Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
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: 4148933
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:3209558 original size:20 final size:21
Alignment explanation
Indices: 3209521--3209568 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
3209511 GAACATTGGT
*
3209521 GGGAATCGGTACCCCCTGGGG
1 GGGAATCAGTACCCCCTGGGG
3209542 GGGAATCAGTA-CCCCTGGGG
1 GGGAATCAGTACCCCCTGGGG
3209562 GGGAATC
1 GGGAATC
3209569 GATTCCCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.19, C:0.25, G:0.42, T:0.15
Consensus pattern (21 bp):
GGGAATCAGTACCCCCTGGGG
Found at i:3212451 original size:29 final size:29
Alignment explanation
Indices: 3212378--3212449 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
3212368 AAATTACCAT
* * *
3212378 TTTGGTCTCTAAACTTTTCAAAGTTTATAC
1 TTTGGTCACTAAAC-TTTCAAAATTTATAA
*
3212408 TTTGGTTACTAAACTTTCAAAATCTTATAA
1 TTTGGTCACTAAACTTTCAAAAT-TTATAA
3212438 TTTGGTCACTAA
1 TTTGGTCACTAA
3212450 CTAAATCCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 8 0.22
30 28 0.78
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTGGTCACTAAACTTTCAAAATTTATAA
Found at i:3216303 original size:21 final size:21
Alignment explanation
Indices: 3216279--3216326 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
3216269 ATCAACTAAA
*
3216279 TAGTATCGATACTAATAAAAT
1 TAGTATCCATACTAATAAAAT
*
3216300 TAGTATCCATACTAATACAAT
1 TAGTATCCATACTAATAAAAT
3216321 TAGTAT
1 TAGTAT
3216327 TATTAGTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (21 bp):
TAGTATCCATACTAATAAAAT
Found at i:3216954 original size:54 final size:54
Alignment explanation
Indices: 3216867--3217040 Score: 294
Period size: 54 Copynumber: 3.2 Consensus size: 54
3216857 GATTACCGAA
* *
3216867 TGGCACTATGTGTGCAACTTAAGAAATCCATAATGAGTTTATGAATTTTCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
*
3216921 TGGCTCTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* *
3216975 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGCGTTTATGAATTTCCATAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
*
3217029 TGACACTATGTG
1 TGGCACTATGTG
3217041 GAGTTTATGA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (54 bp):
TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
Found at i:3217052 original size:32 final size:32
Alignment explanation
Indices: 3217011--3217072 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3217001 TTCATAATGC
3217011 GTTTATGAATTTCCATATTGACACTATGTGGA
1 GTTTATGAATTTCCATATTGACACTATGTGGA
** *
3217043 GTTTATGAATTTCTGTATTGGCACTATGTG
1 GTTTATGAATTTCCATATTGACACTATGTG
3217073 TGCAACTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (32 bp):
GTTTATGAATTTCCATATTGACACTATGTGGA
Found at i:3217101 original size:86 final size:86
Alignment explanation
Indices: 3216955--3217126 Score: 292
Period size: 86 Copynumber: 2.0 Consensus size: 86
3216945 AATTCATAAT
*
3216955 GAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGCGTTTATGAA
1 GAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
3217020 TT-TCCATATTGACACTATGTG
66 TTGT-CATATTGACACTATGTG
*
3217041 GAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
1 GAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
* *
3217106 TTGTCGTATTGGCACTATGTG
66 TTGTCATATTGACACTATGTG
3217127 TGCAACTTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 80 0.99
87 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (86 bp):
GAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
TTGTCATATTGACACTATGTG
Found at i:3217123 original size:54 final size:54
Alignment explanation
Indices: 3217041--3217335 Score: 493
Period size: 54 Copynumber: 5.5 Consensus size: 54
3217031 ACACTATGTG
3217041 GAGTTTATGAA-TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
1 GAGTTTATGAATTTTC-GTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
*
3217095 GAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
1 GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
*
3217149 GAGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAAT
1 GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
* * * *
3217203 GAGTTTATGAATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAAT
1 GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
*
3217257 GAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
1 GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
* *
3217311 AAGTTTATGAATTTTTGTATTGGCA
1 GAGTTTATGAATTTTCGTATTGGCA
3217336 TTGGGTGTGC
Statistics
Matches: 226, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
54 223 0.99
55 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
Found at i:3217155 original size:140 final size:140
Alignment explanation
Indices: 3216901--3217180 Score: 476
Period size: 140 Copynumber: 2.0 Consensus size: 140
3216891 AATCCATAAT
*
3216901 GAGTTTATGAATTTTCGTATTGGCTCTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
1 GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
*
3216966 TTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGCGTTTATGAATTTCCATATT-
66 TTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATATTG
3217030 GACACTATGTG
131 GA-ACTATGTG
3217041 GAGTTTATGAA-TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGA
1 GAGTTTATGAATTTTC-GTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGA
* *
3217105 ATTGT-CGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
65 ATT-TCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATAT
3217169 TGGAACTATGTG
129 TGGAACTATGTG
3217181 TGCAACTTAA
Statistics
Matches: 133, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
139 4 0.03
140 126 0.95
141 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (140 bp):
GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
TTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATATTG
GAACTATGTG
Found at i:3217196 original size:194 final size:194
Alignment explanation
Indices: 3216867--3217234 Score: 664
Period size: 194 Copynumber: 1.9 Consensus size: 194
3216857 GATTACCGAA
* *
3216867 TGGCACTATGTGTGCAACTTAAGAAATCCATAATGAGTTTATGAATTTTCGTATTGGCTCTATGT
1 TGGCACTATGTGTGCAACTTAAGAAATCCATAATGAGTTTATGAATTGTCGTATTGGCACTATGT
*
3216932 GTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAA
66 GTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGAACTATGTGTGCAACTTAA
* *
3216997 GAAATTCATAATGCGTTTATGAATTTCCATATTGACACTATGTGGAGTTTATGAATTTCTGTAT
131 GAAATTCATAATGAGTTTATGAATTTCCATATTGACACCATGTGGAGTTTATGAATTTCTGTAT
*
3217061 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGT
1 TGGCACTATGTGTGCAACTTAAGAAATCCATAATGAGTTTATGAATTGTCGTATTGGCACTATGT
*
3217126 GTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAA
66 GTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGAACTATGTGTGCAACTTAA
*
3217191 GAAATTCATAATGAGTTTATGAATTTCCATATTGGCACCATGTG
131 GAAATTCATAATGAGTTTATGAATTTCCATATTGACACCATGTG
3217235 TGCAACTTAA
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 166 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (194 bp):
TGGCACTATGTGTGCAACTTAAGAAATCCATAATGAGTTTATGAATTGTCGTATTGGCACTATGT
GTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGAACTATGTGTGCAACTTAA
GAAATTCATAATGAGTTTATGAATTTCCATATTGACACCATGTGGAGTTTATGAATTTCTGTAT
Found at i:3217376 original size:54 final size:54
Alignment explanation
Indices: 3217044--3217748 Score: 459
Period size: 54 Copynumber: 12.6 Consensus size: 54
3217034 CTATGTGGAG
* * * *
3217044 TTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* * * * *
3217098 TTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* * * * *
3217152 TTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAATGAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
*** * * * * *
3217206 TTTATGAATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAATGAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* *
3217260 TTTATGAATTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* * *** * *
3217314 TTTATGAATTTTTGTATTGGCATTGGGTGTGCAAAC-TACTTAATTTATAGTAAA
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGC-AACTTAAGAAATTCATAATAAA
* * * * * * *
3217368 TTTGTGAATTTCTGTATTGACCCTACAG-GTGCAAAC-TATAG-ATTTTATAATAAA
1 TTTATGAATTTTTGTATTGGCACTA-GGTGTGC-AACTTA-AGAAATTCATAATAAA
* * * * ** * * * * * * * *
3217422 TTAAAAGAGTTAATTGATATCAGAATTA-TTATGATATACTCGTGTTTAGAATTTGCAACTTAAG
1 TT-TATGAATT-TTTG-TATTGGCACTAGGTGTG-CA-A--C---TTAAGAAATT-C-A--TAAT
3217486 AAA
52 AAA
* * * *
3217489 TTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAG
1 TT--T-ATGA----AT---TT-TTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* * *
3217554 TTTATGAATTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
** * * *
3217608 TTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* * * * *
3217662 TTTAGGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTAATAATAAG
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
* * *
3217716 TTTATGAATTTCTATATTGGCA-TGGGTGTGCAA
1 TTTATGAATTTTTGTATTGGCACTAGGTGTGCAA
3217749 ACTACTTAAT
Statistics
Matches: 538, Mismatches: 82, Indels: 63
0.79 0.12 0.09
Matches are distributed among these distances:
53 9 0.02
54 447 0.83
55 10 0.02
56 5 0.01
57 6 0.01
58 2 0.00
59 1 0.00
62 6 0.01
63 6 0.01
65 7 0.01
67 9 0.02
68 2 0.00
69 11 0.02
72 1 0.00
73 1 0.00
74 1 0.00
75 8 0.01
76 6 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (54 bp):
TTTATGAATTTTTGTATTGGCACTAGGTGTGCAACTTAAGAAATTCATAATAAA
Found at i:3217378 original size:108 final size:108
Alignment explanation
Indices: 3217041--3217737 Score: 568
Period size: 108 Copynumber: 6.2 Consensus size: 108
3217031 ACACTATGTG
3217041 GAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
1 GAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
* *
3217106 TTGTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
66 TTTTCGTATTGGCACTATGTGTGCAACTTAAAAAATTCATAAT
*
3217149 GAGTTTATGAATTT-TCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGA
1 GAGTTTATGAATTTCT-GTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGA
* * *
3217213 ATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAAT
65 ATTTTCGTATTGGCACTATGTGTGCAACTTAAAAAATTCATAAT
* *
3217257 GAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 GAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
* * ** *** * *
3217322 TTTTTGTATTGGCATTGGGTGTGCAAAC-TACTTAATTTATAGT
66 TTTTCGTATTGGCACTATGTGTGC-AACTTAAAAAATTCATAAT
* * * * * * * * * * *
3217365 AAATTTGTGAATTTCTGTATTGACCCTACAG-GTGCAAAC-TATAG-ATTTTATAATAAATTAAA
1 GAGTTTATGAATTTCTGTATTGGCACTA-TGTGTGC-AACTTA-AGAAATTCATAATGAGTT-TA
* * ** * * * * * * *
3217427 AGAGTTAATT-GATATCAGAATTAT-TATGATATACTCGTGTTTAGAATTTGCAACTTAA-
62 TGAATT--TTCG-TATTGGCACTATGTGTG-CA-A--C---TTAAAAAATT-C-A--TAAT
* * *
3217485 GAAATTCAT-AATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATA
1 G-AGTTTATGAA--------T---TTCT-GTATTGGCACTATGTGTGCAACTTAAGAAATTCATA
* *
3217549 ATGAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
53 ATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAAAAATTCATAAT
* *
3217605 GAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTAGGAA
1 GAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
* *
3217670 -TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTAATAAT
66 TTTTC-GTATTGGCACTATGTGTGCAACTTAAAAAATTCATAAT
* *
3217713 AAGTTTATGAATTTCTATATTGGCA
1 GAGTTTATGAATTTCTGTATTGGCA
3217738 TGGGTGTGCA
Statistics
Matches: 467, Mismatches: 79, Indels: 86
0.74 0.12 0.14
Matches are distributed among these distances:
107 4 0.01
108 335 0.72
109 17 0.04
110 5 0.01
111 10 0.02
112 1 0.00
113 1 0.00
117 4 0.01
119 9 0.02
120 5 0.01
121 8 0.02
122 1 0.00
123 8 0.02
126 1 0.00
128 2 0.00
129 11 0.02
130 4 0.01
131 14 0.03
132 27 0.06
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (108 bp):
GAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAA
TTTTCGTATTGGCACTATGTGTGCAACTTAAAAAATTCATAAT
Found at i:3217619 original size:402 final size:401
Alignment explanation
Indices: 3217073--3217876 Score: 1473
Period size: 402 Copynumber: 2.0 Consensus size: 401
3217063 GCACTATGTG
3217073 TGCAACTTAAGAAATTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAG
1 TGCAACTTAAGAAATTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAG
3217138 AAATTCATAATGAGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAAT
66 AAATTCATAATGAGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAAT
*
3217203 GAGTTTATGAATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAATGAGTTTATGAA
131 GAGTTTATGAATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAATGAGTTTAGGAA
* * * *
3217268 TTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTG
196 TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTAATAATAAGTTTATGAATTTCTATATTG
* *
3217333 GCATTGGGTGTGCAAACTACTTAATTTATAGTAAATTTGTGAATTTCTGTATTGACCCTACAGGT
261 GCA-TGGGTGTGCAAACTACTTAATTTATAGTAAATTTGTGAATTTCAGTATTGACCCTACAAGT
3217398 GCAAACTATAGATTTTATAATAAATTAAAAGAGTTAATTGATATCAGAATTATTATGATATACTC
325 GCAAACTATAGATTTTATAATAAATTAAAAGAGTTAATTGATATCAGAATTATTATGATATACTC
3217463 GTGTTTAGAATT
390 GTGTTTAGAATT
3217475 TGCAACTTAAGAAATTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAG
1 TGCAACTTAAGAAATTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAG
* *
3217540 AAATTCATAATGAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAAT
66 AAATTCATAATGAGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAAT
* * *
3217605 GAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTAGGAA
131 GAGTTTATGAATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAATGAGTTTAGGAA
3217670 TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTAATAATAAGTTTATGAATTTCTATATTG
196 TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTAATAATAAGTTTATGAATTTCTATATTG
* *
3217735 GCATGGGTGTGCAAACTACTTAATTTATAGTAATTTTGTGAATTTCAGTATTGGCCCTACAAGTG
261 GCATGGGTGTGCAAACTACTTAATTTATAGTAAATTTGTGAATTTCAGTATTGACCCTACAAGTG
3217800 CAAACTATAGATTTTATAATAAATTAAAAGAGTTAATTGATATCAGAATTATTATGATATACTCG
326 CAAACTATAGATTTTATAATAAATTAAAAGAGTTAATTGATATCAGAATTATTATGATATACTCG
3217865 TGTTTAGAATT
391 TGTTTAGAATT
3217876 T
1 T
3217877 TTCTTATGAC
Statistics
Matches: 388, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
401 135 0.35
402 253 0.65
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (401 bp):
TGCAACTTAAGAAATTCATAATGAGTTTATGAATTGTCGTATTGGCACTATGTGTGCAACTTAAG
AAATTCATAATGAGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTAAGAAATTCATAAT
GAGTTTATGAATTTCCATATTGGCACCATGTGTGCAACTTAAAAAATTCATAATGAGTTTAGGAA
TTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTAATAATAAGTTTATGAATTTCTATATTG
GCATGGGTGTGCAAACTACTTAATTTATAGTAAATTTGTGAATTTCAGTATTGACCCTACAAGTG
CAAACTATAGATTTTATAATAAATTAAAAGAGTTAATTGATATCAGAATTATTATGATATACTCG
TGTTTAGAATT
Found at i:3219529 original size:89 final size:90
Alignment explanation
Indices: 3219375--3219552 Score: 277
Period size: 89 Copynumber: 2.0 Consensus size: 90
3219365 TCGATCGATA
* * * *
3219375 ACCATCATGCACCAAGTATGCCAATTACATACATAGTGCTTCAGTACACAAAGTACTACTGCAAT
1 ACCATCATACACCAAGTATGCCAATTACATACATAATACTTCAGTACACAAAGTACTACTACAAT
* *
3219440 ACCACCTTATTTATTGT-TTACAAC
66 ACCACCTAATTTATGGTATTACAAC
* *
3219464 ACCATCATACACCAAGTATGCTAATTACATACATAATACTTTAGTACACAAAGTACTACTACAAT
1 ACCATCATACACCAAGTATGCCAATTACATACATAATACTTCAGTACACAAAGTACTACTACAAT
3219529 ACCACCTAATTTATGGTATTACAA
66 ACCACCTAATTTATGGTATTACAA
3219553 TTGCACATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 74 0.93
90 6 0.08
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.29
Consensus pattern (90 bp):
ACCATCATACACCAAGTATGCCAATTACATACATAATACTTCAGTACACAAAGTACTACTACAAT
ACCACCTAATTTATGGTATTACAAC
Found at i:3224190 original size:47 final size:47
Alignment explanation
Indices: 3224132--3224224 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
3224122 ATGAAATAAA
3224132 GTAAGATTCAAAATTAATAACAAGAGATTTTAACAAATCAACCAGGT
1 GTAAGATTCAAAATTAATAACAAGAGATTTTAACAAATCAACCAGGT
*
3224179 GTAATATTCAAAATTAATAACAAGAGATTTTAACAAATCAACCAGG
1 GTAAGATTCAAAATTAATAACAAGAGATTTTAACAAATCAACCAGG
3224225 GCAACTGTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (47 bp):
GTAAGATTCAAAATTAATAACAAGAGATTTTAACAAATCAACCAGGT
Found at i:3225019 original size:18 final size:18
Alignment explanation
Indices: 3224989--3225026 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3224979 ACCAGGAAAC
*
3224989 ATCGAACCTAAAATGGGT
1 ATCGAACCTAAAAAGGGT
3225007 ATCGATACC-AAAAAGGGT
1 ATCGA-ACCTAAAAAGGGT
3225025 AT
1 AT
3225027 TAGTACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (18 bp):
ATCGAACCTAAAAAGGGT
Found at i:3225478 original size:54 final size:54
Alignment explanation
Indices: 3225393--3226384 Score: 1071
Period size: 54 Copynumber: 18.3 Consensus size: 54
3225383 ATTACCAAAT
* * *
3225393 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTAATGAATAACCGCAC
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* ** * * *
3225447 AGACACTAAGTGTGCATTTTATGGAATTCATCATGAGTTGATGAATAACCGTAT
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
** * * *
3225501 AGGCCACT--GTG-AAAATCCACAAAATTCATCATTAGTTGATGAATAACCGTAC
1 AGG-CACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
3225553 AGACACTAAGTGTGCAAATCC-CTGAAATTCATCATGAGTTGATAAATAACAGTAT
1 AGGCACTAAGTGTGC-ATTCCAC-GAAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
3225608 AGGCATTAAGTGTGCATTTCAC-ATAATTCATAATGGGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGA-AATTCATCATGAGTTGATGAATAACCGTAC
* * * * * * * *
3225662 ATGTACTATGTGTGCAAATCCACGGAATTTATCATGAGTTGATAAATAACTGTAC
1 AGGCACTAAGTGTGC-ATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
3225717 AAGCACTAAGTGTGCAAATCCACAAAATTCATCATGAATTGATGAATAACCGTAT
1 AGGCACTAAGTGTGC-ATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* *
3225772 AGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
3225826 ATGCACTAAGTGTGCATTTCACGGAATTCATAATGGGTTGATGAATAACCGTAT
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
3225880 AGGCACTATGTATGTAAATCCAC-ATAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTG-CATTCCACGA-AATTCATCATGAGTTGATGAATAACCGTAC
* * * *
3225935 AGACACTAAGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTAT
1 AGGCACTAAGTGTGC-ATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * *
3225990 AGGCACTAAGTGTGCATTTCACGGAATTCATCATGGGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * * *
3226044 AGGTACTATGTGTGCAAATCCACGAAATTCATTATGAGTTGATAAATAAACATAC
1 AGGCACTAAGTGTGC-ATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * *
3226099 ATGTACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGC-ATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* *
3226154 AGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
3226208 AGGCACTAAGTATGCATTTCACGAAATTCATCATGATTTGATGAATAATCGTAC
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
3226262 AGACACTAAGTGTGCATTTCACGTAATTCATCATGCGTTGATGAATAACCGTAT
1 AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
3226316 AGGCACTATGTGTTCAAATCCACGGAATTCATCCTGAGTTGATGAACT-ACCGTAT
1 AGGCACTAAGTGTGC-ATTCCACGAAATTCATCATGAGTTGATGAA-TAACCGTAC
*
3226371 AGGCACTACGTGTG
1 AGGCACTAAGTGTG
3226385 TATCTTAATA
Statistics
Matches: 789, Mismatches: 132, Indels: 33
0.83 0.14 0.03
Matches are distributed among these distances:
51 4 0.01
52 33 0.04
53 7 0.01
54 375 0.48
55 368 0.47
56 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (54 bp):
AGGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:3225753 original size:164 final size:163
Alignment explanation
Indices: 3225393--3226384 Score: 1117
Period size: 164 Copynumber: 6.1 Consensus size: 163
3225383 ATTACCAAAT
* * * *
3225393 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTAATGAATAACCGCACAGACACTAAG
1 AGGCACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAG
* *** * **
3225457 TGTGCATTTTATGGAATTCATCATGAGTTGATGAATAACCGTATAGGCCACT--GTG-AAAATCC
66 TGTGCATTTCACATAATTCATCATGAGTTGATGAATAACCGTACAGG-CACTAAGTGTGCAATCC
** *
3225519 ACAAAATTCATCATTAGTTGATGAATAACCGTAC
130 ACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
3225553 AGACACTAAGTGTGCAAATCC-CTGAAATTCATCATGAGTTGATAAATAACAGTATAGGCATTAA
1 AGGCACTAAGTGTGCAAATCCAC-GAAATTCATCATGAGTTGATGAATAACCGTACAGACACTAA
* * * * *
3225617 GTGTGCATTTCACATAATTCATAATGGGTTGATGAATAACCGTACATGTACTATGTGTGCAAATC
65 GTGTGCATTTCACATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC-AATC
* * *
3225682 CACGGAATTTATCATGAGTTGATAAATAACTGTAC
129 CACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
3225717 AAGCACTAAGTGTGCAAATCCACAAAATTCATCATGAATTGATGAATAACCGTATAGGCACTAAG
1 AGGCACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAG
* * * *
3225782 TGTGCATTTCACGA-AATTCATCATGATTTGATGAATAACCGTACATGCACTAAGTGTGCATTTC
66 TGTGCATTTCAC-ATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAATCC
* * *
3225846 ACGGAATTCATAATGGGTTGATGAATAACCGTAT
130 ACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
3225880 AGGCACTATGTATGTAAATCCAC-ATAATTCATCATGAGTTGATGAATAACCGTACAGACACTAA
1 AGGCACTAAGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAGACACTAA
** * *
3225944 GTGTGCAAATC-CATGAAATTCATCATGAGTTGATGAATAACCGTATAGGCACTAAGTGTGCATT
65 GTGTGCATTTCACAT--AATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAAT
* *
3226008 TCACGGAATTCATCATGGGTTGATGAATAACCGTAC
128 CCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * * *
3226044 AGGTACTATGTGTGCAAATCCACGAAATTCATTATGAGTTGATAAATAAACATACATG-TACTAA
1 AGGCACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA-GACACTAA
* * *
3226108 GTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATT
65 GTGTGC-ATTTCAC-ATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAAT
* * *
3226172 TCACGAAATTCATCATGATTTGATGAATAACCGTAC
128 CCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
3226208 AGGCACTAAGTATGC-ATTTCACGAAATTCATCATGATTTGATGAATAATCGTACAGACACTAAG
1 AGGCACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAG
* * * * *
3226272 TGTGCATTTCACGTAATTCATCATGCGTTGATGAATAACCGTATAGGCACTATGTGTTCAAATCC
66 TGTGCATTTCACATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC-AATCC
* *
3226337 ACGGAATTCATCCTGAGTTGATGAACT-ACCGTAT
130 ACGGAATTCATCATGAGTTGATGAA-TAACCGTAC
*
3226371 AGGCACTACGTGTG
1 AGGCACTAAGTGTG
3226385 TATCTTAATA
Statistics
Matches: 710, Mismatches: 101, Indels: 39
0.84 0.12 0.05
Matches are distributed among these distances:
160 18 0.03
161 78 0.11
162 52 0.07
163 182 0.26
164 371 0.52
165 7 0.01
166 1 0.00
167 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (163 bp):
AGGCACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAG
TGTGCATTTCACATAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAATCCA
CGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:3226109 original size:382 final size:379
Alignment explanation
Indices: 3225391--3226384 Score: 1431
Period size: 382 Copynumber: 2.6 Consensus size: 379
3225381 TGATTACCAA
* * * * *
3225391 ATAGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTAATGAATAACCGCACAGACACTAA
1 ATAGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTACAG-CACTAA
* *
3225456 GTGTGCATTTTATGGAATTCATCATGAGTTGATGAATAACCGTATAGGC-C-ACTG-TGAAAATC
65 GTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTA-TGTTG-AAATC
* * *
3225518 CACAAAATTCATCATTAGTTGATGAATAACCGTACAGACACTAAGTGTGCAAATCCCTGAAATTC
128 CACATAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAGTGTGCAAATCCATGAAATTC
* * * *
3225583 ATCATGAGTTGATAAATAACAGTATAGGCATTAAGTGTGCATTTCACATAATTCATAATGGGTTG
193 ATCATGAGTTGATGAATAACCGTATAGGCACTAAGTGTGCATTTCACAGAATTCATAATGGGTTG
* * *
3225648 ATGAATAACCGTACATGTACTATGTGTGCAAATCCACGGAATTTATCATGAGTTGATAAATAACT
258 ATGAATAACCGTACAGGTACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATAAATAACT
*
3225713 GTACAAGCACTAAGTGTGCAAATCCACAAAATTCATCATGAATTGATGAATAACCGT
323 ATACAAGCACTAAGTGTGCAAATCCACAAAATTCATCATGAATTGATGAATAACCGT
3225770 ATAGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTACATGCACTAA
1 ATAGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTACA-GCACTAA
* *
3225835 GTGTGCATTTCACGGAATTCATAATGGGTTGATGAATAACCGTATAGGCACTATGTATGTAAATC
65 GTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGT-TG-AAATC
3225900 CACATAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAGTGTGCAAATCCATGAAATTC
128 CACATAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAGTGTGCAAATCCATGAAATTC
* *
3225965 ATCATGAGTTGATGAATAACCGTATAGGCACTAAGTGTGCATTTCACGGAATTCATCATGGGTTG
193 ATCATGAGTTGATGAATAACCGTATAGGCACTAAGTGTGCATTTCACAGAATTCATAATGGGTTG
*
3226030 ATGAATAACCGTACAGGTACTATGTGTGCAAATCCACGAAATTCATTATGAGTTGATAAATAAAC
258 ATGAATAACCGTACAGGTACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATAAAT-AAC
* * * *
3226095 -ATACATGTACTAAGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGT
322 TATACAAGCACTAAGTGTGCAAATCCACAAAATTCATCATGAATTGATGAATAACCGT
*
3226152 ACAGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTACAGGCACTAA
1 ATAGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTACA-GCACTAA
* * * * * * * * * *
3226217 GTATGCATTTCACGAAATTCATCATGATTTGATGAATAATCGTACAGACACTAAGTGTGCATTTC
65 GTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGT-TGAAATCC
* * * * * * * *
3226282 ACGTAATTCATCATGCGTTGATGAATAACCGTATAGGCACTATGTGTTCAAATCCACGGAATTCA
129 ACATAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAGTGTGCAAATCCATGAAATTCA
* *
3226347 TCCTGAGTTGATGAACT-ACCGTATAGGCACTACGTGTG
194 TCATGAGTTGATGAA-TAACCGTATAGGCACTAAGTGTG
3226385 TATCTTAATA
Statistics
Matches: 555, Mismatches: 53, Indels: 12
0.90 0.09 0.02
Matches are distributed among these distances:
379 103 0.19
380 4 0.01
381 95 0.17
382 350 0.63
383 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (379 bp):
ATAGGCACTAAGTGTGCATTTCACGAAATTCATCATGATTTGATGAATAACCGTACAGCACTAAG
TGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGTTGAAATCCAC
ATAATTCATCATGAGTTGATGAATAACCGTACAGACACTAAGTGTGCAAATCCATGAAATTCATC
ATGAGTTGATGAATAACCGTATAGGCACTAAGTGTGCATTTCACAGAATTCATAATGGGTTGATG
AATAACCGTACAGGTACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATAAATAACTATA
CAAGCACTAAGTGTGCAAATCCACAAAATTCATCATGAATTGATGAATAACCGT
Found at i:3226628 original size:81 final size:81
Alignment explanation
Indices: 3226525--3226854 Score: 403
Period size: 81 Copynumber: 4.1 Consensus size: 81
3226515 TTGTCCAAAA
* * * * * * *
3226525 TAAAAGAATAGTGGCCTAACTATGAAATTGGCAGAAATGTGTCAATTATGCTATTTAGATGAACG
1 TAAAAGAATAATTGCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACG
* *
3226590 GTTAAAGACCATTGAG
66 ATTAAAGACCGTTGAG
* * * **
3226606 TAAAGGAATAATTACCTAACTATGCAATTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAC-
1 TAAAAGAATAATTGCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACG
3226670 AGTTAAAGACCGTTGAG
66 A-TTAAAGACCGTTGAG
* * * * *
3226687 TAAAATAATAA-TGCCTAACTGTGAAATTGATATAAAGGTGTCAATTATACCAGTTAGATGAATG
1 TAAAAGAATAATTGCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACG
*
3226751 ATTAAAGACCGTTGTG
66 ATTAAAGACCGTTGAG
* * * * *
3226767 TAAAAGAATAATGGCCTAACTGTGTAATTGGCAGAAATGTGTCAATTATACCAGTTAGATGAACG
1 TAAAAGAATAATTGCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACG
*
3226832 ATTAAATACCGTTGAG
66 ATTAAAGACCGTTGAG
3226848 TAAAAGA
1 TAAAAGA
3226855 TGAAAATATA
Statistics
Matches: 213, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 68 0.32
81 145 0.68
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (81 bp):
TAAAAGAATAATTGCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACG
ATTAAAGACCGTTGAG
Found at i:3226730 original size:161 final size:161
Alignment explanation
Indices: 3226538--3226852 Score: 416
Period size: 161 Copynumber: 2.0 Consensus size: 161
3226528 AAGAATAGTG
* * * * * *
3226538 GCCTAACTATGAAATTGGCAGAAATGTGTCAATTATGCTATTTAGATGAACGGTTAAAGACCATT
1 GCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACGATTAAAGACCATT
* * *
3226603 GAGTAAAGGAATAATTACCTAACTATGCAATTGACAGAAAGGTGTCAATTACGCCAGTTAGATGA
66 GAGTAAAAGAATAATGACCTAACTATGCAATTGACAGAAAGGTGTCAATTACACCAGTTAGATGA
3226668 AC-AGTTAAAGACCGTTGAGTAAAATAATAAT
131 ACGA-TTAAAGACCGTTGAGTAAAATAATAAT
* * * * *
3226699 GCCTAACTGTGAAATTGATATAAAGGTGTCAATTATACCAGTTAGATGAATGATTAAAGACCGTT
1 GCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACGATTAAAGACCATT
* * * * * * *
3226764 GTGTAAAAGAATAATGGCCTAACTGTGTAATTGGCAGAAATGTGTCAATTATACCAGTTAGATGA
66 GAGTAAAAGAATAATGACCTAACTATGCAATTGACAGAAAGGTGTCAATTACACCAGTTAGATGA
*
3226829 ACGATTAAATACCGTTGAGTAAAA
131 ACGATTAAAGACCGTTGAGTAAAA
3226853 GATGAAAATA
Statistics
Matches: 131, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
161 130 0.99
162 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (161 bp):
GCCTAACTATGAAATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAACGATTAAAGACCATT
GAGTAAAAGAATAATGACCTAACTATGCAATTGACAGAAAGGTGTCAATTACACCAGTTAGATGA
ACGATTAAAGACCGTTGAGTAAAATAATAAT
Found at i:3226878 original size:2 final size:2
Alignment explanation
Indices: 3226871--3226920 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
3226861 TATAAGGAAT
3226871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3226913 TA TA TA TA
1 TA TA TA TA
3226921 ATGTACAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3228107 original size:178 final size:174
Alignment explanation
Indices: 3227786--3228137 Score: 652
Period size: 178 Copynumber: 2.0 Consensus size: 174
3227776 AGGGAAAAAG
3227786 TAAGAAAGTTGATAATGAAAAAGAGGTTGAGATCACAATTGACTCAAGAGAATCCGACATGACTT
1 TAAGAAAGTTGATAATGAAAAAGAGGTTGAGATCACAATTGACTCAAGAGAATCCGACATGACTT
3227851 CATATCATGTCTCAGAAGGGTAAAAACTGTTAGGGATTTTCCTTCATTCTGTGGAAGGAATGCCC
66 CATATCATGTCTCAGAAGGGTAAAAACTGTTAGGGATTTTCCTTCATTCTGTGGAAGGAATGCCC
3227916 CAACGTTTAACGACGTTTCAACCTTTGAGAAATACTTAAGTGAA
131 CAACGTTTAACGACGTTTCAACCTTTGAGAAATACTTAAGTGAA
3227960 TAAGAAAGTTGATAAT-ATTGAAAAGAAGGTTGAGATCACAATTGACTCAAGAGAATCCGACATG
1 TAAGAAAGTTGATAATGA---AAAAG-AGGTTGAGATCACAATTGACTCAAGAGAATCCGACATG
3228024 ACTTCACTATCATGTCTCAGAAGGGTAAAAACTGTTAGGGATTTTCCTTCATTCTGTGGAAGGAA
62 ACTTCA-TATCATGTCTCAGAAGGGTAAAAACTGTTAGGGATTTTCCTTCATTCTGTGGAAGGAA
3228089 TGCCCCAACGTTTAACGACGTTTCAACCTTTGAGAAATACTTAAGTGAA
126 TGCCCCAACGTTTAACGACGTTTCAACCTTTGAGAAATACTTAAGTGAA
3228138 ACATTAAAGT
Statistics
Matches: 173, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
173 1 0.01
174 16 0.09
176 5 0.03
177 44 0.25
178 107 0.62
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (174 bp):
TAAGAAAGTTGATAATGAAAAAGAGGTTGAGATCACAATTGACTCAAGAGAATCCGACATGACTT
CATATCATGTCTCAGAAGGGTAAAAACTGTTAGGGATTTTCCTTCATTCTGTGGAAGGAATGCCC
CAACGTTTAACGACGTTTCAACCTTTGAGAAATACTTAAGTGAA
Found at i:3231030 original size:54 final size:54
Alignment explanation
Indices: 3230948--3231561 Score: 644
Period size: 54 Copynumber: 11.3 Consensus size: 54
3230938 ATTACGAAAT
*
3230948 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTTC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
3231002 AGGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGACGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
3231056 AGGCACTAAGTGTACATTTCATGGAATTCATCATTG-GTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCA-TGAGTTGATGAATAACCGTAC
* * ** * * *
3231110 AGACACTATGTGTATAAATCCACGGAAGTCATCATAAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGT-GCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
3231165 AGACACTAAGTGTACAAATCCATGAAATTCATCATGAGTTGATGAATAACAGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * * *
3231220 ATGCATTAAGCGTGTATTTCAAGGAATTCATCATGGGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * **
3231274 AGG--CTATGTATGCAAATCCACGGAATTCATCTTGGGTTGATGAATAACTATAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** * * * *
3231327 AGGCACTAAGTGCACACATCCACAGAATTCATCATGAGTTGATGAATAATCATAC
1 AGGCACTAAGTGTGCA-TTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* ** * *
3231382 AGACACTAAGTGTGCATTTGACGGAATTCATCATGAGTTGATAAATAACTGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
3231436 AGGCACTAAGTGTGCATTTCACGGAATTCATCATGGGTTGATGAATAACTGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
3231490 AGGAACTATGTGTGCAAATCCATGGAATTCATTC-TGAGTTGATGAACT-ACCGTAT
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCA-TCATGAGTTGATGAA-TAACCGTAC
*
3231545 AGGCACTACGTGTGCAT
1 AGGCACTAAGTGTGCAT
3231562 CTTAATAAAT
Statistics
Matches: 467, Mismatches: 82, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
52 5 0.01
53 36 0.08
54 241 0.52
55 182 0.39
56 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (54 bp):
AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:3231517 original size:109 final size:108
Alignment explanation
Indices: 3230952--3231561 Score: 631
Period size: 109 Copynumber: 5.6 Consensus size: 108
3230942 CGAAATAGGC
* *
3230952 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTTCAGGCACTAAGTGTGC
1 ACTAAGTGTGCAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC
* *
3231017 ATTTCACGGAATTCATCATGAGTTGACGAATAACCGTACAGGC
66 ATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGA
* * * * * *
3231060 ACTAAGTGTACATTTCATGGAATTCATCATTG-GTTGATGAATAACCGTACAGACACTATGTGTA
1 ACTAAGTGTGCAATCCACGGAATTCATCA-TGAGTTGATGAATAACCGTACAGGCACTAAGTGT-
** * * * *
3231124 TAAATCCACGGAAGTCATCATAAGTTGATGAATAACCGTACA-GA
64 GCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGA
* * * * * * *
3231168 CACTAAGTGTACAAATCCATGAAATTCATCATGAGTTGATGAATAACAGTACATGCATTAAGCGT
1 -ACTAAGTGTGC-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGT
* * *
3231233 GTATTTCAAGGAATTCATCATGGGTTGATGAATAACCGTACAGG-
64 GCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGA
* * * * ** **
3231277 -CTATGTATGCAAATCCACGGAATTCATCTTGGGTTGATGAATAACTATACAGGCACTAAGTGCA
1 ACTAAGTGTGC-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTG
* * * * *
3231341 CACATCCACAGAATTCATCATGAGTTGATGAATAATCATACA-GA
65 CA-TTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGA
* ** * *
3231385 CACTAAGTGTGCATTTGACGGAATTCATCATGAGTTGATAAATAACTGTACAGGCACTAAGTGTG
1 -ACTAAGTGTGCAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTG
* *
3231450 CATTTCACGGAATTCATCATGGGTTGATGAATAACTGTACAGGA
65 CATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGA
* * * *
3231494 ACTATGTGTGCAAATCCATGGAATTCATTC-TGAGTTGATGAACT-ACCGTATAGGCACTACGTG
1 ACTAAGTGTGC-AATCCACGGAATTCA-TCATGAGTTGATGAA-TAACCGTACAGGCACTAAGTG
3231557 TGCAT
63 TGCAT
3231562 CTTAATAAAT
Statistics
Matches: 408, Mismatches: 80, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
107 52 0.13
108 129 0.32
109 175 0.43
110 52 0.13
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (108 bp):
ACTAAGTGTGCAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC
ATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGA
Found at i:3231828 original size:81 final size:81
Alignment explanation
Indices: 3231706--3232023 Score: 413
Period size: 81 Copynumber: 3.9 Consensus size: 81
3231696 AATAATAGTT
* ***
3231706 GCCTAACTGTGCAATT-AGCATAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAAGACCGT
1 GCCTAACTGTGCAATTGA-CATAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAAGACCGT
*
3231770 TGAGTAAAAGAATACTG
65 TGAGTAAAAGAATAATG
* * * * *
3231787 GCCTAATTGTGTAATTGACATAAATGTGTCAATTATGCCAGTTAGATGAATAGTTAAAGACCGTT
1 GCCTAACTGTGCAATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAAGACCGTT
*
3231852 GAGTAAAAGGATAATG
66 GAGTAAAAGAATAATG
* * * * **
3231868 GCTTAACTGTGTAATTGACATAAAGGTGTCAATTATGCCAATTAGATGAACGATTAAAGACTATT
1 GCCTAACTGTGCAATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAAGACCGTT
3231933 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* ** * * *
3231949 GTCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAAGATCGCT
1 GCCTAACTGTGCAATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAAGACCGTT
3232014 GAGTAAAAGA
66 GAGTAAAAGA
3232024 TGGAAAGTCA
Statistics
Matches: 209, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 208 1.00
82 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAAGACCGTT
GAGTAAAAGAATAATG
Found at i:3255866 original size:30 final size:30
Alignment explanation
Indices: 3255832--3255897 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
3255822 AAATTACATA
*
3255832 TTTGGTCT-CTAAACTTTCCCAAATTTATAC
1 TTTGGTCTACTAAACTTT-CAAAATTTATAC
* *
3255862 TTTGG-CTACTATACTTTCAAAATTTATAT
1 TTTGGTCTACTAAACTTTCAAAATTTATAC
3255891 TTTGGTC
1 TTTGGTC
