Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 121 of 325
Found at i:36351807 original size:37 final size:37
Alignment explanation
Indices: 36351754--36351875 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
36351744 TTATTACGAA
*
36351754 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
36351791 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
36351828 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
36351865 GTCTCACCCGG
1 GTCTTACCCGG
36351876 AACATTTTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:36352032 original size:49 final size:49
Alignment explanation
Indices: 36351977--36352196 Score: 363
Period size: 49 Copynumber: 4.5 Consensus size: 49
36351967 TTTTACATTA
36351977 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
36352026 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
36352075 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
36352124 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
36352171 GCCATTTGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
36352197 GTATATCATA
Statistics
Matches: 164, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 44 0.27
49 120 0.73
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:36360256 original size:39 final size:39
Alignment explanation
Indices: 36360092--36360274 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
36360082 TCGAATGATG
* * *
36360092 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-AAGTTACTAAA
* *
36360132 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCAAGTTACTAAA
*
36360172 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCAAGTTACTAAA
* *
36360212 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCAAGTTACTA-AA
*
36360252 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
36360275 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
39 36 0.28
40 84 0.66
41 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCAAGTTACTAAA
Found at i:36360272 original size:79 final size:81
Alignment explanation
Indices: 36360092--36360276 Score: 247
Period size: 80 Copynumber: 2.3 Consensus size: 81
36360082 TCGAATGATG
*
36360092 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
36360156 CGTGCGAGTTACTAAA
66 CGTGCGAGTTACTAAA
* * **
36360172 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
36360234 TT-GTGCGAGTTACTATAA
64 TTCGTGCGAGTTACTA-AA
*
36360252 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36360277 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
78 1 0.01
79 35 0.38
80 49 0.53
81 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTACTAAA
Found at i:36360294 original size:79 final size:80
Alignment explanation
Indices: 36360092--36360309 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
36360082 TCGAATGATG
**
36360092 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCGGGTTAAGATCCGAAGGCAT
36360155 TCGTGCGAGTTACTAAA
64 TCGTGCGAGTTACTAAA
* *
36360172 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGTTAAGAT-CCGAAGGCA
36360234 TT-GTGCGAGTTACTATAA
63 TTCGTGCGAGTTACTA-AA
* ** *
36360252 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGTTAAGA-TCCGAAGG
36360310 TACGTGATTC
Statistics
Matches: 118, Mismatches: 10, Indels: 22
0.79 0.07 0.15
Matches are distributed among these distances:
78 16 0.14
79 46 0.39
80 47 0.40
81 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:36364824 original size:18 final size:18
Alignment explanation
Indices: 36364801--36364837 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36364791 CGTATTGACA
36364801 TAACTTATCGAGATCTCT
1 TAACTTATCGAGATCTCT
36364819 TAACTTATCGAGATCTCT
1 TAACTTATCGAGATCTCT
36364837 T
1 T
36364838 TATTTTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (18 bp):
TAACTTATCGAGATCTCT
Found at i:36366782 original size:13 final size:13
Alignment explanation
Indices: 36366764--36366792 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36366754 TTTAGTTTAA
36366764 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36366777 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36366790 TTA
1 TTA
36366793 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:36367100 original size:14 final size:14
Alignment explanation
Indices: 36367081--36367107 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36367071 TTCTTGAAAT
36367081 TTAATTTACTTTTA
1 TTAATTTACTTTTA
36367095 TTAATTTACTTTT
1 TTAATTTACTTTT
36367108 TCTTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTACTTTTA
Found at i:36373362 original size:13 final size:13
Alignment explanation
Indices: 36373344--36373372 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36373334 TTTATTTTAA
36373344 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36373357 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36373370 TTA
1 TTA
36373373 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:36374925 original size:44 final size:44
Alignment explanation
Indices: 36374876--36374963 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
36374866 TACCAAATAA
36374876 GATAAATATTTTCTATCTGTAATGATAGAATTCATTACTACATT
1 GATAAATATTTTCTATCTGTAATGATAGAATTCATTACTACATT
*
36374920 GATAAATATTTTCTATCTGTAATGATAGAATTCATTATTACATT
1 GATAAATATTTTCTATCTGTAATGATAGAATTCATTACTACATT
36374964 TTCATATCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.44
Consensus pattern (44 bp):
GATAAATATTTTCTATCTGTAATGATAGAATTCATTACTACATT
Found at i:36375664 original size:27 final size:26
Alignment explanation
Indices: 36375618--36375669 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
36375608 GTTATAAAAT
*
36375618 AAAAAAATATGGAGAGAATAAAGAAC
1 AAAAAAATATGGAAAGAATAAAGAAC
*
36375644 AAAAAATATAT-GAAAGCAATAGAGAA
1 AAAAAA-ATATGGAAAG-AATAAAGAA
36375670 TGTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.17, T:0.13
Consensus pattern (26 bp):
AAAAAAATATGGAAAGAATAAAGAAC
Found at i:36376274 original size:39 final size:38
Alignment explanation
Indices: 36376214--36376294 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
36376204 AAAGAAATAT
* * * *
36376214 TAAAATATATAAAAGTTCAAAAAATTATTAAAAT-ATTA
1 TAAAATATAGAAAACTACAAAAAATTATAAAAATCA-TA
36376252 TAAAATTATAGAAAACTACAAAAAATTATAAAAATCATA
1 TAAAA-TATAGAAAACTACAAAAAATTATAAAAATCATA
36376291 TAAA
1 TAAA
36376295 TTGTAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.14
39 31 0.84
40 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (38 bp):
TAAAATATAGAAAACTACAAAAAATTATAAAAATCATA
Found at i:36376284 original size:9 final size:9
Alignment explanation
Indices: 36376215--36376420 Score: 77
Period size: 9 Copynumber: 22.3 Consensus size: 9
36376205 AAGAAATATT
36376215 AAAATATATA
1 AAAAT-TATA
*
36376225 AAAGTTCA-A
1 AAAATT-ATA
36376234 AAAATTATTA
1 AAAATTA-TA
36376244 AAATATTAT-
1 AAA-ATTATA
36376253 AAAATTATA
1 AAAATTATA
* *
36376262 GAAAACTACAA
1 -AAAATTA-TA
36376273 AAAATTATA
1 AAAATTATA
*
36376282 AAAATCATA
1 AAAATTATA
* *
36376291 TAAATTGTA
1 AAAATTATA
*
36376300 AAAAGTATA
1 AAAATTATA
**
36376309 TGAATTATGA
1 AAAATTAT-A
*
36376319 AGAA-TA-A
1 AAAATTATA
*
36376326 AAAA-TGTA
1 AAAATTATA
36376334 AAAATTATAAA
1 AAAATTAT--A
* *
36376345 AAAAATATTT
1 AAAATTA-TA
36376355 AAAA-TA-A
1 AAAATTATA
36376362 AAAA-TATTA
1 AAAATTA-TA
*
36376371 AATATTAATA
1 AAAATT-ATA
* *
36376381 AAATTTACA
1 AAAATTATA
36376390 AAATATTATA
1 AAA-ATTATA
**
36376400 AAAAGCATA
1 AAAATTATA
36376409 AAAATTATA
1 AAAATTATA
36376418 AAA
1 AAA
36376421 CAAACTAAAA
Statistics
Matches: 145, Mismatches: 33, Indels: 37
0.67 0.15 0.17
Matches are distributed among these distances:
7 11 0.08
8 11 0.08
9 65 0.45
10 44 0.30
11 13 0.09
12 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:36376445 original size:20 final size:19
Alignment explanation
Indices: 36376407--36376445 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
36376397 ATAAAAAGCA
36376407 TAAAAATTATAAAACAAAC
1 TAAAAATTATAAAACAAAC
36376426 TAAAAATATATGAAAA-AAAC
1 TAAAAAT-TAT-AAAACAAAC
36376446 ATTTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (19 bp):
TAAAAATTATAAAACAAAC
Found at i:36376736 original size:17 final size:16
