Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 60 of 172
Found at i:16478698 original size:7 final size:7
Alignment explanation
Indices: 16478671--16478732 Score: 83
Period size: 7 Copynumber: 9.0 Consensus size: 7
16478661 AAGTTCCAAA
16478671 AAAAATG
1 AAAAATG
16478678 AAAAAATG
1 -AAAAATG
*
16478686 -AGAATG
1 AAAAATG
16478692 AAAAATG
1 AAAAATG
16478699 AAAAATG
1 AAAAATG
16478706 AAAAATG
1 AAAAATG
16478713 -AAAATG
1 AAAAATG
*
16478719 GAAAATG
1 AAAAATG
16478726 AAAAATG
1 AAAAATG
16478733 GAGAGGCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
6 11 0.22
7 31 0.63
8 7 0.14
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:16478727 original size:20 final size:21
Alignment explanation
Indices: 16478671--16478732 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
16478661 AAGTTCCAAA
*
16478671 AAAAATGAAAAAATG-AGAATG
1 AAAAATG-AAAAATGAAAAATG
16478692 AAAAATGAAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
*
16478713 -AAAATGGAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
16478733 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 26 0.68
21 12 0.32
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAAATG
Found at i:16479994 original size:87 final size:87
Alignment explanation
Indices: 16479855--16480548 Score: 1075
Period size: 87 Copynumber: 8.0 Consensus size: 87
16479845 TGAAGATCCC
* *
16479855 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* * *
16479920 CATTAATAGCGAAGCAGATCAA
66 CGTTAACAGCGAAGCAGATCGA
* * *
16479942 AAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
*
16480007 CATTAACAGCGAAGCAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
* * *
16480029 AAACAAAGCCTTGCCTCCATCAGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
16480094 CGTTAACAGCGAAGCAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
* * *
16480116 AAACAAAGCCTTGCAATCCATC-GGTAGAAGTGGAGCTGGTTGAAGATAGCAAATCTTGCCTTCC
1 AAACAAAGCCTTGC-CTCCATCGGGT-GCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
*
16480180 TGCGTTAACAGCGAAGTAGATCGA
64 TGCGTTAACAGCGAAGCAGATCGA
*
16480204 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* *
16480269 CGTTAACAACGAAGTAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
* * *
16480291 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTAAACATAGCAGGTCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
*
16480356 CGTTAACAGCGAAGTAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
*
16480378 AAACAAAGCCTTGCCTCCATTGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
*
16480443 CGTTAACAACGAAGCAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
* * *
16480465 AAACAAACCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTAAAGATAGCAGGTCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* ** *
16480530 CATTGGCAGTGAAGCAGAT
66 CGTTAACAGCGAAGCAGAT
16480549 TGAAGCTAAT
Statistics
Matches: 568, Mismatches: 36, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
87 486 0.86
88 82 0.14
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (87 bp):
AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
CGTTAACAGCGAAGCAGATCGA
Found at i:16480306 original size:43 final size:43
Alignment explanation
Indices: 16480082--16480393 Score: 132
Period size: 43 Copynumber: 7.2 Consensus size: 43
16480072 GATAGCAGAT
*
16480082 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
** * * * * * *
16480125 CTTGCAATCCAT-CGGTAGA-AGTGGAGCT-GGTTGAAGATAGCAAA-T
1 CTTGCCTTCC-TGCGTTA-ACAGCGAAG-TAGATCGAA-A-A-CAAAGC
16480170 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
* * * * * * *
16480213 CTTGCC-TCCAT-CGGGT-GCAGTGGAGCTAG-TTGAAGATAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAG-TAGATCGAA-A-A-CAAAGC
*
16480257 CTTGCCTTCCTGCGTTAACAACGAAGTAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
* * * * * * *
16480300 CTTGCC-TCCAT-CGGGT-GCAGTG--G-AGCTGGTTAAACATAGCAGGT
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGTAGATCG-AAAACA-A--A-GC
16480344 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
16480387 CTTGCCT
1 CTTGCCT
16480394 CCATTGGGTG
Statistics
Matches: 188, Mismatches: 47, Indels: 68
0.62 0.16 0.22
Matches are distributed among these distances:
39 4 0.02
40 6 0.03
41 1 0.01
42 28 0.15
43 55 0.29
44 32 0.17
45 47 0.25
46 5 0.03
47 6 0.03
48 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGC
Found at i:16480636 original size:349 final size:348
Alignment explanation
Indices: 16479855--16480548 Score: 971
Period size: 349 Copynumber: 2.0 Consensus size: 348
16479845 TGAAGATCCC
* ** * * * *
16479855 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTT-CCTCCATCGGGTACAGCGGAGCTAGTTGAAGATAGAAGATCTTACCTTCCTG
* * * * * *
16479920 CA-TTAATAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGA
65 -AGTTAACAACGAAGTAGATCAAAAACAAAGCCTTGCCTCCATCGGGTGCAATGGAGCTGGTTAA
*
16479984 AGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
129 ACATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
* * *
16480049 CAGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATC
194 CAGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATC
* *
16480114 GAAAACAAAGCCTTGCAATCCATCGGTAGAAGTGGAGCTGGTTGAAGATAGCAAATCTTGCCTTC
259 GAAAACAAACCCTTGCAATCCATCGGTAGAAGTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTC
* *
16480179 CTGCGTTAACAGCGAAGTAGATCGA
324 CTGCATTAACAGCGAAGCAGATCGA
* * * *
16480204 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTT-CCTCCATCGGGTACAGCGGAGCTAGTTGAAGATAGAAGATCTTACCTTCCTG
* * *
16480269 CGTTAACAACGAAGTAGATCGAAAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTAAA
65 AGTTAACAACGAAGTAGATCAAAAACAAAGCCTTGCCTCCATCGGGTGCAATGGAGCTGGTTAAA
* * * *
16480334 CATAGCAGGTCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAAGCCTTGCCTCCATT
130 CATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATC
*
16480399 GGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCG
195 AGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCG
* * **
16480464 AAAACAAACCCTTGC-CTCCATCGGGT-GCAGTGGAGCTGGTTAAAGATAGCAGGTCTTGCCTTC
260 AAAACAAACCCTTGCAATCCATC-GGTAGAAGTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTC
** *
16480527 CTGCATTGGCAGTGAAGCAGAT
324 CTGCATTAACAGCGAAGCAGAT
16480549 TGAAGCTAAT
Statistics
Matches: 311, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
348 56 0.18
349 255 0.82
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (348 bp):
AAACAAAGCCTTCCTCCATCGGGTACAGCGGAGCTAGTTGAAGATAGAAGATCTTACCTTCCTGA
GTTAACAACGAAGTAGATCAAAAACAAAGCCTTGCCTCCATCGGGTGCAATGGAGCTGGTTAAAC
ATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCA
GGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGA
AAACAAACCCTTGCAATCCATCGGTAGAAGTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCT
GCATTAACAGCGAAGCAGATCGA
Found at i:16483788 original size:17 final size:17
Alignment explanation
Indices: 16483766--16483799 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16483756 GCACCGGTGT
16483766 CCATCTCTCCCTACCGC
1 CCATCTCTCCCTACCGC
16483783 CCATCTCTCCCTACCGC
1 CCATCTCTCCCTACCGC
16483800 ATGGCACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.59, G:0.06, T:0.24
Consensus pattern (17 bp):
CCATCTCTCCCTACCGC
Found at i:16490610 original size:13 final size:13
Alignment explanation
Indices: 16490592--16490616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16490582 AAAATATGCA
16490592 AAACAAAACAAGT
1 AAACAAAACAAGT
16490605 AAACAAAACAAG
1 AAACAAAACAAG
16490617 AATGCCACGG
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:0.72, C:0.16, G:0.08, T:0.04
Consensus pattern (13 bp):
AAACAAAACAAGT
Found at i:16499899 original size:25 final size:25
Alignment explanation
Indices: 16499871--16499920 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
16499861 TAAAGGGGGC
*
16499871 TAAGGCATTTCGCATGAATTTTTAA
1 TAAGGCATTTCGCATGAAGTTTTAA
*
16499896 TAAGGCATTTTGCATGAAGTTTTAA
1 TAAGGCATTTCGCATGAAGTTTTAA
16499921 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (25 bp):
TAAGGCATTTCGCATGAAGTTTTAA
Found at i:16500999 original size:15 final size:16
Alignment explanation
Indices: 16500979--16501009 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16500969 TAAAAAAGTA
16500979 TTTTTGA-GCATGATT
1 TTTTTGATGCATGATT
16500994 TTTTTGATGCATGATT
1 TTTTTGATGCATGATT
16501010 ATGTGCGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTTGATGCATGATT
Found at i:16510321 original size:39 final size:39
Alignment explanation
Indices: 16510269--16510363 Score: 129
Period size: 39 Copynumber: 2.5 Consensus size: 39
16510259 ATATATCACA
* * *
16510269 CACATTACACATATAATCACATAACATTAAAGCATATAG
1 CACAATACTCATATAATAACATAACATTAAAGCATATAG
* * *
16510308 CACAATACTCATATAATAACATAAGATTTAAGCATATAT
1 CACAATACTCATATAATAACATAACATTAAAGCATATAG
16510347 CACAATACTCATA-AATA
1 CACAATACTCATATAATA
16510364 TGTTTATAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
38 4 0.08
39 46 0.92
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.27
Consensus pattern (39 bp):
CACAATACTCATATAATAACATAACATTAAAGCATATAG
Found at i:16514142 original size:50 final size:50
Alignment explanation
Indices: 16514036--16514277 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 50
16514026 GGGAATGAGA
* ** *
16514036 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA---CATGAGAGG
* * *
16514092 TCCCATGTAAAACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGG
* * **
16514142 TCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGG
* * * * * * **
16514192 TCCCATGTAAGACCGTATCTGGGATATGGCATTGGTA--GTACAGGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAGG
* *
16514241 TCCCATGTAACACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16514278 TGTTATTATC
Statistics
Matches: 155, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 80 0.52
51 1 0.01
53 3 0.02
56 33 0.21
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGG
Found at i:16527368 original size:27 final size:28
Alignment explanation
Indices: 16527316--16527381 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 28
16527306 GAGATTGGCG
16527316 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16527344 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16527371 CTGAGTGTGCG
1 CTAAGTGTGCG
16527382 GACTTAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:16527395 original size:29 final size:27
Alignment explanation
Indices: 16527316--16527395 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
16527306 GAGATTGGCG
