
* *
31385986 CAAAGCAACCAGTAATAGT-ATATATGG
1 CAAAGCCACCAGTAACAGTGAT-TATGG
* * *
31386013 CCAAGCCACTAGTAACAGTGATTGTGG
1 CAAAGCCACCAGTAACAGTGATTATGG
31386040 CAAAGCCACCAGT-ACAGT
1 CAAAGCCACCAGTAACAGT
31386058 ACTTCCTCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.14
27 30 0.81
28 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (27 bp):
CAAAGCCACCAGTAACAGTGATTATGG
Found at i:31386149 original size:24 final size:23
Alignment explanation
Indices: 31386122--31386203 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 23
31386112 TCATGCTCAG
*
31386122 AATCAATCATTAAAATCACAGACA
1 AATCAATCATTAAAA-CACAGAAA
* * *
31386146 AATCAGTTA-TACCAACCACAGAAA
1 AATCAATCATTA--AAACACAGAAA
* *
31386170 AATCAGTCATTTAAACACAGATAA
1 AATCAATCATTAAAACACAGA-AA
31386194 AA-CAATCATT
1 AATCAATCATT
31386204 TGACCTCGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
23 17 0.37
24 26 0.57
25 3 0.07
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.22
Consensus pattern (23 bp):
AATCAATCATTAAAACACAGAAA
Found at i:31386273 original size:27 final size:27
Alignment explanation
Indices: 31386240--31386557 Score: 318
Period size: 27 Copynumber: 11.8 Consensus size: 27
31386230 TTACCCACCA
* *
31386240 GGGCATTACGATCATTTTACACTACAA
1 GGGCATTACGATCATTTTACCCTACAG
* *
31386267 CGGCATTACGGTCATTTTACCCTACAG
1 GGGCATTACGATCATTTTACCCTACAG
*
31386294 GGGCATTAC-AGTCATTTTACCCTACAA
1 GGGCATTACGA-TCATTTTACCCTACAG
**
31386321 GGGCATTACGGCCATTTTACCCTACAG
1 GGGCATTACGATCATTTTACCCTACAG
*
31386348 GGGCATTACGATCATTTTACCCTATAG
1 GGGCATTACGATCATTTTACCCTACAG
* * *
31386375 GGGCATTATGGTCATTTTACCCTATAG
1 GGGCATTACGATCATTTTACCCTACAG
*
31386402 GGGTATTA-GAGTCATTTTACCCTACAG
1 GGGCATTACGA-TCATTTTACCCTACAG
*
31386429 GGGCATTACGGTCATTTTACCCTACAG
1 GGGCATTACGATCATTTTACCCTACAG
* * * * **
31386456 GGGTATTACGGTCATGTTATCCTATGG
1 GGGCATTACGATCATTTTACCCTACAG
* * * *
31386483 GGGTATTTCGGT-ATTCTACCCTACAG
1 GGGCATTACGATCATTTTACCCTACAG
* * * **
31386509 GGGCATTTCAATTATTTTACCCTATGG
1 GGGCATTACGATCATTTTACCCTACAG
* * *
31386536 GGGAATTTCGGTCATTTTACCC
1 GGGCATTACGATCATTTTACCC
31386558 ATCGAGGGTA
Statistics
Matches: 245, Mismatches: 41, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.08
27 225 0.92
28 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGCATTACGATCATTTTACCCTACAG
Found at i:31386570 original size:27 final size:27
Alignment explanation
Indices: 31386359--31386629 Score: 127
Period size: 27 Copynumber: 10.1 Consensus size: 27
31386349 GGCATTACGA
* *
31386359 TCATTTTACCCTATAG-GGGCATTAT-GG
1 TCATTTTACCC-ATCGAGGGTATT-TCGG
* *
31386386 TCATTTTACCCTATAG-GGGTA-TTAGAG
1 TCATTTTACCC-ATCGAGGGTATTTCG-G
* *
31386413 TCATTTTACCC-TAC-AGGGGCATTACGG
1 TCATTTTACCCAT-CGA-GGGTATTTCGG
*
31386440 TCATTTTACCC-TAC-AGGGGTATTACGG
1 TCATTTTACCCAT-CGA-GGGTATTTCGG
* * *
31386467 TCATGTTATCCTAT-GGGGGTATTTCGG
1 TCATTTTA-CCCATCGAGGGTATTTCGG
* * **
31386494 T-ATTCTACCC-TAC-AGGGGCATTTCAA
1 TCATTTTACCCAT-CGA-GGGTATTTCGG
* * *
31386520 TTATTTTACCCTAT-GGGGGAATTTCGG
1 TCATTTTACCC-ATCGAGGGTATTTCGG
**
31386547 TCATTTTACCCATCGAGGGTATTTCAA
1 TCATTTTACCCATCGAGGGTATTTCGG
* **
31386574 TCATTTTACTCATCGAGGGTATTTCAA
1 TCATTTTACCCATCGAGGGTATTTCGG
* *
31386601 TCATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTCGG
31386628 TC
1 TC
31386630 CAGATATCGA
Statistics
Matches: 194, Mismatches: 33, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
24 1 0.01
25 4 0.02
26 17 0.09
27 166 0.86
28 4 0.02
29 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCGG
Found at i:31386580 original size:54 final size:53
Alignment explanation
Indices: 31386268--31386625 Score: 217
Period size: 54 Copynumber: 6.6 Consensus size: 53
31386258 ACACTACAAC
* * * * ***
31386268 GGCATTACGGTCATTTTACCCTAC-AGGGGCATTACAGTCATTTTACCCTACAAG
1 GGCATTTCGGTCATTTTACCCT-CGA-GGGTATTTCAATCATTTTACCCTATGGG
* * * * * *
31386322 GGCATTACGGCCATTTTACCCTAC-AGGGGCATTACGATCATTTTACCCTATAGG
1 GGCATTTCGGTCATTTTACCCT-CGA-GGGTATTTCAATCATTTTACCCTATGGG
** ** * **
31386376 GGCATTAT-GGTCATTTTACCCTATAGGGGTATTAGAGTCATTTTACCCTACAGG
1 GGCATT-TCGGTCATTTTACCCTCGA-GGGTATTTCAATCATTTTACCCTATGGG
* * ** * *
31386430 GGCATTACGGTCATTTTACCCTAC-AGGGGTATTACGGTCATGTTATCCTATGGG
1 GGCATTTCGGTCATTTTACCCT-CGA-GGGTATTTCAATCATTTTACCCTATGGG
* * * *
31386484 GGTATTTCGGT-ATTCTACCCTAC-AGGGGCATTTCAATTATTTTACCCTATGGG
1 GGCATTTCGGTCATTTTACCCT-CGA-GGGTATTTCAATCATTTTACCCTATGGG
* * *
31386537 GGAATTTCGGTCATTTTACCCATCGAGGGTATTTCAATCATTTTACTC-ATCGAG
1 GGCATTTCGGTCATTTTACCC-TCGAGGGTATTTCAATCATTTTACCCTAT-GGG
* ** *
31386591 GGTATTTCAATCATTTTACCCTTTGAGGGTATTTC
1 GGCATTTCGGTCATTTTACCC-TCGAGGGTATTTC
31386626 GGTCCAGATA
Statistics
Matches: 254, Mismatches: 42, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
53 46 0.18
54 206 0.81
55 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (53 bp):
GGCATTTCGGTCATTTTACCCTCGAGGGTATTTCAATCATTTTACCCTATGGG
Found at i:31393250 original size:14 final size:16
Alignment explanation
Indices: 31393231--31393269 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
31393221 TTGGGTGGTC
*
31393231 TTGAGGTGTTA-GAA-
1 TTGAGGTGTTATAAAG
31393245 TTGAGGTGTTATAAAG
1 TTGAGGTGTTATAAAG
31393261 TTGAGGTGT
1 TTGAGGTGT
31393270 GTTTTGGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TTGAGGTGTTATAAAG
Found at i:31399161 original size:50 final size:50
Alignment explanation
Indices: 31399059--31399300 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 50
31399049 GGGAATGAGA
* * ** *
31399059 TCCCATGTAAGACCATGTCTGGGACACGACATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGC
31399115 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGC
** * * * * *
31399165 TCCCCCGTAAGATCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGC
* * * * * * *
31399215 TCCAATGTAAGACCATATCTTGGAGATGACATTGGCA--GTATAGGAGA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGC
* *
31399263 ATCCCATGTAAGACCACGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31399301 TGTAATTATC
Statistics
Matches: 154, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 2 0.01
49 37 0.24
50 77 0.50
52 1 0.01
53 3 0.02
56 34 0.22
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGC
Found at i:31407344 original size:56 final size:52
Alignment explanation
Indices: 31407279--31407520 Score: 173
Period size: 50 Copynumber: 4.7 Consensus size: 52
31407269 GGGAATGAGA
* * *
31407279 TCCCATGTAAGACCATGCCTGAGACATGGCATTGGCATTATTGAGGTTATGAGAGG-
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--ATTGA-G--ATAAGAGGT
31407335 TCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGC-ATTGAGATAAGAGGT
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCAATTGAGATAAGAGGT
* ** * * **
31407386 TCCC-TGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGA-AC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAATTGAGATAAGAGGT
* * * * * *
31407435 TCCCATGTAAGACCATATCTAGGATATGACATTGGCAGTACTG-GA-AACA---
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--ATTGAGATAAGAGGT
* *
31407484 TCCCATGTAAGACCATGTCTGGGAAATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31407521 TGTTATTATC
Statistics
Matches: 155, Mismatches: 24, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
49 36 0.23
50 69 0.45
51 7 0.05
52 2 0.01
53 8 0.05
55 1 0.01
56 32 0.21
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAATTGAGATAAGAGGT
Found at i:31411425 original size:20 final size:20
Alignment explanation
Indices: 31411400--31411437 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31411390 TAGTTATTGC
*
31411400 TATCATTTTTAAAATTGTTT
1 TATCATATTTAAAATTGTTT
*
31411420 TATCATATTTAAATTTGT
1 TATCATATTTAAAATTGT
31411438 CTTCAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TATCATATTTAAAATTGTTT
Found at i:31420718 original size:44 final size:43
Alignment explanation
Indices: 31420236--31420791 Score: 187
Period size: 44 Copynumber: 12.8 Consensus size: 43
31420226 CGACTAATCC
* * * * *
31420236 TATCTCCCTGAAGTCGCAGTGGAGTGGATTAAAATAAAAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAATAACAGATCT
* * * *
31420280 TATCTCTCTGAAGTTGCAGTAGAGTAGATCG-CATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGAT-GAAATAACAGATCT
* * ** *
31420321 TATCCCCCTGAGGTTGCAGCAGAGCAGACTGAAGA-AACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAA-ATAACAGATCT
* ** * * ** *
31420365 TATCTCCGT-AAGAAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGAT-GAA-ATAACAGATCT
* * * * * ** *
