Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 55 of 318
Found at i:15535264 original size:9 final size:9
Alignment explanation
Indices: 15535250--15535306 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
15535240 ACATCATGTG
15535250 CATATCATA
1 CATATCATA
*
15535259 CATATCATGTG
1 CATATCA--TA
*
15535270 CATATCGTA
1 CATATCATA
*
15535279 CATATCATGTG
1 CATATCA--TA
15535290 CATATCATA
1 CATATCATA
15535299 CATATCAT
1 CATATCAT
15535307 GTGCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:15535267 original size:20 final size:20
Alignment explanation
Indices: 15535242--15535318 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
15535232 TTATGAATAC
15535242 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
15535262 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
15535282 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
15535302 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
15535319 TCAATATTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:15535273 original size:11 final size:11
Alignment explanation
Indices: 15535242--15535317 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
15535232 TTATGAATAC
15535242 ATCATGTGCAT
1 ATCATGTGCAT
*
15535253 ATCA--TACAT
1 ATCATGTGCAT
15535262 ATCATGTGCAT
1 ATCATGTGCAT
*
15535273 ATC--GTACAT
1 ATCATGTGCAT
15535282 ATCATGTGCAT
1 ATCATGTGCAT
*
15535293 ATCA--TACAT
1 ATCATGTGCAT
15535302 ATCATGTGCAT
1 ATCATGTGCAT
15535313 ATCAT
1 ATCAT
15535318 ATCAATATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:15540104 original size:40 final size:40
Alignment explanation
Indices: 15540060--15540200 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
15540050 ATAACCACAA
* *
15540060 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
* *
15540100 GCACAATTGCCTTCGCGTCTTAACCCGGGTTTAGTAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
* * *
15540140 GCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
* *
15540179 GCACGAA-CGCCTTCGGATCTTA
1 GCAC-AATTGCCTTCGGGTCTTA
15540201 GTCCGGATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.35
40 57 0.65
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
Found at i:15540177 original size:79 final size:81
Alignment explanation
Indices: 15540059--15540247 Score: 199
Period size: 79 Copynumber: 2.4 Consensus size: 81
15540049 TATAACCACA
* * * * * *
15540059 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC-AATTGCCTTCGCG-TCTTA
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAA-CGCCTTCG-GATCTTA
* *
15540122 ACCCGGGTTTAGTAAC-T
64 ACCCGGATATAGTAACTT
* * **
15540139 CGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAACGCCTTCGGATCTTAGT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAACGCCTTCGGATCTTAAC
*
15540203 CCGGATATAGTCACTT
66 CCGGATATAGTAACTT
*
15540219 AACACAAA-GCCTTCGGGACTTAGCCCGGA
1 AGCACAAATGCCTTCGGGACTTAGCCCGGA
15540248 CATCATTCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 54 0.59
80 36 0.40
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (81 bp):
AGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAACGCCTTCGGATCTTAAC
CCGGATATAGTAACTT
Found at i:15548149 original size:39 final size:39
Alignment explanation
Indices: 15548091--15548229 Score: 174
Period size: 39 Copynumber: 3.5 Consensus size: 39
15548081 ATAACCACAA
* *
15548091 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTC-GGTCTTAACCCGGATTTAGTAACTC
15548131 GCACAATTGCCTTCGGTCTTAACCCGG-TTTAGTAACTC
1 GCACAATTGCCTTCGGTCTTAACCCGGATTTAGTAACTC
* * * *
15548169 GCACAAATGCCTTCGGGCTTAGCCCGGATTTATTAACTC
1 GCACAATTGCCTTCGGTCTTAACCCGGATTTAGTAACTC
*
15548208 GCACGAA-CGCCTTCGGATCTTA
1 GCAC-AATTGCCTTCGG-TCTTA
15548230 GTCCGGATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
38 33 0.38
39 35 0.40
40 20 0.23
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (39 bp):
GCACAATTGCCTTCGGTCTTAACCCGGATTTAGTAACTC
Found at i:15555638 original size:89 final size:89
Alignment explanation
Indices: 15555472--15555640 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 89
15555462 GTTCTGGCTA
* *
15555472 AACCAGTGACAACACTGAAAAATAGCTTGGACTGTGCCATTTATACATGTAACGTTACAAGTCCA
1 AACCAGTGACAACACTGAAAAATAGCTTGGACAGGGCCATTTATACATGTAACGTTACAAGTCCA
*
15555537 GACTAAACCTTTAAACAAAACCAG
66 GACTAAAACTTTAAACAAAACCAG
* * * * * *
15555561 AACCAGTGACAACATTGAAAAATAGCTTGGTCAGGGCTATTTATATATGTAAGGTTACCAGTCCA
1 AACCAGTGACAACACTGAAAAATAGCTTGGACAGGGCCATTTATACATGTAACGTTACAAGTCCA
*
15555626 -AGTTAAAACTTTAAA
66 GA-CTAAAACTTTAAA
15555641 AAAGAAAATG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
88 1 0.01
89 68 0.99
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (89 bp):
AACCAGTGACAACACTGAAAAATAGCTTGGACAGGGCCATTTATACATGTAACGTTACAAGTCCA
GACTAAAACTTTAAACAAAACCAG
Found at i:15558273 original size:40 final size:40
Alignment explanation
Indices: 15558137--15558290 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
15558127 GTGTGCATGA
* *
15558137 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
15558177 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
15558217 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
15558257 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
15558291 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:15564781 original size:43 final size:44
Alignment explanation
Indices: 15564734--15564902 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 44
15564724 GTTATCAAGT
* * *
15564734 TGTGATTACATGTAAGACCATGTCTTGGATATTGGCATTGTAT-
1 TGTGATTACATGTAAGACCATATCTTGGACATTGGCATCGTATA
* * *
15564777 TGTGATTACGTGTAAGACCGTGTC-TGAGACATTGGCATCGTATA
1 TGTGATTACATGTAAGACCATATCTTG-GACATTGGCATCGTATA
* * * * *
15564821 T-TGATT-CGTGTAAAACCCTATCTGGGACAGTGGCATCG-ATA
1 TGTGATTACATGTAAGACCATATCTTGGACATTGGCATCGTATA
* * * *
15564862 TGTGATAACATGTAAGA-CATATCTAGGATA-TGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTTGGACATTGGCATCGTAT
15564903 GAGCTTATGT
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 11 0.11
42 43 0.41
43 49 0.47
44 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATATCTTGGACATTGGCATCGTATA
Found at i:15564855 original size:42 final size:44
Alignment explanation
Indices: 15564766--15564876 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 44
15564756 TCTTGGATAT
* * * * *
15564766 TGGCATTGTAT-TGTGATTACGTGTAAGACCGTGTCTGAGACAT
1 TGGCATCGTATATGTGATTACGTGTAAAACCCTATCTGAGACAG
*
15564809 TGGCATCGTATAT-TGATT-CGTGTAAAACCCTATCTGGGACAG
1 TGGCATCGTATATGTGATTACGTGTAAAACCCTATCTGAGACAG
* *
15564851 TGGCATCG-ATATGTGATAACATGTAA
1 TGGCATCGTATATGTGATTACGTGTAA
15564877 GACATATCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
41 4 0.07
42 31 0.54
43 21 0.37
44 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
TGGCATCGTATATGTGATTACGTGTAAAACCCTATCTGAGACAG
Found at i:15569851 original size:27 final size:27
Alignment explanation
Indices: 15569821--15569903 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
15569811 GCTATCCCTC
15569821 CATAATT-CGCAACAAAGGCATTCCTTT
1 CATAATTGCGCAACAAAGGC-TTCCTTT
*
15569848 CAT-ATTGCGCCACAAAGGCTTCCTTT
1 CATAATTGCGCAACAAAGGCTTCCTTT
* * * * *
15569874 CAT-ATTACGCCACAAAAGTTTCCTTC
1 CATAATTGCGCAACAAAGGCTTCCTTT
15569900 CATA
1 CATA
15569904 TTACGCTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 35 0.71
27 14 0.29
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (27 bp):
CATAATTGCGCAACAAAGGCTTCCTTT
Found at i:15569877 original size:26 final size:26
Alignment explanation
Indices: 15569832--15569909 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
15569822 ATAATTCGCA
*
15569832 ACAAAGGCATTCCTTTCATATTGCGCC
1 ACAAAGGC-TTCCTTTCATATTACGCC
15569859 ACAAAGGCTTCCTTTCATATTACGCC
1 ACAAAGGCTTCCTTTCATATTACGCC
* * *
15569885 ACAAAAGTTTCCTTCCATATTACGC
1 ACAAAGGCTTCCTTTCATATTACGC
15569910 TTGAAAGGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 39 0.83
27 8 0.17
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (26 bp):
ACAAAGGCTTCCTTTCATATTACGCC
Found at i:15571292 original size:19 final size:18
Alignment explanation
Indices: 15571257--15571297 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
15571247 AGATAAAAAT
15571257 AAATAACAAAAAATAAAC
1 AAATAACAAAAAATAAAC
*
15571275 AAATAAGAAAAGAATAAAC
1 AAATAACAAAA-AATAAAC
15571294 AAAT
1 AAAT
15571298 GACTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (18 bp):
AAATAACAAAAAATAAAC
Found at i:15577221 original size:25 final size:27
Alignment explanation
Indices: 15577184--15577237 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
15577174 TCAAACATGC
15577184 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
15577210 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
15577236 AT
1 AT
15577238 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:15577245 original size:26 final size:27
Alignment explanation
Indices: 15577201--15577276 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