* *
16527316 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGA-CTTAATTATATAGCA
* *
16527344 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGACTTAATTATATAGCA
*
16527371 CTGAGTGTGCGGACTTAATATATAT
1 CTAAGTGTGC-GACTTAAT-TATAT
16527396 TTTTGAATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 23 0.50
28 18 0.39
29 5 0.11
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (27 bp):
CTAAGTGTGCGACTTAATTATATAGCA
Found at i:16535345 original size:27 final size:28
Alignment explanation
Indices: 16535293--16535358 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 28
16535283 GAGATTGGCG
16535293 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16535321 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16535348 CTGAGTGTGCG
1 CTAAGTGTGCG
16535359 GACTTAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:16535372 original size:29 final size:27
Alignment explanation
Indices: 16535293--16535372 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
16535283 GAGATTGGCG
* *
16535293 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGA-CTTAATTATATAGCA
* *
16535321 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGACTTAATTATATAGCA
*
16535348 CTGAGTGTGCGGACTTAATATATAT
1 CTAAGTGTGC-GACTTAAT-TATAT
16535373 TTTTGAATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 23 0.50
28 18 0.39
29 5 0.11
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (27 bp):
CTAAGTGTGCGACTTAATTATATAGCA
Found at i:16547826 original size:33 final size:33
Alignment explanation
Indices: 16547784--16547986 Score: 147
Period size: 33 Copynumber: 5.6 Consensus size: 33
16547774 ATATAAAGGG
16547784 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
16547817 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG--GT
* *
16547858 GAGTTGCTAAGTGCTGATTTCCCGACTCATTGGT
1 G-GTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * *
16547892 GGTTGCTAAATGTTGA-TCCCAGCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCC--CG-A--TT-CAT-TG---GT
16547934 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
16547967 GGTTGCTAAGTGCTAATTCC
1 GGTTGCTAAGTGCTGATTCC
16547987 ACCATATTTT
Statistics
Matches: 133, Mismatches: 17, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
32 3 0.02
33 53 0.40
34 7 0.05
35 2 0.02
36 4 0.03
37 7 0.05
38 7 0.05
39 4 0.03
40 2 0.02
41 7 0.05
42 33 0.25
43 4 0.03
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:16547918 original size:75 final size:75
Alignment explanation
Indices: 16547782--16548067 Score: 403
Period size: 75 Copynumber: 3.8 Consensus size: 75
16547772 GAATATAAAG
16547782 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
16547847 AAATGTG-AA
66 AAATGTGAAA
* * * * * * *
16547856 GGGAGTTGCTAAGTGCTGATTTCCCGACTCATTGGTGGTTGCTAAATGTTGATCCCAGCGTATCT
1 GGG-GTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
16547921 TAAATGTGAAA
65 TAAATGTGAAA
* *
16547932 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTAATTCCACCATATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-TTT
*
16547997 TGAATGTGAAAA
65 TAAATGTG-AAA
* * * * *
16548009 GGGGTTTCTAAGTGCTGATTTCCCGAATCATTGGTGATTGCTAAGTGCTGAATCCACCG
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
16548068 ATAACGGATA
Statistics
Matches: 184, Mismatches: 24, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
74 3 0.02
75 112 0.61
76 14 0.08
77 55 0.30
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
AAATGTGAAA
Found at i:16549009 original size:23 final size:23
Alignment explanation
Indices: 16548983--16549035 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
16548973 ATAAATGCCA
16548983 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
* *
16549006 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
16549029 CACTGAT
1 CACTGAT
16549036 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCAAAGCTAC
Found at i:16563153 original size:46 final size:46
Alignment explanation
Indices: 16563084--16563205 Score: 136
Period size: 46 Copynumber: 2.7 Consensus size: 46
16563074 TTAATATTAT
* * * *
16563084 GTATTCTCCTATTCGCAATATATGAAGGAGTTGCAAACCTAAATCC
1 GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
* * ** *
16563130 GTATTCTCCAATCCACAACATATGCAGAAGTTGGGAACCTAAATTC
1 GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
* **
16563176 TTATTCTCCAGCCCGCAACATATGCAGGAG
1 GTATTCTCCAATCCGCAACATATGCAGGAG
16563206 CTGGGAACCT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (46 bp):
GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
Found at i:16563211 original size:46 final size:46
Alignment explanation
Indices: 16563119--16563216 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
16563109 AGGAGTTGCA
* *
16563119 AACCTAAATCCGTATTCTCCAATCCACAACATATGCAGAAGTTGGG
1 AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTGGG
* * * * *
16563165 AACCTAAATTCTTATTCTCCAGCCCGCAACATATGCAGGAGCTGGG
1 AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTGGG
16563211 AACCTA
1 AACCTA
16563217 GGCAAGAACA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (46 bp):
AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTGGG
Found at i:16565482 original size:21 final size:21
Alignment explanation
Indices: 16565458--16565500 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16565448 TGGTTTGTTA
16565458 GACAAATGAAGTTAGACAAAT
1 GACAAATGAAGTTAGACAAAT
16565479 GACAAATGAAGTTAGACAAAT
1 GACAAATGAAGTTAGACAAAT
16565500 G
1 G
16565501 TATGTATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (21 bp):
GACAAATGAAGTTAGACAAAT
Found at i:16565500 original size:14 final size:14
Alignment explanation
Indices: 16565454--16565480 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16565444 GTTTTGGTTT
16565454 GTTAGACAAATGAA
1 GTTAGACAAATGAA
16565468 GTTAGACAAATGA
1 GTTAGACAAATGA
16565481 CAAATGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (14 bp):
GTTAGACAAATGAA
Found at i:16566010 original size:31 final size:32
Alignment explanation
Indices: 16565954--16566016 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
16565944 AAATTACAAG
16565954 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
16565986 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
16566017 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:16572200 original size:31 final size:32
Alignment explanation
Indices: 16572144--16572205 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
16572134 AAATTACAAT
16572144 AGTAATTGAATCCTAATAAAAACTCTTTAAAG
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAG
16572176 AGTAATTGAATCCTAAT-AAAACTCTTTAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAA
16572206 ATTATCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAG
Found at i:16574719 original size:64 final size:64
Alignment explanation
Indices: 16574641--16574767 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
16574631 TAACTTTAAA
* *
16574641 TAAACATAAAACATTAACTCAATTTAAATCCAATTCAATTCAATTGATAAATATTTTCTTTTTC
1 TAAACATAAAACATTAACTCAATTTAAATCCAATTCAATTCAATTGACAAACATTTTCTTTTTC
* * *
16574705 TAAACATAAAACATTAATTCAATTTAAATCCGATTCAATTCAGTTGACAAACATTTTCTTTTT
1 TAAACATAAAACATTAACTCAATTTAAATCCAATTCAATTCAATTGACAAACATTTTCTTTTT
16574768 GTTAACTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (64 bp):
TAAACATAAAACATTAACTCAATTTAAATCCAATTCAATTCAATTGACAAACATTTTCTTTTTC
Found at i:16575078 original size:34 final size:34
Alignment explanation
Indices: 16575040--16575110 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
16575030 ATGAAATGAT
16575040 AATGATAGACCACGTTTATTTTTTTGAAAAAATA
1 AATGATAGACCACGTTTATTTTTTTGAAAAAATA
16575074 AATGATAGACCACGTTTATTTTTTTGAAAAAATA
1 AATGATAGACCACGTTTATTTTTTTGAAAAAATA
16575108 AAT
1 AAT
16575111 AATATACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (34 bp):
AATGATAGACCACGTTTATTTTTTTGAAAAAATA
Found at i:16575856 original size:126 final size:126
Alignment explanation
Indices: 16575631--16576044 Score: 650
Period size: 126 Copynumber: 3.3 Consensus size: 126
16575621 TAATTTAAAA
* * * * * *
16575631 AAGCTCTCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAATAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
16575696 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* * *
16575757 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGATGTTT
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
16575822 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAATG
66 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
*
16575883 AAGCTCCCACATGGACACGCTTTTGCTACAGTAGCTCCTG-AAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * *
16575947 CTGAGCAAATAGTGTCAAAAACACTTAAAGCAGGATGCTTTGACAGTAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* *
16576008 AAGCTCCCACATGGACGTGCTTTTGCTACAGTGGCTC
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTC
16576045 ATGTTTGGCC
Statistics
Matches: 266, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 113 0.42
126 153 0.58
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
Found at i:16579465 original size:21 final size:21
Alignment explanation
Indices: 16579422--16579468 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16579412 GCGGGGGTTG
* ** *
16579422 TGGTTGCTCCGATGGGGATTC
1 TGGTTCCTCCGATAAGGAATC
16579443 TGGTTCCTCCGATAAGGAATC
1 TGGTTCCTCCGATAAGGAATC
16579464 TGGTT
1 TGGTT
16579469 GTCGGTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (21 bp):
TGGTTCCTCCGATAAGGAATC
Found at i:16580382 original size:7 final size:7
Alignment explanation
Indices: 16580372--16580397 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16580362 CATAATACAT
16580372 AATACTA
1 AATACTA
16580379 AATACTA
1 AATACTA
16580386 AATACTA
1 AATACTA
16580393 AATAC
1 AATAC
16580398 CAATCGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:16591207 original size:68 final size:68
Alignment explanation
Indices: 16591133--16591307 Score: 260
Period size: 68 Copynumber: 2.6 Consensus size: 68
16591123 ATAGCCCAGT
* * *
16591133 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGTCGGACTGCATATGTTGTCATAGACC
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGACGAACTGCATATGTTGCCATAGACC
16591198 AAC
66 AAC
* * * *
16591201 TATGGTCTTACACATTATGATGTCATGTTTACTGTCCTGACGAACTTCATATGTTGCCATAGCCC
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGACGAACTGCATATGTTGCCATAGACC
*
16591266 GAC
66 AAC
* *
16591269 TATAGTCTTACACATTATGATGTCATTTTTACTATCTTG
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTG
16591308 GAGGACTTCC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 95 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (68 bp):
TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGACGAACTGCATATGTTGCCATAGACC
AAC
Found at i:16591316 original size:68 final size:67
Alignment explanation
Indices: 16591120--16591316 Score: 252
Period size: 68 Copynumber: 2.9 Consensus size: 67
16591110 TTCATATACG
* ** *
16591120 GCCATAGCCCAGTTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGTCGGACTGCATAT
1 GCCATAGCCCA-CTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGAGGACTTCATAT
16591185 GTT
65 GTT
* * * * *
16591188 GTCATAGACCAACTATGGTCTTACACATTATGATGTCATGTTTACTGTCCT-GACGAACTTCATA
1 GCCATAG-CCCACTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGA-GGACTTCATA
16591252 TGTT
64 TGTT
* *
16591256 GCCATAGCCCGACTATAGTCTTACACATTATGATGTCATTTTTACTATCTTGGAGGACTTC
1 GCCATAGCCC-ACTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGAGGACTTC
16591317 CAATTCTGAG
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
67 2 0.02
68 102 0.94
69 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (67 bp):
GCCATAGCCCACTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGAGGACTTCATATG
TT
Found at i:16593013 original size:3 final size:3
Alignment explanation
Indices: 16593007--16593039 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
16592997 GAGAGAAATG
*
16593007 AGA AGA AG- AGA AGG AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
16593040 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16593234 original size:22 final size:22
Alignment explanation
Indices: 16593207--16593542 Score: 207
Period size: 22 Copynumber: 15.1 Consensus size: 22
16593197 TAGATTAGAA
*
16593207 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGTAAATT
*
16593229 TTTTGTATGAATATTAT-AATT
1 TTTTGTATGAATATTGTAAATT
16593250 TTTT-TATGAATATTGT-AA--
1 TTTTGTATGAATATTGTAAATT
*
16593268 TGTTGTATGAATATTGT-AATT
1 TTTTGTATGAATATTGTAAATT
* * *
16593289 ATTTTATAATTAA-ATT-TATATT
1 -TTTTGT-ATGAATATTGTAAATT
* * * * *
16593311 TATAGTTTTGGAT-TAGT-AATT
1 TTTTG-TATGAATATTGTAAATT
16593332 TTTTGTATGAATATTGT-AA--
1 TTTTGTATGAATATTGTAAATT
*
16593351 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAAATT
16593373 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAA-A-T-T
* * *
16593398 AGTTTTGCATGAATATTGCAATTTT
1 --TTTTGTATGAATATTGTAA-ATT
*
16593423 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAA--AT-T
* *
16593448 AATTTTGTATGAATATTAT-ATTT
1 --TTTTGTATGAATATTGTAAATT
*
16593471 TTTTGTATGAATGTTGTAATATTAT
1 TTTTGTATGAATATTGTAA-A-T-T
* *
16593496 AATTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAAATT
16593520 TTTTGTATGAATATTGT-AATT
1 TTTTGTATGAATATTGTAAATT
16593541 TT
1 TT
16593543 GTAATTTTGT
Statistics
Matches: 250, Mismatches: 36, Indels: 57
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.01
19 30 0.12
20 20 0.08
21 45 0.18
22 63 0.25
23 23 0.09
24 8 0.03
25 5 0.02
26 2 0.01
27 51 0.20
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAAATT
Found at i:16593278 original size:19 final size:19
Alignment explanation
Indices: 16593231--16593287 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
16593221 TTTAAATTTT
* *
16593231 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
16593251 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
16593270 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
16593288 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:16593293 original size:83 final size:85
Alignment explanation
Indices: 16593206--16593545 Score: 244
Period size: 83 Copynumber: 3.8 Consensus size: 85
16593196 TTAGATTAGA
*
16593206 ATTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAATG
1 ATTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATT
*
16593270 TTGTATGAATATTGT-AATT
66 TTGTATGAATATTATAAATT
* * * * * * *
16593289 ATTTTATAATTAA-A-TTTATATTTATAGTTTTG--GATTAGTAATTTTTTGTATGAATATTGTA
1 ATTTTGT-ATGAATATTTTAAATTTTTTG-TATGAATATTA-TAATTTTTTGTATGAATATTGTA
16593350 ATTTTGTATGAATATTATAAATT
63 ATTTTGTATGAATATTATAAATT
* * **
16593373 -TTTTGTATGAATATTGTAATATTATAGTTTTGCATGAATATTGCAATTTTTTTTGTATGAATAT
1 ATTTTGTATGAATATTTTAA-A-T-T--TTTTGTATGAATATTATAA--TTTTTTGTATGAATAT
* * *
16593437 TGTAATTTTGTAATTTTGTATGAATATTATATT
59 TGTAATTTTGT-A---TGAAT-ATTA-TAAATT
* * * **
16593470 TTTTTGTATGAATGTTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATT
1 ATTTTGTATGAATATTTTAA-A-T-T--TTTTGTATGAATATTATAA-TTTTTTGTATGAATATT
16593535 GTAATTTTGTA
60 GTAATTTTGTA
16593546 ATTTTGTATG
Statistics
Matches: 208, Mismatches: 26, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
81 4 0.02
82 23 0.11
83 45 0.22
84 11 0.05
85 1 0.00
86 1 0.00
87 1 0.00
88 2 0.01
89 5 0.02
90 3 0.01
91 27 0.13
92 1 0.00
95 4 0.02
96 4 0.02
97 33 0.16
98 43 0.21
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (85 bp):
ATTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATT
TTGTATGAATATTATAAATT
Found at i:16593356 original size:19 final size:19
Alignment explanation
Indices: 16593332--16593545 Score: 91
Period size: 19 Copynumber: 11.4 Consensus size: 19
16593322 ATTAGTAATT
16593332 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
16593351 TTTTGTATGAATATTATAAA
1 TTTTGTATGAATATTGT-AA
16593371 TTTTTTGTATGAATATTGTAA
1 --TTTTGTATGAATATTGTAA
*
16593392 TATTATAGTTTTGCATGAATATTGCAA
1 T-TT-T-G---T--ATGAATATTGTAA
* *
16593419 TTTTTTTTG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
* *
16593434 TATTG--T-AATTTTGTAA
1 TTTTGTATGAATATTGTAA
*
16593450 TTTTGTATGAATATTAT-A
1 TTTTGTATGAATATTGTAA
*
16593468 TTTT-TTTG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
* *
16593482 TGTTG--T-AATATTATAA
1 TTTTGTATGAATATTGTAA
*
16593498 TTTTGTATGAATATTGCAA
1 TTTTGTATGAATATTGTAA
16593517 TTTTTTTGTATGAATATTGTAA
1 ---TTTTGTATGAATATTGTAA
16593539 TTTTGTA
1 TTTTGTA
16593546 ATTTTGTATG
Statistics
Matches: 146, Mismatches: 19, Indels: 60
0.65 0.08 0.27
Matches are distributed among these distances:
13 2 0.01
14 8 0.05
15 10 0.07
16 14 0.10
17 5 0.03
18 7 0.05
19 40 0.27
20 4 0.03
21 4 0.03
22 35 0.24
25 2 0.01
26 2 0.01
27 13 0.09
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:16593394 original size:49 final size:49
Alignment explanation
Indices: 16593341--16593619 Score: 345
Period size: 49 Copynumber: 5.7 Consensus size: 49
16593331 TTTTTGTATG
* *
16593341 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * * *
16593390 AATATTATAGTTTTGCATGAATATTGCAATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAA-TTTTTTTGTATGAATATTGT
* * *
16593440 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* *
16593488 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* *
16593537 AATTTTGTAATTTTGTATGAATATTGTAA----TGTG-ATGATATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGA-ATATTGT
* *
16593582 AATATTGTAATTTTTTGTATGAATATTGTGATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGTAATTTTTTT
16593620 ATAATTAATT
Statistics
Matches: 196, Mismatches: 25, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
44 4 0.02
45 19 0.10
47 18 0.09
48 42 0.21
49 71 0.36
50 40 0.20
51 2 0.01
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:16593409 original size:27 final size:25
Alignment explanation
Indices: 16593341--16593566 Score: 215
Period size: 27 Copynumber: 9.1 Consensus size: 25
16593331 TTTTTGTATG
*
16593341 AATATTGTAATTTTGTATGAATATTAT
1 AATATT-T-ATTTTGTATGAATATTGT
16593368 AA-A-TT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
* *
16593390 AATATTATAGTTTTGCATGAATATTGC
1 AATATT-TA-TTTTGTATGAATATTGT
16593417 AAT-TTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
16593440 AATTTTGTAATTTTGTATGAATA-T-T
1 AATATT-T-ATTTTGTATGAATATTGT
*
16593465 -ATATTT-TTTTGTATGAATGTTGT
1 AATATTTATTTTGTATGAATATTGT
16593488 AATATTATAATTTTGTATGAATATTG-
1 AATATT-T-ATTTTGTATGAATATTGT
*
16593514 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
16593537 AATTTTGTAATTTTGTATGAATATTGT
1 AATATT-T-ATTTTGTATGAATATTGT
16593564 AAT
1 AAT
16593567 GTGATGATAT
Statistics
Matches: 168, Mismatches: 11, Indels: 40
0.77 0.05 0.18
Matches are distributed among these distances:
21 12 0.07
22 35 0.21
23 22 0.13
24 16 0.10
25 10 0.06
26 5 0.03
27 68 0.40
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
AATATTTATTTTGTATGAATATTGT
Found at i:16593818 original size:38 final size:39
Alignment explanation
Indices: 16593762--16593836 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 39
16593752 CATATAAAGT
*
16593762 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAAATCAAAAATCATTTCATTAAAAGTTTAA
*
16593801 TTAT-AAAAAAATCAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAAATCAAAAATCATTTCATTAAAAGTTT
16593837 GGGTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 30 0.88
39 4 0.12
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (39 bp):
TTATAAAAAAAATCAAAAATCATTTCATTAAAAGTTTAA
Found at i:16593986 original size:15 final size:15
Alignment explanation
Indices: 16593945--16593986 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
16593935 GTGAACTTAT
*
16593945 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
16593960 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
16593976 TTAAATTTTAT
1 TTAAATTTTAT
16593987 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:16599004 original size:22 final size:21
Alignment explanation
Indices: 16598969--16599013 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
16598959 TACCTAATTT
*
16598969 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
16598990 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
16599012 TT
1 TT
16599014 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:16599021 original size:18 final size:18
Alignment explanation
Indices: 16598971--16599022 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
16598961 CCTAATTTTT
16598971 TTCTTC-TT-TTCCTTCC
1 TTCTTCTTTCTTCCTTCC
16598987 TTCTTTTCTTCTGCTTCCTTCC
1 TTC--TTCTT-T-CTTCCTTCC
16599009 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
16599023 GTTTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.10
18 8 0.27
19 2 0.07
20 6 0.20
22 11 0.37
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCTTCCTTCC
Found at i:16599117 original size:27 final size:27
Alignment explanation
Indices: 16599079--16599154 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
16599069 AAAATCACAG
*