31420409 TACCTCCCTGAGGATACAGTGGAGTACATTG-AA-GCCAGTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAATAACAG--ATCT
* * *
31420453 TATCTCCCTGAAGTTACAGTGGAGTGGATTGAAATAAAATG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAATAACA-GATCT
* * * * *
31420497 TATCTCTCTGAAGTTACAGTAGAGTAGATCG-CAT--CAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGAT-GAAATAACAGATCT
* *
31420538 TATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGA-AACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAA-ATAACAGATCT
* **** *
31420582 TATCTCCCT-AAGAATT--AGTGGAGCAGATCGAAGATGGTGGATTT
1 TATCTCCCTGAAG--TTGCAGTGGAGTAGAT-GAA-ATAACAGATCT
* * * * * ** *
31420626 TACCTCCCTGAGGATACAGTGGAGTACATTG-AA-GCCAGTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAATAACAG--ATCT
*
31420670 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAATAACAGATCT
* * * * * * *
31420714 TATCTCTCTGAAGTTGTAGTAGAGTAGAT--TACACCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATGAAATAACAGATCT
* *
31420755 TATCCCCCTGAAGTTGCAGTGGGGTAGACTGAGAATA
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TGA-AATA
31420792 GCGAATCTTA
Statistics
Matches: 376, Mismatches: 98, Indels: 75
0.68 0.18 0.14
Matches are distributed among these distances:
40 1 0.00
41 85 0.23
42 14 0.04
43 50 0.13
44 187 0.50
45 33 0.09
46 5 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGATGAAATAACAGATCT
Found at i:31420774 original size:217 final size:216
Alignment explanation
Indices: 31420230--31420786 Score: 889
Period size: 217 Copynumber: 2.6 Consensus size: 216
31420220 TTTAAGCGAC
* *
31420230 TAATCCTATCTCCCTGAAGTCGCAGTGGAGTGGATTAAAATAAAAGGTCTTATCTCTCTGAAGTT
1 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAAAA-GTCTTATCTCTCTGAAGTT
* **
31420295 GCAGTAGAGTAGATCGCATCAAGTCTTATCCCCCTGAGGTTGCAGCAGAGCAGACTGAAGAAACA
65 GCAGTAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAACA
*
31420360 GATCTTATCTCCGTAAGAAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGATA
130 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGATA
31420425 CAGTGGAGTACATTGAAGCCAG
195 CAGTGGAGTACATTGAAGCCAG
*
31420447 TAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAATAAAATGTCTTATCTCTCTGAAGTT
1 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAAAA-GTCTTATCTCTCTGAAGTT
* *
31420512 ACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAACA
65 GCAGTAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAACA
* **
31420577 GATCTTATCTCCCTAAGAATTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGAGGATA
130 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGATA
31420642 CAGTGGAGTACATTGAAGCCAG
195 CAGTGGAGTACATTGAAGCCAG
* * *
31420664 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAATAATAGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAAAAG-TCTTATCTCTCTGAAGTT
* ** * * * *
31420729 GTAGTAGAGTAGATTACACCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGTAGACTGA
65 GCAGTAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTGCAGTGGAGCAGACTGA
31420787 GAATAGCGAA
Statistics
Matches: 313, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
216 1 0.00
217 312 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (216 bp):
TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAAAAGTCTTATCTCTCTGAAGTTG
CAGTAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAACAG
ATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGATAC
AGTGGAGTACATTGAAGCCAG
Found at i:31439343 original size:20 final size:19
Alignment explanation
Indices: 31439320--31439381 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
31439310 AAGACTATGA
31439320 ACCACTTCATTTACTTACTT
1 ACCA-TTCATTTACTTACTT
31439340 ACCATTTCATTTACTTACTT
1 ACCA-TTCATTTACTTACTT
* *
31439360 TCCATTCCGTTTACTTAGCTT
1 ACCATT-CATTTACTTA-CTT
31439381 A
1 A
31439382 AACTTGAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (19 bp):
ACCATTCATTTACTTACTT
Found at i:31440109 original size:6 final size:6
Alignment explanation
Indices: 31440098--31440122 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31440088 GTCAAAACCA
31440098 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
31440123 ACATCGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:31441732 original size:21 final size:22
Alignment explanation
Indices: 31441706--31441747 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31441696 TCATTTACTC
* *
31441706 TCATTT-TCTCTTTTTTTTTTT
1 TCATTTCTCTCATTTTATTTTT
31441727 TCATTTCTCTCATTTTATTTT
1 TCATTTCTCTCATTTTATTTT
31441748 CTCTCCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (22 bp):
TCATTTCTCTCATTTTATTTTT
Found at i:31445063 original size:374 final size:373
Alignment explanation
Indices: 31444286--31445397 Score: 1676
Period size: 374 Copynumber: 3.0 Consensus size: 373
31444276 GAGGAAATTA
* * * * *
31444286 TTAGTGATATTTCTATAGATAGTCCCTTGAGACGATATGTGTAAGGAGATAAGAAATCAATTAGA
1 TTAGTGATATTTCTATAGATAGTCCCTTGAGACAATACGTGTAAGTAGATAAGAAATCCATTGGA
* * ** ***
31444351 GATTTAAGGTGAAGTATTGGAATTACATTGGAATTAGAGTTGCATAGCGAAAATGTGGTGGATGG
66 GATTTAAGGTGAAGTATTGGAACTACATTGGAATCAGAGTTGCGCAGCGAAAGCATGGTGGATGG
* * *
31444416 TTTAGAAAGAAGAGCTATGAACGTTATGGGTAAGTGAATTGGCTTGACAATAGGAA-TTTGAAGG
131 TTTAGAAAGAAGAGTTATGAATG-TATGGATAAGTGAATTGGCTTGACAATAGGAATTTTG-AGG
** * *
31444480 AAAAAATTCTTTTCAAGGAGGGGAGAGTTGTCACAT-CCAAAAATTGGATTAGTAGAAATTGGGT
194 ACGAAACTCTTTTCAATGAGGGGAGAGTTGTCACATCCCAAAAATTGGATTAGTAGAAATTGGGT
*
31444544 TAATGAACCGAGAGAGTGGTCGCCCAAATTTTA-TTATTTATTTATTTATTTATTTTACATTATC
259 TAATGAACCGAGAGAGTGGTCGCCCAAATTTTATTTA-TTATTTATTTATTTATTTTAGATTATC
* * *
31444608 TTTTCATGTTAATCGATATCAAGTATAGTGGTTGAGTAGTGGAGGAAATCG
323 TTTTAATGTTAATAGATATCAAGTATAGTGGTTGAGTAGTGGAGAAAATCG
* * * *
31444659 TTAGTGATATTTCAATAGATAGTCCCTTGAGATAATACGTGCAAATAGATAAGAAATCCATTGGA
1 TTAGTGATATTTCTATAGATAGTCCCTTGAGACAATACGTGTAAGTAGATAAGAAATCCATTGGA
*
31444724 GATTTAAGGTGAAGTATTGGAACTACATTGGAATCAGAGTTGTGCAGCGAAAGCATGGTGGATGG
66 GATTTAAGGTGAAGTATTGGAACTACATTGGAATCAGAGTTGCGCAGCGAAAGCATGGTGGATGG
*
31444789 TTTAGAAATAAGAGTTATGAAATGTATGGATAAGTGAATTGGCTTGACAATAGGAATTTTGAGGA
131 TTTAGAAAGAAGAGTTATG-AATGTATGGATAAGTGAATTGGCTTGACAATAGGAATTTTGAGGA
* **
31444854 CGAAACTCTTTTCAATGAGGGGAGAGTTGTCACATCCCAAATATCAGATTAGTAGAAATTGGGTT
195 CGAAACTCTTTTCAATGAGGGGAGAGTTGTCACATCCCAAAAATTGGATTAGTAGAAATTGGGTT
* *
31444919 AATAAACCGAGAGAGTGGTCGCCCAAATTTTATTTATTATTTATTTAATTATTTTAGATTATCTT
260 AATGAACCGAGAGAGTGGTCGCCCAAATTTTATTTATTATTTATTTATTTATTTTAGATTATCTT
*
31444984 TTGATGTTAATAGATATCAAGTATAGTGGTTGAGTAGTGGAGAAAATCG
325 TTAATGTTAATAGATATCAAGTATAGTGGTTGAGTAGTGGAGAAAATCG
*
31445033 TTAGTGATATTTCTATTA-ATAGTCCCTTGAGACAATACGTGTAAGTAGATAAGAAATTCATTGG
1 TTAGTGATATTTCTA-TAGATAGTCCCTTGAGACAATACGTGTAAGTAGATAAGAAATCCATTGG
* *
31445097 AGATTTAAGGTGAAGTATTGGAACTACGTTGAAATCAGAGTTGCGCAGCGAAAGCATGGTGGATG
65 AGATTTAAGGTGAAGTATTGGAACTACATTGGAATCAGAGTTGCGCAGCGAAAGCATGGTGGATG
* *
31445162 GTTTAGAAAGAAGAGTTATGGATTTTATGGATAAGTGAATTGGCTTGACAATAGGAATTTTGAGG
130 GTTTAGAAAGAAGAGTTAT-GAATGTATGGATAAGTGAATTGGCTTGACAATAGGAATTTTGAGG
* * * *
31445227 ACGAAACTCTTTTCCATGAGGGGAGAGTTGTTACATCCCAAAAATTGGGTTAGTAGAAATTAGGT
194 ACGAAACTCTTTTCAATGAGGGGAGAGTTGTCACATCCCAAAAATTGGATTAGTAGAAATTGGGT
* * *
31445292 TAATGAACCAAGAGAGTGGTTGTCCAAATTTTATTTATT-TATTATTTATTTATTTTAGATTATC
259 TAATGAACCGAGAGAGTGGTCGCCCAAATTTTATTTATTAT-TTATTTATTTATTTTAGATTATC
* * *
31445356 TTTTAATGTTAATAAATATCAATTATAGTGGTTGAGCAGTGG
323 TTTTAATGTTAATAGATATCAAGTATAGTGGTTGAGTAGTGG
31445398 TGGAGCTATC
Statistics
Matches: 671, Mismatches: 61, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
373 197 0.29
374 468 0.70
375 6 0.01
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.34
Consensus pattern (373 bp):
TTAGTGATATTTCTATAGATAGTCCCTTGAGACAATACGTGTAAGTAGATAAGAAATCCATTGGA
GATTTAAGGTGAAGTATTGGAACTACATTGGAATCAGAGTTGCGCAGCGAAAGCATGGTGGATGG
TTTAGAAAGAAGAGTTATGAATGTATGGATAAGTGAATTGGCTTGACAATAGGAATTTTGAGGAC
GAAACTCTTTTCAATGAGGGGAGAGTTGTCACATCCCAAAAATTGGATTAGTAGAAATTGGGTTA
ATGAACCGAGAGAGTGGTCGCCCAAATTTTATTTATTATTTATTTATTTATTTTAGATTATCTTT
TAATGTTAATAGATATCAAGTATAGTGGTTGAGTAGTGGAGAAAATCG
Found at i:31445897 original size:15 final size:17
Alignment explanation
Indices: 31445877--31445913 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
31445867 CTCATATATT
31445877 TTTTTCA-TTTCTC-CC
1 TTTTTCATTTTCTCTCC
31445892 TTTTTCATTTTCTCTCC
1 TTTTTCATTTTCTCTCC
31445909 TTTTT
1 TTTTT
31445914 GACAAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 6 0.30
17 7 0.35
