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 79 of 349
Found at i:23426748 original size:27 final size:26
Alignment explanation
Indices: 23426658--23426751 Score: 82
Period size: 26 Copynumber: 3.5 Consensus size: 26
23426648 GCTCAGGTAT
* * *
23426658 CAGATATTATGACAGAGTCACCA-ATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
23426684 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * *
23426710 CAAATATTTGTGGCATAGCCATCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
*
23426738 CAGATAATGTGGCA
1 CAGATATTGTGGCA
23426752 ATGCCACTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 25 0.45
27 23 0.42
28 7 0.13
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:23427464 original size:27 final size:27
Alignment explanation
Indices: 23427407--23427852 Score: 493
Period size: 27 Copynumber: 16.3 Consensus size: 27
23427397 GGGGCAAAAT
* * * *
23427407 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23427433 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23427460 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23427487 GATAATTCTACCCTACAGGCGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23427514 GATAATTCTACCCTACAGGGGTATTTTC
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
23427542 -GTAATTCTACCCTATAGGAGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
23427568 GGTAATTCTACCCTACTACCCTACAGGGGTATTTC
1 GGTAA---T----T-CTACCCTACAGGGGTATTTC
* * * *
23427603 AGCAATTCTACCTTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
23427630 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23427657 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23427684 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23427711 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23427738 GGTAATTTTACTCTATAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
* *
23427765 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23427792 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23427819 GGTATTTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23427846 GGTAATT
1 GGTAATT
23427853 TTGTAAATCG
Statistics
Matches: 353, Mismatches: 54, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
26 18 0.05
27 307 0.87
28 5 0.01
30 1 0.00
32 1 0.00
34 1 0.00
35 20 0.06
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23427600 original size:35 final size:35
Alignment explanation
Indices: 23427548--23427645 Score: 95
Period size: 35 Copynumber: 3.0 Consensus size: 35
23427538 TTTCGTAATT
* *
23427548 CTACCCTATAGGAGTATTCCGGTAATTCTACCCTA
1 CTACCCTACAGGGGTATTCCGGTAATTCTACCCTA
* * *
23427583 CTACCCTACAGGGGTATTTCAGCAATTCTA--C--
1 CTACCCTACAGGGGTATTCCGGTAATTCTACCCTA
23427614 CT----TACAGGGGTATTCCGGTAATTCTACCCTA
1 CTACCCTACAGGGGTATTCCGGTAATTCTACCCTA
23427645 C
1 C
23427646 AGGGGTATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
27 21 0.41
29 1 0.02
31 3 0.06
33 1 0.02
35 25 0.49
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (35 bp):
CTACCCTACAGGGGTATTCCGGTAATTCTACCCTA
Found at i:23427903 original size:27 final size:27
Alignment explanation
Indices: 23427873--23428230 Score: 359
Period size: 27 Copynumber: 13.3 Consensus size: 27
23427863 AGGATAAAAC
* *
23427873 GGTAATTTTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
23427900 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
** * * *
23427927 AATAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
23427954 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
23427981 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
*
23428008 GATAATTTTACAAATC-AGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
23428034 GGTAATTTTACAAA-CTAAGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* *
23428061 GGTAATTTTATAAA-CAAATGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* *
23428088 AGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
**
23428115 GGTAATTTTGTAAA-CTAAGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* * *
23428142 GGTAATTTCACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
23428169 GGTAATTTTTCTAATCGAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
23428196 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
23428223 GGTAATTT
1 GGTAATTT
23428231 GGTAAACTAA
Statistics
Matches: 279, Mismatches: 47, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
25 1 0.00
26 23 0.08
27 253 0.91
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTAATTTTACAAATCAAGGGTATTTT
Found at i:23427922 original size:81 final size:81
Alignment explanation
Indices: 23427837--23428023 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
23427827 TACCCTACAT
** ** * * *
23427837 GGGTATTTCGGTAATTTTGTAAATCGAGGATAAAACGGTAATTTTATAAATCAAGGGTACTTTGG
1 GGGTATTTCAATAATTTTACAAATCGAGGATAAAACAGTAATTTCACAAATCAAGGGTACTTTGG
23427902 TAATTTTACAAGTCGA
66 TAATTTTACAAGTCGA
* * *** * *
23427918 GGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTCAATAATTTTACAAATCGAGGATAAAACAGTAATTTCACAAATCAAGGGTACTTTGG
* *
23427983 TAATTTTACAA-ACTA
66 TAATTTTACAAGTCGA
**
23427998 GGGGTATTTTGATAATTTTACAAATC
1 -GGGTATTTCAATAATTTTACAAATC
23428024 AGGGTATTTT
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 2 0.02
81 84 0.98
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAATAATTTTACAAATCGAGGATAAAACAGTAATTTCACAAATCAAGGGTACTTTGG
TAATTTTACAAGTCGA
Found at i:23443266 original size:42 final size:42
Alignment explanation
Indices: 23443147--23443360 Score: 204
Period size: 42 Copynumber: 5.1 Consensus size: 42
23443137 ACACACGATA
* *
23443147 TCATACTAATGCCATATCCCAGATATGGTCTTACATG-GGATC
1 TCATACTAATGCCATATCCCAGATATGGTCTTACACGAAG-TC
* * * * *
23443189 TCGTA-TCGATGCCAATAGCCCAGCTAGGGTCTTACACGACA-TC
1 TCATACT-AATGCC-ATATCCCAGATATGGTCTTACACGA-AGTC
23443232 TCATA-TCAATGCCATATCCCAGATATGGTCTTACACGAAGTC
1 TCATACT-AATGCCATATCCCAGATATGGTCTTACACGAAGTC
* ** * *
23443274 TCATACTGATTTCATATCCTAGATGTGGTCTTACACGAAGTC
1 TCATACTAATGCCATATCCCAGATATGGTCTTACACGAAGTC
* * *
23443316 TCATACTAACGTCATACCCCAGATATGGTCTTACAC-ATAGTC
1 TCATACTAATGCCATATCCCAGATATGGTCTTACACGA-AGTC
23443358 TCA
1 TCA
23443361 GTAACCCTAA
Statistics
Matches: 142, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.02
42 105 0.74
43 34 0.24
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
TCATACTAATGCCATATCCCAGATATGGTCTTACACGAAGTC
Found at i:23446819 original size:28 final size:27
Alignment explanation
Indices: 23446774--23446840 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
23446764 AAATGTGCAA
*
23446774 AATTATTATA-AAAATAAT-TAAAATT
1 AATTATTTTATAAAATAATCTAAAATT
* *
23446799 CAATATGTTTTATAAAATAATCTTAAATT
1 -AAT-TATTTTATAAAATAATCTAAAATT
23446828 AATTATTTTATAA
1 AATTATTTTATAA
23446841 TAAAAGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.09
27 14 0.41
28 11 0.32
29 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (27 bp):
AATTATTTTATAAAATAATCTAAAATT
Found at i:23462172 original size:46 final size:46
Alignment explanation
Indices: 23462077--23462191 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 46
23462067 GTGAGCTAGC
* * * *
23462077 GTAAGACAATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGT
1 GTAAGAC-ATGTCTGGGACAT-GCATCGACATCGAGACGAGAGCCAGT
*