16599079 CATTGGCGCCT-CCTAATATGGCACCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
16599106 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
* *
16599133 CATTGGCGCCTTCCAGATAGGC
1 CATTGGCGCCTCCCAAATAGGC
16599155 GCCAATGCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 39 0.87
28 6 0.13
ACGTcount: A:0.22, C:0.37, G:0.21, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:16615372 original size:28 final size:27
Alignment explanation
Indices: 16615338--16615427 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
16615328 AAAGCACCTT
16615338 TTTAACATAATTTGCCAC-AGGACATTCC
1 TTTAACA-AATTTGCCACAAGG-CATTCC
* *
16615366 TTTAACAAAGATAGCCACAAAGGCATTCC
1 TTTAACAAA-TTTGCCAC-AAGGCATTCC
*
16615395 TTTAACAGAATTTGCCACTAGGCATTCC
1 TTTAACA-AATTTGCCACAAGGCATTCC
16615423 TTTAA
1 TTTAA
16615428 TAGAGATAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.04
28 27 0.51
29 19 0.36
30 5 0.09
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (27 bp):
TTTAACAAATTTGCCACAAGGCATTCC
Found at i:16615400 original size:29 final size:29
Alignment explanation
Indices: 16615360--16615761 Score: 400
Period size: 29 Copynumber: 14.0 Consensus size: 29
16615350 TGCCACAGGA
*
16615360 CATTCCTTTAACAAAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* *
16615389 CATTCCTTTAACAGA-ATTTGCCAC-TAGG
1 CATTCCTTTAACAGAGA-TAGCCACAAAGG
* *
16615417 CATTCCTTTAATAGAGATAGCCAGAAA-G
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * * *
16615445 AAATCCTTTTAACTA-AGATAGCCATAAAGA
1 CATTCC-TTTAAC-AGAGATAGCCACAAAGG
16615475 CATTCCTTTAACAGAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * *
16615504 TATTCCTTTAACAGAGATAACCACAAAGA
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* *
16615533 CATTCCTTTAACAAATATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
*
16615562 CATTCTTTTAACAGAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * *
16615591 TA-TCCTTTTAACAAAGATA-CACACAAAGA
1 CATTCC-TTTAACAGAGATAGC-CACAAAGG
16615620 CA-TCCTTTTAACAGAGATAGCCACAAAGG
1 CATTCC-TTTAACAGAGATAGCCACAAAGG
*
16615649 C-TTTCTTATAACAGAGATAGCCACAAAGG
1 CATTCCTT-TAACAGAGATAGCCACAAAGG
*
16615678 C-TTCCATTTAACAGAGATCGCCACAAAGG
1 CATTCC-TTTAACAGAGATAGCCACAAAGG
* **
16615707 C-TTCCATTTAACAAAGATCA-CTGCAAAGG
1 CATTCC-TTTAACAGAGAT-AGCCACAAAGG
*
16615736 C-TTCCTTT--TAGAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
16615762 GTCACTTATA
Statistics
Matches: 313, Mismatches: 45, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.00
26 12 0.04
28 37 0.12
29 255 0.81
30 8 0.03
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (29 bp):
CATTCCTTTAACAGAGATAGCCACAAAGG
Found at i:16618774 original size:85 final size:85
Alignment explanation
Indices: 16618599--16618837 Score: 286
Period size: 85 Copynumber: 2.8 Consensus size: 85
16618589 TTTTGAATGT
* * * * * *
16618599 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAGG-GGCTGCTAAGTGCAGATTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGGTGGTTGCTAAGTGCTGATTC
*
16618663 C-CCGAATCATTGATCAAGA
66 CACCGTATCATTGATCAAGA
* * * *
16618682 AAGGGGTTGCCAAGTGCTGATTCCCCGAATTATTGATTATAAAGGTGGTTGCTAAGTGTTGATTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGGTGGTTGCTAAGTGCTGATTC
***
16618747 CACCGTATCATTGATTGTGA
66 CACCGTATCATTGATCAAGA
** * *
16618767 AAGGGGTTGCTATTTGCTGATTCCCCGTATCACTGAATAT-AAGGTTGGTTGCTAAGTGCTGATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGG-TGGTTGCTAAGTGCTGATT
16618831 CCACCGT
65 CCACCGT
16618838 GTAACGGTTG
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
83 38 0.29
84 21 0.16
85 72 0.55
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCATTGATCAAGA
Found at i:16618817 original size:42 final size:43
Alignment explanation
Indices: 16618599--16618837 Score: 208
Period size: 42 Copynumber: 5.7 Consensus size: 43
16618589 TTTTGAATGT
* ** * * *
16618599 AAGG-GGTTGCTAAGTGCAGATTCC-CCAAATCACTGATCAAA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATA
* * * * *
16618640 AAGG-GGCTGCTAAGTGCAGATTCC-CCGAATCATTGATCAAGA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGAT-TATA
* * *
16618682 AAGG-GGTTGCCAAGTGCTGATTCC-CCGAATTATTGATTATA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATA
* *
16618723 AAGGTGGTTGCTAAGTGTTGATTCCACCGTATCATTGATTGTGA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT-A
** * *
16618767 AAGG-GGTTGCTATTTGCTGATTCC-CCGTATCACTGAATAT-
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATA
16618807 AAGGTTGGTTGCTAAGTGCTGATTCCACCGT
1 AAGG-TGGTTGCTAAGTGCTGATTCCACCGT
16618838 GTAACGGTTG
Statistics
Matches: 167, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.02
41 40 0.24
42 84 0.50
43 34 0.20
44 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATA
Found at i:16621525 original size:15 final size:15
Alignment explanation
Indices: 16621505--16621534 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16621495 ATCATTACCA
*
16621505 TTCATACCAAGATTT
1 TTCATACCAAAATTT
16621520 TTCATACCAAAATTT
1 TTCATACCAAAATTT
16621535 GCTCATACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (15 bp):
TTCATACCAAAATTT
Found at i:16625337 original size:44 final size:43
Alignment explanation
Indices: 16625269--16625358 Score: 144
Period size: 44 Copynumber: 2.1 Consensus size: 43
16625259 GAAACCAATC
* *
16625269 ATAACCATGCATATTGTTCCTAATACGAGCCCTCGATGTCCAAA
1 ATAACCATGCATATTATTCCTAATACGAG-CCTCGATGCCCAAA
*
16625313 ATAATCATGCATATTATTCCTAATACGAGCCTCGATGCCCAAA
1 ATAACCATGCATATTATTCCTAATACGAGCCTCGATGCCCAAA
16625356 ATA
1 ATA
16625359 CACCTTAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
43 16 0.37
44 27 0.63
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (43 bp):
ATAACCATGCATATTATTCCTAATACGAGCCTCGATGCCCAAA
Found at i:16636311 original size:20 final size:21
Alignment explanation
Indices: 16636272--16636313 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16636262 TTTTATGGCT
16636272 ATTAAAATATTTATAGAAAAC
1 ATTAAAATATTTATAGAAAAC
16636293 ATTAAAA-ATTTATTA-AAAAC
1 ATTAAAATATTTA-TAGAAAAC
16636313 A
1 A
16636314 AATCAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTAAAATATTTATAGAAAAC
Found at i:16637224 original size:50 final size:50
Alignment explanation
Indices: 16637170--16637311 Score: 169
Period size: 50 Copynumber: 2.8 Consensus size: 50
16637160 TGAGGTTATG
*
16637170 AGAGGTCCCATGTAAGACCATGACTGGGACATGGCATTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGACTGGGATATGGCATTGGCACCGAGATA
** * ** * * *
16637220 AGAGGTCCCCCGTAAGACCATGTCTGGGATATGGCACGGGAACCGATATG
1 AGAGGTCCCATGTAAGACCATGACTGGGATATGGCATTGGCACCGAGATA
**
16637270 AGAACTCCCATGTAAGACCAT-ATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGA-CTGGGATATGGCATTGGCA
16637312 GTACAAGAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGACTGGGATATGGCATTGGCACCGAGATA
Found at i:16643650 original size:50 final size:50
Alignment explanation
Indices: 16643555--16643690 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
16643545 TAAGGTTATG
* *** *
16643555 AGAGGTCCCATGTAAGACCATGACTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
** * *
16643605 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCACGGGAACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
** * *
16643655 AGAACTCCCATGTAAGACCATATCTGGGATATGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
16643691 TTGGCAGTAC
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
Found at i:16648413 original size:27 final size:27
Alignment explanation
Indices: 16648338--16648592 Score: 210
Period size: 27 Copynumber: 9.5 Consensus size: 27
16648328 TCGTTAACTA
*
16648338 TACCGAAATACCCCCGAAT-GGTAAAAT
1 TACCAAAATACCCCCG-ATGGGTAAAAT
* * * **
16648365 GACTAAAATA-CCCCTAAAGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
*
16648391 AACCAAAATACCCCCGATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * *
16648418 TATC-GAATACCCTCGATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * * *
16648444 TACAAAAATACCCTCGATAGGTAAATT
1 TACCAAAATACCCCCGATGGGTAAAAT
* **
16648471 TACTAAAATACCCCTAATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
** * * *
16648498 TACTGAAATACCCCTGATGCGTAAGAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * *
16648525 TATCGAAATACCCTCGATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * * *
16648552 TATCGAAATACCCTCGAAGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
*
16648579 GACCAAAATACCCC
1 TACCAAAATACCCC
16648593 TATAGGATAA
Statistics
Matches: 185, Mismatches: 40, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
25 1 0.01
26 42 0.23
27 142 0.77
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (27 bp):
TACCAAAATACCCCCGATGGGTAAAAT
Found at i:16659168 original size:51 final size:50
Alignment explanation
Indices: 16659035--16659227 Score: 244
Period size: 51 Copynumber: 3.8 Consensus size: 50
16659025 ATTATTATCA
* * *
16659035 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
*
16659084 TTACGGTCCACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGATT
1 TT-CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACC-AAGATT
* * * * **
16659136 TTTGGTACACATAGTAGCCTTCACTTAGTACTAAACATGTGACCATTATT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
* *
16659186 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTG
16659228 TTCATCAATA
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.02
50 43 0.35
51 74 0.60
52 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
Found at i:16663178 original size:37 final size:37
Alignment explanation
Indices: 16663128--16663206 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
16663118 TTATTACGAA
* * *
16663128 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16663165 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16663202 GTCTT
1 GTCTT
16663207 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16663435 original size:47 final size:47
Alignment explanation
Indices: 16663324--16663875 Score: 1014
Period size: 47 Copynumber: 11.7 Consensus size: 47
16663314 GCCCTTCGGG
*
16663324 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
16663374 ACTTTCACATTCATCACAACGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16663421 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16663468 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16663515 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16663562 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16663609 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16663656 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16663703 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16663750 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16663797 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16663844 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
