Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 293 of 335
Found at i:87845520 original size:13 final size:13
Alignment explanation
Indices: 87845502--87845526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87845492 AGAATTTGTA
87845502 TAAAAAAATATAC
1 TAAAAAAATATAC
87845515 TAAAAAAATATA
1 TAAAAAAATATA
87845527 TATTTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAATATAC
Found at i:87848974 original size:24 final size:24
Alignment explanation
Indices: 87848927--87849109 Score: 109
Period size: 28 Copynumber: 7.2 Consensus size: 24
87848917 ACAAAATAAC
* *
87848927 ATATAAAACAATTTGAAGTAAATA
1 ATATAAAACAATTTAAAATAAATA
* *
87848951 GTATAAAACAATTTAAAATGAATA
1 ATATAAAACAATTTAAAATAAATA
87848975 ATATGTAAAACAAATATTAAAATAAATA
1 ATA--TAAAAC-AAT-TTAAAATAAATA
*
87849003 ATATATAAAGCAATTCAAAATAAATA
1 ATATA-AAA-CAATTTAAAATAAATA
* * * *
87849029 ATTTACAAAACACTTTAAAA-GAA-C
1 A--TATAAAACAATTTAAAATAAATA
* * * *
87849053 ATATAAAAGAGTTTAAGATAGATA
1 ATATAAAACAATTTAAAATAAATA
* *
87849077 ATATGTAAAAAGAAATTTAAAATAAGTA
1 ATA--T-AAAA-CAATTTAAAATAAATA
87849105 ATATA
1 ATATA
87849110 CAAAGCAGTT
Statistics
Matches: 121, Mismatches: 24, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.11
23 1 0.01
24 26 0.21
25 3 0.02
26 30 0.25
27 16 0.13
28 32 0.26
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (24 bp):
ATATAAAACAATTTAAAATAAATA
Found at i:87849029 original size:26 final size:26
Alignment explanation
Indices: 87848920--87849333 Score: 137
Period size: 26 Copynumber: 15.8 Consensus size: 26
87848910 AAACAAAACA
* * *
87848920 AAATAACATATAAAACAATTTGAAGT
1 AAATAATATATAAAACAATTTAAAAT
*
87848946 AAAT-A-GTATAAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
87848970 GAATAATATGTAAAACAAATATTAAAAT
1 AAATAATATATAAAAC-AAT-TTAAAAT
* *
87848998 AAATAATATATAAAGCAATTCAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * *
87849024 AAATAATTTACAAAACACTTT---A-
1 AAATAATATATAAAACAATTTAAAAT
* * * * *
87849046 AAAGAACATATAAAAGAGTTTAAGAT
1 AAATAATATATAAAACAATTTAAAAT
* * *
87849072 AGATAATATGTAAAAAGAAATTTAAAAT
1 AAATAATATAT-AAAA-CAATTTAAAAT
* * * *
87849100 AAGTAATATACAAAGCAGTTTTTTTAAAATT
1 AAATAATATATAAAACA----ATTTAAAA-T
* *
87849131 AAAATAA-AAAT-AAA-AA-TAAAAAT
1 -AAATAATATATAAAACAATTTAAAAT
* * *
87849154 AAA-AGATATATATATATAATAGTTCAAAAC
1 AAATA-ATATATA-AAACAAT--TT-AAAAT
* *
87849184 AAATAATATATATAATAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
***
87849210 AAATAA-ATAATAAAAGGGTTTAAAAT
1 AAATAATAT-ATAAAACAATTTAAAAT
* *
87849236 AAGTAATACAGTGAAAAC---TTAAAAT
1 AAATAATATA-T-AAAACAATTTAAAAT
* * *
87849261 ATATAATA-ATAAAATAGTTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
87849286 -GATAATATA-AGAAA-AGACTTAAAAT
1 AAATAATATATA-AAACA-ATTTAAAAT
87849311 AAATAATAATAATAAAACAATTT
1 AAATAAT-AT-ATAAAACAATTT
87849334 TCTTTTGAAA
Statistics
Matches: 284, Mismatches: 63, Indels: 80
0.67 0.15 0.19
Matches are distributed among these distances:
21 1 0.00
22 23 0.08
23 6 0.02
24 33 0.12
25 38 0.13
26 77 0.27
27 19 0.07
28 46 0.16
29 9 0.03
30 23 0.08
31 4 0.01
32 5 0.02
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:87849134 original size:6 final size:6
Alignment explanation
Indices: 87849125--87849157 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
87849115 CAGTTTTTTT
*
87849125 AAAATT AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
87849158 GATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:87849281 original size:50 final size:50
Alignment explanation
Indices: 87849203--87849322 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
87849193 ATATAATAAT
* * *
87849203 TTAAAATAAATAAATAATAAAAGGGTTTAAAATAAGTAATA-CAGTGAAA-AC
1 TTAAAATAAAT-AATAATAAAAGAGTTTAAAATAA-TAATATAAG-AAAAGAC
* * *
87849254 TTAAAATATATAATAATAAAATAGTTTAAAATGATAATATAAGAAAAGAC
1 TTAAAATAAATAATAATAAAAGAGTTTAAAATAATAATATAAGAAAAGAC
87849304 TTAAAATAAATAATAATAA
1 TTAAAATAAATAATAATAA
87849323 TAAAACAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
49 8 0.13
50 42 0.70
51 10 0.17
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (50 bp):
TTAAAATAAATAATAATAAAAGAGTTTAAAATAATAATATAAGAAAAGAC
Found at i:87851095 original size:18 final size:18
Alignment explanation
Indices: 87851072--87851109 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
87851062 ATTTAGGCCC
87851072 TTTATAATTTATAAAATT
1 TTTATAATTTATAAAATT
87851090 TTTATAATTTATAAAATT
1 TTTATAATTTATAAAATT
87851108 TT
1 TT
87851110 AAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATAATTTATAAAATT
Found at i:87852927 original size:21 final size:20
Alignment explanation
Indices: 87852903--87852944 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
87852893 TTTCTCTCAC
*
87852903 TTATCTATTTTTTTTAAATTT
1 TTATCTATTTTTATT-AATTT
87852924 TTATCTATTTTTATTAATTT
1 TTATCTATTTTTATTAATTT
87852944 T
1 T
87852945 CAAATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATCTATTTTTATTAATTT
Found at i:87852968 original size:25 final size:25
Alignment explanation
Indices: 87852923--87852976 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
87852913 TTTTTAAATT
87852923 TTTATCTATTTTTATTAATTTTCAAA
1 TTTATCTATTTTTA-TAATTTTCAAA
* *
87852949 TTTATGTATTTTTA-AGATTTTCTAA
1 TTTATCTATTTTTATA-ATTTTCAAA
87852974 TTT
1 TTT
87852977 TAAAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 11 0.44
26 13 0.52
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTATCTATTTTTATAATTTTCAAA
Found at i:87868708 original size:3 final size:3
Alignment explanation
Indices: 87868700--87868746 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
87868690 CCCATTTTCC
87868700 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87868747 CCTTTATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87875441 original size:3 final size:3
Alignment explanation
Indices: 87875433--87875467 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
87875423 CCCATTTTCC
87875433 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87875468 CCTTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87879831 original size:162 final size:160
Alignment explanation
Indices: 87879631--87880156 Score: 668
Period size: 162 Copynumber: 3.3 Consensus size: 160
87879621 TATCTTCCCA
* * * * *
87879631 GTTGCTAATAGCCCTGGGTAATTGCATGCTTTGAAGATAAAGAGTTTTCGGAGCTTGGAAGGTAT
1 GTTGCTAATAGCCTTGGGCAATTACATACTTTGAAGATAAAGAGTTTTCGGAGCTTGGAAGGCAT
* *
87879696 AATCCAAGACTCACAAGTGCCATACATAAGTATTCAAAGTTTAATGGAAATTGAAGTTGAAAAAT
66 AATCCAAGACTCACAAGTGCCATACATAAG-CTTCAAAGTTTAA-GGAAATAGAAGTTGAAAAAT
* * *
87879761 ACGATAATTTAAAGTGTCTCTTCCCAATGTCT
129 GCGATAATTTAAAGTATCTCTTCCCACTGTCT
* **
87879793 GTTGCTAATAGCCTTGGGCAACTACATACTTTGAAGATAAAGAGTTGCCGGAGCTTGGAAGGCAT
1 GTTGCTAATAGCCTTGGGCAATTACATACTTTGAAGATAAAGAGTTTTCGGAGCTTGGAAGGCAT
*
87879858 AATCCAAGACTCACAAGTGCCATACATAAGCCTCTAAAGTTTAAGAGAAATAGAAGTTGAAAAAT
66 AATCCAAGACTCACAAGTGCCATACATAAGCTTC-AAAGTTTAAG-GAAATAGAAGTTGAAAAAT
* * * *
87879923 GCAATAATTTAAAATATCTCTTCCCACTTTTT
129 GCGATAATTTAAAGTATCTCTTCCCACTGTCT
* * * *
87879955 GTTGCTAATAGCCTTGGGCAAATGCATACTTTGAAGATAAAGAG-TTGCTAGAGCTTGGAAGGCA
1 GTTGCTAATAGCCTTGGGCAATTACATACTTTGAAGATAAAGAGTTTTC-GGAGCTTGGAAGGCA
* * * *
87880019 TAATTCAAGACTCACAAGTGCCATAC-----CTCCAAATTTTAAGGGAAATAAAAGTTGAAAAAT
65 TAATCCAAGACTCACAAGTGCCATACATAAGCTTCAAAGTTTAA-GGAAATAGAAGTTGAAAAAT
*
87880079 GCGATAATTTGAAGTATCTCTTCCCACTGTCT
129 GCGATAATTTAAAGTATCTCTTCCCACTGTCT
* * * * *
87880111 ATTGCTAATACCCTTGCGTAATTACATACTTTGAAGATAAAAAGTT
1 GTTGCTAATAGCCTTGGGCAATTACATACTTTGAAGATAAAGAGTT
87880157 GCTCGCAATT
Statistics
Matches: 319, Mismatches: 40, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
156 90 0.28
157 4 0.01
161 5 0.02
162 220 0.69
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (160 bp):
GTTGCTAATAGCCTTGGGCAATTACATACTTTGAAGATAAAGAGTTTTCGGAGCTTGGAAGGCAT
AATCCAAGACTCACAAGTGCCATACATAAGCTTCAAAGTTTAAGGAAATAGAAGTTGAAAAATGC
GATAATTTAAAGTATCTCTTCCCACTGTCT
Found at i:87884515 original size:16 final size:14
Alignment explanation
Indices: 87884486--87884528 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
87884476 TTAAAATAAA
*
87884486 ATATAAAAAAATAT
1 ATATAATAAAATAT
* * *
87884500 TTACATTAAAATAT
1 ATATAATAAAATAT
87884514 ATATAATAAAATAT
1 ATATAATAAAATAT
87884528 A
1 A
87884529 AAATATTATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAATAAAATAT
Found at i:87884533 original size:12 final size:12
Alignment explanation
Indices: 87884477--87884533 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
87884467 ATATATAGTT
87884477 TAAAATAAAATA
1 TAAAATAAAATA
*
87884489 TAAAA-AAATATT
1 TAAAATAAA-ATA
* *
87884501 TACATTAAAATA
1 TAAAATAAAATA
87884513 TATATAATAAAATA
1 TA-A-AATAAAATA
87884527 TAAAATA
1 TAAAATA
87884534 TTATAACATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
11 3 0.09
12 18 0.51
13 4 0.11
14 10 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:87884929 original size:19 final size:16
Alignment explanation
Indices: 87884906--87884960 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 16
87884896 TTTGTATATG
87884906 AATATATAAAAATAAT
1 AATATATAAAAATAAT
87884922 ATTGATATATAAAAA-AAT
1 A---ATATATAAAAATAAT
87884940 AATATATAAATAATAAT
1 AATATATAAA-AATAAT
87884957 AATA
1 AATA
87884961 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 7 0.21
18 4 0.12
19 11 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AATATATAAAAATAAT
Found at i:87884946 original size:17 final size:17
Alignment explanation
Indices: 87884907--87884960 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