Alignment explanation
Indices: 36376710--36376744 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
36376700 TTATAATAAC
*
36376710 TTTAATAATTTTCTATA
1 TTTAAAAATTTTC-ATA
36376727 TTTAAAAATTTTCATA
1 TTTAAAAATTTTCATA
36376743 TT
1 TT
36376745 CTTTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAAATTTTCATA
Found at i:36376821 original size:20 final size:20
Alignment explanation
Indices: 36376798--36376835 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36376788 TATTTTCATA
36376798 ATTTAT-ATATATTTTTATTC
1 ATTTATAATA-ATTTTTATTC
36376818 ATTTATAATAATTTTTAT
1 ATTTATAATAATTTTTAT
36376836 AGTTTTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTATAATAATTTTTATTC
Found at i:36376841 original size:29 final size:28
Alignment explanation
Indices: 36376795--36376862 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
36376785 TCCTATTTTC
* * *
36376795 ATAATTTATATATATTTTTATTCATTTATA
1 ATAATTT-T-TATATTTTGAGTAATTTATA
36376825 ATAATTTTTATAGTTTTGAGTAATTTATA
1 ATAATTTTTATA-TTTTGAGTAATTTATA
36376854 ATAATTTTT
1 ATAATTTTT
36376863 TATAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 7 0.21
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
ATAATTTTTATATTTTGAGTAATTTATA
Found at i:36380260 original size:24 final size:24
Alignment explanation
Indices: 36380228--36380292 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
36380218 AAAAAATAAT
* *
36380228 AAAAGGAATAAATTTTTATACAAA
1 AAAATGAATAAATTTGTATACAAA
* * * *
36380252 AAAATGAATGAACTTGTCTACATA
1 AAAATGAATAAATTTGTATACAAA
36380276 AAAATGAATAAATTTGT
1 AAAATGAATAAATTTGT
36380293 TAACGAGGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (24 bp):
AAAATGAATAAATTTGTATACAAA
Found at i:36383323 original size:64 final size:64
Alignment explanation
Indices: 36383242--36383425 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
36383232 AGACATTATG
* * *
36383242 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
36383306 ATGTAGCTAGGTCGCATGCATGGTTCCAGTTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
36383371 AA
63 AA
* * * *
36383373 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
36383426 CGAACTATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 24 0.25
66 21 0.22
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:36384986 original size:28 final size:28
Alignment explanation
Indices: 36384954--36385052 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
36384944 GCCATAAGCC
*
36384954 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
36384982 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
36385010 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
36385039 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36385053 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:36392640 original size:28 final size:28
Alignment explanation
Indices: 36392608--36392706 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
36392598 TGCATAAGCC
*
36392608 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
36392636 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
36392664 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
36392693 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36392707 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:36400098 original size:37 final size:37
Alignment explanation
Indices: 36400057--36400227 Score: 183
Period size: 37 Copynumber: 4.7 Consensus size: 37
36400047 TATAACCACA
* **
36400057 GCAC-AATGCCTTCGGGCTTAACCCGGTTATGTAACTT
1 GCACAAATGCCTTCGGGCTTAGCCCGG-TATAAAACTT
36400094 GCACAAATGCCTTCGGGCTTAGCCCGGTATAAAAC-T
1 GCACAAATGCCTTCGGGCTTAGCCCGGTATAAAACTT
* *
36400130 GCAC-AA-GCCTTCGGGCTTAGCCCGATATAAAACTC
1 GCACAAATGCCTTCGGGCTTAGCCCGGTATAAAACTT
* * ** *
36400165 GCACGAATGCCTTCGGGCTTAGCCCGGAAT-TCACTA
1 GCACAAATGCCTTCGGGCTTAGCCCGGTATAAAACTT
*
36400201 GCATAAATG-CTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGG-CTTAGCCCGG
36400228 GTTATCATTC
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
34 26 0.22
35 13 0.11
36 27 0.23
37 30 0.26
38 21 0.18
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (37 bp):
GCACAAATGCCTTCGGGCTTAGCCCGGTATAAAACTT
Found at i:36400182 original size:71 final size:73
Alignment explanation
Indices: 36400057--36400191 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 73
36400047 TATAACCACA
* ** *
36400057 GCACAATGCCTTCGGGCTTAACCCGGTTATGTAACTTGCACAAATGCCTTCGGGCTTAGCCCGGT
1 GCACAATGCCTTCGGGCTTAACCCGGATATAAAACTCGCACAAATGCCTTCGGGCTTAGCCCGGT
36400122 ATAAAACT
66 ATAAAACT
* *
36400130 GCACAA-GCCTTCGGGCTTAGCCC-GATATAAAACTCGCACGAATGCCTTCGGGCTTAGCCCGG
1 GCACAATGCCTTCGGGCTTAACCCGGATATAAAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
36400192 AATTCACTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 34 0.61
72 16 0.29
73 6 0.11
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (73 bp):
GCACAATGCCTTCGGGCTTAACCCGGATATAAAACTCGCACAAATGCCTTCGGGCTTAGCCCGGT
ATAAAACT
Found at i:36404651 original size:30 final size:30
Alignment explanation
Indices: 36404617--36404677 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36404607 TCCTTAACTC
36404617 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36404647 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36404677 A
1 A
36404678 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36407044 original size:2 final size:2
Alignment explanation
Indices: 36407037--36407065 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36407027 GAGACTAGTC
36407037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36407066 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36413185 original size:12 final size:12
Alignment explanation
Indices: 36413168--36413193 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36413158 ACATGAATTA
36413168 AATTAATTATAG
1 AATTAATTATAG
36413180 AATTAATTATAG
1 AATTAATTATAG
36413192 AA
1 AA
36413194 GGGCAATCAA
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (12 bp):
AATTAATTATAG
Found at i:36417049 original size:17 final size:17
Alignment explanation
Indices: 36417027--36417060 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36417017 CTTGGCCCAT
*
36417027 TGCAGTAACAGTAAACA
1 TGCAGTAACAATAAACA
36417044 TGCAGTAACAATAAACA
1 TGCAGTAACAATAAACA
36417061 GTATGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.18
Consensus pattern (17 bp):
TGCAGTAACAATAAACA
Found at i:36417585 original size:18 final size:18
Alignment explanation
Indices: 36417548--36417585 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
36417538 AATGCAGGCT
*
36417548 CATGTGGGCCCACACACC
1 CATGTGGGCCCACAAACC
36417566 CATGT-GGCCCACAAAGCC
1 CATGTGGGCCCACAAA-CC
36417584 CA
1 CA
36417586 AAAATAGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.26, C:0.42, G:0.21, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACAAACC
Found at i:36420628 original size:40 final size:40
Alignment explanation
Indices: 36420584--36420764 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
36420574 GCTCGATTGT
* * *
36420584 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
36420624 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
36420664 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
36420704 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
36420745 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
36420765 ATCATTCGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.02
40 85 0.73
41 27 0.23
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:36420682 original size:80 final size:81
Alignment explanation
Indices: 36420584--36420762 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
36420574 GCTCGATTGT
* * * *
36420584 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* * *
36420648 TAAC-TCGCATAAATGC
65 TAACTTAGCACAAAAGC
* * *
36420664 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
36420729 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
36420745 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
36420763 ATATCATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 58 0.68
81 27 0.32