16663876 ATACTATCAT
Statistics
Matches: 491, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 454 0.92
49 33 0.07
50 4 0.01
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:16663674 original size:25 final size:25
Alignment explanation
Indices: 16663408--16663486 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
16663398 ATTAGGCCTT
16663408 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
16663433 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
16663455 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
16663480 ATCACAT
1 ATCACAT
16663487 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:16663743 original size:22 final size:23
Alignment explanation
Indices: 16663428--16663790 Score: 76
Period size: 23 Copynumber: 15.5 Consensus size: 23
16663418 TACACTTTCA
16663428 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
16663451 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663475 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
* **** ***
16663498 CCTT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663522 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
16663545 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663569 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
* **** ***
16663592 CCTT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663616 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
16663639 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663663 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
* **** ***
16663686 CCTT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663710 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
16663733 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
16663757 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
16663780 CATT-ATCACAT
1 CATTCATCACAT
16663791 ATATACACTT
Statistics
Matches: 215, Mismatches: 104, Indels: 43
0.59 0.29 0.12
Matches are distributed among these distances:
22 56 0.26
23 57 0.27
24 53 0.25
25 49 0.23
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.32
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:16663766 original size:25 final size:24
Alignment explanation
Indices: 16663406--16663815 Score: 96
Period size: 24 Copynumber: 17.4 Consensus size: 24
16663396 CCATTAGGCC
16663406 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
16663430 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
16663453 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** *** *
16663477 TTCATCACAT-CGGCCA-TTAGGCC
1 TT-ATCACATATATACACTTTCACA
16663500 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
16663524 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
16663547 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** *** *
16663571 TTCATCACAT-CGGCCA-TTAGGCC
1 TT-ATCACATATATACACTTTCACA
16663594 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
16663618 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
16663641 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** *** *
16663665 TTCATCACAT-CGGCCA-TTAGGCC
1 TT-ATCACATATATACACTTTCACA
16663688 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
16663712 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
16663735 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
16663759 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
16663782 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
16663806 TTCATCACAT
1 TT-ATCACAT
16663816 CGGCCATTAG
Statistics
Matches: 243, Mismatches: 118, Indels: 49
0.59 0.29 0.12
Matches are distributed among these distances:
22 56 0.23
23 61 0.25
24 63 0.26
25 63 0.26
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (24 bp):
TTATCACATATATACACTTTCACA
Found at i:16671329 original size:24 final size:24
Alignment explanation
Indices: 16671280--16671389 Score: 127
Period size: 24 Copynumber: 4.7 Consensus size: 24
16671270 CGTTATTGGG
* *
16671280 AAAGGATGAATTGA-TAGAAATGT
1 AAAGGATGAATTGACGAAAAATGT
16671303 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACGAAAAATGT
* * *
16671327 AAAGAAGGAACTGACGGAAAAAT-T
1 AAAGGATGAATTGAC-GAAAAATGT
* *
16671351 AAAGTATGAATTGAC-AATAATGT
1 AAAGGATGAATTGACGAAAAATGT
16671374 AAAGGATGAATTGACG
1 AAAGGATGAATTGACG
16671390 GCAAATTGTC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.07
23 29 0.40
24 32 0.44
25 7 0.10
ACGTcount: A:0.49, C:0.05, G:0.25, T:0.22
Consensus pattern (24 bp):
AAAGGATGAATTGACGAAAAATGT
Found at i:16677722 original size:27 final size:27
Alignment explanation
Indices: 16677692--16677879 Score: 182
Period size: 27 Copynumber: 7.0 Consensus size: 27
16677682 TCATCTCCTA
*
16677692 GGGGTATAAT-AGTCATTTTACCCTGTG
1 GGGGTAT-ATCAGTCATTTTACCCTATG
* *
16677719 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
* * *
16677746 GGGGTATTTC-GATCATTTTAACCTATC
1 GGGGTATATCAG-TCATTTTACCCTATG
* * *
16677773 GGGGTATTTCAGCCATTTTACCCTATA
1 GGGGTATATCAGTCATTTTACCCTATG
* * * *
16677800 GAGTTATTTCAGTCATTTTATCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
* * *
16677827 AGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
* *
16677854 GGGGTATTTCAGTTATTTTACCCTAT
1 GGGGTATATCAGTCATTTTACCCTAT
16677880 TTTGGGGTCT
Statistics
Matches: 137, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 134 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGGTATATCAGTCATTTTACCCTATG
Found at i:16677750 original size:54 final size:54
Alignment explanation
Indices: 16677702--16677879 Score: 241
Period size: 54 Copynumber: 3.3 Consensus size: 54
16677692 GGGGTATAAT
*
16677702 AGTCATTTTACCCTGTGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
* * * * * * *
16677756 -GATCATTTTAACCTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
* *
16677810 AGTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
*
16677864 AGTTATTTTACCCTAT
1 AGTCATTTTACCCTAT
16677880 TTTGGGGTCT
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 102 0.98
55 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (54 bp):
AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
Found at i:16677815 original size:81 final size:81
Alignment explanation
Indices: 16677705--16677879 Score: 242
Period size: 81 Copynumber: 2.2 Consensus size: 81
16677695 GTATAATAGT
* * * * *
16677705 CATTTTACCCTGTGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTAACCT
1 CATTTTACCCTATAGAGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAACCT
16677770 ATCGGGGTATTTCAGC
66 ATCGGGGTATTTCAGC
* * * *
16677786 CATTTTACCCTATAGAGTTATTTCAGTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCT
1 CATTTTACCCTATAGAGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAACCT
* *
16677851 ATGGGGGTATTTCAGT
66 ATCGGGGTATTTCAGC
*
16677867 TATTTTACCCTAT
1 CATTTTACCCTAT
16677880 TTTGGGGTCT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (81 bp):
CATTTTACCCTATAGAGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAACCT
ATCGGGGTATTTCAGC
Found at i:16681703 original size:24 final size:24
Alignment explanation
Indices: 16681613--16681697 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
16681603 TTATTAGGAT
* *
16681613 AGGATGAATTGAC-AGATATGTAA
1 AGGATGAATTGACGAAAAATGTAA
* *
16681636 AGGATCAATTGATGAAAAATGTAA
1 AGGATGAATTGACGAAAAATGTAA
* * *
16681660 AGGAGGAACTAACGAAAAATGTAA
1 AGGATGAATTGACGAAAAATGTAA
16681684 AGGATGAATTGACG
1 AGGATGAATTGACG
16681698 GCAAATTGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 11 0.22
24 38 0.78
ACGTcount: A:0.47, C:0.06, G:0.26, T:0.21
Consensus pattern (24 bp):
AGGATGAATTGACGAAAAATGTAA
Found at i:16690933 original size:30 final size:30
Alignment explanation
Indices: 16690885--16690949 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
16690875 AAGTGAACCA
*
16690885 AAATTTTTAAATTCAAAAAGTA-GAGAAATT
1 AAATTTTTAAAATCAAAAAGTATG-GAAATT
*
16690915 AAATTTTTAAAAAT-AAAAAGTATGGAGATT
1 AAATTTTT-AAAATCAAAAAGTATGGAAATT
16690945 AAATT
1 AAATT
16690950 CTAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.34
Consensus pattern (30 bp):
AAATTTTTAAAATCAAAAAGTATGGAAATT
Found at i:16693032 original size:29 final size:28
Alignment explanation
Indices: 16692967--16693032 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 28
16692957 TTAATTTAAC
* * * *
16692967 AAATTATATTTTAAATTTAATATTTATT
1 AAATAATATTTTAAAGTTAATATTAAAT
*
16692995 AATAGAATATTTTAAAAGTTAATATTAAAT
1 AA-ATAATATTTT-AAAGTTAATATTAAAT
16693025 AAATAATA
1 AAATAATA
16693033 AGTTCAAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.07
29 13 0.43
30 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATAATATTTTAAAGTTAATATTAAAT
Found at i:16693265 original size:1 final size:1
Alignment explanation
Indices: 16693259--16693295 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
16693249 TTGGATTTGC
16693259 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16693296 GAAATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16693778 original size:6 final size:6
Alignment explanation
Indices: 16693745--16693783 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
16693735 TTTTATTATA
*
16693745 TTTAAT TTTAAA TTTAAT TCTTATAT TTTAAT TTTAAT T
1 TTTAAT TTTAAT TTTAAT T-TTA-AT TTTAAT TTTAAT T
16693784 ATTTAGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 20 0.69
7 6 0.21
8 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:16693793 original size:25 final size:26
Alignment explanation
Indices: 16693736--16693800 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
16693726 TTTTAGTCCT
16693736 TTTATTATA-TTTAATTTTAAATTTA
1 TTTATTATATTTTAATTTTAAATTTA
* *
16693761 ATTCTTATATTTTAATTTT-AA-TTA
1 TTTATTATATTTTAATTTTAAATTTA
16693785 TTTAGTTATACTTTTA
1 TTTA-TTATA-TTTTA
16693801 TAATGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 5 0.15
25 14 0.42
26 14 0.42
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATTATATTTTAATTTTAAATTTA
Found at i:16697126 original size:48 final size:47
Alignment explanation
Indices: 16697063--16697153 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 47
16697053 AACACACCAT
* * *
16697063 TTGTTGACAAGCCACCACATAAATGCCGATAAACGACCACATAACACA
1 TTGTGGACAAACCACCACATAAATCCCGAT-AACGACCACATAACACA