23462125 GTAAGACATGTCTGGGACATGCATCGACCTCGAGACGTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGACATCGAGACG-AGAGCCAGT
23462171 GTAAGACATGTCTGGGACATG
1 GTAAGACATGTCTGGGACATG
23462192 TGTCGGCTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
46 40 0.66
47 14 0.23
48 7 0.11
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGACATCGAGACGAGAGCCAGT
Found at i:23463486 original size:21 final size:22
Alignment explanation
Indices: 23463446--23463487 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23463436 GTCAAATTGA
23463446 TCACACGGGCGTGTTGCCCCTT
1 TCACACGGGCGTGTTGCCCCTT
*
23463468 TCACAGGGGCGTG-TGCCCCT
1 TCACACGGGCGTGTTGCCCCT
23463488 GTGTCAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.24
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTT
Found at i:23465880 original size:7 final size:7
Alignment explanation
Indices: 23465868--23465892 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23465858 CTTTTCATGG
23465868 ATTTATT
1 ATTTATT
23465875 ATTTATT
1 ATTTATT
23465882 ATTTATT
1 ATTTATT
23465889 ATTT
1 ATTT
23465893 TTTTGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:23470783 original size:15 final size:13
Alignment explanation
Indices: 23470751--23470775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23470741 TATATTAATC
23470751 TTTTATCTTATTG
1 TTTTATCTTATTG
23470764 TTTTATCTTATT
1 TTTTATCTTATT
23470776 ATGTTTTAAT
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:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTATCTTATTG
Found at i:23476415 original size:13 final size:13
Alignment explanation
Indices: 23476397--23476421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23476387 CATGGGCGTG
23476397 TGGCCAACCCGTA
1 TGGCCAACCCGTA
23476410 TGGCCAACCCGT
1 TGGCCAACCCGT
23476422 GAAGGCAACG
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
TGGCCAACCCGTA
Found at i:23480864 original size:14 final size:15
Alignment explanation
Indices: 23480845--23480885 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23480835 TCTTTCATTA
*
23480845 AAAATAACTTTC-GG
1 AAAATAACTTACTGG
23480859 AAAATAA-TTACTGG
1 AAAATAACTTACTGG
23480873 AAAATAACTTACT
1 AAAATAACTTACT
23480886 TTTCTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 16 0.67
15 5 0.21
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (15 bp):
AAAATAACTTACTGG
Found at i:23481494 original size:30 final size:30
Alignment explanation
Indices: 23481434--23481496 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
23481424 AAATATTAAA
*
23481434 TAATTTATTAAAATAATAAATTATATTAAT
1 TAATTTATTAAAATAATAAATTATAATAAT
* * *
23481464 TAATTTATTATATTATTAAA-TATAAATAAT
1 TAATTTATTAAAATAATAAATTAT-AATAAT
23481494 TAA
1 TAA
23481497 ATATGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TAATTTATTAAAATAATAAATTATAATAAT
Found at i:23489176 original size:12 final size:12
Alignment explanation
Indices: 23489161--23489218 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 12
23489151 ATTTTTCAAA
*
23489161 ATATAATAAATT
1 ATATATTAAATT
23489173 ATAT-TTAAATT
1 ATATATTAAATT
*
23489184 -TATATTAAATA
1 ATATATTAAATT
* *
23489195 AAATAATTATATT
1 ATAT-ATTAAATT
23489208 A-ATATTAAATT
1 ATATATTAAATT
23489219 TAAAAAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
10 3 0.08
11 19 0.51
12 8 0.22
13 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAAATT
Found at i:23495193 original size:22 final size:22
Alignment explanation
Indices: 23495165--23495208 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23495155 TGAGGTAGTG
23495165 TAAGACCATGTCTGGGACATGA
1 TAAGACCATGTCTGGGACATGA
23495187 TAAGACCATGTCTGGGACATGA
1 TAAGACCATGTCTGGGACATGA
23495209 CATCGACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (22 bp):
TAAGACCATGTCTGGGACATGA
Found at i:23500122 original size:71 final size:71
Alignment explanation
Indices: 23500006--23500150 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
23499996 TAGTTTCAGG
*
23500006 GAAAATTTACGAATCTTAATTTGAAGCTCTGTGGCTCGAATTATAAATAATTGAGTGACTATGAC
1 GAAAATTTACGAATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
23500071 TCGTGT
66 TCGTGT
*
23500077 GAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
1 GAAAATTTACGAATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
23500142 TCGTGT
66 TCGTGT
23500148 GAA
1 GAA
23500151 CAGCTTGATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (71 bp):
GAAAATTTACGAATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
TCGTGT
Found at i:23500979 original size:490 final size:490
Alignment explanation
Indices: 23500059--23501033 Score: 1842
Period size: 490 Copynumber: 2.0 Consensus size: 490
23500049 TAAATAATTG
*
23500059 AGTGACTATGACTCGTGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
1 AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
*
23500124 TAATTGAGTGACTATGACTCGTGTGAACAGCTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
66 TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
23500189 GTACTTACAAGAATCTTATATACATTAAAGATGTGGAATGGAAAGGAGAAGGAGGAAAATAAATG
131 GTACTTACAAGAATCTTATATACATTAAAGATGTGGAATGGAAAGGAGAAGGAGGAAAATAAATG
*
23500254 ATATATGTTTATAAGAAAACAGTATGAGAATGATGCATATCATGACATGTATATATATAACTAGT
196 ATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAGT
23500319 TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
261 TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
23500384 TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
326 TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
*
23500449 GTTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
391 GCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
23500514 GTAAAATGAGTATGAGAGATACATGTATGAGTATA
456 GTAAAATGAGTATGAGAGATACATGTATGAGTATA
23500549 AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
1 AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
23500614 TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
66 TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
* * *
23500679 GTACTTACAAGAATCTTATATACATTAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAATAAATG
131 GTACTTACAAGAATCTTATATACATTAAAGATGTGGAATGGAAAGGAGAAGGAGGAAAATAAATG
23500744 ATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAGT
196 ATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAGT
* *
23500809 TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAGGCAAGTATTTTATTCTGC
261 TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
23500874 TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
326 TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
**
23500939 GCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACTGG
391 GCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
*
23501004 GTAAGATGAGTATGAGAGATACATGTATGA
456 GTAAAATGAGTATGAGAGATACATGTATGA
23501034 TGACATACAA
Statistics
Matches: 473, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
490 473 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (490 bp):
AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
GTACTTACAAGAATCTTATATACATTAAAGATGTGGAATGGAAAGGAGAAGGAGGAAAATAAATG
ATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAGT
TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
GCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
