Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 320 of 335
Found at i:94151749 original size:44 final size:41
Alignment explanation
Indices: 94151606--94151891 Score: 139
Period size: 43 Copynumber: 6.8 Consensus size: 41
94151596 ATGCTTTAAC
*
94151606 CTGTTACCCTACTGCTTAGGGGGTTAAGGCG-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGTCATCTT-GAT
* * * * *
94151647 CTGCT-CCACTACTGCTTAGGGAGA-TAAGATCCGTAATTTTGAC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG--GCGTCATCTTGAT
94151690 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGC--GTCATC-TTGAT
* * * *
94151734 CTGTT-CCACTACTGCTTAGGGAGA-TAAGATCTGTAAT-TTTAGC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG-GC-GTCATCTTGA-T
94151777 CTGTTACCCTACTGCTTAGGAGG-TTAAGGCG--AGTCTTCGAT
1 CTGTTACCCTACTGCTTAGG-GGATTAAGGCGTCA-TCTT-GAT
* * * * * *
94151818 CTGCT-CCATTACTGCTTAGAGAGA-TAAGATC-TGCAAAT-TTAAC
1 CTGTTACC-CTACTGCTTAG-GGGATTAAG-GCGT-C--ATCTTGAT
94151861 CTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCG
94151892 CTGAATTTTG
Statistics
Matches: 184, Mismatches: 29, Indels: 62
0.67 0.11 0.23
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 44 0.24
42 14 0.08
43 72 0.39
44 43 0.23
45 4 0.02
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (41 bp):
CTGTTACCCTACTGCTTAGGGGATTAAGGCGTCATCTTGAT
Found at i:94151792 original size:43 final size:43
Alignment explanation
Indices: 94151655--94151881 Score: 166
Period size: 43 Copynumber: 5.3 Consensus size: 43
94151645 ATCTGCTCCA
*
94151655 CTACTGCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
* * * * *
94151698 CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTTGATCTGTT-CC
1 CTACTGCTTAGGGAGA-TAAGATC-TGTAAT-TTTGACCTGTTACC
94151741 ACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGA-CCTGTTACC
* * * * * *
94151785 CTACTGCTTA-GGAGGTTAAG-GC-G-AGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGA-GATAAGATCTGTAAT-TTTGACCTGTTACC
* * * * *
94151825 ATTACTGCTTAGAGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
94151869 CTACTGCTTAGGG
1 CTACTGCTTAGGG
94151882 GATTAAGGCG
Statistics
Matches: 139, Mismatches: 28, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
40 4 0.03
41 21 0.15
42 12 0.09
43 64 0.46
44 35 0.25
45 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
Found at i:94152865 original size:22 final size:22
Alignment explanation
Indices: 94152840--94152891 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
94152830 GCCTCTCCAT
94152840 TTTTTCTTTTTATTTTTTT-CTC
1 TTTTTCTTTTTATTTTTTTGC-C
94152862 TTTTTC-TTTTATTTTTTTGCC
1 TTTTTCTTTTTATTTTTTTGCC
94152883 TTTTT-TTTT
1 TTTTTCTTTT
94152892 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTTTATTTTTTTGCC
Found at i:94158058 original size:24 final size:24
Alignment explanation
Indices: 94158026--94158208 Score: 321
Period size: 24 Copynumber: 7.6 Consensus size: 24
94158016 TATCTCAAAT
*
94158026 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
94158050 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
94158074 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
94158098 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
94158122 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
94158146 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
94158170 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
94158194 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
94158209 ACATAATAAG
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 153 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:94165779 original size:24 final size:24
Alignment explanation
Indices: 94165747--94165952 Score: 360
Period size: 24 Copynumber: 8.6 Consensus size: 24
94165737 TATCTCAAAT
*
94165747 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
94165771 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
94165795 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
94165819 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
94165843 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
94165867 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
94165891 GCACTATGTGTGCGATTTACTAT-
1 GCACTATGTGTGCGATTTACTATG
* *
94165914 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
94165938 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
94165953 ACATAATAAG
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 22 0.12
24 154 0.88
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:94169335 original size:18 final size:18
Alignment explanation
Indices: 94169299--94169442 Score: 211
Period size: 18 Copynumber: 7.9 Consensus size: 18
94169289 AATCATATCT
*
94169299 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
94169318 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
94169336 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
94169353 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
94169371 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
94169389 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
94169406 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
94169425 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
94169443 TGAAGATTAT
Statistics
Matches: 115, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
17 32 0.28
18 50 0.43
19 33 0.29
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:94169357 original size:35 final size:36
Alignment explanation
Indices: 94169299--94169442 Score: 213
Period size: 35 Copynumber: 4.0 Consensus size: 36
94169289 AATCATATCT
94169299 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
94169336 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
94169371 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
94169406 TCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
94169443 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
35 53 0.54
36 31 0.31
37 10 0.10
38 5 0.05
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:94169450 original size:53 final size:54
Alignment explanation
Indices: 94169299--94169442 Score: 254
Period size: 53 Copynumber: 2.7 Consensus size: 54
94169289 AATCATATCT
*
94169299 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
94169353 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
94169406 TCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
94169443 TGAAGATTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
53 53 0.62
54 28 0.33
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:94170811 original size:26 final size:26
Alignment explanation
Indices: 94170782--94170837 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
94170772 TGATACAAAT
94170782 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94170808 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94170834 TGAT
1 TGAT
94170838 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94172351 original size:26 final size:26
Alignment explanation
Indices: 94172322--94172374 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
94172312 TTTACAGTTT
94172322 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
94172348 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
94172374 T
1 T
94172375 GCATGTTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:94187639 original size:32 final size:32
Alignment explanation
Indices: 94187586--94187750 Score: 181
Period size: 32 Copynumber: 5.2 Consensus size: 32
94187576 GGTACACATA
* * *
94187586 AAGTGTACATA-AAAGGGGTACATTTCCTTTTT
1 AAGTGTACACACAAA-GTGTACATTTCCTTTTC
**
94187618 AAGTGTACACACAAAGTGTACAAATCCTTTTC
1 AAGTGTACACACAAAGTGTACATTTCCTTTTC
* * * *
94187650 AAGTGTATATACAATGTGTACGTTTCCTTTTC
1 AAGTGTACACACAAAGTGTACATTTCCTTTTC
* **
94187682 AAGTGTACACACAAAGTCTACAAATCCTTTTC
1 AAGTGTACACACAAAGTGTACATTTCCTTTTC
* *
94187714 AAGAGTACACACAAAGT-TACGTTTCCTTTTC
1 AAGTGTACACACAAAGTGTACATTTCCTTTTC
94187745 AAGTGT
1 AAGTGT
94187751 CACCCTTTCG
Statistics
Matches: 109, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
31 16 0.15
32 90 0.83
33 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (32 bp):
AAGTGTACACACAAAGTGTACATTTCCTTTTC
Found at i:94187680 original size:64 final size:64
Alignment explanation
Indices: 94187603--94187750 Score: 226
Period size: 64 Copynumber: 2.3 Consensus size: 64
94187593 CATAAAAGGG
* * * * * * *
94187603 GTACATTTCCTTTTTAAGTGTACACACAAAGTGTACAAATCCTTTTCAAGTGTATATACAATGT
1 GTACGTTTCCTTTTCAAGTGTACACACAAAGTCTACAAATCCTTTTCAAGAGTACACACAAAGT
94187667 GTACGTTTCCTTTTCAAGTGTACACACAAAGTCTACAAATCCTTTTCAAGAGTACACACAAAGT
1 GTACGTTTCCTTTTCAAGTGTACACACAAAGTCTACAAATCCTTTTCAAGAGTACACACAAAGT
94187731 -TACGTTTCCTTTTCAAGTGT