**
16697111 TTGTGGACAAACCACCACATATTTCCCGATAACGACCACATAA
1 TTGTGGACAAACCACCACATAAATCCCGATAACGACCACATAA
16697154 TCGCAGATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 13 0.34
48 25 0.66
ACGTcount: A:0.40, C:0.30, G:0.12, T:0.19
Consensus pattern (47 bp):
TTGTGGACAAACCACCACATAAATCCCGATAACGACCACATAACACA
Found at i:16697390 original size:15 final size:16
Alignment explanation
Indices: 16697370--16697407 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16697360 TTTTCACATA
*
16697370 CACATGTTTAAGTC-T
1 CACATGTTTAAATCAT
*
16697385 CACATGCTTAAATCAT
1 CACATGTTTAAATCAT
16697401 CACATGT
1 CACATGT
16697408 ATCACATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (16 bp):
CACATGTTTAAATCAT
Found at i:16699436 original size:16 final size:16
Alignment explanation
Indices: 16699415--16699445 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16699405 CTTGTAGAAA
16699415 AATCCAAAATCAAAAC
1 AATCCAAAATCAAAAC
*
16699431 AATCCAAAGTCAAAA
1 AATCCAAAATCAAAA
16699446 AGAAAATCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.03, T:0.13
Consensus pattern (16 bp):
AATCCAAAATCAAAAC
Found at i:16699661 original size:22 final size:22
Alignment explanation
Indices: 16699635--16699679 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
16699625 AGATCAACAC
16699635 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
*
16699657 AAATATCAATCTCATCATATCA
1 AAATATCAATCACATCATATCA
16699679 A
1 A
16699680 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:16702615 original size:25 final size:25
Alignment explanation
Indices: 16702587--16702635 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16702577 AAATGATACG
*
16702587 CCACAAA-AGCTTTTTAGAGAATTTA
1 CCACAAAGA-CTTTCTAGAGAATTTA
16702612 CCACAAAGACTTTCTAGAGAATTT
1 CCACAAAGACTTTCTAGAGAATTT
16702636 TCAAGTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (25 bp):
CCACAAAGACTTTCTAGAGAATTTA
Found at i:16702625 original size:50 final size:50
Alignment explanation
Indices: 16702512--16702625 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
16702502 ACAAGATTAG
* * **
16702512 CCACAAAGGCTTTTCAAATGATATGCCGTAAAGACTTTCTAGAGAACTCA
1 CCACAAAGGCTTTCCAAATGATACGCCCAAAAGACTTTCTAGAGAACTCA
* * * * *
16702562 CTATAAAGGCTTTCCAAATGATACGCCACAAAAG-CTTTTTAGAGAATTTA
1 CCACAAAGGCTTTCCAAATGATACGCC-CAAAAGACTTTCTAGAGAACTCA
*
16702612 CCACAAAGACTTTC
1 CCACAAAGGCTTTC
16702626 TAGAGAATTT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
50 47 0.92
51 4 0.08
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (50 bp):
CCACAAAGGCTTTCCAAATGATACGCCCAAAAGACTTTCTAGAGAACTCA
Found at i:16704239 original size:44 final size:44
Alignment explanation
Indices: 16704183--16704289 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
16704173 AGGCAACATA
* * * *
16704183 CAAAATAAGCCACAAAGGCTCATAGAATGCCACAAAAGCCAAAT
1 CAAAATACGCCACAAAGGATAACAGAATGCCACAAAAGCCAAAT
* *
16704227 TAAAATACGCCACAAAGGATAACAGAATGCCACAAAGGCCAAAT
1 CAAAATACGCCACAAAGGATAACAGAATGCCACAAAAGCCAAAT
**
16704271 CAAAATACATCACAAAGGA
1 CAAAATACGCCACAAAGGA
16704290 GACACAAGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.11
Consensus pattern (44 bp):
CAAAATACGCCACAAAGGATAACAGAATGCCACAAAAGCCAAAT
Found at i:16711428 original size:21 final size:22
Alignment explanation
Indices: 16711399--16711440 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16711389 AATAATAAAC
*
16711399 AAATAAAAAG-TAGCACACTAA
1 AAATAAAAAGTTAGAACACTAA
*
16711420 AAATTAAAAGTTAGAACACTA
1 AAATAAAAAGTTAGAACACTA
16711441 TCTAGCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.19
Consensus pattern (22 bp):
AAATAAAAAGTTAGAACACTAA
Found at i:16711812 original size:18 final size:18
Alignment explanation
Indices: 16711789--16711827 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
16711779 AAATTAAAAT
*
16711789 ATTAATTAAACTAATTAA
1 ATTAATTAAACTAATGAA
*
16711807 ATTAATTAACCTAATGAA
1 ATTAATTAAACTAATGAA
16711825 ATT
1 ATT
16711828 TCCTATTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTAATTAAACTAATGAA
Found at i:16714399 original size:13 final size:13
Alignment explanation
Indices: 16714381--16714438 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
16714371 TATTCATTAT
*
16714381 TTTTGAGAAGTGC
1 TTTTGAGAAGTAC
* * *
16714394 TTTTGAAAAATAT
1 TTTTGAGAAGTAC
* **
16714407 TTTTAAGAAGTGT
1 TTTTGAGAAGTAC
16714420 TTTTGAGAAGTAC
1 TTTTGAGAAGTAC
16714433 TTTTGA
1 TTTTGA
16714439 AAAAATTTAG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
TTTTGAGAAGTAC
Found at i:16714436 original size:26 final size:26
Alignment explanation
Indices: 16714381--16714436 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
16714371 TATTCATTAT
* *
16714381 TTTTGAGAAGTGCTTTTGAAAAATAT
1 TTTTAAGAAGTGCTTTTGAAAAATAC
* * *
16714407 TTTTAAGAAGTGTTTTTGAGAAGTAC
1 TTTTAAGAAGTGCTTTTGAAAAATAC
16714433 TTTT
1 TTTT
16714437 GAAAAAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (26 bp):
TTTTAAGAAGTGCTTTTGAAAAATAC
Found at i:16719842 original size:23 final size:23
Alignment explanation
Indices: 16719812--16719859 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
16719802 TAAGGCAGTA
16719812 TAGGCCAAGGCAATTTATACCTG
1 TAGGCCAAGGCAATTTATACCTG
16719835 TAGGCCAAGGCAATTTATACCTG
1 TAGGCCAAGGCAATTTATACCTG
16719858 TA
1 TA
16719860 ACCCAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
TAGGCCAAGGCAATTTATACCTG
Found at i:16719865 original size:23 final size:23
Alignment explanation
Indices: 16719816--16719867 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
16719806 GCAGTATAGG
**
16719816 CCAAGGCAATTTATACCTGTAGG
1 CCAAGGCAATTTATACCTGTAAC
16719839 CCAAGGCAATTTATACCTGTAAC
1 CCAAGGCAATTTATACCTGTAAC
16719862 CCAAGG
1 CCAAGG
16719868 TATAGCTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (23 bp):
CCAAGGCAATTTATACCTGTAAC
Found at i:16729894 original size:266 final size:268
Alignment explanation
Indices: 16729459--16729969 Score: 751
Period size: 266 Copynumber: 1.9 Consensus size: 268
16729449 ACGACAACTG
* * * *
16729459 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGTCACGACGGCGAATCTTATCTCCCTAGCGC
1 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTAGCGC
* * * * *
16729524 TAAGGCTTGGCTTAGCTGAAGTGGAGTGGATTGAAGCTATGGGCGGCGAATCCTATCTCTTTGGC
66 TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTATGGGCAGCGAATCCTATCTCTTTGGC
* * * **
16729589 ATTACAGTGAACCAGATTGAAACCACGACGGTGAATCTTACT-CCCTGGTGGTGTAGTGGAACAG
131 ATTACAGTGAACCAAATTGAAACCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAG
* ** *
16729653 ATTAAAGCTACGACGGTGAATCTCGTTTCCCCAACATTGCAA-TTTGAAAGATTAAAGCCGTAAT
196 ATTAAAGCTACGACAGCAAATCTCGTTTCCCAAACATTGCAATTTTGAAAGATTAAAGCCGTAAT
16729717 GGTGAATC
261 GGTGAATC
* *
16729725 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTGGCGT
1 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTAGCGC
*
16729790 TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGC
66 TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTATGGGCAGCGAATCCTATCTCTTTGGC
*
16729855 ATTACAGTGGAA-CAAATT-AAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
131 ATTACAGT-GAACCAAATTGAAA-CCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
* * *
16729918 AGATTGAAGCTACGACAGCAAATCTTGTTTCCCAAACATTGTAATTTTGAAA
194 AGATTAAAGCTACGACAGCAAATCTCGTTTCCCAAACATTGCAATTTTGAAA
16729970 AAATTGAAGA
Statistics
Matches: 216, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
265 3 0.01
266 148 0.69
267 58 0.27
268 7 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (268 bp):
TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTAGCGC
TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTATGGGCAGCGAATCCTATCTCTTTGGC
ATTACAGTGAACCAAATTGAAACCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAG
ATTAAAGCTACGACAGCAAATCTCGTTTCCCAAACATTGCAATTTTGAAAGATTAAAGCCGTAAT
GGTGAATC
Found at i:16730082 original size:44 final size:44
Alignment explanation
Indices: 16729985--16730151 Score: 117
Period size: 44 Copynumber: 3.8 Consensus size: 44
16729975 GAAGACGACA
*
16729985 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAT
* * * * **
16730029 AATCCTATCTCCCTGATGTTGCGGTGGAGTGGATTAAAACCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCA-AT
* * * * * * * * * *
16730073 GATCTTATCTCTCTGAAGGTGCAGTAGAGTAGA-TCACATC--G
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAT
**
16730114 GGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTTAA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA
16730152 GAAAGCAAGT
Statistics
Matches: 94, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
41 27 0.29
43 6 0.06
44 60 0.64
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAT
Found at i:16731369 original size:11 final size:11
Alignment explanation
Indices: 16731353--16731386 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
16731343 CGGCGTGGTG
*
16731353 GCCGATGACTA
1 GCCGATGACCA
*
16731364 GCCGATGACCG
1 GCCGATGACCA
16731375 GCCGATGACCA
1 GCCGATGACCA
16731386 G
1 G
16731387 GCCCTGGTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (11 bp):
GCCGATGACCA
Found at i:16742215 original size:18 final size:17
Alignment explanation
Indices: 16742176--16742218 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
16742166 ATTTAAGTAA
16742176 GTTTAAT-ATGTGTTAT
1 GTTTAATAATGTGTTAT
* *
16742192 GATTAATAAGTGTTTTAT
1 GTTTAATAA-TGTGTTAT
16742210 GTTTAATAA
1 GTTTAATAA
16742219 ACTCATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 6 0.27
17 1 0.05
18 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (17 bp):
GTTTAATAATGTGTTAT
Found at i:16759228 original size:24 final size:24
Alignment explanation
Indices: 16759196--16759241 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16759186 AGATCTTCAA
*
16759196 ACAAAGGTAAAACTTATAACTTTT
1 ACAAAGGTAAAACCTATAACTTTT
16759220 ACAAAGGTAAAACCTATAACTT
1 ACAAAGGTAAAACCTATAACTT
16759242 CACAAGTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (24 bp):
ACAAAGGTAAAACCTATAACTTTT
Found at i:16763980 original size:157 final size:156
Alignment explanation
Indices: 16763710--16764022 Score: 482
Period size: 157 Copynumber: 2.0 Consensus size: 156
16763700 ATCACAATAA
* * * * * *
16763710 AGTGTTATATCTTTTTTCCATATCAGGAATGACTTCAAGATTAGTTAAGAACTTTTGAAGCCAAA
1 AGTGTTATACCTTTTTTCCATATCAGGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAAA
* *
16763775 TTGCTTCATTCGTTGTCTCAAAAGCAACCACATACTTGGCCTCCATAGTAGAGTCAGTAGTCCAA
66 TTGCTTCATTCGTTGTCTCAAAAACAACCACATACTTGACCTCCATAGTAGAGTCAGTAGTCCAA