15577191 TCAATTTAAC
* * *
15577201 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
15577227 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
15577255 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
15577277 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:15577531 original size:8 final size:8
Alignment explanation
Indices: 15577518--15577546 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15577508 AAATACCGAT
15577518 TTTCGGCA
1 TTTCGGCA
15577526 TTTCGGCA
1 TTTCGGCA
15577534 TTTCGGCA
1 TTTCGGCA
15577542 TTTCG
1 TTTCG
15577547 ACTTTTGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Found at i:15578764 original size:26 final size:26
Alignment explanation
Indices: 15578728--15578811 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
15578718 CATGAAATTC
15578728 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15578754 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
15578780 TTATCATGGAATAGTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15578806 TTATCA
1 TTATCA
15578812 GTTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15582424 original size:15 final size:15
Alignment explanation
Indices: 15582400--15582431 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15582390 GCAATAAAAA
*
15582400 TTCAGTACTTAATTT
1 TTCAGCACTTAATTT
15582415 TTCAGCACTTAATTT
1 TTCAGCACTTAATTT
15582430 TT
1 TT
15582432 ATCAAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (15 bp):
TTCAGCACTTAATTT
Found at i:15592963 original size:21 final size:21
Alignment explanation
Indices: 15592937--15592979 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15592927 AGACATGGAA
*
15592937 TGCCTTCGTTGAAACTTTTGT
1 TGCCTTCGTTAAAACTTTTGT
15592958 TGCCTTCGTTAAAACTTTTGT
1 TGCCTTCGTTAAAACTTTTGT
15592979 T
1 T
15592980 TTGCCATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (21 bp):
TGCCTTCGTTAAAACTTTTGT
Found at i:15593364 original size:22 final size:21
Alignment explanation
Indices: 15593336--15593377 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
15593326 TGAACGGGGA
*
15593336 AGTGGAAGGATGGAAAGAGTAG
1 AGTGGAAAGATGGAAA-AGTAG
15593358 AGTGGAAAGATGGAAAAGTA
1 AGTGGAAAGATGGAAAAGTA
15593378 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (21 bp):
AGTGGAAAGATGGAAAAGTAG
Found at i:15593527 original size:15 final size:16
Alignment explanation
Indices: 15593507--15593536 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15593497 ATCTAAGTGT
15593507 GAATTTT-ATTTTTTG
1 GAATTTTCATTTTTTG
15593522 GAATTTTCATTTTTT
1 GAATTTTCATTTTTT
15593537 TTAATATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.03, G:0.10, T:0.67
Consensus pattern (16 bp):
GAATTTTCATTTTTTG
Found at i:15596201 original size:30 final size:30
Alignment explanation
Indices: 15596167--15596228 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
15596157 CAAGTTAACA
*
15596167 AACAAATACCTCTAAAATAATAATAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
* *
15596197 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
15596227 AA
1 AA
15596229 TAATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.26
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:15599170 original size:23 final size:24
Alignment explanation
Indices: 15599144--15599207 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 24
15599134 ATAAATATGA
* *
15599144 TTATTTATTGTT-TGCTTATTTGT
1 TTATTTATTATTCAGCTTATTTGT
15599167 TTATTTATTATTCACGAGCTTATTTGT
1 TTATTTATTATT--C-AGCTTATTTGT
15599194 TTATTTATTATTCA
1 TTATTTATTATTCA
15599208 TGAGCATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
23 11 0.31
24 1 0.03
25 1 0.03
27 22 0.63
ACGTcount: A:0.20, C:0.08, G:0.09, T:0.62
Consensus pattern (24 bp):
TTATTTATTATTCAGCTTATTTGT
Found at i:15599174 original size:27 final size:28
Alignment explanation
Indices: 15599157--15599218 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 28
15599147 TTTATTGTTT
15599157 GCTTATTTGTTTATTTA-TTATTCACGA
1 GCTTATTTGTTTATTTATTTATTCACGA
*
15599184 GCTTATTTGTTTATTTA-TTATTCATGA
1 GCTTATTTGTTTATTTATTTATTCACGA
15599211 GCATTATT
1 GC-TTATT
15599219 CGTGAATATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.23, C:0.10, G:0.11, T:0.56
Consensus pattern (28 bp):
GCTTATTTGTTTATTTATTTATTCACGA
Found at i:15607181 original size:40 final size:39
Alignment explanation
Indices: 15607136--15607266 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
15607126 CGGAATATAA
15607136 CCGGATATAATCACGTGCGCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCGCAAATGCCTTCGGGTCTTAGC
* *
15607176 CCGGATAGAATAACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCGCA--AATGCCTTCGGGTCTTAGC
** * * *
15607216 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCGCAAATGCCTTCGGGTCTTAGC
15607256 CCGGATATAAT
1 CCGGATATAAT
15607267 TTCCAGCATA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.05
39 1 0.01
40 68 0.89
42 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAATCACTGCGCAAATGCCTTCGGGTCTTAGC
Found at i:15607280 original size:40 final size:40
Alignment explanation
Indices: 15607136--15607303 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
15607126 CGGAATATAA
* ** * *
15607136 CCGGATATAATCACGTGCGCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
*
15607176 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
*** * *
15607216 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
** * ** *
15607256 CCGGATATAATTTCCAGCATAATTGTTTTCGGGGCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
15607296 CCGGATAT
1 CCGGATAT
15607304 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.02
40 100 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:15611557 original size:16 final size:16
Alignment explanation
Indices: 15611536--15611567 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15611526 ACTGTAACGC
15611536 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
15611552 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
15611568 TCACAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:15616941 original size:40 final size:40
Alignment explanation
Indices: 15616897--15617091 Score: 245
Period size: 40 Copynumber: 4.9 Consensus size: 40
15616887 GGATATAGCT
* * *
15616897 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
15616937 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
15616977 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
15617017 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
15617056 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
15617092 CATCCAAATA
Statistics
Matches: 137, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 31 0.23
40 103 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:15620880 original size:2 final size:2
Alignment explanation
Indices: 15620873--15620914 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15620863 ATGTGCAAAC
15620873 AT AT AT AT 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 AT AT AT AT
15620915 GTGCAAGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15622925 original size:28 final size:28
Alignment explanation
Indices: 15622885--15622992 Score: 110
Period size: 28 Copynumber: 3.8 Consensus size: 28
15622875 GACTGTAAAC
*
15622885 GTGATTTGGGCCTAGT-GGCCATATGAAT
1 GTGA-TTGGGCCTAATGGGCCATATGAAT
* *
15622913 GTGATTTGGGCCTAATGGGCCACATAAAT
1 GTGA-TTGGGCCTAATGGGCCATATGAAT
* * * *
15622942 GTGAATGGGCCTAATGAGCTATATGAAA
1 GTGATTGGGCCTAATGGGCCATATGAAT
* *
15622970 GAGATTGGGCCTAGTGGGCCATA
1 GTGATTGGGCCTAATGGGCCATA
15622993 CATTTATAGG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
28 51 0.78
29 14 0.22
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATGAAT
Found at i:15630726 original size:28 final size:28
Alignment explanation
Indices: 15630686--15630796 Score: 116
Period size: 28 Copynumber: 3.9 Consensus size: 28
15630676 CATGACTGTA
15630686 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* * *
15630714 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* * * *
15630743 AATGTGAATAGGCCTAGTAGGCCGTATG
1 AATGTGATTGGGCCTAGTGGGCCATATG
* *
15630771 AAAGAGATTGGGCCTAGTGGGCCATA
1 AATGTGATTGGGCCTAGTGGGCCATA
15630797 CATATATAGG
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 52 0.79
29 14 0.21
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:15633779 original size:23 final size:23
Alignment explanation
Indices: 15633744--15633816 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
15633734 ATGAACAATT
* * *
15633744 AGCTTTATTGAGCTGAAATGGTA
1 AGCTCTATCGAGCTGAAATGATA
15633767 AGCTCTATCGAGCTGAACA--ATA
1 AGCTCTATCGAGCTGAA-ATGATA
*
15633789 AGCTC-ATACGAGTTGAAATGATA
1 AGCTCTAT-CGAGCTGAAATGATA
15633812 AGCTC
1 AGCTC
15633817 CAATGAGCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 3 0.07
22 15 0.36
23 23 0.55
24 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (23 bp):
AGCTCTATCGAGCTGAAATGATA