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:36423385 original size:25 final size:25
Alignment explanation
Indices: 36423356--36423404 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
36423346 CACAACAGAA
36423356 ATCGGTACCCCGTGTAATCTCACAG
1 ATCGGTACCCCGTGTAATCTCACAG
36423381 ATCGGTACCCCGTGTAATCTCACA
1 ATCGGTACCCCGTGTAATCTCACA
36423405 ATCTGAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (25 bp):
ATCGGTACCCCGTGTAATCTCACAG
Found at i:36428699 original size:40 final size:40
Alignment explanation
Indices: 36428655--36428835 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
36428645 GCTCGATTGT
* * *
36428655 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
36428695 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
36428735 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
36428775 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
36428816 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
36428836 ATCATTCGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.02
40 85 0.73
41 27 0.23
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:36428753 original size:80 final size:81
Alignment explanation
Indices: 36428655--36428833 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
36428645 GCTCGATTGT
* * * *
36428655 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* * *
36428719 TAAC-TCGCATAAATGC
65 TAACTTAGCACAAAAGC
* * *
36428735 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
36428800 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
36428816 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
36428834 ATATCATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 58 0.68
81 27 0.32
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:36432826 original size:17 final size:17
Alignment explanation
Indices: 36432804--36432837 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36432794 TAGGGGTAAA
36432804 ATGGTCATTTTGTGAAG
1 ATGGTCATTTTGTGAAG
36432821 ATGGTCATTTTGTGAAG
1 ATGGTCATTTTGTGAAG
36432838 TCTAGGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (17 bp):
ATGGTCATTTTGTGAAG
Found at i:36433326 original size:45 final size:46
Alignment explanation
Indices: 36433240--36433329 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 46
36433230 TTGAGACAAG
**
36433240 AGCTAATGTAAGACATGTCTAAGACATGCATTGGCCTCGAGATGTA
1 AGCTAATGTAAGACATGTCTAAGACATGCACCGGCCTCGAGATGTA
* **
36433286 AGCTAGTGTAAGACA-GTCTGGGACATGCACCGG-CTACGAGATGT
1 AGCTAATGTAAGACATGTCTAAGACATGCACCGGCCT-CGAGATGT
36433330 GTCAGTGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
44 2 0.05
45 22 0.58
46 14 0.37
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGCTAATGTAAGACATGTCTAAGACATGCACCGGCCTCGAGATGTA
Found at i:36435305 original size:41 final size:41
Alignment explanation
Indices: 36435260--36435377 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
36435250 TGAAAGATAA
36435260 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
36435301 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
36435331 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
36435372 ATGTAG
1 ATGTAG
36435378 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:36435316 original size:71 final size:71
Alignment explanation
Indices: 36435228--36435391 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
36435218 GAGATGTATC
36435228 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
36435293 AGGACA
66 AGGACA
36435299 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
36435364 AGGACA
66 AGGACA
36435370 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
36435392 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:36442875 original size:41 final size:41
Alignment explanation
Indices: 36442830--36442947 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
36442820 TGAAAGATAA
36442830 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
36442871 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
36442901 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
36442942 ATGTAG
1 ATGTAG
36442948 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:36442886 original size:71 final size:71
Alignment explanation
Indices: 36442798--36442961 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
36442788 GAGATGTATC
36442798 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
36442863 AGGACA
66 AGGACA
36442869 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
36442934 AGGACA
66 AGGACA
36442940 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
36442962 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:36460714 original size:49 final size:49
Alignment explanation
Indices: 36460475--36460719 Score: 258
Period size: 49 Copynumber: 4.9 Consensus size: 49
36460465 TCTATTGTGA
* * * ** *
36460475 GGTCGCATGTGAAGTACTAAGTGCAGGCTACTATGCATACCCA-AAAACTCT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-T
* * **
36460526 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
36460575 AGGTCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
36460625 GGTCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
36460674 GGTCGCATGTGTTGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
36460720 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 86 0.52
50 45 0.27
51 34 0.21
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:36464335 original size:68 final size:67
Alignment explanation
Indices: 36464263--36464412 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
36464253 CATCATGTGT
* * * *
36464263 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
36464325 ATGTAG
62 ATGTAG
** * *
36464331 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
36464396 AG
66 AG
36464398 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
36464413 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:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:36464368 original size:64 final size:64
Alignment explanation
Indices: 36464287--36464470 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
36464277 AGACATTATG
* *
36464287 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
36464351 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
36464416 AA
63 AA
* * * *
36464418 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
36464471 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:36465560 original size:2 final size:2
Alignment explanation
Indices: 36465553--36465581 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36465543 TCATGACATG
36465553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36465582 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36467079 original size:24 final size:24
Alignment explanation
Indices: 36467048--36467095 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
36467038 ACAAAAGAAG
*
36467048 AGATATCATTACGTAATTTAGCCA
1 AGATATCATTACGAAATTTAGCCA
36467072 AGATATCATTACGAAATTTAGCCA
1 AGATATCATTACGAAATTTAGCCA
36467096 TTTTAGCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (24 bp):
AGATATCATTACGAAATTTAGCCA
Found at i:36474165 original size:50 final size:47
Alignment explanation
Indices: 36473994--36474163 Score: 179
Period size: 46 Copynumber: 3.6 Consensus size: 47
36473984 TGTTATTATG
* *
36473994 AGCTAGTGTAAGACCATGTCTAGGACATGCATCAGC-CTCGAGATGTA
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCAC-AGAGATGTA
* * *
36474041 AGCTAGTGTAAGA-CATGTCTGGAACATGCACCGGCTACA-AGATGT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCAGC-ACAGAGATGTA
* * *
36474086 -GTTAGTGTAAGACTATGTCTGGGACATGGCATCAGCACAGATATGTGA
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCACAGAGATGT-A
*
36474134 GAGCTAGTGTAGGACCATGTCTGGGACATG
1 -AGCTAGTGTAAGACCATGTCTGGGACATG
36474164 GCGTTGGACT
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 35 0.35
47 13 0.13
48 1 0.01
49 1 0.01
50 24 0.24
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCACAGAGATGTA
Found at i:36474254 original size:47 final size:47
Alignment explanation
Indices: 36473990--36474262 Score: 200
Period size: 47 Copynumber: 5.8 Consensus size: 47
36473980 TATGTGTTAT
* * *