16763840 GTTTGTTTTACACTTATCCATACTAT
131 GTTTGTTTTACACTTATCCATACTAT
*
16763866 AGTGTTATACCTTTTTTTTCATATCAGGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAA
1 AGTGTTATACC-TTTTTTCCATATCAGGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAA
* * * *
16763931 ATTGCTTCTTTCGTTGTCTCAAAAACAATCACATACTTGACCTCTATAGTAGAGTCAGTAGTGCA
65 ATTGCTTCATTCGTTGTCTCAAAAACAACCACATACTTGACCTCCATAGTAGAGTCAGTAGTCCA
* *
16763996 AGTTTGTTTTACACTTCTCCATGCTAT
130 AGTTTGTTTTACACTTATCCATACTAT
16764023 GGCTCCGCCA
Statistics
Matches: 141, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
156 10 0.07
157 131 0.93
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (156 bp):
AGTGTTATACCTTTTTTCCATATCAGGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAAA
TTGCTTCATTCGTTGTCTCAAAAACAACCACATACTTGACCTCCATAGTAGAGTCAGTAGTCCAA
GTTTGTTTTACACTTATCCATACTAT
Found at i:16765500 original size:51 final size:51
Alignment explanation
Indices: 16765388--16765567 Score: 168
Period size: 51 Copynumber: 3.5 Consensus size: 51
16765378 TGTGTAGGCG
* ** * * * * *
16765388 TGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-AATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCATATCGGATAGTAAT-GATCACA
* * *
16765438 TGTGTAGTACTATATGCAGGCTACTATGCATATCGGATAGT-TTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATATCGGATAGTAAT-GATCACA
* ** * *
16765489 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCATATCGGATAGTAATGATCACA
*
16765540 TGTGTAGTACTATGTGCAAGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
16765568 TGAACCGAAC
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 28 0.26
51 75 0.71
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCATATCGGATAGTAATGATCACA
Found at i:16765569 original size:26 final size:26
Alignment explanation
Indices: 16765489--16765569 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
16765479 TTCGATCACG
*
16765489 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
* * * *
16765515 CGTGTA-T-CGGATG-GTAATGGTCAC-A
1 TGTGTAGTAC-TATGTGCAA-GCT-ACTA
16765540 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
16765566 TGTG
1 TGTG
16765570 AACCGAACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 3 0.08
25 14 0.36
26 18 0.46
27 4 0.10
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAAGCTACTA
Found at i:16765627 original size:45 final size:45
Alignment explanation
Indices: 16765576--16765662 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
16765566 TGTGAACCGA
* *
16765576 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTAG
16765621 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
16765663 CGAGTATCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTAG
Found at i:16768687 original size:9 final size:9
Alignment explanation
Indices: 16768664--16768706 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
16768654 AAGATCATTT
*
16768664 TTAAAATTC
1 TTAAAATTA
*
16768673 TAAAAATTA
1 TTAAAATTA
*
16768682 TTAAAATCA
1 TTAAAATTA
16768691 TTAAAATTA
1 TTAAAATTA
*
16768700 TAAAAAT
1 TTAAAAT
16768707 ATTTTTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAAAATTA
Found at i:16768958 original size:16 final size:15
Alignment explanation
Indices: 16768934--16768964 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16768924 TATTTATTTT
16768934 TATTAATATTATATA
1 TATTAATATTATATA
16768949 TATTACATATTATATA
1 TATTA-ATATTATATA
16768965 ATCTAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATATTATATA
Found at i:16782330 original size:27 final size:27
Alignment explanation
Indices: 16782292--16782347 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
16782282 AACCGACTAT
16782292 TAGGGATTTTGAATCATTTGAATAAAA
1 TAGGGATTTTGAATCATTTGAATAAAA
16782319 TAGGGATTTTGAATCATTTGAATAAAA
1 TAGGGATTTTGAATCATTTGAATAAAA
16782346 TA
1 TA
16782348 ATCTTATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.38
Consensus pattern (27 bp):
TAGGGATTTTGAATCATTTGAATAAAA
Found at i:16784815 original size:51 final size:51
Alignment explanation
Indices: 16784693--16784885 Score: 228
Period size: 51 Copynumber: 3.8 Consensus size: 51
16784683 ATTATTATCA
* * * *
16784693 TTCGATACACGTAATAGCCTTCACATAGTACCACACACGTGATC-AAGTTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTT
* * * *
16784743 TACGGTCCATGTAGTAACCTTCACATAGTACTACACACGTGACCAAAGTTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTT
* * * * *
16784794 TTCGGTATACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTT
* *
16784845 ATCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
16784886 TTCATCGATA
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 36 0.31
51 81 0.69
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTT
Found at i:16787122 original size:49 final size:50
Alignment explanation
Indices: 16787058--16787336 Score: 157
Period size: 50 Copynumber: 5.5 Consensus size: 50
16787048 CAAAGCTATG
* * * * *
16787058 TCCCAAATATAGTCTTACATGGGATGTT-TCTTGTA-CTGCCAATGTCATA
1 TCCCAGATATGGTCTTACATGGGA-GTTCTCATATAGCTGCCAATGCCATA
* * * *
16787107 TCCCAGATATGGTCTTAAATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * * * * * *
16787157 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGTCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
* * * ** * * * * *
16787207 TCCCAGACATGGTCTTACACGAGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
* ** * *
16787257 TCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCAT-A--T--A-GCTGCCAATGCCATA
* *
16787313 CCCCAGACATGGTCTTACATGGGA
1 TCCCAGATATGGTCTTACATGGGA
16787337 TCTCATCCTC
Statistics
Matches: 192, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.02
49 26 0.14
50 126 0.66
53 1 0.01
56 36 0.19
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
Found at i:16787169 original size:50 final size:50
Alignment explanation
Indices: 16787107--16787336 Score: 253
Period size: 50 Copynumber: 4.5 Consensus size: 50
16787097 CAATGTCATA
* * ** * *
16787107 TCCCAGATATGGTCTTAAATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
* * * *
16787157 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGTCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
* * * *
16787207 TCCCAGACATGGTCTTACACGAGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
* *
16787257 TCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAACGCCATG
*
16787313 CCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
16787337 TCTCATCCTC
Statistics
Matches: 153, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 116 0.76
53 1 0.01
56 36 0.24
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
Found at i:16787715 original size:30 final size:30
Alignment explanation
Indices: 16787680--16787737 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
16787670 CCTCGACTCT
16787680 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * * *
16787710 AACTTTTACATAATTACACTTTTTCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
16787738 AAAGCTTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:16792878 original size:23 final size:23
Alignment explanation
Indices: 16792847--16792897 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16792837 ACCTACTTTC
* *
16792847 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
16792870 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
16792893 TTACA
1 TTACA
16792898 ACTTCGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:16796739 original size:51 final size:50
Alignment explanation
Indices: 16796663--16796883 Score: 237
Period size: 51 Copynumber: 4.4 Consensus size: 50
16796653 TATGAACACG
*
16796663 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGAT--TGGTCACA
* * * *
16796714 TGTGTAGTACTATGTGCAGGCTACTAAGTGTACCGGATGGCCTTGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-ATTGGTCACA
* * * * * *
16796765 TGTGTAGTACTATGTGCAGGCTACTATGTGAATCGGAAAGCTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATTGGTCACA
* * * *
16796815 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATGACAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-AGATTGGTCACA
* * *
16796866 TGGGTGGTACCATGTGCA
1 TGTGTAGTACTATGTGCA
16796884 AACCACCGAA
Statistics
Matches: 141, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 41 0.29
51 95 0.67
52 4 0.03
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATTGGTCACA
Found at i:16796840 original size:101 final size:101
Alignment explanation
Indices: 16796663--16796883 Score: 264
Period size: 101 Copynumber: 2.2 Consensus size: 101
16796653 TATGAACACG
* * * *
16796663 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGTGTAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAGAT-ATGATCACATGTGTAGTACTATG
* * **
16796728 TGCAGGCTACTAAGTGTACCGGATGGCCTTGGTCACA
65 TGCAGGCTACTAAGTGTACCAGATGACAATGGTCACA
* * *
16796765 TGTGTAGTACTATGTGCAGGCTACTATGTGAATCGGAAAGCT-TGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAATC-GAAAGATATGATCACATGTGTAGTACTATG
* * *
16796829 TGTAGGCTACTACGTGTATCAGATGACAATGGTCACA
65 TGCAGGCTACTAAGTGTACCAGATGACAATGGTCACA
* * *
16796866 TGGGTGGTACCATGTGCA
1 TGTGTAGTACTATGTGCA
16796884 AACCACCGAA
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
101 65 0.64
102 31 0.31
103 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAGATATGATCACATGTGTAGTACTATGT
GCAGGCTACTAAGTGTACCAGATGACAATGGTCACA
Found at i:16798400 original size:14 final size:14
Alignment explanation
Indices: 16798377--16798406 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16798367 AAATATGGAC
16798377 ATCCACATTTATAT
1 ATCCACATTTATAT
*
16798391 ATCCATATTTATAT
1 ATCCACATTTATAT
16798405 AT
1 AT
16798407 TTGTAACATT
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:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
ATCCACATTTATAT
Found at i:16804684 original size:21 final size:21
Alignment explanation
Indices: 16804666--16804770 Score: 93
Period size: 21 Copynumber: 5.0 Consensus size: 21
16804656 AGGTTGAATG
*
16804666 GAAGCTCATAAGAGCTGAACT
1 GAAGCTCATAAGAGCTGAACA
* * * * *
16804687 GAAACCCATAAGGGTTAAACA
1 GAAGCTCATAAGAGCTGAACA
* *
16804708 GAAGCTCAAAAGAGCTGAACG
1 GAAGCTCATAAGAGCTGAACA
* * *
16804729 GAAACTCATATGAGTTGAACA
1 GAAGCTCATAAGAGCTGAACA
* *
16804750 GAAGCTCGTAAGAGCTAAACA
1 GAAGCTCATAAGAGCTGAACA
16804771 AAAAGTAAAC
Statistics
Matches: 61, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
GAAGCTCATAAGAGCTGAACA
Found at i:16804695 original size:42 final size:42
Alignment explanation
