Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 89 of 349
Found at i:26755455 original size:22 final size:22
Alignment explanation
Indices: 26755425--26755467 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
26755415 AACTTACTAT
* *
26755425 TTTCTGCTCACTAGAGCTTACC
1 TTTCAGCTCAATAGAGCTTACC
26755447 TTTCAGCTCAATAGAGCTTAC
1 TTTCAGCTCAATAGAGCTTAC
26755468 TGTCTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (22 bp):
TTTCAGCTCAATAGAGCTTACC
Found at i:26758226 original size:21 final size:22
Alignment explanation
Indices: 26758202--26758253 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
26758192 ACACATGTTG
26758202 CTCACACGGCTATGTGACCCA-
1 CTCACACGGCTATGTGACCCAT
* * *
26758223 CTCACACGACTATGTGGCCTAT
1 CTCACACGGCTATGTGACCCAT
26758245 CTCACACGG
1 CTCACACGG
26758254 GCATGACTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (22 bp):
CTCACACGGCTATGTGACCCAT
Found at i:26761826 original size:34 final size:34
Alignment explanation
Indices: 26761788--26761855 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
26761778 ATCCCATATG
* * *
26761788 TCCATCGAAATTCATCATTTAAACGGAACTTAAC
1 TCCATCGAAATTCACCATTCAAACAGAACTTAAC
*
26761822 TCCATTGAAATTCACCATTCAAACAGAACTTAAC
1 TCCATCGAAATTCACCATTCAAACAGAACTTAAC
26761856 ATTTTCCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (34 bp):
TCCATCGAAATTCACCATTCAAACAGAACTTAAC
Found at i:26763708 original size:47 final size:46
Alignment explanation
Indices: 26763637--26763761 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
26763627 GTTGTTGTTG
* *
26763637 GCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACAT-T-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CA-ATGTGACGAGA
* *
26763683 GCTATTGTAAGACCATGTCTGGGACATGGCATCAGCATTGTGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCAATGTGACGAGA
*
26763731 GCTAGTGTAAGACATGTCTGAGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
26763762 GGCCTCGAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 17 0.25
47 29 0.42
48 23 0.33
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCAATGTGACGAGA
Found at i:26763863 original size:45 final size:47
Alignment explanation
Indices: 26763732--26763897 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 47
26763722 GTGACGAGAG
* * * ** *
26763732 CTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTCGAGACGTAA
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGACGACGAGATGTAA
* * * *
26763777 GCCACTGTAAGA-CATGTTTGGGACAT-CCATCGGCGACGAGATG-ATA
1 -CTAGTGTAAGACCATGTTTGGGACATGGCATCGACGACGAGATGTA-A
**
26763823 -TAGTGTAAGACCATGTTTGGGACATGGCATCGAC-TTGAGATGTAA
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGACGACGAGATGTAA
*
26763868 GCTAGTGTAAGACCATGTATGGGACATGGC
1 -CTAGTGTAAGACCATGTTTGGGACATGGC
26763898 GTTGGTACGT
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
44 8 0.08
45 22 0.22
46 42 0.42
47 27 0.27
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTTTGGGACATGGCATCGACGACGAGATGTAA
Found at i:26771401 original size:46 final size:48
Alignment explanation
Indices: 26771258--26771523 Score: 205
Period size: 47 Copynumber: 5.7 Consensus size: 48
26771248 GTTGTTGTTG
* ** *
26771258 GCTAGTGTAAGA-CATGTCTGGAACAT-GCATCAGCC-ACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-GATGAGA
* * * * * *
26771304 GCCAATGTAAGACCATGTCTAGGACGTGGCATCAGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGAGA
* * *
26771352 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATG-AGA
* * * *
26771398 GCTAGTGTAAGA-CATGTTTAGGACATGCGC--CTG-CTATGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATG-GCATCAGCCT-TGAGATGAGA
* * *
26771444 G-TCAGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGAGATGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGAGA
* *
26771491 GCCAATGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
26771524 GGCACCTTAC
Statistics
Matches: 178, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
45 4 0.02
46 69 0.39
47 76 0.43
48 28 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGAGA
Found at i:26773190 original size:60 final size:60
Alignment explanation
Indices: 26773097--26773217 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
26773087 TGATATAAAA
* *
26773097 TGATAATATTAAACACTTGTTTAATGTACCATCTTTTAAATTTTCCACTTTCCAATTTAG
1 TGATAATATTAAACACTTATTTAATGTACCATCTTTTAAACTTTCCACTTTCCAATTTAG
* * * *
26773157 TGATAATATTAAACATTTATTTAATTTATCATCTTTTAAGCTTTCCACTTTCCAATTTAG
1 TGATAATATTAAACACTTATTTAATGTACCATCTTTTAAACTTTCCACTTTCCAATTTAG
26773217 T
1 T
26773218 CATTGTCCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (60 bp):
TGATAATATTAAACACTTATTTAATGTACCATCTTTTAAACTTTCCACTTTCCAATTTAG
Found at i:26775890 original size:31 final size:31
Alignment explanation
Indices: 26775854--26775917 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
26775844 TTAAGTTCCG
*
26775854 TTAATTTTCCTTGAAACTGGAATCATACACC
1 TTAATTTTCCTTGAAACTAGAATCATACACC
26775885 TTAATTTTCCTTGAAACTAGAATCATACACC
1 TTAATTTTCCTTGAAACTAGAATCATACACC
26775916 TT
1 TT
26775918 TATCCCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (31 bp):
TTAATTTTCCTTGAAACTAGAATCATACACC
Found at i:26776864 original size:46 final size:47
Alignment explanation
Indices: 26776770--26776902 Score: 146
Period size: 46 Copynumber: 2.9 Consensus size: 47
26776760 ATAATCTCAC
* * *
26776770 CCATAATGAACTCGAAACGCAACTCAACGAGCTCAGG-TG-TTCGTAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC-GGATGCTTCGCAT
*
26776816 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
* ** * *
26776862 CCATAGGTGAACTTAGAATGCAACTCAACAAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
26776903 CTCATAATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
45 2 0.03
46 41 0.55
47 31 0.42
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:26779322 original size:19 final size:19
Alignment explanation
Indices: 26779298--26779338 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
26779288 TCACTTTTTT
26779298 ACTTAAATTCATTGTTAAA
1 ACTTAAATTCATTGTTAAA
26779317 ACTTAAATTCATTGTTAAA
1 ACTTAAATTCATTGTTAAA
26779336 ACT
1 ACT
26779339 AAGTAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (19 bp):
ACTTAAATTCATTGTTAAA
Found at i:26779349 original size:17 final size:19
Alignment explanation
Indices: 26779298--26779349 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
26779288 TCACTTTTTT
* *
26779298 ACTTAAATTCATTGTTAAA
1 ACTTAAAGTAATTGTTAAA
* *
26779317 ACTTAAATTCATTGTTAAA
1 ACTTAAAGTAATTGTTAAA
26779336 AC-T-AAGTAATTGTT
1 ACTTAAAGTAATTGTT
26779350 TAATAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.29
18 1 0.03
19 21 0.68
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (19 bp):
ACTTAAAGTAATTGTTAAA
Found at i:26781645 original size:68 final size:66
Alignment explanation
Indices: 26781572--26781719 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 66
26781562 CATCATGTGT
* * * *
26781572 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
26781635 TGTAG
62 TGTAG
* * *
26781640 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
26781705 AG
65 AG
26781707 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
26781720 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:26797090 original size:39 final size:38
Alignment explanation
Indices: 26797010--26797323 Score: 297
Period size: 39 Copynumber: 8.0 Consensus size: 38
26797000 AAATCCAATC
* * *
26797010 ACCACCACAAAGCATGT-GGGACTTTAAGCCCGAATATAAT
1 ACCAGCACAAAGCCT-TCGGGAC-TT-AGCCCGGATATAAT
*
26797050 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
1 ACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAAT
* * * *
26797089 ACCAGTACGAATGCCTTCGGGACGTAGCCCGGATATAAC
1 ACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAAT
*
26797128 ACCAGCGCAAATGCCTTTCGGGACTTAGCCCGGATATAAT
1 ACCAGCACAAA-GCC-TTCGGGACTTAGCCCGGATATAAT
* * *
26797168 ACCAGTACAAATTCCTTCGGGACTTAGCCCAGATATAAT
1 ACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAAT
** * * * * *
26797207 ACCAGCACGAATTCCTTCGGAATTTATCCTGAATATAAT
1 ACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAAT
** * *
26797246 ACCAGCACGAATTCCTTCGGGACTTAGCTCGGATATAAC
1 ACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAAT
* *
26797285 ACCAGCACAAATGCCTTCGGGACTTAACTCGGATATAAT
1 ACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAAT
26797324 TCTCCATTAT
Statistics
Matches: 231, Mismatches: 37, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.02
39 158 0.68
40 69 0.30
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (38 bp):
ACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAAT
Found at i:26797321 original size:78 final size:78
Alignment explanation
Indices: 26797027--26797323 Score: 371
Period size: 78 Copynumber: 3.8 Consensus size: 78
26797017 CAAAGCATGT
* * *
26797027 GGGACTTTAAGCCCGAATATAATACCAGCACAAA-GCCTGCGGGACTTTAGCCCGGATATAATAC
1 GGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTTCGGGAC-TTAGCCCGGATATAATAC
*
26797091 CAGTACGAATGCCTTC
63 CAGTACGAATTCCTTC
* *
26797107 GGGACGTAGCCCGGATATAACACCAGCGCAAATGCCTTTCGGGACTTAGCCCGGATATAATACCA
1 GGGACTTAGCCCGGATATAACACCAGCACAAATGCC-TTCGGGACTTAGCCCGGATATAATACCA
*
26797172 GTACAAATTCCTTC
65 GTACGAATTCCTTC
* * * * * * * * *
26797186 GGGACTTAGCCCAGATATAATACCAGCACGAATTCCTTCGGAATTTATCCTGAATATAATACCAG
1 GGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCAG
*
26797251 CACGAATTCCTTC
66 TACGAATTCCTTC
* * *
26797264 GGGACTTAGCTCGGATATAACACCAGCACAAATGCCTTCGGGACTTAACTCGGATATAAT
1 GGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
26797324 TCTCCATTAT
Statistics
Matches: 184, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 106 0.58
79 66 0.36
80 12 0.07
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (78 bp):
GGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCAG
TACGAATTCCTTC
Found at i:26809585 original size:17 final size:17
Alignment explanation
Indices: 26809563--26809596 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26809553 AATCATTATG
26809563 TAGGTTCATGGAACCCC
1 TAGGTTCATGGAACCCC
26809580 TAGGTTCATGGAACCCC
1 TAGGTTCATGGAACCCC
26809597 CAAACTTGGC
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:0.29, G:0.24, T:0.24
Consensus pattern (17 bp):
TAGGTTCATGGAACCCC
Found at i:26822848 original size:9 final size:9
Alignment explanation
Indices: 26822834--26822886 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
26822824 GGGTATTTAA
*
26822834 TAATATAGT
1 TAATATAAT
26822843 TAATATAAT
1 TAATATAAT
*
26822852 T-A-ATCAT
1 TAATATAAT
*
26822859 CAATATAAT
1 TAATATAAT
26822868 TAATATAAT
1 TAATATAAT
26822877 TAATATAAT
1 TAATATAAT
26822886 T
1 T
26822887 TATTATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 2 0.05
9 31 0.84
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (9 bp):
TAATATAAT
Found at i:26822926 original size:19 final size:18
Alignment explanation
Indices: 26822904--26822939 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26822894 TTAATAATTA
*
26822904 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
26822923 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
26822940 GAAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:26825726 original size:24 final size:24
Alignment explanation
Indices: 26825628--26825730 Score: 68
Period size: 24 Copynumber: 4.2 Consensus size: 24
26825618 TGGCTATCCG
* * *
26825628 GAGCTTCCTGA-TATGGTTCTTTGT
1 GAGCTTCCCGATTATGGCTC-TTAT
* *
26825652 GAGCTTCCTGATTAATGGCT-TTTT
1 GAGCTTCCCGATT-ATGGCTCTTAT
* ***
26825676 GGAGCTACCCG-TTATTGGCTAGCAT
1 -GAGCTTCCCGATTA-TGGCTCTTAT
26825701 GAGCTTCCCGATTATGGCTCTTAT
1 GAGCTTCCCGATTATGGCTCTTAT
26825725 GAGCTT
1 GAGCTT
26825731 TGTAACAGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
23 1 0.02
24 43 0.69
25 13 0.21
26 5 0.08
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTCTTAT
Found at i:26826021 original size:38 final size:38
Alignment explanation
Indices: 26825970--26826047 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
26825960 ATAATTGAAA
*
26825970 GGTCCTTATGTTGTTATTTGACCATTGAACTTATGAGT
1 GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
26826008 GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
1 GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
26826046 GG
1 GG
26826048 ACATTAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (38 bp):
GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
Found at i:26827135 original size:43 final size:42
Alignment explanation
Indices: 26826980--26827136 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
26826970 TGTGTTCTCA
** *
26826980 TGTAAGACCACGTCT-GAGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTAG-GACATTGGCATC-A-TATTTGA-TTACG
* * * *
26827024 TGTAAGACCATGTCTAGGACATCGACATCATATTTGATTTCG
1 TGTAAGACCACGTCTAGGACATTGGCATCATATTTGATTACG
* * *
26827066 TGTAAGACC-CTGTCTGGGACAATGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATC-ATATTTGATTACG
*
26827109 TGTAAGACCACGTCAAGGACATTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
26827137 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 28 0.31
43 39 0.43
44 23 0.25
45 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACATTGGCATCATATTTGATTACG
Found at i:26830937 original size:23 final size:24
Alignment explanation
Indices: 26830897--26830956 Score: 88
Period size: 23 Copynumber: 2.5 Consensus size: 24
26830887 TCCATGGAAA
26830897 AATTAGAAAAAATAATATGATAATT
1 AATTA-AAAAAATAATATGATAATT
26830922 AA-TAAAAATAAT-ATATGATAATT
1 AATTAAAAA-AATAATATGATAATT
26830945 AATTAAAAAAAT
1 AATTAAAAAAAT
26830957 CATCTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 20 0.61
24 11 0.33
25 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (24 bp):
AATTAAAAAAATAATATGATAATT
Found at i:26836378 original size:14 final size:14
Alignment explanation
Indices: 26836359--26836391 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
26836349 AAAGTGGGAA
26836359 AAATAATGGATGAT
1 AAATAATGGATGAT
26836373 AAATAATGGATGAT
1 AAATAATGGATGAT
26836387 AAATA
1 AAATA
26836392 TTTAAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (14 bp):
AAATAATGGATGAT
Found at i:26837582 original size:24 final size:23
Alignment explanation
Indices: 26837518--26837583 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
26837508 TTCCTAATTA
*
26837518 ATGGCTCTT-TGGAGCTACCCGTT
1 ATGGCTCTTAT-GAGCTTCCCGTT
**
26837541 ATTGGCTCGCATGAGCTTCCCGATT
1 A-TGGCTCTTATGAGCTTCCCG-TT
26837566 ATGGCTCTTATGAGCTTC
1 ATGGCTCTTATGAGCTTC
26837584 TCATTATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 30 0.86
25 4 0.11
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCCGTT
Found at i:26841849 original size:26 final size:26
Alignment explanation
Indices: 26841819--26841926 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
26841809 TGAAATTCCC
26841819 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
26841845 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
26841871 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26841897 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26841923 ATCA
1 ATCA
26841927 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:26845808 original size:21 final size:22
Alignment explanation
Indices: 26845767--26845810 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
26845757 TACGGGTGTA
*
26845767 TGCCTCCTTTCACAAAGGCGTG
1 TGCCTCATTTCACAAAGGCGTG
*
26845789 TGCCTCATTT-ACATAGGCGTG
1 TGCCTCATTTCACAAAGGCGTG
26845810 T
1 T
26845811 TGACCCCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (22 bp):
TGCCTCATTTCACAAAGGCGTG
Found at i:26854161 original size:26 final size:26
Alignment explanation
Indices: 26854132--26854215 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 26
26854122 AGTTTGTTCC
26854132 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTT
*
26854158 AATTA-ATGTTCCAAT-TAGATTAATGTATTT
1 AATTAGA--TT--AATGTTG--TAATGTATTT
26854188 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTT
26854214 AA
1 AA
26854216 ATTTTGTTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 1 0.02
26 17 0.35
27 5 0.10
28 4 0.08
29 5 0.10
30 15 0.31
31 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (26 bp):
AATTAGATTAATGTTGTAATGTATTT
Found at i:26854179 original size:17 final size:17
Alignment explanation
Indices: 26854126--26854202 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 17
26854116 TTACAAAGTT
26854126 TGTTCCAATTAGATTAA
1 TGTTCCAATTAGATTAA
** *
26854143 TGTTGTAATGTATTTAATTAA
1 TGTTCCAAT-TA---GATTAA
26854164 TGTTCCAATTAGATTAA
1 TGTTCCAATTAGATTAA
**
26854181 TGTATTTAATTAGATTAA
1 TGT-TCCAATTAGATTAA
26854199 TGTT
1 TGTT
26854203 GTAATGTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
17 16 0.34
18 17 0.36
20 2 0.04
21 12 0.26
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (17 bp):
TGTTCCAATTAGATTAA
Found at i:26857177 original size:145 final size:144
Alignment explanation
Indices: 26856915--26857871 Score: 990
Period size: 145 Copynumber: 6.6 Consensus size: 144
26856905 TTTTGTTCGG
* * *
26856915 TGATTTTGGCCCTTTGTTTGTATTTTTTTATTCTCGGATTTTA-TTTTTAAAATATACTATTTTT
1 TGATTTTGG-CCTTTATTTGTA--TTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTC
* * *
26856979 ATATTTTATTTTTTATATTATTTTAGTCA-ATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
63 GTATTTTATTTTTTATATTATTTTAGTTACA-AATGTTT--AAT-TATTTTTTTAGTGTTTTTTA
26857043 TATTAATTTAGTAAAAAATCC
124 TATTAATTTAGTAAAAAATCC
* *
26857064 TGATTTTGGCTCTTTGTTTGTA-TTTT-TT-TCAGATTTTATTTTCTAAAATATACTATTTTCGT
1 TGATTTTGGC-CTTTATTTGTATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCGT
* * *
26857126 ATTTTATTTTTTTATATTATTTTAGTTTC-AATGTATTGTATTAGTTTTTTTA------TATATA
65 ATTTTA-TTTTTTATATTATTTTAGTTACAAATGT-TT-AATTA-TTTTTTTAGTGTTTTTTATA
*
26857184 TTAATTTAGTAAAAAAACCC
126 TTAATTTAGT-AAAAAATCC
26857204 TGAATTTTGGCCATTTATTTGTAATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTC
1 TG-ATTTTGGCC-TTTATTTGT-ATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTC
* * * *
26857269 ATATTTTATTTTTTTATATTATTTTA-ATACATAATGTTTCAAATGTATTATTTTAGTATTTTTT
63 GTATTTTA-TTTTTTATATTATTTTAGTTACA-AATGTTT--AAT-TATTTTTTTAGTGTTTTTT
26857333 ATATTAATTTAGTAAAAAATCC
123 ATATTAATTTAGTAAAAAATCC
* * * * *
26857355 TGATTTTGGCCCTTTATTTGTA-TTTT-TT-TCGGATTTTATTTTCTCAATTATACTATTTT-TT
1 TGATTTTGG-CCTTTATTTGTATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCGT
**
26857416 ATTTTA-TTTTTATATTATTTTAGTTTTAAATG--T-ATTA---TTTTAGTGTTTTTTATATTAA
65 ATTTTATTTTTTATATTATTTTAGTTACAAATGTTTAATTATTTTTTTAGTGTTTTTTATATTAA
*
26857474 TTTGGTAAAAAATCC
130 TTTAGTAAAAAATCC
* * *
26857489 TGAATTTTGGCCCTT-TTTGTATTTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTTT
1 TG-ATTTTGGCCTTTATTTGTA--TTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTC
* *
26857553 GTATTTTATTTTTTATATTATTTTAG-TACATAATGTTTCAAAAGTATTATTTTAGT-TTTTTTA
63 GTATTTTATTTTTTATATTATTTTAGTTACA-AATGTTT---AATTATTTTTTTAGTGTTTTTTA
*
26857616 TATTAATTTAGTAAAAAATCT
124 TATTAATTTAGTAAAAAATCC
* * * *
26857637 TGATTTTGACCATTTGTTTGTATTTTTTATTCTCGGATTTTATTTTTT-AAATATACTATTTTCT
1 TGATTTTGGCC-TTTATTTGTA-TTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCG
* *
26857701 TATTTTATTTTTTATATTATTTTAG-TACATAATGTTTCAAAAGTATTATTTTA--GTTTTTTAT
64 TATTTTATTTTTTATATTATTTTAGTTACA-AATGTTT---AATTATTTTTTTAGTGTTTTTTAT
26857763 ATTAATTTAGTAAAAAA-CAC
125 ATTAATTTAGTAAAAAATC-C
* * *
26857783 TGATTTTGGCCCTTTATTTGTATTTGTATT-TTATATTTTATTTTTTAAAATATACTATTTTCGT
1 TGATTTTGG-CCTTTATTTGTATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCGT
*
26857847 ATTTTCTTTTTTATATTATTTTAGT
65 ATTTTATTTTTTATATTATTTTAGT
26857872 AAAAAACCCA
Statistics
Matches: 700, Mismatches: 58, Indels: 103
0.81 0.07 0.12
Matches are distributed among these distances:
133 6 0.01
134 40 0.06
135 7 0.01
136 4 0.01
137 4 0.01
138 28 0.04
139 24 0.03
140 32 0.05
141 17 0.02
142 2 0.00
143 24 0.03
144 30 0.04
145 154 0.22
146 111 0.16
147 81 0.12
148 59 0.08
149 34 0.05
150 16 0.02
151 12 0.02
152 15 0.02
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.59
Consensus pattern (144 bp):
TGATTTTGGCCTTTATTTGTATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCGTA
TTTTATTTTTTATATTATTTTAGTTACAAATGTTTAATTATTTTTTTAGTGTTTTTTATATTAAT
TTAGTAAAAAATCC
Found at i:26857466 original size:291 final size:287
Alignment explanation
Indices: 26856917--26857872 Score: 1289
Period size: 291 Copynumber: 3.3 Consensus size: 287
26856907 TTGTTCGGTG
* * * *
26856917 ATTTTGGCCCTTTGTTTGTATTTTTTTATTCTCGGATTTTA-TTTTTAAAATATACTATTTTTAT
1 ATTTTGGCCCTTTATTTGTATATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCAT
26856981 ATTTTATTTTTTATATTATTTTAGT-CAATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATA
66 ATTTTATTTTTTATATTATTTTAGTAC-ATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATA
* *
26857045 TTAATTTAGTAAAAAATCCTGATTTTGGCTCTTTGTTTGTATTTTTTTCAGATTTTATTTTCTAA
129 TTAATTTAGTAAAAAATCCTGATTTTGGCCCTTTGTTTGTATTTTTTTCGGATTTTATTTTCTAA
* * *
26857110 AATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTTTCAATGTATTGTATTA-GTTTT
194 AATATACTATTTTCTTATTTTA-TTTTTTATATTATTTTAGTTTAAATGTATTATATTATGTTTT
26857174 TTTATATATATTAATTTAGTAAAAAAACCCTGA
258 TTT-T-TATATTAATTTAGT-AAAAAACCCTGA
*
26857207 ATTTTGGCCATTTATTTGTA-ATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCAT
1 ATTTTGGCCCTTTATTTGTATATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCAT
*
26857271 ATTTTATTTTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATA
66 ATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATA
* *
26857336 TTAATTTAGTAAAAAATCCTGATTTTGGCCCTTTATTTGTATTTTTTTCGGATTTTATTTTCTCA
129 TTAATTTAGTAAAAAATCCTGATTTTGGCCCTTTGTTTGTATTTTTTTCGGATTTTATTTTCTAA
* * *
26857401 ATTATACTATTTT-TTATTTTA-TTTTTATATTATTTTAGTTTTAAATGTATTATTTTA-G-TGT
194 AATATACTATTTTCTTATTTTATTTTTTATATTATTTTAG-TTTAAATGTATTATATTATGTTTT
* *
26857462 TTTTTATATTAATTTGGTAAAAAATCCTGA
258 TTTTTATATTAATTTAGTAAAAAACCCTGA
* * **
26857492 ATTTTGGCCC-TT-TTTGTATTTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTTTGT
1 ATTTTGGCCCTTTATTTGTATATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCAT
*
26857555 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAAAGTATTATTTTAGTTTTTTTATATT
66 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATT
* * *
26857620 AATTTAGTAAAAAATCTTGATTTTGACCATTTGTTTGTATTTTTTATTCTCGGATTTTATTTT-T
131 AATTTAGTAAAAAATCCTGATTTTGGCCCTTTGTTTGTA--TTTT-TT-TCGGATTTTATTTTCT
* **
26857684 TAAATATACTATTTTCTTATTTTATTTTTTATATTATTTTAGTACATAATGT-TTCAAAAGTATT
192 AAAATATACTATTTTCTTATTTTATTTTTTATATTATTTTAGTTTA-AATGTATT----A-TATT
*
26857748 AT-TTTAGTTTTTTATATTAATTTAGTAAAAAACACTG-
251 ATGTTT--TTTTTTATATTAATTTAGTAAAAAACCCTGA
* * * *
26857785 ATTTTGGCCCTTTATTTG--TATTTGTATT-TTATATTTTATTTTTTAAAATATACTATTTTCGT
1 ATTTTGGCCCTTTATTTGTATATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCAT
*
26857847 ATTTTCTTTTTTATATTATTTTAGTA
66 ATTTTATTTTTTATATTATTTTAGTA
26857873 AAAAACCCAT
Statistics
Matches: 599, Mismatches: 44, Indels: 44
0.87 0.06 0.06
Matches are distributed among these distances:
282 46 0.08
283 52 0.09
284 52 0.09
285 36 0.06
286 39 0.07
287 23 0.04
288 22 0.04
289 34 0.06
290 54 0.09
291 131 0.22
292 59 0.10
293 18 0.03
294 29 0.05
295 4 0.01
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (287 bp):
ATTTTGGCCCTTTATTTGTATATTTTTATTCTCAGATTTTATTTTTTAAAATATACTATTTTCAT
ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATT
AATTTAGTAAAAAATCCTGATTTTGGCCCTTTGTTTGTATTTTTTTCGGATTTTATTTTCTAAAA
TATACTATTTTCTTATTTTATTTTTTATATTATTTTAGTTTAAATGTATTATATTATGTTTTTTT
TTATATTAATTTAGTAAAAAACCCTGA
Found at i:26857471 original size:20 final size:19
Alignment explanation
Indices: 26857422--26857472 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
26857412 TTTTATTTTA
26857422 TTTTTATATTATTTTAGTT
1 TTTTTATATTATTTTAGTT
** *
26857441 TTAAATGTATTATTTTAGTGT
1 TT-TTTATATTATTTTAGT-T
26857462 TTTTTATATTA
1 TTTTTATATTA
26857473 ATTTGGTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTTTATATTATTTTAGTT
Found at i:26857632 original size:148 final size:147
Alignment explanation
Indices: 26857438--26857872 Score: 641
Period size: 147 Copynumber: 3.0 Consensus size: 147
26857428 TATTATTTTA
* * *
26857438 GTTTTAAATGTATTATTTTAGTGTTTTTTATATTAATTTGGTAAAAAATCCTGAATTTTGGCCCT
1 GTTTCAAAAGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAAAATCCTG-ATTTTGGCCCT
26857503 T-TTTGTATTTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTT
64 TATTTGTA-TTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTT
26857567 ATATTATTTTAGTACATAAT
128 ATATTATTTTAGTACATAAT
* * *
26857587 GTTTCAAAAGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATCTTGATTTTGACCATTT
1 GTTTCAAAAGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATCCTGATTTTGGCC-CTT
* **
26857652 GTTTGTATTTTTTATTCTCGGATTTTATTTTTT-AAATATACTATTTTCT-TATTTTATTTTTTA
65 ATTTGTATTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTT-TGTATTTTATTTTTTA
26857715 TATTATTTTAGTACATAAT
129 TATTATTTTAGTACATAAT
26857734 GTTTCAAAAGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAA-CACTGATTTTGGCCCTT
1 GTTTCAAAAGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATC-CTGATTTTGGCCC-T
* * * *
26857797 TATTTGTA-TTTGTATT-TTATATTTTATTTTTTAAAATATACTATTTTCGTATTTTCTTTTTTA
64 TATTTGTATTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTA
26857860 TATTATTTTAGTA
129 TATTATTTTAGTA
26857873 AAAAACCCAT
Statistics
Matches: 261, Mismatches: 18, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
144 13 0.05
145 48 0.18
146 43 0.16
147 76 0.29
148 55 0.21
149 26 0.10
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (147 bp):
GTTTCAAAAGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATCCTGATTTTGGCCCTTA
TTTGTATTTTTTATTCTCATATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATA
TTATTTTAGTACATAAT
Found at i:26858277 original size:3 final size:3
Alignment explanation
Indices: 26858269--26858348 Score: 62
Period size: 3 Copynumber: 28.0 Consensus size: 3
26858259 CTTCCCTCCC
* * *
26858269 TCT TCT TCT CCT TC- TCT TTT TCT TTT TCT T-T T-T TCT TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT
* * *
26858312 CCT TTT TC- TCT TCT T-T TCT TCT TCT CCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
26858349 CTTTTTTTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 10 0.17
3 47 0.78
4 3 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:26858335 original size:25 final size:24
Alignment explanation
Indices: 26858291--26858373 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 24
26858281 TCTCTTTTTC
26858291 TTTT-TCTTTTTTCTTCCTTCTCCT
1 TTTTCTCTTTTTTCTT-CTTCTCCT
26858315 TTTTCTCTTCTTTTCTTCTTCTCCTT
1 TTTTCTCTT-TTTTCTTCTTCTCC-T
* *
26858341 CTTCTTCTCTTTTTTTTTCTTTTCCT
1 -TT-TTCTCTTTTTTCTTCTTCTCCT
26858367 TCTTTCT
1 T-TTTCT
26858374 TCCTAGCCGA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.08
25 16 0.31
26 10 0.20
27 14 0.27
28 7 0.14
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTCTCTTTTTTCTTCTTCTCCT
Found at i:26858373 original size:28 final size:29
Alignment explanation
Indices: 26858271--26858375 Score: 105
Period size: 28 Copynumber: 3.7 Consensus size: 29
26858261 TCCCTCCCTC
26858271 TTCTTCTCCTTCTCTT-TT-TCTTTTTCTT
1 TTCTTCTCCTTCTCTTCTTCTCTTTTT-TT
* *
26858299 TT-TTCTTCCTTCTCCTTTTTCTCTTCTTTTC
1 TTCTTC-TCCTTCT-CTTCTTCTCTT-TTTTT
26858330 TTCTTCTCC-T-TCTTCTTCTCTTTTTTT
1 TTCTTCTCCTTCTCTTCTTCTCTTTTTTT
*
26858357 TTCTTTTCCTTCT-TTCTTC
1 TTCTTCTCCTTCTCTTCTTC
26858376 CTAGCCGAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
27 15 0.23
28 26 0.40
29 5 0.08
30 3 0.05
31 10 0.15
32 6 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (29 bp):
TTCTTCTCCTTCTCTTCTTCTCTTTTTTT
Found at i:26858586 original size:17 final size:16
Alignment explanation
Indices: 26858563--26858601 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
26858553 TCATTTCTTG
*
26858563 TTTTTTGTTACAGCTT
1 TTTTTTGTTACAGATT
*
26858579 TCTTTTTGTTTCAGATT
1 T-TTTTTGTTACAGATT
26858596 TTTTTT
1 TTTTTT
26858602 CAGATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (16 bp):
TTTTTTGTTACAGATT