1 GTACGTTTCCTTTTCAAGTGT
94187751 CACCCTTTCG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
63 20 0.26
64 57 0.74
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (64 bp):
GTACGTTTCCTTTTCAAGTGTACACACAAAGTCTACAAATCCTTTTCAAGAGTACACACAAAGT
Found at i:94196814 original size:34 final size:36
Alignment explanation
Indices: 94196771--94196853 Score: 125
Period size: 36 Copynumber: 2.4 Consensus size: 36
94196761 CTCACGCATA
*
94196771 TATATTATATAT-GAA-AAAACCATGCACCCATATT
1 TATATTATATATAGAACAAAACCATGCACACATATT
*
94196805 TATATTATATATATAACAAAACCATGCACACATATT
1 TATATTATATATAGAACAAAACCATGCACACATATT
*
94196841 GATATTATATATA
1 TATATTATATATA
94196854 CACCTATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 12 0.27
35 2 0.05
36 30 0.68
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (36 bp):
TATATTATATATAGAACAAAACCATGCACACATATT
Found at i:94198890 original size:27 final size:27
Alignment explanation
Indices: 94198852--94198907 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
94198842 CGACGGTGAC
94198852 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
94198879 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
94198906 CA
1 CA
94198908 CTCACGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (27 bp):
CAATGAAAGTATGCAGGTGAATGCAAG
Found at i:94204105 original size:20 final size:21
Alignment explanation
Indices: 94204080--94204121 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
94204070 ACTTCAAACC
94204080 TTAAACCTCAAA-CTTGAATT
1 TTAAACCTCAAATCTTGAATT
*
94204100 TTAAACCTCAAATCTTTAATT
1 TTAAACCTCAAATCTTGAATT
94204121 T
1 T
94204122 AGGGTTCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAACCTCAAATCTTGAATT
Found at i:94205269 original size:26 final size:26
Alignment explanation
Indices: 94205240--94205349 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
94205230 TGGTACAAAT
94205240 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
94205266 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
94205292 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
94205318 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
94205344 TGATAA
1 TGATAA
94205350 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:94207010 original size:27 final size:27
Alignment explanation
Indices: 94206969--94207108 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
94206959 GAGGAAGCGT
*
94206969 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
94206996 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
94207023 TCTGGTGGTTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94207050 TCTGGTGGCTCTGCCACGACTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
94207078 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
94207104 TCTGG
1 TCTGG
94207109 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94207054 original size:54 final size:55
Alignment explanation
Indices: 94206969--94207108 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
94206959 GAGGAAGCGT
* * *
94206969 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
94207023 TCTGGTGGTTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGACTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
94207078 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
94207109 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:94209699 original size:27 final size:28
Alignment explanation
Indices: 94209624--94209719 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
94209614 GCGTAGATCA
94209624 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
94209652 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
94209680 CGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
94209707 CGATA-TACCCCTA
1 CGAAATTACCCCTA
94209720 GGGTTTTAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
26 2 0.03
27 28 0.42
28 36 0.55
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:94214000 original size:28 final size:28
Alignment explanation
Indices: 94213933--94214028 Score: 169
Period size: 27 Copynumber: 3.5 Consensus size: 28
94213923 GCGTAGATCA
94213933 CGAAATTACCCCTAAAGAGCAAAATTA-
1 CGAAATTACCCCTAAAGAGCAAAATTAC
94213960 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
94213988 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
94214016 CGATA-TACCCCTA
1 CGAAATTACCCCTA
94214029 GGGTTTTAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
27 35 0.52
28 32 0.48
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:94218691 original size:26 final size:26
Alignment explanation
Indices: 94218662--94218771 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
94218652 TGGTACAAAT
94218662 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
94218688 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
94218714 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
94218740 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
94218766 TGATAA
1 TGATAA
94218772 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:94220401 original size:27 final size:27
Alignment explanation
Indices: 94220371--94220482 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 27
94220361 GAGGAAGCGT
*
94220371 TCTGGTGGTTATGCCACAAATATCTGA
1 TCTGGTGGTTCTGCCACAAATATCTGA
*
94220398 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGTTCTGCCACAAATATCTGA
* *
94220425 TCTGGTGGTTCTGCCACATATATCTGT
1 TCTGGTGGTTCTGCCACAAATATCTGA
* * * *
94220452 TCTGGTGGCTCTGTCAC-ATTATCTGT
1 TCTGGTGGTTCTGCCACAAATATCTGA
94220478 TCTGG
1 TCTGG
94220483 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
26 12 0.16
27 64 0.84
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGTTCTGCCACAAATATCTGA
Found at i:94220456 original size:54 final size:53
Alignment explanation
Indices: 94220371--94220482 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
94220361 GAGGAAGCGT
94220371 TCTGGTGGTTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGTTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-AATATCTGA
* * * * * *
94220425 TCTGGTGGTTCTGCCACATATATCTGTTCTGGTGGCTCTGTCACATTATCTGT
1 TCTGGTGGTTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAATATCTGA
94220478 TCTGG
1 TCTGG
94220483 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (53 bp):
TCTGGTGGTTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAATATCTGA
Found at i:94222584 original size:43 final size:42
Alignment explanation
Indices: 94222537--94222687 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 42
94222527 TAGCCCAGCT
* * *
94222537 ATGGTCTTACAAGAAATCACATAATGATGTCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAACGATG-CAATGTCCTAGAC
* * *
94222580 ATGGTTTTACATGTAATCACATAACGATGCTA-GTGCCTCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCAATGT-CCT-AGAC
*
94222623 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCAAGAC
1 ATGGTCTTACACGTAATCACATAACGATG-CAATGTCCTAGAC
94222666 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
94222688 CTCGATAATC
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 82 0.86
44 4 0.04
45 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATAACGATGCAATGTCCTAGAC
Found at i:94225686 original size:30 final size:30
Alignment explanation
Indices: 94225636--94225706 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
94225626 ATGCCAATGG
* *
94225636 GTGACTAATTTGTCACTTTTCGATAACTT-A
1 GTGACTATTTTGTCACTTTTC-AAAACTTAA
* * *
94225666 GTGACTATTTTGTTATTTTTCAAAAGTTAA
1 GTGACTATTTTGTCACTTTTCAAAACTTAA
94225696 GTGACTATTTT
1 GTGACTATTTT
94225707 TTCAACTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (30 bp):
GTGACTATTTTGTCACTTTTCAAAACTTAA
Found at i:94227783 original size:12 final size:12
Alignment explanation
Indices: 94227766--94227790 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94227756 AGCAAGAGGA
94227766 CGATATTTCAAC
1 CGATATTTCAAC
94227778 CGATATTTCAAC
1 CGATATTTCAAC
94227790 C
1 C
94227791 ACCGAGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CGATATTTCAAC
Found at i:94235008 original size:28 final size:28
Alignment explanation
Indices: 94234962--94235030 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
94234952 TTTAAAACCC
*
94234962 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
94234989 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
94235017 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
94235031 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:94236859 original size:19 final size:18
Alignment explanation
Indices: 94236822--94236865 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
94236812 ATACATACAG
94236822 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