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTCATTTTCTCTCC
Found at i:31451867 original size:24 final size:25
Alignment explanation
Indices: 31451838--31451906 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
31451828 CAAATAAAAT
31451838 AATAATAATACAACATAACTTTTA-
1 AATAATAATACAACATAACTTTTAG
*
31451862 AGTAATAATACATA-ATAA-TTTTAG
1 AATAATAATACA-ACATAACTTTTAG
31451886 AATAATAATAC-ACAATAACTT
1 AATAATAATACAAC-ATAACTT
31451907 CAAAAATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 29 0.76
25 3 0.08
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (25 bp):
AATAATAATACAACATAACTTTTAG
Found at i:31451973 original size:24 final size:23
Alignment explanation
Indices: 31451941--31452039 Score: 70
Period size: 24 Copynumber: 4.5 Consensus size: 23
31451931 GATGAAATTA
31451941 AAAATAATAATGCATAATAGGTTT
1 AAAATAATAATGCATAATA-GTTT
*
31451965 AAAATAATAAT--AT-GTAG--T
1 AAAATAATAATGCATAATAGTTT
* * *
31451983 AAACTTAA-AATGGATGAA-A-TTA
1 AAA-ATAATAATGCAT-AATAGTTT
31452005 AAAATAATAATGCATAATAGGTTT
1 AAAATAATAATGCATAATA-GTTT
31452029 AAAATAATAAT
1 AAAATAATAAT
31452040 ATGTAGTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 22
0.66 0.08 0.26
Matches are distributed among these distances:
18 7 0.12
19 3 0.05
20 3 0.05
21 8 0.14
22 12 0.21
24 24 0.42
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.31
Consensus pattern (23 bp):
AAAATAATAATGCATAATAGTTT
Found at i:31451999 original size:64 final size:63
Alignment explanation
Indices: 31451931--31452056 Score: 243
Period size: 64 Copynumber: 2.0 Consensus size: 63
31451921 CATAATACAT
31451931 GATGAAATTAAAAATAATAATGCATAATAGGTTTAAAATAATAATATGTAGTAAACTTAAAATG
1 GATGAAATTAAAAATAATAATGCATAATAGGTTTAAAATAATAATATGTAGTAAAC-TAAAATG
31451995 GATGAAATTAAAAATAATAATGCATAATAGGTTTAAAATAATAATATGTAGTAAACTAAAAT
1 GATGAAATTAAAAATAATAATGCATAATAGGTTTAAAATAATAATATGTAGTAAACTAAAAT
31452057 ATAGTACATA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 6 0.10
64 56 0.90
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.31
Consensus pattern (63 bp):
GATGAAATTAAAAATAATAATGCATAATAGGTTTAAAATAATAATATGTAGTAAACTAAAATG
Found at i:31452419 original size:25 final size:25
Alignment explanation
Indices: 31452372--31452420 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31452362 AAATCGAAAC
* **
31452372 AAAAATGAAATAAAAGATTAAATTT
1 AAAAAGGAAATAAAAGAAAAAATTT
*
31452397 AAAAAGGAAATAAAATAAAAAATT
1 AAAAAGGAAATAAAAGAAAAAATT
31452421 ATCGAATTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (25 bp):
AAAAAGGAAATAAAAGAAAAAATTT
Found at i:31452844 original size:13 final size:13
Alignment explanation
Indices: 31452826--31452850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31452816 AAAAGAATCC
31452826 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
31452839 AAAGAAGAAAAA
1 AAAGAAGAAAAA
31452851 TGTGCAATCA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:31453759 original size:44 final size:43
Alignment explanation
Indices: 31453711--31454012 Score: 202
Period size: 44 Copynumber: 7.0 Consensus size: 43
31453701 ATTTTGATCC
* **
31453711 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTCTTTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGT-TTTTCAATCT
* * * * * *
31453755 GCTCCACTACAACTTTAGGGAGATAATACTGG--ATGCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCAATCT
* * * * *
31453796 GCTCTACTGCAACTTCAGAGAGATAATATCTGTGGTTTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTTTCAATCT
* * ***
31453840 GCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTCAATCT
* * * * * * *
31453884 GCTCGACTACAACTTTAGGGAGATAAGACTGG--ATGCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCAATCT
* * *
31453925 GCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTT-AATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTG-GTTTTTCAATCT
* * * *
31453969 GCTCCACTACAACTTCTGGGAGATAGGATTGGTTTCTTCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTCAATCT
31454013 ACTTCGCTGC
Statistics
Matches: 195, Mismatches: 51, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
41 56 0.29
42 10 0.05
43 11 0.06
44 116 0.59
45 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCAATCT
Found at i:31453840 original size:129 final size:129
Alignment explanation
Indices: 31453647--31454007 Score: 519
Period size: 129 Copynumber: 2.8 Consensus size: 129
31453637 GCAACTTTAA
* * * * * ** ** *
31453647 AGATAAGTCT-GATGCGATCTGCTCTACTGTAACTTCAGAGGGATGAGATCCATCATTTTGATCC
1 AGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
31453711 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTCTT-TTCTGTCTGCTCCACTACAACTTTAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTCTGTCTGCTCCACTACAACTTTAGGG
* *
31453775 AGATAATACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCC
1 AGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * *
31453840 GCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCGACTACAACTTTAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACAACTTTAGGG
* * *
31453904 AGATAAGACTGGATGCAATCCGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCT
1 AGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* *
31453969 GCTCCACTACAACTTCTGGGAGATAGGATTGGTTTCTTC
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTC
31454008 GATCTACTTC
Statistics
Matches: 207, Mismatches: 24, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
128 10 0.05
129 197 0.95
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (129 bp):
AGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACAACTTTAGGG
Found at i:31453924 original size:85 final size:85
Alignment explanation
Indices: 31453835--31453993 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
31453825 CTGTGGTTTT
* * * * ** *
31453835 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGT-TTCTTTTGTCTGCTCGACTACAACTT
1 AATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGGTGGT-TTTAATCTGCTCCACTACAACTT
31453899 -TAGGGAGATAAGACTGGATGC
65 CT-GGGAGATAAGACTGGATGC
* *
31453920 AATCCGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCTGCTCCACTACAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGGTGGTTTTAATCTGCTCCACTACAACTTC
31453985 TGGGAGATA
66 TGGGAGATA
31453994 GGATTGGTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 61 0.97
86 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (85 bp):
AATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGGTGGTTTTAATCTGCTCCACTACAACTTC
TGGGAGATAAGACTGGATGC
Found at i:31454105 original size:88 final size:88
Alignment explanation
Indices: 31454003--31455310 Score: 1898
Period size: 88 Copynumber: 14.9 Consensus size: 88
31453993 AGGATTGGTT
31454003 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
**
31454068 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454091 TCTTCGATCTACTTCACTGCCAATACAGGAAAACAAGATCTTCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
**
31454156 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454179 TCTTCGATCTACTTCACTGCCAATACAGGAAAACAAGATCTTCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
**
31454244 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454267 TCTTCGATCTACTTCACTGCCAATACAGGAAAACAAGATCTTCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
**
31454332 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454355 TCTTCGATCTACTTCACTGCCAATACAGGAAAACAAGATCTTCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
**
31454420 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454443 TCTTCGATCTACTTCACTGCCAATACAGGAAAACAAGATCTTCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
*
31454508 TGCTCAGGGAGACAAGGCTAGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * * * *
31454531 TCTTCGATCTACTTCGCTGCTAATATAGGAAGATAAGATCTGCTATTTTCAACCCACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* * *
31454596 TGCTTAGGGAGTCAATGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454619 TCTTCAATCTACTTCGCTGCTAATACAGAAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* * *
31454684 TACTCAAGGAGACAAGGCTAGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * ** * * ** * **
31454707 TCTTTGATTTACTTTACTGCCAATACAGGAAGACAATATCTGTTATTTGGAACCTACTCCGCTAT
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* * *
31454772 TGCTTAGGGAGACAAAGCTGGGA
66 TGCTCAGGGAGACAAGGCTGGGG
* * * *
31454795 TCTTCGATCTACTTCCCTACCAATACAGGAAGATAAGATTTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
*
31454860 TGCTCAAGGAGACAAGGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454883 TCTTCGATCTACTTCGTTGCTAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
*
31454948 TGCTCAAGGAGACAAGGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31454971 TCTTCGATCTACTTCGTTGCTAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
*
31455036 TGCTCAAGGAGACAAGGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31455059 TCTTCGATCTACTTCGTTGCTAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
*
31455124 TGCTCAAGGAGACAAGGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* * *
31455147 TCTTCGATCTACTTCGTTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGT
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
31455212 TGCTCAGGGAGACAAGGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
* ** * *
31455235 TCTTCGATCTACTTCGCTGCCAATACAAGAA-ACAAGATCTATTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
31455299 TGCTCAGGGAGA
66 TGCTCAGGGAGA
31455311 TAGGACTGGT
Statistics
Matches: 1134, Mismatches: 86, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
87 40 0.04
88 1094 0.96
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTGGGG
Found at i:31455427 original size:44 final size:44
Alignment explanation
Indices: 31455378--31455802 Score: 492
Period size: 44 Copynumber: 9.7 Consensus size: 44
31455368 CTTTGATCTG
* * * * *
31455378 TTCCACTACTGTTTAGGGAGACATGA-TCTACAATCTTTAACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACT-TATAATCTTCAACCTA
* * ** *
31455422 CTCCACTGCTACTCAGGGAGATAGGACTTATAATCTTCCACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
** * * * * *
31455466 TTCCACTGTTGTTGAGGTAGATATGACTTACAATCTTCCACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
* * * *
31455510 TTCCACTATTGTTCAGGGAGATAAGACTTACAATCTTCCACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
* *
31455554 TTCCACTTCTGTTCAGGGAGATAGGACTTACAATCTTCAACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
* *
31455598 TTCCGCTACTGTTCAGGGAGATAGGAATTATAATCTTCAACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
* ** * * *
31455642 TTCCATTGTTATTCAGGGAGATAGGACTTGTAATCTTTAACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
* * *
31455686 TTTCACTGCTGTTCAGGGAGATAGGACTTGTAATCTTCAACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
* * * *
31455730 TTCCACTACTGTTCAGGGAAATAGGAATTGTAATCTTTAACCTA
1 TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
31455774 TTCCACTACTGTTCAGGGAGATAGGACTT
1 TTCCACTACTGTTCAGGGAGATAGGACTT
31455803 GTGGTTTCGC
Statistics
Matches: 330, Mismatches: 50, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 329 1.00
45 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCAACCTA
Found at i:31459416 original size:24 final size:25
Alignment explanation
Indices: 31459387--31459455 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
31459377 AATAAAAAAT
*
31459387 AATAATAATACAGCATAACTTTTA-
1 AATAATAATACAGAATAACTTTTAG
* * *
31459411 AGTAATAGTACATAATAA-TTTTAG
1 AATAATAATACAGAATAACTTTTAG
31459435 AATAATAATACAGAATAACTT
1 AATAATAATACAGAATAACTT
31459456 GAAAAATATG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 5 0.14
24 29 0.81
25 2 0.06
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (25 bp):
AATAATAATACAGAATAACTTTTAG
Found at i:31459899 original size:18 final size:18
Alignment explanation
Indices: 31459876--31459915 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
31459866 ATAAAAGATT
*
31459876 AAATTTAAAAAGGAAATA
1 AAATTTAAAAAGAAAATA
31459894 AAATTTAAAAAGAAAATA
1 AAATTTAAAAAGAAAATA
31459912 AAAT
1 AAAT
31459916 AAAAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATTTAAAAAGAAAATA
Found at i:31459920 original size:17 final size:18
Alignment explanation
Indices: 31459876--31459922 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
31459866 ATAAAAGATT
* *
31459876 AAATTTAAAAAGGAAATA
1 AAATTAAAAAAGAAAATA
*
31459894 AAATTTAAAAAGAAAATA
1 AAATTAAAAAAGAAAATA
31459912 AAA-TAAAAAAG
1 AAATTAAAAAAG
31459923 TATCGAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (18 bp):
AAATTAAAAAAGAAAATA
Found at i:31460346 original size:13 final size:13
Alignment explanation
Indices: 31460328--31460352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31460318 AAAAAAATCC
31460328 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
31460341 AAAGAAGAAAAA
1 AAAGAAGAAAAA
31460353 TATGCAATCA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:31471830 original size:36 final size:36
Alignment explanation
Indices: 31471783--31471855 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
31471773 CTTCTTGAAA
*
31471783 TTATAACCCCATCGTCTTTCCTTAGAAGAATAAGCT
1 TTATAACCCCATCGTCTTTCCCTAGAAGAATAAGCT
31471819 TTATAACCCCATCGTCTTTCCCTAGAAGAATAAGCT
1 TTATAACCCCATCGTCTTTCCCTAGAAGAATAAGCT
31471855 T
1 T
31471856 AGCTATACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (36 bp):
TTATAACCCCATCGTCTTTCCCTAGAAGAATAAGCT
Found at i:31472681 original size:21 final size:21
Alignment explanation
Indices: 31472656--31472695 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31472646 TTAGTGGTTG
*
31472656 AATTCTGATTAGTTGGATTTC
1 AATTCTGATTAGTTAGATTTC
*
31472677 AATTCTGTTTAGTTAGATT
1 AATTCTGATTAGTTAGATT
31472696 GGAACTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.50
Consensus pattern (21 bp):
AATTCTGATTAGTTAGATTTC
Found at i:31488078 original size:20 final size:20
Alignment explanation
Indices: 31488053--31488101 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
31488043 TGAGTTATTT
31488053 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
31488073 AAGTAAG-AGAGTAAGTGAAG
1 AAGTAAGCA-AGTAAGTAAAC
31488093 AA-TAAGCAA
1 AAGTAAGCAA
31488102 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:31498500 original size:387 final size:387
Alignment explanation
Indices: 31497779--31498553 Score: 1406
Period size: 387 Copynumber: 2.0 Consensus size: 387
31497769 CAGCCAGAAC
31497779 CGGGTAAAGAAGTTGTGATTTACAATGATGCAACCTTGAATGGATTGGGTTGTGTACTTATGCAG
1 CGGGTAAAGAAGTTGTGATTTACAATGATGCAACCTTGAATGGATTGGGTTGTGTACTTATGCAG
*
31497844 GAAGGTAAAGTAATAGCATATGCTTCCAGACAGTTAAAGCCACATGAGAAAAACTACCCAACGCA
66 GAAGGTAAAGTAATAGCATATGCTTCCAGACAGCTAAAGCCACATGAGAAAAACTACCCAACGCA
* * *
31497909 TAATTTTGAGCTAGCTGCCATTGTGTTTGCATTGAAGATCTAGAGACATCACATGTACAGTGAGA
131 CAATTTAGAGCTAGCTGCCATTGTATTTGCATTGAAGATCTAGAGACATCACATGTACAGTGAGA
**
31497974 AGTGTTGAATATTCACTGACCATAAAAGTTTGAAATACTTGATGACCCAGAAAGATTTGAACTTG
196 AGTGTCAAATATTCACTGACCATAAAAGTTTGAAATACTTGATGACCCAGAAAGATTTGAACTTG
31498039 AGGCAAAAAAGATGGCTAGAGTTGATTAAAGATTATGAGCTCGTGATCGACTATCACCCGGGTAA
261 AGGCAAAAAAGATGGCTAGAGTTGATTAAAGATTATGAGCTCGTGATCGACTATCACCCGGGTAA
* *
31498104 GGCAAACATTGTTGCTGATGCCTTGAGTAGAAAGTCTTTATTTATATTGAGAGCTTTGAATA
326 GGAAAACATTGTTGCTGATGCCTTGAGTAGAAAGTCTTTATTTACATTGAGAGCTTTGAATA
* * *
31498166 CGGGTAAAGAAGTTGTTATTTACAGTGATGCATCCTTGAATGGATTGGGTTGTGTACTTATGCAG
1 CGGGTAAAGAAGTTGTGATTTACAATGATGCAACCTTGAATGGATTGGGTTGTGTACTTATGCAG
*
31498231 GAAGGTAAAGTAATAGCATATGCTTCTAGACAGCTAAAGCCACATGAGAAAAACTACCCAACGCA
66 GAAGGTAAAGTAATAGCATATGCTTCCAGACAGCTAAAGCCACATGAGAAAAACTACCCAACGCA
*
31498296 CAATTTAGAGCTAGCTGCCATTGTATTTGCGTTGAAGATCTAGAGACATCACATGTACAGTGAGA
131 CAATTTAGAGCTAGCTGCCATTGTATTTGCATTGAAGATCTAGAGACATCACATGTACAGTGAGA
31498361 AGTGTCAAATATTCACTGACCATAAAAGTTTGAAATACTTGATGACCCAGAAAGATTTGAACTTG
196 AGTGTCAAATATTCACTGACCATAAAAGTTTGAAATACTTGATGACCCAGAAAGATTTGAACTTG
* *
31498426 AGGCAAAGAAGATGGCTAGAGTTGATTAAAGATTTTGAGCTCGTGATCGACTATCACCCGGGTAA
261 AGGCAAAAAAGATGGCTAGAGTTGATTAAAGATTATGAGCTCGTGATCGACTATCACCCGGGTAA
*
31498491 GGAAAACATTGTTGTTGATGCCTTGAGTAGAAAGTCTTTATTTACATTGAGAGCTTTGAATA
326 GGAAAACATTGTTGCTGATGCCTTGAGTAGAAAGTCTTTATTTACATTGAGAGCTTTGAATA
31498553 C
1 C
31498554 TAGTTTGGCT
Statistics
Matches: 372, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
387 372 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (387 bp):
CGGGTAAAGAAGTTGTGATTTACAATGATGCAACCTTGAATGGATTGGGTTGTGTACTTATGCAG
GAAGGTAAAGTAATAGCATATGCTTCCAGACAGCTAAAGCCACATGAGAAAAACTACCCAACGCA
CAATTTAGAGCTAGCTGCCATTGTATTTGCATTGAAGATCTAGAGACATCACATGTACAGTGAGA
AGTGTCAAATATTCACTGACCATAAAAGTTTGAAATACTTGATGACCCAGAAAGATTTGAACTTG
AGGCAAAAAAGATGGCTAGAGTTGATTAAAGATTATGAGCTCGTGATCGACTATCACCCGGGTAA
GGAAAACATTGTTGCTGATGCCTTGAGTAGAAAGTCTTTATTTACATTGAGAGCTTTGAATA
Found at i:31510936 original size:20 final size:20
Alignment explanation
Indices: 31510902--31510945 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
31510892 GTCTTAATCG