GTAAAATGAGTATGAGAGATACATGTATGAGTATA
Found at i:23502067 original size:13 final size:13
Alignment explanation
Indices: 23502049--23502091 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
23502039 TTTAATAATA
23502049 AAATAAAGAAATG
1 AAATAAAGAAATG
23502062 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
23502074 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
23502088 AAAT
1 AAAT
23502092 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:23502079 original size:17 final size:18
Alignment explanation
Indices: 23502045--23502091 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
23502035 ATAGTTTAAT
* *
23502045 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
23502063 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
23502080 AATAAAAGAAAT
1 AATAAAAGAAAT
23502092 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:23502083 original size:9 final size:9
Alignment explanation
Indices: 23502057--23502091 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
23502047 TAAAATAAAG
23502057 AAATGAAAT
1 AAATGAAAT
23502066 AAA-GAAAT
1 AAATGAAAT
23502074 AAATGAAAT
1 AAATGAAAT
*
23502083 AAAAGAAAT
1 AAATGAAAT
23502092 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:23502143 original size:4 final size:4
Alignment explanation
Indices: 23502134--23502167 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
23502124 AGAACAGGAG
*
23502134 AGAA AGAA AGGAA AGAA AGAA AGAA AGAG AGAA A
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A
23502168 AGGGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:23503719 original size:22 final size:22
Alignment explanation
Indices: 23503659--23503719 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
23503649 ATTGAATTGA
*
23503659 GAAAGTGAATTATAATTGATACT
1 GAAAGTGAGTTA-AATTGATACT
*
23503682 GAAA-TGAGATAGAAATT-ATACT
1 GAAAGTGAG-T-TAAATTGATACT
23503704 GAAAAGTGAGTTAAAT
1 G-AAAGTGAGTTAAAT
23503720 ACCCTATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
22 13 0.42
23 13 0.42
24 5 0.16
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.30
Consensus pattern (22 bp):
GAAAGTGAGTTAAATTGATACT
Found at i:23503878 original size:45 final size:45
Alignment explanation
Indices: 23503828--23503938 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
23503818 CGACTACTGT
* * *
23503828 TACTGTTACCATTACTGTTACCGATTCGATACTTTGTGTGTCAAA
1 TACTGTTACTATTACTGTTACCGATTCAACACTTTGTGTGTCAAA
* * * **
23503873 TACTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTATTACTGTTACCGATTCAACACTTTGTGTGTCAAA
23503918 TACTGTTACTATTACTGTTAC
1 TACTGTTACTATTACTGTTAC
23503939 TGTTCTGGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (45 bp):
TACTGTTACTATTACTGTTACCGATTCAACACTTTGTGTGTCAAA
Found at i:23504235 original size:18 final size:18
Alignment explanation
Indices: 23504184--23504239 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
23504174 TGGTTATTAT
*
23504184 TGAATAATTGATTGTTAC
1 TGAATAAATGATTGTTAC
* * *
23504202 CGAATAACTGACTGTTAC
1 TGAATAAATGATTGTTAC
*
23504220 TGAATAAATAATTGTT-C
1 TGAATAAATGATTGTTAC
23504237 TGA
1 TGA
23504240 TTGTTAATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TGAATAAATGATTGTTAC
Found at i:23506354 original size:34 final size:34
Alignment explanation
Indices: 23506307--23506391 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
23506297 ATACTACATG
23506307 ATGC-TACTGATACTGTGATAGGCTAAGGCCCTA
1 ATGCATACTGATACTGTGATAGGCTAAGGCCCTA
*
23506340 ATGCATACTGATACTGTGATGGGCTAAGGCCCTA
1 ATGCATACTGATACTGTGATAGGCTAAGGCCCTA
* *
23506374 CTGCATATTTGATACTGT
1 ATGCATA-CTGATACTGT
23506392 ACTGAGATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 4 0.09
34 34 0.72
35 9 0.19
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (34 bp):
ATGCATACTGATACTGTGATAGGCTAAGGCCCTA
Found at i:23511162 original size:111 final size:111
Alignment explanation
Indices: 23510967--23511186 Score: 359
Period size: 111 Copynumber: 2.0 Consensus size: 111
23510957 TCTAATCCTA
* *
23510967 TTAAAATTATGACAATTTTACTGTAAAAGAGTCTATGAGAAAATATATTTAATAGTTATATATTC
1 TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTATATATTC
* * *
23511032 AATGGGCTTATTATGACCAAATGATTTATTTCTATTTTCAAACTCG
66 AATGGGCTTACTATAACCAAATGATTTATTTCCATTTTCAAACTCG
* * *
23511078 TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATATTTCTATATTT
1 TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTATATATTC
*
23511143 AATGGGTTTACTATAACCAAATGATTTATTTCCATTTTCAAACT
66 AATGGGCTTACTATAACCAAATGATTTATTTCCATTTTCAAACT
23511187 TCATTTAATT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 100 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (111 bp):
TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTATATATTC
AATGGGCTTACTATAACCAAATGATTTATTTCCATTTTCAAACTCG
Found at i:23511344 original size:58 final size:58
Alignment explanation
Indices: 23511223--23511346 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 58
23511213 ATTTCCAAGT
* * *
23511223 CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTTCAAATGTTTTCATTTCTT
1 CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTCCAAATATTTTCATTTCTC
* * * * *
23511281 GATTTTTA-TTTTCATTTTGGAGAAAATCATATTCATTTCCAAATATTTCTCATTTCTC
1 CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTCCAAATATTT-TCATTTCTC
23511339 CATTTTCA
1 CATTTTCA
23511347 CAATTTGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 35 0.64
58 20 0.36
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (58 bp):
CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTCCAAATATTTTCATTTCTC
Found at i:23513987 original size:25 final size:25
Alignment explanation
Indices: 23513957--23514078 Score: 83
Period size: 25 Copynumber: 4.9 Consensus size: 25
23513947 AATAACAGGT
23513957 AGCTCTGAAGAGCCATTAATCGAGA
1 AGCTCTGAAGAGCCATTAATCGAGA
* *
23513982 AGCTCTGGATAGCCA-TATATCGAGA
1 AGCTCTGAAGAGCCATTA-ATCGAGA
* *
23514007 AG-T-TCAAGTGAGCCA-T-ATCGGGA
1 AGCTCTGAA--GAGCCATTAATCGAGA
* * *
23514030 AGCTCCGGAGAGCCATTAATCGGGA
1 AGCTCTGAAGAGCCATTAATCGAGA
** *
23514055 AGCTCACAAAGAGCCTTTAATCGA
1 AGCTC-TGAAGAGCCATTAATCGA
23514079 AAAACTCACA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
23 16 0.21
24 5 0.07
25 41 0.54
26 14 0.18
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCTCTGAAGAGCCATTAATCGAGA
Found at i:23514074 original size:26 final size:26
Alignment explanation
Indices: 23514023--23514112 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 26
23514013 AGTGAGCCAT
** *
23514023 ATCGGGAAGCTC-CGGAGAGCCATTA
1 ATCGGGAAGCTCACAAAGAGCCTTTA
23514048 ATCGGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCACAAAGAGCCTTTA
** * *
23514074 ATCGAAAAACTCACAAAGAGCCATATA
1 ATCGGGAAGCTCACAAAGAGCC-TTTA
*
23514101 A-CGGGACGCTCA
1 ATCGGGAAGCTCA
23514113 TAATAGTTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
25 12 0.23
26 36 0.69
27 4 0.08
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
ATCGGGAAGCTCACAAAGAGCCTTTA
Found at i:23519994 original size:17 final size:17
Alignment explanation
Indices: 23519974--23520016 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
23519964 ACATCCTGGT
23519974 TGAGCTCACATCTTTGC
1 TGAGCTCACATCTTTGC
* *
23519991 TGAGCTCACATGTTTGG
1 TGAGCTCACATCTTTGC