3255898 AATAATCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTGGTCTACTAAACTTTCAAAATTTATAC
Found at i:3259433 original size:161 final size:161
Alignment explanation
Indices: 3259168--3259491 Score: 648
Period size: 161 Copynumber: 2.0 Consensus size: 161
3259158 TTTTTTTGAG
3259168 TTTTTGGACTAAAGTGTGAAATAGAGAATTAATTTACACTAAATTCTCTATCATTTGGTATAGTT
1 TTTTTGGACTAAAGTGTGAAATAGAGAATTAATTTACACTAAATTCTCTATCATTTGGTATAGTT
3259233 ATTTCATAGTTTTATTGATTGGATCATTGAGTTGGTTGTTAGGGTGGATGAAGAACAAGTTGGAG
66 ATTTCATAGTTTTATTGATTGGATCATTGAGTTGGTTGTTAGGGTGGATGAAGAACAAGTTGGAG
3259298 TTTGATGATTTAAGGATTGATTTTTATGTTA
131 TTTGATGATTTAAGGATTGATTTTTATGTTA
3259329 TTTTTGGACTAAAGTGTGAAATAGAGAATTAATTTACACTAAATTCTCTATCATTTGGTATAGTT
1 TTTTTGGACTAAAGTGTGAAATAGAGAATTAATTTACACTAAATTCTCTATCATTTGGTATAGTT
3259394 ATTTCATAGTTTTATTGATTGGATCATTGAGTTGGTTGTTAGGGTGGATGAAGAACAAGTTGGAG
66 ATTTCATAGTTTTATTGATTGGATCATTGAGTTGGTTGTTAGGGTGGATGAAGAACAAGTTGGAG
3259459 TTTGATGATTTAAGGATTGATTTTTATGTTA
131 TTTGATGATTTAAGGATTGATTTTTATGTTA
3259490 TT
1 TT
3259492 GATGTCGTAA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 163 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (161 bp):
TTTTTGGACTAAAGTGTGAAATAGAGAATTAATTTACACTAAATTCTCTATCATTTGGTATAGTT
ATTTCATAGTTTTATTGATTGGATCATTGAGTTGGTTGTTAGGGTGGATGAAGAACAAGTTGGAG
TTTGATGATTTAAGGATTGATTTTTATGTTA
Found at i:3263707 original size:30 final size:30
Alignment explanation
Indices: 3263671--3263739 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
3263661 TCACAAAAAT
3263671 GCATTGAGATGGATAAGGAAAATATTAAAG
1 GCATTGAGATGGATAAGGAAAATATTAAAG
3263701 GCATTGAGATGGATAAGGAAAATATTAAAG
1 GCATTGAGATGGATAAGGAAAATATTAAAG
*
3263731 TCATTGAGA
1 GCATTGAGA
3263740 AGCTACCTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.45, C:0.04, G:0.26, T:0.25
Consensus pattern (30 bp):
GCATTGAGATGGATAAGGAAAATATTAAAG
Found at i:3268292 original size:98 final size:98
Alignment explanation
Indices: 3268122--3268327 Score: 263
Period size: 98 Copynumber: 2.1 Consensus size: 98
3268112 CCTATGTAAG
*
3268122 TAAATTTTGGGTCATAACGGTACAAATTCTGATCAACGTAAATTCCAAAATCATACCTTGTGCTC
1 TAAATTTTGGGTCATAACGGTACAAATTCTGATCAACGTAAATTCCAAAATCATACCTTATGCTC
**
3268187 GAATAGGTTCGGTATATGAGCTTTCAATGCACA
66 GAATAGGTTCAATATATGAGCTTTCAATGCACA
* * * ** * *
3268220 TAAATTTTGGGTCGT-ACTGGTACAAATTTTGATCCATTTAAATTCTAGAATCATACCTTATGCT
1 TAAATTTTGGGTCATAAC-GGTACAAATTCTGATCAACGTAAATTCCAAAATCATACCTTATGCT
* **
3268284 C-AACTAGGTTCAATATGTGAGCTTTTGATGCACA
65 CGAA-TAGGTTCAATATATGAGCTTTCAATGCACA
3268318 TAAATTTTGG
1 TAAATTTTGG
3268328 TTCTTACCCC
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
97 4 0.04
98 89 0.96
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (98 bp):
TAAATTTTGGGTCATAACGGTACAAATTCTGATCAACGTAAATTCCAAAATCATACCTTATGCTC
GAATAGGTTCAATATATGAGCTTTCAATGCACA
Found at i:3298269 original size:78 final size:76
Alignment explanation
Indices: 3298172--3298316 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 76
3298162 GTAAACATTA
3298172 AAAGAATGTAATTCTGATTACAACTCTTTTAATAGATATTTAATTCAGAA-TAATTAAATAAGAG
1 AAAGAATGTAATTCTGATTACAACTC-TTTAATAGATATTTAATT--GAATTAATTAAATAAGAG
3298236 TTTAAATAAATGCT
63 TTTAAATAAATGCT
* * * * *
3298250 AAAGATTGTAATT-TGGATTATAAGTCTTTAATGGATATTTAATTGAATTAATTAAATAAGATTT
1 AAAGAATGTAATTCT-GATTACAACTCTTTAATAGATATTTAATTGAATTAATTAAATAAGAGTT
3298314 TAA
65 TAA
3298317 TTAATTTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
75 3 0.05
76 18 0.30
77 18 0.30
78 21 0.35
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (76 bp):
AAAGAATGTAATTCTGATTACAACTCTTTAATAGATATTTAATTGAATTAATTAAATAAGAGTTT
AAATAAATGCT
Found at i:3298979 original size:54 final size:54
Alignment explanation
Indices: 3298902--3299358 Score: 601
Period size: 54 Copynumber: 8.5 Consensus size: 54
3298892 TTGAATTTCA
* * * *
3298902 TGGGTTGCACACTTAGTGCCGATATGGTCATTCATAAACTTATTATGAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * * *
3298956 TGGGCTACACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATAAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* *
3299010 TGAGTTGCACACTTAGTGGCGATACGGTCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* **
3299064 TGGGTTGCACACCTAGTGTCGATACTATCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * * *
3299118 TGGGTTGCACACTTAGTGCCGATACGGTCCTTCATAAACTTATTATGAATTTTT
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* *
3299172 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATTAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* ** * * ** * *
3299226 TGGGTTGCACAGTTAGTACCGATACAGTCATTTTTAAACATATTATGAATTACG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * * * *
3299280 TGGGTTACACACTTAGTGTCGATGCAGTCATTCATAAACTTATTAT-AATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
*
3299333 TGGATTGCACACTTAGTGTCGATACG
1 TGGGTTGCACACTTAGTGTCGATACG
3299359 TGAAAATGCA
Statistics
Matches: 349, Mismatches: 54, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
53 27 0.08
54 322 0.92
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATG
Found at i:3301549 original size:32 final size:31
Alignment explanation
Indices: 3301508--3301577 Score: 106
Period size: 32 Copynumber: 2.3 Consensus size: 31
3301498 TCTTGATCGG
* *
3301508 ACACTATCGATATAGGCACTCCATTCAGCCGA
1 ACACTATCGATATAGGCACTACATACAGCC-A
3301540 ACACTATCGATATAGGCACTACATACAGCCA
1 ACACTATCGATATAGGCACTACATACAGCCA
3301571 A-ACTATC
1 ACACTATC
3301578 TCTTTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 6 0.17
31 2 0.06
32 28 0.78
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.21
Consensus pattern (31 bp):
ACACTATCGATATAGGCACTACATACAGCCA
Found at i:3306021 original size:54 final size:54
Alignment explanation
Indices: 3305954--3306337 Score: 556
Period size: 54 Copynumber: 7.1 Consensus size: 54
3305944 AAGCTCCTTT
* * * *
3305954 TGAATTTCATGGGTTGTACACTTAGTGTCGATACGATCGTTCATAAATTTATTA
1 TGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
* * *
3306008 TGAATTTCATGGGTTGCACACTTAGTGTCGATACAGTCTTTCATAAACTTATTA
1 TGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
* * *
3306062 TGAA-TTCTGTGGGTTGCACACTTAGTGCCAATACAGTCGTTCATAAACTTATTA
1 TGAATTTC-GTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
* * *
3306116 TGAATTTTGTGGATTGCACACTTAGTATCGATACGGTCGTTCATAAACTTATTA
1 TGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
*
3306170 TGAA-TTCTTTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
1 TGAATTTC-GTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
* * *
3306224 TGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCGTAAACTTATTA
1 TGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
* * *
3306278 TGAATTTCGTGGGTTGTAAACTTAGTGTCGATACGGTCGTTCATGAACTTATTA
1 TGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
3306332 TGAATT
1 TGAATT
3306338 ATATCGTGCC
Statistics
Matches: 297, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.02
54 288 0.97
55 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (54 bp):
TGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTA
Found at i:3307693 original size:17 final size:17
Alignment explanation
Indices: 3307656--3307694 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
3307646 TAGGTGAGAG
*
3307656 AATGAATTATGTAGTAT
1 AATGAATTATGTAGTAC
*
3307673 AATGAATTATGTAGTGC
1 AATGAATTATGTAGTAC
3307690 AATGA
1 AATGA
3307695 GAGAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (17 bp):
AATGAATTATGTAGTAC
Found at i:3317466 original size:16 final size:17
Alignment explanation
Indices: 3317444--3317482 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
3317434 AACACATTAC
3317444 ATTTAAGT-TGTTTATA
1 ATTTAAGTATGTTTATA
*
3317460 TTTTAAGTATGTTTATA
1 ATTTAAGTATGTTTATA
3317477 ATTTAA
1 ATTTAA
3317483 TTCACGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (17 bp):
ATTTAAGTATGTTTATA
Found at i:3331583 original size:115 final size:115
Alignment explanation
Indices: 3331381--3331610 Score: 451
Period size: 115 Copynumber: 2.0 Consensus size: 115
3331371 GAGTTTCATT
3331381 GTGATCGATTGGCCTGGATTTACAGGTATGGCTCTAGTTCCAAGTCATAACTCGTAAAAGTCTAT
1 GTGATCGATTGGCCTGGATTTACAGGTATGGCTCTAGTTCCAAGTCATAACTCGTAAAAGTCTAT
3331446 GCACTTTCACTTGGTGAAAAAGAAAGTCGTTGTCGCTTCAAATTATCTGC
66 GCACTTTCACTTGGTGAAAAAGAAAGTCGTTGTCGCTTCAAATTATCTGC
3331496 GTGATCGATTGGCCTGGATTTACAGGTATGGCTCTAGTTCCAAGTCATAACTCGTAAAAGTCTAT
1 GTGATCGATTGGCCTGGATTTACAGGTATGGCTCTAGTTCCAAGTCATAACTCGTAAAAGTCTAT
*
3331561 GCACTTTCACTTGGTGAAAAAGAATGTCGTTGTCGCTTCAAATTATCTGC
66 GCACTTTCACTTGGTGAAAAAGAAAGTCGTTGTCGCTTCAAATTATCTGC
3331611 CTTCTCAATG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (115 bp):
GTGATCGATTGGCCTGGATTTACAGGTATGGCTCTAGTTCCAAGTCATAACTCGTAAAAGTCTAT
GCACTTTCACTTGGTGAAAAAGAAAGTCGTTGTCGCTTCAAATTATCTGC
Found at i:3333189 original size:32 final size:32
Alignment explanation
Indices: 3333142--3333276 Score: 110
Period size: 32 Copynumber: 4.2 Consensus size: 32
3333132 AATCCAAAGG
* * * *
3333142 TTGACCTAAATCGAAAATCAGTCAATTTGATA
1 TTGACCCAAACCGAAAATCAATCAATCTGATA
*
3333174 TTGACCCAAACCGAAAATCAATCGATCTGATA
1 TTGACCCAAACCGAAAATCAATCAATCTGATA
* * *** * *
3333206 TTAAACTGGACCGAAAATCAACCAGT-TCGATA
1 TTGACCCAAACCGAAAATCAATCAATCT-GATA
* * * *
3333238 TTGAGCCGAACCGAAAATCGATCGATCTGATA
1 TTGACCCAAACCGAAAATCAATCAATCTGATA
3333270 TTGACCC
1 TTGACCC
3333277 GACCTGATAC
Statistics
Matches: 79, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
31 1 0.01
32 77 0.97
33 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (32 bp):
TTGACCCAAACCGAAAATCAATCAATCTGATA
Found at i:3333496 original size:114 final size:115
Alignment explanation
Indices: 3333295--3333528 Score: 461
Period size: 114 Copynumber: 2.0 Consensus size: 115
3333285 ACTCGAACCG
3333295 ACCTCATTTATTATACACCCAAACTTAATTCAAACCAGTCCCTGTCTGATCTAAACGAAATTAAT
1 ACCTCATTTATTATACACCCAAACTTAATTCAAACCAGTCCCTGTCTGATCTAAACGAAATTAAT
3333360 ATGAATATAATTTAAACCTGAAATAACTCGATTTGAATTATATGCTTGCT
66 ATGAATATAATTTAAACCTGAAATAACTCGATTTGAATTATATGCTTGCT
3333410 ACCTCATTTATTATAC-CCCAAACTTAATTCAAACCAGTCCCTGTCTGATCTAAACGAAATTAAT
1 ACCTCATTTATTATACACCCAAACTTAATTCAAACCAGTCCCTGTCTGATCTAAACGAAATTAAT
3333474 ATGAATATAATTTAAACCTGAAATAACTCGATTTGAATTATATGCTTGCT
66 ATGAATATAATTTAAACCTGAAATAACTCGATTTGAATTATATGCTTGCT
3333524 ACCTC
1 ACCTC
3333529 TAAGTTTGAG
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 103 0.87
115 16 0.13
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (115 bp):
ACCTCATTTATTATACACCCAAACTTAATTCAAACCAGTCCCTGTCTGATCTAAACGAAATTAAT
ATGAATATAATTTAAACCTGAAATAACTCGATTTGAATTATATGCTTGCT
Found at i:3334941 original size:12 final size:12
Alignment explanation
Indices: 3334909--3334946 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3334899 TGAATGATTA
*
3334909 AAATATAA-TTA
1 AAATATAATTTT
*
3334920 AAACATAATTTT
1 AAATATAATTTT
3334932 AAATATAATTTT
1 AAATATAATTTT
3334944 AAA
1 AAA
3334947 AAAATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATATAATTTT
Found at i:3335327 original size:16 final size:16
Alignment explanation
Indices: 3335306--3335341 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3335296 ATAAAATTTG
**
3335306 TGAAGAAATTTGAATA
1 TGAAGAAATTAAAATA
3335322 TGAAGAAATTAAAATA
1 TGAAGAAATTAAAATA
3335338 TGAA
1 TGAA
3335342 TCTGAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.28
Consensus pattern (16 bp):
TGAAGAAATTAAAATA
Found at i:3336002 original size:27 final size:28
Alignment explanation
Indices: 3335940--3336040 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 28
3335930 CCTAAACCCG
3335940 ACCCGACCCGAATATCACACTTAAAAAAA
1 ACCCGACCCGAATATCACACTT-AAAAAA
3335969 ACCCGACCCGAATATCACACTTAAAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
* *
3335997 CCCGACCCGACCCGAATATCAAACTTAGAAAA
1 ----ACCCGACCCGAATATCACACTTAAAAAA
*
3336029 CCCCGACCCGAA
1 ACCCGACCCGAA
3336041 CTCGTATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
28 17 0.26
29 22 0.34
32 26 0.40
ACGTcount: A:0.43, C:0.36, G:0.10, T:0.12
Consensus pattern (28 bp):
ACCCGACCCGAATATCACACTTAAAAAA
Found at i:3336010 original size:32 final size:32
Alignment explanation