31510902 AATTAATTAGTTCTTAG-TTT
1 AATTAATTAGTTCTT-GTTTT
31510922 AATTAATT-GTGTCTTGTTTT
1 AATTAATTAGT-TCTTGTTTT
31510942 AATT
1 AATT
31510946 TAAGATGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (20 bp):
AATTAATTAGTTCTTGTTTT
Found at i:31512062 original size:23 final size:22
Alignment explanation
Indices: 31512037--31512111 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
31512027 CTTCTGTGCT
*
31512037 TCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTT-AGCTACATA
*
31512060 TCAGTGGTAGCTATGGCTACATA
1 TCAGTGGTAGCT-TAGCTACATA
* *
31512083 TCAATGGTAGTTTTAGCTACATA
1 TCAGTGGTAG-CTTAGCTACATA
31512106 TCAGTG
1 TCAGTG
31512112 TGGCACTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (22 bp):
TCAGTGGTAGCTTAGCTACATA
Found at i:31512848 original size:14 final size:14
Alignment explanation
Indices: 31512829--31512858 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31512819 TTCGAGAGAT
*
31512829 TTGTGAGGTTTTTG
1 TTGTGAGGTCTTTG
31512843 TTGTGAGGTCTTTG
1 TTGTGAGGTCTTTG
31512857 TT
1 TT
31512859 TCATGTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.03, G:0.33, T:0.57
Consensus pattern (14 bp):
TTGTGAGGTCTTTG
Found at i:31514611 original size:24 final size:23
Alignment explanation
Indices: 31514579--31514629 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
31514569 AAATGAGAGA
*
31514579 AAAAGAAAA-GAGTGAAAACAAAG
1 AAAAGAAAATGAG-AAAAACAAAG
*
31514602 AAAAGAAAAATGAGAAAAAGAAAG
1 AAAAG-AAAATGAGAAAAACAAAG
31514626 AAAA
1 AAAA
31514630 TTTGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 16 0.67
25 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAAGAAAATGAGAAAAACAAAG
Found at i:31514639 original size:20 final size:20
Alignment explanation
Indices: 31514579--31514639 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
31514569 AAATGAGAGA
31514579 AAAAGAAAAGAGTGAAAACAAAG
1 AAAAGAAAA-A-TGAAAA-AAAG
*
31514602 AAAAGAAAAATGAGAAAAAG
1 AAAAGAAAAATGAAAAAAAG
*
31514622 -AAAGAAAATTTGAAAAAA
1 AAAAGAAAA-ATGAAAAAA
31514640 GAGAGTGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 8 0.24
20 11 0.32
21 5 0.15
22 1 0.03
23 9 0.26
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.08
Consensus pattern (20 bp):
AAAAGAAAAATGAAAAAAAG
Found at i:31517972 original size:20 final size:20
Alignment explanation
Indices: 31517938--31517981 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
31517928 GTCTTAAACG
31517938 AATTAATTAGTTCTTAG-TTT
1 AATTAATTAGTTCTT-GTTTT
31517958 AATTAATT-GTGTCTTGTTTT
1 AATTAATTAGT-TCTTGTTTT
31517978 AATT
1 AATT
31517982 TAAGATGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (20 bp):
AATTAATTAGTTCTTGTTTT
Found at i:31518923 original size:23 final size:23
Alignment explanation
Indices: 31518897--31518970 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
31518887 AATTTGGTTT
*
31518897 ATTTCGTACCAAAATCTC-ATACC
1 ATTTCTTACCAAAATC-CAATACC
* *
31518920 ATTTCTTACCAACATCCAATTCC
1 ATTTCTTACCAAAATCCAATACC
* *
31518943 ATTTCTTACCAAAAGCCAAAACC
1 ATTTCTTACCAAAATCCAATACC
31518966 ATTTC
1 ATTTC
31518971 CTAATTAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (23 bp):
ATTTCTTACCAAAATCCAATACC
Found at i:31519864 original size:23 final size:23
Alignment explanation
Indices: 31519810--31519931 Score: 149
Period size: 23 Copynumber: 5.3 Consensus size: 23
31519800 AGTGTTATTG
* *
31519810 ATCAGTGGTAGCTTCAGCTACA-
1 ATCAGTGGTAGCTACGGCTACAT
31519832 ATTC-GATGGTAGCTACGGCTACAT
1 A-TCAG-TGGTAGCTACGGCTACAT
*
31519856 ATCAGTGGTAGCTACGGCTAAAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
31519879 TTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
31519902 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
31519925 ATCAGTG
1 ATCAGTG
31519932 TGGCACTTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.02
23 82 0.95
24 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:31519930 original size:46 final size:46
Alignment explanation
Indices: 31519810--31519931 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
31519800 AGTGTTATTG
31519810 ATCAGTGGTAGCTTCAGCTACA-ATTC-GATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACATA-TCAG-TGGTAGCTACGGCTACAT
* * * * *
31519856 ATCAGTGGTAGCTACGGCTAAATTTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACATATCAGTGGTAGCTACGGCTACAT
31519902 ATCAGTGGTAGCTTCAGCTACATATCAGTG
1 ATCAGTGGTAGCTTCAGCTACATATCAGTG
31519932 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 64 0.98
47 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCAGCTACATATCAGTGGTAGCTACGGCTACAT
Found at i:31520294 original size:16 final size:16
Alignment explanation
Indices: 31520273--31520320 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 16
31520263 TACGAAATTT
31520273 TTAAAAAAAAAGTGAA
1 TTAAAAAAAAAGTGAA
*
31520289 TTAAAAAAAAATCGTCAA
1 TTAAAAAAAAA--GTGAA
31520307 TTAAAAAAAAAGTG
1 TTAAAAAAAAAGTG
31520321 TTGTGATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.21
Consensus pattern (16 bp):
TTAAAAAAAAAGTGAA
Found at i:31523201 original size:16 final size:17
Alignment explanation
Indices: 31523180--31523212 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31523170 TAATATGAAA
31523180 AATATG-ATGATACGAG
1 AATATGAATGATACGAG
31523196 AATATGAAATGATACGA
1 AATATG-AATGATACGA
31523213 ATCAATTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (17 bp):
AATATGAATGATACGAG
Found at i:31527338 original size:11 final size:12
Alignment explanation
Indices: 31527320--31527348 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
31527310 GTTCTTTACC
31527320 CTCTTTTTTTTT
1 CTCTTTTTTTTT
31527332 C-CTTTTTTTTT
1 CTCTTTTTTTTT
31527343 CTCTTT
1 CTCTTT
31527349 GGGCCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTCTTTTTTTTT
Found at i:31533394 original size:17 final size:18
Alignment explanation
Indices: 31533374--31533409 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
31533364 ATAATAGGGG
31533374 AAAAAGTAT-AATTTTGT
1 AAAAAGTATGAATTTTGT
31533391 -AAAAGTATGAATTTTGT
1 AAAAAGTATGAATTTTGT
31533408 AA
1 AA
31533410 TAAATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.47
17 8 0.47
18 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (18 bp):
AAAAAGTATGAATTTTGT
Found at i:31533396 original size:16 final size:17
Alignment explanation
Indices: 31533375--31533409 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
31533365 TAATAGGGGA
31533375 AAAAGTAT-AATTTTGT
1 AAAAGTATGAATTTTGT
31533391 AAAAGTATGAATTTTGT
1 AAAAGTATGAATTTTGT
31533408 AA
1 AA
31533410 TAAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (17 bp):
AAAAGTATGAATTTTGT
Found at i:31533418 original size:17 final size:17
Alignment explanation
Indices: 31533374--31533419 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
31533364 ATAATAGGGG
31533374 AAAAAGTAT-AATTTTGT
1 AAAAA-TATGAATTTTGT
*
31533391 AAAAGTATGAATTTTGT
1 AAAAATATGAATTTTGT
31533408 AATAAAT-TGAAT
1 AA-AAATATGAAT
31533420 AAAATGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (17 bp):
AAAAATATGAATTTTGT
Found at i:31548112 original size:29 final size:29
Alignment explanation
Indices: 31548070--31548279 Score: 233
Period size: 29 Copynumber: 7.2 Consensus size: 29
31548060 GTATCGACGT
* *
31548070 CCATCGAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAGGGATGGTGTCGA
* * * *
31548099 CCATCAAATATGAAAAGGAATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTGTCGA
* * *
31548128 CCATCGAATATTAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTGTCGA
*
31548157 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTGTCGA
*
31548186 CCATTGAATATGAAAAGGGATGGCT-TCGA
1 CCATCGAATATGAAAAGGGATGG-TGTCGA
*
31548215 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGTCGA
* * * * * *
31548244 CCATTGATTAAAGAAAAGGTATGGTTTTGA
1 CCATCGAAT-ATGAAAAGGGATGGTGTCGA
31548274 CCATCG
1 CCATCG
31548280 TTTAGCACAC
Statistics
Matches: 154, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
28 1 0.01
29 130 0.84
30 23 0.15
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTGTCGA
Found at i:31548217 original size:87 final size:87
Alignment explanation
Indices: 31548070--31548247 Score: 284
Period size: 87 Copynumber: 2.0 Consensus size: 87
31548060 GTATCGACGT
* *
31548070 CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGAATGGTTTTGACCATCGA
1 CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGAATGGCTTCGACCATCGA
*
31548135 ATATTAAAAGGGATGGTTTCAA
66 ATATGAAAAGGGATGGTTTCAA
* ** *