36473990 TATGAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCAGCCTCGAGA
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTAGAGA
* * * * * *
36474037 TGTAAGCTAGTGTAAGA-CATGTCTGGAACAT-GCACCGGCTACA-A
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGA
* * * * *
36474081 GATGTGTTAGTGTAAGACTATGTCTGGGACATGGCATCAGCAC-AGATA
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTAGAGA
* * * * *
36474129 TGTGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCGTTGGACTCGATGA
1 TAT--GAGCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGACTAGA-GA
* * * *
36474180 TGAT-AG-TGAGTGTAAGAACATGCCTGGGACATGGCGTCGACTTGAGA
1 T-ATGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGA
*
36474227 TATGAGCTAGTGTAAGACCATCTCTGGGACATGGCA
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCA
36474263 ATGTAATTCT
Statistics
Matches: 173, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
44 13 0.08
45 16 0.09
46 22 0.13
47 47 0.27
48 12 0.07
49 28 0.16
50 31 0.18
51 3 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGA
Found at i:36476445 original size:15 final size:17
Alignment explanation
Indices: 36476427--36476458 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
36476417 CAGCATAATT
36476427 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
36476442 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
36476459 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:36484836 original size:27 final size:27
Alignment explanation
Indices: 36484803--36484954 Score: 211
Period size: 27 Copynumber: 5.7 Consensus size: 27
36484793 AAAGTACTCC
**
36484803 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
36484830 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
36484857 CGATTTACA-AATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
36484883 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
36484910 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
36484937 CGATTTACAAAATTACCA
1 CGATTTACAGAATTACCA
36484955 AAATACCTCT
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.01
26 25 0.23
27 83 0.75
28 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:36484872 original size:80 final size:80
Alignment explanation
Indices: 36484772--36484961 Score: 235
Period size: 80 Copynumber: 2.4 Consensus size: 80
36484762 TACTGAAATT
*
36484772 CCCTCGACTTGTA-AAATTACCAAAGTACTCC-C-GATTTACAGAATTACTGTTTTACCCTC-AG
1 CCCTCGA-TT-TACAAATTACCAAAGTAC-CCTCAG-TTTACAGAATTACTATTTTACCCTCGA-
36484833 TTTACAGAATTACCATTTTA
61 TTTACAGAATTACCATTTTA
*** *
36484853 CCCTCGATTTACAAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTAT
1 CCCTCGATTTACAAATTACCAAAGTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTAC
*
36484918 AGAATTACCGTTTTA
66 AGAATTACCATTTTA
*
36484933 CCCTCGATTTACAAAATTACCAAAATACC
1 CCCTCGATTTAC-AAATTACCAAAGTACC
36484962 TCTGGTTTGT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 4 0.04
80 69 0.73
81 22 0.23
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (80 bp):
CCCTCGATTTACAAATTACCAAAGTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTAC
AGAATTACCATTTTA
Found at i:36484884 original size:53 final size:54
Alignment explanation
Indices: 36484803--36484954 Score: 236
Period size: 53 Copynumber: 2.8 Consensus size: 54
36484793 AAAGTACTCC
*
36484803 CGATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCT
* *
36484857 CGATTTACA-AATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCT
* *
36484910 CGATTTATAGAATTACCGTTTTACCCTC-GATTTACAAAATTACCA
1 CGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCA
36484955 AAATACCTCT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 50 0.56
54 39 0.44
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (54 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCT
Found at i:36484961 original size:27 final size:27
Alignment explanation
Indices: 36484767--36484961 Score: 112
Period size: 27 Copynumber: 7.3 Consensus size: 27
36484757 GCAATTACTG
* **
36484767 AAATT-CCCTCGACTTGTAAAATTACC
1 AAATTACCCTCGATTTACAAAATTACC
* * *
36484793 AAAGTACTCC-CGATTTACAGAATTACT
1 AAATTAC-CCTCGATTTACAAAATTACC
*** *
36484820 GTTTTACCCTC-AGTTTACAGAATTACC
1 AAATTACCCTCGA-TTTACAAAATTACC
**
36484847 ATTTTACCCTCGATTTAC-AAATTACC
1 AAATTACCCTCGATTTACAAAATTACC
** * *
36484873 ATTTTACCCTC-AGTTTACAGAATTACT
1 AAATTACCCTCGA-TTTACAAAATTACC
** * *
36484900 ATTTTACCCTCGATTTATAGAATTACC
1 AAATTACCCTCGATTTACAAAATTACC
***
36484927 GTTTTACCCTCGATTTACAAAATTACC
1 AAATTACCCTCGATTTACAAAATTACC
*
36484954 AAAATACC
1 AAATTACC
36484962 TCTGGTTTGT
Statistics
Matches: 137, Mismatches: 24, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
25 1 0.01
26 30 0.22
27 102 0.74
28 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATTACCCTCGATTTACAAAATTACC
Found at i:36484975 original size:27 final size:27
Alignment explanation
Indices: 36484944--36485073 Score: 154
Period size: 27 Copynumber: 4.8 Consensus size: 27
36484934 CCTCGATTTA
*
36484944 CAAAATTACCAAAATACCTCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
* * *
36484971 TAAAACTACCAAAATATCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
*
36484998 CAATATTACCAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
* **
36485025 CAAAATTACTAAAATACCCCT-GTAGGG
1 CAAAATTACCAAAATACCCCTGGT-TTG
* *
36485052 TAAAATTACCGAAATACCCCTG
1 CAAAATTACCAAAATACCCCTG
36485074 TAGGGTAGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 84 0.98
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCCTGGTTTG
Found at i:36485074 original size:27 final size:27
Alignment explanation
Indices: 36484945--36485089 Score: 107
Period size: 27 Copynumber: 5.4 Consensus size: 27
36484935 CTCGATTTAC
* **
36484945 AAAATTACCAAAATACCTCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
* * ** *
36484972 AAAACTACCAAAATATCCCTGGT-TTGC
1 AAAATTACCAAAATACCCCT-GTAGGGT
* ** *
36484999 AATATTACCAAAATACCCCTGGT-TTGC
1 AAAATTACCAAAATACCCCT-GTAGGGT
*
36485026 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
*
36485053 AAAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
*
36485080 AGAATTACCA
1 AAAATTACCA
36485090 TTTTGCCCCT
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.02
27 99 0.98
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAGGGT
Found at i:36490876 original size:29 final size:29
Alignment explanation
Indices: 36490843--36490935 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
36490833 TGACGAGATT
* *
36490843 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
36490872 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
36490901 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
36490930 GGCACT
1 GGCACT
36490936 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:36490948 original size:29 final size:29
Alignment explanation
Indices: 36490843--36490948 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
36490833 TGACGAGATT
* *
36490843 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
36490872 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
36490901 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
36490930 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
36490949 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:36498767 original size:29 final size:29
Alignment explanation
Indices: 36498734--36498826 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
36498724 TGACGAGATT
* *
36498734 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
36498763 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
36498792 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
36498821 GGCACT
1 GGCACT
36498827 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:36498839 original size:29 final size:29
Alignment explanation
Indices: 36498734--36498839 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
36498724 TGACGAGATT
* *
36498734 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
36498763 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
36498792 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
36498821 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