Indices: 3335933--3336039 Score: 157
Period size: 29 Copynumber: 3.4 Consensus size: 32
3335923 TTTTCATCCT
3335933 AAACCCGACCCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAA
*
3335965 AAA---AACCCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAA
*
3335994 AAACCCGACCCGACCCGAATATCAAACTTAGAA
1 AAACCCGACCCGACCCGAATATCACACTTA-AA
*
3336027 AACCCCGACCCGA
1 AAACCCGACCCGA
3336040 ACTCGTATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
29 28 0.42
32 25 0.37
33 14 0.21
ACGTcount: A:0.42, C:0.36, G:0.10, T:0.11
Consensus pattern (32 bp):
AAACCCGACCCGACCCGAATATCACACTTAAA
Found at i:3336172 original size:31 final size:33
Alignment explanation
Indices: 3336137--3336207 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
3336127 ACCCGACCCA
3336137 ACCCGAACCCGA-AATTTTTTT-AAAAAATCCG
1 ACCCGAACCCGATAATTTTTTTAAAAAAATCCG
* ** **
3336168 ACCCGATCTTGATTTTTTTTTTAAAAAAATCCG
1 ACCCGAACCCGATAATTTTTTTAAAAAAATCCG
3336201 ACCCGAA
1 ACCCGAA
3336208 TACCAAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 9 0.28
32 7 0.22
33 16 0.50
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (33 bp):
ACCCGAACCCGATAATTTTTTTAAAAAAATCCG
Found at i:3336307 original size:28 final size:28
Alignment explanation
Indices: 3336276--3336329 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
3336266 TTCAATTTCA
* *
3336276 TCATGTTATTGATGAAATTTATTTTCCT
1 TCATGATATGGATGAAATTTATTTTCCT
3336304 TCATGATATGGATGAAATTTATTTTC
1 TCATGATATGGATGAAATTTATTTTC
3336330 ACTCCCTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (28 bp):
TCATGATATGGATGAAATTTATTTTCCT
Found at i:3336330 original size:24 final size:26
Alignment explanation
Indices: 3336270--3336327 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
3336260 AAGGATTTCA
* * *
3336270 ATTTCATCATGTTATTGATGAAATTT
1 ATTTCTTCATGATATGGATGAAATTT
3336296 ATTTTCCTTCATGATATGGATGAAATTT
1 A-TTT-CTTCATGATATGGATGAAATTT
3336324 ATTT
1 ATTT
3336328 TCACTCCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 6 0.22
28 20 0.74
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (26 bp):
ATTTCTTCATGATATGGATGAAATTT
Found at i:3337546 original size:25 final size:27
Alignment explanation
Indices: 3337518--3337567 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3337508 TTAAATATTA
*
3337518 TATTAACTT-A-TTAAATATATTTTAC
1 TATTAACTTAATTTAAAAATATTTTAC
3337543 TATTAACTTAATTTAAAAATATTTT
1 TATTAACTTAATTTAAAAATATTTT
3337568 TTTTATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 1 0.05
27 12 0.55
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTAACTTAATTTAAAAATATTTTAC
Found at i:3337586 original size:25 final size:25
Alignment explanation
Indices: 3337550--3337607 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
3337540 TACTATTAAC
* **
3337550 TTAATTTAAAAATATTTTTTTTATT
1 TTAATTTAAAAATATATAATTTATT
*
3337575 TTCATTTAAAAATATATAATTTATT
1 TTAATTTAAAAATATATAATTTATT
3337600 TTAATTTA
1 TTAATTTA
3337608 TTAAAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTAATTTAAAAATATATAATTTATT
Found at i:3337904 original size:15 final size:15
Alignment explanation
Indices: 3337884--3337919 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
3337874 ATCATATTCT
3337884 TAAAAAA-ATAATTAA
1 TAAAAAAGATAA-TAA
3337899 TAAAAAAGATAATAA
1 TAAAAAAGATAATAA
3337914 TAAAAA
1 TAAAAA
3337920 TAAATTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAAAAAGATAATAA
Found at i:3342472 original size:25 final size:26
Alignment explanation
Indices: 3342416--3342503 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 26
3342406 AATTCTATAT
3342416 AATATATTTTTATA-TATA-TTAAATTA
1 AATATATTTTTATATTA-ACTT-AATTA
3342442 AA-ATATTTTTATATTAACTT-ATTA
1 AATATATTTTTATATTAACTTAATTA
3342466 AATATA-TTTTACTATTAACTTAATTTA
1 AATATATTTTTA-TATTAACTTAA-TTA
*
3342493 AAAATATTTTT
1 AATATATTTTT
3342504 TTTATTTTCA
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
24 11 0.20
25 24 0.44
26 7 0.13
27 8 0.15
28 4 0.07
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATATTTTTATATTAACTTAATTA
Found at i:3342521 original size:25 final size:25
Alignment explanation
Indices: 3342485--3342542 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
3342475 TACTATTAAC
* **
3342485 TTAATTTAAAAATATTTTTTTTATT
1 TTAATTTAAAAATATATAATTTATT
*
3342510 TTCATTTAAAAATATATAATTTATT
1 TTAATTTAAAAATATATAATTTATT
3342535 TTAATTTA
1 TTAATTTA
3342543 TTAAAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTAATTTAAAAATATATAATTTATT
Found at i:3342839 original size:15 final size:15
Alignment explanation
Indices: 3342819--3342854 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
3342809 ATCATATTCT
3342819 TAAAAAA-ATAATTAA
1 TAAAAAAGATAA-TAA
3342834 TAAAAAAGATAATAA
1 TAAAAAAGATAATAA
3342849 TAAAAA
1 TAAAAA
3342855 TAAATTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAAAAAGATAATAA
Found at i:3347651 original size:45 final size:45
Alignment explanation
Indices: 3347597--3347699 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
3347587 ATTATTCATT
* *
3347597 ATTTCCATTTATGGCATCCTTTCATGCCTTTAAAGTACTGTTATGC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAAAGCACCGTTATGC
* *
3347643 ATTTCATTTATGGCATCCTTTCATGTCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAAAGCACCGTTATGC
*
3347688 ATTTAATTTATG
1 ATTTCATTTATG
3347700 TAATGAAAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
45 48 0.92
46 4 0.08
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAAAGCACCGTTATGC
Found at i:3349273 original size:14 final size:14
Alignment explanation
Indices: 3349254--3349280 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3349244 TCAAGCATTT
3349254 AACAATCCAAAAAA
1 AACAATCCAAAAAA
3349268 AACAATCCAAAAA
1 AACAATCCAAAAA
3349281 CATAAAAAAC
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:0.70, C:0.22, G:0.00, T:0.07
Consensus pattern (14 bp):
AACAATCCAAAAAA
Found at i:3354265 original size:23 final size:22
Alignment explanation
Indices: 3354233--3354309 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
3354223 TGGCCTTGTA
3354233 CATCGATGCACATTCAAGGCGTG
1 CATCGATGCACATTCAAGG-GTG
* * *
3354256 CATCGGTGCACCTTC-ATGGTG
1 CATCGATGCACATTCAAGGGTG
* *
3354277 TATCGATGCACATTCAAGGATG
1 CATCGATGCACATTCAAGGGTG
3354299 CATCGATGCAC
1 CATCGATGCAC
3354310 TATTAGGTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.34
22 16 0.36
23 13 0.30
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGGTG
Found at i:3354284 original size:44 final size:42
Alignment explanation
Indices: 3354234--3354328 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
3354224 GGCCTTGTAC
* *
3354234 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCA-CTATCA-GGTGT
*
3354278 ATCGATGCACATTCAAGGATGCATCGATGCACTATTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTATCAGGTGT
3354320 ATCGATGCA
1 ATCGATGCA
3354329 TGAAGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 16 0.34
43 13 0.28
44 18 0.38
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTATCAGGTGT
Found at i:3354286 original size:21 final size:20
Alignment explanation
Indices: 3354233--3354328 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 20
3354223 TGGCCTTGTA
3354233 CATCGATGCACATTCAAGGCGTG
1 CATCGATGCACATTC-A-G-GTG
* *
3354256 CATCGGTGCACCTTCATGGTG
1 CATCGATGCACATTCA-GGTG
*
3354277 TATCGATGCACATTCAAGGATG
1 CATCGATGCACATTC-AGG-TG
3354299 CATCGATGCACTATT-AGGTG
1 CATCGATGCAC-ATTCAGGTG
*
3354319 TATCGATGCA
1 CATCGATGCA
3354329 TGAAGCACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
20 11 0.18
21 20 0.32
22 15 0.24
23 16 0.26
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (20 bp):
CATCGATGCACATTCAGGTG
Found at i:3360014 original size:18 final size:17
Alignment explanation
Indices: 3359960--3360008 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
3359950 TTGGACCCTT
* *
3359960 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
3359978 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
3359996 AGTGCATTCGATG
1 AGTGCA-TCGATG
3360009 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:3360093 original size:64 final size:65
Alignment explanation
Indices: 3359980--3360124 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 65
3359970 TGCACTAAGA
*
3359980 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGG-CTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGACTG
** ** *
3360044 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT-AGCCA-GAGTGCATCGATGCATGGAC
3360107 TG
64 TG
*
3360109 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
3360125 CTTTGATAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
63 6 0.08
64 47 0.66
65 18 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGACTG
Found at i:3361078 original size:20 final size:20
Alignment explanation
Indices: 3361053--3361101 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3361043 ATTTTTACTA
3361053 ACTTTT-CCAATAAATCTCTT
1 ACTTTTACC-ATAAATCTCTT
*
3361073 ACTTTTACCTTAAATCTCTT
1 ACTTTTACCATAAATCTCTT
*
3361093 ACATTTACC
1 ACTTTTACC
3361102 TCCAATAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTTTTACCATAAATCTCTT
Found at i:3361102 original size:20 final size:20
Alignment explanation
Indices: 3361063--3361102 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3361053 ACTTTTCCAA
*
3361063 TAAATCTCTTACTTTTACCT
1 TAAATCTCTTACATTTACCT
3361083 TAAATCTCTTACATTTACCT
1 TAAATCTCTTACATTTACCT
3361103 CCAATAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAATCTCTTACATTTACCT
Found at i:3361423 original size:19 final size:19
Alignment explanation
Indices: 3361399--3361437 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3361389 CCCTTCCTTA
*
3361399 GGCTTATATATCACTTAAT
1 GGCTTACATATCACTTAAT
3361418 GGCTTACATATCACTTAAT
1 GGCTTACATATCACTTAAT
3361437 G
1 G
3361438 TTACAATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (19 bp):
GGCTTACATATCACTTAAT
Found at i:3367202 original size:45 final size:44
Alignment explanation
Indices: 3367147--3367294 Score: 215
Period size: 45 Copynumber: 3.3 Consensus size: 44
3367137 ATTATTCATT
*
3367147 ATTTCCATTTATGACATCCTTTCATGCCTTTAATGCACCTTTATGC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCA-CTTTATGC
* * *
3367193 ATTTTATTTACGGCATCCTTTCATGCCTTTAATGCATCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-CTTTATGC
*
3367238 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCAATGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACT-TTATGC
3367283 ATTTCATTTATG
1 ATTTCATTTATG
3367295 TAATGAAAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
45 88 0.96
46 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (44 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTTTATGC
Found at i:3372441 original size:24 final size:24
Alignment explanation
Indices: 3372406--3372456 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3372396 TCACTTCAAG
* *
3372406 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACTT
* *
3372430 TTGAAGAATCAATAAACGTGACTT
1 TTGAAGAATCAAGAAACATGACTT
3372454 TTG
1 TTG
3372457 GTGATCCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACTT
Found at i:3375004 original size:95 final size:95
Alignment explanation
Indices: 3374872--3375055 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 95
3374862 TACTTCTATA
* * * *
3374872 CTATGGTACTGATACCCCCTTTCAGTATCAATACCATTTCT-ACATTCTGTAATTCATGGTATCG
1 CTATGGTACCGATACCCCCTTTCAATATCAATACCATTT-TGACATTCTGGAATCCATGGTATCG
3374936 ATACCTTT-CTCTTAGTATCGATACTATTATG
65 ATA-CTTTCCTCTTAGTATCGATACTATTATG
* * * *
3374967 CTATGGTACCGATACTCCCTTTCAATATCGATGCCATTTTGGCATTCTGGAATCCATGGTATCGA
1 CTATGGTACCGATACCCCCTTTCAATATCAATACCATTTTGACATTCTGGAATCCATGGTATCGA
* * *
3375032 TATTTTCCTTTTAGTATTGATACT
66 TACTTTCCTCTTAGTATCGATACT
3375056 CCATCAATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 4 0.05
95 72 0.95
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (95 bp):
CTATGGTACCGATACCCCCTTTCAATATCAATACCATTTTGACATTCTGGAATCCATGGTATCGA
TACTTTCCTCTTAGTATCGATACTATTATG
Found at i:3376080 original size:19 final size:19
Alignment explanation
Indices: 3376044--3376080 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3376034 TGAAAATGAT