31548157 CCATCGAATATGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATGGCTTCGACCATCGA
1 CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGAATGGCTTCGACCATCGA
*
31548222 ATATGAAAAGGGATGGTTTCGA
66 ATATGAAAAGGGATGGTTTCAA
31548244 CCAT
1 CCAT
31548248 TGATTAAAGA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (87 bp):
CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGAATGGCTTCGACCATCGA
ATATGAAAAGGGATGGTTTCAA
Found at i:31548248 original size:58 final size:58
Alignment explanation
Indices: 31548070--31548279 Score: 258
Period size: 58 Copynumber: 3.6 Consensus size: 58
31548060 GTATCGACGT
** * * *
31548070 CCATCGAATATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGAATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTTTCGA
* **
31548128 CCATCGAATATTAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTTTCGA
* * *
31548186 CCATTGAATATGAAAAGGGATGGCTTCGACCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTTTCGA
* * * * **
31548244 CCATTGATTAAAGAAAAGGTATGGTTTTGACCATCG
1 CCATCGAAT-ATGAAAAGGGATGGTTTCAACCATCG
31548280 TTTAGCACAC
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 110 0.83
59 22 0.17
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (58 bp):
CCATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:31552359 original size:13 final size:13
Alignment explanation
Indices: 31552343--31552408 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
31552333 TTTAAACCAA
31552343 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
31552356 ACTTCTCCAAAGC
1 ACTTTTCAAAAGC
* *
31552369 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
31552382 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
31552395 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
31552408 A
1 A
31552409 TTGTTAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:31559714 original size:51 final size:51
Alignment explanation
Indices: 31559551--31559735 Score: 175
Period size: 51 Copynumber: 3.6 Consensus size: 51
31559541 TGAAAGTGAT
* * * *
31559551 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGT-ACTGGAATG-ATG
1 GGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTGTCTGG-ATGTATC
* * * * *
31559601 GGCCGCATGTGTAGTACTATGTGTAAGCTACTA--TGCGTACTGGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTGT-CTGGAT-GTATC
* *
31559652 GATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTGTC-GGATGGTAAT-
1 GGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTGTCTGGAT-GT-ATC
*
31559703 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAAGCTACTA
31559736 TGTGAACCGA
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 33 0.31
51 65 0.60
52 2 0.02
53 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTGTCTGGATGTATC
Found at i:31563857 original size:10 final size:10
Alignment explanation
Indices: 31563842--31563879 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
31563832 GAAAATAGTC
31563842 AAAATTAATT
1 AAAATTAATT
31563852 AAAATTAACTAT
1 AAAATTAA-T-T
31563864 AAAATTAATT
1 AAAATTAATT
31563874 AAAATT
1 AAAATT
31563880 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:31567789 original size:21 final size:21
Alignment explanation
Indices: 31567765--31567818 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
31567755 TCATTTTCAG
*
31567765 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCTTCTTCTGCAGCAA
* * *
31567786 CAACTTCCTCTTCTGCAGTAG
1 CAACTTCTTCTTCTGCAGCAA
31567807 CAACTTCCTTCT
1 CAACTT-CTTCT
31567819 CAACAAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.37
Consensus pattern (21 bp):
CAACTTCTTCTTCTGCAGCAA
Found at i:31567792 original size:18 final size:18
Alignment explanation
Indices: 31567760--31567798 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31567750 CTTTTTCATT
** *
31567760 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
31567778 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
31567796 TTC
1 TTC
31567799 TGCAGTAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:31577607 original size:27 final size:27
Alignment explanation
Indices: 31577569--31577624 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
31577559 TACTGATATG
* *
31577569 GTATTCGGCTAAGGCCCACCTTGTTCT
1 GTATTCGGCTAAAGCCCACATTGTTCT
* *
31577596 GTATTGGGCTAAATCCCACATTGTTCT
1 GTATTCGGCTAAAGCCCACATTGTTCT
31577623 GT
1 GT
31577625 TACTGATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
GTATTCGGCTAAAGCCCACATTGTTCT
Found at i:31580449 original size:17 final size:17
Alignment explanation
Indices: 31580427--31580468 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
31580417 TAACCTTGGA
31580427 CGAGCTTCCAAACCGAT
1 CGAGCTTCCAAACCGAT
31580444 CGAGCTTCCAAACCGAT
1 CGAGCTTCCAAACCGAT
31580461 CGAGCTTC
1 CGAGCTTC
31580469 TGATTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (17 bp):
CGAGCTTCCAAACCGAT
Found at i:31597662 original size:20 final size:20
Alignment explanation
Indices: 31597639--31597819 Score: 113
Period size: 20 Copynumber: 9.3 Consensus size: 20
31597629 TATCGAAGTA
*
31597639 CAAACAGGGGCACGTATGTG
1 CAAACAGGGGCACGAATGTG
* *
31597659 CAAACAGGGGTACCGAA-GTA
1 CAAACAGGGGCA-CGAATGTG
* *
31597679 CGAACAGGGGCACGTATGTG
1 CAAACAGGGGCACGAATGTG
* * * * * *
31597699 CAAATAAGGGTACCAAAGTA
1 CAAACAGGGGCACGAATGTG
*
31597719 CAAACAGGGGCACAAATGTG
1 CAAACAGGGGCACGAATGTG
*
31597739 CAAACAGGGG---G-A-GTA
1 CAAACAGGGGCACGAATGTG
*
31597754 CGAACAGGGGCACGAATGTG
1 CAAACAGGGGCACGAATGTG
* * * ** * *
31597774 TAAACAGGTGTATTAAAGTA
1 CAAACAGGGGCACGAATGTG
*
31597794 CGAACAGGGGCACGAATGTG
1 CAAACAGGGGCACGAATGTG
31597814 CAAACA
1 CAAACA
31597820 TTCAATAATT
Statistics
Matches: 112, Mismatches: 42, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
15 11 0.10
16 1 0.01
18 1 0.01
19 4 0.04
20 92 0.82
21 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (20 bp):
CAAACAGGGGCACGAATGTG
Found at i:31597669 original size:40 final size:40
Alignment explanation
Indices: 31597624--31597819 Score: 231
Period size: 40 Copynumber: 5.0 Consensus size: 40
31597614 ATTAGATTTT
* * *
31597624 AGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAAC
1 AGGGGTACCGAAGTACGAACAGGGGCACGAATGTGCAAAC
* *
31597664 AGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAAAT
1 AGGGGTACCGAAGTACGAACAGGGGCACGAATGTGCAAAC
* * * *
31597704 AAGGGTACCAAAGTACAAACAGGGGCACAAATGTGCAAAC
1 AGGGGTACCGAAGTACGAACAGGGGCACGAATGTGCAAAC
*
31597744 AGGGG----G-AGTACGAACAGGGGCACGAATGTGTAAAC
1 AGGGGTACCGAAGTACGAACAGGGGCACGAATGTGCAAAC
* ***
31597779 AGGTGTATTAAAGTACGAACAGGGGCACGAATGTGCAAAC
1 AGGGGTACCGAAGTACGAACAGGGGCACGAATGTGCAAAC
31597819 A
1 A
31597820 TTCAATAATT
Statistics
Matches: 134, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
35 30 0.22
40 104 0.78
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.14
Consensus pattern (40 bp):
AGGGGTACCGAAGTACGAACAGGGGCACGAATGTGCAAAC
Found at i:31597754 original size:35 final size:35
Alignment explanation
Indices: 31597715--31597781 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
31597705 AGGGTACCAA
31597715 AGTACAAACAGGGGCACAAATGTGCAAACAGGGGG
1 AGTACAAACAGGGGCACAAATGTGCAAACAGGGGG
* * *
31597750 AGTACGAACAGGGGCACGAATGTGTAAACAGG
1 AGTACAAACAGGGGCACAAATGTGCAAACAGG
31597782 TGTATTAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.34, T:0.10
Consensus pattern (35 bp):
AGTACAAACAGGGGCACAAATGTGCAAACAGGGGG
Found at i:31598677 original size:28 final size:28
Alignment explanation
Indices: 31598644--31598795 Score: 171
Period size: 28 Copynumber: 5.3 Consensus size: 28
31598634 CATTGGTATA
31598644 TAAGGCCCACACTATTACTGTATTGGGC
1 TAAGGCCCACACTATTACTGTATTGGGC
*
31598672 TAAGGCCCACACTATTACTGCATTGGGC
1 TAAGGCCCACACTATTACTGTATTGGGC
* * *
31598700 TAAGTCCCACACTATTATTGTATTGGGT
1 TAAGGCCCACACTATTACTGTATTGGGC
* * *
31598728 TAAGG-CCACATTGTTACTGTTTTGGGC
1 TAAGGCCCACACTATTACTGTATTGGGC
*
31598755 TAAGGCCCAAACTGTACTATTACTGTATAGGGC
1 TAAGGCCC--AC---ACTATTACTGTATTGGGC
*
31598788 TCAGGCCC
1 TAAGGCCC
31598796 GGACTGATAC
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
27 22 0.22
28 57 0.56
30 2 0.02
33 21 0.21
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (28 bp):
TAAGGCCCACACTATTACTGTATTGGGC
Found at i:31602500 original size:35 final size:35
Alignment explanation
Indices: 31602421--31602526 Score: 169
Period size: 35 Copynumber: 3.1 Consensus size: 35
31602411 AAACACATCA
*
31602421 AATGCTCACAAGAGCTAGTCCAACCG-AACACGCC
1 AATGCTCATAAGAGCTAGTCCAACCGAAACACGCC
* * *
31602455 AATGCTCATAAGAGCTAGTCCAACCGAAATAGGTC