36498840 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:36502467 original size:39 final size:38
Alignment explanation
Indices: 36502408--36502526 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 38
36502398 AAATGTTCGA
*
36502408 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-GATT
* *
36502447 GTGACATCCGGGCTAAGCCCG-A-GCAATTGTGCGAGT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
36502483 GATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
1 G-TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
36502522 GTGAT
1 GTGAT
36502527 TATGGACGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
36 3 0.04
37 29 0.40
38 6 0.08
39 34 0.47
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (38 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
Found at i:36503302 original size:31 final size:31
Alignment explanation
Indices: 36503264--36503327 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
36503254 ATGATCATAT
36503264 GTGGACCTA-AGTATGAACTAGACTATAGTTG
1 GTGGACCTATAGTATG-ACTAGACTATAGTTG
*
36503295 GTGGACCTATGGTATGACTAGACTATAGTTG
1 GTGGACCTATAGTATGACTAGACTATAGTTG
36503326 GT
1 GT
36503328 CCATGGGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (31 bp):
GTGGACCTATAGTATGACTAGACTATAGTTG
Found at i:36510597 original size:40 final size:39
Alignment explanation
Indices: 36510447--36510599 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
36510437 AAATGTTCGA
* *
36510447 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
36510486 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
36510525 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
36510564 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
36510600 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:36510615 original size:40 final size:39
Alignment explanation
Indices: 36510448--36510630 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
36510438 AATGTTCGAG
* * *
36510448 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
36510487 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
36510526 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
36510565 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
36510605 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
36510631 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:36510666 original size:79 final size:79
Alignment explanation
Indices: 36510454--36510668 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
36510444 CGAGTGATAT
** * * * * * *
36510454 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
36510517 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
36510532 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
36510597 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
36510611 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
36510669 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:36512910 original size:55 final size:53
Alignment explanation
Indices: 36512833--36513022 Score: 185
Period size: 53 Copynumber: 3.6 Consensus size: 53
36512823 AAGGAAATCG
* * *
36512833 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAATG-TCCCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGATACCA
* * * *
36512888 TGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGATACCA
* *
36512941 TGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---AAGGATATCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGCAAGGATACCA
* * * *
36512990 CGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAG
36513023 GTACCTGCGT
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 39 0.33
51 1 0.01
52 5 0.04
53 41 0.35
54 1 0.01
55 30 0.26
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
TGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGATACCA
Found at i:36522530 original size:40 final size:40
Alignment explanation
Indices: 36522485--36522652 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
36522475 CGGAATATAA
36522485 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
36522525 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36522565 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
36522605 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
36522645 CCGGATAT
1 CCGGATAT
36522653 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36522635 original size:80 final size:80
Alignment explanation
Indices: 36522501--36522650 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
36522491 ATAACCACGT
* *
36522501 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
36522566 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
36522581 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
36522644 CCCGGAT
64 CCCGGAT
36522651 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:36524646 original size:18 final size:17
Alignment explanation
Indices: 36524614--36524647 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36524604 AAATGCATAG
36524614 ACTTTTTATTAAATTTT
1 ACTTTTTATTAAATTTT
*
36524631 ACTTTATTATTTAATTT
1 ACTTT-TTATTAAATTT
36524648 GAATATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ACTTTTTATTAAATTTT
Found at i:36536955 original size:40 final size:40
Alignment explanation
Indices: 36536910--36537039 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
36536900 CGGAATACAA
36536910 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
36536950 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
36536990 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
36537030 CCGGATATAA
1 CCGGATATAA
36537040 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:36539648 original size:6 final size:6
Alignment explanation
Indices: 36539628--36539667 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
36539618 TAAAGAAGAT
* *
36539628 AAATAA AGATAA AAATGA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
36539668 GTTCTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:36541362 original size:19 final size:21
Alignment explanation
Indices: 36541338--36541379 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
36541328 TTTCAATTTA
36541338 AATTTTT-ATTTTATT-TTCT
1 AATTTTTCATTTTATTCTTCT
*
36541357 AATTTTTCATTTTTTTCTTCT
1 AATTTTTCATTTTATTCTTCT
36541378 AA
1 AA
36541380 CAGGTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (21 bp):
AATTTTTCATTTTATTCTTCT
Found at i:36550809 original size:3 final size:3
Alignment explanation
Indices: 36550801--36550849 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
36550791 GATTTGTTCT
36550801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36550849 T
1 T
36550850 TCATTACATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:36554495 original size:40 final size:40
Alignment explanation
Indices: 36554436--36554601 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
36554426 AACCCAAGTA
* * **
36554436 CCTTCGAGATTTAG-CCGGATATAG-CAACTCCCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * **
36554475 CCTTCGGGACTTAACCCGGATGTAACCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
36554515 CCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
36554555 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
36554595 CCTTCGG
1 CCTTCGG
36554602 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 11 0.10
40 100 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:36555647 original size:24 final size:24
Alignment explanation
Indices: 36555603--36555648 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
36555593 ACAATTTTAG
* *
36555603 AACATCTAAACAGCACTTGTTCAA
1 AACATCTAAACAACACATGTTCAA
36555627 AACAT-TAAACAACTACATGTTC
1 AACATCTAAACAAC-ACATGTTC
36555649 GGCTATTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (24 bp):
AACATCTAAACAACACATGTTCAA
Found at i:36556037 original size:13 final size:13
Alignment explanation
Indices: 36556021--36556048 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36556011 TTTATTATTT
36556021 TTAACACAAAATA
1 TTAACACAAAATA
36556034 TTAACACAAAATA
1 TTAACACAAAATA
36556047 TT
1 TT
36556049 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:36561339 original size:13 final size:13