**
3376044 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAAAAAAAG
3376063 TTGATTTTGAAAAAAAAA
1 TTGATTTTGAAAAAAAAA
3376081 ACTTTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.16, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAAAAAAAG
Found at i:3378556 original size:20 final size:19
Alignment explanation
Indices: 3378531--3378578 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
3378521 AAACTATCAC
3378531 AAAAATATAAAAATACAAAT
1 AAAAATATAAAAATA-AAAT
* * *
3378551 AAAAATATATAATTATAAT
1 AAAAATATAAAAATAAAAT
3378570 AAAAATATA
1 AAAAATATA
3378579 TTTTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATATAAAAATAAAAT
Found at i:3379442 original size:42 final size:41
Alignment explanation
Indices: 3379357--3379442 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 41
3379347 TTCAATTTAA
* * *
3379357 ATATTTTTTATATCTATATATAATACATATATATTTTTTTC
1 ATATTTTTTATATCTATATATAATACATATATATATATATC
* *
3379398 ATATTTTTTCATATGTGATATAT-ATATATATATATATATATC
1 ATATTTTTT-ATATCT-ATATATAATACATATATATATATATC
3379440 ATA
1 ATA
3379443 CAGAGTTGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 9 0.24
42 23 0.61
43 6 0.16
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (41 bp):
ATATTTTTTATATCTATATATAATACATATATATATATATC
Found at i:3381321 original size:43 final size:43
Alignment explanation
Indices: 3381235--3381327 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
3381225 TAACCGTTAT
* *
3381235 AACGGTTATGATATTTTTTTTAATCATAACCTTACCATTAAAA
1 AACGGTTATGATATTTTTTCTAATCATAACCTAACCATTAAAA
** **
3381278 AACGGTTATGATA-TTTTTCTAATTGTATTCTAACCATTAAAA
1 AACGGTTATGATATTTTTTCTAATCATAACCTAACCATTAAAA
*
3381320 AATGGTTA
1 AACGGTTA
3381328 ACCACTAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 30 0.70
43 13 0.30
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (43 bp):
AACGGTTATGATATTTTTTCTAATCATAACCTAACCATTAAAA
Found at i:3381492 original size:51 final size:50
Alignment explanation
Indices: 3381422--3381657 Score: 242
Period size: 51 Copynumber: 4.6 Consensus size: 50
3381412 TACAAAAATA
3381422 TGTAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAATAAG
1 TGTAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAA-AAG
* * * * *
3381473 TGTAACACATAATAAATACTTACACCGGTATAAGTGAATAAAACAAAAAAG
1 TGTAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAA-TAAAAAG
* * *
3381524 TATAGCACTTAACACATAC-TACACCAGTGTAAGTGAATAAAATAAAAAG
1 TGTAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAG
* * * ** * *
3381573 TGTAGCACTTAGCACATACTTACAACAATATAAGT-ATATAAAATAAAAAAAAA
1 TGTAACACTTAACACATACTTACACCGGTGTAAGTGA-ATAAAAT---AAAAAG
* * *
3381626 TATAGCACTTAACACATACTTACACCGATGTA
1 TGTAACACTTAACACATACTTACACCGGTGTA
3381658 TGTACATCTC
Statistics
Matches: 155, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 24 0.15
50 40 0.26
51 56 0.36
52 3 0.02
53 32 0.21
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (50 bp):
TGTAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAG
Found at i:3381538 original size:102 final size:103
Alignment explanation
Indices: 3381427--3381657 Score: 308
Period size: 102 Copynumber: 2.3 Consensus size: 103
3381417 AAATATGTAA
*
3381427 CACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAATAAGTGTAACACATAATAAATAC
1 CACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAA-AAGTGTAACACATAACAAATAC
* ** * *
3381492 TTACACCGGTATAAGTGA-AT-AAA-ACAAAAAAGTATAG
65 TTACAACAATATAAGT-ATATAAAATAAAAAAAAATATAG
* * * * *
3381529 CACTTAACACATAC-TACACCAGTGTAAGTGAATAAAATAAAAAGTGTAGCACTTAGCACATACT
1 CACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAGTGTAACACATAACAAATACT
3381593 TACAACAATATAAGTATATAAAATAAAAAAAAATATAG
66 TACAACAATATAAGTATATAAAATAAAAAAAAATATAG
*
3381631 CACTTAACACATACTTACACCGATGTA
1 CACTTAACACATACTTACACCGGTGTA
3381658 TGTACATCTC
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
99 1 0.01
100 32 0.29
101 29 0.26
102 40 0.36
103 10 0.09
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (103 bp):
CACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAGTGTAACACATAACAAATACT
TACAACAATATAAGTATATAAAATAAAAAAAAATATAG
Found at i:3382451 original size:26 final size:26
Alignment explanation
Indices: 3382417--3382478 Score: 108
Period size: 25 Copynumber: 2.4 Consensus size: 26
3382407 TATATAAATT
*
3382417 TTTATTTTTTTAAATCATACTTAACG
1 TTTAGTTTTTTAAATCATACTTAACG
3382443 TTTAG-TTTTTAAATCATACTTAACG
1 TTTAGTTTTTTAAATCATACTTAACG
3382468 TTTAGTTTTTT
1 TTTAGTTTTTT
3382479 TTTCATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.56
Consensus pattern (26 bp):
TTTAGTTTTTTAAATCATACTTAACG
Found at i:3382484 original size:25 final size:25
Alignment explanation
Indices: 3382423--3382477 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
3382413 AATTTTTATT
3382423 TTTTTAAATCATACTTAACGTTTAG
1 TTTTTAAATCATACTTAACGTTTAG
3382448 TTTTTAAATCATACTTAACGTTTAG
1 TTTTTAAATCATACTTAACGTTTAG
3382473 TTTTT
1 TTTTT
3382478 TTTTCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (25 bp):
TTTTTAAATCATACTTAACGTTTAG
Found at i:3384854 original size:19 final size:19
Alignment explanation
Indices: 3384827--3384866 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3384817 CACTATACAA
3384827 AATTAATAAATATTAAATT
1 AATTAATAAATATTAAATT
* * *
3384846 AATTTATAATTATTAGATT
1 AATTAATAAATATTAAATT
3384865 AA
1 AA
3384867 AAAAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AATTAATAAATATTAAATT
Found at i:3386580 original size:41 final size:42
Alignment explanation
Indices: 3386535--3386630 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 42
3386525 TCGGAGAAAT
* * *
3386535 TCAATGGACTCACCT-TTCGAGATAAATTTCACTTCAGATTA
1 TCAATGGATTCACCTATCCGAGATAAATTTCACTTCAGAATA
* *
3386576 TCAATGGATTCA-CTATCCGGGATGAATTTCACTTCAGAATA
1 TCAATGGATTCACCTATCCGAGATAAATTTCACTTCAGAATA
*
3386617 TCAGTGGATTCACC
1 TCAATGGATTCACC
3386631 ATTCAATATG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.04
41 44 0.94
42 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
TCAATGGATTCACCTATCCGAGATAAATTTCACTTCAGAATA
Found at i:3386647 original size:41 final size:41
Alignment explanation
Indices: 3386554--3386704 Score: 124
Period size: 41 Copynumber: 3.7 Consensus size: 41
3386544 TCACCTTTCG
* * * * *
3386554 AGATAAATTTCACTTCAGATTATCAATGGATTCACTATCCG
1 AGATGAATTTCACTTCAGAATATCAGTGGATTCACCATCCA
* *
3386595 GGATGAATTTCACTTCAGAATATCAGTGGATTCACCATTCA
1 AGATGAATTTCACTTCAGAATATCAGTGGATTCACCATCCA
* * ** * * *
3386636 ATATGAGTTTCACTTTGGAATATCAGTAGG-TTCACCCTTCG
1 AGATGAATTTCACTTCAGAATATCAGT-GGATTCACCATCCA
* * * *
3386677 GGTTGAATTTCACTTCGGACTATCAGTG
1 AGATGAATTTCACTTCAGAATATCAGTG
3386705 ACTCCTCCCT
Statistics
Matches: 89, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
40 1 0.01
41 86 0.97
42 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
AGATGAATTTCACTTCAGAATATCAGTGGATTCACCATCCA
Found at i:3388372 original size:13 final size:13
Alignment explanation
Indices: 3388350--3388412 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
3388340 TGATGTGCTC
*
3388350 TCTTTCTTCTTTT
1 TCTTTTTTCTTTT
3388363 TCTTTTTTCTTTT
1 TCTTTTTTCTTTT
* *
3388376 TCTCTTCTCTTATT
1 TCTTTTTTCTT-TT
3388390 T-TTCTTTTCTTTT
1 TCTT-TTTTCTTTT
3388403 T-TTGTTTTCT
1 TCTT-TTTTCT
3388413 CTATCGCTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
13 33 0.79
14 9 0.21
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (13 bp):
TCTTTTTTCTTTT
Found at i:3388400 original size:34 final size:35
Alignment explanation
Indices: 3388349--3388451 Score: 106
Period size: 34 Copynumber: 2.9 Consensus size: 35
3388339 TTGATGTGCT
* *
3388349 CTCTTTCTTCTTTTTCTTTTTTCT-TTTTCTCTTCT
1 CTCTTTTTTC-TTTTCTTTTTTCTCTTTTCTCTTCG
*
3388384 CT-TATTTTTCTTTTCTTTTTT-TGTTTTCTCTATCG
1 CTCT-TTTTTCTTTTCTTTTTTCTCTTTTCTCT-TCG
*
3388419 CTCTTTTTTCTTCTC-TTTTTCTTCTTTTCTCTT
1 CTCTTTTTTCTTTTCTTTTTTC-TCTTTTCTCTT
3388452 TATTCCTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
33 1 0.02
34 25 0.43
35 22 0.38
36 10 0.17
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (35 bp):
CTCTTTTTTCTTTTCTTTTTTCTCTTTTCTCTTCG
Found at i:3388427 original size:35 final size:33
Alignment explanation
Indices: 3388349--3388451 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 33
3388339 TTGATGTGCT
* *
3388349 CTCTTTCTTCTTTTTCTTTTTTCTTTTTCTCTTCT
1 CTCTTTTTTC-TTTTCTTTTTT-TTTTTCTCTTCG
3388384 CT-TATTTTTCTTTTCTTTTTTTGTTTTCTCTATCG
1 CTCT-TTTTTCTTTTCTTTTTTT-TTTTCTCT-TCG
*
3388419 CTCTTTTTTCTTCTCTTTTTCTTCTTTTCTCTT
1 CTCTTTTTTCTTTTCTTTTT-TT-TTTTCTCTT
3388452 TATTCCTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
33 1 0.02
34 20 0.34
35 27 0.46
36 11 0.19
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (33 bp):
CTCTTTTTTCTTTTCTTTTTTTTTTTCTCTTCG
Found at i:3388462 original size:35 final size:35
Alignment explanation
Indices: 3388365--3388465 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 35
3388355 CTTCTTTTTC
* ** *
3388365 TTTTTTCTTTTTCTCT-TCTCTTATTTTTCTTTTCT
1 TTTTTTC-TTTTCTCTATCACTCCTTTTTCTTCTCT
* * *
3388400 TTTTTTGTTTTCTCTATCGCTCTTTTTTCTTCTCT
1 TTTTTTCTTTTCTCTATCACTCCTTTTTCTTCTCT
* *
3388435 TTTTCTTCTTTTCTCT-TTATTCCTTTTTCTT
1 TTTT-TTCTTTTCTCTATCACTCCTTTTTCTT
3388466 GAATATGAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
34 8 0.15
35 36 0.67
36 10 0.19
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.73
Consensus pattern (35 bp):
TTTTTTCTTTTCTCTATCACTCCTTTTTCTTCTCT
Found at i:3394441 original size:14 final size:15
Alignment explanation
Indices: 3394408--3394443 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3394398 CATATCATTT
*
3394408 AAAATAATTTTAAGA
1 AAAATAATTTCAAGA
3394423 AAAATAATTTCAA-A
1 AAAATAATTTCAAGA
3394437 AAAATAA
1 AAAATAA
3394444 AAAGTGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATAATTTCAAGA
Found at i:3395802 original size:22 final size:22
Alignment explanation
Indices: 3395752--3395845 Score: 124
Period size: 22 Copynumber: 4.5 Consensus size: 22
3395742 CAGTATTTGC
3395752 CCCGAAGGACCACT--AT--GT
1 CCCGAAGGACCACTGGATACGT
*
3395770 CCCGAAAGACCACTGGATACGT
1 CCCGAAGGACCACTGGATACGT
* *
3395792 CCTGAAGGACCACTGGATATGT
1 CCCGAAGGACCACTGGATACGT
*
3395814 CCCGAAGGATCACTGGATACGT
1 CCCGAAGGACCACTGGATACGT
3395836 CCCGAAGGAC
1 CCCGAAGGAC
3395846 TAATATACCC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 13 0.20
20 2 0.03
22 49 0.77
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.16
Consensus pattern (22 bp):
CCCGAAGGACCACTGGATACGT
Found at i:3396504 original size:64 final size:64
Alignment explanation
Indices: 3396394--3396557 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
3396384 ATCCCTTGAC
* *
3396394 AGGTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTT-TGTATTTTAAGT
1 AGGTGCATCGATGCACT-CCCATGCATCGATGCATAAATCCTATTCGATGTTATGTATTTTAAAT
** * *
3396458 AGGTGCATCGATGCACTCTTTATGCATCGATGCACT-AATGGC-ATTCGATGTTCATTTATTTTA
1 AGGTGCATCGATGCACTC-CCATGCATCGATGCA-TAAAT-CCTATTCGATGTT-ATGTATTTTA
3396521 AAT
62 AAT
*
3396524 -GAGTGCATCGATACACT-CCATGTACATCGATGCA
1 AG-GTGCATCGATGCACTCCCATG--CATCGATGCA
3396558 GCTTCAACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
63 1 0.01
64 45 0.54
65 3 0.04
66 34 0.41
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (64 bp):
AGGTGCATCGATGCACTCCCATGCATCGATGCATAAATCCTATTCGATGTTATGTATTTTAAAT
Found at i:3402747 original size:22 final size:22
Alignment explanation
Indices: 3402699--3402816 Score: 145
Period size: 22 Copynumber: 5.5 Consensus size: 22
3402689 TTCAGTATTT
*
3402699 GTCCCGAATGACCACT--ATA-
1 GTCCCGAAGGACCACTGGATAC
*
3402718 -TCCCGAAGGACCACTGGATAT
1 GTCCCGAAGGACCACTGGATAC
* *
3402739 GTCCTGAAGAACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
3402761 GTCCCGAAGGACCACTGGATAT
1 GTCCCGAAGGACCACTGGATAC
*
3402783 GTCCCGAAGGACCATTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
3402805 GTCCTGAAGGAC
1 GTCCCGAAGGAC
3402817 TAATATACCC
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
18 14 0.16
20 3 0.04
22 68 0.80
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.19