Found at i:15641375 original size:23 final size:22
Alignment explanation
Indices: 15641349--15641434 Score: 57
Period size: 23 Copynumber: 3.8 Consensus size: 22
15641339 AGCTTTGTTT
15641349 AGCTTAAATGGTAAGCTTTATCG
1 AGCTTAAATGGTAAGCTTTAT-G
* * *
15641372 AGC-TGAATAGTAAGCTCATATG
1 AGCTTAAATGGTAAGCT-TTATG
* * *
15641394 AGCTGAAGTGGTAAGCTTCAATG
1 AGCTTAAATGGTAAGCTT-TATG
* *
15641417 AGCTAATAATAGTAAGCT
1 AGCTTA-AATGGTAAGCT
15641435 CTTACAAGCT
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
22 15 0.32
23 23 0.49
24 9 0.19
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (22 bp):
AGCTTAAATGGTAAGCTTTATG
Found at i:15641387 original size:22 final size:22
Alignment explanation
Indices: 15641359--15641434 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
15641349 AGCTTAAATG
15641359 GTAAGCTTTATCGAGCTGAA-TA
1 GTAAGCTTTAT-GAGCTGAAGTA
* *
15641381 GTAAGCTCATATGAGCTGAAGTG
1 GTAAGCT-TTATGAGCTGAAGTA
* * *
15641404 GTAAGCTTCAATGAGCTAATAATA
1 GTAAGCTT-TATGAGCTGA-AGTA
15641428 GTAAGCT
1 GTAAGCT
15641435 CTTACAAGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 15 0.35
23 19 0.44
24 9 0.21
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (22 bp):
GTAAGCTTTATGAGCTGAAGTA
Found at i:15641434 original size:24 final size:24
Alignment explanation
Indices: 15641377--15641434 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
15641367 TATCGAGCTG
*
15641377 AATAGTAAGC-TCATATGAGCTGA
1 AATAGTAAGCTTCATATGAGCTAA
* *
15641400 AGTGGTAAGCTTCA-ATGAGCTAA
1 AATAGTAAGCTTCATATGAGCTAA
15641423 TAATAGTAAGCT
1 -AATAGTAAGCT
15641435 CTTACAAGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (24 bp):
AATAGTAAGCTTCATATGAGCTAA
Found at i:15644717 original size:14 final size:14
Alignment explanation
Indices: 15644698--15644725 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15644688 AAGATGAGAA
15644698 AATAAGATGATATT
1 AATAAGATGATATT
15644712 AATAAGATGATATT
1 AATAAGATGATATT
15644726 TCTTTTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
AATAAGATGATATT
Found at i:15647110 original size:27 final size:28
Alignment explanation
Indices: 15647054--15647123 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
15647044 AAATTTGTAC
15647054 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
15647082 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
15647109 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15647124 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:15647134 original size:27 final size:27
Alignment explanation
Indices: 15647054--15647135 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
15647044 AAATTTGTAC
* *
15647054 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
15647082 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
15647109 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
15647136 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:15655661 original size:24 final size:25
Alignment explanation
Indices: 15655634--15655708 Score: 120
Period size: 23 Copynumber: 3.1 Consensus size: 25
15655624 GCCTAGCCTC
15655634 TTTTAATAACTGGGGCA-AAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
*
15655658 TTTTAATAACCGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCT
15655682 -TTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
15655706 TTT
1 TTT
15655709 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 22 0.48
24 16 0.35
25 8 0.17
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (25 bp):
TTTTAATAACTGGGGCATAAGCCCT
Found at i:15655780 original size:9 final size:9
Alignment explanation
Indices: 15655766--15655842 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
15655756 ATCTCGTGTG
15655766 CATATCATA
1 CATATCATA
*
15655775 CATATCATGTG
1 CATATCA--TA
15655786 CATATCATA
1 CATATCATA
* * *
15655795 CGTGTCATGTG
1 CATATCA--TA
15655806 CATATCATA
1 CATATCATA
*
15655815 CATATCATGTG
1 CATATCA--TA
15655826 CATATCATA
1 CATATCATA
15655835 CATATCAT
1 CATATCAT
15655843 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:15655785 original size:20 final size:20
Alignment explanation
Indices: 15655762--15655844 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
15655752 GAACATCTCG
15655762 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
15655782 TGTGCATATCATACGTGTCA
1 TGTGCATATCATACATATCA
15655802 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
15655822 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
15655842 TGT
1 TGT
15655845 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:15655791 original size:11 final size:11
Alignment explanation
Indices: 15655762--15655833 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
15655752 GAACATCTCG
15655762 TGTGCATATCA
1 TGTGCATATCA
*
15655773 --TACATATCA
1 TGTGCATATCA
15655782 TGTGCATATCA
1 TGTGCATATCA
* * *
15655793 --TACGTGTCA
1 TGTGCATATCA
15655802 TGTGCATATCA
1 TGTGCATATCA
*
15655813 --TACATATCA
1 TGTGCATATCA
15655822 TGTGCATATCA
1 TGTGCATATCA
15655833 T
1 T
15655834 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:15657197 original size:27 final size:27
Alignment explanation
Indices: 15657168--15657506 Score: 416
Period size: 27 Copynumber: 12.6 Consensus size: 27
15657158 GGGTATTTTA
* *
15657168 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
15657195 GTAATTCTGTAAATCAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
15657222 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
15657249 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
15657276 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
15657303 ATAATTATGTAAATCG-GAGGTAAAACG
1 GTAATTCTGTAAATCGAG-GGTAAAACG
* * **
15657330 GTAATTATGTAAATTG-GGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
15657356 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
15657383 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
15657410 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
15657437 GTAATTTTACAAATCGTGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
15657464 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
15657491 ATAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
15657507 GGAGTACTTT
Statistics
Matches: 273, Mismatches: 33, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 26 0.10
27 243 0.89
28 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:15668707 original size:40 final size:40
Alignment explanation
Indices: 15668652--15668819 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
15668642 TGAATGATAC
* *
15668652 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
15668692 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
15668732 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
15668772 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
15668812 CC-GGCTAA
1 CCGGGCTAA
15668820 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:15676811 original size:40 final size:40
Alignment explanation
Indices: 15676756--15676923 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
15676746 TTGAATGATA
* *
15676756 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
15676796 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
15676836 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
15676876 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
15676916 CC-GGCTAA
1 CCGGGCTAA
15676924 ATTCGAAGAA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:15681226 original size:27 final size:26
Alignment explanation
Indices: 15681185--15681299 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
15681175 AGCATGGCTG
* * *
15681185 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
15681211 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
15681238 CCAGAACAGATATCTGTGGCATAGCCA
1 CCAGAACAGATAT-TGTGGCAGAGCCA
* *
15681265 CCAGAAATAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
15681293 CCAGAAC
1 CCAGAAC
15681300 GATTCCTCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 13 0.16
27 41 0.52
28 23 0.29
29 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:15681292 original size:55 final size:53
Alignment explanation
Indices: 15681185--15681299 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 53
15681175 AGCATGGCTG
* * *
15681185 CCAGAATAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTGGCAGAGCCA
* * * *
15681238 CCAGAACAGATATCTGTGGCATAGCCACCAGAAATAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAT-TGTGACAGAGCCACCAGAAACAGAT-ATTGTGGCAGAGCCA
15681293 CCAGAAC
1 CCAGAAC
15681300 GATTCCTCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 12 0.23
54 20 0.38
55 21 0.40
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTGGCAGAGCCA
Found at i:15681463 original size:27 final size:28
Alignment explanation
Indices: 15681403--15681466 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
15681393 AAATTAACCC
* *