1 AATGCTCATAAGAGCTAGTCCAACCGAAACACGCC
31602490 AATGCTCATAAGAGCTAGTCCAACCGAAACACGCC
1 AATGCTCATAAGAGCTAGTCCAACCGAAACACGCC
31602525 AA
1 AA
31602527 ACAAAGAGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
34 25 0.39
35 39 0.61
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (35 bp):
AATGCTCATAAGAGCTAGTCCAACCGAAACACGCC
Found at i:31603258 original size:65 final size:65
Alignment explanation
Indices: 31603154--31603283 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
31603144 ATCCTAAAAT
31603154 CAAAAGCTAACAAAAATCATTTTACAAAATCATTAAACAACATAATCAAAGCTCCAAATACATGG
1 CAAAAGCTAACAAAAATCATTTTACAAAATCATTAAACAACATAATCAAAGCTCCAAATACATGG
*
31603219 CAAAATCTAACAAAAATCATTTTACAAAATCATTAAACAACATAATCAAAGCTCCAAATACATGG
1 CAAAAGCTAACAAAAATCATTTTACAAAATCATTAAACAACATAATCAAAGCTCCAAATACATGG
31603284 TATTCATCAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.22
Consensus pattern (65 bp):
CAAAAGCTAACAAAAATCATTTTACAAAATCATTAAACAACATAATCAAAGCTCCAAATACATGG
Found at i:31606073 original size:24 final size:21
Alignment explanation
Indices: 31606046--31606093 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
31606036 AATAATTATA
31606046 AATTTATAATTAAAATTAAATAAT
1 AATTTATAATT--AA-TAAATAAT
*
31606070 AATTTTTAATTAATAAATAAT
1 AATTTATAATTAATAAATAAT
31606091 AAT
1 AAT
31606094 ATGAGCAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
24 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTATAATTAATAAATAAT
Found at i:31606094 original size:24 final size:23
Alignment explanation
Indices: 31606036--31606094 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
31606026 ATTTATCTCT
*
31606036 AATAATTATAAATTTATAATTAAA
1 AATAATAAT-AATTTATAATTAAA
* *
31606060 ATTAAATAATAATTTTTAATTAATA
1 AAT-AATAATAATTTATAATTAA-A
31606085 AATAATAATA
1 AATAATAATA
31606095 TGAGCAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAATAATAATTTATAATTAAA
Found at i:31607816 original size:100 final size:101
Alignment explanation
Indices: 31607634--31607827 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 101
31607624 TGAAAGTATT
31607634 CAGATATGTTTGTTCATTGTGTATCGGTTATAGTGGTTACTATGGCAATATCGGGTTTTGAGTAG
1 CAGATATGTTTGTTCATTGTGTATCGGTTATAGTGGTTACTATGGCAATATCGGGTTTTGAGTAG
*
31607699 AACTCAGATTTCCTTATTCAGAGGTGCTAAACTATC
66 AACTCAGATTTCCTTATTCAGAGGCGCTAAACTATC
*
31607735 CAGATATG-TTGTTCATTGTGTATCGGTTATAGTGGTTATTATGGCAATAAT-GGGTTTTGAGTA
1 CAGATATGTTTGTTCATTGTGTATCGGTTATAGTGGTTACTATGGCAAT-ATCGGGTTTTGAGTA
31607798 GAACTCAGATTTCCTTATTCAGAGGCGCTA
65 GAACTCAGATTTCCTTATTCAGAGGCGCTA
31607828 CACTGTAATT
Statistics
Matches: 90, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
100 80 0.89
101 10 0.11
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (101 bp):
CAGATATGTTTGTTCATTGTGTATCGGTTATAGTGGTTACTATGGCAATATCGGGTTTTGAGTAG
AACTCAGATTTCCTTATTCAGAGGCGCTAAACTATC
Found at i:31608522 original size:41 final size:41
Alignment explanation
Indices: 31608470--31608551 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
31608460 TATTAAAATT
* *
31608470 ATGGTAAAATAG-TCTTAAATATTGTAGTATTAAATTGAAAA
1 ATGGCAAAATAGCT-TTAAATATTGTAATATTAAATTGAAAA
*
31608511 ATGGCAAAATAGCTTTAGATATTGTAATATTAAATTGAAAA
1 ATGGCAAAATAGCTTTAAATATTGTAATATTAAATTGAAAA
31608552 TTTTTCAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (41 bp):
ATGGCAAAATAGCTTTAAATATTGTAATATTAAATTGAAAA
Found at i:31609476 original size:23 final size:23
Alignment explanation
Indices: 31609450--31609495 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
31609440 TAAAGTAGAT
31609450 AAATTAATTTTGGAAACAAATGC
1 AAATTAATTTTGGAAACAAATGC
31609473 AAATTAATTTTGGAAACAAATGC
1 AAATTAATTTTGGAAACAAATGC
31609496 CTCACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (23 bp):
AAATTAATTTTGGAAACAAATGC
Found at i:31610540 original size:11 final size:11
Alignment explanation
Indices: 31610484--31610549 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
31610474 TAGATGTTAG
31610484 AATATTA-ATT
1 AATATTATATT
31610494 AAT-TTATA-T
1 AATATTATATT
*
31610503 -ATTTTAT-TT
1 AATATTATATT
*
31610512 AA-AATATATT
1 AATATTATATT
31610522 AGATTATTATATT
1 A-A-TATTATATT
31610535 AATATTATATT
1 AATATTATATT
31610546 AATA
1 AATA
31610550 ATATTATTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.04
9 12 0.27
10 8 0.18
11 14 0.31
12 1 0.02
13 8 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
AATATTATATT
Found at i:31611718 original size:48 final size:50
Alignment explanation
Indices: 31611666--31611765 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 50
31611656 CGAAGTTAAA
* *
31611666 TTAAATTACAT-A-AATAACCAAAATTGGTCATTAGTTCCAAGCATAATG
1 TTAAATTACATAACAACAACCAAAATTGGTCATTAGTTCCAAACATAATG
*
31611714 TTAAATTACATAAACAACAACCAAAATTGGTCATTAGTTCTAAACATAATG
1 TTAAATTACAT-AACAACAACCAAAATTGGTCATTAGTTCCAAACATAATG
31611765 T
1 T
31611766 ATATCAAGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 11 0.24
50 1 0.02
51 34 0.74
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (50 bp):
TTAAATTACATAACAACAACCAAAATTGGTCATTAGTTCCAAACATAATG
Found at i:31614737 original size:29 final size:29
Alignment explanation
Indices: 31614611--31614731 Score: 147
Period size: 29 Copynumber: 4.2 Consensus size: 29
31614601 TCCTCAGATA
*
31614611 ATGAAAAGGGATAGCTTTGACTATTGAAT
1 ATGAAAAGGGATAGCTTTGACTATCGAAT
* *
31614640 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGACTATCGAAT
* ** *
31614669 ATGAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TTGACTATCGAA-T
31614698 ATGAAAAGGGATAGCTTTGACTATCGAAT
1 ATGAAAAGGGATAGCTTTGACTATCGAAT
31614727 ATGAA
1 ATGAA
31614732 TTGGGATGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.04
29 68 0.91
30 4 0.05
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGACTATCGAAT
Found at i:31614750 original size:58 final size:58
Alignment explanation
Indices: 31614639--31614751 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
31614629 GACTATTGAA
* * *
31614639 TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATAGCTTTGACTATCGAATATGAAAAGGGATGGTGACAACCATCAAC
** **
31614697 TATGAAAAGGGATAGCTTTGACTATCGAATATGAATTGGGATGGTTTCAACCATC
1 TATGAAAAGGGATAGCTTTGACTATCGAATATGAAAAGGGATGGTGACAACCATC
31614752 GATTAAAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (58 bp):
TATGAAAAGGGATAGCTTTGACTATCGAATATGAAAAGGGATGGTGACAACCATCAAC
Found at i:31620799 original size:17 final size:18
Alignment explanation
Indices: 31620758--31620802 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
31620748 ATCTCTTCAA
*
31620758 AAAATATTTAATATAAAT
1 AAAATATTAAATATAAAT
**
31620776 ACCATATTAAATAT-AAT
1 AAAATATTAAATATAAAT
31620793 AAAATATTAA
1 AAAATATTAA
31620803 TTGTTATAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATATTAAATATAAAT
Found at i:31624602 original size:37 final size:37
Alignment explanation
Indices: 31624541--31624619 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
31624531 TTATTACAAA
* * *
31624541 GTCTTACCCAAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAAACAAAATCCCCACACGAAGTCATCGG
** *
31624578 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAAACAAAATCCCCACACGAAGTCATCGG
31624615 GTCTT
1 GTCTT
31624620 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAAACAAAATCCCCACACGAAGTCATCGG
Found at i:31624825 original size:47 final size:48
Alignment explanation
Indices: 31624738--31624984 Score: 281
Period size: 47 Copynumber: 5.1 Consensus size: 48
31624728 CCCTTCGGGA
* * * * * *
31624738 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
31624785 CCTGTCAC-ACGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31624832 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31624883 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTA-G-
1 CTTATCAC--A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31624932 --TATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31624981 CTTA
1 CTTA
31624985 CTATCATTTC
Statistics
Matches: 179, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
47 90 0.50
48 1 0.01
50 1 0.01
51 87 0.49
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (48 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31624862 original size:51 final size:51
Alignment explanation
Indices: 31624796--31624984 Score: 350
Period size: 51 Copynumber: 3.8 Consensus size: 51
31624786 CTGTCACACG
31624796 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
31624847 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
