Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 188 of 356
Found at i:61184018 original size:16 final size:19
Alignment explanation
Indices: 61183997--61184033 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61183987 GTTCGATTAC
61183997 TTAATT-TA-TTC-ACTAT
1 TTAATTATATTTCTACTAT
61184013 TTAATTATATTTCTACTAT
1 TTAATTATATTTCTACTAT
61184032 TT
1 TT
61184034 TTAGTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 3 0.17
19 7 0.39
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATTATATTTCTACTAT
Found at i:61184839 original size:40 final size:41
Alignment explanation
Indices: 61184811--61184955 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 41
61184801 GCCACCCCCT
*
61184811 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTCA-CTCGCA
* * * *
61184851 CAAATGCCTTCGGGACTTAGCCC-AAAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTCACTCGCA
*
61184891 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTCACTCGCA
*
61184931 CAAATGCCTTCGGGACCTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
61184956 TTATCATCCG
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTCACTCGCA
Found at i:61188731 original size:39 final size:39
Alignment explanation
Indices: 61188686--61188772 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
61188676 CGGGGTTTAG
* *
61188686 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGG-CTTAAC
*** * *
61188725 CCGGATATGGTCACTAGCATAAATGCCTTCGGGCTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGCTTAAC
61188764 CCGGATATA
1 CCGGATATA
61188773 GTCGCTAGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGCTTAAC
Found at i:61188756 original size:40 final size:40
Alignment explanation
Indices: 61188709--61188852 Score: 182
Period size: 39 Copynumber: 3.6 Consensus size: 40
61188699 CTCGCACAAG
* * * *
61188709 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
61188749 GCCTTCGGG-CTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * * *
61188788 GCCTTCAGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
61188829 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
61188853 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.38
40 27 0.31
41 28 0.32
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:61194252 original size:46 final size:45
Alignment explanation
Indices: 61194193--61194359 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 45
61194183 GCCCATAAGC
* *
61194193 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATA-GT
* * *
61194239 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC-T--C
1 GAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATC-CATAGT
*
61194286 GAACTCGGACTCAACTCAACGAGTTTGGGCATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCAT-AGT
61194332 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
61194360 ATGCTCAACA
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 1 0.01
46 54 0.53
47 27 0.26
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAGT
Found at i:61194305 original size:93 final size:93
Alignment explanation
Indices: 61194192--61194363 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
61194182 CGCCCATAAG
* *
61194192 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
61194257 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
61194285 CGAACTCGGACTCAACTCAACGAGTTTGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
61194350 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
61194364 TCAACAATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:61210066 original size:17 final size:18
Alignment explanation
Indices: 61210034--61210067 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61210024 TGAAATATAG
*
61210034 ATGTGTCATGATTATTGT
1 ATGTGTCATGAATATTGT
61210052 ATGTG-CATGAATATTG
1 ATGTGTCATGAATATTG
61210068 GATGATAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (18 bp):
ATGTGTCATGAATATTGT
Found at i:61210130 original size:38 final size:37
Alignment explanation
Indices: 61210079--61210237 Score: 165
Period size: 38 Copynumber: 4.4 Consensus size: 37
61210069 ATGATAACCG
* * *
61210079 GGCTAAGTCCGAAGGCATTTGCGCTAGTGACTAGTTCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-TTCC
61210117 GGCTAAGTCCGAAGGCATTTGTG-GAGTTACTA-TCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATTCC
61210152 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT-C
1 -GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATTCC
61210190 GGCT-AGTCCGAA---ATTTGTGC--GTTACTATATCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAT-TCC
*
61210222 GGGCTATGTCCCGAAG
1 -GGCTAAGT-CCGAAG
61210238 TATCGAGCGA
Statistics
Matches: 107, Mismatches: 4, Indels: 22
0.80 0.03 0.17
Matches are distributed among these distances:
30 8 0.07
31 1 0.01
32 9 0.08
33 4 0.04
34 2 0.02
35 13 0.12
36 11 0.10
37 26 0.24
38 32 0.30
39 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (37 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATTCC
Found at i:61218520 original size:40 final size:40
Alignment explanation
Indices: 61218317--61218495 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
61218307 TGGATGATAA
* * * *
61218317 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
61218357 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
61218397 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
61218437 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
*
61218477 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61218496 TATTCGAGCG
Statistics
Matches: 131, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 130 0.99
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:61220126 original size:27 final size:27
Alignment explanation
Indices: 61220040--61220111 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
61220030 GGAAGTTTTG
* * *
61220040 TACTGGTGACTATGTCACA-TTCACTGC
1 TACTGGTGGCTATGCCACAGTT-ACTGA
*
61220067 TACTGGTGGCTATGCCACAGTTATTGA
1 TACTGGTGGCTATGCCACAGTTACTGA
*
61220094 TACTGGTGGCTTTGCCAC
1 TACTGGTGGCTATGCCAC
61220112 TTTTACTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 37 0.95
28 2 0.05
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAGTTACTGA
Found at i:61220371 original size:33 final size:33
Alignment explanation
Indices: 61220321--61220441 Score: 172
Period size: 33 Copynumber: 3.7 Consensus size: 33
61220311 CTGCTACTAT
61220321 ATAGGGC-TAGGGCCCAAACTGTACTGATACTGA
1 ATAGGGCTTA-GGCCCAAACTGTACTGATACTGA
*
61220354 ATAGGGCTTAGGTCCAAACTGTACTGATACTGA
1 ATAGGGCTTAGGCCCAAACTGTACTGATACTGA
** * *
61220387 ATAGGGCTTAGGCCCTGATTGTACTAATACTGA
1 ATAGGGCTTAGGCCCAAACTGTACTGATACTGA
*
61220420 ATAGGGCTTAGGCCCAGACTGT
1 ATAGGGCTTAGGCCCAAACTGT
61220442 GTTATTCACT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
33 77 0.97
34 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (33 bp):
ATAGGGCTTAGGCCCAAACTGTACTGATACTGA
Found at i:61223925 original size:27 final size:27
Alignment explanation
Indices: 61223889--61224055 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
61223879 AGAGGTCGCT
* ** *
61223889 AAATGACCGTCATGCCTTTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
61223916 AAATGACCGTAATGCCCCTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
61223943 AAATGACTGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
61223970 AAATGACTGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
61223997 AAATGACCGTAATGCCCTTGTAGGGAA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
61224024 AAATGACCATGATACCCCTGT-GTGGTA
1 AAATGACCGTAATGCCCCTGTAG-GGTA
61224051 AAATG
1 AAATG
61224056 TCAATTATGC
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
26 1 0.01
27 125 0.99
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:61224537 original size:33 final size:33
Alignment explanation
Indices: 61224491--61224564 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
61224481 AAGGCTAGGG
*
61224491 CCCAGACTGTACTGATACTGAATAGGGCTTAGC
1 CCCAGACTATACTGATACTGAATAGGGCTTAGC
* *
61224524 CCCAGACTATACTGATATTGAATAGGGCTTAGG
1 CCCAGACTATACTGATACTGAATAGGGCTTAGC
*
61224557 CCTAGACT
1 CCCAGACT
61224565 GTGTTATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (33 bp):
CCCAGACTATACTGATACTGAATAGGGCTTAGC
Found at i:61225936 original size:56 final size:56
Alignment explanation
Indices: 61225873--61226006 Score: 241
Period size: 56 Copynumber: 2.4 Consensus size: 56
61225863 AATGGCATCA
*
61225873 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTATCATCGATATGTGATTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTG
61225929 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTG
* *
61225985 ATTTATGTGTGCAAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
61226007 CTGTCTGGGA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTG
Found at i:61226026 original size:56 final size:56
Alignment explanation
Indices: 61225873--61226037 Score: 188
Period size: 56 Copynumber: 2.9 Consensus size: 56
61225863 AATGGCATCA
* * * * *
61225873 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTATCATCGATATGTGATTCTG
1 ATATATGTGTGCAAGTAAGACCACGTCTAAGACAGTAGCATCGATATGTGATTCTG
* * * *
61225929 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCTG
1 ATATATGTGTGCAAGTAAGACCACGTCTAAGACAGTAGCATCGATATGTGATTCTG
* ** * *
61225985 ATTTATGTGTGCAAGTAAGACC-CTGTCTGGGATAGTGGCATCGATATGTGATT