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:3402772 original size:44 final size:44
Alignment explanation
Indices: 3402718--3402816 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
3402708 GACCACTATA
*
3402718 TCCCGAAGGACCACTGGATATGTCCTGAAGAACCACTGGATACG
1 TCCCGAAGGACCACTGGATATGTCCCGAAGAACCACTGGATACG
* *
3402762 TCCCGAAGGACCACTGGATATGTCCCGAAGGACCATTGGATACG
1 TCCCGAAGGACCACTGGATATGTCCCGAAGAACCACTGGATACG
*
3402806 TCCTGAAGGAC
1 TCCCGAAGGAC
3402817 TAATATACCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.18
Consensus pattern (44 bp):
TCCCGAAGGACCACTGGATATGTCCCGAAGAACCACTGGATACG
Found at i:3407158 original size:3 final size:3
Alignment explanation
Indices: 3407150--3407244 Score: 82
Period size: 3 Copynumber: 30.0 Consensus size: 3
3407140 CAAAAACTTG
* * *
3407150 TAA TAA TAA TAAA TAAA TAA TAA CAT TAT TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * *
3407198 CAT TAT TAAA TAA TAA TAA TAA TAA TAA TAAA TAG TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
3407245 CCAGGAAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
3 64 0.82
4 14 0.18
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3407184 original size:16 final size:16
Alignment explanation
Indices: 3407163--3407213 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
3407153 TAATAATAAA
3407163 TAAATAATAACATTAT
1 TAAATAATAACATTAT
3407179 TAAATAAT---A--A-
1 TAAATAATAACATTAT
3407189 T-AATAATAACATTAT
1 TAAATAATAACATTAT
3407204 TAAATAATAA
1 TAAATAATAA
3407214 TAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
9 6 0.21
10 1 0.04
11 1 0.04
12 1 0.04
13 1 0.04
14 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATAATAACATTAT
Found at i:3407197 original size:25 final size:25
Alignment explanation
Indices: 3407154--3407245 Score: 127
Period size: 25 Copynumber: 3.7 Consensus size: 25
3407144 AACTTGTAAT
3407154 AATAATAAATAAATAATAACATTATTA
1 AATAAT-AAT-AATAATAACATTATTA
3407181 AATAATAATAATAATAACATTATTA
1 AATAATAATAATAATAACATTATTA
*
3407206 AATAATAATAATAAT-A-A-TAATA
1 AATAATAATAATAATAACATTATTA
*
3407228 AATAGTAATAATAATAAC
1 AATAATAATAATAATAAC
3407246 CAGGAAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
22 18 0.30
23 2 0.03
24 1 0.02
25 31 0.51
26 3 0.05
27 6 0.10
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (25 bp):
AATAATAATAATAATAACATTATTA
Found at i:3407242 original size:22 final size:22
Alignment explanation
Indices: 3407150--3407244 Score: 104
Period size: 22 Copynumber: 4.3 Consensus size: 22
3407140 CAAAAACTTG
3407150 TAATAATAATAAAT-A-AATAA
1 TAATAATAATAAATAATAATAA
* * *
3407170 TAACATTATTAAATAATAATAA
1 TAATAATAATAAATAATAATAA
*
3407192 TAATAACATTATTAAATAATAATAA
1 TAAT-A-A-TAATAAATAATAATAA
*
3407217 TAATAATAATAAATAGTAATAA
1 TAATAATAATAAATAATAATAA
3407239 TAATAA
1 TAATAA
3407245 CCAGGAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 11 0.17
21 1 0.02
22 28 0.44
23 2 0.03
24 1 0.02
25 20 0.32
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (22 bp):
TAATAATAATAAATAATAATAA
Found at i:3411824 original size:20 final size:20
Alignment explanation
Indices: 3411799--3411836 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3411789 CTATTCCCTA
3411799 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTG
3411819 GTAATCTTACATTCCCAC
1 GTAATCTTACATTCCCAC
3411837 AACTAAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (20 bp):
GTAATCTTACATTCCCACTG
Found at i:3423120 original size:4 final size:4
Alignment explanation
Indices: 3423111--3423150 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
3423101 ATAATGAGAT
3423111 AATA AATA AATA AATA AATA AATA AATA AATAA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AAT
3423151 TGAGATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:3423853 original size:65 final size:65
Alignment explanation
Indices: 3423726--3423853 Score: 181
Period size: 65 Copynumber: 2.0 Consensus size: 65
3423716 TAAAACATCT
*
3423726 TAAATCCTAATTAAAACACATAAAACTATTTAAACAAAAATACCTTAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACACATAAAACTATTTAAACAAAAATACCTTAAAAAATAATAAAATATTC
* *
3423791 TAAATCCTAATTAAAATAC-TAAAACGTATTTAAACTAAAATACC-TAAAACAA-AGATAAAATA
1 TAAATCCTAATTAAAACACATAAAAC-TATTTAAACAAAAATACCTTAAAA-AATA-ATAAAATA
3423853 T
63 T
3423854 AAAAATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
64 12 0.21
65 45 0.79
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (65 bp):
TAAATCCTAATTAAAACACATAAAACTATTTAAACAAAAATACCTTAAAAAATAATAAAATATTC
Found at i:3424730 original size:3 final size:3
Alignment explanation
Indices: 3424724--3424760 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3424714 GAACAAAGGG
3424724 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
3424761 TTTTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:3428647 original size:4 final size:4
Alignment explanation
Indices: 3428638--3428685 Score: 87
Period size: 4 Copynumber: 11.8 Consensus size: 4
3428628 ATAATGAGAT
3428638 AATA AATA AATA AATA AATA AATAA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AAT
3428686 TGAGATAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 39 0.91
5 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:3428666 original size:25 final size:25
Alignment explanation
Indices: 3428638--3428685 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3428628 ATAATGAGAT
3428638 AATAAATAAATAAATAAATAAATAA
1 AATAAATAAATAAATAAATAAATAA
3428663 AATAAATAAATAAATAAATAAAT
1 AATAAATAAATAAATAAATAAAT
3428686 TGAGATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (25 bp):
AATAAATAAATAAATAAATAAATAA
Found at i:3428667 original size:21 final size:21
Alignment explanation
Indices: 3428641--3428684 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3428631 ATGAGATAAT
3428641 AAATAAATAAATAAATAAATA
1 AAATAAATAAATAAATAAATA
3428662 AAATAAATAAATAAATAAATA
1 AAATAAATAAATAAATAAATA
3428683 AA
1 AA
3428685 TTGAGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAATAAATAAATAAATA
Found at i:3429332 original size:65 final size:70
Alignment explanation
Indices: 3429263--3429479 Score: 243
Period size: 65 Copynumber: 3.1 Consensus size: 70
3429253 TAAAACATCT
*
3429263 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAAAA-ATAATAT-AAT-
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAAAAGATAATATAAATA
3429324 AT-T-C
65 ATATCC
3429328 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAGCAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAA--AAAGAT--AATAT--
3429393 AAATAATATCC
60 AAATAATATCC
* * *
3429404 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAAAATATAATATTTAAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAAGATAATA--T-AAA
*
3429467 TATTATCC
63 TAATATCC
3429475 TAAAT
1 TAAAT
3429480 TTGAGTTTAA
Statistics
Matches: 132, Mismatches: 6, Indels: 22
0.82 0.04 0.14
Matches are distributed among these distances:
64 5 0.04
65 41 0.31
67 3 0.02
68 2 0.02
70 9 0.07
71 15 0.11
72 6 0.05
73 3 0.02
74 5 0.04
75 2 0.02
76 41 0.31
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (70 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAAGATAATATAAATAA
TATCC
Found at i:3429491 original size:76 final size:75
Alignment explanation
Indices: 3429319--3429478 Score: 220
Period size: 76 Copynumber: 2.2 Consensus size: 75
3429309 AAAAAATAAT
* * *
3429319 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAGCAAAGAT
1 ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAA-CAAAGAT
3429384 AAAATATAAAA
65 AAAATATAAAA
*
3429395 ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAA-AAATATA
1 ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAACAAAGATA
* *
3429457 ATAT-TTAAA
66 AAATATAAAA
*
3429466 ATATTATCCTAAA
1 ATAATATCCTAAA
3429479 TTTGAGTTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
71 16 0.21
72 9 0.12
74 3 0.04
75 1 0.01
76 48 0.62
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.30
Consensus pattern (75 bp):
ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAACAAAGATA
AAATATAAAA
Found at i:3429604 original size:10 final size:10
Alignment explanation
Indices: 3429589--3429616 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3429579 TCCTATACAG
3429589 AAAATGAATT
1 AAAATGAATT
3429599 AAAATGAATT
1 AAAATGAATT
3429609 AAAATGAA
1 AAAATGAA
3429617 CTAATAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (10 bp):
AAAATGAATT
Found at i:3442904 original size:13 final size:13
Alignment explanation
Indices: 3442886--3442955 Score: 81
Period size: 13 Copynumber: 5.5 Consensus size: 13
3442876 AAGAGAAAAG
3442886 AAAAAAGAAGAAA
1 AAAAAAGAAGAAA
3442899 AAAAAAGAAGAAA
1 AAAAAAGAAGAAA
* *
3442912 AAAATAGAA-AAT
1 AAAAAAGAAGAAA
*
3442924 GAAAAAGAA-AAA
1 AAAAAAGAAGAAA
*
3442936 AAAAGAGAAGAAA
1 AAAAAAGAAGAAA
*
3442949 AAGAAAG
1 AAAAAAG
3442956 GGGGTCAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
12 18 0.38
13 29 0.62
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAGAAA
Found at i:3444294 original size:83 final size:83
Alignment explanation
Indices: 3443987--3444293 Score: 512
Period size: 83 Copynumber: 3.7 Consensus size: 83
3443977 CATTAAATGA
3443987 AAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATTTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
3444051 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
3444070 AAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
3444135 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* * *
3444153 AAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGTAG
1 AAGATGAATTTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAG
**
3444217 AACCAATCATTGAATTGGG
65 AACCAATCATTGAATTTAG
3444236 AAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AAGATGAATTTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
3444294 TGGTAAGAAC
Statistics
Matches: 215, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
82 2 0.01
83 212 0.99
84 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTAG
Found at i:3445234 original size:114 final size:112
Alignment explanation
Indices: 3445029--3445672 Score: 842
Period size: 114 Copynumber: 5.6 Consensus size: 112
3445019 ATTCAAATCT
* *
3445029 ATCATTTGATGGATTATCTTTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
3445094 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
3445142 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATTTGAAGAAGGA
1 ATC-ATTTGATGGATCATCTTTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
3445207 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCCGAATCC
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
*
3445256 ATCATTTGATGGATCAGTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
1 ATCATTTGATGGATCA-TCTTTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
3445321 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTC
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
3445370 ATCAAGTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATC-ATTTGATGGATCATCTTTTCCAGG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * *
3445435 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
61 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
3445487 ATCATTTGATGGATCAAC-ATTGCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTTGATGGATCATCTTTTCCAGG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
* * * *
3445551 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
62 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* ** * *
3445602 ATCATTTGATGGATCATCATCCCCAGCAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAAG-
1 ATCATTTGATGGATCATCTTTTCCAG--GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
3445666 AGAAGAA
64 AGAAGAA
3445673 TTTATTCAAT
Statistics
Matches: 481, Mismatches: 39, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
113 22 0.05
114 239 0.50
115 124 0.26
116 16 0.03
117 79 0.16
118 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (112 bp):
ATCATTTGATGGATCATCTTTTCCAGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
Found at i:3445815 original size:3 final size:3
Alignment explanation
Indices: 3445807--3445890 Score: 150