94236839 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
94236858 TACTAATT
1 TAATAATT
94236866 AAAATTTTAT
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:94237728 original size:26 final size:26
Alignment explanation
Indices: 94237681--94237730 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
94237671 GGGTAGACAC
*
94237681 ACGGGCATGTGCCTAAGTCGTGTGTG
1 ACGGGCATGTGCCTAAGCCGTGTGTG
**
94237707 ACGGGCATGTGCCTTGGCCGTGTG
1 ACGGGCATGTGCCTAAGCCGTGTG
94237731 ACCCTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.12, C:0.22, G:0.40, T:0.26
Consensus pattern (26 bp):
ACGGGCATGTGCCTAAGCCGTGTGTG
Found at i:94240414 original size:49 final size:49
Alignment explanation
Indices: 94240361--94240638 Score: 402
Period size: 49 Copynumber: 5.8 Consensus size: 49
94240351 TTAGGATTTT
94240361 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
94240410 ATGTGATGAATGTGAAAGTGTGTATATATGTGAAAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
94240459 ATGTGATGAATGTGAAAGTGTGTATATATGTGATAAAGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
94240508 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * *
94240557 ATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
94240604 ACGTGATGGATGTGGAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
94240639 TCCCGAAGGG
Statistics
Matches: 211, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
47 51 0.24
48 1 0.00
49 159 0.75
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:94244844 original size:19 final size:19
Alignment explanation
Indices: 94244820--94244879 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
94244810 TGTACATACA
94244820 AAGTGTACAAATCCTTTTC
1 AAGTGTACAAATCCTTTTC
* *
94244839 AAGTGTACACA--C----A
1 AAGTGTACAAATCCTTTTC
94244852 AAGTGTACAAATCCTTTTC
1 AAGTGTACAAATCCTTTTC
94244871 AAGTGTACA
1 AAGTGTACA
94244880 CACAAAGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
13 10 0.32
15 1 0.03
17 1 0.03
19 19 0.61
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (19 bp):
AAGTGTACAAATCCTTTTC
Found at i:94245036 original size:32 final size:32
Alignment explanation
Indices: 94244735--94245019 Score: 417
Period size: 32 Copynumber: 8.9 Consensus size: 32
94244725 GTGCACATTC
* **
94244735 CCTTTTCAAATGGTACACACAAAGTGTACATTT
1 CCTTTTCAAGT-GTACACACAAAGTGTACAAAT
* * **
94244768 CCTTTTCAAGTGTACACACAAGGGGTACATTT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
* *
94244800 CTTTTTCAAGTGTACATACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
94244832 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
94244864 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
* * **
94244896 CCTTTTCAAGTGAACATACAAAGTGTACATTT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
*
94244928 CCTTTCCAAGTGTACACACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
* *
94244960 CCTTTTCAAATGTACACACAAAGTCTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACAAAT
94244992 CCTTTTCAAGTGTACACACAAAGTGTAC
1 CCTTTTCAAGTGTACACACAAAGTGTAC
94245020 GTTTCCATTT
Statistics
Matches: 227, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
32 217 0.96
33 10 0.04
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACAAAT
Found at i:94253752 original size:18 final size:18
Alignment explanation
Indices: 94253711--94253753 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
94253701 ACATTTTGGC
*
94253711 AAATTAATACAATTCACC
1 AAATTAATACAATTCACA
* * *
94253729 ATATTAATACAATTTATA
1 AAATTAATACAATTCACA
94253747 AAATTAA
1 AAATTAA
94253754 CATAGTTCAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTAATACAATTCACA
Found at i:94254116 original size:34 final size:36
Alignment explanation
Indices: 94254073--94254155 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
94254063 CTGACGCATA
*
94254073 TATATTATATAT-GAA-AAAACCATGCACCCATATT
1 TATATTATATATAGAACAAAACCATGCACACATATT
*
94254107 TATATTATATATATAACAAAACCATGCACACATATT
1 TATATTATATATAGAACAAAACCATGCACACATATT
94254143 TATATTATATATA
1 TATATTATATATA
94254156 CACCTACTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 12 0.27
35 2 0.04
36 31 0.69
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (36 bp):
TATATTATATATAGAACAAAACCATGCACACATATT
Found at i:94255631 original size:17 final size:17
Alignment explanation
Indices: 94255609--94255666 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
94255599 TCAAACATTT
*
94255609 GTTCATATAAAATAACA
1 GTTCATATAAAATAATA
* *
94255626 GTTCATATCAAATGATA
1 GTTCATATAAAATAATA
* **
94255643 GCTCATGCAAAATAATA
1 GTTCATATAAAATAATA
94255660 GTTCATA
1 GTTCATA
94255667 CTCTATCATA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (17 bp):
GTTCATATAAAATAATA
Found at i:94255682 original size:34 final size:34
Alignment explanation
Indices: 94255617--94255682 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
94255607 TTGTTCATAT
* *
94255617 AAAATAACAGTTCATATCAAATGATAGCTCATGC
1 AAAATAACAGTTCATATCAAATCATAACTCATGC
* *
94255651 AAAATAATAGTTCATACTC-TATCATAACTCAT
1 AAAATAACAGTTCATA-TCAAATCATAACTCAT
94255683 ATATTTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (34 bp):
AAAATAACAGTTCATATCAAATCATAACTCATGC
Found at i:94256714 original size:36 final size:36
Alignment explanation
Indices: 94256664--94256741 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
94256654 GCATATTTAT
* *
94256664 TATATATGAAAAAACCATGCGCCCATACTTATATTA
1 TATATATGAAAAAACCATGCACACATACTTATATTA
*
94256700 TATATAT-AACAAAACCATGCACACATATTTATATTA
1 TATATATGAA-AAAACCATGCACACATACTTATATTA
94256736 TATATA
1 TATATA
94256742 CACCTACTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (36 bp):
TATATATGAAAAAACCATGCACACATACTTATATTA
Found at i:94256883 original size:32 final size:32
Alignment explanation
Indices: 94256844--94256910 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
94256834 GTTAATACAT
94256844 AATCCACTCACACACGCAACAATTAAATTCAC
1 AATCCACTCACACACGCAACAATTAAATTCAC
*
94256876 AATCCACTCACACACGTAACAATTAAATTCAC
1 AATCCACTCACACACGCAACAATTAAATTCAC
94256908 AAT
1 AAT
94256911 TCACAAACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (32 bp):
AATCCACTCACACACGCAACAATTAAATTCAC
Found at i:94271167 original size:16 final size:15
Alignment explanation
Indices: 94271146--94271179 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
94271136 AAAACAGAAT
94271146 AAATATATATATAACA
1 AAATATATA-ATAACA
*
94271162 AAATATATAATAATA
1 AAATATATAATAACA
94271177 AAA
1 AAA
94271180 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATATAATAACA
Found at i:94271176 original size:26 final size:25
Alignment explanation
Indices: 94271114--94271202 Score: 74
Period size: 26 Copynumber: 3.5 Consensus size: 25
94271104 ACATAAATAG
94271114 TATATAAT-ATATAACATATAAAAAA
1 TATATAATAATATAA-ATATAAAAAA
* * *
94271139 -ACAGAATAAATATATATATAACAAAA
1 TATATAAT-AATATAAATATAA-AAAA
* *
94271165 TATATAATAATAAAAAATTTAAAAAA
1 TATATAATAAT-ATAAATATAAAAAA
*
94271191 TGTATAATAATA
1 TATATAATAATA
94271203 ATCTAATGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
24 5 0.10
25 7 0.14
26 26 0.52
27 12 0.24
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (25 bp):
TATATAATAATATAAATATAAAAAA
Found at i:94272552 original size:26 final size:26
Alignment explanation
Indices: 94272523--94272575 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94272513 TCAAACATGC
94272523 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
94272549 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
94272575 A
1 A
94272576 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:94274093 original size:26 final size:26
Alignment explanation
Indices: 94274062--94274169 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
94274052 TGAAATTCCC
*
94274062 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
94274088 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
94274114 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
94274140 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
94274166 ATCA
1 ATCA
94274170 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:94277166 original size:93 final size:93
Alignment explanation
Indices: 94277054--94277225 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94277044 GCCCATAAGT
* *
94277054 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94277119 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
94277147 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94277212 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
94277226 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94277221 original size:46 final size:46
Alignment explanation
Indices: 94277046--94277221 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94277036 TGTAACCCGC