15681403 TAGGGGTATAATGGTCATTTTGCATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
15681431 TAGGGGTATAATGGTAATTGT-CATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
15681458 TAGGGGTAT
1 TAGGGGTAT
15681467 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.38
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTGTGCATACT
Found at i:15686167 original size:33 final size:34
Alignment explanation
Indices: 15686090--15686169 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
15686080 TATGGGCCAT
*
15686090 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
15686124 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
15686157 ACTGTTATCTGAA
1 ACTGTTATCTGAA
15686170 CGGGCTTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:15694096 original size:33 final size:34
Alignment explanation
Indices: 15694019--15694099 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
15694009 TATGAGCCAT
*
15694019 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
15694053 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
15694086 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
15694100 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:15694104 original size:32 final size:30
Alignment explanation
Indices: 15694019--15694112 Score: 71
Period size: 32 Copynumber: 2.9 Consensus size: 30
15694009 TATGAGCCAT
* *
15694019 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCT-TGGCCCAGTTC
* * *
15694053 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCT-TGGCCCAGT-TC
15694086 ACTGTTATCTGAATGGGCTTAGGCCCA
1 ACTGTTATCTGAATGGGCTT-GGCCCA
15694113 ATGGGCTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.02
32 26 0.54
33 10 0.21
34 9 0.19
35 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (30 bp):
ACTGTTATCTGAATGGGCTTGGCCCAGTTC
Found at i:15705064 original size:26 final size:26
Alignment explanation
Indices: 15705006--15705065 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
15704996 TATCCCTGTT
*
15705006 TAGAATACTTTAGTTTACCAAATTAC
1 TAGAATACTTTAGTTTACAAAATTAC
*
15705032 TAAAATACTCTTAGTTTACAAAATTAC
1 TAGAATACT-TTAGTTTACAAAATTAC
15705059 T-GAATAC
1 TAGAATAC
15705066 CCTCGATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (26 bp):
TAGAATACTTTAGTTTACAAAATTAC
Found at i:15705096 original size:27 final size:28
Alignment explanation
Indices: 15705061--15705273 Score: 158
Period size: 27 Copynumber: 7.9 Consensus size: 28
15705051 AAAATTACTG
* *
15705061 AATACCCTCGA-TTAGCAAAATTACCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* * *
15705088 AATACCCTC-AATTAGCAAAATTACCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* * *
15705115 AATA-CCTCTAGTTTGTAAAATTATCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* * *
15705142 AATACCC-CTAGTTTGTAAAATTATCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* * **
15705169 AATTCCC-CTGA-TTTGTGAAATTACTGA
1 AATACCCTC-GACTTTGTAAAATTACCAA
* *
15705196 AATACCCTCGAC-CTGTAAAATTACTAA
1 AATACCCTCGACTTTGTAAAATTACCAA
*
15705223 AATACCCTCGAC-TTGTAAAATTTCCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* * *
15705250 AGTACCCT-GA-TTTATAGAATTACC
1 AATACCCTCGACTTTGTAAAATTACC
15705274 GTTTTACCCT
Statistics
Matches: 158, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
26 17 0.11
27 137 0.87
28 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (28 bp):
AATACCCTCGACTTTGTAAAATTACCAA
Found at i:15705308 original size:27 final size:27
Alignment explanation
Indices: 15705186--15705309 Score: 92
Period size: 27 Copynumber: 4.6 Consensus size: 27
15705176 CTGATTTGTG
* *
15705186 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* *
15705213 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* * *
15705240 AAATTTC-CAAAGTACCCT-GATTTATA
1 AAATTACTGAAA-TACCCTCGACTTATA
* * *** *
15705266 GAATTACCGTTTTACCCTC-ATTTTATA
1 AAATTACTGAAATACCCTCGA-CTTATA
15705293 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
15705310 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
26 21 0.28
27 55 0.72
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTATA
Found at i:15705324 original size:27 final size:27
Alignment explanation
Indices: 15705294--15705408 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
15705284 CATTTTATAA
* *
15705294 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
**
15705321 AATTACCGAAATACCCTTGTAGCATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
15705348 AAATACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
15705375 AATTA-CTAAGATACCCTTGTGGGGTAA
1 AATTACCGAA-ATACCCTTGTAGGGTAG
15705402 AATTACC
1 AATTACC
15705409 ATTTTGCCCC
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.04
27 69 0.95
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:15705929 original size:27 final size:27
Alignment explanation
Indices: 15705889--15705940 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
15705879 GCCATCTTGA
*
15705889 CTATGGCTTCGTGCCAAACGTATTTAC
1 CTATGGCTTCGTGCCAAACATATTTAC
*
15705916 CTATGGCTAT-GTGCCTAACATATTT
1 CTATGGCT-TCGTGCCAAACATATTT
15705941 GCTGATGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (27 bp):
CTATGGCTTCGTGCCAAACATATTTAC
Found at i:15706139 original size:26 final size:26
Alignment explanation
Indices: 15706062--15706142 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
15706052 ATTCTGTTAA
* *
15706062 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
*
15706089 GTAGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
*
15706116 GTGGCTCTGCCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
15706142 G
1 G
15706143 CAGCCATTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.29
27 27 0.56
28 7 0.15
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:15706269 original size:6 final size:6
Alignment explanation
Indices: 15706260--15706384 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
15706250 TTGCATTCAC
* * * *
15706260 ATTCTG ATTCTA ATTCTG -TTACCTG ATGCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
15706310 ATTCTA ATTTTG ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
15706359 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
15706385 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:15706313 original size:19 final size:19
Alignment explanation
Indices: 15706288--15706358 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
15706278 TTACCTGATG
15706288 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
* * * *
15706307 CTAATTCTAATT-T-TGATT
1 CTGATTCTGATTCTGTCA-C
*
15706325 TTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
15706344 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
15706359 ATTCTCATTT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
17 2 0.05
18 10 0.26
19 25 0.64
20 2 0.05
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTCAC
Found at i:15706323 original size:25 final size:25
Alignment explanation
Indices: 15706266--15706324 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
15706256 TCACATTCTG
* * * *
15706266 ATTCTAATTCTGTTACCTGATGCTG
1 ATTCTGATTCTGTCACCTAATGCTA
*
15706291 ATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGTCACCTAATGCTA
*
15706316 ATTTTGATT
1 ATTCTGATT
15706325 TTGATTCTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTAATGCTA
Found at i:15706330 original size:37 final size:37
Alignment explanation
Indices: 15706282--15706375 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
15706272 ATTCTGTTAC
*
15706282 CTGATGCTGATTCTGATTCTGTCACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* * * *
15706319 TTGATTTTGATTCTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* *
15706356 CTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCTGATTCT
15706376 AGTTCTGATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:15709811 original size:28 final size:28
Alignment explanation
Indices: 15709754--15709873 Score: 150
Period size: 28 Copynumber: 4.2 Consensus size: 28
15709744 ATCCATACTT
* *
15709754 ATTCATTTGGCCCCTTTAGGCCCAATCAC
1 ATTCATATGGCCCC-TCAGGCCCAATCAC
15709783 ATTCATATGGCCCCTCAGGCCCAATCAC
1 ATTCATATGGCCCCTCAGGCCCAATCAC
* *
15709811 ATTCATATAGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCCTCAGGCCCAATCAC
* * * * *
15709839 TTTTATATGGCACGTCTGGCCCAATCAC
1 ATTCATATGGCCCCTCAGGCCCAATCAC
15709867 ATTCATA
1 ATTCATA
15709874 GTCATGCAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 66 0.84
29 13 0.16
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCCCTCAGGCCCAATCAC
Found at i:15712682 original size:30 final size:29
Alignment explanation
Indices: 15712636--15712695 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
15712626 TTCCCGAGCC
*
15712636 TAGGGGAAAATGTGTAAATATGCAAAAGTT
1 TAGGGGAAAATGTGT-AATATGAAAAAGTT
*
15712666 TAGGGGCAAAAT-TGTAATTTGAAAAAGTT
1 TAGGGG-AAAATGTGTAATATGAAAAAGTT
15712695 T
1 T
15712696 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 9 0.33
31 5 0.19