1 ATATATGTGTGCAAGTAAGACCAC-GTCTAAGACAGTAGCATCGATATGTGATT
61226038 ACATGTAAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 97 0.99
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACGTCTAAGACAGTAGCATCGATATGTGATTCTG
Found at i:61229989 original size:40 final size:41
Alignment explanation
Indices: 61229968--61230186 Score: 322
Period size: 40 Copynumber: 5.5 Consensus size: 41
61229958 CGCTCGAATA
*
61229968 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* *
61230008 CCTTCGGGACTTAG-CCTGAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
*
61230048 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* *
61230088 CCTTCGGGACATAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* * *
61230128 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
61230168 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61230187 TTATCATCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 6 0.04
40 151 0.93
41 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
Found at i:61230181 original size:120 final size:120
Alignment explanation
Indices: 61229968--61230186 Score: 384
Period size: 120 Copynumber: 1.8 Consensus size: 120
61229958 CGCTCGAATA
*
61229968 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGAAACTAG
1 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
*
61230033 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTTGCACAAATG
66 TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTTGCACAAATG
* *
61230088 CCTTCGGGACATAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
* *
61230153 TCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
66 TAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
61230187 TTATCATCCA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 93 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (120 bp):
CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTTGCACAAATG
Found at i:61230886 original size:22 final size:22
Alignment explanation
Indices: 61230861--61230913 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
61230851 ACCACATATA
*
61230861 AATGGCATACATTTTACTAACT-
1 AATGGCATACATATTA-TAACTC
61230883 AAT-GCATTACATATTATAACTC
1 AATGGCA-TACATATTATAACTC
61230905 AATAGGCAT
1 AAT-GGCAT
61230914 CCATCGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 8 0.31
22 14 0.54
23 1 0.04
24 3 0.12
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (22 bp):
AATGGCATACATATTATAACTC
Found at i:61239477 original size:27 final size:27
Alignment explanation
Indices: 61239423--61239533 Score: 163
Period size: 27 Copynumber: 4.1 Consensus size: 27
61239413 AGCATGGCTG
* *
61239423 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
61239449 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
61239476 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
61239503 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
61239530 CCAG
1 CCAG
61239534 GACACTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 15 0.19
27 61 0.78
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:61247251 original size:27 final size:27
Alignment explanation
Indices: 61247197--61247301 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
61247187 AGCATGGCTG
* * *
61247197 CCAGAACAGATAA-TGTGACAAAGTCA
1 CCAGAACAGATAATTGTGGCATAGCCA
61247223 CCAGAACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCATAGCCA
*
61247250 CCAGAACAGAT-ATGTGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCATAGCCA
*
61247277 CCAGATCAGATAATTGTGGCATAGC
1 CCAGAACAGATAATTGTGGCATAGC
61247302 AACTAGGACG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
26 15 0.21
27 53 0.76
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCATAGCCA
Found at i:61249709 original size:19 final size:18
Alignment explanation
Indices: 61249685--61249732 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
61249675 AGTTAGGACC
*
61249685 AATTTGAAACAATTAAAAA
1 AATTTGAAA-AAGTAAAAA
* *
61249704 AATTTGGGAAAAGTAGAAA
1 AATTT-GAAAAAGTAAAAA
61249723 AATTTGAAAA
1 AATTTGAAAA
61249733 TAGGGGACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (18 bp):
AATTTGAAAAAGTAAAAA
Found at i:61255655 original size:46 final size:46
Alignment explanation
Indices: 61255588--61255753 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
61255578 CGCCCCTAAA
* *
61255588 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCATAAG
*
61255634 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCATAAG
* * * * *
61255681 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCATAAG
61255727 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
61255754 AGATGCTCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 54 0.53
47 28 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCATAAG
Found at i:61255696 original size:93 final size:93
Alignment explanation
Indices: 61255589--61255759 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
61255579 GCCCCTAAAT
* *
61255589 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
*
61255654 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
61255682 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
61255747 CGAGTTCAGATGC
66 CGAGTTCAGATGC
61255760 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:61260836 original size:140 final size:141
Alignment explanation
Indices: 61260583--61260961 Score: 571
Period size: 140 Copynumber: 2.7 Consensus size: 141
61260573 GAAATGATAG
61260583 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
*
61260648 GTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATAACCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAACCGATGTGATGAATGTGAAAGTG
*
61260713 TATATGTGTGA
131 TATATATGTGA
* * * *
61260724 TAAGGCCTAATAGCCGACGTGATGAATGTGAAA-TGTATATGTGTGATAGGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
* *
61260788 GTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAACCGATGTGATGAATGTGAAAGTG
61260853 TATATATGTGA
131 TATATATGTGA
* * * * * *
61260864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
* * * * **
61260929 GTAATGGATGTGGAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAG
61260962 TCCCGAAAGG
Statistics
Matches: 212, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
140 131 0.62
141 81 0.38
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (141 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAACCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:61260940 original size:94 final size:94
Alignment explanation
Indices: 61260583--61260961 Score: 571
Period size: 94 Copynumber: 4.0 Consensus size: 94
61260573 GAAATGATAG
61260583 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
*
61260648 GTGATGAATGTGAAAGTGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * *
61260677 TAGGGCCTAATAACCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
*
61260742 GTGATGAATGTGAAA-TGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * *
61260770 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
61260835 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
61260864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
* * * * *
61260929 GTAATGGATGTGGAAGTGCATAAATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
61260958 TAAG
1 TAAG
61260962 TCCCGAAAGG
Statistics
Matches: 262, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
93 90 0.34
94 172 0.66
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAAC
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61260946 original size:47 final size:47
Alignment explanation
Indices: 61260583--61260917 Score: 564
Period size: 47 Copynumber: 7.1 Consensus size: 47
61260573 GAAATGATAG
61260583 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
61260630 TAAGGCCTAATAGCCAACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
61260677 TAGGGCCTAATAACCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
61260724 TAAGGCCTAATAGCCGACGTGATGAATGTGAAA-TGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
61260770 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
61260817 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
61260864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
61260911 CAAGGCC
1 TAAGGCC
61260918 GAGTGGCCAA
Statistics
Matches: 270, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 44 0.16
47 226 0.84
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:61260956 original size:47 final size:47
Alignment explanation
Indices: 61260604--61260957 Score: 287
Period size: 47 Copynumber: 7.6 Consensus size: 47
61260594 AGCCGATGTG
* * * * *
61260604 ATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
* * * * ** * * *
61260651 ATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATAACCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
* * * * * *
61260698 ATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTG
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
* * * * * * * *
61260745 ATGAATGTGAAA-TGTATATGTGTGATAGGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
* * * * * * * *
61260791 ATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
* * * * *
61260838 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
*
61260885 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTA
1 ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
* * * *