* * *
94277046 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
94277092 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
94277142 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
94277185 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
94277222 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:94279643 original size:30 final size:30
Alignment explanation
Indices: 94279599--94279687 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
94279589 CAAAGATAAC
94279599 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
94279628 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
94279658 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
94279688 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:94279647 original size:15 final size:15
Alignment explanation
Indices: 94279599--94279678 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
94279589 CAAAGATAAC
*
94279599 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
94279613 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
94279628 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
94279643 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
94279658 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
94279673 AAGAAA
1 AAGAAA
94279679 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:94279687 original size:15 final size:15
Alignment explanation
Indices: 94279610--94279687 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
94279600 AGAAAACCGA
94279610 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
94279625 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
94279639 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
94279654 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
94279670 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
94279685 ATA
1 ATA
94279688 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:94282715 original size:93 final size:93
Alignment explanation
Indices: 94282603--94282773 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
94282593 GCCCATAAGT
* *
94282603 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94282668 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
94282696 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94282761 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94282774 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94282789 original size:46 final size:46
Alignment explanation
Indices: 94282595--94282775 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
94282585 TGTAACCCGC
* * *
94282595 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
94282641 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
94282691 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
94282734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
94282776 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:94286006 original size:26 final size:26
Alignment explanation
Indices: 94285968--94286024 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
94285958 CATGAAATTC
94285968 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
94285994 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
94286020 TTATC
1 TTATC
94286025 CATTTGTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:94289101 original size:22 final size:21
Alignment explanation
Indices: 94289047--94289101 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
94289037 GGTTTAATGC
94289047 TATTTTAGCATTTA-AAAATA
1 TATTTTAGCATTTATAAAATA
* **
94289067 AATTTTAG-A-TTATTTAATA
1 TATTTTAGCATTTATAAAATA
94289086 TTATTTTAGCATTTAT
1 -TATTTTAGCATTTAT
94289102 CTTATAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 3 0.11
19 5 0.19
20 14 0.52
21 1 0.04
22 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTTAGCATTTATAAAATA
Found at i:94289805 original size:21 final size:21
Alignment explanation
Indices: 94289733--94289806 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
94289723 TGGATCTTGA
* *
94289733 AAACCCGTAAACCTCGAA-CCT
1 AAACCC-TAAACATCAAATCCT
* * *
94289754 GAACACTAAACATCGAATCCT
1 AAACCCTAAACATCAAATCCT
* *
94289775 AAACCATAAATATCAAATCCT
1 AAACCCTAAACATCAAATCCT
94289796 -AACCTCTAAAC
1 AAACC-CTAAAC
94289807 CTTAAACCTC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.45, C:0.31, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACCCTAAACATCAAATCCT
Found at i:94289826 original size:35 final size:36
Alignment explanation
Indices: 94289774--94289856 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
94289764 CATCGAATCC
94289774 TAAACCAT-AAATATCAAATCCT-AACCTCTAAA-CCT
1 TAAACC-TCAAATATCAAA-CCTGAACCTCTAAACCCT
* *
94289809 TAAACCTCAAATCTCAAACCTGAACCTTTAAACCCT
1 TAAACCTCAAATATCAAACCTGAACCTCTAAACCCT
*
94289845 TCAAACTTCAAA
1 T-AAACCTCAAA
94289857 CCTTAAACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.10
35 24 0.59
36 4 0.10
37 9 0.22
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.25
Consensus pattern (36 bp):
TAAACCTCAAATATCAAACCTGAACCTCTAAACCCT
Found at i:94289869 original size:14 final size:14
Alignment explanation
Indices: 94289796--94289871 Score: 55
Period size: 14 Copynumber: 5.2 Consensus size: 14
94289786 ATCAAATCCT
*
94289796 AACCTCTAAACCTTA
1 AACCT-TAAACCTCA
* *
94289811 AACCTCAAATCTCA
1 AACCTTAAACCTCA
* *
94289825 AACC-TGAACCTTTA
1 AACCTTAAACC-TCA
*
94289839 AACCCTTCAAACTTCA
1 AA-CCTT-AAACCTCA
94289855 AACCTTAAACCTCA
1 AACCTTAAACCTCA
94289869 AAC
1 AAC
94289872 TTGAATTTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
13 3 0.07
14 24 0.52
15 11 0.24
16 5 0.11
17 3 0.07
ACGTcount: A:0.41, C:0.34, G:0.01, T:0.24
Consensus pattern (14 bp):
AACCTTAAACCTCA
Found at i:94290290 original size:18 final size:18
Alignment explanation
Indices: 94290267--94290309 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
94290257 TCTATCATCG
94290267 TTCTTTGGAAAAAAGGCT
1 TTCTTTGGAAAAAAGGCT
94290285 TTCTTTGGAAAAAAGGCT
1 TTCTTTGGAAAAAAGGCT
94290303 TTCTTTG
1 TTCTTTG
94290310 TAACACCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (18 bp):
TTCTTTGGAAAAAAGGCT
Found at i:94291931 original size:43 final size:43
Alignment explanation
Indices: 94291884--94292034 Score: 205
Period size: 43 Copynumber: 3.5 Consensus size: 43
94291874 TAGCCCAGCT
* * *
94291884 ATGGTCTTACAAGAAATCACATAACGATGTCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
* * *
94291927 ATGGTTTTACATGTAATCACATAACGATGCCAGTG-CCTCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCT-AGAC
* * *
94291970 ATGGTATTACACGTAATCACATAATGATGCCAATGTCCAAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
94292013 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
94292035 CTCGACAATC
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.03
43 90 0.95
44 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:94294742 original size:29 final size:29
Alignment explanation
Indices: 94294685--94294743 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
94294675 AAGTATAAAC
* **
94294685 ATATTGGGTCATTTATATAAAAAGTAAAA
1 ATATTGGGCCATTTATATAAAAACAAAAA
94294714 ATATTGGGCCATTTATGA-AAAAACAAAAA
1 ATATTGGGCCATTTAT-ATAAAAACAAAAA
94294743 A
1 A
94294744 GGAAGGACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.29
Consensus pattern (29 bp):
ATATTGGGCCATTTATATAAAAACAAAAA
Found at i:94296124 original size:21 final size:20
Alignment explanation
Indices: 94296087--94296128 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
94296077 TGCCCAAGGA
*
94296087 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
94296108 AAGCCGGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
94296128 A
1 A
94296129 CTGAAGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:94303071 original size:29 final size:29
Alignment explanation
Indices: 94303037--94303197 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
94303027 TACTCGATTT
** * *
94303037 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* * *** * *
94303066 CGCACACATAGTGTCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
94303095 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
94303124 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
94303153 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
94303182 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
94303198 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 112 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:94308981 original size:32 final size:32
Alignment explanation
Indices: 94308910--94309121 Score: 235
Period size: 32 Copynumber: 6.6 Consensus size: 32
94308900 CCTGAGGTGC
* * * *