Found at i:26858611 original size:11 final size:12
Alignment explanation
Indices: 26858581--26858612 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
26858571 TACAGCTTTC
26858581 TTTTTGTTTCAGA
1 TTTTT-TTTCAGA
26858594 TTTTTTTTCAGA
1 TTTTTTTTCAGA
26858606 TTTTTTT
1 TTTTTTT
26858613 AATAGTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCAGA
Found at i:26859495 original size:32 final size:31
Alignment explanation
Indices: 26859459--26859546 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
26859449 TTTTTGATGC
* * *
26859459 ATTTTGTAATTTTTTTTTATGATTTTTATAAT
1 ATTTTATAATTTTTTTTAATAATTTTTA-AAT
26859491 ATTTTATAA-TTTTTTTAATAATTTTTAAAT
1 ATTTTATAATTTTTTTTAATAATTTTTAAAT
* *
26859521 ATCTTTTTATATTTTTATTAA-AATTT
1 AT-TTTATA-ATTTTTTTTAATAATTT
26859547 AATAATTTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 5 0.10
31 21 0.44
32 14 0.29
33 8 0.17
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (31 bp):
ATTTTATAATTTTTTTTAATAATTTTTAAAT
Found at i:26859497 original size:19 final size:20
Alignment explanation
Indices: 26859473--26859515 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
26859463 TGTAATTTTT
*
26859473 TTTTATGATTTTTATAAT-A
1 TTTTATAATTTTTATAATAA
*
26859492 TTTTATAATTTTTTTAATAA
1 TTTTATAATTTTTATAATAA
26859512 TTTT
1 TTTT
26859516 TAAATATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTATAATAA
Found at i:26859506 original size:22 final size:22
Alignment explanation
Indices: 26859481--26859538 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
26859471 TTTTTTATGA
26859481 TTTTTATAATATTTTATAAT-T-
1 TTTTTATAAT-TTTTATAATATC
26859502 TTTTTAATAATTTTTA-AATATC
1 TTTTT-ATAATTTTTATAATATC
26859524 TTTTTAT-ATTTTTAT
1 TTTTTATAATTTTTAT
26859539 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 10 0.30
21 13 0.39
22 10 0.30
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATAATTTTTATAATATC
Found at i:26859517 original size:10 final size:9
Alignment explanation
Indices: 26859472--26859572 Score: 60
Period size: 9 Copynumber: 10.3 Consensus size: 9
26859462 TTGTAATTTT
*
26859472 TTTTTATGA
1 TTTTTATAA
26859481 TTTTTATAA
1 TTTTTATAA
26859490 TATTTTATAA
1 T-TTTTATAA
26859500 TTTTTTTAATAA
1 --TTTTT-ATAA
26859512 TTTTTA-AA
1 TTTTTATAA
*
26859520 TATCTTTTTATA
1 T-T-TTTATA-A
26859532 TTTTTATTAAA
1 TTTTTA-T-AA
* *
26859543 ATTTAATAA
1 TTTTTATAA
*
26859552 TTTGTATAA
1 TTTTTATAA
*
26859561 CTTTTATAA
1 TTTTTATAA
26859570 TTT
1 TTT
26859573 CTTTTGCAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
8 3 0.04
9 28 0.39
10 20 0.28
11 12 0.17
12 8 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:26859903 original size:88 final size:88
Alignment explanation
Indices: 26859689--26859951 Score: 237
Period size: 92 Copynumber: 2.9 Consensus size: 88
26859679 TTTTTATATA
* * * * *
26859689 TTTGACAGTTCAAGTACCCAATTGAGTGTAAAAAAAATTAGGGGCTTAATTCTTTTTTTTTTGGA
1 TTTGAAAGTTCAAGTACCCAATTAAGTGAAAAAAAAAGTAAGGGCTTAATTCTTTTTTTTTT---
** *
26859754 AAAAGTTTGAGGGTCTTTTTGATGTAT
63 -AAAGTTTGAGGACCTTTTTGATGCAT
* * * **
26859781 TTTAAAAGTTTAAATATTCAATTGAA-TGAAAAAAAAAGTAAGGGCTTAATTACTTTTTTTTTT-
1 TTTGAAAGTTCAAGTACCCAATT-AAGTGAAAAAAAAAGTAAGGGCTTAATT-CTTTTTTTTTTA
* *
26859844 AATTTTGCGGACCTTTTTGATGCAT
64 AAGTTTGAGGACCTTTTTGATGCAT
* *
26859869 TTTGAAAGTTCCAAGTACCCAATTAAGTGCAAAAAAAAAG-CAGTGGCTTAATTGGTTTTTTTTT
1 TTTGAAAGTT-CAAGTACCCAATTAAGTG-AAAAAAAAAGTAAG-GGCTTAATT-CTTTTTTTTT
* *
26859933 TATAGTTTGA-GAACTTTTT
62 TAAAGTTTGAGGACCTTTTT
26859952 ACACCCTTAA
Statistics
Matches: 137, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
88 31 0.23
89 13 0.09
90 37 0.27
91 5 0.04
92 39 0.28
93 12 0.09
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (88 bp):
TTTGAAAGTTCAAGTACCCAATTAAGTGAAAAAAAAAGTAAGGGCTTAATTCTTTTTTTTTTAAA
GTTTGAGGACCTTTTTGATGCAT
Found at i:26862415 original size:20 final size:20
Alignment explanation
Indices: 26862392--26862429 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26862382 TTGTATAATC
26862392 ATTGGT-TTCATATTATATAG
1 ATTGGTATTCATA-TATATAG
*
26862412 ATTGTTATTCATATATAT
1 ATTGGTATTCATATATAT
26862430 TCTTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTGGTATTCATATATATAG
Found at i:26863942 original size:56 final size:58
Alignment explanation
Indices: 26863850--26864009 Score: 234
Period size: 59 Copynumber: 2.8 Consensus size: 58
26863840 CCATATTGTT
*
26863850 TGGATATTATTATGGGGATATTATATTTTAGCAATTTGATTCCTAATGAGATGTTA-TA
1 TGGATATTATTAT-GGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATGTTATTA
* * * * *
26863908 -GGATATTATTATGAGATATTATCTCTTAGAAATTTGATTCCTTATGTGATGTTATTA
1 TGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATGTTATTA
26863965 TGAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 TG-GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
26864010 CGTAACTACT
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
56 36 0.40
57 14 0.16
58 1 0.01
59 38 0.43
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (58 bp):
TGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATGTTATTA
Found at i:26863975 original size:13 final size:13
Alignment explanation
Indices: 26863949--26863988 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
26863939 ATTTGATTCC
* *
26863949 TTATGTGATGTTA
1 TTATGAGATATTA
26863962 TTATGAGATATTA
1 TTATGAGATATTA
*
26863975 TTATGGGATATTA
1 TTATGAGATATTA
26863988 T
1 T
26863989 CTTTTAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (13 bp):
TTATGAGATATTA
Found at i:26870023 original size:36 final size:36
Alignment explanation
Indices: 26869963--26870033 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
26869953 TCTTTTAGCA
* *
26869963 ATTTGATTCCTAATAGGATGTTATAGGATATTATTG
1 ATTTAATTCCTAATAGGATATTATAGGATATTATTG
*
26869999 ATTTAATTCCTAATGGGATATTATAGGATATTATT
1 ATTTAATTCCTAATAGGATATTATAGGATATTATT
26870034 ATGGGATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (36 bp):
ATTTAATTCCTAATAGGATATTATAGGATATTATTG
Found at i:26877502 original size:15 final size:17
Alignment explanation
Indices: 26877482--26877514 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26877472 ACCTGAAGAA
26877482 TTTTCAT-G-AGTACAT
1 TTTTCATCGTAGTACAT
26877497 TTTTCATCGTAGTACAT
1 TTTTCATCGTAGTACAT
26877514 T
1 T
26877515 CATCAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (17 bp):
TTTTCATCGTAGTACAT
Found at i:26891557 original size:18 final size:18
Alignment explanation
Indices: 26891536--26891571 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
26891526 TATTTTATAA
26891536 TATATAAAGT-ATTAAAAT
1 TATATAAA-TAATTAAAAT
26891554 TATATAAATAATTAAAAT
1 TATATAAATAATTAAAAT
26891572 CGGTAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TATATAAATAATTAAAAT
Found at i:26897101 original size:27 final size:27
Alignment explanation
Indices: 26897053--26897211 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
26897043 GCAAGGCTGC
* *
26897053 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
26897080 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
26897106 CAGATATATGTGGCAAAGCCGCCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
26897133 CAAATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
26897160 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
26897187 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
26897212 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:26897146 original size:54 final size:54
Alignment explanation
Indices: 26897053--26897211 Score: 205
Period size: 54 Copynumber: 3.0 Consensus size: 54
26897043 GCAAGGCTGC
* * * * * *
26897053 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAAATAATCGTGGCATAGCCACCAGAA
*
26897106 CAGATATATGTGGCAAAGCCGCCAGATCAAATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAA
* * *
26897160 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGATCAAATAATCGTGGCATAGCCACCAG
26897212 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 11 0.12
54 82 0.88
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAA
Found at i:26898845 original size:26 final size:26
Alignment explanation
Indices: 26898815--26898922 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
26898805 TGAAATTCCC
26898815 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
26898841 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
26898867 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26898893 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26898919 ATCA
1 ATCA
26898923 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:26900315 original size:40 final size:39
Alignment explanation
Indices: 26900271--26900371 Score: 113
Period size: 34 Copynumber: 2.7 Consensus size: 39
26900261 GTAACGATTT
26900271 GGGCCTTAGCCCATCTCAGTACAGTATCAAATATGCAGTA
1 GGGCCTTAGCCCATCTCAGTACAGTATC-AATATGCAGTA
* *
26900311 GGGCCTTAGCCCA--TCA-T--AGTATCAGTATGCATTA
1 GGGCCTTAGCCCATCTCAGTACAGTATCAATATGCAGTA
* *
26900345 GGGCCTTAGCCTATCACAGTATCAGTA
1 GGGCCTTAGCCCATCTCAGTA-CAGTA
26900372 GTAGTCATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
34 21 0.41
35 6 0.12
36 2 0.04
37 2 0.04
38 3 0.06
40 17 0.33
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (39 bp):
GGGCCTTAGCCCATCTCAGTACAGTATCAATATGCAGTA
Found at i:26900347 original size:34 final size:34
Alignment explanation
Indices: 26900291--26900371 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