87884897 TTGTATATGA
*
87884907 ATATATAAAAATAATATT
1 ATATATAAAAA-AATAAT
87884925 GATATATAAAAAAATAAT
1 -ATATATAAAAAAATAAT
*
87884943 ATATA-AATAATAATAAT
1 ATATATAA-AAAAATAAT
87884960 A
1 A
87884961 AATTTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 2 0.06
17 14 0.44
18 5 0.16
19 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATATAAAAAAATAAT
Found at i:87884983 original size:6 final size:6
Alignment explanation
Indices: 87884974--87885031 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
87884964 TTAAAATTTT
**
87884974 ATATTA ATATTA ATATTA ATATTA ATATTCA ATACAA ATCA-TA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATT-A ATATTA AT-ATTA ATATTA
87885023 ATATTA ATA
1 ATATTA ATA
87885032 AATTAAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.02
6 40 0.87
7 5 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATTA
Found at i:87889107 original size:15 final size:15
Alignment explanation
Indices: 87889087--87889140 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
87889077 ATACTACAAA
87889087 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
87889102 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
87889119 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
87889136 ATATT
1 ATATT
87889141 AATATAGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:87889223 original size:20 final size:20
Alignment explanation
Indices: 87889198--87889263 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
87889188 TTATTTTTAA
87889198 AATTTATTTTAATATTAAAT
1 AATTTATTTTAATATTAAAT
** *
87889218 AATTTATTAAAATAATAAATT
1 AATTTATTTTAATATTAAA-T
87889239 ATATTTA--TT-ATATT-AAT
1 A-ATTTATTTTAATATTAAAT
87889256 AATTTATT
1 AATTTATT
87889264 ATATCACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
16 5 0.14
17 2 0.06
18 2 0.06
19 4 0.11
20 16 0.44
21 2 0.06
22 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTATTTTAATATTAAAT
Found at i:87889247 original size:22 final size:22
Alignment explanation
Indices: 87889219--87889262 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
87889209 ATATTAAATA
87889219 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
87889241 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
87889263 TATATCACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:87889256 original size:25 final size:25
Alignment explanation
Indices: 87889201--87889267 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 25
87889191 TTTTTAAAAT
* *
87889201 TTATTTTAATATTAAA-TA-ATTTA
1 TTATATTAATAATAAATTATATTTA
87889224 TTA-A--AATAATAAATTATATTTA
1 TTATATTAATAATAAATTATATTTA
**
87889246 TTATATTAATAATTTATTATAT
1 TTATATTAATAATAAATTATAT
87889268 CACTAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 8 0.23
21 2 0.06
22 8 0.23
23 4 0.11
25 13 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATATTAATAATAAATTATATTTA
Found at i:87891423 original size:19 final size:20
Alignment explanation
Indices: 87891401--87891439 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
87891391 AAAAAATTAG
87891401 AAATTTT-ATAAA-TATTTTA
1 AAATTTTGA-AAATTATTTTA
87891420 AAATTTTGAAAATTATTTTA
1 AAATTTTGAAAATTATTTTA
87891440 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTTTGAAAATTATTTTA
Found at i:87895893 original size:839 final size:839
Alignment explanation
Indices: 87894242--87895918 Score: 2942
Period size: 839 Copynumber: 2.0 Consensus size: 839
87894232 CTTTGATTTT
* * * *
87894242 TGCATTGGCATAAGAAGAGAAAGTTGGTATGAAAAGAGGCACCTTGAAATTTGTCCAATCTCAAG
1 TGCATTAGCACAAGAAGAGAAAGTTGGTACGAAAAGAGGCACCTTGAAACTTGTCCAATCTCAAG
* *
87894307 ATCTTTGAGAATCGGTAAGTCTGTAGATGCATGCAAGCAACTATTTGAAGATGTAGAATCTCTTG
66 ATCTTTGAGAATCGATAAGTCTGAAGATGCATGCAAGCAACTATTTGAAGATGTAGAATCTCTTG
* *
87894372 AATTGGGTGATGTGAAGGGTCACCCAAACCTTATTCCGAGCTTGGACTTGGGATTTAGTAAGTTG
131 AATTGGATGATGTGAAGGGTCACCCAAAACTTATTCCGAGCTTGGACTTGGGATTTAGTAAGTTG
* *
87894437 ACTTCTCTAGATCTTCGATGGTGCAACTCTATGCAATGCCTAATTGATGCATCAAAGCAACAGGT
196 ACTTCTCTAGATCTTCGATGGTACAACTCTAAGCAATGCCTAATTGATGCATCAAAGCAACAGGT
87894502 GCCAATCACTGCATTCTCTAATTTGAGAAAGTTATCATTAAGTTGTATGTTTGATTTGGAAGAGA
261 GCCAATCACTGCATTCTCTAATTTGAGAAAGTTATCATTAAGTTGTATGTTTGATTTGGAAGAGA
* *
87894567 TGTGCAATGTTCCCCAGCCGCAAGGTTTTTTACAAAAGCTTGAAGAGGTTAAAGTTGAAGGTTGT
326 TGTGCAATGTTCCCCAGCCGCAAGGTTTTTTACAAAAGCTTGAAGAGGTTAAAGTTGAAAGCTGT
* * * *
87894632 TATAATATGCAAGTTTTATTCCCGATTGTTGAATTTAGGGGCATAGAACAGGAAGGGCCCAGTCG
391 TATAATATGCAAGTTTTATTCCCGATTGTTGAATTGAGGAGCATAGAACAAGAAGGGCACAGTCG
*
87894697 TCATTTAAGCCTCCAAAGTCTGAAGATTGTTGAAATAGAGGGATGCGTTAATTTGAAATATATCT
456 TCATTTAAGCCTCCAAAGTCTGAAGATTGTTGAAATAGAGGGATGCGATAATTTGAAATATATCT
87894762 TCCCAATGTCAGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTCACAA
521 TCCCAATGTCAGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTCACAA
*
87894827 TTGGAAGATATAATCCAAGACAGACCATTGGCATACAAATGTCTACTCCAAAGTCTAAGGGATGT
586 TTGGAAGATATAATCCAAGACAGACCAGTGGCATACAAATGTCTACTCCAAAGTCTAAGGGATGT
*
87894892 ATGTGTGTCTCATTGCAATAACTTGACATCTCTTTTCCTTATTGTTCTATGGTCAAAGATTGGGA
651 ATGTGTATCTCATTGCAATAACTTGACATCTCTTTTCCTTATTGTTCTATGGTCAAAGATTGGGA
* * **
87894957 AATTTGATTATACTTTTCATTTCAGGTTTCGTTGATTGATTTGCCTCAATTGAAAGGAAGGGATG
716 AATTTGATTATACTTTTCATTTCAGGTTTCATTGATTGACTTGCCTCAATTGAAAAAAAGGGATG
* *
87895022 TGAACGACATTATGTTCACACAATCATCTTTGCAGAAGTTAAAAGTGCACAATTGTCCA
781 TGAAAGACATTATGCTCACACAATCATCTTTGCAGAAGTTAAAAGTGCACAATTGTCCA
* *
87895081 TGCATTAGCACAAGAAGAGAAAGTTGGTACGAAAAGAGGGACCTTGAAACTTGTTCAATCTCAAG
1 TGCATTAGCACAAGAAGAGAAAGTTGGTACGAAAAGAGGCACCTTGAAACTTGTCCAATCTCAAG
87895146 ATCTTTGAGAATCGATAAGTCTGAAGATGCATGCAAGCAACTATTTGAAGATGTAGAATCTCTTG
66 ATCTTTGAGAATCGATAAGTCTGAAGATGCATGCAAGCAACTATTTGAAGATGTAGAATCTCTTG
*
87895211 AATTGGATGATGTGGAGGGTCACCCAAAACTTATTCCGAGCTTGGACTTGGGATTTAGTAAGTTG
131 AATTGGATGATGTGAAGGGTCACCCAAAACTTATTCCGAGCTTGGACTTGGGATTTAGTAAGTTG
* * * *
87895276 ACTTCTCTAGATCTTGGTTGTTACCACTCTAAGCAATGCCTAATTGATGCATCAAAGCAACAGGT
196 ACTTCTCTAGATCTTCGATGGTACAACTCTAAGCAATGCCTAATTGATGCATCAAAGCAACAGGT
*
87895341 GCCAATCACTGCATTCTCTAATTTGAGAAAGTTATCCTTAAG-TGATATGTTTGATTTGGAAGAG
261 GCCAATCACTGCATTCTCTAATTTGAGAAAGTTATCATTAAGTTG-TATGTTTGATTTGGAAGAG
*
87895405 ATGTGCAATGTTCCCCAGCTGCAAGGTTTTTTACAAAAGCTTGAAGAGGTTAAAGTTGAAAGCTG
325 ATGTGCAATGTTCCCCAGCCGCAAGGTTTTTTACAAAAGCTTGAAGAGGTTAAAGTTGAAAGCTG
*
87895470 TTATAATATGCAAGTTTTATTCCCGATTGTTGAATTGAGGAGCATAGAACAAGAAGGGCACATTC
390 TTATAATATGCAAGTTTTATTCCCGATTGTTGAATTGAGGAGCATAGAACAAGAAGGGCACAGTC
87895535 GTCATTTAAGCCTCCAAAGTCTGAAGATTGTTGAAATAGAGGGATGCGATAATTTGAAATATATC
455 GTCATTTAAGCCTCCAAAGTCTGAAGATTGTTGAAATAGAGGGATGCGATAATTTGAAATATATC
*
87895600 TTCCCAATGTCAGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTCGCA
520 TTCCCAATGTCAGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTCACA
*
87895665 ATTGGAAGATATAATCCAAGACCGACCAGTGGCATACAAATGTCTACTCCAAAGTCTAAGGGATG
585 ATTGGAAGATATAATCCAAGACAGACCAGTGGCATACAAATGTCTACTCCAAAGTCTAAGGGATG
*
87895730 TATGTGTATCTCATTGCAATAACTTGACATCTGTTTTCCTTATTGTTCTATGGTCAAAGATTGGG
650 TATGTGTATCTCATTGCAATAACTTGACATCTCTTTTCCTTATTGTTCTATGGTCAAAGATTGGG
*
87895795 AAATTTGATTATGCTTTTCATTTCAGGTTTCATTGATTGACTTGCCTCAATTGAAAAAAAGGGAT
715 AAATTTGATTATACTTTTCATTTCAGGTTTCATTGATTGACTTGCCTCAATTGAAAAAAAGGGAT
* * * * *
87895860 GTGAAAGGCATTTTGCTGACACAGTCGTCTTTGCAGAAGTTAAAAGTGCACAATTGTCC
780 GTGAAAGACATTATGCTCACACAATCATCTTTGCAGAAGTTAAAAGTGCACAATTGTCC
87895919 TCAATTGACA
Statistics
Matches: 793, Mismatches: 44, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
838 2 0.00
839 791 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (839 bp):
TGCATTAGCACAAGAAGAGAAAGTTGGTACGAAAAGAGGCACCTTGAAACTTGTCCAATCTCAAG
ATCTTTGAGAATCGATAAGTCTGAAGATGCATGCAAGCAACTATTTGAAGATGTAGAATCTCTTG
AATTGGATGATGTGAAGGGTCACCCAAAACTTATTCCGAGCTTGGACTTGGGATTTAGTAAGTTG
ACTTCTCTAGATCTTCGATGGTACAACTCTAAGCAATGCCTAATTGATGCATCAAAGCAACAGGT
GCCAATCACTGCATTCTCTAATTTGAGAAAGTTATCATTAAGTTGTATGTTTGATTTGGAAGAGA
TGTGCAATGTTCCCCAGCCGCAAGGTTTTTTACAAAAGCTTGAAGAGGTTAAAGTTGAAAGCTGT
TATAATATGCAAGTTTTATTCCCGATTGTTGAATTGAGGAGCATAGAACAAGAAGGGCACAGTCG
TCATTTAAGCCTCCAAAGTCTGAAGATTGTTGAAATAGAGGGATGCGATAATTTGAAATATATCT
TCCCAATGTCAGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTCACAA
TTGGAAGATATAATCCAAGACAGACCAGTGGCATACAAATGTCTACTCCAAAGTCTAAGGGATGT
ATGTGTATCTCATTGCAATAACTTGACATCTCTTTTCCTTATTGTTCTATGGTCAAAGATTGGGA
AATTTGATTATACTTTTCATTTCAGGTTTCATTGATTGACTTGCCTCAATTGAAAAAAAGGGATG
TGAAAGACATTATGCTCACACAATCATCTTTGCAGAAGTTAAAAGTGCACAATTGTCCA
Found at i:87897137 original size:162 final size:162
Alignment explanation
Indices: 87896870--87897201 Score: 513
Period size: 162 Copynumber: 2.0 Consensus size: 162
87896860 TTACAAATTC
* * * *
87896870 TGAAGATAAAGAGGTGCTTTGGAATGGAAGAAATAATTCAAAACTCACCAGTATCAACCATAAGC
1 TGAAGATAAAGAGATGCTTTGGAATGGAAGAAATAATCCAAAACTCACAAGTATCAACCATAAAC
* *
87896935 TTCCAATGTCTAAGGGAAGTACAAGTTACAGAATGCAATAATTTGAAATTTCTCTTCCCAATGTG
66 TTCCAATGTCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTCTCTTCCCAATGTG
87897000 TGTTGCTAATAATCTTGGG-AGATTGCAAACCT
131 TGTTGCTAATAATCTTGGGCA-ATTGCAAACCT
* * **
87897032 TGAAGATAGAGAGATGCTTTGGAATGGCAGAAATAATCCAAGTCTCACAAGTATCAACCATAAAC
1 TGAAGATAAAGAGATGCTTTGGAATGGAAGAAATAATCCAAAACTCACAAGTATCAACCATAAAC
* * *
87897097 TTTCAATGTCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTCTCTTTCCGATGTG
66 TTCCAATGTCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTCTCTTCCCAATGTG
* *
87897162 TGTTGCTAATAGTCTTGGGCAATTGCAAACTT
131 TGTTGCTAATAATCTTGGGCAATTGCAAACCT
87897194 TGAAGATA
1 TGAAGATA