23520008 TGAGCTCAC
1 TGAGCTCAC
23520017 GGTTGTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.33
Consensus pattern (17 bp):
TGAGCTCACATCTTTGC
Found at i:23521140 original size:23 final size:23
Alignment explanation
Indices: 23521071--23521145 Score: 55
Period size: 24 Copynumber: 3.2 Consensus size: 23
23521061 CTTATGAGCA
*
23521071 TCCCGTTATTAGCCCTCTCG-AGCT
1 TCCCGTTA-TAGCTCT-TCGAAGCT
* * *
23521095 TACCGTATATAG-TTTTTGCAAGCT
1 TCCCGT-TATAGCTCTTCG-AAGCT
*
23521119 TCCCGTTATAGCTCTTCGAAGCG
1 TCCCGTTATAGCTCTTCGAAGCT
23521142 TCCC
1 TCCC
23521146 ATTAGGTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 2 0.05
23 14 0.36
24 21 0.54
25 2 0.05
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (23 bp):
TCCCGTTATAGCTCTTCGAAGCT
Found at i:23521332 original size:24 final size:24
Alignment explanation
Indices: 23521305--23521448 Score: 105
Period size: 24 Copynumber: 6.0 Consensus size: 24
23521295 AGCTCCCGTT
*
23521305 ATATGGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
* * *
23521329 ATATGGTTCTTTATGAACTTCCTG
1 ATATGGCTCTTTATGAGCTTCCCG
**
23521353 ATTATGGCTC-TTATGAGCTTCCTATT
1 A-TATGGCTCTTTATGAGCTTCC--CG
* *** *
23521379 ATATAGC-CCAGATAAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
** *
23521402 ATA-GGCTCTTTGCGGGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
*
23521425 ATATGGCTCTTTATAAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
23521449 TGATAAGGCT
Statistics
Matches: 89, Mismatches: 25, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
22 2 0.02
23 15 0.17
24 49 0.55
25 21 0.24
26 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (24 bp):
ATATGGCTCTTTATGAGCTTCCCG
Found at i:23523358 original size:44 final size:44
Alignment explanation
Indices: 23523295--23523387 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
23523285 GAGTGAGTAA
23523295 TTGTAACTATTGGGCATATTTGTT-AGAGTTAAAATTGCTTGTTG
1 TTGTAACTATTGGGCATATTTGTTGAG-GTTAAAATTGCTTGTTG
*
23523339 TTGTAACTATTGGGCATATTTGTTGAGGTTACAATTGCTTGTTG
1 TTGTAACTATTGGGCATATTTGTTGAGGTTAAAATTGCTTGTTG
23523383 TTGTA
1 TTGTA
23523388 GCGGTAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 45 0.96
45 2 0.04
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.46
Consensus pattern (44 bp):
TTGTAACTATTGGGCATATTTGTTGAGGTTAAAATTGCTTGTTG
Found at i:23524143 original size:138 final size:138
Alignment explanation
Indices: 23523730--23524144 Score: 787
Period size: 138 Copynumber: 3.0 Consensus size: 138
23523720 TTGTGGTGGT
*
23523730 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCCCAAGTATTCATTGTTTGAATTTTT
1 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
*
23523795 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGTAAATTAGTCCACTTCAATTTCTT
66 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
23523860 GAATTTTA
131 GAATTTTA
*
23523868 TAAGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAA-TTTT
1 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
23523932 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
66 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
23523997 GAATTTTA
131 GAATTTTA
*
23524005 TAGGGTTTGTTTCTTTGGGATTGAGTTAGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
1 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
23524070 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
66 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
23524135 GAATTTTA
131 GAATTTTA
23524143 TA
1 TA
23524145 ATCATATTTG
Statistics
Matches: 271, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
137 134 0.49
138 137 0.51
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (138 bp):
TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
GAATTTTA
Found at i:23528469 original size:24 final size:23
Alignment explanation
Indices: 23528420--23528465 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23528410 TTTCAACATG
* *
23528420 AAAAAAATGGGCTTGATTTTTAT
1 AAAAAAATGGGCTTGAATTTGAT
*
23528443 AAAAAAATGGGTTTGAATTTGAT
1 AAAAAAATGGGCTTGAATTTGAT
23528466 TAAATCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (23 bp):
AAAAAAATGGGCTTGAATTTGAT
Found at i:23529565 original size:19 final size:19
Alignment explanation
Indices: 23529519--23529558 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23529509 TCCATAAGAT
23529519 ATAAATTTTGAATTTTAAA
1 ATAAATTTTGAATTTTAAA
23529538 ATAAATTTTGAATTTTAAA
1 ATAAATTTTGAATTTTAAA
23529557 AT
1 AT
23529559 TCATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAAATTTTGAATTTTAAA
Found at i:23529600 original size:3 final size:3
Alignment explanation
Indices: 23529592--23529631 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
23529582 AATCCAATGT
23529592 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23529632 TTTTTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23532031 original size:17 final size:18
Alignment explanation
Indices: 23532009--23532047 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23531999 ATTGAGATAC
23532009 AAATTC-TTAATATTATA
1 AAATTCATTAATATTATA
*
23532026 AAATTCATTATTATTATA
1 AAATTCATTAATATTATA
23532044 AAAT
1 AAAT
23532048 AAGTAGACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTCATTAATATTATA
Found at i:23537735 original size:25 final size:24
Alignment explanation
Indices: 23537705--23537843 Score: 79
Period size: 25 Copynumber: 5.6 Consensus size: 24
23537695 CGGACACACC
*
23537705 ACAGCTTGTATGAGCTTTCCGATTT
1 ACAGCTTGCATGAGCTTTCCG-TTT
*
23537730 ACAGCTTACATGAG-TTTCCCGATATT
1 ACAGCTTGCATGAGCTTT-CCG-T-TT
*
23537756 -CAGCTTGCATGAAC-TTCCTGTTAT
1 ACAGCTTGCATGAGCTTTCC-GTT-T
*
23537780 TCAGCTTGCATGAGC-TTCCTGTTAT
1 ACAGCTTGCATGAGCTTTCC-GTT-T
* * * * *
23537805 TCAGCTTGGAAGAGCTTACTGTTT
1 ACAGCTTGCATGAGCTTTCCGTTT
* *
23537829 ACAGCTCGTATGAGC
1 ACAGCTTGCATGAGC
23537844 ATACATGAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
23 1 0.01
24 19 0.20
25 70 0.74
26 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (24 bp):
ACAGCTTGCATGAGCTTTCCGTTT
Found at i:23537827 original size:50 final size:50
Alignment explanation
Indices: 23537731--23537827 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
23537721 TTCCGATTTA
* * *
23537731 CAGCTTACATGAGTTTCCCGATATTCAGCTTGCATGAACTTCCTGTTATT
1 CAGCTTACATGAGCTTCCCGATATTCAGCTTGCAAGAACTTACTGTTATT
* * * * *
23537781 CAGCTTGCATGAGCTTCCTGTTATTCAGCTTGGAAGAGCTTACTGTT
1 CAGCTTACATGAGCTTCCCGATATTCAGCTTGCAAGAACTTACTGTT
23537828 TACAGCTCGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (50 bp):
CAGCTTACATGAGCTTCCCGATATTCAGCTTGCAAGAACTTACTGTTATT
Found at i:23540493 original size:5 final size:5
Alignment explanation
Indices: 23540483--23540521 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
23540473 GCCTAAGATG
* *
23540483 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
23540522 GTAAATTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:23540996 original size:25 final size:26
Alignment explanation
Indices: 23540951--23541032 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 26
23540941 CAACTCTTAT
* *
23540951 GAGCGTCTCGA-TATATGGCTCTTCA
1 GAGCTTCTCGATTAAATGGCTCTTCA
*
23540976 GAGCTTCTCGATTAAAT-GCTCTTTGA
1 GAGCTTCTCGATTAAATGGCTC-TTCA
*
23541002 GAGCTTCTTGATT-AATGGCTC-TCTA