61260932 ATGGATGTGGAAGTGCATAAATGTGA
1 ATGAATGTGAAAGTGTATATATGTGA
61260958 TAAGTCCCGA
Statistics
Matches: 282, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 44 0.16
47 238 0.84
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTA
Found at i:61261149 original size:37 final size:37
Alignment explanation
Indices: 61261080--61261158 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
61261070 CCGAGCTCTA
* * * *
61261080 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
*
61261117 AAGACCCGATAACTTCGTCTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
61261154 AAGAC
1 AAGAC
61261159 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
Found at i:61267116 original size:46 final size:46
Alignment explanation
Indices: 61266994--61267119 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
61266984 AACCCGCCCC
* * **
61266994 TAAGTGAACTCCGACTCAACTCAATGAGCTCAGG-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTTGGACATTCGCATCCA
61267040 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
* *
61267086 TAGGTGAACTCGGACTCAACTCAACAAGTTTGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGA
61267120 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 3 0.04
46 70 0.96
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
Found at i:61269908 original size:43 final size:42
Alignment explanation
Indices: 61269782--61269877 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 42
61269772 ATGTGTTTTT
* *
61269782 GTGTAAGACCATGTCTGGGACATTGGCAT--TGACTTATGATTTAC
1 GTGTAAGACCATGTCTAGGACATTGGAATCAT-A-TT-TGATTT-C
61269826 GTGTAAGACCATGTCTAGGACATTGGAATCATATTTGATTTC
1 GTGTAAGACCATGTCTAGGACATTGGAATCATATTTGATTTC
61269868 GTGTAAGACC
1 GTGTAAGACC
61269878 CTGTTTGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
42 11 0.23
43 6 0.12
44 29 0.60
45 1 0.02
46 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATGTCTAGGACATTGGAATCATATTTGATTTC
Found at i:61269938 original size:43 final size:42
Alignment explanation
Indices: 61269843--61269939 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 42
61269833 ACCATGTCTA
* * * * *
61269843 GGACATTGGAATCATATTTGATTTCGTGTAAGACCCTGTTTG
1 GGACATTGGCATCATATTTGATTACATGTAAGACACTATTTG
* * *
61269885 GAATAGTGGCATCGATATTTGATTACATGTAAGATCAC-ATTTG
1 GGACATTGGCATC-ATATTTGATTACATGTAAGA-CACTATTTG
61269928 GGACATTGGCAT
1 GGACATTGGCAT
61269940 TTTATGAGCT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
42 9 0.21
43 31 0.74
44 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (42 bp):
GGACATTGGCATCATATTTGATTACATGTAAGACACTATTTG
Found at i:61273157 original size:42 final size:42
Alignment explanation
Indices: 61273110--61273229 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
61273100 ATATGTGTTA
61273110 TCGTGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATT
1 TCGTGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATT
* * * * *
61273152 TCGTGTAAGACCCTGTCTAAGATAGTGGTATCGGTATTTGATT
1 TCGTGTAAGACCATGTCTAGGATATTGGCAT-TGTATTTGATT
* * * * *
61273195 ACATGTAAGACCACGTCTGGGATGTTGGCATTGTA
1 TCGTGTAAGACCATGTCTAGGATATTGGCATTGTA
61273230 CGAGCTTTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATT
Found at i:61273203 original size:43 final size:42
Alignment explanation
Indices: 61273113--61273212 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
61273103 TGTGTTATCG
* * * * *
61273113 TGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATTTCG
1 TGTAAGACCATGTCTAAGATAGTGGCATGGTATTTGATTACA
* *
61273155 TGTAAGACCCTGTCTAAGATAGTGGTATCGGTATTTGATTACA
1 TGTAAGACCATGTCTAAGATAGTGGCAT-GGTATTTGATTACA
*
61273198 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
61273213 GGGATGTTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 24 0.50
43 24 0.50
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (42 bp):
TGTAAGACCATGTCTAAGATAGTGGCATGGTATTTGATTACA
Found at i:61282020 original size:68 final size:67
Alignment explanation
Indices: 61281948--61282097 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
61281938 CATCATGTGT
* * * *
61281948 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGAACACC
61282010 ATGTAG
62 ATGTAG
** * *
61282016 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGAACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGAACACCATGT
61282081 AG
66 AG
61282083 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
61282098 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGAACACCATGT
AG
Found at i:61282053 original size:64 final size:64
Alignment explanation
Indices: 61281972--61282155 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
61281962 AGACATTATG
* *
61281972 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
61282036 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGAACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61282101 AA
63 AA
* * * * *
61282103 ACTG--GTTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61282156 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 15 0.15
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61288365 original size:24 final size:24
Alignment explanation
Indices: 61288298--61288366 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
61288288 TGCAGAAGAA
*
61288298 GATTTAGGAGCTGATAAAGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
*
61288322 GATTTAAGAGCTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
*
61288346 GATTTAGGAGCTGATTAGGGA
1 GATTTAGGAGCTGATAAGGGA
61288367 TAACGGTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.35, C:0.04, G:0.38, T:0.23
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAGAG
Found at i:61289839 original size:27 final size:27
Alignment explanation
Indices: 61289799--61289858 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
61289789 AAGAAGCGTC
61289799 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
61289826 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGAT
61289853 CTGGTG
1 CTGGTG
61289859 ACACTATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:61289879 original size:26 final size:27
Alignment explanation
Indices: 61289811--61289882 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
61289801 GGTGGCTATG
* * * *
61289811 CCACAATTATCTGATCTGGTGGCTCTG
1 CCACAATTATCTGTTCTGGTGACACTA
61289838 CCACAATTATCTGTTCTGGTGACACTA
1 CCACAATTATCTGTTCTGGTGACACTA
*
61289865 TCAC-ATTATCTGTTCTGG
1 CCACAATTATCTGTTCTGG
61289883 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 14 0.35
27 26 0.65
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (27 bp):
CCACAATTATCTGTTCTGGTGACACTA
Found at i:61291143 original size:20 final size:20
Alignment explanation
Indices: 61291115--61291194 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
61291105 GAGAAAAAGA
*
61291115 AGAAGAGAAAGTAGATGAAG
1 AGAAAAGAAAGTAGATGAAG
61291135 AGAAAAGAAA--AGA--AA-
1 AGAAAAGAAAGTAGATGAAG
* *
61291150 AGAAAAGAAAGAAAAGAAGAAG
1 AGAAAAGAAAG--TAGATGAAG
* *
61291172 AAAAAAGGAAGTAGATGAAG
1 AGAAAAGAAAGTAGATGAAG
61291192 AGA
1 AGA
61291195 GGAGAAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
18 3 0.06
19 3 0.06
20 18 0.38
21 2 0.04
22 9 0.19
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (20 bp):
AGAAAAGAAAGTAGATGAAG
Found at i:61291153 original size:15 final size:15
Alignment explanation
Indices: 61291135--61291175 Score: 66
Period size: 14 Copynumber: 2.7 Consensus size: 15
61291125 GTAGATGAAG
61291135 AGAAAAGAAAAGAAA
1 AGAAAAGAAAAGAAA
61291150 AGAAAAG-AAAGAAA
1 AGAAAAGAAAAGAAA
61291164 AGAAGAAGAAAA
1 AGAA-AAGAAAA
61291176 AAGGAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.46
15 10 0.42
16 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAAGAAA
Found at i:61291162 original size:4 final size:5
Alignment explanation
Indices: 61291135--61291175 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
61291125 GTAGATGAAG
61291135 AGAAA AGAAA AGAAA AGAAA AG-AA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
61291176 AAGGAAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:61291162 original size:9 final size:9
Alignment explanation
Indices: 61291138--61291167 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
61291128 GATGAAGAGA
61291138 AAAGAAAAG
1 AAAGAAAAG
61291147 AAAAGAAAAG
1 -AAAGAAAAG
61291157 AAAGAAAAG
1 AAAGAAAAG
61291166 AA
1 AA
61291168 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:61291162 original size:19 final size:20
Alignment explanation
Indices: 61291138--61291175 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
61291128 GATGAAGAGA
61291138 AAAGAAAAGAA-AAGAAAAG
1 AAAGAAAAGAAGAAGAAAAG
61291157 AAAGAAAAGAAGAAGAAAA
1 AAAGAAAAGAAGAAGAAAA
61291176 AAGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAGAAGAAAAG
Found at i:61291172 original size:52 final size:53
Alignment explanation
Indices: 61291109--61291212 Score: 138
Period size: 57 Copynumber: 1.9 Consensus size: 53
61291099 ACTATGGAGA
61291109 AAAAGAAGAAG-AGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAAG
1 AAAAGAAGAAGAAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAAG
* **
61291161 AAAAGAAGAAGAAAAAAGGAAGTAGATGAAGAGAGGAGAAAAGAAAAGAAAA
1 AAAAGAAGAAG----AAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAA
61291213 TAGAAGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
52 11 0.25
57 33 0.75