87897202 TGGAGTTGTT
Statistics
Matches: 154, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
162 153 0.99
163 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (162 bp):
TGAAGATAAAGAGATGCTTTGGAATGGAAGAAATAATCCAAAACTCACAAGTATCAACCATAAAC
TTCCAATGTCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTCTCTTCCCAATGTG
TGTTGCTAATAATCTTGGGCAATTGCAAACCT
Found at i:87897708 original size:2 final size:2
Alignment explanation
Indices: 87897701--87897729 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87897691 TAGTTTCTTT
87897701 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
87897730 GTTCCAAACA
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:87899518 original size:24 final size:24
Alignment explanation
Indices: 87899446--87899519 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
87899436 AACTAATTCT
* * *
87899446 AACATTACAGAAGGTAAATTTAGA
1 AACATTACAGAACGTAAATATAAA
* * * *
87899470 AACATCA-ATAATGTTAATATGAAA
1 AACATTACAGAACGTAAATAT-AAA
87899494 AACATTACAGAACGTAAATATAAA
1 AACATTACAGAACGTAAATATAAA
87899518 AA
1 AA
87899520 TTTGTTTCTT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
23 9 0.24
24 19 0.50
25 10 0.26
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.24
Consensus pattern (24 bp):
AACATTACAGAACGTAAATATAAA
Found at i:87902630 original size:2 final size:2
Alignment explanation
Indices: 87902625--87902649 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87902615 CCTTACATGT
87902625 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 T
87902650 TGAATATTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87904254 original size:22 final size:23
Alignment explanation
Indices: 87904229--87904274 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
87904219 ATAATTAGAA
87904229 ATAAGACAT-TTA-AAAGTATAAT
1 ATAAGA-ATATTATAAAGTATAAT
*
87904251 ATAAGAATATTATAAGGTATAAT
1 ATAAGAATATTATAAAGTATAAT
87904274 A
1 A
87904275 GCTATACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.43
23 10 0.48
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (23 bp):
ATAAGAATATTATAAAGTATAAT
Found at i:87904487 original size:12 final size:12
Alignment explanation
Indices: 87904456--87904626 Score: 56
Period size: 12 Copynumber: 13.9 Consensus size: 12
87904446 AAATTATGAA
*
87904456 AATATATAATAC
1 AATATATAATAT
87904468 AATGTATATAATAT
1 AA--TATATAATAT
* *
87904482 AATATATAAAAA
1 AATATATAATAT
87904494 AATATCATGAAATAT
1 AATAT-AT--AATAT
87904509 AATA-A-AATAT
1 AATATATAATAT
* * *
87904519 AATATGTGAT-G
1 AATATATAATAT
*
87904530 AATGTATAA-AT
1 AATATATAATAT
87904541 AGA-ATATAATAT
1 A-ATATATAATAT
* *
87904553 GATGAGGGAT-ATAT
1 AAT-A--TATAATAT
*
87904567 AAAATAATAATAAT
1 AATAT-ATAAT-AT
87904581 AATA-ATAATAAT
1 AATATATAAT-AT
87904593 AATA-ATAATAAT
1 AATATATAAT-AT
87904605 AATA-ATAATAAT
1 AATATATAAT-AT
87904617 AATA-ATAATA
1 AATATATAATA
87904627 AGTGTTTTAC
Statistics
Matches: 123, Mismatches: 19, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
10 9 0.07
11 14 0.11
12 63 0.51
13 7 0.06
14 21 0.17
15 9 0.07
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (12 bp):
AATATATAATAT
Found at i:87904498 original size:10 final size:10
Alignment explanation
Indices: 87904473--87904522 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
87904463 AATACAATGT
87904473 ATATAATATAA
1 ATATAATA-AA
*
87904484 TATATAAAAAA
1 -ATATAATAAA
* *
87904495 ATATCATGAA
1 ATATAATAAA
87904505 ATATAATAAA
1 ATATAATAAA
87904515 ATATAATA
1 ATATAATA
87904523 TGTGATGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 23 0.72
11 2 0.06
12 7 0.22
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
ATATAATAAA
Found at i:87904575 original size:3 final size:3
Alignment explanation
Indices: 87904565--87904627 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
87904555 TGAGGGATAT
87904565 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87904612 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
87904628 GTGTTTTACA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:87904575 original size:29 final size:27
Alignment explanation
Indices: 87904505--87904581 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 27
87904495 ATATCATGAA
*
87904505 ATATAATAAAATATAATATGTGATGAAT
1 ATATAA-AAAATATAATATGTGAGGAAT
* *
87904533 GTATAAATAGAATATAATATGATGAGGGAT
1 ATATAAA-A-AATATAATATG-TGAGGAAT
87904563 ATATAAAATAATAATAATA
1 ATATAAAA-AAT-ATAATA
87904582 ATAATAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 6 0.15
29 15 0.38
30 18 0.45
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (27 bp):
ATATAAAAAATATAATATGTGAGGAAT
Found at i:87909251 original size:26 final size:26
Alignment explanation
Indices: 87909214--87909349 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
87909204 TGATACAAAT
* *
87909214 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87909240 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
87909266 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87909292 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87909318 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87909344 TGATAA
1 TGATAA
87909350 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:87911371 original size:253 final size:253
Alignment explanation
Indices: 87910923--87911432 Score: 1011
Period size: 253 Copynumber: 2.0 Consensus size: 253
87910913 GATGCATGGG
87910923 ACTGGGATATTGACGGAGGAAGTACTGAAAGTGGCTTATCCACGTACTGGAGGCTTTGCCTCAAT
1 ACTGGGATATTGACGGAGGAAGTACTGAAAGTGGCTTATCCACGTACTGGAGGCTTTGCCTCAAT
87910988 TTACTGTTAACTGAGCAGCAAGGCTGCAACTGTGGAGTGTTGGGCTGGGTGGGTTGAGCTATTCC
66 TTACTGTTAACTGAGCAGCAAGGCTGCAACTGTGGAGTGTTGGGCTGGGTGGGTTGAGCTATTCC
*
87911053 CCACATGGAGTGTATGGCTGGTACGGGTGGAGTGTAGTGGTTGGTGGGTTGAGTAGTCTCCCCAA
131 CCACATGGAGTGTATGGCTGGTACGGGTGGAGTGTAGTGGTTGGTGGGTTGAGTAATCTCCCCAA
87911118 ATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTAT
196 ATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTAT
87911176 ACTGGGATATTGACGGAGGAAGTACTGAAAGTGGCTTATCCACGTACTGGAGGCTTTGCCTCAAT
1 ACTGGGATATTGACGGAGGAAGTACTGAAAGTGGCTTATCCACGTACTGGAGGCTTTGCCTCAAT
87911241 TTACTGTTAACTGAGCAGCAAGGCTGCAACTGTGGAGTGTTGGGCTGGGTGGGTTGAGCTATTCC
66 TTACTGTTAACTGAGCAGCAAGGCTGCAACTGTGGAGTGTTGGGCTGGGTGGGTTGAGCTATTCC
87911306 CCACATGGAGTGTATGGCTGGTACGGGTGGAGTGTAGTGGTTGGTGGGTTGAGTAATCTCCCCAA
131 CCACATGGAGTGTATGGCTGGTACGGGTGGAGTGTAGTGGTTGGTGGGTTGAGTAATCTCCCCAA
87911371 ATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTAT
196 ATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTAT
87911429 ACTG
1 ACTG
87911433 TTATTTGAAT
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 256 1.00
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (253 bp):
ACTGGGATATTGACGGAGGAAGTACTGAAAGTGGCTTATCCACGTACTGGAGGCTTTGCCTCAAT
TTACTGTTAACTGAGCAGCAAGGCTGCAACTGTGGAGTGTTGGGCTGGGTGGGTTGAGCTATTCC
CCACATGGAGTGTATGGCTGGTACGGGTGGAGTGTAGTGGTTGGTGGGTTGAGTAATCTCCCCAA
ATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTAT
Found at i:87911611 original size:136 final size:137
Alignment explanation
Indices: 87911366--87911651 Score: 495
Period size: 136 Copynumber: 2.1 Consensus size: 137
87911356 GAGTAATCTC
87911366 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
* * *
87911431 TGTTATTTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
87911496 ACTGTTA
131 ACTGTTA
*
87911503 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGG-TCATA
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCT-ATA
87911566 CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
65 CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
87911631 CACTGTTA
130 CACTGTTA
**
87911639 CCTGAATGGGCTT
1 CCCAAATGGGCTT
87911652 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
135 1 0.01
136 121 0.85
137 20 0.14
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:87915481 original size:26 final size:26
Alignment explanation
Indices: 87915412--87915546 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
87915402 TGATACAAAT
*
87915412 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
87915438 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
87915463 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
87915489 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
87915515 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
87915541 TGATAA
1 TGATAA
87915547 GAATATCATG
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:87917550 original size:136 final size:136
Alignment explanation
Indices: 87917306--87917590 Score: 464
Period size: 136 Copynumber: 2.1 Consensus size: 136
87917296 GAGTAGTCTC
* *
87917306 CCCAAATGGGCTTGCATATGTTTACTGATATGCATGTATTTTGAAATGGGCCTATGGGCTATACT
1 CCCAAATGGGCTTGCATATGTTTACTGATATGCATGTATTTTGAAATGGGCCTATGAGCCATACT
* * *
87917371 GTTATTTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
87917436 CTGTTA
131 CTGTTA
* * *
87917442 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGAGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGAT-ATGCATGTATTTTGAAATGGGCCTATGAGCCATAC
87917506 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
87917571 ACTGTTA
130 ACTGTTA
**
87917578 CCTGAATGGGCTT
1 CCCAAATGGGCTT
87917591 AGGCCCAATG
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
135 7 0.05
136 131 0.95
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATATGCATGTATTTTGAAATGGGCCTATGAGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:87921321 original size:107 final size:108
Alignment explanation