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGAAAATGTGTAATATGAAAAAGTT
Found at i:15713309 original size:64 final size:64
Alignment explanation
Indices: 15713188--15713471 Score: 268
Period size: 64 Copynumber: 4.3 Consensus size: 64
15713178 TAATACGGGA
* * *
15713188 TGTATACCATGT-GTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATAC
1 TGTACACCATGTAG-ACAAGAGAGCTACGAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATAC
15713252 TATG
61 TATG
* * * * *
15713256 TGTACACCATGTAGATAAGAGAGCTATGGGATATATGTAGCTAGGTCGTATGGGTGATACTATG
1 TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACTATG
** * * *
15713320 TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTTACATGTGTGGTTCTAAGT
1 TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACT-A-T
15713385 G
64 G
* * * * * * * *
15713386 AAGGACACCATGTAAACAAGAGAGCTACGAGATAAA-GTGGCTAGGTCACATAGGTGGTACTAAG
1 -TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACTATG
*
15713450 TGTTCACCATGT-GTACAAGAGA
1 TGTACACCATGTAG-ACAAGAGA
15713472 ACCAAAATTA
Statistics
Matches: 181, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
63 17 0.09
64 80 0.44
65 4 0.02
66 23 0.13
67 32 0.18
68 24 0.13
69 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (64 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:15713409 original size:67 final size:66
Alignment explanation
Indices: 15713323--15713451 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 66
15713313 TACTATGTGT
* * *
15713323 ACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTTACAT-GTGTGGTTCTAAGTGA
1 ACACCATGTAAACAAGAGAGCTACGAGATAAA-GTAGCTAGGTCACATAG-GTGGTACTAAGTGA
15713387 AGG
64 AGG
*
15713390 ACACCATGTAAACAAGAGAGCTACGAGATAAAGTGGCTAGGTCACATAGGTGGTACTAAGTG
1 ACACCATGTAAACAAGAGAGCTACGAGATAAAGTAGCTAGGTCACATAGGTGGTACTAAGTG
15713452 TTCACCATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 25 0.44
67 32 0.56
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.22
Consensus pattern (66 bp):
ACACCATGTAAACAAGAGAGCTACGAGATAAAGTAGCTAGGTCACATAGGTGGTACTAAGTGAAG
G
Found at i:15724240 original size:22 final size:23
Alignment explanation
Indices: 15724185--15724285 Score: 91
Period size: 23 Copynumber: 4.4 Consensus size: 23
15724175 TAAGCTGATG
** *
15724185 AACAGTAAGCTCTATTAACCTGA
1 AACAGTAAGCTCTATCGAGCTGA
*
15724208 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
*
15724230 AACAGTAAGCTC-ATACGAGTTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
* * *
15724253 AACGGTAAGCTCCAAT-GAGCTCA
1 AACAGTAAGCT-CTATCGAGCTGA
15724276 AACAGTAAGC
1 AACAGTAAGC
15724286 CCTTACCGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
21 2 0.03
22 17 0.27
23 42 0.66
24 1 0.02
25 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:15727004 original size:17 final size:17
Alignment explanation
Indices: 15726982--15727018 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
15726972 TTAGAGTTAT
15726982 AAATGTGAATTTCACTA
1 AAATGTGAATTTCACTA
15726999 AAATGTGAATTTCACTA
1 AAATGTGAATTTCACTA
15727016 AAA
1 AAA
15727019 AGGGCTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATGTGAATTTCACTA
Found at i:15729547 original size:47 final size:47
Alignment explanation
Indices: 15729492--15729739 Score: 388
Period size: 47 Copynumber: 5.3 Consensus size: 47
15729482 ACAAGATATG
15729492 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
15729539 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
15729586 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTTTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
15729633 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
15729680 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
15729727 TAAATGTGATAAG
1 TATATGTGATAAG
15729740 TCCCGAAGGG
Statistics
Matches: 181, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 181 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:15732520 original size:40 final size:40
Alignment explanation
Indices: 15732456--15732646 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
15732446 GCTACTCGTT
* * * ***
15732456 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
15732496 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
15732536 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * **
15732575 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
15732614 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
15732647 TTCGCACATT
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 89 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:15732573 original size:39 final size:39
Alignment explanation
Indices: 15732492--15732654 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
15732482 TATGGTAACC
* *
15732492 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
15732532 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
15732571 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15732610 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
15732649 CGCACA
1 CGCACA
15732655 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:15740465 original size:39 final size:39
Alignment explanation
Indices: 15740384--15740546 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
15740374 TATGGTAACC
* *
15740384 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
15740424 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15740463 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15740502 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
15740541 CGCACA
1 CGCACA
15740547 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:15748363 original size:39 final size:39
Alignment explanation
Indices: 15748282--15748444 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
15748272 TATGGTAACC
* *
15748282 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
15748322 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15748361 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15748400 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
15748439 CGCACA
1 CGCACA
15748445 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:15759066 original size:13 final size:12
Alignment explanation
Indices: 15759046--15759083 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
15759036 CATACTTTTC
15759046 TCATTCATTCAA
1 TCATTCATTCAA
*
15759058 TCAATTCATACAA
1 TC-ATTCATTCAA
15759071 TCA-TCATTCAA
1 TCATTCATTCAA
15759082 TC
1 TC
15759084 TCAATCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 11 0.48
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (12 bp):
TCATTCATTCAA
Found at i:15760606 original size:24 final size:24
Alignment explanation
Indices: 15760570--15760649 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
15760560 TAAGCTTTAT
15760570 TGAGCTG-GAAACAGTAAACTCTGA
1 TGAGCTGAG-AACAGTAAACTCTGA
*
15760594 TGACCTGAGAACAGTAAACTCTGA
1 TGAGCTGAGAACAGTAAACTCTGA
* * * *
15760618 CGAGCTAAGAACAGTAAGCTCTTA
1 TGAGCTGAGAACAGTAAACTCTGA
15760642 TGAGCTGA
1 TGAGCTGA
15760650 TATATCGGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAACTCTGA
Found at i:15788320 original size:40 final size:39
Alignment explanation
Indices: 15788284--15788390 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
15788274 ATATCCGGAC
*
15788284 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
15788324 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
15788363 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
15788391 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:15788391 original size:40 final size:40
Alignment explanation
Indices: 15788290--15788419 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
15788280 GGACTAAGAT
* * *
15788290 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
15788329 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
15788369 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
15788409 CCGAAGGCATT
1 CCGAAGGCATT
15788420 TGAGCTAGTC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:15788452 original size:79 final size:79
Alignment explanation
Indices: 15788289--15788454 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
15788279 CGGACTAAGA
* * *
15788289 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
15788354 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * * *
15788368 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCTAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
15788431 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
15788447 TCCGAAGG
1 TCCGAAGG
15788455 TACGTGATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
79 40 0.56
80 31 0.44
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:15796381 original size:40 final size:39
Alignment explanation
Indices: 15796345--15796451 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
15796335 ATATCCGGAC
*
15796345 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