26900281 CCATCTCAGT
*
26900291 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
1 ACAGTATC-AGTATGCAGTAGGGCCTTAGCCCATC
* * *
26900326 ATAGTATCAGTATGCATTAGGGCCTTAGCCTATC
1 ACAGTATCAGTATGCAGTAGGGCCTTAGCCCATC
26900360 ACAGTATCAGTA
1 ACAGTATCAGTA
26900372 GTAGTCATGC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 34 0.83
35 7 0.17
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (34 bp):
ACAGTATCAGTATGCAGTAGGGCCTTAGCCCATC
Found at i:26909771 original size:42 final size:42
Alignment explanation
Indices: 26909659--26909795 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 42
26909649 TGAGATATCA
* * *
26909659 TGTAAGACCGTGTCTGGGACATAGG-ACTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACAGAGGCA-TCGATAT-TGATTT-CG
* **
26909702 TATAAGACCATGTCTGGGACATCGGCATCG-TACTTGATTTCG
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATA-TTGATTTCG
* * * *
26909744 TGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTG-ATTTCG
26909787 TGTAAGACC
1 TGTAAGACC
26909796 TCGTCCGGGA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
42 31 0.40
43 45 0.58
44 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTCG
Found at i:26911349 original size:19 final size:17
Alignment explanation
Indices: 26911327--26911378 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
26911317 AATTTGGCAG
26911327 AGAACAGAGAAGAAGAGAA
1 AGAA-AGAGAAGAAGA-AA
26911346 AGAAAGAAGAAGAAGAAA
1 AGAAAG-AGAAGAAGAAA
*
26911364 ATGAAAAAGAAGAAG
1 A-GAAAGAGAAGAAG
26911379 TGGAGGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (17 bp):
AGAAAGAGAAGAAGAAA
Found at i:26914293 original size:26 final size:26
Alignment explanation
Indices: 26914234--26914326 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
26914224 AAATAAAAAT
26914234 AATTATATT-A-AA-AA-TATTATTA
1 AATTATATTAATAATAATTATTATTA
26914256 AATTATATTTAATAATAATTA-TATTA
1 AATTATA-TTAATAATAATTATTATTA
* * *
26914282 AAATATGATTAA-ATTATTTATTATTA
1 AATTAT-ATTAATAATAATTATTATTA
*
26914308 AATTATTTTTAATAATAAT
1 AATTA-TATTAATAATAAT
26914327 CCGTTTAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
22 7 0.13
23 2 0.04
24 1 0.02
25 8 0.15
26 29 0.53
27 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
AATTATATTAATAATAATTATTATTA
Found at i:26915098 original size:18 final size:17
Alignment explanation
Indices: 26915083--26915117 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
26915073 GAATTGAATC
26915083 TAAATTATATATTGAACAA
1 TAAATTA-ATATTGAAC-A
26915102 TAAATTAATATTGAAC
1 TAAATTAATATTGAAC
26915118 CTACATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
TAAATTAATATTGAACA
Found at i:26916066 original size:19 final size:19
Alignment explanation
Indices: 26916018--26916069 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
26916008 AAATTGATAA
26916018 AATCATGTTAAAATGGTTTC
1 AATCATGTTAAAAT-GTTTC
*
26916038 AATTGA-GTTAAACAT-TTTC
1 AA-TCATGTTAAA-ATGTTTC
26916057 AATCATGTTAAAA
1 AATCATGTTAAAA
26916070 ATGTATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 3 0.11
19 12 0.44
20 8 0.30
21 4 0.15
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
AATCATGTTAAAATGTTTC
Found at i:26917580 original size:39 final size:39
Alignment explanation
Indices: 26917526--26917603 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
26917516 ACCAAACATA
26917526 GCCTCAACCACAACCATATATACAAATAACCATTATTTC
1 GCCTCAACCACAACCATATATACAAATAACCATTATTTC
26917565 GCCTCAACCACAACCATATATACAAATAACCATTATTTC
1 GCCTCAACCACAACCATATATACAAATAACCATTATTTC
26917604 ACTTGAAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.26
Consensus pattern (39 bp):
GCCTCAACCACAACCATATATACAAATAACCATTATTTC
Found at i:26934947 original size:15 final size:16
Alignment explanation
Indices: 26934915--26934950 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
26934905 GTTAAAATAA
26934915 AATTTTAATTTTTAAT
1 AATTTTAATTTTTAAT
26934931 AATTTTAATTTTT-AT
1 AATTTTAATTTTTAAT
26934946 AATTT
1 AATTT
26934951 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTAATTTTTAAT
Found at i:26935972 original size:13 final size:13
Alignment explanation
Indices: 26935954--26935978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26935944 TATTGAAAAA
26935954 TTAAATTCTAAAT
1 TTAAATTCTAAAT
26935967 TTAAATTCTAAA
1 TTAAATTCTAAA
26935979 ATATGTTTGA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATTCTAAAT
Found at i:26938043 original size:22 final size:22
Alignment explanation
Indices: 26937996--26938048 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
26937986 TATACTGTAG
* *
26937996 TTTTTAAAATTTTTAATATTAT
1 TTTTAAAAATTTTTAATATTAA
*
26938018 TTTTAAAAATTTTTAGCT-TTAA
1 TTTTAAAAATTTTTA-ATATTAA
26938040 TTTTAAAAA
1 TTTTAAAAA
26938049 AAATTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAAAAATTTTTAATATTAA
Found at i:26942299 original size:65 final size:65
Alignment explanation
Indices: 26942195--26942317 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
26942185 ACCCCCAATA
26942195 GTTAACGGTTGCAAATTGGAGGAGGATTATTATTGAACAGAACAGGTAAATTTCTGATTATGTTT
1 GTTAACGGTTGCAAATTGGAGGAGGATTATTATTGAACAGAACAGGTAAATTTCTGATTATGTTT
* * *
26942260 GTTAACGGTTGCAAATTGGAGGAGGATTATTATTGAACAGAATAGGTAATTTTTTGAT
1 GTTAACGGTTGCAAATTGGAGGAGGATTATTATTGAACAGAACAGGTAAATTTCTGAT
26942318 CATTTTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (65 bp):
GTTAACGGTTGCAAATTGGAGGAGGATTATTATTGAACAGAACAGGTAAATTTCTGATTATGTTT
Found at i:26945423 original size:40 final size:40
Alignment explanation
Indices: 26945329--26945483 Score: 167
Period size: 38 Copynumber: 3.9 Consensus size: 40
26945319 GATGTGTATT
*
26945329 CGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGTAA-A-ATATC
1 CGGG-TTAAA-ACCCGCAGGCT-TCGTGCTGGTAATATATATC
*
26945369 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATC
1 CGGGTTAAAACCCGCAGGCTTCGTGCTGGTAATATATATC
*
26945409 TGGGTTAAAACCCGCAGGCTTCGTGCTGGT-AT-TATATC
1 CGGGTTAAAACCCGCAGGCTTCGTGCTGGTAATATATATC
* * * * * *
26945447 CAGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CGGGTTAAAACCCGCAGGCTTCGTGCTGGTAATATAT
26945484 TCGGGCTTTC
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
37 1 0.01
38 49 0.49
39 9 0.09
40 40 0.40
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
CGGGTTAAAACCCGCAGGCTTCGTGCTGGTAATATATATC
Found at i:26945437 original size:78 final size:79
Alignment explanation
Indices: 26945334--26945483 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 79
26945324 GTATTCGGGC
* * * *
26945334 TTAAAGACCCGCAGGCTATATGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 TTAAAGACCCGCAGGCTATATGCTGGTAAAATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGT
26945399 AATATATATCTGGG
66 AATATATATCTGGG
* **
26945413 TTAAA-ACCCGCAGGCT-TCGTGCTGGTATTATATCCAGGATAAATCCCGCAGGCCTAGTGCTGG
1 TTAAAGACCCGCAGGCTAT-ATGCTGGTAAAATATCCAGGATAAATCCCGCAGGCCTAGTGCTGG
*
26945476 TATTATAT
65 TAATATAT
26945484 TCGGGCTTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 1 0.02
78 56 0.90
79 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (79 bp):
TTAAAGACCCGCAGGCTATATGCTGGTAAAATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGT
AATATATATCTGGG
Found at i:26945550 original size:43 final size:43
Alignment explanation
Indices: 26945481--26945630 Score: 237
Period size: 43 Copynumber: 3.5 Consensus size: 43
26945471 GCTGGTATTA
* * * *
26945481 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCTGGTGACGTG
1 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
* *
26945524 TATTTGGGCCTTTGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
*
26945567 TATTCGGGCCTCCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
26945610 TATTCGGGCCTTCGTGCCTAG
1 TATTCGGGCCTTCGTGCCTAG
26945631 CAAGCGTAAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.09, C:0.23, G:0.34, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
Found at i:26945644 original size:86 final size:86
Alignment explanation
Indices: 26945481--26945648 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 86
26945471 GCTGGTATTA
* * * * * *
26945481 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCTGGTGACGTGTATTTGGGCCTTTGTGCCTAGT
1 TATTCGGGCCTCCGTGCCTAGCAGGCTTCGTGCCGGTGACGTGTATTCGGGCCTTCGTGCCTAGC
* * **
26945546 AGGCTTCGTGCCGGTGATGTG
66 AAGCGTAATGCCGGTGATGTG
* *
26945567 TATTCGGGCCTCCGTGCCTAGTAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTCCGTGCCTAGCAGGCTTCGTGCCGGTGACGTGTATTCGGGCCTTCGTGCCTAGC
26945632 AAGCGTAATGCCGGTGA
66 AAGCGTAATGCCGGTGA
26945649 AATAATATGT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (86 bp):
TATTCGGGCCTCCGTGCCTAGCAGGCTTCGTGCCGGTGACGTGTATTCGGGCCTTCGTGCCTAGC
AAGCGTAATGCCGGTGATGTG
Found at i:26946031 original size:45 final size:45
Alignment explanation
Indices: 26945964--26946090 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
26945954 TTGATTTGAT
* * * *
26945964 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGCCGGTGAGAT-A
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
26946008 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 -TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
* *
26946054 TA-TCAGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
26946091 TTTGAGAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
42 11 0.15
43 16 0.21
44 6 0.08
45 41 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:26951550 original size:14 final size:14