Indices: 87921198--87921413 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 108
87921188 TAAACAAAAA
*
87921198 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAGCAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
87921263 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
*
87921305 ATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
87921370 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
87921413 A
1 A
87921414 CGTGTTTTTT
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 93 0.88
108 13 0.12
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.42
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:87927209 original size:38 final size:37
Alignment explanation
Indices: 87927167--87927240 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
87927157 TTGTTATTGC
87927167 TAATTT-CGAAAAATGCTAA-ATAATTTGTAATAGAAAAA
1 TAATTTACG-AAAATGCTAAGATAA-TTGTAATA-AAAAA
* *
87927205 TAATTTATGAAAATGTTAAGATAATTGTAATAAAAA
1 TAATTTACGAAAATGCTAAGATAATTGTAATAAAAA
87927241 TTAAAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 4 0.12
38 23 0.72
39 5 0.16
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (37 bp):
TAATTTACGAAAATGCTAAGATAATTGTAATAAAAAA
Found at i:87936861 original size:25 final size:28
Alignment explanation
Indices: 87936819--87936869 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
87936809 TAAAAATTCT
*
87936819 TATTTATCATATATTATTTTCTTATACA
1 TATTTATCATATATTATTTTATTATACA
87936847 TATTTAT-AT-TA-TATTTTATTATA
1 TATTTATCATATATTATTTTATTATA
87936870 TAACATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 2 0.09
27 2 0.09
28 7 0.32
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTTATCATATATTATTTTATTATACA
Found at i:87936910 original size:23 final size:23
Alignment explanation
Indices: 87936853--87936911 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
87936843 TACATATTTA
*
87936853 TATTATATTTTATTATATAACATT
1 TATTAT-TTTTATTATATAACACT
** *
87936877 TATTACCTTTATTATAT-GCTACT
1 TATTATTTTTATTATATAAC-ACT
87936900 TATTATTTTTAT
1 TATTATTTTTAT
87936912 ATGTTATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.79
24 5 0.18
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTTTTATTATATAACACT
Found at i:87936913 original size:20 final size:21
Alignment explanation
Indices: 87936888--87936928 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
87936878 ATTACCTTTA
87936888 TTATATGCTACT-TATTATTT
1 TTATATGCTACTATATTATTT
* *
87936908 TTATATGTTATTATATTATTT
1 TTATATGCTACTATATTATTT
87936929 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATATGCTACTATATTATTT
Found at i:87939598 original size:162 final size:161
Alignment explanation
Indices: 87939214--87939628 Score: 548
Period size: 162 Copynumber: 2.6 Consensus size: 161
87939204 TATCTTCCCA
**
87939214 ATTGCTAATAACCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTG-TGAGAGCTTAAAAGGCA
1 ATTGCTAATAACCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGAGA--TTGGAAGGCA
* *
87939278 TAATCCAAGACACACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAGAAGTTGAAAAA
64 TAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAATTTAAGGGAAATAGAAGTTGAAAAA
* * * *
87939343 TGTGATAATTTAAAGTATCCCTTCCTAGTGTAT
129 TGAGATAATTTAAAGTATCCCTTCCCACTATAT
* ** * * *
87939376 ATTGCTAATAGCCTCAGGCAATTGCATAATTTGAAGATAAAGAGTTGCCGGAGCTTGGAAGGCAT
1 ATTGCTAATAACCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTG-CTGAGATTGGAAGGCAT
*
87939441 AATCTAAGACTCACAAGTGCCATACATAAGCCTCCAAAATTTAAGGGAAATAGAAGTTGAAAAAT
65 AATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAATTTAAGGGAAATAGAAGTTGAAAAAT
* *
87939506 GAGATAATTTAAAGTATCTCTTCCCACTATCT
130 GAGATAATTTAAAGTATCCCTTCCCACTATAT
* * * * **
87939538 ATTGCTAATATCTTTGGGCAATTGTATACTTTGAAGATAAAGTGTTGCTTGCA-ATTGGAAGATA
1 ATTGCTAATAACCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGC-TG-AGATTGGAAGGCA
87939602 TAATCCAAGA-TCCACAAGTGCCATACA
64 TAATCCAAGACT-CACAAGTGCCATACA
87939629 AATGTCTACT
Statistics
Matches: 219, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
161 2 0.01
162 213 0.97
163 1 0.00
164 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (161 bp):
ATTGCTAATAACCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGAGATTGGAAGGCATA
ATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAATTTAAGGGAAATAGAAGTTGAAAAATG
AGATAATTTAAAGTATCCCTTCCCACTATAT
Found at i:87941908 original size:34 final size:36
Alignment explanation
Indices: 87941861--87941932 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 36
87941851 TGAGCATGCC
*
87941861 TTTTACCACTGAATC-AATTTGTTATAAGCAT-AATA
1 TTTTACCACTGAATCGAA-ATGTTATAAGCATAAATA
*
87941896 TTTT-CCATTGAATCGAAATGTTATAAGCATAAATA
1 TTTTACCACTGAATCGAAATGTTATAAGCATAAATA
87941931 TT
1 TT
87941933 GCTACTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (36 bp):
TTTTACCACTGAATCGAAATGTTATAAGCATAAATA
Found at i:87942260 original size:18 final size:20
Alignment explanation
Indices: 87942239--87942296 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 20
87942229 TTATTACCAA
*
87942239 TGGTTTTTCCACAA-A-GAG
1 TGGTTTATCCACAAGATGAG
*
87942257 TGGTTTGTCCACAATGATGAG
1 TGGTTTATCCACAA-GATGAG
*
87942278 TGGTTTATCCACAACATGA
1 TGGTTTATCCACAAGATGA
87942297 TGTAAAGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.38
20 5 0.15
21 16 0.47
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (20 bp):
TGGTTTATCCACAAGATGAG
Found at i:87951990 original size:15 final size:16
Alignment explanation
Indices: 87951970--87952032 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
87951960 TGTCGAAATT
87951970 TTTTTCTTTCCTT-TC
1 TTTTTCTTTCCTTCTC
*
87951985 TTTTTCCTT-CTTCTC
1 TTTTTCTTTCCTTCTC
* *
87952000 TATTTTTTTTCCTTCTA
1 T-TTTTCTTTCCTTCTC
*
87952017 TTTTTCATTCTCTTCT
1 TTTTTCTTTC-CTTCT
87952033 ATTTAGCTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 3 0.08
15 11 0.29
16 13 0.34
17 11 0.29
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTCTTTCCTTCTC
Found at i:87952021 original size:32 final size:32
Alignment explanation
Indices: 87951970--87952036 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
87951960 TGTCGAAATT
* *
87951970 TTTTTCTTTCCTTTCTTTTTCCTTCT-TCTCTA
1 TTTTTCTTTCCTTTATTTTTCATTCTCT-TCTA
87952002 TTTTT-TTTCCTTCTATTTTTCATTCTCTTCTA
1 TTTTTCTTTCCTT-TATTTTTCATTCTCTTCTA
87952034 TTT
1 TTT
87952037 AGCTGTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 7 0.23
32 23 0.74
33 1 0.03
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (32 bp):
TTTTTCTTTCCTTTATTTTTCATTCTCTTCTA
Found at i:87953121 original size:38 final size:40
Alignment explanation
Indices: 87953028--87953121 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
87953018 CAGTACCTTT
* *
87953028 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCTATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCTATACA
* * *
87953068 TGGTGTGTAGAGTTGGGTGGGTCGATTTTAT-CCT-TACA
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCTATACA
*
87953106 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
87953122 TCGGAGATAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 17 0.36
39 3 0.06
40 27 0.57
ACGTcount: A:0.14, C:0.09, G:0.37, T:0.40
Consensus pattern (40 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCTATACA
Found at i:87958955 original size:163 final size:163
Alignment explanation
Indices: 87958685--87959010 Score: 616
Period size: 163 Copynumber: 2.0 Consensus size: 163
87958675 GGGGGTAGAG
*
87958685 TTGTAACACCCTAAATTTCTATAGTTTCAGCTCTTATAAGTATTGGGCTTAGAAGTTCTGAATCT
1 TTGTAACACCCAAAATTTCTATAGTTTCAGCTCTTATAAGTATTGGGCTTAGAAGTTCTGAATCT
*
87958750 GTGTTTCGAGTTATTTTTGGTCTTTTTTATAACTATTGAAGAAAGCCTGACTTGAGGTCAGTGGG
66 GTGTTTCGAGTTATTTTTGGTCTTTTTTATAACTATTGAAGAAAGCCTGACTTGAGGTCAATGGG
87958815 CTTATAATGTATTATGGGTAAAAACTTAACAGA
131 CTTATAATGTATTATGGGTAAAAACTTAACAGA
* *
87958848 TTGTAACACCCAAAATTTCTATAGTTTCGGCTCTTATAAGTGTTGGGCTTAGAAGTTCTGAATCT
1 TTGTAACACCCAAAATTTCTATAGTTTCAGCTCTTATAAGTATTGGGCTTAGAAGTTCTGAATCT
87958913 GTGTTTCGAGTTATTTTTGGTCTTTTTTATAACTATTGAAGAAAGCCTGACTTGAGGTCAATGGG
66 GTGTTTCGAGTTATTTTTGGTCTTTTTTATAACTATTGAAGAAAGCCTGACTTGAGGTCAATGGG
87958978 CTTATAATGTATTATGGGTAAAAACTTAACAGA
131 CTTATAATGTATTATGGGTAAAAACTTAACAGA
87959011 ATGGGCCTGC
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 159 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (163 bp):
TTGTAACACCCAAAATTTCTATAGTTTCAGCTCTTATAAGTATTGGGCTTAGAAGTTCTGAATCT
GTGTTTCGAGTTATTTTTGGTCTTTTTTATAACTATTGAAGAAAGCCTGACTTGAGGTCAATGGG
CTTATAATGTATTATGGGTAAAAACTTAACAGA
Found at i:87959881 original size:17 final size:18
Alignment explanation
Indices: 87959859--87959892 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87959849 AAGTTGGGTC
87959859 GTGTGGG-CCACACGGGG
1 GTGTGGGCCCACACGGGG
87959876 GTGTGGGCCCACACGGG
1 GTGTGGGCCCACACGGG
87959893 TAGGGCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.26, G:0.50, T:0.12
Consensus pattern (18 bp):
GTGTGGGCCCACACGGGG
Found at i:87961484 original size:2 final size:2
Alignment explanation
Indices: 87961477--87961510 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
87961467 TGAGTTATGA
87961477 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87961511 TTGAATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87963974 original size:2 final size:2
Alignment explanation
Indices: 87963967--87963992 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87963957 CCAAATCTAA
87963967 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
87963993 TTCAAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87964102 original size:24 final size:24