15796385 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
15796424 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
15796452 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:15796452 original size:40 final size:40
Alignment explanation
Indices: 15796351--15796480 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
15796341 GGACTAAGAT
* * *
15796351 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
15796390 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
15796430 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
15796470 CCGAAGGCATT
1 CCGAAGGCATT
15796481 TGAGCTAGTC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:15796513 original size:79 final size:79
Alignment explanation
Indices: 15796350--15796515 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
15796340 CGGACTAAGA
* * *
15796350 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
15796415 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * * *
15796429 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCTAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
15796492 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
15796508 TCCGAAGG
1 TCCGAAGG
15796516 TACGTGATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
79 40 0.56
80 31 0.44
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:15799355 original size:27 final size:27
Alignment explanation
Indices: 15799325--15799389 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
15799315 GGGCAAAACA
*
15799325 GTCATTTTACCCTACAAGGGTATGTCG
1 GTCATTTTACACTACAAGGGTATGTCG
*
15799352 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
15799379 ATAATTTTACA
1 GTCATTTTACA
15799390 AATCGAGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:15799398 original size:27 final size:27
Alignment explanation
Indices: 15799341--15799893 Score: 548
Period size: 27 Copynumber: 20.7 Consensus size: 27
15799331 TTACCCTACA
* * * *
15799341 AGGGTATGTCGGTCATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
*
15799368 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
15799395 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
15799422 AGGGTATTTTGGTAATTTTATAAATCC
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
15799449 AGGGTGTTTCGGTAATTTTACAAATCC
1 AGGGTATTTCGGTAATTTTACAAATCG
*
15799476 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
15799503 AGGGTGTTTCGGTAATTGTACAAACCC
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
15799530 AGGGTGTTTCAGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
15799557 AGGGCATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * *
15799584 AGGATATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
15799610 AGGGTATTTCAAG-AATTTTACAAATCG
1 AGGGTATTTC-GGTAATTTTACAAATCG
*
15799637 AGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
15799664 AAGGTGTTTTGGTAA-TTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
15799690 AGCGTGTTTCGGTAATTTTAAAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
15799717 AGGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
15799744 AGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
15799771 AGGGTATTTCAATAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
15799797 AGGGTATTTCGATAATTTTACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCG
*
15799823 AGGGT-TTTTGGTAATTTTACAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
*
15799849 AGGGTATTTCGGTAATTTTACAAACTGG
1 AGGGTATTTCGGTAATTTTACAAA-TCG
15799877 A-GGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
15799894 CTCTTTATTA
Statistics
Matches: 447, Mismatches: 68, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
25 16 0.04
26 77 0.17
27 350 0.78
28 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:15806305 original size:187 final size:187
Alignment explanation
Indices: 15805988--15806327 Score: 617
Period size: 187 Copynumber: 1.8 Consensus size: 187
15805978 TTAATTAAAC
*
15805988 ATAAATGGTCTAATTACAACATAAGGACTTCCATTTTAATAATCCATAACTATTTAATACCTTTA
1 ATAAATGGTCTAATTACAACATAACGACTTCCATTTTAATAATCCATAACTATTTAATACCTTTA
*
15806053 ACTAATGGAACTCCACTTTTACACTTTACGCGATTTAGTCCTTTTTTATCAAATTAAGCATTCAA
66 ACTAATGGAACTCCACTTTTACACTTTACGCAATTTAGTCCTTTTTTATCAAATTAAGCATTCAA
15806118 ATGATAAAATTTATTTACGAAACACTTAAACAATGTCCAAGAATGTCCACTTACATT
131 ATGATAAAATTTATTTACGAAACACTTAAACAATGTCCAAGAATGTCCACTTACATT
*
15806175 ATAAATGGTCTAATTACAACATAACGATTTCCATTTTAATAATCCATAACTATTTAATACCTTTA
1 ATAAATGGTCTAATTACAACATAACGACTTCCATTTTAATAATCCATAACTATTTAATACCTTTA
** * *
15806240 GGTAATGGAACTCCACTTTTACACTTTATGCAATTTAGTCCTTTTTTATCAAATTAAGTATTCAA
66 ACTAATGGAACTCCACTTTTACACTTTACGCAATTTAGTCCTTTTTTATCAAATTAAGCATTCAA
15806305 ATGATAAAATTTATTTACGAAAC
131 ATGATAAAATTTATTTACGAAAC
15806328 TTTCACACAA
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
187 146 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (187 bp):
ATAAATGGTCTAATTACAACATAACGACTTCCATTTTAATAATCCATAACTATTTAATACCTTTA
ACTAATGGAACTCCACTTTTACACTTTACGCAATTTAGTCCTTTTTTATCAAATTAAGCATTCAA
ATGATAAAATTTATTTACGAAACACTTAAACAATGTCCAAGAATGTCCACTTACATT
Found at i:15808772 original size:37 final size:37
Alignment explanation
Indices: 15808716--15808818 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
15808706 CGGATAGTCC
* *
15808716 CCACACGTAGTTATTGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
15808753 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
15808790 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
15808819 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:15809029 original size:60 final size:54
Alignment explanation
Indices: 15808959--15809181 Score: 212
Period size: 48 Copynumber: 4.4 Consensus size: 54
15808949 ATATACACAC
*
15808959 ATCTCCTACATATTTCACACTAGTCGAATCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAG-C--AT---TAGCCATTCGGCTTTACCACATATACAT
15809019 ATCTCATACATATTT----C-A-CATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCACATATACAT
* *
15809067 ATCTCATACATAGTT--CAC-A-C--TAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCACATATACAT
* * *
15809115 ATCTCATACATAGTT--CAC-A-C--TAGCCATTCGACTTTACCACATATGCAT
1 ATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCACATATACAT
15809163 ATCTCATACATATTTCACA
1 ATCTCATACATATTTCACA
15809182 TTTACCACAT
Statistics
Matches: 152, Mismatches: 7, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
48 128 0.84
50 5 0.03
51 2 0.01
53 1 0.01
55 1 0.01
56 1 0.01
60 14 0.09
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (54 bp):
ATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCACATATACAT
Found at i:15809045 original size:48 final size:48
Alignment explanation
Indices: 15808988--15809181 Score: 334
Period size: 48 Copynumber: 4.0 Consensus size: 48
15808978 CTAGTCGAAT
*
15808988 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCA
*
15809036 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCA
*
15809084 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCA
* * *
15809132 CACTAGCCATTCGACTTTACCACATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCA
15809180 CA
1 CA
15809182 TTTACCACAT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 138 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCA
Found at i:15809152 original size:96 final size:95
Alignment explanation
Indices: 15808988--15809334 Score: 520
Period size: 96 Copynumber: 3.8 Consensus size: 95
15808978 CTAGTCGAAT
15808988 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
15809053 TACCACATATACATATCTCATACATAGTTCA
66 TACCACATATACATATCTCATACATA-TTCA
* * * *
15809084 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCACACTAGCCATTCGACTT
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
*
15809149 TACCACATATGCATATCTCATACATATT--
66 TACCACATATACATATCTCATACATATTCA
*
15809177 ---T---CA--C--ATTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
*
15809232 TACCGCATATACATATCTCATACATATTTCA
66 TACCACATATACATATCTCATACATA-TTCA
*
15809263 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
15809328 TACCACA
66 TACCACA
15809335 CACATATATA
Statistics
Matches: 224, Mismatches: 14, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
83 70 0.31
84 2 0.01
85 1 0.00
87 2 0.01
89 1 0.00
90 1 0.00
92 2 0.01
94 1 0.00
95 2 0.01
96 142 0.63
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (95 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
TACCACATATACATATCTCATACATATTCA
Found at i:15809186 original size:35 final size:35
Alignment explanation
Indices: 15809147--15809218 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
15809137 GCCATTCGAC
*
15809147 TTTACCACATATGCATATCTCATACATATTTCACA
1 TTTACCACATATACATATCTCATACATATTTCACA
15809182 TTTACCACATATACATATCTCATACATATTTCACA
1 TTTACCACATATACATATCTCATACATATTTCACA
15809217 TT
1 TT
15809219 AGCCATTCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (35 bp):
TTTACCACATATACATATCTCATACATATTTCACA