Alignment explanation
Indices: 26951533--26951562 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26951523 ATTTAATTTG
26951533 GATTAATAAATTAT
1 GATTAATAAATTAT
*
26951547 GATTAATTAATTAT
1 GATTAATAAATTAT
26951561 GA
1 GA
26951563 AAAAGTGGTC
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:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (14 bp):
GATTAATAAATTAT
Found at i:26957360 original size:178 final size:179
Alignment explanation
Indices: 26957055--26957407 Score: 564
Period size: 178 Copynumber: 2.0 Consensus size: 179
26957045 AGTGAATGGC
* **
26957055 TTCTTCACTTTTGCACTGATTCCCTTTGAGCCTTTCTTTTTTTTTTTTTGGTTATTGTTGATTCC
1 TTCTTCACTTTTGCACTGATTCCCTTTGAGCCTTTC--TTTCTTTTTTTCATTATTGTTGATTCC
* * * *
26957120 AAAATTCTATCTTAATCCTTTTTTTCTTACTCCTTAAATGCACCATAACACTAGACGCACTTACG
64 AAAATTCTATCTCAATCCCTTTTTTCTTACCCCTTAAATGCACCATAACACTAAACGCACTTACG
26957185 TTATCGTTCTCATTTAAGGCTTAGTGTAGCATTACTTCTCAAAAGGTGACT
129 TTATCGTTCTCATTTAAGGCTTAGTGTAGCATTACTTCTCAAAAGGTGACT
26957236 TTCTTCACTTTTGCACTGATTCCCTTTGAGCCTTTC-TTCTTTTTTTCATTATTGTTGATTCCAA
1 TTCTTCACTTTTGCACTGATTCCCTTTGAGCCTTTCTTTCTTTTTTTCATTATTGTTGATTCCAA
* * * * *
26957300 AATTTTGTCTCAATCCCTTTTTTCTTCCCCCTTAAATGCACCATAACACTAAATGCACTTATGTT
66 AATTCTATCTCAATCCCTTTTTTCTTACCCCTTAAATGCACCATAACACTAAACGCACTTACGTT
*
26957365 ATCGTTCTCATTTAAGGCTTAGTTTAGCATTACTTCTCAAAAG
131 ATCGTTCTCATTTAAGGCTTAGTGTAGCATTACTTCTCAAAAG
26957408 TGCTTTTGGT
Statistics
Matches: 159, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
178 123 0.77
181 36 0.23
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (179 bp):
TTCTTCACTTTTGCACTGATTCCCTTTGAGCCTTTCTTTCTTTTTTTCATTATTGTTGATTCCAA
AATTCTATCTCAATCCCTTTTTTCTTACCCCTTAAATGCACCATAACACTAAACGCACTTACGTT
ATCGTTCTCATTTAAGGCTTAGTGTAGCATTACTTCTCAAAAGGTGACT
Found at i:26957573 original size:18 final size:18
Alignment explanation
Indices: 26957550--26957592 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
26957540 ATTTAATAAT
* *
26957550 TTTTTTATCTCAAAAGTA
1 TTTTTTACCTCAAAAATA
26957568 TTTTTTACCTCAAAAATA
1 TTTTTTACCTCAAAAATA
26957586 TTTTTTA
1 TTTTTTA
26957593 GAAACAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTTACCTCAAAAATA
Found at i:26974684 original size:12 final size:11
Alignment explanation
Indices: 26974651--26974677 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26974641 TCTTCATAAA
26974651 TTTTACCCAAT
1 TTTTACCCAAT
26974662 TTTTACCCAAT
1 TTTTACCCAAT
26974673 TTTTA
1 TTTTA
26974678 TGCCAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTACCCAAT
Found at i:26979124 original size:12 final size:12
Alignment explanation
Indices: 26979107--26979152 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
26979097 TCCCTATCTA
26979107 ATAATAATAATT
1 ATAATAATAATT
26979119 ATAATAATAATT
1 ATAATAATAATT
*
26979131 -TTATAA-ATATAT
1 ATAATAATA-AT-T
26979143 ATAATAATAA
1 ATAATAATAA
26979153 AAATTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 1 0.04
11 7 0.25
12 13 0.46
13 6 0.21
14 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:26979259 original size:19 final size:18
Alignment explanation
Indices: 26979222--26979265 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
26979212 ATACATGCAG
26979222 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
26979239 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
26979258 TACTAATT
1 TAATAATT
26979266 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:26982509 original size:27 final size:27
Alignment explanation
Indices: 26982479--26982554 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
26982469 AAATTATCTT
26982479 AGTATATATCTATGTTTTCATACTTGA
1 AGTATATATCTATGTTTTCATACTTGA
**
26982506 AGTA-A-AT-TA--AATT-AT-CTT--
1 AGTATATATCTATGTTTTCATACTTGA
26982524 AGTATATATCTATGTTTTCATACTTGA
1 AGTATATATCTATGTTTTCATACTTGA
26982551 AGTA
1 AGTA
26982555 ATGATTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 5 0.14
21 4 0.11
22 2 0.06
23 2 0.06
24 4 0.11
25 5 0.14
26 1 0.03
27 8 0.22
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (27 bp):
AGTATATATCTATGTTTTCATACTTGA
Found at i:26982525 original size:45 final size:45
Alignment explanation
Indices: 26982461--26982555 Score: 190
Period size: 45 Copynumber: 2.1 Consensus size: 45
26982451 CTTGTTTTAT
26982461 AGTAAATTAAATTATCTTAGTATATATCTATGTTTTCATACTTGA
1 AGTAAATTAAATTATCTTAGTATATATCTATGTTTTCATACTTGA
26982506 AGTAAATTAAATTATCTTAGTATATATCTATGTTTTCATACTTGA
1 AGTAAATTAAATTATCTTAGTATATATCTATGTTTTCATACTTGA
26982551 AGTAA
1 AGTAA
26982556 TGATTTATTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (45 bp):
AGTAAATTAAATTATCTTAGTATATATCTATGTTTTCATACTTGA
Found at i:26998340 original size:24 final size:24
Alignment explanation
Indices: 26998313--26998371 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
26998303 AGCTCATCAA
*
26998313 AGCTTACTGTTTCCAGCTCGTTAG
1 AGCTTACTGTTTCCAGCTCGATAG
* *
26998337 AGCTTACTATTTCTAGCTCGATAG
1 AGCTTACTGTTTCCAGCTCGATAG
26998361 AGCTTACTGTT
1 AGCTTACTGTT
26998372 CATCAGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (24 bp):
AGCTTACTGTTTCCAGCTCGATAG
Found at i:27003853 original size:18 final size:19
Alignment explanation
Indices: 27003810--27003855 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
27003800 TTGTAATGAT
*
27003810 TTGAAATGAATGTATGTAA
1 TTGAAATAAATGTATGTAA
*
27003829 TTG-AATAAATG-ATGTAC
1 TTGAAATAAATGTATGTAA
27003846 TTGAAATAAA
1 TTGAAATAAA
27003856 AATGCCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 13 0.54
19 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGAAATAAATGTATGTAA
Found at i:27004048 original size:24 final size:24
Alignment explanation
Indices: 27004018--27004079 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
27004008 TTAGCTCATA
*
27004018 AGAGCTTATTGTTCCCAACTCGTC
1 AGAGCTTACTGTTCCCAACTCGTC
* *
27004042 AGAGCTTACTGTTTCCAGCTCGAT-
1 AGAGCTTACTGTTCCCAACTCG-TC
*
27004066 GGAGCTTACTGTTC
1 AGAGCTTACTGTTC
27004080 ATCAGCTGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
AGAGCTTACTGTTCCCAACTCGTC
Found at i:27005807 original size:20 final size:22
Alignment explanation
Indices: 27005767--27005807 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
27005757 AAATCATTGT
27005767 GAGTGAGAAAAGAGGAAAAAGTC
1 GAGTGAGAAAAGA-GAAAAAGTC
27005790 GAGTGA-AAAAGA-AAAAAG
1 GAGTGAGAAAAGAGAAAAAG
27005808 AAAATGTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.32, T:0.07
Consensus pattern (22 bp):
GAGTGAGAAAAGAGAAAAAGTC
Found at i:27007793 original size:27 final size:27
Alignment explanation
Indices: 27007682--27007793 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
27007672 AGCATGGCTG
* * * *
27007682 CCAGAACATATAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
27007708 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
* *
27007736 CCACAACAGA-AATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
27007763 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
27007790 CCAG
1 CCAG
27007794 GACGTTTCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.67
28 16 0.23
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:27009059 original size:22 final size:22
Alignment explanation
Indices: 27009032--27009074 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27009022 ACAGAAGAAG
* *
27009032 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
27009054 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
27009075 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:27013505 original size:27 final size:27
Alignment explanation
Indices: 27013470--27013581 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
27013460 AGCATGGCTG
* *
27013470 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
27013496 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
27013524 CCAGA-ACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
27013551 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
27013578 CCAG
1 CCAG
27013582 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:27013561 original size:54 final size:54
Alignment explanation
Indices: 27013470--27013581 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
27013460 AGCATGGCTG
* * *
27013470 CCAGAACAGATAATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
27013524 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
27013578 CCAG
1 CCAG
27013582 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:27016477 original size:28 final size:28
Alignment explanation
Indices: 27016437--27016491 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
27016427 GGTTACCATG
27016437 AGATAAAATAGAATCATATCGAGAGAAC
1 AGATAAAATAGAATCATATCGAGAGAAC
27016465 AGATAAAATAGAATCATATCGAGAGAA
1 AGATAAAATAGAATCATATCGAGAGAA
27016492 AAAGTATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (28 bp):
AGATAAAATAGAATCATATCGAGAGAAC
Found at i:27017048 original size:57 final size:57
Alignment explanation
Indices: 27016957--27017073 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 57
27016947 TATTTTTCAT
* * *
27016957 TTTTCATTTTCATTTTGGAGAAAACCGCATTCATTTCCAAATGATTCCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCAATTCTCCA
* * * * *
27017014 TTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCCAATGTTTCCAATTCTCTA
1 TTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCAATTCTCCA
27017071 TTT
1 TTT