31624898 TATACACTTTCACATTCATCACATCGGCCATTA-G---TATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
31624945 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
31624985 CTATCATTTC
Statistics
Matches: 134, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
47 46 0.34
48 1 0.01
50 1 0.01
51 86 0.64
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (51 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:31624936 original size:98 final size:100
Alignment explanation
Indices: 31624796--31624984 Score: 346
Period size: 98 Copynumber: 1.9 Consensus size: 100
31624786 CTGTCACACG
31624796 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACA
1 TATACACTTTCACATTCATCACATCGGCCATTAGG-C-TATCACATATATATATACACTTTCACA
31624861 TTCATCACATCGGCCATTAGGCCTTATCACATATATA
64 TTCATCACATCGGCCATTAGGCCTTATCACATATATA
31624898 TATACACTTTCACATTCATCACATCGGCCATTA-G-TATCACATATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCTATCACATATATATATACACTTTCACATT
31624961 CATCACATCGGCCATTAGGCCTTA
66 CATCACATCGGCCATTAGGCCTTA
31624985 CTATCATTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
98 53 0.61
101 1 0.01
102 33 0.38
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (100 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCTATCACATATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:31630226 original size:22 final size:22
Alignment explanation
Indices: 31630194--31630239 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
31630184 CATGGATATA
* *
31630194 TTGTGCCAATATAATTGATTGT
1 TTGTGCAAATATAATTGAATGT
31630216 TTGTGCAAATATAATTGAATGT
1 TTGTGCAAATATAATTGAATGT
31630238 TT
1 TT
31630240 ATGTGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (22 bp):
TTGTGCAAATATAATTGAATGT
Found at i:31636448 original size:50 final size:50
Alignment explanation
Indices: 31636377--31636522 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
31636367 AATAATAACA
* **
31636377 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * ** * * *
31636427 TGCCCATGCCATGTCCAAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* *
31636477 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATA
31636523 AGCCCAATAA
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:31641014 original size:50 final size:50
Alignment explanation
Indices: 31640954--31641091 Score: 177
Period size: 50 Copynumber: 2.8 Consensus size: 50
31640944 TATTGAGGTT
* * * * *
31640954 ATGAAAGGTCCCATGTAAGACCATGCCTGGGACATGGTATTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * *
31641004 ATGAGAGGTCCCCCGTAAGACCATGTCTTGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
**
31641054 ATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
31641092 TTTGGTATGT
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:31650218 original size:22 final size:21
Alignment explanation
Indices: 31650193--31650235 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31650183 TACAACCCAA
*
31650193 AACCGAATAATAATAATAAAAT
1 AACCGAAAAAT-ATAATAAAAT
* *
31650215 AACCTAAAAATATAATTAAAT
1 AACCGAAAAATATAATAAAAT
31650236 TAAAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AACCGAAAAATATAATAAAAT
Found at i:31658112 original size:51 final size:48
Alignment explanation
Indices: 31657963--31658160 Score: 171
Period size: 51 Copynumber: 4.0 Consensus size: 48
31657953 AAAGTGAAAG
** * *
31657963 TAATGGTCATGTGTGTGGTACTATGTGTAGGCTACTACGTGTACCGGAA
1 TAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-A
* * * * **
31658012 TAATGGGTCGCATGTGTAATACTATGTGCAAGCTACTATGCCTACCGGA
1 TAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
* * * *
31658061 TAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA
1 TA--AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
* * *
31658112 TGAAAATGGTCACATGTGTAGTACTATATGCAGGCTACTATGTGAACCG
1 T---AATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
31658161 AGTACCATTG
Statistics
Matches: 115, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
49 7 0.06
50 33 0.29
51 73 0.63
52 1 0.01
54 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
TAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
Found at i:31666533 original size:259 final size:260
Alignment explanation
Indices: 31666073--31666594 Score: 949
Period size: 259 Copynumber: 2.0 Consensus size: 260
31666063 AAATAGGTCT
31666073 AATAAGAGGTTTTTAATCTTAAACCAAAGAATCAAACACTTTTGATGAATCAATTTTGAGAAATT
1 AATAAGAGGTTTTTAATCTTAAACCAAAGAATCAAACACTTTTGATGAATCAATTTTGAGAAATT
* * *
31666138 TGAATTTGATCTAAAACATGGATGATTTTTTCGGAAAATTATGAAACTGATTAAATGATGAAATT
66 CGAATTTGATCTAAAACATGGATGATTTTTCCAGAAAATTATGAAACTGATTAAATGATGAAATT
*
31666203 AACACATAGAATACATGTTATCGGACTAGGAATGAAGATTAGAACTGGTTTAAGGTGCTGAAAAG
131 AACACATAGAATACATGTTATCGGACTAGGAATAAAGATTAGAACTGGTTTAAGGTGCTGAAAAG
31666268 GGAGTTTAGTTGAGGAATCCCATATTTTGGTTTAGTTTTGCAACATCAGTAAGGTAGCTTAGAAC
196 GGAGTTTAGTTGAGGAATCCCATATTTTGGTTTAGTTTTGCAACATCAGTAAGGTAGCTTAGAAC
*
31666333 AATAAGAGGTTTTTAATCTTAAACCAAAGAATCAAACACGTTTT-ATGGATCAATTTTGAGAAAT
1 AATAAGAGGTTTTTAATCTTAAACCAAAGAATCAAACAC-TTTTGATGAATCAATTTTGAGAAAT
*
31666397 TCGAATTT-ATCTAGAACATGGATGATTTTTCCAGAAAATTATGAAACTGATTAAATGATGAAAT
65 TCGAATTTGATCTAAAACATGGATGATTTTTCCAGAAAATTATGAAACTGATTAAATGATGAAAT
*
31666461 TAACACATGGAATACATGTTATCGGACTAGGAATAAAGATTAGAACTGGTTTAAGGTGCTGAAAA
130 TAACACATAGAATACATGTTATCGGACTAGGAATAAAGATTAGAACTGGTTTAAGGTGCTGAAAA
*
31666526 GGGAGTTTAGTTGAGGAATTCCATATTTTGGTTTAGTTTTGCAACATCAGTAAGGTAGCTTAGAA
195 GGGAGTTTAGTTGAGGAATCCCATATTTTGGTTTAGTTTTGCAACATCAGTAAGGTAGCTTAGAA
31666591 C
260 C
31666592 AAT
1 AAT
31666595 GATTTAGATT
Statistics
Matches: 253, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
259 184 0.73
260 65 0.26
261 4 0.02
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (260 bp):
AATAAGAGGTTTTTAATCTTAAACCAAAGAATCAAACACTTTTGATGAATCAATTTTGAGAAATT
CGAATTTGATCTAAAACATGGATGATTTTTCCAGAAAATTATGAAACTGATTAAATGATGAAATT
AACACATAGAATACATGTTATCGGACTAGGAATAAAGATTAGAACTGGTTTAAGGTGCTGAAAAG
GGAGTTTAGTTGAGGAATCCCATATTTTGGTTTAGTTTTGCAACATCAGTAAGGTAGCTTAGAAC
Found at i:31668602 original size:40 final size:40
Alignment explanation
Indices: 31668504--31668673 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
31668494 TCCTCGTTCA
* * * * *
31668504 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31668543 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31668583 AATGCCTTCAGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31668623 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
31668663 AAGGCCTTCGG
1 AATGCCTTCGG
31668674 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 33 0.29
40 81 0.71
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31668646 original size:80 final size:79
Alignment explanation
Indices: 31668504--31668650 Score: 222
Period size: 79 Copynumber: 1.8 Consensus size: 79
31668494 TCCTCGTTCA
* * * *
31668504 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGATT
1 AATGCCTTCAGGACATAACCCGGCTTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGATT
31668569 TAACAACTCGCACG
66 TAACAACTCGCACG
* * *
31668583 AATGCCTTCAGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCAGGACATAACCCGGCTTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGGAT
31668648 TTA
65 TTA
31668651 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 33 0.55
80 27 0.45
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (79 bp):
AATGCCTTCAGGACATAACCCGGCTTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGATT
TAACAACTCGCACG
Found at i:31671984 original size:71 final size:71
Alignment explanation
Indices: 31671864--31672077 Score: 261
Period size: 71 Copynumber: 3.0 Consensus size: 71
31671854 GTTTGGGGTA
* * * * ** * *
31671864 TCACAAACTATTTTT-GAGGCTGCGGTATTGAACTTGTGAGCCTTAAGATCATAGTTGGGAGCCT
1 TCACTAACTATTTTTAGGGGCTGCGGTATTAAACCTACGAGCCTTAAGATCACAGCTGGGAGCCT
31671928 TAGCTC
66 TAGCTC
* * *
31671934 TCGCTAACTATTTTTAGGGGTTGTGGTATTAAACCTA-GAAGCCTTAAGATCACAGCTGGGAGCC
1 TCACTAACTATTTTTAGGGGCTGCGGTATTAAACCTACG-AGCCTTAAGATCACAGCTGGGAGCC
31671998 TTAGCTC
65 TTAGCTC
* * * *
31672005 TCACTAACTATTTTTGGGGGCTGCGGTATTGAACCTACGAGCCCTAAGATCACAGCTGAGAGCCT
1 TCACTAACTATTTTTAGGGGCTGCGGTATTAAACCTACGAGCCTTAAGATCACAGCTGGGAGCCT
*
31672070 TATCTC
66 TAGCTC
31672076 TC
1 TC
31672078 TCCAACTTGG
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
70 14 0.11
71 108 0.88
72 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (71 bp):
TCACTAACTATTTTTAGGGGCTGCGGTATTAAACCTACGAGCCTTAAGATCACAGCTGGGAGCCT
TAGCTC
Done.