94308910 ACATTCCCTTTTCAAATGATGCACATAAAGTGT
1 ACATTTCCTTTTCAAGTG-TACACACAAAGTGT
* * *
94308943 ACATTTCCTTTTCAAGTGCACACACAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
94308975 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * * *
94309007 ACAAATCCTTTTCAAGTGTATATACAATGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** **
94309039 ATGTTTCCTTTTCAAGTGTACACACAAAGACT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
94309071 ACAAATCCTTTTCAAGTGTACACAAAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
94309103 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
94309122 CACCCCTTCG
Statistics
Matches: 145, Mismatches: 34, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
32 129 0.89
33 16 0.11
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:94309047 original size:96 final size:96
Alignment explanation
Indices: 94308946--94309121 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
94308936 AAAGTGTACA
* ** ** *
94308946 TTTCCTTTTCAAGTGCACACACAAGGGGTACATTTCCTTTTCAAGTGTACACACAAAGTGTACAA
1 TTTCCTTTTCAAGTGCACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACAA
94309011 ATCCTTTTCAAGTGTATATACAATGTGTATG
66 ATCCTTTTCAAGTGTATATACAATGTGTATG
* **
94309042 TTTCCTTTTCAAGTGTACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACGT
1 TTTCCTTTTCAAGTGCACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACAA
*
94309107 TTCCTTTTCAAGTGT
66 ATCCTTTTCAAGTGT
94309122 CACCCCTTCG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (96 bp):
TTTCCTTTTCAAGTGCACACACAAAGACTACAAATCCTTTTCAAGTGTACACAAAAAGTGTACAA
ATCCTTTTCAAGTGTATATACAATGTGTATG
Found at i:94323573 original size:2 final size:2
Alignment explanation
Indices: 94323566--94323606 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94323556 AATAGTTGTG
94323566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94323607 ATCACAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94324529 original size:24 final size:24
Alignment explanation
Indices: 94324497--94324542 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
94324487 TCGCTATAGA
*
94324497 TTGAGCATTAGCGGCGTTTTTCGC
1 TTGAGCATTAGCGGCGCTTTTCGC
94324521 TTGAGCATTAGCGGCGCTTTTC
1 TTGAGCATTAGCGGCGCTTTTC
94324543 AAAAAGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (24 bp):
TTGAGCATTAGCGGCGCTTTTCGC
Found at i:94327630 original size:20 final size:21
Alignment explanation
Indices: 94327605--94327646 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
94327595 ACTTCAAACC
94327605 TTAAACCTCAAA-CTTGAATT
1 TTAAACCTCAAATCTTGAATT
*
94327625 TTAAACCTCAAATCTTTAATT
1 TTAAACCTCAAATCTTGAATT
94327646 T
1 T
94327647 AGGGTTCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAACCTCAAATCTTGAATT
Found at i:94328796 original size:26 final size:26
Alignment explanation
Indices: 94328767--94328876 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
94328757 TGGTACAAAT
94328767 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
94328793 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
94328819 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
94328845 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
94328871 TGATAA
1 TGATAA
94328877 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:94330538 original size:27 final size:27
Alignment explanation
Indices: 94330497--94330636 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
94330487 GAGGAAGCGT
*
94330497 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
94330524 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94330551 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94330578 TCTGGTGGCTCTGCCACGACTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
94330606 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
94330632 TCTGG
1 TCTGG
94330637 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94330582 original size:54 final size:55
Alignment explanation
Indices: 94330497--94330636 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
94330487 GAGGAAGCGT
* * *
94330497 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
94330551 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGACTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
94330606 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
94330637 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:94333163 original size:24 final size:24
Alignment explanation
Indices: 94333131--94333176 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
94333121 TCGCTATAGA
*
94333131 TTGAGCATTAGCGGCGTTTTTCGC
1 TTGAGCATTAGCGGCGCTTTTCGC
94333155 TTGAGCATTAGCGGCGCTTTTC
1 TTGAGCATTAGCGGCGCTTTTC
94333177 AAAAAGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (24 bp):
TTGAGCATTAGCGGCGCTTTTCGC
Found at i:94336268 original size:20 final size:21
Alignment explanation
Indices: 94336243--94336281 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
94336233 TCAAACCTTA
94336243 AACCTCAAA-CTTGAATTTTG
1 AACCTCAAATCTTGAATTTTG
94336263 AACCTCAAATCTTGAATTT
1 AACCTCAAATCTTGAATTT
94336282 AGGGTTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (21 bp):
AACCTCAAATCTTGAATTTTG
Found at i:94338379 original size:42 final size:41
Alignment explanation
Indices: 94338307--94338411 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
94338297 CGTTTTAAGA
*
94338307 AAAACGCCGCTAAAAA-CAAAGCAACAGCGGCACTTTTTACT
1 AAAACGCCGCTAAAAACCAAAGCAACAGCGGCAC-TTTGACT
* ** * **
94338348 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGGT
1 AAAACGCCGCTAAAAACCAAAGCAACAGCGGCACTTTGACT
94338389 AAAACGCCGCTAAAAACCAAAGC
1 AAAACGCCGCTAAAAACCAAAGC
94338412 CGTATGTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 42 0.76
42 13 0.24
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAAAGCAACAGCGGCACTTTGACT
Found at i:94340375 original size:21 final size:21
Alignment explanation
Indices: 94340349--94340396 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
94340339 TCAACTTAGA
94340349 GCGGAGGCAACAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
*
94340370 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
*
94340391 GTGGAG
1 GCGGAG
94340397 CAGAACAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.56, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAACAGCGAGGGAG
Found at i:94340795 original size:42 final size:43
Alignment explanation
Indices: 94340695--94340843 Score: 230
Period size: 43 Copynumber: 3.5 Consensus size: 43
94340685 ACTGGGCAAA
94340695 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGT-T
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
*
94340737 TCTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGATCT
1 T-TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
94340781 TTAGCGGCG-TTTTTATAATAGAGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
*
94340823 TTAGCGGCATTTTTTAAAAAA
1 TTAGCGGCGTTTTTTAAAAAA
94340844 AATGCCGCTA
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
42 38 0.40
43 56 0.58
44 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:94341067 original size:43 final size:42
Alignment explanation
Indices: 94340996--94341189 Score: 210
Period size: 43 Copynumber: 4.5 Consensus size: 42
94340986 TATCCCAGAT
** * *
94340996 ATGGTCTTACATGTTTTCACTTATCGATGCCAATAGCCTA-AC
1 ATGGTCTTACATGTAATCACATAACGATGCCAAT-GCCTAGAC
* * * * *
94341038 TATGGTCTCACAGGAAATCACAAAACGATGTCAATGTCCTAGAC
1 -ATGGTCTTACATGTAATCACATAACGATGCCAATG-CCTAGAC
*
94341082 ATGGTCTTACATGTAATCACATAACGATGCCAGTGCCTCAGAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGCCT-AGAC
*
94341125 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCTAAGAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGCCT-AGAC
* * *
94341168 ATGGTCTTGCACGTGATCACAT
1 ATGGTCTTACATGTAATCACAT
94341190 CTCGATAATC
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.03
43 121 0.95
44 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGCCTAGAC
Found at i:94355593 original size:18 final size:18
Alignment explanation
Indices: 94355564--94355657 Score: 147
Period size: 18 Copynumber: 5.3 Consensus size: 18
94355554 ATAATATTCA
94355564 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
94355583 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
94355601 ATGATT-CAATCTTAGAT
1 ATGATTGCAATCTTAGAT
* *
94355618 ATGA-TACAATCGTAGAT
1 ATGATTGCAATCTTAGAT
94355635 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
94355653 ATGAT
1 ATGAT
94355658 ATATAATCTT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
16 1 0.01
17 29 0.41
18 35 0.50
19 5 0.07
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:94355658 original size:35 final size:35
Alignment explanation