Alignment explanation
Indices: 36561321--36561346 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36561311 GCTCGACAGG
36561321 GACACGCCCGTGT
1 GACACGCCCGTGT
36561334 GACACGCCCGTGT
1 GACACGCCCGTGT
36561347 ACGATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:36567173 original size:12 final size:13
Alignment explanation
Indices: 36567149--36567177 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36567139 GGGCTATAAC
36567149 TATTGCATTTATT
1 TATTGCATTTATT
36567162 TATTGC-TTTATT
1 TATTGCATTTATT
36567174 TATT
1 TATT
36567178 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:36570218 original size:2 final size:2
Alignment explanation
Indices: 36570211--36570235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36570201 GAGACTAGTC
36570211 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36570236 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36572266 original size:30 final size:30
Alignment explanation
Indices: 36572232--36572292 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36572222 TCCTTAACTC
36572232 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36572262 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36572292 A
1 A
36572293 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36574660 original size:2 final size:2
Alignment explanation
Indices: 36574653--36574677 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36574643 GAGACTAGTC
36574653 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36574678 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36580435 original size:66 final size:68
Alignment explanation
Indices: 36580359--36580545 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
36580349 TAGTACCACT
*
36580359 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
36580421 CACG
65 CACG
36580425 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
36580490 ATCACG
63 ATCACG
36580496 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
36580546 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:36580470 original size:71 final size:71
Alignment explanation
Indices: 36580382--36580545 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
36580372 CGATTTGTCT
36580382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
36580447 CTTTCA
66 CTTTCA
36580453 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
36580518 CTTTCA
66 CTTTCA
36580524 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
36580546 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:36580583 original size:71 final size:70
Alignment explanation
Indices: 36580382--36580579 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
36580372 CGATTTGTCT
* * *
36580382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
36580447 CTTTCA
65 CTTTCA
* * *
36580453 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
36580518 CTTTCA
65 CTTTCA
* *
36580524 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
36580580 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:36588003 original size:66 final size:68
Alignment explanation
Indices: 36587927--36588113 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
36587917 TAGTACCACT
*
36587927 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
36587989 CACG
65 CACG
36587993 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
36588058 ATCACG
63 ATCACG
36588064 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
36588114 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:36588038 original size:71 final size:71
Alignment explanation
Indices: 36587950--36588113 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
36587940 CGATTTGTCT
36587950 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
36588015 CTTTCA
66 CTTTCA
36588021 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
36588086 CTTTCA
66 CTTTCA
36588092 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
36588114 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:36588151 original size:71 final size:70
Alignment explanation
Indices: 36587950--36588147 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
36587940 CGATTTGTCT
* * *
36587950 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
36588015 CTTTCA
65 CTTTCA
* * *
36588021 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
36588086 CTTTCA
65 CTTTCA
* *
36588092 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
36588148 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:36589947 original size:5 final size:5
Alignment explanation
Indices: 36589937--36589965 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
36589927 ATTAATAAAT
36589937 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
36589966 GCAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:36597870 original size:93 final size:93
Alignment explanation
Indices: 36597711--36597881 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
36597701 GAATGGTTGA
* * *
36597711 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTAGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTAGTTGAGT
36597776 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
36597804 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCA-TTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACT-AGTTGAG
36597868 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
36597882 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTAGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36597884 original size:46 final size:46
Alignment explanation
Indices: 36597717--36597886 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
36597707 TTGAGCATCT
* * * *
36597717 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* * *
36597763 GAACT-AGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCA-TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CC
*
36597810 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
*
36597856 GAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTA
36597887 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 55 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:36604976 original size:129 final size:129
Alignment explanation
Indices: 36604818--36605076 Score: 419
Period size: 129 Copynumber: 2.0 Consensus size: 129
36604808 GATAATATTA
* *
36604818 TGCTTATGATGCATATATGCAGTGGTAATGAGCAGAAAATCAATAAGCAACATATGTGTGTTTAA
1 TGCTTATGATGAAAATATGCAGTGGTAATGAGCAGAAAATCAATAAGCAACATATGTGTGTTTAA
* * *
36604883 TAACATATATTTTGGCCTTGTAACACTTGAGATCATTGTATATAGTTGGCATGCCATAGGATTG
66 TAACATATATTTTGGCCCTGTAACACTTGAGACCATTGGATATAGTTGGCATGCCATAGGATTG
* * **
36604947 TGCTTATGATGAAAATATGTAGTGGTAATGAGCAGAGAATCGGTAAGCAACATATGTGTGTTTAA
1 TGCTTATGATGAAAATATGCAGTGGTAATGAGCAGAAAATCAATAAGCAACATATGTGTGTTTAA
* *
36605012 TAACATATATTTTGGCCCTGTGACACTTGAGACCATTGGATATATTTGGCATGCCATAGGATTG
66 TAACATATATTTTGGCCCTGTAACACTTGAGACCATTGGATATAGTTGGCATGCCATAGGATTG
36605076 T
1 T
36605077 AATTACGCAC
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (129 bp):
TGCTTATGATGAAAATATGCAGTGGTAATGAGCAGAAAATCAATAAGCAACATATGTGTGTTTAA
TAACATATATTTTGGCCCTGTAACACTTGAGACCATTGGATATAGTTGGCATGCCATAGGATTG
Found at i:36607385 original size:45 final size:46
Alignment explanation
Indices: 36607336--36607460 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
36607326 TGGTTGAGCA
* *
36607336 TCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
36607381 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
36607427 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36607461 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 26 0.36
46 47 0.64
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:36607721 original size:19 final size:20
Alignment explanation
Indices: 36607684--36607721 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36607674 ATAAGGTGGT
36607684 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36607704 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36607722 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36614884 original size:46 final size:46