1 GAGCTTCTCGATTAAATGGCTCTTC-A
23541027 GAGCTT
1 GAGCTT
23541033 GCTAATATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.02
25 24 0.50
26 23 0.48
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
GAGCTTCTCGATTAAATGGCTCTTCA
Found at i:23541044 original size:25 final size:24
Alignment explanation
Indices: 23541001--23541131 Score: 90
Period size: 25 Copynumber: 5.3 Consensus size: 24
23540991 ATGCTCTTTG
* *
23541001 AGAGCTTCTTGATTAATGGCTCTCT
1 AGAGCTTCCTAATT-ATGGCTCTCT
* *
23541026 AGAGCTTGCTAATATATGGCTAT-T
1 AGAGCTTCCTAAT-TATGGCTCTCT
* * *
23541050 CGAATCTTCCCAATTAATGGCTCTCT
1 AG-AGCTTCCTAATT-ATGGCTCTCT
* *
23541076 AGAGCTACCT-ATTATTGGCTCGC-
1 AGAGCTTCCTAATTA-TGGCTCTCT
23541099 ATGAGCTTCCTAATTATGGCTCT-T
1 A-GAGCTTCCTAATTATGGCTCTCT
23541123 ATGAGCTTC
1 A-GAGCTTC
23541132 TCGTTATATG
Statistics
Matches: 82, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
23 2 0.02
24 36 0.44
25 41 0.50
26 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (24 bp):
AGAGCTTCCTAATTATGGCTCTCT
Found at i:23541094 original size:24 final size:25
Alignment explanation
Indices: 23541061--23541129 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
23541051 GAATCTTCCC
23541061 AATTAATGGCTCTCTA-GAGCTACCT
1 AATT-ATGGCTCTCTATGAGCTACCT
* *
23541086 -ATTATTGGCTCGC-ATGAGCTTCCT
1 AATTA-TGGCTCTCTATGAGCTACCT
23541110 AATTATGGCTCT-TATGAGCT
1 AATTATGGCTCTCTATGAGCT
23541130 TCTCGTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 2 0.05
24 31 0.84
25 4 0.11
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (25 bp):
AATTATGGCTCTCTATGAGCTACCT
Found at i:23542438 original size:12 final size:12
Alignment explanation
Indices: 23542421--23542445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23542411 TATTTTGAGT
23542421 TAAAATGGCATG
1 TAAAATGGCATG
23542433 TAAAATGGCATG
1 TAAAATGGCATG
23542445 T
1 T
23542446 GCATAGGTAG
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:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TAAAATGGCATG
Found at i:23542549 original size:20 final size:20
Alignment explanation
Indices: 23542511--23542549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23542501 AAACTCTATC
* *
23542511 TATTTTGGTTTTATTTGAAG
1 TATTTTGGTTCTATATGAAG
23542531 TATTTTGGTTCTATATGAA
1 TATTTTGGTTCTATATGAA
23542550 ATGAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (20 bp):
TATTTTGGTTCTATATGAAG
Found at i:23546271 original size:16 final size:15
Alignment explanation
Indices: 23546222--23546272 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
23546212 AAATTACAAT
23546222 AATATTTAATAA-CA
1 AATATTTAATAATCA
23546236 AGA-ATTTAATAATCA
1 A-ATATTTAATAATCA
*
23546251 AATATTTAATTATCTA
1 AATATTTAATAATC-A
23546267 AATATT
1 AATATT
23546273 ATGCATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.34
15 14 0.44
16 7 0.22
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (15 bp):
AATATTTAATAATCA
Found at i:23546674 original size:22 final size:22
Alignment explanation
Indices: 23546649--23546692 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23546639 TAGTCATATA
23546649 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
23546671 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
23546693 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:23546692 original size:16 final size:16
Alignment explanation
Indices: 23546671--23546721 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
23546661 TATAATAAAT
23546671 ATAAATTATTATTTTA
1 ATAAATTATTATTTTA
*
23546687 ATAAATTATTTAATATT-
1 ATAAATTA-TT-ATTTTA
23546704 -TAAATT-TTATTTTA
1 ATAAATTATTATTTTA
23546718 ATAA
1 ATAA
23546722 TAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.14
14 2 0.07
15 3 0.10
16 14 0.48
17 2 0.07
18 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAAATTATTATTTTA
Found at i:23546728 original size:13 final size:14
Alignment explanation
Indices: 23546712--23546753 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23546702 TTTAAATTTT
23546712 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
23546725 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
23546740 ATTTTAAATAATAT
1 ATTTT-AATAATAT
23546754 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:23546738 original size:16 final size:16
Alignment explanation
Indices: 23546716--23546752 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
23546706 AATTTTATTT
23546716 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
23546733 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
23546748 TAATA
1 TAATA
23546753 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:23547319 original size:14 final size:14
Alignment explanation
Indices: 23547300--23547345 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
23547290 CCAGAAAAGT
23547300 AAATCATTTTCAAG
1 AAATCATTTTCAAG
23547314 AAATCATTTTTC--G
1 AAATCA-TTTTCAAG
23547327 AAAGTCATTTTCAATG
1 AAA-TCATTTTCAA-G
23547343 AAA
1 AAA
23547346 CAAACGGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.33
14 9 0.33
15 5 0.19
16 4 0.15
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCAAG
Found at i:23548136 original size:40 final size:40
Alignment explanation
Indices: 23548083--23548177 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
23548073 CAGCGTTTTT
* *
23548083 AAAACACCGCTATAGATAGAGAATTAGCGGCGC-TTCATGA
1 AAAACACCGCTATAGATAGAGAATTAACGGCGCTTTC-TCA
* *
23548123 AAAACACCGCTATAGATTGAGCATTAACGGCGCTTTCTCA
1 AAAACACCGCTATAGATAGAGAATTAACGGCGCTTTCTCA
*
23548163 AAAACGCCGCTATAG
1 AAAACACCGCTATAG
23548178 GTCGACCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAACACCGCTATAGATAGAGAATTAACGGCGCTTTCTCA
Found at i:23548188 original size:40 final size:40
Alignment explanation
Indices: 23548045--23548212 Score: 123
Period size: 40 Copynumber: 4.3 Consensus size: 40
23548035 CATTTGGACA
* * *
23548045 AAAAACCCCGCTATAGATTGGA-CATTAGCAGCG-TTT-T-
1 AAAAACGCCGCTATAGA-TCGACCATTAGCGGCGCTTTCTC
* * * ** *
23548082 TAAAACACCGCTATAGATAGAGAATTAGCGGCGC-TTCATG
1 AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTC-TC
* * * *
23548122 AAAAACACCGCTATAGATTGAGCATTAACGGCGCTTTCTC
1 AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTCTC
* * *
23548162 AAAAACGCCGCTATAGGTCGACCATTAGTGGCG-TTTATC
1 AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTCTC
23548201 AAAAAACGCCGC
1 -AAAAACGCCGC
23548213 AAAAAATTTA
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
36 3 0.03
37 26 0.24
39 6 0.06
40 69 0.64
41 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTCTC
Found at i:23548416 original size:152 final size:154
Alignment explanation
Indices: 23548105--23548496 Score: 486
Period size: 152 Copynumber: 2.5 Consensus size: 154
23548095 TAGATAGAGA
* * *
23548105 ATTAGCGGCGC-TTCATGAAAAACACCGCTATAGATTGAGCATTAACGGCGCTTTCTCAAAAACG
1 ATTAGCGGCGCTTTC-TGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTT-TTAAAAACG
* * *
23548169 CCGCTATAGGTCGACCATTAGTGGCGTTTATCAAAAAACGCCGCAAAAAATTTAAGCACAACGAC
64 CCGCTATAGGTCAACCATTAGTGGCGCTTATCAAAAAACGCCACAAAAAATTTAAGCACAACGAC
*
23548234 GTCGTTTTATGTTGAGCTTTAGTGTC
129 CTCGTTTTATGTTGAGCTTTAGTGTC
* * * *
23548260 ATTAGCGGCGCTTTCTCAAAAACGCCGCTATAGATCGAGCATTAGTGGC-ATTTTTAAAAACGCC
1 ATTAGCGGCGCTTTCTGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAACGCC
* *** *
23548324 GCTATAGGTCAACCATTA-TCGGCGCTTCTTGGAAAACGCCACAAAAAA-TTAAGCACAACGCCC
66 GCTATAGGTCAACCATTAGT-GGCGCTTATCAAAAAACGCCACAAAAAATTTAAGCACAACGACC
* *
23548387 TCGTTTTATGTTGGGCTTTAGTGTT
130 TCGTTTTATGTTGAGCTTTAGTGTC
* * * * * *
23548412 ATTAGCGGCGCTTTTTGAAAAACACCGCTACAAATCGAGCATTAGCGGCTCTTTTTGGAAAATGC
1 ATTAGCGGCGCTTTCTGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTT-AAAAACGC
* *
23548477 CGCTATAGGTCGACCTTTAG
65 CGCTATAGGTCAACCATTAG
23548497 CAGCATTTTC
Statistics
Matches: 203, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
152 80 0.39
153 54 0.27
154 26 0.13
155 40 0.20
156 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (154 bp):
ATTAGCGGCGCTTTCTGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAACGCC
GCTATAGGTCAACCATTAGTGGCGCTTATCAAAAAACGCCACAAAAAATTTAAGCACAACGACCT
CGTTTTATGTTGAGCTTTAGTGTC
Found at i:23548874 original size:14 final size:14
Alignment explanation
Indices: 23548852--23548896 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
23548842 TTAATTATCA
*
23548852 TTATAGTTTAGAGT
1 TTATGGTTTAGAGT
23548866 TTATGGTTTA-AGGT
1 TTATGGTTTAGA-GT
*
23548880 ATATGGTTTAGAGT
1 TTATGGTTTAGAGT
23548894 TTA
1 TTA
23548897 AAGTTTATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGAGT
Found at i:23549028 original size:7 final size:7
Alignment explanation
Indices: 23549018--23549059 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
23549008 TAAGGGTATT
23549018 GGGTTAG
1 GGGTTAG
23549025 GGGTTAG
1 GGGTTAG
*
23549032 GTGTTA-
1 GGGTTAG
23549038 GGGTTAG
1 GGGTTAG
23549045 GGGTTTAG
1 GGG-TTAG
*
23549053 GGTTTAG
1 GGGTTAG
23549060 ATTAATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (7 bp):
GGGTTAG
Found at i:23549037 original size:14 final size:14
Alignment explanation
Indices: 23549018--23549059 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
23549008 TAAGGGTATT
23549018 GGGTTAGGGGTTAG
1 GGGTTAGGGGTTAG
*
23549032 GTGTTA-GGGTTAG
1 GGGTTAGGGGTTAG
*
23549045 GGGTTTAGGGTTTAG
1 GGG-TTAGGGGTTAG
23549060 ATTAATTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 8 0.35
15 6 0.26
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (14 bp):
GGGTTAGGGGTTAG
Found at i:23549491 original size:15 final size:14
Alignment explanation
Indices: 23549456--23549492 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23549446 GTTTATATGA
23549456 TAGGGTTTTGAGTT
1 TAGGGTTTTGAGTT
*
23549470 TAAGGTTTTGAGATT
1 TAGGGTTTTGAG-TT
23549485 TAGGGTTT
1 TAGGGTTT
23549493 ATAGTTCGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (14 bp):
TAGGGTTTTGAGTT
Found at i:23552529 original size:13 final size:14
Alignment explanation
Indices: 23552513--23552544 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
23552503 TTATTATAAA
23552513 TAATTATAAT-GTT
1 TAATTATAATGGTT
23552526 TAATTATAATGGTT
1 TAATTATAATGGTT
23552540 TAATT
1 TAATT
23552545 CGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:23553001 original size:21 final size:21
Alignment explanation
Indices: 23552958--23553007 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
23552948 AGACGGATAA
***
23552958 AGCAGCGAGGGAGGCAGCTGC
1 AGCAGCGAGGGAGGCAAAGGC
*
23552979 AGCAGCGAGGGAGGTAAAGGC
1 AGCAGCGAGGGAGGCAAAGGC
*
23553000 AGTAGCGA
1 AGCAGCGA
23553008 TGGCAGCAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.46, T:0.06
Consensus pattern (21 bp):
AGCAGCGAGGGAGGCAAAGGC
Found at i:23553497 original size:44 final size:44
Alignment explanation
Indices: 23553389--23553552 Score: 208
Period size: 43 Copynumber: 3.8 Consensus size: 44
23553379 TCGCTAAATT
* * * *
23553389 CCATGACTTTTAG-TAGCGCTTTTCCCTCAAATGCCGTTAAAAA-
1 CCATGACTTTTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAAAG
* *
23553432 CCATGACTTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAAAG
1 CCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAG
*
23553476 CCATGACTTTTAGCGATGCTTTTCCCACAAACGCCGCT-AAAAG
1 CCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAG
* * *
23553519 CCATGACTTTTAGCGGCACTTTTCCCACAGACGC
1 CCATGACTTTTAGCGACGCTTTTCCCACAAACGC
23553553 GCTTGTGAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 72 0.67
44 35 0.33
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (44 bp):
CCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAG
Found at i:23553497 original size:87 final size:87
Alignment explanation
Indices: 23553389--23553552 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 87
23553379 TCGCTAAATT
* * * * * *
23553389 CCATGACTTTTAGTAGCGCTTTTCCCTCAAATGCCGTTAAAAACCATGACTTTTAGTGGCGCTTT
1 CCATGACTTTTAGGAGCGCTTTTCCCACAAACGCCGCTAAAAACCATGACTTTTAGCGGCACTTT
23553454 TCCCACAAACGCCGCTAAAAAG
66 TCCCACAAACGCCGCTAAAAAG
* *
23553476 CCATGACTTTTAGCGA-TGCTTTTCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTT
1 CCATGACTTTTAG-GAGCGCTTTTCCCACAAACGCCGCTAAAAACCATGACTTTTAGCGGCACTT
*
23553540 TTCCCACAGACGC
65 TTCCCACAAACGC
23553553 GCTTGTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 66 0.99
88 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (87 bp):
CCATGACTTTTAGGAGCGCTTTTCCCACAAACGCCGCTAAAAACCATGACTTTTAGCGGCACTTT
TCCCACAAACGCCGCTAAAAAG
Found at i:23554134 original size:20 final size:19
Alignment explanation
Indices: 23554109--23554153 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
23554099 TAATTAATGG
23554109 TAAACTACACCATTAATCAC
1 TAAACTA-ACCATTAATCAC
23554129 TAAACT-ACCATTAATCAC
1 TAAACTAACCATTAATCAC
23554147 TAAACTA
1 TAAACTA
23554154 TGTTAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 18 0.75
20 6 0.25
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAACTAACCATTAATCAC
Found at i:23554475 original size:73 final size:73
Alignment explanation
Indices: 23554390--23554535 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
23554380 AAGGGTTGTT
23554390 TAAATTTTGATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
1 TAAATTTTGATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
23554455 AAAAGAGG
66 AAAAGAGG
*
23554463 TAAATTTTGATTCGTAGATTTATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
1 TAAATTTTGATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
23554528 AAAAGAGG
66 AAAAGAGG
23554536 AAAGAAAACT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (73 bp):
TAAATTTTGATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
AAAAGAGG
Found at i:23555731 original size:109 final size:109
Alignment explanation
Indices: 23555603--23555821 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
23555593 TGAGAATTCA
23555603 AGATGATATGCTTTCTTTTAAATAAAGCAGGTAAAAGGAAAACCCTGAGAGCCCCACAGATTTAA
1 AGATGATATGCTTTCTTTTAAATAAAGCAGGTAAAAGGAAAACCCTGAGAGCCCCACAGATTTAA
23555668 ATGTTCATCAATACTTCAGCCTTTTCTTTGTTGTTATTTGTATT
66 ATGTTCATCAATACTTCAGCCTTTTCTTTGTTGTTATTTGTATT
23555712 AGATGATATGCTTTCTTTTAAATAAAGCAGGTAAAAGGAAAACCCTGAGAGCCCCACAGATTTAA
1 AGATGATATGCTTTCTTTTAAATAAAGCAGGTAAAAGGAAAACCCTGAGAGCCCCACAGATTTAA
23555777 ATGTTCATCAATACTTCAGCCTTTTCTTTGTTGTTATTTGTATT
66 ATGTTCATCAATACTTCAGCCTTTTCTTTGTTGTTATTTGTATT
23555821 A
1 A
23555822 CAAAGTCAAC
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (109 bp):
AGATGATATGCTTTCTTTTAAATAAAGCAGGTAAAAGGAAAACCCTGAGAGCCCCACAGATTTAA
ATGTTCATCAATACTTCAGCCTTTTCTTTGTTGTTATTTGTATT