Indices: 94355564--94355658 Score: 147
Period size: 35 Copynumber: 2.7 Consensus size: 35
94355554 ATAATATTCA
* *
94355564 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGA-TACAATCGTAGAT
94355601 ATGATT-CAATCTTAGATATGATACAATCGTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCGTAGAT
94355635 ATGATTGCAATCTTAGATATGATA
1 ATGATTGCAATCTTAGATATGATA
94355659 TATAATCTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 17 0.31
35 32 0.58
36 1 0.02
37 5 0.09
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCGTAGAT
Found at i:94361293 original size:40 final size:40
Alignment explanation
Indices: 94361221--94361446 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
94361211 GCTACTCGTT
* * *
94361221 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
94361261 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* *
94361301 CCAATGCCTTCGGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
*
94361341 CCAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * *
94361381 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
94361422 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
94361447 CATCATTCGA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 13 0.08
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:94364835 original size:8 final size:8
Alignment explanation
Indices: 94364818--94364857 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
94364808 CTATTTCAAA
94364818 AAAAAAAG
1 AAAAAAAG
*
94364826 AAAAAGAG
1 AAAAAAAG
94364834 AAATAAAAG
1 AAA-AAAAG
*
94364843 AAAAAGAG
1 AAAAAAAG
94364851 AAAAAAA
1 AAAAAAA
94364858 AATGGAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:94364858 original size:17 final size:17
Alignment explanation
Indices: 94364817--94364858 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
94364807 TCTATTTCAA
94364817 AAAAAAAAGAAAAAGAG
1 AAAAAAAAGAAAAAGAG
*
94364834 AAATAAAAGAAAAAGAG
1 AAAAAAAAGAAAAAGAG
94364851 AAAAAAAA
1 AAAAAAAA
94364859 ATGGAGAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAG
Found at i:94366039 original size:43 final size:41
Alignment explanation
Indices: 94365984--94366126 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 41
94365974 CACCTTAACC
94365984 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCTAAAATT-C-GATCTTATCT
* * * * *
94366027 CCCTAAGCAGTAGCGGAATAGATCA-ACGACAACTCG-CCTTAATC-
1 CCCTAAGCAGTAG-GG--TA-A-CAGGCTAAAATTCGATCTT-ATCT
94366071 CCCTAAGCAGTAGGGTAACAGG-TCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCT-AAAATT-C-GATCTTATCT
94366114 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
94366127 TGGAGCAGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
39 2 0.03
40 5 0.06
41 3 0.04
42 4 0.05
43 31 0.40
44 18 0.23
45 4 0.05
46 3 0.04
47 6 0.08
48 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAAATTCGATCTTATCT
Found at i:94366050 original size:87 final size:83
Alignment explanation
Indices: 94365808--94366177 Score: 448
Period size: 87 Copynumber: 4.4 Consensus size: 83
94365798 CAAAATTCAA
* * * *
94365808 CGCCTTAATCCCCTAA-AAGGTAGGGTAACAGGTTAAATTTTCAGATCTTATCTCCCTAAGTAGT
1 CGCCTTAATCCCCTAAGCA-GTAGGGTAACAGG-TAAAATTGCAGATCTTATCTCCCTAAGCAGT
*
94365872 AGTGGAGCAGATCGAAGACT
64 AGCGGAGCAGATCGAAGACT
*
94365892 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT----TCGCAGATCTTATCTCCCTAAGCAGTAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
94365953 CGGAGCAGATCGACGACGACT
66 CGGAGCAGATCGA--A-GACT
* * *
94365974 CACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TAAAATTGCAGATCTTATCTCCCTAAGCAGTA
**
94366039 GCGGAATAGATC-AACGACAACT
65 GCGGAGCAGATCGAA-G---ACT
*
94366061 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT-AAAATTGCAGATCTTATCTCCCTAAGCAGTA
*
94366126 GTGGAGCAGATCGAAGA-T
65 GCGGAGCAGATCGAAGACT
* *
94366144 GCGCCTTAACCCCCTAAGCAGTAAGGTAACAGGT
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
94366178 TAAAGTATAG
Statistics
Matches: 251, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
79 37 0.15
81 1 0.00
82 34 0.14
83 3 0.01
84 64 0.25
85 1 0.00
86 2 0.01
87 107 0.43
88 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (83 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
CGGAGCAGATCGAAGACT
Found at i:94366665 original size:207 final size:207
Alignment explanation
Indices: 94366310--94367225 Score: 1487
Period size: 207 Copynumber: 4.4 Consensus size: 207
94366300 GAGCAGATCG
** * * *
94366310 AAGACATAGCTGATTTGGCTTTCACGTACTTATGATGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
94366375 TGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGTAGGGCAGACACATAGCA
66 TATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* *
94366440 GATCTGGCCTTCAGATGTTTATATTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
94366505 AGGAACAAATCA
196 AGGAACAAATCA
*
94366517 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAAATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
94366582 TATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
94366647 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
94366712 AGGAACAAATCA
196 AGGAACAAATCA
* *
94366724 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGTTGATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
*
94366789 TGA-ATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGG
66 T-ATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGC
94366853 AGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
130 AGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
*
94366918 AAGGAACAAATCG
195 AAGGAACAAATCA
*
94366931 AAGACATAGCTGATTTGGCTTTCACGTGTATACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
94366996 TATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGAAGGACAGACATATAGCA
66 TATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
** * * *
94367061 GATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGG-TTGGTATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
* *
94367124 AGGAGCAAATCG
196 AGGAACAAATCA
* * * * *
94367136 AAGACATAACTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTATGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * *
94367201 TGTATTGTTAGGGAACAAATTGAAG
66 TATATTGTCAGAGAACAAATCGAAG
94367226 AAGCAGATTT
Statistics
Matches: 668, Mismatches: 39, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
205 110 0.16
206 14 0.02
207 543 0.81
208 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCA
Found at i:94367631 original size:18 final size:18
Alignment explanation
Indices: 94367608--94367670 Score: 92
Period size: 17 Copynumber: 3.5 Consensus size: 18
94367598 ATTGATATGT
*
94367608 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
94367626 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
94367643 AATCTTAGATATGATATAT
1 AATCTTAGATATGAT-TAC
94367662 AATCTTAGA
1 AATCTTAGA
94367671 AGATATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.39
18 14 0.34
19 11 0.27
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:94368711 original size:32 final size:32
Alignment explanation
Indices: 94368644--94368855 Score: 262
Period size: 32 Copynumber: 6.6 Consensus size: 32
94368634 CTCGAGGTGC
* * *
94368644 ACATTCCCTTTTCAAATGGTACACATAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
94368677 ACATTTCCTTTTCAAGTGTACACACAAGGAGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
94368709 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * * *
94368741 ACAAATCCTTTTCAAGTGTATATACAATGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
94368773 ATGTTTCCTTTTCAAGTGTACACACAAAGTCT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* **
94368805 AGAAATCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
94368837 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
94368856 CACCCTTTCA
Statistics
Matches: 150, Mismatches: 29, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
32 135 0.90
33 15 0.10
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:94379816 original size:43 final size:43
Alignment explanation
Indices: 94379764--94379905 Score: 248
Period size: 43 Copynumber: 3.3 Consensus size: 43
94379754 TTTTAGAAAA
94379764 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
*
94379807 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* * *
94379850 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
94379893 AAACGCCGCTAAA
1 AAACGCCGCTAAA
94379906 AATAATGATC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
Found at i:94380256 original size:17 final size:18
Alignment explanation
Indices: 94380229--94380262 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
94380219 ATGCCAAAAT
94380229 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