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (53 bp):
AAAAGAAGAAGAAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAAG
Found at i:61292157 original size:17 final size:19
Alignment explanation
Indices: 61292135--61292180 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
61292125 ACATACATAC
61292135 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
61292152 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
61292171 AATACTAATT
1 AATAATAATT
61292181 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:61295877 original size:13 final size:13
Alignment explanation
Indices: 61295861--61295885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61295851 GAGAAAAGAA
61295861 AAGAAAAAAAATG
1 AAGAAAAAAAATG
61295874 AAGAAAAAAAAT
1 AAGAAAAAAAAT
61295886 TGAACCCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAGAAAAAAAATG
Found at i:61296809 original size:19 final size:18
Alignment explanation
Indices: 61296772--61296815 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
61296762 ATACATACAG
61296772 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
61296789 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
61296808 TACTAATT
1 TAATAATT
61296816 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:61305964 original size:40 final size:40
Alignment explanation
Indices: 61305927--61306110 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
61305917 GCTACTCGTT
*
61305927 CAAATGCCTTCGGGTCATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGTTATAGTAACTCGCA
* *
61305967 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGTCTTAGCCCGG-TTATAGTAACTCGCA
* *
61306007 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGTTA-TAGTAACTCGCA
* * * ** *
61306046 CAAATGCCTTCGGATCTTAGCCCGGATATGGTCAGTTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGTTATAGT-AACTCGCA
*
61306087 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGTCTTAGCCCGG
61306111 ACATCATTCG
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 33 0.27
40 79 0.64
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGTCTTAGCCCGGTTATAGTAACTCGCA
Found at i:61306038 original size:79 final size:82
Alignment explanation
Indices: 61305894--61306111 Score: 229
Period size: 79 Copynumber: 2.7 Consensus size: 82
61305884 AAATCACGTA
* * ** * * *
61305894 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGTCATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
61305955 TAGTAACTCGCACAAATG
65 TAGTAACTCGCACAAATG
* *
61305973 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
61306034 TAGTATCTCGCACAAATG
65 TAGTAACTCGCACAAATG
* * **
61306052 CCTTCGGATCTTAGCCCGGATATGGTCAGTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
61306112 CATCATTCGA
Statistics
Matches: 118, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.03
79 64 0.54
80 51 0.43
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
AGTAACTCGCACAAATG
Found at i:61307306 original size:56 final size:56
Alignment explanation
Indices: 61307239--61307414 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
61307229 TATTAGTTTA
*
61307239 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
61307295 TTGCCCATGCTTCTTATTTTATTTTTCCATCAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
61307351 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
61307407 TTGCCCAT
1 TTGCCCAT
61307415 CATCCCTTGT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:61326419 original size:51 final size:50
Alignment explanation
Indices: 61326306--61326419 Score: 117
Period size: 52 Copynumber: 2.2 Consensus size: 50
61326296 GAAAAAATGG
* * *
61326306 TAAAA-AAAAAAGGAGAAATGGGAAACATTTGGAAAATAATATGTTTTTTC
1 TAAAATAAAAATGGAGAAAT-GGAAAAATTTGGAAAATAATATGTTTTCTC
* *
61326356 GAAAATGAAAAATGGAGAAAT-GAAATAATTTGG-AAATGAATGTGGTTTTCTC
1 TAAAAT-AAAAATGGAGAAATGGAAA-AATTTGGAAAAT-AATAT-GTTTTCTC
61326408 TAAAATAAAAAT
1 TAAAATAAAAAT
61326420 TAAAAATGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
50 12 0.23
51 16 0.30
52 25 0.47
ACGTcount: A:0.50, C:0.04, G:0.18, T:0.28
Consensus pattern (50 bp):
TAAAATAAAAATGGAGAAATGGAAAAATTTGGAAAATAATATGTTTTCTC
Found at i:61327206 original size:13 final size:13
Alignment explanation
Indices: 61327188--61327212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61327178 GAATTAATAT
61327188 GTATGAAAATTTC
1 GTATGAAAATTTC
61327201 GTATGAAAATTT
1 GTATGAAAATTT
61327213 AATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:61334458 original size:21 final size:22
Alignment explanation
Indices: 61334402--61334459 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
61334392 ATATTGTTAT
61334402 ACATGATATGAC-ATG-GTATGC
1 ACATGATATG-CTATGAGTATGC
*
61334423 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
61334444 ACATGATATGCTATGA
1 ACATGATATGCTATGA
61334460 TATACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:61334567 original size:24 final size:25
Alignment explanation
Indices: 61334510--61334567 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
61334500 AGGAAGTGCG
61334510 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCTAGTTTACC
**
61334534 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCTAGTTTACC
61334558 AAAAGAGGCT
1 AAAAGAGGCT
61334568 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCTAGTTTACC
Found at i:61337210 original size:13 final size:13
Alignment explanation
Indices: 61337192--61337216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61337182 TAATGGTATA
61337192 TTGAATCCATGAC
1 TTGAATCCATGAC
61337205 TTGAATCCATGA
1 TTGAATCCATGA
61337217 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:61337799 original size:27 final size:27
Alignment explanation
Indices: 61337764--61337942 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
61337754 TTAAATTGTA
61337764 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
61337791 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
61337818 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
61337845 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
61337873 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
61337900 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
61337927 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
61337943 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:61337880 original size:82 final size:81
Alignment explanation
Indices: 61337766--61337916 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
61337756 AAATTGTATA
* *
61337766 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61337830 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
61337847 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
61337912 TGCGA
65 TGCGA
61337917 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61337933 original size:82 final size:81
Alignment explanation
Indices: 61337762--61337942 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
61337752 GATTAAATTG
* *
61337762 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61337827 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
61337843 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
61337907 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
61337925 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
61337943 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61342555 original size:34 final size:33
Alignment explanation
Indices: 61342467--61342564 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
61342457 GCCTATGGGC
*
61342467 CATACTGTTATCTGAAAAGGGGCTAAGGCCCAGT
1 CATACTGTTATCTGAAAA-GGGCTTAGGCCCAGT
* * *
61342501 -TTACTG-TATTCTAAAAAGGGCTTCGGCCCAGT
1 CATACTGTTA-TCTGAAAAGGGCTTAGGCCCAGT
*
61342533 ACATACTGTTATCTGAATAGGGCTTAGGCCCA
1 -CATACTGTTATCTGAAAAGGGCTTAGGCCCA
61342565 ATGGGCTTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
32 15 0.29
33 12 0.23
34 23 0.44
35 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (33 bp):
CATACTGTTATCTGAAAAGGGCTTAGGCCCAGT
Found at i:61346346 original size:38 final size:38
Alignment explanation
Indices: 61346297--61346411 Score: 189
Period size: 38 Copynumber: 3.1 Consensus size: 38
61346287 GTGACCATAT
61346297 TCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAAA
1 TCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAAA
61346335 TCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT-AA
1 TCGGACTAAGAT-CGAAGGCATTTGTGCGAGATACTAAA
* *
61346373 TCGGACTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAAA
61346410 TC
1 TC
61346412 CGGGTTAAGT
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
36 22 0.30
37 4 0.05
38 24 0.33
39 23 0.32
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (38 bp):
TCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAAA
Found at i:61346447 original size:76 final size:77
Alignment explanation
Indices: 61346256--61346447 Score: 232
Period size: 76 Copynumber: 2.5 Consensus size: 77
61346246 TTGAATGATG
* * * *
61346256 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGATCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTA-C-TAATCGGACTAAGACCGAAGGCATTT
61346320 GTGCGAGATACTAAA
63 GTGCGAGATACTAAA
*
61346335 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAATCGGACTAAG-CCGAAGGCATTTG
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTAATCGGACTAAGACCGAAGGCATTTG
*