27017074 ACACCATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCAATTCTCCA
Found at i:27020550 original size:40 final size:42
Alignment explanation
Indices: 27020503--27020581 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
27020493 TTAATGTATT
*
27020503 AATGTTATT-AAAATAAAAATAT-AAAATTTTATATTAATGA
1 AATGTTATTAAAAATAAAAATATCAAAATTTTAGATTAATGA
* *
27020543 AATGTTATTAAAAATAAAAATGTCAACATTTTAGATTAA
1 AATGTTATTAAAAATAAAAATATCAAAATTTTAGATTAA
27020582 AAATATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 9 0.26
41 12 0.35
42 13 0.38
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (42 bp):
AATGTTATTAAAAATAAAAATATCAAAATTTTAGATTAATGA
Found at i:27024776 original size:22 final size:22
Alignment explanation
Indices: 27024739--27024795 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
27024729 AATAAATAAT
27024739 AAATG-AAAA-AGAAACAAAAG-
1 AAATGAAAAAGAGAAAC-AAAGC
27024759 AAATGAAAAAGAGAAACAAAGC
1 AAATGAAAAAGAGAAACAAAGC
*
27024781 AAATGAAACAGAGAA
1 AAATGAAAAAGAGAA
27024796 GAATAGGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 5 0.15
21 8 0.24
22 20 0.61
ACGTcount: A:0.70, C:0.07, G:0.18, T:0.05
Consensus pattern (22 bp):
AAATGAAAAAGAGAAACAAAGC
Found at i:27026118 original size:18 final size:18
Alignment explanation
Indices: 27026095--27026136 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
27026085 TAAATAAAGG
27026095 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
27026113 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
27026131 TACTGA
1 TACTGA
27026137 GTTACTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:27028118 original size:6 final size:6
Alignment explanation
Indices: 27028109--27028143 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
27028099 AACGAAATAG
27028109 AAAGAA AAAGAA AAAGGAGA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAA-GA-A AAAGAA AAAGAA AAA
27028144 AGAGAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:27028134 original size:20 final size:20
Alignment explanation
Indices: 27028109--27028150 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
27028099 AACGAAATAG
*
27028109 AAAGAAAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAAGAGA
27028129 AAAGAAAAAGAAAAAAGAGA
1 AAAGAAAAAGAAAAAAGAGA
27028149 AA
1 AA
27028151 TTAGGATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAAGAGA
Found at i:27036380 original size:55 final size:55
Alignment explanation
Indices: 27036260--27036385 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
27036250 AAGCCTACCA
* * * * *
27036260 AAAC-AACATGGGCGTGCGACATGCCCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCGTGCGACACGCCCGTGTCGAACACCCGTGGTCGAAACTGAG
* * * *
27036314 AAACTAGCACGGGCGTGCGACACGCCCGTGTCTAACACCCGTGGTCGAACCTG-T
1 AAACTAACACGGGCGTGCGACACGCCCGTGTCGAACACCCGTGGTCGAAACTGAG
*
27036368 TAACTTAACACGGGCGTG
1 AAAC-TAACACGGGCGTG
27036386 GAGCTTGAGC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 7 0.12
55 52 0.88
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.17
Consensus pattern (55 bp):
AAACTAACACGGGCGTGCGACACGCCCGTGTCGAACACCCGTGGTCGAAACTGAG
Found at i:27042903 original size:6 final size:5
Alignment explanation
Indices: 27042869--27042957 Score: 67
Period size: 5 Copynumber: 16.8 Consensus size: 5
27042859 TATGTCTTTC
* *
27042869 AAAAT AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAGAAT CAAAAGA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AA-AAT -AAAA-T
27042917 AAAATT AAAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT AAAA
1 AAAA-T AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
27042958 AAATAGGAGT
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 32 0.46
6 29 0.42
7 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:27042914 original size:12 final size:10
Alignment explanation
Indices: 27042869--27042957 Score: 67
Period size: 12 Copynumber: 8.4 Consensus size: 10
27042859 TATGTCTTTC
27042869 AAAATAAAAT
1 AAAATAAAAT
27042879 AAAAT--AAT
1 AAAATAAAAT
*
27042887 AAAATTGAAAT
1 AAAA-TAAAAT
27042898 GAAAATAAGAAT
1 -AAAATAA-AAT
*
27042910 CAAAAGAAAAATT
1 -AAAA-TAAAA-T
27042923 AAAATAAAAT
1 AAAATAAAAT
27042933 AAAATAAAAAT
1 AAAAT-AAAAT
27042944 AAGAAT-AAAT
1 AA-AATAAAAT
27042954 AAAA
1 AAAA
27042958 AAATAGGAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
8 7 0.11
9 3 0.05
10 17 0.26
11 16 0.24
12 20 0.30
13 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:27042960 original size:40 final size:41
Alignment explanation
Indices: 27042884--27042961 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
27042874 AAAATAAAAT
* * *
27042884 AATAAAATTGAAATGAAAATAAGAATCAAAAGAAAAATTAA
1 AATAAAATTAAAATAAAAATAAGAATCAAAAAAAAAATTAA
27042925 AATAAAA-TAAAATAAAAATAAGAAT-AAATAAAAAAAT
1 AATAAAATTAAAATAAAAATAAGAATCAAA-AAAAAAAT
27042962 AGGAGTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 3 0.09
40 23 0.70
41 7 0.21
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.19
Consensus pattern (41 bp):
AATAAAATTAAAATAAAAATAAGAATCAAAAAAAAAATTAA
Found at i:27046470 original size:34 final size:34
Alignment explanation
Indices: 27046427--27046497 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
27046417 CGTCATCGCT
27046427 TTAGGATATGGCACACGAGGTTCATGATTCGTAC
1 TTAGGATATGGCACACGAGGTTCATGATTCGTAC
27046461 TTAGGATATGGCACACGAGGTTCATGATTCGTAC
1 TTAGGATATGGCACACGAGGTTCATGATTCGTAC
27046495 TTA
1 TTA
27046498 CCTGTTTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (34 bp):
TTAGGATATGGCACACGAGGTTCATGATTCGTAC
Found at i:27053421 original size:35 final size:35
Alignment explanation
Indices: 27053374--27053446 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
27053364 GGTCCAAAAA
*
27053374 TACAAAAATCATCAAGAATAACCTTCTAAATGACT
1 TACAAAAATCATCAAGAATAACCTTATAAATGACT
*
27053409 TACAAAACTCATCAAGAATAACCTTATAAATGACT
1 TACAAAAATCATCAAGAATAACCTTATAAATGACT
27053444 TAC
1 TAC
27053447 TTGCAAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.26
Consensus pattern (35 bp):
TACAAAAATCATCAAGAATAACCTTATAAATGACT
Found at i:27064318 original size:45 final size:45
Alignment explanation
Indices: 27064213--27064387 Score: 214
Period size: 45 Copynumber: 4.0 Consensus size: 45
27064203 CGAATTCATC
* * * * *
27064213 CACCGGCATT-TTGCCTGCTAGGTTCGAAGACC-G-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGT-ATCT
* * *
27064255 CACTGGCATTATAGCCTGCTAGGCTCGAATGCCTGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATCT
*
27064300 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATCT
* *
27064345 CACCGGCATTATAACCTGCTAGGCTCAAAGGTCTGAATAGTAT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTAT
27064388 TGTACGATAT
Statistics
Matches: 116, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
42 9 0.08
43 18 0.16
44 1 0.01
45 87 0.75
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATCT
Found at i:27071578 original size:14 final size:14
Alignment explanation
Indices: 27071534--27071568 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
27071524 GTTTTAACAT
27071534 ATAAATAAAGATAAAA
1 ATAAATAAA-AT-AAA
27071550 ATAAATAAAATAAA
1 ATAAATAAAATAAA
27071564 ATAAA
1 ATAAA
27071569 AAACGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 2 0.11
16 9 0.47
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
ATAAATAAAATAAA
Found at i:27084870 original size:36 final size:36
Alignment explanation
Indices: 27084822--27084902 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
27084812 ATACCTGAAC
*
27084822 CTCTTC-TAGGGTTTTATAAAAAATTATGCCTTGGGT
1 CTCTTCAT-GGGTTATATAAAAAATTATGCCTTGGGT
27084858 CTCTTCATGGGTTATATAAAAAATTATGCCTTGGGT
1 CTCTTCATGGGTTATATAAAAAATTATGCCTTGGGT
27084894 CTCTTCATG
1 CTCTTCATG
27084903 AGTAACCACC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (36 bp):
CTCTTCATGGGTTATATAAAAAATTATGCCTTGGGT
Found at i:27104230 original size:12 final size:13
Alignment explanation
Indices: 27104207--27104235 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27104197 GATTATTTTC
27104207 ATTTTGGATTGGT
1 ATTTTGGATTGGT
27104220 ATTTT-GATTGGT
1 ATTTTGGATTGGT
27104232 ATTT
1 ATTT
27104236 AAGTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (13 bp):
ATTTTGGATTGGT
Found at i:27105705 original size:49 final size:49
Alignment explanation
Indices: 27105646--27105870 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
27105636 CGCATAGTAT
*
27105646 CTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGC
1 CTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGTAGTAGC
* ** *
27105695 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 CTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACGTAGTAGC
* * * * *
27105745 CTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGC
1 CTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACGTAGTAGC
* *
27105796 CTGCACTTAGTACTACCCATGCGACCAATTATCTGGTACACGTAGTAGC
1 CTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGTAGTAGC
* *
27105845 CTACACTTAGTACTACACACGTGACC
1 CTGCACTTAGTACTACACACGCGACC
27105871 TCACAATAGC
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 64 0.43
50 49 0.33
51 37 0.25
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
CTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGTAGTAGC
Found at i:27105860 original size:100 final size:99
Alignment explanation
Indices: 27105649--27105870 Score: 302
Period size: 100 Copynumber: 2.2 Consensus size: 99