Alignment explanation
Indices: 87964048--87964092 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
87964038 TTTCTCTCAC
*
87964048 TTTATTTATTTTTAACATTTTTTA
1 TTTATTTATTTTGAACATTTTTTA
*
87964072 TTAATTTATTTTGAA-ATTTTT
1 TTTATTTATTTTGAACATTTTT
87964093 ATGTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTATTTATTTTGAACATTTTTTA
Found at i:87967008 original size:10 final size:10
Alignment explanation
Indices: 87966977--87967014 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
87966967 TTAAATTCTA
87966977 AAAGATAAAT
1 AAAGATAAAT
* *
87966987 ACAGAT-ATT
1 AAAGATAAAT
87966996 AAAGATAAAT
1 AAAGATAAAT
87967006 AAAGATAAA
1 AAAGATAAA
87967015 AGCTAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:87969040 original size:18 final size:20
Alignment explanation
Indices: 87969019--87969066 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
87969009 AAAACTAAAA
87969019 TAAATAATAAAAT-TAG-AT
1 TAAATAATAAAATATAGAAT
87969037 TAAAT-AT-AAATATAGAAT
1 TAAATAATAAAATATAGAAT
87969055 TAAAATAATAAA
1 T-AAATAATAAA
87969067 GCACCAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 8 0.32
19 4 0.16
20 2 0.08
21 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
TAAATAATAAAATATAGAAT
Found at i:87973244 original size:14 final size:14
Alignment explanation
Indices: 87973225--87973254 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87973215 GATGGTGGAA
*
87973225 GGATTTTGATTTGG
1 GGATTTCGATTTGG
87973239 GGATTTCGATTTGG
1 GGATTTCGATTTGG
87973253 GG
1 GG
87973255 GAAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:87973299 original size:13 final size:13
Alignment explanation
Indices: 87973283--87973316 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
87973273 TAGGGATATC
87973283 GATTTTAGGGGGA
1 GATTTTAGGGGGA
*
87973296 GATTTTACGGGGA
1 GATTTTAGGGGGA
*
87973309 AATTTTAG
1 GATTTTAG
87973317 ACGTTCCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.35, T:0.35
Consensus pattern (13 bp):
GATTTTAGGGGGA
Found at i:87974963 original size:40 final size:41
Alignment explanation
Indices: 87974826--87975064 Score: 272
Period size: 41 Copynumber: 5.9 Consensus size: 41
87974816 ATTATATGAC
* *
87974826 TTTTAGCGGCGTTTTA-TAGAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGT
*
87974867 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
87974908 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG-
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
87974948 TTTTAGCGGTGTTTTACCAAAAGCGCCACTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* ** ** * * * *
87974988 TTTTAGTGGCGTTTTGATAAAAAATGCCACTATTACT-TTGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
* *
87975029 TTTTAGCGGCGTTTTA-CAAAAACGCCGCTATTGCTC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
87975065 CGTGTTTTAT
Statistics
Matches: 172, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
39 15 0.09
40 51 0.30
41 105 0.61
42 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:87975033 original size:81 final size:81
Alignment explanation
Indices: 87974826--87975064 Score: 248
Period size: 81 Copynumber: 3.0 Consensus size: 81
87974816 ATTATATGAC
* * * * * * *
87974826 TTTTAGCGGCGTTTTATAGAAAGCACCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAACGCCACTAATACTCT-GTTTTTAGCGGCGTTTTACCAAAAGC
*
87974891 GCCGCTAATGCTCTGGT
65 GCCGCTAATGCTCTGAT
* * * * * *
87974908 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTAGCGGTGTTTTACCAAAAGCG
1 TTTTAGCGGCGTTTTACAAAAAACGCCACTAATACTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
*
87974973 CCACTAATGCTCT-AT
66 CCGCTAATGCTCTGAT
* * * * * *
87974988 TTTTAGTGGCGTTTTGATAAAAAATGCCACTATTACTTTGTTTTTAGCGGCGTTTTA-CAAAAAC
1 TTTTAGCGGCGTTTT-ACAAAAAACGCCACTAATACTCTGTTTTTAGCGGCGTTTTACCAAAAGC
*
87975052 GCCGCTATTGCTC
65 GCCGCTAATGCTC
87975065 CGTGTTTTAT
Statistics
Matches: 133, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 32 0.24
81 67 0.50
82 34 0.26
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACAAAAAACGCCACTAATACTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
CCGCTAATGCTCTGAT
Found at i:87976862 original size:8 final size:8
Alignment explanation
Indices: 87976826--87976870 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
87976816 AGAAATCTAT
87976826 TAATAAAA
1 TAATAAAA
87976834 TAA-AATAA
1 TAATAA-AA
*
87976842 -AATAACA
1 TAATAAAA
87976849 -AATAAAA
1 TAATAAAA
87976856 TAATAAAA
1 TAATAAAA
87976864 TAATAAA
1 TAATAAA
87976871 TGATAACTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 11 0.34
8 21 0.66
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (8 bp):
TAATAAAA
Found at i:87976877 original size:30 final size:28
Alignment explanation
Indices: 87976828--87976896 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 28
87976818 AAATCTATTA
87976828 ATAAAATAAAATAAAATAACAAATAAAATA
1 ATAAAAT--AATAAAATAACAAATAAAATA
* *
87976858 ATAAAATAATAAATGATAACTAGTAAAATA
1 ATAAAATAATAAA--ATAACAAATAAAATA
87976888 A-AATAATAA
1 ATAA-AATAA
87976897 GGAATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 6 0.18
29 2 0.06
30 26 0.76
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (28 bp):
ATAAAATAATAAAATAACAAATAAAATA
Found at i:87980525 original size:10 final size:10
Alignment explanation
Indices: 87980500--87980538 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
87980490 TTAAATTCTA
87980500 AAAGATAAAT
1 AAAGATAAAT
* **
87980510 ACAGATAGTT
1 AAAGATAAAT
87980520 AAAGATAAAT
1 AAAGATAAAT
87980530 AAAGATAAA
1 AAAGATAAA
87980539 AGCTAAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.64, C:0.03, G:0.13, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:87981406 original size:2 final size:2
Alignment explanation
Indices: 87981361--87981393 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
87981351 CATATTTCTA
87981361 AT AT 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 AT AT A
87981394 GTTTTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87981535 original size:15 final size:15
Alignment explanation
Indices: 87981515--87981548 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
87981505 CTGAAGAAAA
87981515 GTAGATATTTTAAAT
1 GTAGATATTTTAAAT
87981530 GTAGATATTTTAAAT
1 GTAGATATTTTAAAT
87981545 GTAG
1 GTAG
87981549 TGAAAATCAT
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:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (15 bp):
GTAGATATTTTAAAT
Found at i:87982344 original size:17 final size:17
Alignment explanation
Indices: 87982324--87982357 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
87982314 TTAAAGTAAT
87982324 GTGTATTTAACTTATTC
1 GTGTATTTAACTTATTC
87982341 GTGTATTTAACTTATTC
1 GTGTATTTAACTTATTC
87982358 AGGCATAGTA
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:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
GTGTATTTAACTTATTC
Found at i:87984577 original size:16 final size:17
Alignment explanation
Indices: 87984548--87984583 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
87984538 CCTTTCATTT
87984548 TTTTCACACATCAATCC
1 TTTTCACACATCAATCC
*
87984565 TTTT-ACACTTCAATCC
1 TTTTCACACATCAATCC
87984581 TTT
1 TTT
87984584 CAATATTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTCACACATCAATCC
Found at i:87984617 original size:13 final size:11
Alignment explanation
Indices: 87984589--87984620 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
87984579 CCTTTCAATA
87984589 TTCTCTCAAAT
1 TTCTCTCAAAT
87984600 TTCTCTCAAAT
1 TTCTCTCAAAT
*
87984611 TCCTCTCAAA
1 TTCTCTCAAA
87984621 GCTCTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:87986161 original size:165 final size:162
Alignment explanation
Indices: 87985871--87986217 Score: 525
Period size: 165 Copynumber: 2.1 Consensus size: 162
87985861 TGCGCCCAAT
* * *
87985871 TTGCAAA-CTCTGAAGATAGAGAGATGCTTTGTAATGGAAGAAATCATCCAAGACTCACAAGTAT
1 TTGCAAACCT-TGAAGATAGAGAGATGCTTTGGAATGAAAGAAATAATCCAAGACTCACAAGTAT
* * * * * *
87985935 CAACCATAAGCTTTCAATGCCTAAGGGAAGTACAAGTCATAGAATGTAATGATTTGAAATTTCTC
65 CAACCATAAGCTTCCAATACCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTCTC
87986000 TTCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
130 TTCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
* *
87986033 TTGCAAACCTTGAAGATAGAGAGGTGTTTTGGAATGAAAGAAATAATCCAAGACTCACAAGTTTC
1 TTGCAAACCTTGAAGATAGAGAGATGCTTTGGAATGAAAGAAATAATCCAAGACTCACAAG--T-
87986098 ATCAACCATAAGCTTCCAATACCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTC
63 ATCAACCATAAGCTTCCAATACCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTC
*
87986163 TCTTCCCAATGTGTGTTGCTAATAGTCTTGGGCAA
128 TCTTCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
* *
87986198 TTGCAAACCCTAAAGATAGA
1 TTGCAAACCTTGAAGATAGA
87986218 AAGTTGTTCC
Statistics
Matches: 167, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
162 53 0.32
163 2 0.01
164 1 0.01
165 111 0.66
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (162 bp):
TTGCAAACCTTGAAGATAGAGAGATGCTTTGGAATGAAAGAAATAATCCAAGACTCACAAGTATC
AACCATAAGCTTCCAATACCTAAGGAAAGTACAAGTCACAGAATGCAATAATTTGAAATTTCTCT
TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
Found at i:87988372 original size:24 final size:23
Alignment explanation
Indices: 87988313--87988373 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
87988303 TTGTTATTAT
* * *
87988313 GTAAATTTAAAAACATCAATAAT
1 GTAAATATAAAAACATCAAGAAC
* *
87988336 GTTAATATCAAAAACATTACAGAAC
1 GTAAATAT-AAAAACATCA-AGAAC
87988361 GTAAATATAAAAA
1 GTAAATATAAAAA
87988374 TTTTGTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.20