61346396 TGCGAGTTACTAAA
64 TGCGAGATACTAAA
* *
61346410 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTA
61346448 TAACCGGGCT
Statistics
Matches: 98, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
75 28 0.29
76 41 0.42
77 1 0.01
78 17 0.17
79 10 0.10
80 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (77 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATCGGACTAAGACCGAAGGCATTTGTG
CGAGATACTAAA
Found at i:61354282 original size:40 final size:40
Alignment explanation
Indices: 61354264--61354415 Score: 245
Period size: 40 Copynumber: 3.8 Consensus size: 40
61354254 AAGTGACCAT
61354264 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
61354304 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* *
61354344 ATCCGGACTAAGATCCGAAGGCTTTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
*
61354384 ATCCAGG-TTAAG-TCCCGAAGGCATTTGTGCGA
1 ATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGA
61354416 ATTACAATAA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 103 0.97
41 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:61354439 original size:40 final size:40
Alignment explanation
Indices: 61354225--61354450 Score: 225
Period size: 40 Copynumber: 5.7 Consensus size: 40
61354215 TTGAATGATG
* * * * *
61354225 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAA-TTACTAAA
61354265 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGA-TACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGA-ATTACTAAA
61354305 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGA-TACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGA-ATTACTAAA
* *
61354345 TCCGGACTAAGATCCGAAGGCTTTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
*
61354385 TCCAGG-TTAAG-TCCCGAAGGCATTTGTGCGAATTAC-AATA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAATTACTAA-A
* * *
61354425 ACCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
61354451 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
39 5 0.03
40 148 0.90
41 11 0.07
42 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:61354442 original size:80 final size:80
Alignment explanation
Indices: 61354225--61354450 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 80
61354215 TTGAATGATG
* * * *
61354225 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACAATATCCGGACTAAGATCCGAAGGCATT
61354289 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
*
61354305 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAA-ATCCGGACTAAGATCCGAAGGCT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTAC-AATATCCGGACTAAGATCCGAAGGCA
*
61354367 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
* * * *
61354385 TCCAGG-TTAAGTCCCGAAGGCATTTGTGCGAATTACAATAACCGGGCTATG-TCCCGAAGGCAT
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAATTACAATATCCGGACTAAGAT-CCGAAGGCAT
61354448 TTG
64 TTG
61354451 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
79 5 0.04
80 108 0.86
81 12 0.10
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACAATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:61374788 original size:14 final size:15
Alignment explanation
Indices: 61374764--61374793 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
61374754 GGATATCAAA
61374764 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
61374779 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
61374793 A
1 A
61374794 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:61375671 original size:424 final size:426
Alignment explanation
Indices: 61374883--61375725 Score: 1440
Period size: 424 Copynumber: 2.0 Consensus size: 426
61374873 TTTAGTTCAT
61374883 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
1 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
* * *
61374948 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCTGACTTTTTAGATGGATCAATC
66 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * * * *
61375013 GGCTTTCTTGGAGTAATTCCTTACTCCCTATTATGTGTCTCCTTTTTCCTCCTCCTAGACGGTGT
131 AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTCTTTCCTCCTCCTAGACGGTGT
*
61375078 ATTTATAGGCTTTGGAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
196 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
61375143 GGCTCAGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
261 GGCTCAGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
* *
61375208 GGCCGTGTGGTCTACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCA-TTT-
326 GGCCATATGGTCTACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
61375271 T-CTTCTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
391 TCCTT-TTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
* *
61375307 AACTAAATAAGAAAACGTCTCAGAATAATAAAGAATACAAAACATAAAGAAAATCCAAAACTCCT
1 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
61375372 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
66 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * ** *
61375437 AGCTTCCTTGGAGGAATTCCTTAATCCTTATTATGTGTCTCCTCTTTCTTCCTCCTCTAGGGTGT
131 AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTCTTTCCTCCTCCTAGACGGTGT
61375502 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
196 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
* * *
61375567 GGCTCGGCAGGGACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTGTCAAATTGACAC
261 GGCTCAGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
* *
61375632 GGCCATATGGTCTACCCGTGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
326 GGCCATATGGTCTACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
*
61375697 TCCTTTTTTGGCCTGTTTCTCGTTCCTTT
391 TCCTTTTTTGGCCCGTTTCTCGTTCCTTT
61375726 CGCTCTCTTA
Statistics
Matches: 392, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
424 362 0.92
425 3 0.01
426 24 0.06
427 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (426 bp):
AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTCTTTCCTCCTCCTAGACGGTGT
ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
GGCTCAGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
GGCCATATGGTCTACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
TCCTTTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
Found at i:61381453 original size:479 final size:479
Alignment explanation
Indices: 61380556--61381995 Score: 2873
Period size: 479 Copynumber: 3.0 Consensus size: 479
61380546 TAGATAGTTA
61380556 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
1 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
61380621 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
66 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
61380686 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
131 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
61380751 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
196 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
61380816 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
261 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
61380881 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
326 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
61380946 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
391 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
61381011 TATGTTTGAAGCTTTGATTGTGGT
456 TATGTTTGAAGCTTTGATTGTGGT
61381035 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
1 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
61381100 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
66 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
61381165 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
131 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
61381230 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
196 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
61381295 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
261 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
61381360 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
326 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
61381425 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
391 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
61381490 TATGTTTGAAGCTTTGATTGTGGT
456 TATGTTTGAAGCTTTGATTGTGGT
61381514 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
1 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
61381579 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
66 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
61381644 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
131 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
61381709 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
196 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
61381774 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
261 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
61381839 A-TTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
326 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
61381903 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
391 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
61381968 TATGTTTGAAGCTTTGATTGTGGT
456 TATGTTTGAAGCTTTGATTGTGGT
61381992 ATTT
1 ATTT
61381996 GATTGTTTTG
Statistics
Matches: 961, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
478 156 0.16