27105639 ATAGTATCTG
* * * *
27105649 CACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 CACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACA
* *
27105714 CGTGACCTAACCATCTGATACACGTAGTAGCCTG
66 CGCGACCTAACCATCTGATACACGTAGTAGCCTA
* * *
27105748 CACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACC
1 CACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACTTAGTACTACA
* ** *
27105813 CATGCGACC-AATTATCTGGTACACGTAGTAGCCTA
64 CACGCGACCTAACCATCTGATACACGTAGTAGCCTA
27105848 CACTTAGTACTACACACGTGACC
1 CACTTAGTACTACACACGTGACC
27105871 TCACAATAGC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 20 0.19
100 46 0.43
101 41 0.38
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
CACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACA
CGCGACCTAACCATCTGATACACGTAGTAGCCTA
Found at i:27121502 original size:35 final size:35
Alignment explanation
Indices: 27121456--27121526 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
27121446 AATTCCAAAA
27121456 TTCCAATTAACAGCTTGATATCTTCATTTAACCCT
1 TTCCAATTAACAGCTTGATATCTTCATTTAACCCT
*
27121491 TTCCAATTAACAGCTTGATATCTTCATTTAGCCCT
1 TTCCAATTAACAGCTTGATATCTTCATTTAACCCT
27121526 T
1 T
27121527 CTTCAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (35 bp):
TTCCAATTAACAGCTTGATATCTTCATTTAACCCT
Found at i:27125492 original size:8 final size:8
Alignment explanation
Indices: 27125481--27125519 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
27125471 ATTCTTTTAT
*
27125481 ATAATTAA
1 ATAAATAA
27125489 ATAAAGTAA
1 ATAAA-TAA
27125498 ATAAATAA
1 ATAAATAA
27125506 ATAAATAAA
1 ATAAAT-AA
27125515 ATAAA
1 ATAAA
27125520 GACAAATGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
ATAAATAA
Found at i:27125502 original size:4 final size:4
Alignment explanation
Indices: 27125481--27125519 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
27125471 ATTCTTTTAT
*
27125481 ATAA TTAA ATAA AGTAA ATAA ATAA ATAA ATAAA ATAA A
1 ATAA ATAA ATAA A-TAA ATAA ATAA ATAA AT-AA ATAA A
27125520 GACAAATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 23 0.74
5 8 0.26
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:27125504 original size:13 final size:13
Alignment explanation
Indices: 27125486--27125520 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
27125476 TTTATATAAT
27125486 TAAATAAAGTAAA
1 TAAATAAAGTAAA
27125499 TAAATAAA-TAAA
1 TAAATAAAGTAAA
27125511 TAAAATAAAG
1 T-AAATAAAG
27125521 ACAAATGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (13 bp):
TAAATAAAGTAAA
Found at i:27125506 original size:17 final size:17
Alignment explanation
Indices: 27125481--27125519 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27125471 ATTCTTTTAT
*
27125481 ATAATTAAATAAAGT-AA
1 ATAAATAAATAAA-TAAA
27125498 ATAAATAAATAAATAAA
1 ATAAATAAATAAATAAA
27125515 ATAAA
1 ATAAA
27125520 GACAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAATAAATAAATAAA
Found at i:27125665 original size:16 final size:16
Alignment explanation
Indices: 27125617--27125670 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
27125607 ATTTACTATT
27125617 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
27125632 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
27125647 TATTATAAGATATTTA
1 TATAATAAGATATTTA
27125663 TATAATAA
1 TATAATAA
27125671 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:27126733 original size:16 final size:15
Alignment explanation
Indices: 27126704--27126753 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
27126694 TAATATAAAG
27126704 TGAATTGAAATATAT
1 TGAATTGAAATATAT
27126719 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
27126735 CTGATTAATTGAAATATAT
1 -TG---AATTGAAATATAT
27126754 ATTGATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 2 0.07
19 7 0.23
20 6 0.20
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:27126763 original size:16 final size:16
Alignment explanation
Indices: 27126713--27126764 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 16
27126703 GTGAATTGAA
27126713 ATATATTGAATTGAGAAT
1 ATATATTG-ATTGA-AAT
*
27126731 ATATCTGATTAATTGAAAT
1 ATA--T-ATTGATTGAAAT
27126750 ATATATTGATTGAAA
1 ATATATTGATTGAAA
27126765 ACTGAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 10 0.34
17 1 0.03
18 3 0.10
19 6 0.21
20 6 0.21
21 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (16 bp):
ATATATTGATTGAAAT
Found at i:27127001 original size:45 final size:45
Alignment explanation
Indices: 27126906--27127007 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
27126896 TTACCATTAC
* * * *
27126906 TGTTACTGTTACCGACTCGACACTTTGTGTGTCAAATACTGTTAC
1 TGTTACTGTTACCGACTCAACACTTTGTGTGTCAAATACTATCAA
* * **
27126951 CGTTACTGTT-CCAGATTCAACACTTTGTGTGTTGAATACTATCAA
1 TGTTACTGTTACC-GACTCAACACTTTGTGTGTCAAATACTATCAA
27126996 TGTTACTGTTAC
1 TGTTACTGTTAC
27127008 TGCTACCATT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
44 2 0.04
45 43 0.93
46 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
TGTTACTGTTACCGACTCAACACTTTGTGTGTCAAATACTATCAA
Found at i:27127157 original size:18 final size:18
Alignment explanation
Indices: 27127134--27127222 Score: 117
Period size: 18 Copynumber: 4.9 Consensus size: 18
27127124 TAAATAAAGG
27127134 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* *
27127152 TACTGAATAATTGACTAT
1 TACTGAATAACTGATTAT
* *
27127170 TACTGAATAAAC-GACTGT
1 TACTGAAT-AACTGATTAT
*
27127188 TACTGAATAAATGATTAT
1 TACTGAATAACTGATTAT
27127206 TACTGAATAACTGATTA
1 TACTGAATAACTGATTA
27127223 ATATTGATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 2 0.03
18 57 0.93
19 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:27132222 original size:13 final size:13
Alignment explanation
Indices: 27132206--27132251 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
27132196 ATTCTTTTAT
*
27132206 ATTAATTAAATAA
1 ATTAAATAAATAA
27132219 ATTAAATAAATAA
1 ATTAAATAAATAA
*
27132232 ATAAAATAAAATAA
1 ATTAAAT-AAATAA
*
27132246 AATAAA
1 ATTAAA
27132252 GACAAATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATTAAATAAATAA
Found at i:27132223 original size:9 final size:9
Alignment explanation
Indices: 27132209--27132251 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
27132199 CTTTTATATT
27132209 AATTAAATA
1 AATTAAATA
27132218 AATTAAATA
1 AATTAAATA
27132227 AA-TAAATAA
1 AATTAAAT-A
*
27132236 AATAAAATA
1 AATTAAATA
*
27132245 AAATAAA
1 AATTAAA
27132252 GACAAATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 5 0.17
9 20 0.69
10 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AATTAAATA
Found at i:27132397 original size:16 final size:16
Alignment explanation
Indices: 27132349--27132402 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
27132339 ATTTACTATT
27132349 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
27132364 T-TAACTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
27132379 TATTATAAGATATTTA
1 TATAATAAGATATTTA
27132395 TATAATAA
1 TATAATAA
27132403 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:27132550 original size:18 final size:18
Alignment explanation
Indices: 27132524--27132558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27132514 ATATAGTAAA
* *
27132524 GAAAGAAAGAAAGGAAAG
1 GAAACAAAGAAAAGAAAG
27132542 GAAACAAAGAAAAGAAA
1 GAAACAAAGAAAAGAAA
27132559 CAGAATGCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (18 bp):
GAAACAAAGAAAAGAAAG
Found at i:27133464 original size:16 final size:15
Alignment explanation
Indices: 27133435--27133484 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
27133425 TAATATAAAG
27133435 TGAATTGAAATATAT
1 TGAATTGAAATATAT
27133450 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
27133466 CTGATTAATTGAAATATAT
1 -TG---AATTGAAATATAT
27133485 ACTGATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 2 0.07
19 7 0.23
20 6 0.20
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:27133477 original size:20 final size:20
Alignment explanation
Indices: 27133452--27133491 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27133442 AAATATATTG
27133452 AATTGAGAATATAT-CTGATT
1 AATTGA-AATATATACTGATT
27133472 AATTGAAATATATACTGATT
1 AATTGAAATATATACTGATT
27133492 GAAAACTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
AATTGAAATATATACTGATT
Found at i:27133720 original size:45 final size:45
Alignment explanation
Indices: 27133615--27133721 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
27133605 TTATGTGTCG
* *
27133615 ATTACTGTTACTGTTACCGACTCGACAATTTGTGTGTCAAATTCT
1 ATTACTGTTACTGTTACAGACTCGACAATTTGTGTGTCAAATACT
* * * * **
27133660 ATTACCGTTATTGTTACAGATTC-AGCACTTTGTGTGTTGAATACT
1 ATTACTGTTACTGTTACAGACTCGA-CAATTTGTGTGTCAAATACT
*
27133705 ATTAATGTTACTGTTAC
1 ATTACTGTTACTGTTAC
27133722 TGCTACTGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 49 0.98
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (45 bp):
ATTACTGTTACTGTTACAGACTCGACAATTTGTGTGTCAAATACT
Found at i:27133874 original size:18 final size:18
Alignment explanation
Indices: 27133848--27133907 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
27133838 TAAATAAAGG
*
27133848 TACTAAATAACTGATTAT
1 TACTGAATAACTGATTAT
* *
27133866 TACTGAATAATTGACTAT
1 TACTGAATAACTGATTAT
*
27133884 TACTGAATAACTGATTAA
1 TACTGAATAACTGATTAT
27133902 TACTGA
1 TACTGA
27133908 TGACTGACTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Done.