24 14 0.47
25 10 0.33
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (23 bp):
GTAAATATAAAAACATCAAGAAC
Found at i:87988763 original size:26 final size:26
Alignment explanation
Indices: 87988734--87988788 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
87988724 AAAAAATACA
87988734 TCAATTTCAATCTCTTAATATAATAT
1 TCAATTTCAATCTCTTAATATAATAT
87988760 TCAATTTCAATCTCTTAATATAATAT
1 TCAATTTCAATCTCTTAATATAATAT
87988786 TCA
1 TCA
87988789 TTTTACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.45
Consensus pattern (26 bp):
TCAATTTCAATCTCTTAATATAATAT
Found at i:87993042 original size:25 final size:25
Alignment explanation
Indices: 87993014--87993062 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
87993004 CAGCTTGCAA
** *
87993014 GAGCATCCGGTTATTTAGCTCTTAT
1 GAGCATCCCATTATATAGCTCTTAT
87993039 GAGCATCCCATTATATAGCTCTTA
1 GAGCATCCCATTATATAGCTCTTA
87993063 CAAGCTTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (25 bp):
GAGCATCCCATTATATAGCTCTTAT
Found at i:87993072 original size:25 final size:25
Alignment explanation
Indices: 87993015--87993072 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
87993005 AGCTTGCAAG
** * **
87993015 AGCATCCGGTTATTTAGCTCTTATG
1 AGCATCCCATTATATAGCTCTTACA
87993040 AGCATCCCATTATATAGCTCTTACA
1 AGCATCCCATTATATAGCTCTTACA
*
87993065 AGCTTCCC
1 AGCATCCC
87993073 GATATTTGGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (25 bp):
AGCATCCCATTATATAGCTCTTACA
Found at i:87993241 original size:25 final size:25
Alignment explanation
Indices: 87993186--87993241 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
87993176 TACAGCTCAC
*
87993186 ATGAGCTTCCCGTTACATGGCTCGG
1 ATGAGCTTCCCATTACATGGCTCGG
* *
87993211 AAGAGCTTCCCAATTACAT-GCTCGT
1 ATGAGCTTCCC-ATTACATGGCTCGG
87993236 ATGAGC
1 ATGAGC
87993242 ACCCCTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (25 bp):
ATGAGCTTCCCATTACATGGCTCGG
Found at i:87998707 original size:28 final size:29
Alignment explanation
Indices: 87998640--87998740 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
87998630 ATAGTGAATC
*
87998640 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
87998669 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
87998697 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
87998727 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87998741 CACTCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:88002132 original size:13 final size:13
Alignment explanation
Indices: 88002114--88002139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88002104 TGAAAAATGC
88002114 GCAACTGAGCAAT
1 GCAACTGAGCAAT
88002127 GCAACTGAGCAAT
1 GCAACTGAGCAAT
88002140 TTGCATACAT
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:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
GCAACTGAGCAAT
Found at i:88002639 original size:83 final size:82
Alignment explanation
Indices: 88002501--88002653 Score: 245
Period size: 83 Copynumber: 1.9 Consensus size: 82
88002491 AGATCTAGAG
*
88002501 TGTTCCCAAATGCAAGAAACATACAAGGATGAGAAGTGTTAATCTCAATGACTCAAGGTCTTCCA
1 TGTTCCCAAATGCAAGAAACATACAAGGATGAGAAGGGTTAATCTCAATGACTCAAGGTCTTCCA
88002566 CTATTGAACGAAGTAGT
66 CTATTGAACGAAGTAGT
* * *
88002583 TGTTCCCAATTGCAAGATATA-ATCCAAGGATGAGAAGGGTTAATCTCAATGGCTCAAGGTCTTC
1 TGTTCCCAAATGCAAGA-A-ACATACAAGGATGAGAAGGGTTAATCTCAATGACTCAAGGTCTTC
88002647 CACTATT
64 CACTATT
88002654 AAATGAATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
82 16 0.25
83 48 0.74
84 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (82 bp):
TGTTCCCAAATGCAAGAAACATACAAGGATGAGAAGGGTTAATCTCAATGACTCAAGGTCTTCCA
CTATTGAACGAAGTAGT
Found at i:88003257 original size:12 final size:12
Alignment explanation
Indices: 88003240--88003266 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88003230 AATTTGTGTG
88003240 TTTTTATTTTAT
1 TTTTTATTTTAT
88003252 TTTTTATTTTAT
1 TTTTTATTTTAT
88003264 TTT
1 TTT
88003267 ATTTTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:88007714 original size:18 final size:17
Alignment explanation
Indices: 88007691--88007724 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
88007681 TTGTATGTTC
88007691 TTTATTTTATTATTTTAT
1 TTTATTTTATT-TTTTAT
88007709 TTTATTTTATTTTTTA
1 TTTATTTTATTTTTTA
88007725 CACATATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTATTTTTTAT
Found at i:88009909 original size:41 final size:41
Alignment explanation
Indices: 88009815--88009896 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
88009805 ATTTTAAGAG
88009815 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
1 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
88009856 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
1 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
88009897 CACATTAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (41 bp):
ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
Found at i:88010227 original size:21 final size:20
Alignment explanation
Indices: 88010173--88010232 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 20
88010163 TGCATAAAAG
*
88010173 AGGCACCAAAGTGCAGACAA
1 AGGCACCAAAGTGCAAACAA
* * **
88010193 AGACACGATTGTGCAAATCAA
1 AGGCACCAAAGTGCAAA-CAA
88010214 AGGCACCAAAGTGCAAACA
1 AGGCACCAAAGTGCAAACA
88010233 GAGATATTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.10
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAA
Found at i:88010273 original size:20 final size:20
Alignment explanation
Indices: 88010248--88010307 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
88010238 ATTAAACTGT
88010248 AACAGAGACACCGAAGTGCA
1 AACAGAGACACCGAAGTGCA
* * *
88010268 AACAGAGACATCGAACTG-T
1 AACAGAGACACCGAAGTGCA
88010287 AACAGAGACACCGAAGTGCA
1 AACAGAGACACCGAAGTGCA
88010307 A
1 A
88010308 TCCCGTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.08
Consensus pattern (20 bp):
AACAGAGACACCGAAGTGCA
Found at i:88010285 original size:39 final size:39
Alignment explanation
Indices: 88010217--88010307 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
88010207 AAATCAAAGG
* * *
88010217 CACCAAAGTGCAAACAGAGATATTAAACTGTAACAGAGA
1 CACCGAAGTGCAAACAGAGACATCAAACTGTAACAGAGA
*
88010256 CACCGAAGTGCAAACAGAGACATCGAACTGTAACAGAGA
1 CACCGAAGTGCAAACAGAGACATCAAACTGTAACAGAGA
88010295 CACCGAAGTGCAA
1 CACCGAAGTGCAA
88010308 TCCCGTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (39 bp):
CACCGAAGTGCAAACAGAGACATCAAACTGTAACAGAGA
Found at i:88010292 original size:19 final size:19
Alignment explanation
Indices: 88010242--88010301 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
88010232 AGAGATATTA
88010242 AACTGTAACAGAGACACCG
1 AACTGTAACAGAGACACCG
* * *
88010261 AAGTGCAAACAGAGACATCG
1 AACTG-TAACAGAGACACCG
88010281 AACTGTAACAGAGACACCG
1 AACTGTAACAGAGACACCG
88010300 AA
1 AA
88010302 GTGCAATCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.10
Consensus pattern (19 bp):
AACTGTAACAGAGACACCG
Found at i:88021573 original size:25 final size:25
Alignment explanation
Indices: 88021522--88021575 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
88021512 TCACATTAAA
* * *
88021522 AATAAATAAACTTAATTTTGAATTT
1 AATAAATAAAATTAATTATCAATTT
88021547 AATAAATAAAATTAACTTATCAA-TT
1 AATAAATAAAATTAA-TTATCAATTT
88021572 AATA
1 AATA
88021576 GTATTTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
AATAAATAAAATTAATTATCAATTT
Found at i:88021988 original size:19 final size:19
Alignment explanation
Indices: 88021946--88021991 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
88021936 GTAATAAATT
*
88021946 TTATTTATTTTTCAAAAAA
1 TTATTTTTTTTTCAAAAAA
*
88021965 TTATTTTTTTGTTCAAATAA
1 TTATTTTTTT-TTCAAAAAA
88021985 -TATTTTT
1 TTATTTTT
88021992 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATTTTTTTTTCAAAAAA
Found at i:88028804 original size:15 final size:16
Alignment explanation
Indices: 88028784--88028819 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
88028774 GTAAAATATA
*
88028784 TAATTATTAAG-ATTG
1 TAATTATAAAGAATTG
88028799 TAATTATAAAGAATTG
1 TAATTATAAAGAATTG
88028815 TAATT
1 TAATT
88028820 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (16 bp):
TAATTATAAAGAATTG
Found at i:88031815 original size:13 final size:13
Alignment explanation
Indices: 88031797--88031823 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88031787 ATATAACCCC
88031797 AAGTGTCTAAACA
1 AAGTGTCTAAACA
88031810 AAGTGTCTAAACA
1 AAGTGTCTAAACA
88031823 A
1 A
88031824 CGTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AAGTGTCTAAACA
Found at i:88033558 original size:20 final size:22
Alignment explanation
Indices: 88033510--88033560 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
88033500 AAGGATCTAA
* *
88033510 TTATAAAAAAATAGAATTTAAC
1 TTATTAAAAAATAGAATGTAAC
*
88033532 TTATTAAAAAATATAATGTAA-
1 TTATTAAAAAATAGAATGTAAC
88033553 TT-TTAAAA
1 TTATTAAAA
88033561 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.23
21 2 0.08
22 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TTATTAAAAAATAGAATGTAAC
Found at i:88034145 original size:21 final size:19
Alignment explanation
Indices: 88034099--88034145 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
88034089 TTGGGATATC
*
88034099 AAAT-CACCAAAATTTTAA
1 AAATACACCAAAATTATAA
88034117 ATAATACACCAAGAATATATAA
1 A-AATACACCAA-AAT-TATAA
88034139 AAATACA
1 AAATACA
88034146 TTGATTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 6 0.25
21 9 0.38
22 5 0.21
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (19 bp):
AAATACACCAAAATTATAA