Alignment explanation
Indices: 36614834--36615005 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
36614824 TGGTTGAGCA
36614834 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
36614880 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
36614924 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
36614972 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36615006 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
44 2 0.02
46 87 0.82
48 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:36614988 original size:92 final size:92
Alignment explanation
Indices: 36614831--36615000 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
36614821 GGATGGTTGA
* * *
36614831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36614896 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
* *
36614923 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36614988 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36615001 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:36615267 original size:19 final size:20
Alignment explanation
Indices: 36615230--36615267 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36615220 ATAAGGTGGT
36615230 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36615250 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36615268 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36617334 original size:43 final size:42
Alignment explanation
Indices: 36617258--36617357 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
36617248 AGATTTATGT
36617258 GTAAGACCATGTCTGGGACATCGGCATCATATTTGATTTCGA
1 GTAAGACCATGTCTGGGACATCGGCATCATATTTGATTTCGA
* * * *
36617300 GTAAGACCCTTTCTGGGATAGT-GGCATCGATATTTGATTAC-A
1 GTAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGATTTCGA
*
36617342 TGTAAGACCACGTCTG
1 -GTAAGACCATGTCTG
36617358 AGACGTTGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 24 0.50
43 24 0.50
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATCGGCATCATATTTGATTTCGA
Found at i:36617368 original size:43 final size:43
Alignment explanation
Indices: 36617199--36617369 Score: 118
Period size: 43 Copynumber: 4.0 Consensus size: 43
36617189 ATAGGATTCT
* ** * *
36617199 GATATTTGATTTCATACAAGACCATGTCTGAGATGTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCATC
* ** * * * *
36617242 GAT-TTGAGATTTATGTGTAAGACCATGTCTGGGACATCGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGAGACGTTGGCATC
* * * *
36617286 -ATATTTGATTTCGA-GTAAGACC-CTTTCTGGGATAG-TGGCATC
1 GATATTTGATTAC-ATGTAAGACCAC-GTCTGAGA-CGTTGGCATC
36617328 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCAT
36617370 TGTACTAGCT
Statistics
Matches: 95, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 28 0.29
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCATC
Found at i:36620574 original size:40 final size:39
Alignment explanation
Indices: 36620529--36620736 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
36620519 CGGAATACAA
*
36620529 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
36620569 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
36620609 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
36620649 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * * *
36620689 CAGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
36620729 CCGGATAT
1 CCGGATAT
36620737 CATTTAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:36620676 original size:80 final size:81
Alignment explanation
Indices: 36620529--36620734 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
36620519 CGGAATACAA
* * * *
36620529 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
36620593 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
36620609 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
36620672 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * * ** * *
36620689 CAGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
36620735 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 103 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:36636792 original size:24 final size:24
Alignment explanation
Indices: 36636760--36636815 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
36636750 CACCTAGAAA
36636760 TAGGGTGACAAGATTTTGCCAGAT
1 TAGGGTGACAAGATTTTGCCAGAT
36636784 TAGGGTGACAAGATTTTGCCAGAT
1 TAGGGTGACAAGATTTTGCCAGAT
36636808 TAGGGTGA
1 TAGGGTGA
36636816 AATCTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (24 bp):
TAGGGTGACAAGATTTTGCCAGAT
Found at i:36643950 original size:40 final size:40
Alignment explanation
Indices: 36643895--36644115 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
36643885 CATTTGAATG
36643895 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
36643935 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
36643975 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
36644015 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * * *
36644055 ATGTCCAGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
36644095 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
36644116 AAACTTGGGT
Statistics
Matches: 167, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 154 0.92
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:36648620 original size:12 final size:12
Alignment explanation
Indices: 36648598--36648627 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36648588 TAATAAGGGG
36648598 ATTAG-GTGTTA
1 ATTAGAGTGTTA
36648609 ATTAGAGTGTTA
1 ATTAGAGTGTTA
36648621 ATTAGAG
1 ATTAGAG
36648628 AAAATTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (12 bp):
ATTAGAGTGTTA
Found at i:36650965 original size:54 final size:54
Alignment explanation
Indices: 36650903--36651024 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
36650893 TTGTCGTTGC
* **
36650903 AGGGGATTTAGCCTGGACTAGG-AATCCCCACATTACTCTTTGAGTTTATACTGC
1 AGGGGATTTAGCCTGGACT-GGTAATCCCCACATTACTCTATGAGTTTATACTAA
* **
36650957 GGGGGATTTAGCCTGGACTGGTAATCCTGACATTACTCTATGAGTTTATACTAA
1 AGGGGATTTAGCCTGGACTGGTAATCCCCACATTACTCTATGAGTTTATACTAA
36651011 AGGGGATTTAGCCT
1 AGGGGATTTAGCCT
36651025 ATACTATTAG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.03
54 58 0.97
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (54 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCCACATTACTCTATGAGTTTATACTAA
Found at i:36651039 original size:54 final size:54
Alignment explanation
Indices: 36650903--36651039 Score: 157
Period size: 54 Copynumber: 2.5 Consensus size: 54
36650893 TTGTCGTTGC
* * ** * **
36650903 AGGGGATTTAGCCTGGACTAGGAATCCCCACATTACTCTTTGAGTTTATACTGC
1 AGGGGATTTAGCCTAGACTAGTAATCCTGACATTACTCTATGAGTTTATACTAA
* * *
36650957 GGGGGATTTAGCCTGGACTGGTAATCCTGACATTACTCTATGAGTTTATACTAA
1 AGGGGATTTAGCCTAGACTAGTAATCCTGACATTACTCTATGAGTTTATACTAA
* * *
36651011 AGGGGATTTAGCCTATACTATTAGTCCTG
1 AGGGGATTTAGCCTAGACTAGTAATCCTG
36651040 CTGTAAAAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (54 bp):
AGGGGATTTAGCCTAGACTAGTAATCCTGACATTACTCTATGAGTTTATACTAA
Found at i:36666195 original size:93 final size:93
Alignment explanation
Indices: 36666083--36666254 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
36666073 CGCCCATAAG
* *
36666083 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36666148 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
36666176 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36666241 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
36666255 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:36666251 original size:46 final size:46
Alignment explanation
Indices: 36666076--36666251 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
36666066 TGTAACCCGC
* * *
36666076 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
36666122 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
36666172 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
36666215 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
36666252 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:36673591 original size:46 final size:45
Alignment explanation
Indices: 36673524--36673742 Score: 268