94380247 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
94380263 CCCACAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:94384488 original size:18 final size:18
Alignment explanation
Indices: 94384465--94384508 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
94384455 AGGGATTTTG
* *
94384465 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
94384482 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
94384501 GGGGAAAT
1 GGGGAAAT
94384509 CAATTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:94385980 original size:44 final size:44
Alignment explanation
Indices: 94385893--94385991 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
94385883 TGCTAATTAA
* * *
94385893 TCTAAACCCTAAACCTCTTAACCCCTATCCCATAAACACTAAAC
1 TCTAAACCCTAAACCCCTTAACCCCAAACCCATAAACACTAAAC
* * *
94385937 TCTAAACCCTTAACCCCTTAACCCCAAACCCTTACAC-CTTAAAC
1 TCTAAACCCTAAACCCCTTAACCCCAAACCCATAAACAC-TAAAC
94385981 TCT-AACCCTAA
1 TCTAAACCCTAA
94385992 CTATTAAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 8 0.17
44 39 0.83
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.23
Consensus pattern (44 bp):
TCTAAACCCTAAACCCCTTAACCCCAAACCCATAAACACTAAAC
Found at i:94386093 original size:21 final size:21
Alignment explanation
Indices: 94386069--94386153 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
94386059 ACTCTTAAAC
* *
94386069 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
* *
94386090 CTTAAACCATAGTTAACACATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
94386115 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
94386136 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
94386154 AACTATAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 32 0.62
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:94386105 original size:46 final size:46
Alignment explanation
Indices: 94386053--94386146 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
94386043 CTTCAAATAC
* * *
94386053 TAGTTAACTCTTAAACCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACACATAAACCTTAAACCCTAAACCATATATCTTAAACCA
94386099 TAGTTAACACATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACACATAAACCTTAAACCCTAAACCATATATCTTAAACCA
94386145 TA
1 TA
94386147 AACCATAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACACATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:94386122 original size:7 final size:7
Alignment explanation
Indices: 94386108--94386161 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
94386098 ATAGTTAACA
94386108 CATAAAC
1 CATAAAC
*
94386115 CTTAAAC
1 CATAAAC
*
94386122 CCTAAAC
1 CATAAAC
* *
94386129 CATATAT
1 CATAAAC
*
94386136 CTTAAAC
1 CATAAAC
94386143 CATAAAC
1 CATAAAC
94386150 CATAAAC
1 CATAAAC
*
94386157 TATAA
1 CATAA
94386162 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:94386412 original size:82 final size:81
Alignment explanation
Indices: 94386318--94386517 Score: 276
Period size: 82 Copynumber: 2.4 Consensus size: 81
94386308 GTTATATGAC
* *
94386318 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGTGTTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTTCCAAAAGC
*
94386383 GCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCT-AT
* * *
94386400 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAGAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTTCCAAAAGC
94386465 GCCGCTAATGCTCTAT
66 GCCGCTAATGCTCTAT
** * *
94386481 TTTTTCCGGCGTTTTTTACTAAAA-CGCCGCTATTGCT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCT
94386518 ATGTGTTTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 10 0.10
82 86 0.82
83 9 0.09
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTTCCAAAAGC
GCCGCTAATGCTCTAT
Found at i:94386512 original size:41 final size:41
Alignment explanation
Indices: 94386318--94386496 Score: 270
Period size: 41 Copynumber: 4.4 Consensus size: 41
94386308 GTTATATGAC
* *
94386318 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGAT
* *
94386359 TTTTAGCGGTGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGAT
* *
94386400 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGAT
*
94386441 TTTTAGCGGCGTTTTTCCAGAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGAT
**
94386481 TTTTTCCGGCGTTTTT
1 TTTTAGCGGCGTTTTT
94386497 TACTAAAACG
Statistics
Matches: 127, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 15 0.12
41 112 0.88
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGAT
Found at i:94386566 original size:12 final size:12
Alignment explanation
Indices: 94386551--94386576 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94386541 GTTTTTTGAT
94386551 AAAACGCCGCTA
1 AAAACGCCGCTA
94386563 AAAACGCCGCTA
1 AAAACGCCGCTA
94386575 AA
1 AA
94386577 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:94387482 original size:21 final size:21
Alignment explanation
Indices: 94387443--94387482 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94387433 TGTTGAAACC
* *
94387443 TGTTGAAGAAAAAGGAGGGTA
1 TGTTAAAGAAAAAGAAGGGTA
*
94387464 TGTTAAAGAAAAATAAGGG
1 TGTTAAAGAAAAAGAAGGG
94387483 GATGGAGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (21 bp):
TGTTAAAGAAAAAGAAGGGTA
Found at i:94390845 original size:24 final size:20
Alignment explanation
Indices: 94390802--94390841 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
94390792 GAAATCACGC
94390802 GTCAATTAATTTTATGAAAA
1 GTCAATTAATTTTATGAAAA
94390822 GTCAATTAATTTTATGAAAA
1 GTCAATTAATTTTATGAAAA
94390842 AAAAAAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
GTCAATTAATTTTATGAAAA
Found at i:94401121 original size:23 final size:22
Alignment explanation
Indices: 94401086--94401129 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
94401076 CATACATTTT
94401086 AAAAATCGAATTAGAAGATTATA
1 AAAAATCGAATTA-AAGATTATA
* * *
94401109 AAAAATGGCATTAAAGCTTAT
1 AAAAATCGAATTAAAGATTAT
94401130 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (22 bp):
AAAAATCGAATTAAAGATTATA
Found at i:94406944 original size:26 final size:25
Alignment explanation
Indices: 94406915--94406984 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
94406905 TGAGCTTTCC
*
94406915 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTCAAC-AA
* *
94406941 AATGTGTAAGCTGCAAGCTTAACAA
1 AATGTGCAAGCTGCAAGCTCAACAA
*
94406966 GATGT-CAAAGCTGCAAGCT
1 AATGTGC-AAGCTGCAAGCT
94406985 TAGCGAGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (25 bp):
AATGTGCAAGCTGCAAGCTCAACAA
Found at i:94415535 original size:16 final size:16
Alignment explanation
Indices: 94415502--94415535 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94415492 GGGCATTGTT
* *
94415502 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
94415518 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
94415534 AA
1 AA
94415536 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:94418355 original size:21 final size:21
Alignment explanation
Indices: 94418329--94418369 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94418319 AAACAAGCGA
* *
94418329 TACTCCATAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
94418350 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
94418370 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:94420312 original size:16 final size:16
Alignment explanation
Indices: 94420279--94420312 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94420269 GGAGATTTTT
* *
94420279 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
94420295 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
94420311 AA
1 AA
94420313 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:94422042 original size:17 final size:18
Alignment explanation
Indices: 94422006--94422044 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
94421996 CAATTTCTAA
94422006 ATTTAATTATGATAATTT
1 ATTTAATTATGATAATTT
* *
94422024 ATTTATTTAT-ATGATTT
1 ATTTAATTATGATAATTT
94422041 ATTT
1 ATTT
94422045 TTTGAGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATTTAATTATGATAATTT
Found at i:94424445 original size:23 final size:23
Alignment explanation
Indices: 94424418--94424477 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
94424408 TACCGACCAG
94424418 GCACTTTATGTGTCGTATATCAA
1 GCACTTTATGTGTCGTATATCAA
* *
94424441 GCACTTTATGTGTCGTATTTCAG
1 GCACTTTATGTGTCGTATATCAA
* *
94424464 GCACCTCATGTGTC
1 GCACTTTATGTGTC
94424478 AAACTAGGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATATCAA
Found at i:94424509 original size:21 final size:21
Alignment explanation
Indices: 94424425--94424539 Score: 81
Period size: 21 Copynumber: 5.3 Consensus size: 21
94424415 CAGGCACTTT
* *
94424425 ATGTGTCGTATATCAAGCACTTT