479 805 0.84
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (479 bp):
ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
TATGTTTGAAGCTTTGATTGTGGT
Found at i:61382633 original size:19 final size:19
Alignment explanation
Indices: 61382606--61382643 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61382596 ATATTAAATG
*
61382606 TTATGCTATGTCCTTACTA
1 TTATACTATGTCCTTACTA
61382625 TTATACTATGTCCTTACTA
1 TTATACTATGTCCTTACTA
61382644 AGTTGTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
TTATACTATGTCCTTACTA
Found at i:61385414 original size:80 final size:79
Alignment explanation
Indices: 61385330--61385501 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
61385320 GGACTAAGAT
* *
61385330 CCGAAGGCATTTGTGCTAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
61385394 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
61385410 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
61385475 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
61385489 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61385502 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 38 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:61385481 original size:39 final size:39
Alignment explanation
Indices: 61385277--61385499 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
61385267 TTGAATGCTG
* * * * * *
61385277 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
61385317 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
61385356 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
61385397 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
61385437 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
61385476 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61385500 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 103 0.67
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61385519 original size:79 final size:80
Alignment explanation
Indices: 61385357--61385534 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
61385347 AGATACAAAT
* * * *
61385357 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
61385422 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
61385437 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
61385501 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
61385516 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
61385535 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:61396377 original size:24 final size:24
Alignment explanation
Indices: 61396345--61396393 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61396335 ACTGAATGTG
61396345 CCTCTTATTTATTTAAAATCTTTT
1 CCTCTTATTTATTTAAAATCTTTT
61396369 CCTCTTATTTATTTAAAATCTTTT
1 CCTCTTATTTATTTAAAATCTTTT
61396393 C
1 C
61396394 TAAGGCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.57
Consensus pattern (24 bp):
CCTCTTATTTATTTAAAATCTTTT
Found at i:61397702 original size:21 final size:20
Alignment explanation
Indices: 61397672--61397714 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61397662 TAATATTGGT
* *
61397672 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
61397693 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
61397713 AA
1 AA
61397715 AGGATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:61398488 original size:13 final size:13
Alignment explanation
Indices: 61398470--61398494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61398460 TAATGGTATA
61398470 TTGAATCCATGAC
1 TTGAATCCATGAC
61398483 TTGAATCCATGA
1 TTGAATCCATGA
61398495 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:61399074 original size:27 final size:27
Alignment explanation
Indices: 61399040--61399216 Score: 180
Period size: 27 Copynumber: 6.5 Consensus size: 27
61399030 TAAATTGTAC
61399040 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
61399067 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
61399093 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
61399121 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
61399149 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* *
61399176 AGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
61399203 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
61399217 AGGCTCAATA
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:61399155 original size:82 final size:81
Alignment explanation
Indices: 61399041--61399196 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
61399031 AAATTGTACA
* *
61399041 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61399105 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
61399122 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61399187 TGCGAGTTGA
65 TGCGAATTGA
61399197 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61399208 original size:82 final size:81
Alignment explanation
Indices: 61399037--61399216 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 81
61399027 GATTAAATTG
* *
61399037 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61399102 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
61399118 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61399182 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61399200 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
61399217 AGGCTCAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61401985 original size:25 final size:23
Alignment explanation
Indices: 61401957--61402033 Score: 55
Period size: 25 Copynumber: 3.1 Consensus size: 23
61401947 AATGCTTTCT
61401957 AAATGACTTGCCACAAGGGCTCCCC
1 AAAT-ACTTGCCACAA-GGCTCCCC
* * ***
61401982 AAATAATACGCCACATAGGCTTTTC
1 AAATACT-TGCCACA-AGGCTCCCC
61402007 AAATAACTTGCCACAAAGGCTCCCC
1 AAAT-ACTTGCCAC-AAGGCTCCCC
61402032 AA
1 AA
61402034 GTAATACGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
24 2 0.05
25 32 0.84
26 4 0.11
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.19
Consensus pattern (23 bp):
AAATACTTGCCACAAGGCTCCCC
Found at i:61402044 original size:25 final size:25
Alignment explanation
Indices: 61401966--61402046 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
61401956 TAAATGACTT
*
61401966 GCCACAAGGGCTCCCCAAATAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
* *** *
61401991 GCCACATAGGCTTTTCAAATAACT-T
1 GCCACAAAGGCTCCCCAAATAA-TAC
*
61402016 GCCACAAAGGCTCCCCAAGTAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
61402041 GCCACA
1 GCCACA
61402047 TAACTTTTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (25 bp):
GCCACAAAGGCTCCCCAAATAATAC
Found at i:61402080 original size:49 final size:50
Alignment explanation
Indices: 61401962--61402125 Score: 249
Period size: 50 Copynumber: 3.3 Consensus size: 50
61401952 TTTCTAAATG
* * *
61401962 ACTTGCCACAAGGGCTCCCCAAATAATACGCCACATAGGCTTTTCAAATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* *
61402012 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATA-ACTTTTTAGATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* * *
61402061 ACTTGCCACAAAAGTTCCCCAAGTAATACGCAACATAGGCTTTTCAGATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
61402111 ACTTGCCACAAAGGC
1 ACTTGCCACAAAGGC
61402126 CCTATGTGGT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 43 0.43
50 58 0.57
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.23
Consensus pattern (50 bp):
ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
Found at i:61408891 original size:28 final size:28
Alignment explanation
Indices: 61408851--61408905 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
61408841 CCGACAAAGA
*
61408851 AAGTGACGTTTCATAACTCTAACTCGAT
1 AAGTGACATTTCATAACTCTAACTCGAT
*
61408879 AAGTGACATTTCATAACTCTGACTCGA
1 AAGTGACATTTCATAACTCTAACTCGA
61408906 CGATCGAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (28 bp):
AAGTGACATTTCATAACTCTAACTCGAT
Found at i:61414134 original size:16 final size:16
Alignment explanation
Indices: 61414115--61414145 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61414105 GAAGGCACTT
61414115 TTGAGTTATAAAAATG
1 TTGAGTTATAAAAATG
*
61414131 TTGAGTTATGAAAAT
1 TTGAGTTATAAAAAT
61414146 TAAAGACGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGAGTTATAAAAATG
Found at i:61414863 original size:12 final size:12
Alignment explanation
Indices: 61414846--61414871 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61414836 CAAAATTGTG
61414846 AAAAATAAAATA
1 AAAAATAAAATA
61414858 AAAAATAAAATA
1 AAAAATAAAATA
61414870 AA
1 AA
61414872 GAACACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:61421467 original size:13 final size:13
Alignment explanation
Indices: 61421451--61421483 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61421441 TGAGAGAATT
61421451 TAAATAAATAAAA
1 TAAATAAATAAAA
*
61421464 TAAATAAATAATA
1 TAAATAAATAAAA
61421477 -AAATAAA
1 TAAATAAA
61421484 CAAACGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:61421472 original size:8 final size:9
Alignment explanation
Indices: 61421452--61421483 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
61421442 GAGAGAATTT
61421452 AAATAAATA
1 AAATAAATA
61421461 AAATAAAT-
1 AAATAAATA
61421469 AAAT-AATA
1 AAATAAATA
61421477 AAATAAA
1 AAATAAA
61421484 CAAACGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.14
8 8 0.38
9 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:61423163 original size:18 final size:18