Period size: 46 Copynumber: 4.8 Consensus size: 45
36673514 TGTAACCCGC
* * *
36673524 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCAT
*
36673570 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTGCAT
* * *
36673620 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCAT
*
36673663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-ATGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCAT
36673707 CCATAAGTGAACT-GGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36673743 TGCTCAACCA
Statistics
Matches: 153, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.01
43 26 0.17
44 19 0.12
45 3 0.02
46 64 0.42
47 29 0.19
48 2 0.01
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCAT
Found at i:36673643 original size:93 final size:93
Alignment explanation
Indices: 36673531--36673699 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
36673521 CGCCCATAAG
* *
36673531 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36673596 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
36673624 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36673689 ACGAGTTCGGA
66 ACGAGTTCGGA
36673700 CATGCATCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:36686245 original size:43 final size:43
Alignment explanation
Indices: 36686184--36686272 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 43
36686174 TATAAGGGTC
* *
36686184 ACACGCCCGTGAGAACAGGCCATATGCCTCACACAGTCACCAG
1 ACACGCCCATGAGAACAGGCCATATGCCACACACAGTCACCAG
* ** * *
36686227 ACACGCCTATGAGAACAGGCTGTGTGCCACACACGGTCACCAG
1 ACACGCCCATGAGAACAGGCCATATGCCACACACAGTCACCAG
36686270 ACA
1 ACA
36686273 TGTCCGTGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.35, G:0.22, T:0.12
Consensus pattern (43 bp):
ACACGCCCATGAGAACAGGCCATATGCCACACACAGTCACCAG
Found at i:36689232 original size:30 final size:30
Alignment explanation
Indices: 36689198--36689258 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36689188 TCCTTAACTC
36689198 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36689228 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36689258 A
1 A
36689259 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36691531 original size:43 final size:43
Alignment explanation
Indices: 36691460--36691563 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
36691450 TTATCATAGT
*
36691460 CGATGCCACTGTCCCAGACAGGGCCTTACACGA-AATCA-AATAA
1 CGATGCCAATGTCCCAGACAGGGCCTTACAC-ATAATCACAAT-A
** * *
36691503 CGATGCCAATGTCCTGGACATGGTCTTACACATAATCACAATA
1 CGATGCCAATGTCCCAGACAGGGCCTTACACATAATCACAATA
*
36691546 CAATGCCAATGTCCCAGA
1 CGATGCCAATGTCCCAGA
36691564 ATGGTCTCGC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 47 0.92
44 3 0.06
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAGGGCCTTACACATAATCACAATA
Found at i:36694395 original size:28 final size:27
Alignment explanation
Indices: 36694332--36694401 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
36694322 ATAGTGAGTC
36694332 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
36694359 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
36694387 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36694402 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:36701401 original size:26 final size:27
Alignment explanation
Indices: 36701372--36701427 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
36701362 GTTTAGAAAT
36701372 TTTGTCGATA-GGGGTCCAATTTGATA
1 TTTGTCGATAGGGGGTCCAATTTGATA
36701398 TTTGTCGATAGGGGGTCCAATTTGATA
1 TTTGTCGATAGGGGGTCCAATTTGATA
36701425 TTT
1 TTT
36701428 AGGACTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (27 bp):
TTTGTCGATAGGGGGTCCAATTTGATA
Found at i:36703712 original size:18 final size:19
Alignment explanation
Indices: 36703679--36703714 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36703669 TTAAATTTAG
*
36703679 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
36703698 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
36703715 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:36707091 original size:40 final size:39
Alignment explanation
Indices: 36706941--36707093 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
36706931 AAATGTTCGA
* *
36706941 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
36706980 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
36707019 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
36707058 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
36707094 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:36707109 original size:40 final size:39
Alignment explanation
Indices: 36706942--36707124 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
36706932 AATGTTCGAG
* * *
36706942 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
36706981 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
36707020 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
36707059 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
36707099 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
36707125 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:36707160 original size:79 final size:79
Alignment explanation
Indices: 36706948--36707162 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
36706938 CGAGTGATAT
** * * * * * *
36706948 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
36707011 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
36707026 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
36707091 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
36707105 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
36707163 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:36713511 original size:29 final size:27
Alignment explanation
Indices: 36713477--36713579 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
36713467 TACTCAATCA
*
36713477 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
36713506 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
36713535 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
36713564 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
36713580 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:36723712 original size:29 final size:27
Alignment explanation
Indices: 36723678--36723780 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
36723668 TACTCAATCA
*
36723678 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
36723707 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
36723736 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
36723765 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
36723781 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:36731094 original size:38 final size:39
Alignment explanation
Indices: 36731052--36731150 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 39
36731042 CCATCTCCGT
* * * *
36731052 CCAACCCAACACACCACG-TGGGAATGAAATCGACCCAC
1 CCAACCCTACACACCAAGATGGGAATAAAATCAACCCAC
* *
36731090 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAG-ATGGGAATAAAATCAACCCAC
36731130 CCAACCCTACACACCAA-ATGG
1 CCAACCCTACACACCAAGATGG
36731151 TACCGTATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 20 0.38
40 33 0.62
ACGTcount: A:0.38, C:0.37, G:0.13, T:0.11
Consensus pattern (39 bp):
CCAACCCTACACACCAAGATGGGAATAAAATCAACCCAC
Found at i:36739494 original size:28 final size:28
Alignment explanation
Indices: 36739448--36739516 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
36739438 TTTAAAACCC
*
36739448 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
36739475 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
36739503 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
36739517 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:36741361 original size:18 final size:18
Alignment explanation
Indices: 36741327--36741369 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36741317 ATACATACAG
*
36741327 TAAT-ATTTTTCTAATAA
1 TAATAATTTATCTAATAA
*
36741344 TAATAATTTATCTCATAA
1 TAATAATTTATCTAATAA
*
36741362 TACTAATT
1 TAATAATT
36741370 AAAATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATTTATCTAATAA
Done.