1 ATGTGTC--ATATCAAGCACCTC
* *
94424448 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTC--ATATCAAGCACCTC
* *
94424471 ATGTGTCA-AACTAGGCACCTC
1 ATGTGTCATATC-AAGCACCTC
94424492 ATGTGTCATATCAAGCACCTC
1 ATGTGTCATATCAAGCACCTC
* * * *
94424513 GTGTGTCATTTCATGCA-CTT
1 ATGTGTCATATCAAGCACCTC
94424533 ATGTGTC
1 ATGTGTC
94424540 GTATACTGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
20 9 0.12
21 40 0.52
22 2 0.03
23 26 0.34
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
ATGTGTCATATCAAGCACCTC
Found at i:94424734 original size:12 final size:12
Alignment explanation
Indices: 94424705--94424748 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
94424695 ATATGAGAAA
*
94424705 ATTGAAATTGGGG
1 ATTGAAATT-GAG
94424718 ATTGAAATTGAG
1 ATTGAAATTGAG
*
94424730 ATTGAGATTGAG
1 ATTGAAATTGAG
*
94424742 AATGAAA
1 ATTGAAA
94424749 GCCATGAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (12 bp):
ATTGAAATTGAG
Found at i:94427047 original size:21 final size:21
Alignment explanation
Indices: 94427018--94427065 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
94427008 TTCTCTGATT
* *
94427018 AGTGTCAACATCGGAACAAGC
1 AGTGACAACATCAGAACAAGC
94427039 AGTGACAACATCAGAACAAGC
1 AGTGACAACATCAGAACAAGC
*
94427060 AATGAC
1 AGTGAC
94427066 GACACAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.12
Consensus pattern (21 bp):
AGTGACAACATCAGAACAAGC
Found at i:94427296 original size:22 final size:22
Alignment explanation
Indices: 94427271--94427313 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
94427261 TTGAAATAAG
94427271 AAAGAATAAAAA-AAAGGGAAAA
1 AAAGAA-AAAAAGAAAGGGAAAA
*
94427293 AAAGAAAAAAAGAAAGTGAAA
1 AAAGAAAAAAAGAAAGGGAAA
94427314 TAGAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (22 bp):
AAAGAAAAAAAGAAAGGGAAAA
Found at i:94436210 original size:14 final size:13
Alignment explanation
Indices: 94436193--94436226 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
94436183 GTCAACTATT
94436193 TAAAATTTAAACAA
1 TAAAATTTAAA-AA
94436207 TAAAATTTAAAAA
1 TAAAATTTAAAAA
94436220 -AAAATTT
1 TAAAATTT
94436227 GGCAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 2 0.10
14 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATTTAAAAA
Found at i:94438400 original size:16 final size:14
Alignment explanation
Indices: 94438361--94438409 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 14
94438351 TTTTAAAAAT
94438361 ATTTATATTATTTTA
1 ATTTATA-TATTTTA
94438376 ATTTA-ATATTTATA
1 ATTTATATATTT-TA
94438390 ATTTTATATATTTT-
1 A-TTTATATATTTTA
94438404 ATTTAT
1 ATTTAT
94438410 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.32
14 5 0.16
15 10 0.32
16 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTTA
Found at i:94442088 original size:21 final size:21
Alignment explanation
Indices: 94442064--94442122 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
94442054 AGCCAAATCC
*
94442064 CACACGGGCTGGCCACATGCT
1 CACACGGGCTGGCCACACGCT
* *
94442085 CACACTGGCTAGCCACACGCT
1 CACACGGGCTGGCCACACGCT
* *
94442106 CACATGAGCTGGCCACA
1 CACACGGGCTGGCCACA
94442123 AGCCCATGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.14
Consensus pattern (21 bp):
CACACGGGCTGGCCACACGCT
Found at i:94446229 original size:30 final size:30
Alignment explanation
Indices: 94446195--94446254 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
94446185 TTACACAGCT
* *
94446195 TGGCGACATGGCCGTGTAACCCACATGGCC
1 TGGCGACATAGCCGTGTAACCCACACGGCC
* *
94446225 TGGCGACATAGCTGTGTAACCTACACGGCC
1 TGGCGACATAGCCGTGTAACCCACACGGCC
94446255 CTTGGACACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (30 bp):
TGGCGACATAGCCGTGTAACCCACACGGCC
Found at i:94447199 original size:3 final size:3
Alignment explanation
Indices: 94447184--94447238 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
94447174 AATTTCCTTA
* *
94447184 ATT ATT ATA ATT ATT ATT AGT ATT ATT ATT ATT ATT ATT -TCT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
94447228 ATT ATT -TT ATT
1 ATT ATT ATT ATT
94447239 TTACTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:94456141 original size:23 final size:23
Alignment explanation
Indices: 94456114--94456219 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 23
94456104 CTTTGTCGAC
* *
94456114 CAGGCACTTTATGTGTCGTATTT
1 CAGGCACCTCATGTGTCGTATTT
* *
94456137 CAGGCACCTCATGTGTCATA-CT
1 CAGGCACCTCATGTGTCGTATTT
*
94456159 -AGGCACCTCATGTGTC--ATAT
1 CAGGCACCTCATGTGTCGTATTT
**
94456179 CAGGCACCTTGTGTGTCG--TTT
1 CAGGCACCTCATGTGTCGTATTT
* *
94456200 CATGCA-CTAATGTGTCGTAT
1 CAGGCACCTCATGTGTCGTAT
94456220 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.01
20 10 0.15
21 37 0.55
22 2 0.03
23 17 0.25
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (23 bp):
CAGGCACCTCATGTGTCGTATTT
Found at i:94456195 original size:21 final size:21
Alignment explanation
Indices: 94456136--94456187 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
94456126 GTGTCGTATT
94456136 TCAGGCACCTCATGTGTCATA
1 TCAGGCACCTCATGTGTCATA
94456157 -CTAGGCACCTCATGTGTCATA
1 TC-AGGCACCTCATGTGTCATA
94456178 TCAGGCACCT
1 TCAGGCACCT
94456188 TGTGTGTCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (21 bp):
TCAGGCACCTCATGTGTCATA
Found at i:94458724 original size:21 final size:21
Alignment explanation
Indices: 94458695--94458742 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
94458685 TTCTCTGATT
* *
94458695 AGTGTCAACATCGGAACAAGC
1 AGTGACAACATCAGAACAAGC
94458716 AGTGACAACATCAGAACAAGC
1 AGTGACAACATCAGAACAAGC
*
94458737 AATGAC
1 AGTGAC
94458743 GACACAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.12
Consensus pattern (21 bp):
AGTGACAACATCAGAACAAGC
Found at i:94458974 original size:22 final size:22
Alignment explanation
Indices: 94458922--94458991 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 22
94458912 GCATAGGAAG
* *
94458922 AAAAGAAAGAAATAAAATTGAAATA
1 AAAAGAAA-AAAAAAAAGTG-AA-A
94458947 AGAAAGAATAAAAAAAAAG-GAAA
1 A-AAAGAA-AAAAAAAAAGTGAAA
*
94458970 AAAAGAAAAAAAGAAAGTGAAA
1 AAAAGAAAAAAAAAAAGTGAAA
94458992 TAGAAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 9 0.23
22 10 0.26
23 2 0.05
24 2 0.05
25 2 0.05
26 13 0.33
27 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAGAAAAAAAAAAAGTGAAA
Found at i:94465198 original size:6 final size:7
Alignment explanation
Indices: 94465177--94465202 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94465167 AAGACTAGAA
94465177 TTTATTT
1 TTTATTT
94465184 TTTATTT
1 TTTATTT
94465191 TTTATTT
1 TTTATTT
94465198 TTTAT
1 TTTAT
94465203 CAAAGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:94466755 original size:14 final size:14
Alignment explanation
Indices: 94466706--94466755 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
94466696 TTTTTAAAAT
94466706 ATTTATATTATTTTA
1 ATTTATA-TATTTTA
94466721 ATTTA-ATATTTATA
1 ATTTATATATTT-TA
*
94466735 ATTTTATATATTTTT
1 A-TTTATATATTTTA
94466750 ATTTAT
1 ATTTAT
94466756 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.16
14 9 0.29
15 11 0.35
16 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTATATATTTTA
Found at i:94466939 original size:2 final size:2
Alignment explanation
Indices: 94466932--94467071 Score: 262
Period size: 2 Copynumber: 70.0 Consensus size: 2
94466922 GTCTAAGTTT
94466932 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
94466974 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
94467016 AG AG AG AG AG GG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
94467058 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
94467072 GAGGTTAAGG
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 134 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:94468326 original size:30 final size:29
Alignment explanation
Indices: 94468292--94468351 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
94468282 TTTCTAATCT
94468292 TTTTA-AAAATAAACAAATATTTAAACATAA
1 TTTTAGAAAATAAA-AAA-ATTTAAACATAA
**
94468322 TTTTAGTTGAATAAAAAAATTTAAACATAA
1 TTTTAG-AAAATAAAAAAATTTAAACATAA
94468352 GTATTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 17 0.65
31 3 0.12
32 6 0.23
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (29 bp):
TTTTAGAAAATAAAAAAATTTAAACATAA
Found at i:94470698 original size:30 final size:30
Alignment explanation
Indices: 94470637--94470698 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
94470627 GGGATGGGAG
* * * **
94470637 GGAGTAAAAGTTTTGGGGGAAAAGTGGAAA
1 GGAGTAAAAATTTTGAGAGAAAAGTAAAAA
94470667 GGAGTAAAAATTTTGAGAGAAAAGTAAAAA
1 GGAGTAAAAATTTTGAGAGAAAAGTAAAAA
94470697 GG
1 GG
94470699 TTTGGGAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAATTTTGAGAGAAAAGTAAAAA
Done.