Indices: 16804630--16804770 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
16804620 AACAAAAGTA
* * * **
16804630 CATAAGTGCTAAACAGAATCCCATAAAGGTTGAATGGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAAGGTTGAACAGAAGCT
* * *
16804672 CATAAGAGCTGAACTGAAACCCATAAGGGTTAAACAGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAAGGTTGAACAGAAGCT
* * * *
16804714 CAAAAGAGCTGAACGGAAACTCAT-ATGAGTTGAACAGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAAG-GTTGAACAGAAGCT
* *
16804756 CGTAAGAGCTAAACA
1 CATAAGAGCTGAACA
16804771 AAAAGTAAAC
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.02
42 79 0.98
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.18
Consensus pattern (42 bp):
CATAAGAGCTGAACAGAAACCCATAAAGGTTGAACAGAAGCT
Found at i:16812398 original size:21 final size:21
Alignment explanation
Indices: 16812360--16812399 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16812350 AAGCTTGAAC
*
16812360 GCTAAACAGAAGCACATAACT
1 GCTAAACAGAAACACATAACT
*
16812381 GCTAAACAGAAACCCATAA
1 GCTAAACAGAAACACATAA
16812400 GGGTTGAATG
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:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (21 bp):
GCTAAACAGAAACACATAACT
Found at i:16812436 original size:42 final size:42
Alignment explanation
Indices: 16812389--16812518 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
16812379 CTGCTAAACA
**
16812389 GAAACCCATAAGGGTTGAATGGAAGCTAATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAACAGAAGCTAATAAGAGCTGAACG
* *
16812431 GAAACCCATAAGGGTTAAACAGAAGCTCAA-AAGAGCTGGACG
1 GAAACCCATAAGGGTTGAACAGAAGCT-AATAAGAGCTGAACG
* * ** * * * *
16812473 AAAACTCATTTGAGTTGAACAGAAGCTCATAAGAGCTAAACT
1 GAAACCCATAAGGGTTGAACAGAAGCTAATAAGAGCTGAACG
16812515 GAAA
1 GAAA
16812519 GTAAACACGA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.01
42 68 0.96
43 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTGAACAGAAGCTAATAAGAGCTGAACG
Found at i:16812441 original size:21 final size:21
Alignment explanation
Indices: 16812389--16812442 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
16812379 CTGCTAAACA
* * *
16812389 GAAACCCATAAGGGTTGAATG
1 GAAACCCATAAGAGCTGAACG
* **
16812410 GAAGCTAATAAGAGCTGAACG
1 GAAACCCATAAGAGCTGAACG
16812431 GAAACCCATAAG
1 GAAACCCATAAG
16812443 GGTTAAACAG
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAACCCATAAGAGCTGAACG
Found at i:16816829 original size:18 final size:18
Alignment explanation
Indices: 16816806--16816858 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16816796 TATTTAATAG
* *
16816806 AACCAAATGGACCGATCA
1 AACCAATTGAACCGATCA
* *
16816824 AACCAATTGTACCAATCA
1 AACCAATTGAACCGATCA
*
16816842 AACTAATTGAACCGATC
1 AACCAATTGAACCGATC
16816859 GAATCGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.19
Consensus pattern (18 bp):
AACCAATTGAACCGATCA
Found at i:16818302 original size:21 final size:21
Alignment explanation
Indices: 16818276--16818317 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16818266 GATACCTGGT
16818276 AAAAGGTATTAATACTTTTTG
1 AAAAGGTATTAATACTTTTTG
**
16818297 AAAAGGTATTGGTACTTTTTG
1 AAAAGGTATTAATACTTTTTG
16818318 TAATTGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
AAAAGGTATTAATACTTTTTG
Found at i:16818457 original size:19 final size:19
Alignment explanation
Indices: 16818410--16818461 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
16818400 AAAAGTATAA
16818410 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAAAT-ATTTC
**
16818430 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATATTTC
16818449 AATCAAGTTAAAA
1 AATCAAGTTAAAA
16818462 CTGTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.35
Consensus pattern (19 bp):
AATCAAGTTAAAATATTTC
Found at i:16819406 original size:15 final size:16
Alignment explanation
Indices: 16819370--16819409 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
16819360 ATGTCAGATT
16819370 TAATTTATATTAATAAA
1 TAATTTA-ATTAATAAA
16819387 T--TTTAATTAA-AAA
1 TAATTTAATTAATAAA
16819400 TAATTTAATT
1 TAATTTAATT
16819410 TATATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.19
14 5 0.24
15 11 0.52
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTAATTAATAAA
Found at i:16819593 original size:31 final size:31
Alignment explanation
Indices: 16819518--16819583 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
16819508 AACAACATAT
* *
16819518 TAATTTAAAT-AAAATTTTTAAATAATTTAA
1 TAATTTAAATAAAAATTTTCAAATAATTCAA
16819548 TAATTTAAATAAAAATTTTCAAATAATTCAA
1 TAATTTAAATAAAAATTTTCAAATAATTCAA
16819579 TAATT
1 TAATT
16819584 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TAATTTAAATAAAAATTTTCAAATAATTCAA
Found at i:16823017 original size:20 final size:20
Alignment explanation
Indices: 16822992--16823037 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
16822982 TAAATCGATT
*
16822992 CAATATCTTTATTACTGATA
1 CAATATCTCTATTACTGATA
16823012 CAATATCTCTATTACTGATA
1 CAATATCTCTATTACTGATA
*
16823032 TAATAT
1 CAATAT
16823038 TAATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.43
Consensus pattern (20 bp):
CAATATCTCTATTACTGATA
Found at i:16825727 original size:43 final size:43
Alignment explanation
Indices: 16825623--16825907 Score: 248
Period size: 43 Copynumber: 6.7 Consensus size: 43
16825613 ATCCGTTACT
* * **
16825623 CGGTGGATTCAGCACTTAGCAACCA-CTATA-AATTCAGCGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATT-AAAGATA
* * *
16825665 CGG-GGAATCAGCACATAGCAACC-CCTTTCACAATTAAGGATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATTAAAGATA
* * * **
16825707 TGGTGGAATCAGTACTTAGCAACCACCTTTA-TATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATT-AAAGATA
* * *
16825750 CGG-GGAATCAACACTTAGCAACC-CCATTCACAATTAAAAATA
1 CGGTGGAATCAGCACTTAGCAACCACC-TTTACAATTAAAGATA
* * * *
16825792 CGGTGGATTCAGCACATAGCAACCACCTTTA-TATTCAATGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATT-AAAGATA
*
16825835 CGG-GGAATCAGCACTTAGCAACC-CCTTTTACAATTAAAAATA
1 CGGTGGAATCAGCACTTAGCAACCACC-TTTACAATTAAAGATA
* *
16825877 TGGTGGGATCAGCACTTAGCAACCACCTTTA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA
16825908 GAGTCAATAA
Statistics
Matches: 193, Mismatches: 35, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
41 25 0.13
42 73 0.38
43 86 0.45
44 9 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATTAAAGATA
Found at i:16825766 original size:42 final size:41
Alignment explanation
Indices: 16825631--16825945 Score: 231
Period size: 43 Copynumber: 7.5 Consensus size: 41
16825621 CTCGGTGGAT
* * *
16825631 TCAGCACTTAGCAACCACTATAAATTCAGCGATACGGGGAA
1 TCAGCACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
* * **
16825672 TCAGCACATAGCAACCCCTTTCACAATTAAG-GATTTGGTGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
* *
16825715 TCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
* * *** *
16825757 TCAACACTTAGCAACCCCATTCACAATT-AAAAATACGGTGGAT
1 TCAGCACTTAGCAACCCC-TTTA-AATTCAGTGATACGG-GGAA
* * *
16825800 TCAGCACATAGCAACCACCTTTATATTCAATGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
*** * *
16825842 TCAGCACTTAGCAACCCCTTTTACAATT-AAAAATATGGTGGGA
1 TCAGCACTTAGCAACCCC-TTTA-AATTCAGTGATACGG-GGAA
* * * * * *
16825885 TCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
*
16825927 TCAGCACTTAGAAACCCCT
1 TCAGCACTTAGCAACCCCT
16825946 CGGGCAATCA
Statistics
Matches: 218, Mismatches: 41, Indels: 30
0.75 0.14 0.10
Matches are distributed among these distances:
41 25 0.11
42 91 0.42
43 93 0.43
44 9 0.04
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
Found at i:16825769 original size:85 final size:85
Alignment explanation
Indices: 16825624--16825945 Score: 421
Period size: 85 Copynumber: 3.8 Consensus size: 85
16825614 TCCGTTACTC
* * * ** *
16825624 GGTGGATTCAGCACTTAGCAACCA-CTATAAATTCAGCGATACGGGGAATCAGCACATAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
** *
16825688 CCTTTCACAATTAAGGATTT
66 CCTTTCACAATTAAAAATAT
* * *
16825708 GGTGGAATCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACTTAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
* *
16825773 CCATTCACAATTAAAAATAC
66 CCTTTCACAATTAAAAATAT
* *
16825793 GGTGGATTCAGCACATAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
*
16825858 CCTTTTACAATTAAAAATAT
66 CCTTTCACAATTAAAAATAT
* * * * * * *
16825878 GGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGAAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
16825943 CCT
66 CCT
16825946 CGGGCAATCA
Statistics
Matches: 208, Mismatches: 29, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
84 22 0.11
85 186 0.89
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (85 bp):
GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
CCTTTCACAATTAAAAATAT
Found at i:16830852 original size:8 final size:8
Alignment explanation
Indices: 16830839--16830880 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
16830829 TGAAAGTTAG
16830839 TTATCCAA
1 TTATCCAA
16830847 TTATCCAA
1 TTATCCAA
*
16830855 TTAT--AT
1 TTATCCAA
16830861 TTATCCAA
1 TTATCCAA
*
16830869 TTATTCAA
1 TTATCCAA
16830877 TTAT
1 TTAT
16830881 ATAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 5 0.17
8 24 0.83
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATCCAA
Found at i:16830867 original size:22 final size:22
Alignment explanation
Indices: 16830839--16830882 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16830829 TGAAAGTTAG
16830839 TTATCCAATTATCCAATTATAT
1 TTATCCAATTATCCAATTATAT
*
16830861 TTATCCAATTATTCAATTATAT
1 TTATCCAATTATCCAATTATAT
16830883 AATTAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATCCAATTATCCAATTATAT
Found at i:16836795 original size:19 final size:19
Alignment explanation
Indices: 16836770--16836812 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16836760 TATAGTTCTC
*
16836770 AAATAATAGG-AATTATAA
1 AAATAATAGGTAAATATAA
16836788 ATAATAATAGGTAAATATAA
1 A-AATAATAGGTAAATATAA
16836808 AAATA
1 AAATA
16836813 TTAATAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
AAATAATAGGTAAATATAA
Found at i:16836811 original size:22 final size:19
Alignment explanation
Indices: 16836771--16836818 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
16836761 ATAGTTCTCA
*
16836771 AATAATAGGAATTATAAAT
1 AATAATAGGAATTAAAAAT
16836790 AATAATAGGTAAATATAAAAAT
1 AATAATAGG--AAT-TAAAAAT
*
16836812 ATTAATA
1 AATAATA
16836819 AAACTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.38
21 3 0.12
22 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
AATAATAGGAATTAAAAAT
Done.