Found at i:88034623 original size:28 final size:27
Alignment explanation
Indices: 88034579--88034631 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
88034569 AAATTGGACT
88034579 AATCCAACCTACAAATCTGAAATAAAAC
1 AATCCAACCTACAAATC-GAAATAAAAC
* *
88034607 AATCCAA-CTATCCAATCGGAATAAA
1 AATCCAACCTA-CAAATCGAAATAAA
88034632 GTAAACGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.51, C:0.25, G:0.06, T:0.19
Consensus pattern (27 bp):
AATCCAACCTACAAATCGAAATAAAAC
Found at i:88036444 original size:45 final size:45
Alignment explanation
Indices: 88036387--88036484 Score: 178
Period size: 45 Copynumber: 2.2 Consensus size: 45
88036377 AAAATTGTTC
*
88036387 AAAAAAATAAAAGTATAGGGACTAGTTTTAACAAATGGAAAATAT
1 AAAAAAATAAAAGTATAGGGACTAGTTTTAACAAATGGAAAACAT
88036432 AAAAAAATAAAAGTATAGGGACTAGTTTTAACAAATGGAAAACAT
1 AAAAAAATAAAAGTATAGGGACTAGTTTTAACAAATGGAAAACAT
88036477 AAATAAAA
1 AAA-AAAA
88036485 AAACTACAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 47 0.92
46 4 0.08
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.22
Consensus pattern (45 bp):
AAAAAAATAAAAGTATAGGGACTAGTTTTAACAAATGGAAAACAT
Found at i:88041297 original size:24 final size:23
Alignment explanation
Indices: 88041248--88041299 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
88041238 ATACAAATTG
*
88041248 AAAAAATATTAATATTTGATTAC
1 AAAAAATATTAATATTTAATTAC
*
88041271 AAAAAATTATT-ATATTTAAATTTC
1 AAAAAA-TATTAATATTT-AATTAC
88041295 AAAAA
1 AAAAA
88041300 TCTTTTGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAAAATATTAATATTTAATTAC
Found at i:88041449 original size:29 final size:29
Alignment explanation
Indices: 88041381--88041460 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
88041371 AATCTCAAAA
*
88041381 TTATACATGAATTTTAGTTTAATGTGTAATT
1 TTATACATGAATTTTA-TTT-ATGTATAATT
* *
88041412 CTCTACATGAATTTTGATTT-TGTATAATT
1 TTATACATGAATTTT-ATTTATGTATAATT
88041441 TTATACATGAAATTTTATTT
1 TTATACATG-AATTTTATTT
88041461 GGTCCAATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 19 0.45
30 6 0.14
31 16 0.38
32 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (29 bp):
TTATACATGAATTTTATTTATGTATAATT
Found at i:88042874 original size:11 final size:11
Alignment explanation
Indices: 88042860--88042900 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
88042850 TATTTTCTCC
88042860 CTATTTTGCTA
1 CTATTTTGCTA
*
88042871 CTATTTTACTA
1 CTATTTTGCTA
* *
88042882 TTATGTTGCTA
1 CTATTTTGCTA
88042893 CTATTTTG
1 CTATTTTG
88042901 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:88042971 original size:30 final size:31
Alignment explanation
Indices: 88042937--88043000 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
88042927 ATTTATTTTA
88042937 TTGTT-AATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAAATTTTCTTATTATTTTAAAGGCAT
* *
88042967 TTGTTAAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTCTTATTATTTTAAAGGCAT
88042998 TTG
1 TTG
88043001 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (31 bp):
TTGTTAAATTTTCTTATTATTTTAAAGGCAT
Found at i:88044278 original size:25 final size:27
Alignment explanation
Indices: 88044241--88044293 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
88044231 TCAAACATGC
*
88044241 ATTTTGGTCAATTTAAC-CCTAGGGGT
1 ATTTCGGTCAATTTAACTCCTAGGGGT
*
88044267 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTCGGTCAATTTAACTCCTAGGGGT
88044293 A
1 A
88044294 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTCGGTCAATTTAACTCCTAGGGGT
Found at i:88045813 original size:26 final size:26
Alignment explanation
Indices: 88045782--88045890 Score: 209
Period size: 26 Copynumber: 4.2 Consensus size: 26
88045772 ATGAAATTCC
*
88045782 TATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCCAT
88045808 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
88045834 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
88045860 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
88045886 TATCA
1 TATCA
88045891 GTTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:88048671 original size:16 final size:16
Alignment explanation
Indices: 88048652--88048700 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
88048642 CAAATTGTTT
88048652 TTATTTAATTTCTCAA
1 TTATTTAATTTCTCAA
*
88048668 TTATTT--TTT-TGAA
1 TTATTTAATTTCTCAA
*
88048681 GT-TTTAATTTCTCAA
1 TTATTTAATTTCTCAA
88048696 TTATT
1 TTATT
88048701 AATACCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 6 0.24
15 4 0.16
16 8 0.32
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATTTAATTTCTCAA
Found at i:88050507 original size:3 final size:3
Alignment explanation
Indices: 88050501--88050748 Score: 79
Period size: 3 Copynumber: 82.7 Consensus size: 3
88050491 TATTATTGGG
* *
88050501 ATT ATT ATT ATT ATT -TT -TT ATT ACT ATT ATT ATT -TCT ACT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * *
88050543 ATT ATT GTT ACT ACT A-T ATT GTT GTT ATT GTT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
88050590 ATT TTT ATT ATT AGT A-T ATGT TTT ATT ATAC ATGT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT AT-T AT-T AT-T ATT ATT ATT
* * * * * * *
88050638 -TT A-T AGT ACT GTT ATTT CTT ATT TTT CA-T ATT ATT ACT GTT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * *
88050682 AGTGT A-T ACT ATT ATT ATT ATT -TCCT ATT ATC ATT CTT -TT ATT ACTG
1 A-T-T ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT A-TT
*
88050729 ATT ATT ATT ATT TTT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
88050749 CACTTACTAT
Statistics
Matches: 182, Mismatches: 42, Indels: 42
0.68 0.16 0.16
Matches are distributed among these distances:
2 20 0.11
3 144 0.79
4 15 0.08
5 3 0.02
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:88050567 original size:17 final size:17
Alignment explanation
Indices: 88050525--88050569 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
88050515 TTTTTATTAC
* * *
88050525 TATTATTATTTCTACTT
1 TATTATTGTTACTACTA
88050542 TATTATTGTTACTACTA
1 TATTATTGTTACTACTA
*
88050559 TATTGTTGTTA
1 TATTATTGTTA
88050570 TTGTTATCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (17 bp):
TATTATTGTTACTACTA
Found at i:88050858 original size:3 final size:3
Alignment explanation
Indices: 88050852--88050900 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
88050842 TTATTTGACA
* *
88050852 TAT TAT TGT TAT TAT TAT TAT TTT TA- TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
88050898 TAT
1 TAT
88050901 ATTTAGTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:88050883 original size:17 final size:17
Alignment explanation
Indices: 88050861--88050900 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
88050851 ATATTATTGT
*
88050861 TATTATTATTATTTTTA
1 TATTATTATTATTATTA
88050878 TATTATTATTATTATTA
1 TATTATTATTATTATTA
88050895 TATTAT
1 TATTAT
88050901 ATTTAGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:88050959 original size:3 final size:3
Alignment explanation
Indices: 88050951--88050993 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
88050941 TATATGCACA
*
88050951 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
88050994 GGTTTTCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:88051167 original size:25 final size:22
Alignment explanation
Indices: 88051080--88051196 Score: 90
Period size: 25 Copynumber: 4.8 Consensus size: 22
88051070 GTCATGTCTA
* *
88051080 ATATATATATTTATATGTTTTTAT
1 ATATAT-TATGTATATATTTTT-T
*
88051104 ATATATTATGTATATATTTTTA
1 ATATATTATGTATATATTTTTT
*
88051126 ATATTATTAGTTATATATATTTTTT
1 ATA-TATTA--TGTATATATTTTTT
88051151 ATACTATTCCATGTATATAGTTTTTAT
1 ATA-TATT--ATGTATATA-TTTTT-T
*
88051178 ATCATCTTATGTATATATT
1 AT-ATATTATGTATATATT
88051197 CTTAAACACT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.04
23 18 0.23
24 8 0.10
25 35 0.45
26 5 0.06
27 7 0.09
28 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (22 bp):
ATATATTATGTATATATTTTTT
Found at i:88051364 original size:40 final size:38
Alignment explanation
Indices: 88051292--88051388 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 38
88051282 TTATTATTAA
88051292 TATTAGTACATA-TATTTT-ATTATACATGTATATATATATT
1 TATTA-TACATATTATTTTCATTATACATGTATAT-T-TA-T
88051332 TATATATA-ATATTATTTTCA-TATATCAT-TATATTTAT
1 TAT-TATACATATTATTTTCATTATA-CATGTATATTTAT
*
88051369 TATTATACTTATTATTTTCA
1 TATTATACATATTATTTTCA
88051389 CTATTGCCAC
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
36 4 0.08
37 15 0.29
38 2 0.04
39 4 0.08
40 20 0.39
41 6 0.12
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (38 bp):
TATTATACATATTATTTTCATTATACATGTATATTTAT
Found at i:88051375 original size:12 final size:12
Alignment explanation
Indices: 88051274--88051384 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
88051264 ATTTTATTCC
88051274 TATTATATTTAT
1 TATTATATTTAT
*
88051286 TATTA-ATATTAG
1 TATTATAT-TTAT
*
88051298 TACATATATTTTAT
1 TA-TTATA-TTTAT
* *
88051312 TA-TACATGTA-
1 TATTATATTTAT
88051322 TATATATATTTAT
1 TAT-TATATTTAT
*
88051335 ATATAATA-TTAT
1 -TATTATATTTAT
88051347 T-TTCATA--TAT
1 TATT-ATATTTAT
*
88051357 CATTATATTTAT
1 TATTATATTTAT
*
88051369 TATTATACTTAT
1 TATTATATTTAT
88051381 TATT
1 TATT
88051385 TTCACTATTG
Statistics
Matches: 75, Mismatches: 12, Indels: 24
0.68 0.11 0.22
Matches are distributed among these distances:
10 9 0.12
11 11 0.15
12 40 0.53
13 5 0.07
14 9 0.12
15 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:88051527 original size:13 final size:14
Alignment explanation
Indices: 88051511--88051544 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
88051501 ACGTTCATTT