Found at i:23558168 original size:22 final size:20
Alignment explanation
Indices: 23558143--23558190 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
23558133 ATAAGAACAA
23558143 AATTAATTTAA-AATAATTTTAT
1 AATTAA-TTAAGAATAA--TTAT
*
23558165 AATTTATTAAGAATAATTAT
1 AATTAATTAAGAATAATTAT
23558185 AATTAA
1 AATTAA
23558191 CGGTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.39
21 4 0.17
22 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTAATTAAGAATAATTAT
Found at i:23558722 original size:21 final size:21
Alignment explanation
Indices: 23558696--23558754 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
23558686 AATAGCGGTG
**
23558696 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGAAACTGTA
23558717 GCGGTGAGATTAGAAACTGTA
1 GCGGTGAGATTAGAAACTGTA
*
23558738 GCGATGAGATTAGAAAC
1 GCGGTGAGATTAGAAAC
23558755 AATGGTGGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.25
Consensus pattern (21 bp):
GCGGTGAGATTAGAAACTGTA
Found at i:23560492 original size:15 final size:15
Alignment explanation
Indices: 23560468--23560498 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23560458 GCACTAAATT
23560468 ATATTATATATATAA
1 ATATTATATATATAA
*
23560483 ATATTTTATATATAA
1 ATATTATATATATAA
23560498 A
1 A
23560499 AAATAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTATATATATAA
Found at i:23560722 original size:34 final size:34
Alignment explanation
Indices: 23560684--23560751 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
23560674 ACATCACATG
*
23560684 AGTAAGAAAACTAGTAAGTATATAAATGAGATTT
1 AGTAAGAAAACTAGTAAATATATAAATGAGATTT
23560718 AGTAAGAAAACTAGTAAATATATAAATGAGATTT
1 AGTAAGAAAACTAGTAAATATATAAATGAGATTT
23560752 TTTAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.29
Consensus pattern (34 bp):
AGTAAGAAAACTAGTAAATATATAAATGAGATTT
Found at i:23564784 original size:20 final size:21
Alignment explanation
Indices: 23564750--23564803 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
23564740 TGATGATATT
*
23564750 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATAAGATA
23564771 -TATATTATTTTAATAAGATA
1 TTATATTATTTTAATAAGATA
*
23564791 TTTTATTATTTTA
1 TTATATTATTTTA
23564804 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATAAGATA
Found at i:23564809 original size:11 final size:11
Alignment explanation
Indices: 23564793--23564831 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
23564783 ATAAGATATT
23564793 TTATTATTTTA
1 TTATTATTTTA
*
23564804 TTATTATTTCA
1 TTATTATTTTA
23564815 TTATTATTTTA
1 TTATTATTTTA
23564826 TTATTA
1 TTATTA
23564832 AATATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:23564817 original size:19 final size:19
Alignment explanation
Indices: 23564789--23564830 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23564779 TTTAATAAGA
*
23564789 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
23564808 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
23564827 TATT
1 TATT
23564831 AAATATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:23567016 original size:46 final size:46
Alignment explanation
Indices: 23566968--23567195 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
23566958 GCTCTTTGAT
* * *
23566968 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
23567014 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
23567060 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
23567106 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
23567152 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
23567196 TCAAAGATAA
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 161 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:23571480 original size:6 final size:6
Alignment explanation
Indices: 23571466--23571496 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
23571456 ACAAATCTGG
*
23571466 AACAAT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
23571497 TGGCACACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:23572331 original size:20 final size:21
Alignment explanation
Indices: 23572288--23572345 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 21
23572278 AACCTCAAAA
23572288 CCCTATTTTTCCTTTCTTTTTCTTT
1 CCCTA-TTTT-CTTTC--TTTCTTT
23572313 CCCT-TTTTCTTTCTTTCTTT
1 CCCTATTTTCTTTCTTTCTTT
23572333 CCCTATTTTCTTT
1 CCCTATTTTCTTT
23572346 GTCCCTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.34
21 8 0.25
22 5 0.16
23 4 0.12
25 4 0.12
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.67
Consensus pattern (21 bp):
CCCTATTTTCTTTCTTTCTTT
Found at i:23572402 original size:22 final size:22
Alignment explanation
Indices: 23572357--23572402 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
23572347 TCCCTCTTTC
*
23572357 TTTCTTTTATTTCTTTATTCTA
1 TTTCTTTTATTTCTTTAATCTA
23572379 TTTCTTTTATTTACTTTAAT-TA
1 TTTCTTTTATTT-CTTTAATCTA
23572401 TT
1 TT
23572403 AAATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTCTTTTATTTCTTTAATCTA
Found at i:23572415 original size:3 final size:3
Alignment explanation
Indices: 23572405--23572452 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
23572395 TAATTATTAA
*
23572405 ATT A-T ATT ATT ATT ATT A-T ATT -TT AGTA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
23572448 ATT AT
1 ATT AT
23572453 AATATTTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 31 0.79
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:23577214 original size:26 final size:26
Alignment explanation
Indices: 23577178--23577227 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
23577168 AAAAAAGACG
*
23577178 GAATAGTTTTCGAGTATTATTACACA
1 GAATAGTTTTCGAGCATTATTACACA
23577204 GAATAGTTTTCGAGCATTATTACA
1 GAATAGTTTTCGAGCATTATTACA
23577228 AACCTTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (26 bp):
GAATAGTTTTCGAGCATTATTACACA
Found at i:23579857 original size:24 final size:23
Alignment explanation
Indices: 23579808--23579855 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23579798 CAGGAAGGTC
23579808 TTCCTGCATTGTGGGTTTTTTAT
1 TTCCTGCATTGTGGGTTTTTTAT
23579831 TTCCTGCATTGTGGGTTTTTTAT
1 TTCCTGCATTGTGGGTTTTTTAT
23579854 TT
1 TT
23579856 TCATTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.08, C:0.12, G:0.21, T:0.58
Consensus pattern (23 bp):
TTCCTGCATTGTGGGTTTTTTAT
Found at i:23586520 original size:14 final size:14
Alignment explanation
Indices: 23586501--23586527 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23586491 AAGATATTCT
23586501 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
23586515 TTTTCTAAATAAA
1 TTTTCTAAATAAA
23586528 GTTGAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:23594928 original size:93 final size:93
Alignment explanation
Indices: 23594769--23594959 Score: 382
Period size: 93 Copynumber: 2.1 Consensus size: 93
23594759 AGCAAATCTA
23594769 AGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTTGATGGA
1 AGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTTGATGGA
23594834 AGGCAGACACATAGCAGATCTCACCTTC
66 AGGCAGACACATAGCAGATCTCACCTTC
23594862 AGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTTGATGGA
1 AGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTTGATGGA
23594927 AGGCAGACACATAGCAGATCTCACCTTC