Found at i:15809199 original size:83 final size:83
Alignment explanation
Indices: 15809099--15809266 Score: 282
Period size: 83 Copynumber: 2.0 Consensus size: 83
15809089 GCCATTCGGC
* *
15809099 TTTACCACGTATACATATCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATGCATA
1 TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATACATA
15809164 TCTCATACATATTTCACA
66 TCTCATACATATTTCACA
* * * *
15809182 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATA
1 TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATACATA
15809247 TCTCATACATATTTCACA
66 TCTCATACATATTTCACA
15809265 TT
1 TT
15809267 AGCCATTCGG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (83 bp):
TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATACATA
TCTCATACATATTTCACA
Found at i:15809241 original size:48 final size:48
Alignment explanation
Indices: 15809182--15809334 Score: 297
Period size: 48 Copynumber: 3.2 Consensus size: 48
15809172 ATATTTCACA
15809182 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
*
15809230 TTTACCGCATATACATATCTCATACATATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
15809278 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
15809326 TTTACCACA
1 TTTACCACA
15809335 CACATATATA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 103 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGC
Found at i:15809285 original size:131 final size:131
Alignment explanation
Indices: 15809051--15809314 Score: 456
Period size: 131 Copynumber: 2.0 Consensus size: 131
15809041 GCCATTCGGC
*
15809051 TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACGTATACATA
1 TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATA
*
15809116 TCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATGCATATCTCATACATATTTCAC
66 TCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCAC
15809181 A
131 A
* * *
15809182 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATA
1 TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATA
* * *
15809247 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
66 TCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCAC
15809312 A
131 A
15809313 TT
1 TT
15809315 AGCCATTCGG
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (131 bp):
TTTACCACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATA
TCTCATACATAGTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCAC
A
Found at i:15809303 original size:179 final size:179
Alignment explanation
Indices: 15809003--15809334 Score: 601
Period size: 179 Copynumber: 1.9 Consensus size: 179
15808993 GCCATTCGGC
15809003 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
15809068 TCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCAC
66 TCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCAC
15809133 ACTAGCCATTCGACTTTACCACATATGCATATCTCATACATATTTCACA
131 ACTAGCCATTCGACTTTACCACATATGCATATCTCATACATATTTCACA
*
15809182 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATA
1 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* * *
15809247 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
66 TCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCAC
* *
15809312 ATTAGCCATTCGGCTTTACCACA
131 ACTAGCCATTCGACTTTACCACA
15809335 CACATATATA
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 146 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (179 bp):
TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
TCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCAC
ACTAGCCATTCGACTTTACCACATATGCATATCTCATACATATTTCACA
Found at i:15814853 original size:8 final size:8
Alignment explanation
Indices: 15814840--15814871 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
15814830 CTAGATCGGC
15814840 AAAAGCCG
1 AAAAGCCG
15814848 AAAAGCCG
1 AAAAGCCG
*
15814856 AAATGCCG
1 AAAAGCCG
15814864 AAAAGCCG
1 AAAAGCCG
15814872 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:15815158 original size:28 final size:28
Alignment explanation
Indices: 15815118--15815182 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
15815108 ATGTACTAGA
*
15815118 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
15815146 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
15815174 ATACCCCTA
1 ATACCCCTA
15815183 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:15815346 original size:27 final size:27
Alignment explanation
Indices: 15815288--15815377 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
15815278 AGGAAGCGTC
15815288 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
15815316 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
15815343 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
15815372 CTGGTG
1 CTGGTG
15815378 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:15815396 original size:55 final size:56
Alignment explanation
Indices: 15815288--15815402 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
15815278 AGGAAGCGTC
* *
15815288 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
15815343 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
15815399 CTGG
1 CTGG
15815403 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:15816488 original size:11 final size:10
Alignment explanation
Indices: 15816460--15816493 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15816450 AGCCTGTAAG
15816460 TATTCTGAAT
1 TATTCTGAAT
*
15816470 TTTTCTGAAT
1 TATTCTGAAT
15816480 ATATTCTGAAT
1 -TATTCTGAAT
15816491 TAT
1 TAT
15816494 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:15822995 original size:28 final size:28
Alignment explanation
Indices: 15822959--15823019 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
15822949 TACTAGAATA
*
15822959 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
*
15822987 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
15823015 CCCTA
1 CCCTA
15823020 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:15823183 original size:27 final size:27
Alignment explanation
Indices: 15823125--15823213 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
15823115 AGGAAGCGTC
15823125 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
15823153 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
15823180 CTGGTGGCACTGCC-CAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
15823208 CTGGTG
1 CTGGTG
15823214 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.56
28 23 0.43
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:15823225 original size:55 final size:55
Alignment explanation
Indices: 15823125--15823238 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
15823115 AGGAAGCGTC
* *
15823125 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAT-TATCTGTAT
* * *
15823180 CTGGTGGC-ACTGCC-CAAAATATCTGTATCTGGTGACTCTGTCACATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATTATCTGTAT
15823235 CTGG
1 CTGG
15823239 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATTATCTGTAT
Found at i:15824273 original size:12 final size:12
Alignment explanation
Indices: 15824256--15824281 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15824246 CCTCAAACGC
15824256 CCGTGTGCTAGG
1 CCGTGTGCTAGG
15824268 CCGTGTGCTAGG
1 CCGTGTGCTAGG
15824280 CC
1 CC
15824282 TTGCCAAAAC
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:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:15831101 original size:50 final size:50
Alignment explanation
Indices: 15831025--15831166 Score: 230
Period size: 50 Copynumber: 2.8 Consensus size: 50
15831015 GAATATTTCT
* * *
15831025 TAGAAGAAGTAATAAGAGAAGGACATGGGTTAGGTGGAGGAGCACAATGC
1 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
*
15831075 TAGAAGAAGTAACAATAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
1 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
* *
15831125 TAGAAGAAGTAACAAGAGAAGAACATGCATTAGATGGAGGAG
1 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAG
15831167 TGCAAGCATT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.15
Consensus pattern (50 bp):
TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
Found at i:15836151 original size:72 final size:72
Alignment explanation
Indices: 15836031--15836221 Score: 240
Period size: 72 Copynumber: 2.6 Consensus size: 72
15836021 TACGTAATGT
* ** *
15836031 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCAAGCA-TATCATGTTA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCAAGCATTA-CATGATA
*
15836095 ATGCTTTG
65 ATGATTTG
* * *
15836103 GGGTCCGGGTATTGACTTTGTTTATAAACCCGTGAGTAGCTCAATGAGCAGGCATTACATGATAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCAAGCATTACATGATAA
15836168 TGATTTG
66 TGATTTG
** * * *
15836175 GGGTCCAAGTGCTGACTTTGTGTACAGACCCGTGAGTAGCTCGAATG
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTC-AATG
15836222 TGGGCATTAC
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
72 96 0.94
73 6 0.06