88051511 TATATATTA-TGTA
1 TATATATTATTGTA
88051524 TATATA-TATTGTA
1 TATATATTATTGTA
88051537 TATATATT
1 TATATATT
88051545 CTAGCATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 16 0.84
14 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TATATATTATTGTA
Found at i:88052802 original size:20 final size:20
Alignment explanation
Indices: 88052777--88052816 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
88052767 ACAGTAGCAA
88052777 AGTTAACATACGTTAATTTT
1 AGTTAACATACGTTAATTTT
88052797 AGTTAACATACGTTAATTTT
1 AGTTAACATACGTTAATTTT
88052817 TCCATCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
AGTTAACATACGTTAATTTT
Found at i:88059710 original size:50 final size:51
Alignment explanation
Indices: 88059633--88059761 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
88059623 GACCATGGCA
* * *
88059633 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCTAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
88059684 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
88059734 ACAAGTGAAAAGCGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
88059762 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 46 0.67
51 23 0.33
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:88059775 original size:31 final size:31
Alignment explanation
Indices: 88059737--88059885 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
88059727 ACAAATGACA
*
88059737 AGTGAAAAGCGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88059768 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
88059799 AGTGAAAAATGGTAGC-TCTGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
88059830 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
88059861 AGTGAATAGTGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
88059886 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 2 0.02
31 102 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:88059971 original size:47 final size:46
Alignment explanation
Indices: 88059912--88060058 Score: 159
Period size: 47 Copynumber: 3.1 Consensus size: 46
88059902 CTGTATAGGG
*
88059912 CCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGA
1 CCATATCTGGGATATGGCATCGGTGTGATATATGATAC-GTATAAGA
* ** * * *
88059959 CCATATCTGGGATATGGCATCAGTAAGATATGTGATTCGTGTAAGA
1 CCATATCTGGGATATGGCATCGGTGTGATATATGATACGTATAAGA
* * * *
88060005 CCATATCTAGGCTATGGCATCGATATGTGATATATGATTACGTGTAAGA
1 CCATATCTGGGATATGGCATCG--GTGTGATATATGA-TACGTATAAGA
88060054 CCATA
1 CCATA
88060059 GCTGCGCTAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 26 0.32
47 32 0.39
48 9 0.11
49 15 0.18
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (46 bp):
CCATATCTGGGATATGGCATCGGTGTGATATATGATACGTATAAGA
Found at i:88060058 original size:49 final size:49
Alignment explanation
Indices: 88059912--88060079 Score: 170
Period size: 49 Copynumber: 3.5 Consensus size: 49
88059902 CTGTATAGGG
* * *
88059912 CCATATCTGGGATATGGCATCG--GTGTGATATATG-CTACTGTATAAGA
1 CCATATCTGGGATATGGCATCGATATGTGATATATGATTAC-GTGTAAGA
* *
88059959 CCATATCTGGGATATGGCATC-AGTA--AGATATGTGATT-CGTGTAAGA
1 CCATATCTGGGATATGGCATCGA-TATGTGATATATGATTACGTGTAAGA
* *
88060005 CCATATCTAGGCTATGGCATCGATATGTGATATATGATTACGTGTAAGA
1 CCATATCTGGGATATGGCATCGATATGTGATATATGATTACGTGTAAGA
* * * *
88060054 CCATAGCTGCGCTATGACATCGATAT
1 CCATATCTGGGATATGGCATCGATAT
88060080 ATGAAGATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
46 28 0.28
47 30 0.30
48 11 0.11
49 31 0.31
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (49 bp):
CCATATCTGGGATATGGCATCGATATGTGATATATGATTACGTGTAAGA
Found at i:88070055 original size:3 final size:3
Alignment explanation
Indices: 88070047--88070085 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
88070037 AACTATGTTA
88070047 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
88070086 TTAATTAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:88071771 original size:2 final size:2
Alignment explanation
Indices: 88071720--88071752 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
88071710 TGGTATTTAA
*
88071720 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88071753 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88071787 original size:35 final size:36
Alignment explanation
Indices: 88071746--88071829 Score: 89
Period size: 39 Copynumber: 2.3 Consensus size: 36
88071736 ATATATATGT
* * *
88071746 ATATATAATA-GTATTTAAGAATATATACATAAGAA
1 ATATATAATAGGCATTAAAAAATATATACATAAGAA
* *
88071781 ATATATAACTAATGGCATTAAAAAATATATACATAATAT
1 ATATATAA-T-A-GGCATTAAAAAATATATACATAAGAA
88071820 ATATATAATA
1 ATATATAATA
88071830 CCTAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 8 0.20
36 1 0.03
37 2 0.05
38 1 0.03
39 28 0.70
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (36 bp):
ATATATAATAGGCATTAAAAAATATATACATAAGAA
Found at i:88072312 original size:25 final size:25
Alignment explanation
Indices: 88072279--88072384 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 25
88072269 TAGGTGGCTA
88072279 GGGTTAGGTTTTTTCTTTTTTTTTT
1 GGGTTAGGTTTTTTCTTTTTTTTTT
* ****
88072304 AGGTTAGG----TT-TTTTTTGGGG
1 GGGTTAGGTTTTTTCTTTTTTTTTT
88072324 GGGTTAGG-TTTTTC--TTTTTTTT
1 GGGTTAGGTTTTTTCTTTTTTTTTT
*
88072346 GGGTTAGGTTTTTTTTTTTTTTTTT
1 GGGTTAGGTTTTTTCTTTTTTTTTT
*
88072371 TGGTTAGGTTTTTT
1 GGGTTAGGTTTTTT
88072385 TTGAGGGGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
20 13 0.21
21 2 0.03
22 12 0.19
23 7 0.11
25 28 0.45
ACGTcount: A:0.06, C:0.02, G:0.25, T:0.67
Consensus pattern (25 bp):
GGGTTAGGTTTTTTCTTTTTTTTTT
Found at i:88072355 original size:42 final size:44
Alignment explanation
Indices: 88072279--88072361 Score: 134
Period size: 42 Copynumber: 1.9 Consensus size: 44
88072269 TAGGTGGCTA
88072279 GGGTTAGGTTTTTTCTTTTTTTTTTAGGTTAGGTTTTTTTTGGGG
1 GGGTTAGGTTTTTTC-TTTTTTTTTAGGTTAGGTTTTTTTTGGGG
*
88072324 GGGTTAGG-TTTTTC-TTTTTTTTGGGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTCTTTTTTTTTAGGTTAGGTTTTTTTT
88072362 TTTTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 23 0.62
44 6 0.16
45 8 0.22
ACGTcount: A:0.06, C:0.02, G:0.28, T:0.64
Consensus pattern (44 bp):
GGGTTAGGTTTTTTCTTTTTTTTTAGGTTAGGTTTTTTTTGGGG
Found at i:88073248 original size:30 final size:30
Alignment explanation
Indices: 88073212--88073273 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
88073202 TTTTGAAAAA
88073212 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
88073242 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
88073272 CA
1 CA
88073274 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:88073387 original size:14 final size:14
Alignment explanation
Indices: 88073364--88073398 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
88073354 TGAGTTGATT
88073364 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
88073377 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
88073391 TTTGAAAA
1 TTTGAAAA
88073399 TACCTTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:88073618 original size:164 final size:164
Alignment explanation
Indices: 88073255--88073716 Score: 409
Period size: 164 Copynumber: 2.7 Consensus size: 164
88073245 AAATTAAAAA
*
88073255 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAA-AAAAATTG---AAAATAGCT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAATAAAAATTGAAAAAAATACCT
* ** * **
88073316 CAATACGTGAGCC--AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATT
65 CAGTGTGTGA-CCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTAC--AATT
** * * * *
88073379 TGAAAAACAGATTTTGAAAATACCTTGACATGTGACCCGAG
124 TGAAAAACAGAAATTAAAAACACCTTGACACGTGACCCAAG
* * * *
88073420 GTTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTTGAAAAATATAAATTGAAAAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAAAAATTGAAAAAAATACCT
* * * *
88073485 CAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTC-TTTTGAAAG
65 CAGTGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACAATTTGAAAA
* *
88073549 ACAGAAATTAAAAACAGCTT-AGCACGTGAGCCAAG
130 ACAGAAATTAAAAACACCTTGA-CACGTGACCCAAG
* **
88073584 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--A---A-AAA-T-AAAAATTGAAA--
* * * *
88073649 GAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGA
56 -AAAATACCTCAGTGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-A
88073714 CAA
119 CAA
88073717 CAGAAATTGA
Statistics
Matches: 239, Mismatches: 37, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
163 9 0.04
164 59 0.25
165 40 0.17
166 7 0.03
167 1 0.00
168 2 0.01
169 52 0.22
170 3 0.01
171 8 0.03
174 57 0.24
175 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (164 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAAAATTGAAAAAAATACCTC
AGTGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACAATTTGAAAAA
CAGAAATTAAAAACACCTTGACACGTGACCCAAG
Found at i:88073768 original size:74 final size:74
Alignment explanation
Indices: 88073643--88073803 Score: 236
Period size: 74 Copynumber: 2.1 Consensus size: 74
88073633 TTGAAAAACG
* *
88073643 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TT
88073708 TTTTGACAA-CA
64 TTTTGA-AAGCA
* *
88073719 GAAATTGAAATTACCTCGGCGTGT-CCTGAGGCTCAACTCACTTCTCGCAATATGAGTCGATTTT
1 GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
88073783 TTGAAAGGCA
66 TTGAAA-GCA
88073793 GAAATTGAAAA
1 GAAATTGAAAA
88073804 ACGGAAATTG
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
72 2 0.03
73 8 0.10
74 45 0.58
76 23 0.29
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (74 bp):
GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
TTGAAAGCA
Done.