Period size: 3 Copynumber: 27.7 Consensus size: 3
3445797 TTTTTATCCA
3445807 TAT TAT TAT TAT TAGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
3445853 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3445891 AATATATATT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
3 75 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3447327 original size:20 final size:21
Alignment explanation
Indices: 3447286--3447330 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
3447276 TGTTTTAGTG
**
3447286 ATATTTTTATTATATTGTTAA
1 ATATTTTTATTATATTCATAA
3447307 ATATTTTTA-TATATTCATAA
1 ATATTTTTATTATATTCATAA
3447327 ATAT
1 ATAT
3447331 ACATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTTTTATTATATTCATAA
Found at i:3451761 original size:18 final size:17
Alignment explanation
Indices: 3451734--3451791 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
3451724 AAATTCCAGG
3451734 TAAAATTAAAAAGGTATAA
1 TAAAA-TAAAAA-GTATAA
*
3451753 TAAAATAAATAATTATAA
1 TAAAATAAA-AAGTATAA
3451771 -AAAAT-AAAA--ATAA
1 TAAAATAAAAAGTATAA
3451784 TAAAATAA
1 TAAAATAA
3451792 TAAATATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.11
14 5 0.14
15 3 0.09
16 2 0.06
17 5 0.14
18 9 0.26
19 7 0.20
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAAATAAAAAGTATAA
Found at i:3451775 original size:13 final size:14
Alignment explanation
Indices: 3451749--3451794 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
3451739 TTAAAAAGGT
3451749 ATAATAA-AAT-AA
1 ATAATAATAATAAA
*
3451761 ATAATTATAA-AAA
1 ATAATAATAATAAA
*
3451774 ATAAAAATAATAAA
1 ATAATAATAATAAA
3451788 ATAATAA
1 ATAATAA
3451795 ATATTAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 12 0.44
14 9 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:3451788 original size:8 final size:8
Alignment explanation
Indices: 3451749--3451795 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
3451739 TTAAAAAGGT
3451749 ATAATAAA
1 ATAATAAA
*
3451757 ATAA-ATA
1 ATAATAAA
*
3451764 ATTATAAA
1 ATAATAAA
3451772 A-AATAAAA
1 ATAAT-AAA
3451780 ATAATAAA
1 ATAATAAA
3451788 ATAATAAA
1 ATAATAAA
3451796 TATTAATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.22
8 22 0.69
9 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
ATAATAAA
Found at i:3451863 original size:18 final size:18
Alignment explanation
Indices: 3451842--3451884 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3451832 GTTGTTTTTA
*
3451842 AAATAAAAGATAA-CAATT
1 AAATAAAAGA-AATCAAAT
3451860 AAATAAAAGAAATCAAAT
1 AAATAAAAGAAATCAAAT
3451878 AAATAAA
1 AAATAAA
3451885 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AAATAAAAGAAATCAAAT
Found at i:3454415 original size:33 final size:28
Alignment explanation
Indices: 3454337--3454408 Score: 144
Period size: 28 Copynumber: 2.6 Consensus size: 28
3454327 CTGCTGTGTA
3454337 TTTTTCTGCACTGTTCGAGCCAAGTCAT
1 TTTTTCTGCACTGTTCGAGCCAAGTCAT
3454365 TTTTTCTGCACTGTTCGAGCCAAGTCAT
1 TTTTTCTGCACTGTTCGAGCCAAGTCAT
3454393 TTTTTCTGCACTGTTC
1 TTTTTCTGCACTGTTC
3454409 TGTTCGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (28 bp):
TTTTTCTGCACTGTTCGAGCCAAGTCAT
Found at i:3459810 original size:18 final size:17
Alignment explanation
Indices: 3459784--3459839 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
3459774 AATTCCAGGT
*
3459784 AAAATTAAAAAGGTATAA
1 AAAAATAAAAA-GTATAA
*
3459802 AAAAATAAATAATTATAA
1 AAAAATAAA-AAGTATAA
*
3459820 AAAAATAAAAA-AATAA
1 AAAAATAAAAAGTATAA
3459836 AAAA
1 AAAA
3459840 TATTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
18 22 0.65
19 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAAGTATAA
Found at i:3459827 original size:8 final size:8
Alignment explanation
Indices: 3459798--3459839 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
3459788 TTAAAAAGGT
3459798 ATAAAAAA
1 ATAAAAAA
*
3459806 ATAAATAATT
1 ATAAA-AA-A
3459816 ATAAAAAA
1 ATAAAAAA
3459824 ATAAAAAA
1 ATAAAAAA
3459832 ATAAAAAA
1 ATAAAAAA
3459840 TATTAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 21 0.70
9 4 0.13
10 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
ATAAAAAA
Found at i:3459908 original size:18 final size:18
Alignment explanation
Indices: 3459887--3459929 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3459877 ATTGTTTTTA
* *
3459887 AAATAAAAGATAACAATT
1 AAATAAAAGAAAACAAAT
3459905 AAATAAAAGAAAACAAAT
1 AAATAAAAGAAAACAAAT
3459923 AAATAAA
1 AAATAAA
3459930 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAATAAAAGAAAACAAAT
Found at i:3460524 original size:72 final size:75
Alignment explanation
Indices: 3460437--3460607 Score: 224
Period size: 76 Copynumber: 2.3 Consensus size: 75
3460427 AAATCCTAAT
* * * * *
3460437 TAAAACTATTTAAACTAAAATACCT-AAA-ATA-ATAATAT-TTAAAATAATATTCTAAATCCTA
1 TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACCTA
3460498 ATTAAAACAC
66 ATTAAAACAC
*
3460508 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTT
1 TAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACCT
*
3460573 AATTAAAATAC
65 AATTAAAACAC
3460584 TCAAAATCTATTTAAACTAAAATA
1 T-AAAA-CTATTTAAACTAAAATA
3460608 AAAAGAAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
71 5 0.06
72 20 0.23
73 3 0.03
74 2 0.02
75 6 0.07
76 29 0.34
77 21 0.24
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACCTA
ATTAAAACAC
Found at i:3460631 original size:76 final size:75
Alignment explanation
Indices: 3460437--3460643 Score: 221
Period size: 76 Copynumber: 2.8 Consensus size: 75
3460427 AAATCCTAAT
* * *
3460437 TAAAA-CTATTTAAACTAAAATAC----CTAAAATAATAATATTTAAAATAATATTCTAAATCCT
1 TAAAACCTATTTAAACTAAAATACAAAACAAAAAT-ATAATATTTAAAATAATATCCTAAAACCT
3460497 AATTAAAACAC
65 AATTAAAACAC
* * * *
3460508 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATA-TAAAAATAATATCCTAAAACT
1 TAAAACCTATTTAAACTAAAATA-C-AAAACAAAAATATAATATTTAAAATAATATCCTAAAACC
*
3460572 TAATTAAAATAC
64 TAATTAAAACAC
* * * *
3460584 TCAAAATCTATTTAAACTAAAATA-AAAAGAAAAATATAATGTTTAAAATATTATCCTAAA
1 T-AAAACCTATTTAAACTAAAATACAAAACAAAAATATAATATTTAAAATAATATCCTAAA
3460644 CTTGAGTTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
71 5 0.04
72 17 0.15
73 1 0.01
74 13 0.12
75 16 0.14
76 29 0.26
77 26 0.23
78 5 0.04
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAAACCTATTTAAACTAAAATACAAAACAAAAATATAATATTTAAAATAATATCCTAAAACCTA
ATTAAAACAC
Found at i:3461054 original size:3 final size:3
Alignment explanation
Indices: 3461046--3461108 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
3461036 AAATAATTTT
3461046 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3461094 TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA
3461109 AGACCCAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:3461562 original size:137 final size:137
Alignment explanation
Indices: 3461308--3461652 Score: 392
Period size: 137 Copynumber: 2.5 Consensus size: 137
3461298 AGATAGCAAG
* * *
3461308 ATTCCTACGTGATGAGGAAGTCTAGCTATCTAAGGGTGACA-TAGCTCCTACGTGATGAGGAGAT
1 ATTCCTACGTGATGAGGAAGTCTAGTTATCTAAGGGTAACACGA-CTCCTACGTGATGAGGAGAT
* * * * * * * *
3461372 ATGGTCAGTCGATGAATTGGTTCCTACGTGATGAGGATGATTATGCATCTTTAGGGATAATGTTG
65 CTGGTCAGTAGATGAATGGGTTCATACGTGATAAGGATGACTAGGCATATTTAGGGATAATGTTG
3461437 ATAACACA
130 ATAACACA
* * * * *
3461445 ATTCCTACGTGATGAGGATGAT-TGGTTATCTAGGGGTAACACGACTCCTATGTGATGATGAGAT
1 ATTCCTACGTGATGAGGAAG-TCTAGTTATCTAAGGGTAACACGACTCCTACGTGATGAGGAGAT
*
3461509 CTGGTCAGTAGATGACA-GGGTTCATATGTGATAAGGATGACT-GGCCATATTTAGGGATAATGT
65 CTGGTCAGTAGATGA-ATGGGTTCATACGTGATAAGGATGACTAGG-CATATTTAGGGATAATGT
* *
3461572 TTATAACACG
128 TGATAACACA
* * * * * * *
3461582 ATTCTTATGTGATGAGGACGTCTAGTTATCTAAGGTTTACGCGGCTCCTACGTGATGAGGAGATC
1 ATTCCTACGTGATGAGGAAGTCTAGTTATCTAAGGGTAACACGACTCCTACGTGATGAGGAGATC
3461647 TGGTCA
66 TGGTCA
3461653 TAGTTGATGA
Statistics
Matches: 173, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
136 2 0.01
137 168 0.97
138 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (137 bp):
ATTCCTACGTGATGAGGAAGTCTAGTTATCTAAGGGTAACACGACTCCTACGTGATGAGGAGATC
TGGTCAGTAGATGAATGGGTTCATACGTGATAAGGATGACTAGGCATATTTAGGGATAATGTTGA
TAACACA
Found at i:3462659 original size:22 final size:22
Alignment explanation
Indices: 3462634--3462780 Score: 98
Period size: 22 Copynumber: 6.8 Consensus size: 22
3462624 TATTTATTTA
*
3462634 TTTTTCTCTCTTTTTCCTTCTT
1 TTTTTCTCTCTTTTTTCTTCTT
3462656 TTTTTCTCT-TTCTATTT-TTCTT
1 TTTTTCTCTCTT-T-TTTCTTCTT
3462678 ATTTTT-T-TCTTTTTTCTT-TT
1 -TTTTTCTCTCTTTTTTCTTCTT
* *
3462698 TTCTTTTTTTCTTTTTTCTT-TT
1 TT-TTTCTCTCTTTTTTCTTCTT
*
3462720 TTCTTTCTTTC-TTTTT-TTCTT
1 TT-TTTCTCTCTTTTTTCTTCTT
* *
3462741 TCTTTCTCTTTTCTTTTC-TCTT
1 TTTTTCTCTCTT-TTTTCTTCTT
*
3462763 ATTTTTCTCT-TATTTTCT
1 -TTTTTCTCTCTTTTTTCT
3462781 ACTTCAAGTG
Statistics
Matches: 104, Mismatches: 7, Indels: 28
0.75 0.05 0.20
Matches are distributed among these distances:
19 2 0.02
20 16 0.15
21 21 0.20
22 50 0.48
23 15 0.14
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTCTCTCTTTTTTCTTCTT
Found at i:3462680 original size:45 final size:43
Alignment explanation
Indices: 3462631--3462780 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 43
3462621 CTTTATTTAT
3462631 TTATTTTTCTCTCTTTTTCCTTCTTTTTTTCTCTTTCTATTTTTC
1 TTATTTTTCTCTCTTTTT-CTTCTTTTTTTCTCTTTCT-TTTTTC
*
3462676 TTATTTTTTTCT-TTTTTCTT-TTTTCTTT-T-TTTCTTTTTTC
1 TTATTTTTCTCTCTTTTTCTTCTTTT-TTTCTCTTTCTTTTTTC
* * * *
3462716 TTTTTTCTTTCTTTCTTTTT-TTCTTTCTTTCTCTTTTCTTTTCTC
1 -TTATT-TTTCTCTCTTTTTCTTCTTTTTTTCTC-TTTCTTTTTTC
3462761 TTATTTTTCTCT-TATTTTCT
1 TTATTTTTCTCTCT-TTTTCT
3462781 ACTTCAAGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
40 6 0.07
41 9 0.10
42 16 0.18
43 25 0.29
44 10 0.11
45 21 0.24
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (43 bp):
TTATTTTTCTCTCTTTTTCTTCTTTTTTTCTCTTTCTTTTTTC
Found at i:3462692 original size:7 final size:7
Alignment explanation
Indices: 3462680--3462767 Score: 113
Period size: 7 Copynumber: 11.9 Consensus size: 7
3462670 TTTTTCTTAT
3462680 TTTTTTC
1 TTTTTTC
3462687 TTTTTTC
1 TTTTTTC
3462694 TTTTTTC
1 TTTTTTC
3462701 TTTTTTTC
1 -TTTTTTC
3462709 TTTTTTC
1 TTTTTTC
3462716 TTTTTTC
1 TTTTTTC
3462723 TTTCTTTC
1 TTT-TTTC
3462731 TTTTTTTC
1 -TTTTTTC
3462739 TTTCTTTC
1 TTT-TTTC
*
3462747 TCTTTTC
1 TTTTTTC
*
3462754 TTTTCTC
1 TTTTTTC
3462761 TTATTTT
1 TT-TTTT
3462768 TCTCTTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
7 45 0.62
8 24 0.33
9 3 0.04
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:3462768 original size:16 final size:15
Alignment explanation
Indices: 3462651--3462770 Score: 120
Period size: 15 Copynumber: 7.8 Consensus size: 15
3462641 CTCTTTTTCC
*
3462651 TTCTTTTTTTC-TCT
1 TTCTTTTTTTCTTTT
*
3462665 TTCTATTTTTCTTATTT
1 TTCTTTTTTTC-T-TTT
*
3462682 TTTTCTTTTTTCTTTT
1 TTCT-TTTTTTCTTTT
3462698 TTCTTTTTTTCTTTT
1 TTCTTTTTTTCTTTT
3462713 TTC-TTTTTTCTTTCT
1 TTCTTTTTTTCTTT-T
3462728 TTCTTTTTTTCTTTCT
1 TTCTTTTTTTCTTT-T
*
3462744 TTC-TCTTTTCTTTT
1 TTCTTTTTTTCTTTT
*
3462758 CTCTTATTTTTCT
1 TTCTT-TTTTTCT
3462771 CTTATTTTCT
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
14 23 0.26
15 28 0.31
16 27 0.30
17 6 0.07
18 6 0.07
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTTTTTTCTTTT
Found at i:3462780 original size:10 final size:11
Alignment explanation
Indices: 3462631--3462778 Score: 62
Period size: 11 Copynumber: 13.6 Consensus size: 11
3462621 CTTTATTTAT
3462631 TTATTTTTCTC
1 TTATTTTTCTC
*
3462642 TCT-TTTTCCTTC
1 T-TATTTTTC-TC
3462654 TT-TTTTTCTC
1 TTATTTTTCTC
*
3462664 TT-TCTATTTTTC
1 TTAT-T-TTTCTC
*
3462676 TTATTTTTTTC
1 TTATTTTTCTC
* *
3462687 TT-TTTTCTTTT
1 TTATTTT-TCTC
* *
3462698 TTCTTTTTTTC
1 TTATTTTTCTC
3462709 -T-TTTTTCT-
1 TTATTTTTCTC
*
3462717 TTTTTCTTTCT-
1 TTATT-TTTCTC
* *
3462728 TTCTTTTTTTC
1 TTATTTTTCTC
*
3462739 TT-TCTTTCTC
1 TTATTTTTCTC
*
3462749 TTTTCTTTTCTC
1 TTAT-TTTTCTC
3462761 TTATTTTTCTC
1 TTATTTTTCTC
3462772 TTATTTT
1 TTATTTT
3462779 CTACTTCAAG
Statistics
Matches: 112, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.06
10 24 0.21
11 55 0.49
12 25 0.22
13 1 0.01
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (11 bp):
TTATTTTTCTC
Done.