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (72 bp):
GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCAAGCATTACATGATAA
TGATTTG
Found at i:15839688 original size:14 final size:14
Alignment explanation
Indices: 15839669--15839696 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15839659 ATATTTTAAA
15839669 ACAAAAAAATTTAT
1 ACAAAAAAATTTAT
15839683 ACAAAAAAATTTAT
1 ACAAAAAAATTTAT
15839697 TTTGGTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAAAAAAATTTAT
Found at i:15840858 original size:2 final size:2
Alignment explanation
Indices: 15840851--15840881 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15840841 GCTGATCTTA
*
15840851 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15840882 AACAAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
AT
Found at i:15841043 original size:24 final size:24
Alignment explanation
Indices: 15841011--15841057 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15841001 CATAAAAAAA
15841011 ATTAATGATTAATAACCAATCACC
1 ATTAATGATTAATAACCAATCACC
* *
15841035 ATTAATGATTAATTATCAATCAC
1 ATTAATGATTAATAACCAATCAC
15841058 ATTTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (24 bp):
ATTAATGATTAATAACCAATCACC
Found at i:15844629 original size:6 final size:6
Alignment explanation
Indices: 15844620--15844655 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
15844610 ATGCATGTGC
15844620 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
15844656 TGGACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:15850781 original size:26 final size:27
Alignment explanation
Indices: 15850722--15850782 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
15850712 ATGTTTTAAC
15850722 TAAAATTAAATTGAATTAGAGAAATATA
1 TAAAA-TAAATTGAATTAGAGAAATATA
* *
15850750 TAAAATAAATTGGATTTGAG-AATATA
1 TAAAATAAATTGAATTAGAGAAATATA
*
15850776 TTAAATA
1 TAAAATA
15850783 TATGAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 12 0.40
27 13 0.43
28 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (27 bp):
TAAAATAAATTGAATTAGAGAAATATA
Found at i:15852963 original size:39 final size:39
Alignment explanation
Indices: 15852911--15853112 Score: 332
Period size: 39 Copynumber: 5.2 Consensus size: 39
15852901 TGTGAATGAA
*
15852911 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
15852950 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
15852989 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
15853028 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
15853067 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
15853107 TGTGCG
1 TGTGCG
15853113 GGTTACCATA
Statistics
Matches: 154, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 137 0.89
40 17 0.11
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:15860621 original size:40 final size:40
Alignment explanation
Indices: 15860566--15860775 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
15860556 AACATTGGAA
15860566 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15860606 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15860646 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
15860686 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
15860725 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
15860766 CTATATCCGG
1 ATATATCCGG
15860776 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:15868531 original size:29 final size:29
Alignment explanation
Indices: 15868498--15868580 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
15868488 GTGACGAGAT
*
15868498 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
15868527 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
15868556 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
15868581 AAAATACGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:15868601 original size:31 final size:29
Alignment explanation
Indices: 15868499--15868593 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
15868489 TGACGAGATT
* * *
15868499 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
* *
15868528 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
15868557 GGCACTAAGTGTGCATGCTGGAAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG--AAAAATAC
15868588 GGCACT
1 GGCACT
15868594 GGGTGTGCGA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 49 0.80
31 12 0.20
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:15875227 original size:19 final size:18
Alignment explanation
Indices: 15875202--15875249 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
15875192 AGAAATGAAA
*
15875202 AAAAAAAAAAGAGAATATG
1 AAAAAAAAAAGAGAA-AAG
*
15875221 AAGAAAAACAA-AGAAAAG
1 AA-AAAAAAAAGAGAAAAG
15875239 AAAAAAAAAAG
1 AAAAAAAAAAG
15875250 TGTTCATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 6 0.25
20 7 0.29
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAGAGAAAAG
Found at i:15876436 original size:29 final size:29
Alignment explanation
Indices: 15876403--15876485 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
15876393 GTGACGAGAT
*
15876403 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
15876432 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
15876461 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
15876486 AAAATACGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:15883146 original size:27 final size:26
Alignment explanation
Indices: 15883091--15883150 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
15883081 CCACATATAT
*
15883091 ATATCTGTTCTGGTGGACTAGCCATA
1 ATATCTGTTCTGGTGGACTAGCCACA
* *
15883117 ATATCTGTATCTGGT-GACTTCGTCACA
1 ATATCTGT-TCTGGTGGAC-TAGCCACA
15883144 ATATCTG
1 ATATCTG
15883151 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGGACTAGCCACA
Found at i:15891908 original size:15 final size:15
Alignment explanation
Indices: 15891888--15891918 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15891878 AAATATGAAA
15891888 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
15891903 GATATGTTTTGTATT
1 GATATGTTTTGGATT
15891918 G
1 G
15891919 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:15893497 original size:49 final size:49
Alignment explanation
Indices: 15893423--15893660 Score: 253
Period size: 49 Copynumber: 4.8 Consensus size: 49
15893413 GTGAGGTCAG
* *
15893423 TGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
15893472 TGTGTAGTACTAAGTGCAGGTTACTATGCGTACCTA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATAA-TT-GGTCGCA
* * ** * *
15893523 TGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
* * * *
15893573 TGTATAGTACTAAGTGCATGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
15893622 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
15893661 GCTTCGGCTA
Statistics
Matches: 153, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
49 72 0.47
50 47 0.31
51 34 0.22
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:15904500 original size:40 final size:40
Alignment explanation
Indices: 15904420--15904596 Score: 259
Period size: 40 Copynumber: 4.5 Consensus size: 40
15904410 CAACCAAGTA
** *
15904420 CTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGC
* *
15904459 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
15904499 CTTCGGGACTTAGCCCGGAAATAGTAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
15904539 CTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
15904579 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
15904597 TTATCATCCG
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.10
40 114 0.90
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:15912682 original size:40 final size:40
Alignment explanation
Indices: 15912601--15912778 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
15912591 CAACCAAGTA
** *
15912601 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15912640 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15912680 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
15912720 CCTTCGGGATTTAGCTCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15912760 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15912779 TTATCATCCG
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.11
40 110 0.89
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15915556 original size:42 final size:42
Alignment explanation
Indices: 15915435--15915590 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
15915425 TACCGTACCA
* * *
15915435 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
15915477 ATGCCAATAGT-CTAGCTATGGTCTTACACGAAGTCTCACATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
15915520 ATGCCATATCCCAGATATAGTCTTACACAAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
15915562 ATGCCATATCCCAAATATGGTATTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
15915591 TAGTCTTAGT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 58 0.62
43 33 0.35
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Done.