Alignment explanation
Indices: 61423140--61423177 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61423130 GACTTATGAC
61423140 TTAGTATGCATTCGCTGG
1 TTAGTATGCATTCGCTGG
*
61423158 TTAGTATGCATTTGCTGG
1 TTAGTATGCATTCGCTGG
61423176 TT
1 TT
61423178 TAAGTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (18 bp):
TTAGTATGCATTCGCTGG
Found at i:61424238 original size:8 final size:8
Alignment explanation
Indices: 61424225--61424256 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
61424215 TACCAAAGTG
61424225 GGCCCATT
1 GGCCCATT
61424233 GGCCCATT
1 GGCCCATT
61424241 GGCCCATT
1 GGCCCATT
*
61424249 AGCCCATT
1 GGCCCATT
61424257 TTCAGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.16, C:0.38, G:0.22, T:0.25
Consensus pattern (8 bp):
GGCCCATT
Found at i:61434180 original size:30 final size:30
Alignment explanation
Indices: 61434135--61434194 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61434125 ATTTAATACG
*
61434135 AACTTTGGCAAAATTACATTTTTACCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
* * *
61434165 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
61434195 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:61435654 original size:18 final size:18
Alignment explanation
Indices: 61435631--61435666 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
61435621 AAGAAGATAG
61435631 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
61435649 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
61435667 GAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTACAAAAATTGATTATA
Found at i:61435674 original size:18 final size:18
Alignment explanation
Indices: 61435633--61435674 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61435623 GAAGATAGTT
**
61435633 ACAAAAATTGATTATATT
1 ACAAAAATTGATTATAGA
61435651 ACAAAAATTGATTATAGA
1 ACAAAAATTGATTATAGA
*
61435669 ATAAAA
1 ACAAAA
61435675 TTATACGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
ACAAAAATTGATTATAGA
Found at i:61439698 original size:11 final size:11
Alignment explanation
Indices: 61439636--61439706 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
61439626 CTGAACTAAA
* *
61439636 AGAATTAAGTG
1 AGAATTGAGAG
*
61439647 AGAATTAAGAG
1 AGAATTGAGAG
*
61439658 AGAATTGAAAG
1 AGAATTGAGAG
*
61439669 AGGATTGAGA-
1 AGAATTGAGAG
61439679 ATGAATTGAGAG
1 A-GAATTGAGAG
*
61439691 AGAGTTGAGAG
1 AGAATTGAGAG
*
61439702 TGAAT
1 AGAAT
61439707 AAAAAAAGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
10 1 0.02
11 47 0.96
12 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAATTGAGAG
Found at i:61441046 original size:15 final size:15
Alignment explanation
Indices: 61441026--61441074 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
61441016 ATAATTTAAG
61441026 TTCAATACTTAAATT
1 TTCAATACTTAAATT
**
61441041 TTCAATACTTATTTT
1 TTCAATACTTAAATT
** *
61441056 TTCAGCATTTAAATT
1 TTCAATACTTAAATT
61441071 TTCA
1 TTCA
61441075 GTTTATCAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (15 bp):
TTCAATACTTAAATT
Found at i:61443167 original size:19 final size:19
Alignment explanation
Indices: 61443125--61443161 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
61443115 AAAATATTAT
61443125 AAAAATTATTAAATTTTAG
1 AAAAATTATTAAATTTTAG
61443144 AAAAATTATTAAATTTTA
1 AAAAATTATTAAATTTTA
61443162 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AAAAATTATTAAATTTTAG
Found at i:61443208 original size:40 final size:38
Alignment explanation
Indices: 61443154--61443245 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
61443144 AAAAATTATT
* * *
61443154 AAATTTTAATAAAAATATAAAAAA-TTAAATTTTTTTATAA
1 AAATCTTAAAAAAAATA-AAAAAATTTAAA--ATTTTATAA
61443194 AAATCTTAAAAAAAATAAAAAAATTTAAAATTTTATAA
1 AAATCTTAAAAAAAATAAAAAAATTTAAAATTTTATAA
*
61443232 AAATCATAAAAAAA
1 AAATCTTAAAAAAA
61443246 TTAGTGACCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 21 0.45
39 6 0.13
40 20 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (38 bp):
AAATCTTAAAAAAAATAAAAAAATTTAAAATTTTATAA
Found at i:61443468 original size:10 final size:10
Alignment explanation
Indices: 61443455--61443517 Score: 69
Period size: 10 Copynumber: 6.5 Consensus size: 10
61443445 CTTCATAAAA
61443455 TTTTATAATT
1 TTTTATAATT
*
61443465 TTTT-TTATAT
1 TTTTATAAT-T
* *
61443475 TTCTAT-ATA
1 TTTTATAATT
61443484 TTTTATAATT
1 TTTTATAATT
61443494 TTTTATAA-T
1 TTTTATAATT
61443503 TTTTATAATT
1 TTTTATAATT
61443513 TTTTA
1 TTTTA
61443518 ATATTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 17 0.39
10 26 0.59
11 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:61443486 original size:29 final size:27
Alignment explanation
Indices: 61443453--61443528 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
61443443 AACTTCATAA
61443453 AATTTTATAATTTTTTTTATATTTCTAT
1 AATTTTATAATTTTTTTTA-ATTTCTAT
* *
61443481 ATATTTTATAATTTTTTATAATTTTTAT
1 A-ATTTTATAATTTTTTTTAATTTCTAT
*
61443509 AATTTTTTAATATTTATTTT
1 AATTTTATAAT-TTT-TTTT
61443529 TTAATTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.22
28 12 0.29
29 20 0.49
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (27 bp):
AATTTTATAATTTTTTTTAATTTCTAT
Found at i:61443500 original size:17 final size:17
Alignment explanation
Indices: 61443467--61443523 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
61443457 TTATAATTTT
*
61443467 TTTTAT-ATTTCTATATA
1 TTTTATAATTT-TTTATA
61443484 TTTTATAATTTTTTATAA
1 TTTTATAATTTTTTAT-A
61443502 TTTTTATAATTTTTTAATA
1 -TTTTATAATTTTTT-ATA
61443521 TTT
1 TTT
61443524 ATTTTTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 10 0.29
18 8 0.23
19 15 0.43
20 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATAATTTTTTATA
Found at i:61443515 original size:19 final size:19
Alignment explanation
Indices: 61443381--61443517 Score: 77
Period size: 19 Copynumber: 7.1 Consensus size: 19
61443371 TTTTGGTACG
61443381 ATAATTTTTATAAAGTTTTTT
1 ATAATTTTTAT-AA-TTTTTT
*
61443402 ACTAA-ATTTAT-ATTTCTTT
1 A-TAATTTTTATAATTT-TTT
* *
61443421 A-CATTTTGTATAACTTTCTT
1 ATAATTTT-TATAA-TTTTTT
* * **
61443441 ATAA-CTTCATAAAATTTT
1 ATAATTTTTATAATTTTTT
* * *
61443459 ATAATTTTTTTTATATTTCT
1 ATAATTTTTATAAT-TTTTT
61443479 AT-ATATTTTATAATTTTTT
1 ATAAT-TTTTATAATTTTTT
61443498 ATAATTTTTATAATTTTTT
1 ATAATTTTTATAATTTTTT
61443517 A
1 A
61443518 ATATTTATTT
Statistics
Matches: 85, Mismatches: 20, Indels: 24
0.66 0.16 0.19
Matches are distributed among these distances:
17 1 0.01
18 12 0.14
19 39 0.46
20 20 0.24
21 10 0.12
22 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
ATAATTTTTATAATTTTTT
Found at i:61443715 original size:89 final size:90
Alignment explanation
Indices: 61443597--61443821 Score: 312
Period size: 89 Copynumber: 2.5 Consensus size: 90
61443587 TTTAATAAAT
* *
61443597 GTAGGGGCTTAATTGCTTTTATTTTTGAAAAAGTTTGAGGATCTTTTTGATGTATTTTGAAAGTT
1 GTAGGGGCTTAATTGC--TT-TTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATT
* * *
61443662 CAAGTACCCAATTGAATGC-GAAAAAGA
63 CAAATACCCAAATGAATGCAAAAAAAGA
* * * *
61443689 GTAGGGGCTTAATTGGTTTTTTTGAAAAGGTCTGAGGGTCTTTTTGATGCATTTTGAAAATTCAA
1 GTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATTCAA
*
61443754 ATACCCAAATGAGTGCAAAAAAAGA
66 ATACCCAAATGAATGCAAAAAAAGA
61443779 GTAGGGGCTTAATTGCTTTTTTTG-AAAAGTTTGAGGA-CTTTTT
1 GTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTT
61443822 ACACCCTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
88 6 0.05
89 65 0.55
90 32 0.27
92 15 0.13
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (90 bp):
GTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATTCAA
ATACCCAAATGAATGCAAAAAAAGA
Found at i:61449078 original size:55 final size:55
Alignment explanation
Indices: 61448995--61449104 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
61448985 CTTGGAATGC
61448995 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
1 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
* *
61449050 ATATATTCACTCCATACGATATGAGAGGAATGAAAGGTTTTTTTTGGTGGTCTTT
1 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
61449105 TTTTGCTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (55 bp):
ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
Found at i:61450155 original size:18 final size:17
Alignment explanation
Indices: 61450128--61450175 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
61450118 AGAAAAGAGG
*
61450128 TATTTCTATTTTCATATT
1 TATTTATATTTTCAT-TT
61450146 TATTTATATTTTCATTT
1 TATTTATATTTTCATTT
* *
61450163 CATTTATACTTTC
1 TATTTATATTTTC
61450176 CAACATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTATATTTTCATTT
Found at i:61450169 original size:17 final size:18
Alignment explanation
Indices: 61450129--61450175 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
61450119 GAAAAGAGGT
* *
61450129 ATTTCTATTTTCATATTT
1 ATTTATATTTTCATATTC
61450147 ATTTATATTTTCAT-TTC
1 ATTTATATTTTCATATTC
*
61450164 ATTTATACTTTC
1 ATTTATATTTTC
61450176 CAACATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATTTTCATATTC
Found at i:61458935 original size:17 final size:17
Alignment explanation
Indices: 61458913--61458949 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
61458903 AGAACTAAAT
61458913 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
61458930 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
61458947 ATT
1 ATT
61458950 CTAACATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (17 bp):
ATTATGTTGCTACGACG
Found at i:61461880 original size:27 final size:27
Alignment explanation
Indices: 61461809--61461967 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
61461799 GCGAGGCTGC
* * * *
61461809 CAGATAT-TGTGACGGAGTCACTAGATA
1 CAGATATATGTGGCAGAGCCACCAGA-A
61461836 CAGATAT-TGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
61461862 CAGATATATGCGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* * * *
61461889 CAGATA-ATTGTTGCATAGCCACCGGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
*
61461916 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
61461943 CAGATA-ATTATGGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
61461968 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 10 0.09
27 98 0.90
28 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATATGTGGCAGAGCCACCAGAA
Found at i:61461919 original size:54 final size:54
Alignment explanation
Indices: 61461831--61461970 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
61461821 CGGAGTCACT
* *
61461831 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGCGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGCCACC
* * *
61461885 AGATCAGATAATTGTTGCATAGCCACCGGGACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGCCACC
*
61461939 AGATCAGATAATTATGGCATAGCCACCAGGAC
1 AGATCAGATAATTGTGGCATAGCCACCAGGAC
61461971 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGCCACC
Found at i:61462358 original size:8 final size:8
Alignment explanation
Indices: 61462342--61462371 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
61462332 CGCAAAATAC
61462342 CGGCTTTT
1 CGGCTTTT
*
61462350 CGGCATTT
1 CGGCTTTT
61462358 CGGCTTTT
1 CGGCTTTT
61462366 CGGCTT
1 CGGCTT
61462372 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:61463586 original size:26 final size:26
Alignment explanation
Indices: 61463550--61463657 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
61463540 TGAAATGCCC
*
61463550 ATCATGGAACATTTACCTAAACCGTT
1 ATCATGGAACATTTACCTAAACCATT
*
61463576 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
61463602 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
61463628 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
61463654 ATCA
1 ATCA
61463658 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 2 0.03
26 73 0.97
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:61468837 original size:27 final size:26
Alignment explanation
Indices: 61468790--61468947 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 26
61468780 CGAGGCTGCT
* *
61468790 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGAT-C
*
61468817 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGATC
61468843 AGATATATGTGGCAGAGCCACCAGATC
1 AGATAT-TGTGGCAGAGCCACCAGATC
* * *
61468870 AGATAATTGTGGTATAGCCACCGGGAT-
1 AGAT-ATTGTGGCAGAGCCACC-AGATC
61468897 AGATATATGTGGCAGAGCCACCAGATC
1 AGATAT-TGTGGCAGAGCCACCAGATC
* *
61468924 AGATAATTATGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
61468948 GACCCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 12 0.11
27 92 0.82
28 8 0.07
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGATC
Found at i:61468879 original size:54 final size:54
Alignment explanation
Indices: 61468807--61468947 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
61468797 GTGACGAAGT
*
61468807 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
61468861 CACCAGATCAGATAATTGTGGTATAGCCACCGGGATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
61468915 CACCAGATCAGATAATTATGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
61468948 GACCCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:61470561 original size:26 final size:26
Alignment explanation
Indices: 61470530--61470637 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61470520 TGAAATGCCC
*
61470530 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
61470556 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
61470582 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
61470608 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61470634 ATCA
1 ATCA
61470638 ATTTGCACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61472241 original size:40 final size:42
Alignment explanation
Indices: 61472168--61472245 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
61472158 CCTGGAAAAT
* * *
61472168 AAATAATATAAAAAATGAGAAGATAATCTTGGGTTGTTCAAA
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
*
61472210 AAATAAT-TTAAAAA-GAGAAGAAAAACATGGGTTGTT
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTT
61472246 GGAGTTACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 6 0.19
42 7 0.22
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (42 bp):
AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
Found at i:61472776 original size:29 final size:29
Alignment explanation
Indices: 61472734--61472791 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
61472724 AAGGGTTTGA
61472734 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGATTAAAATTAAATGAAATGAG
61472763 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGATTAAAATTAAATGAAATGAG
61472792 CAAGTATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (29 bp):
TTGGTTAGATTAAAATTAAATGAAATGAG
Found at i:61475166 original size:43 final size:43
Alignment explanation
Indices: 61475099--61475267 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
61475089 AAAGCTCGTA
* * * *
61475099 CAATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
* * ** * *
61475141 CAATGCCACTGTCCCAGATAGGGTCTTACACAAAATCAAATAA
1 CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
* ** *
61475184 CGACACCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
* * *
61475226 ACAATGCCAATGTCCTAGAAATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAT
61475268 CTTGGTAATC
Statistics
Matches: 98, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 8 0.08
43 90 0.92
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
Found at i:61476787 original size:56 final size:56
Alignment explanation
Indices: 61476701--61476833 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
61476691 ATGGTATCGA
* * * *
61476701 TATATCTGTGCAAGTAAGACCACGTTTAATACTTTGGCA-TCGATATGTGATTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGG-AGTCGATATGTGACTCCGT
*
61476757 TATATGTGTGCGAGTAAGACCACGTTTAATAGATTGGAGTCGATATGTGACTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
*
61476813 CATATGTGTGCGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
61476834 CTGTCTGGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
Found at i:61478460 original size:38 final size:38
Alignment explanation
Indices: 61478409--61478485 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
61478399 TTCGGTTATG
61478409 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
61478447 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
61478485 T
1 T
61478486 TATTGATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (38 bp):
TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
Found at i:61478676 original size:15 final size:15
Alignment explanation
Indices: 61478656--61478689 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
61478646 ATATTTAGCC
61478656 GAATATGTGATTATT
1 GAATATGTGATTATT
61478671 GAATATGTGATTATT
1 GAATATGTGATTATT
61478686 GAAT
1 GAAT
61478690 TAGTTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (15 bp):
GAATATGTGATTATT
Found at i:61480500 original size:19 final size:19
Alignment explanation
Indices: 61480462--61480503 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
61480452 TGATTTGCTT
61480462 TCACTAGCCTCATCAATTTC
1 TCACTAGCCTCA-CAATTTC
61480482 TCACATAGCCTCA-AATTTC
1 TCAC-TAGCCTCACAATTTC
61480501 TCA
1 TCA
61480504 ACTTTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.33
Consensus pattern (19 bp):
TCACTAGCCTCACAATTTC
Found at i:61481330 original size:24 final size:24
Alignment explanation
Indices: 61481303--61481349 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
61481293 AAATATGTAG
*
61481303 ACTTATTT-AAACAGCCAATAATAT
1 ACTT-TTTCAAACAGCCAAAAATAT
*
61481327 ACTTTTTCAAACAGTCAAAAATA
1 ACTTTTTCAAACAGCCAAAAATA
61481350 GTTCAGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (24 bp):
ACTTTTTCAAACAGCCAAAAATAT
Found at i:61487975 original size:4 final size:4
Alignment explanation
Indices: 61487966--61487993 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
61487956 AAGTTTTATT
61487966 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
61487994 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:61497480 original size:29 final size:28
Alignment explanation
Indices: 61497430--61497517 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
61497420 TTGCATGACA
61497430 ATGAATGTGATTGGGCCTAATGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
61497458 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGA-TTGGGCCTAATGGGCCAT
* * * *
61497487 ATGAAAGAGATTGGGCCTAGTGGGCCTT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
61497515 ATG
1 ATG
61497518 CATATATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 29 0.53
29 26 0.47
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (28 bp):
ATGAATGTGATTGGGCCTAATGGGCCAT
Done.