66 AGGCAGACACATAGCAGATCTCACCTTC
23594955 AGATG
1 AGATG
23594960 TTTACGCTGA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (93 bp):
AGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTTGATGGA
AGGCAGACACATAGCAGATCTCACCTTC
Found at i:23595122 original size:210 final size:209
Alignment explanation
Indices: 23594862--23595529 Score: 875
Period size: 210 Copynumber: 3.2 Consensus size: 209
23594852 TCTCACCTTC
* * * * *
23594862 AGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTTGATGGA
1 AGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATAGA
*
23594927 AGGCAGACACATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGTAGATCCAAGATGACAGATC
66 AGGCAGACACATAGCAGATCTCACCTTCAGATGTTTA-GCTGAAGAAGATCCAAGATGACAGATC
*
23594992 TTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGAAATAGCTGATTTGGCTTTCACGTGCTTAC
130 TTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGAAATAGCTGATTTGGCTTTCACGTGTTTAC
23595057 GATGAAGCAAATCTA
195 GATGAAGCAAATCTA
* *
23595072 AGATAATTTGTCCTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATTGA
1 AGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATAGA
* * *
23595137 AGGTAGACACATAGCAGATTTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGACAGATC
66 AGGCAGACACATAGCAGATCTCACCTTCAGATGTTTA-GCTGAAGAAGATCCAAGATGACAGATC
* * *
23595202 TTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTAC
130 TTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGAAATAGCTGATTTGGCTTTCACGTGTTTAC
23595267 GATGAAGCAAATCTA
195 GATGAAGCAAATCTA
* * * * **
23595282 AGATGATTTGTCATCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAG-
1 AGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATAGA
* * * * *
23595346 AGAGCAGATACATAGCAGATCTGACCTTCAGAAGATTAGACTGAAACAAGATCCAAGAT----GA
66 AG-GCAGACACATAGCAGATCTCACCTTCAGATGTTTAG-CTG-AAGAAGATCCAAGATGACAGA
** * ** ** * * * *
23595407 T-TTGGCATC-CT-TATGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTAGTTTTCACGTGT
128 TCTTATC-TCTCTGTATTC-GGCGGGGAGCAGATCGAAGAAATAGCTGATTTGGCTTTCACGTGT
23595469 TTACGATGAAGCAAATCTA
191 TTACGATGAAGCAAATCTA
*
23595488 AGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
1 AGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
23595530 AAGCAGATTT
Statistics
Matches: 408, Mismatches: 45, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
205 4 0.01
206 98 0.24
207 5 0.01
209 3 0.01
210 285 0.70
211 13 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (209 bp):
AGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATAGA
AGGCAGACACATAGCAGATCTCACCTTCAGATGTTTAGCTGAAGAAGATCCAAGATGACAGATCT
TATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGAAATAGCTGATTTGGCTTTCACGTGTTTACG
ATGAAGCAAATCTA
Found at i:23596169 original size:20 final size:19
Alignment explanation
Indices: 23596146--23596183 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
23596136 ATTTTTATTA
23596146 ATTATTTGTACATATTATAT
1 ATTATTTGTACAT-TTATAT
23596166 ATTATTTGTACATTTATA
1 ATTATTTGTACATTTATA
23596184 CACTTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTATTTGTACATTTATAT
Found at i:23598878 original size:37 final size:37
Alignment explanation
Indices: 23598830--23598901 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
23598820 AAAATTTGTT
23598830 GAGAAACATTTGTTTTAATATTTTTAATGTATTTTTA
1 GAGAAACATTTGTTTTAATATTTTTAATGTATTTTTA
* * * *
23598867 GAGAAATATTTGTTTTGATGTTTTTACTGTATTTT
1 GAGAAACATTTGTTTTAATATTTTTAATGTATTTT
23598902 ATATATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (37 bp):
GAGAAACATTTGTTTTAATATTTTTAATGTATTTTTA
Found at i:23601914 original size:41 final size:41
Alignment explanation
Indices: 23601856--23601938 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
23601846 TCTTATTGGT
23601856 AACACGAATAAACAGAGAGGCATCAGACTTTGAAAGAACAA
1 AACACGAATAAACAGAGAGGCATCAGACTTTGAAAGAACAA
* *
23601897 AACACGAATAAATAGAGAGGCATCAGACTTTGAAAGAGCAA
1 AACACGAATAAACAGAGAGGCATCAGACTTTGAAAGAACAA
23601938 A
1 A
23601939 CCCTAATGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.51, C:0.16, G:0.20, T:0.13
Consensus pattern (41 bp):
AACACGAATAAACAGAGAGGCATCAGACTTTGAAAGAACAA
Found at i:23608088 original size:40 final size:40
Alignment explanation
Indices: 23608011--23608226 Score: 337
Period size: 40 Copynumber: 5.4 Consensus size: 40
23608001 AAACCAAGTA
* * * *
23608011 CCTTCGGGATTTAG-CCGGACATAGCT-ACCCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
23608050 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23608090 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
23608130 CCTTTGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23608170 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
23608210 TCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
23608227 AGTTATCATC
Statistics
Matches: 164, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.09
40 150 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23622572 original size:10 final size:12
Alignment explanation
Indices: 23622544--23622576 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
23622534 TATACGAAAT
23622544 AATATTTTTTTG
1 AATATTTTTTTG
23622556 AATATTTTTTTG
1 AATATTTTTTTG
23622568 AAT-TTTTTT
1 AATATTTTTT
23622577 CACAAACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
AATATTTTTTTG
Found at i:23628138 original size:40 final size:40
Alignment explanation
Indices: 23628081--23628283 Score: 311
Period size: 40 Copynumber: 5.1 Consensus size: 40
23628071 CAGATGATAA
* * * *
23628081 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
23628121 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23628161 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23628201 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23628241 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
23628281 CCG
1 CCG
23628284 ACAAAATCCC
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23636057 original size:38 final size:38
Alignment explanation
Indices: 23635978--23636169 Score: 266
Period size: 38 Copynumber: 5.1 Consensus size: 38
23635968 ATGATAACCG
* * * *
23635978 GGCTAGGTCCGAAGGC-TTTGTGCTAGTGACTA-ATTCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA-TCC
23636015 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCC
*
23636053 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCC
23636092 GGCT-AGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCC
*
23636130 GGCTAAGTCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTA-CTATATCC
23636168 GG
1 GG
23636170 AAATCCGAAG
Statistics
Matches: 143, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
37 17 0.12
38 89 0.62
39 37 0.26
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:23636095 original size:77 final size:76
Alignment explanation
Indices: 23635978--23636166 Score: 278
Period size: 77 Copynumber: 2.5 Consensus size: 76
23635968 ATGATAACCG
* * *
23635978 GGCTAGGTCCGAAGGC-TTTGTGCTAGTGACTA-ATTCGGGCTAAGT-CCGAAGGCATTTGTGCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA-TCGGGCT-AGTCCCGAAGGCATTTGTGCG
23636040 AGTTACTATATCC
64 AGTTACTATATCC
23636053 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAGTCCCGAAGGCATTTGTGCGA
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAGTCCCGAAGGCATTTGTGCGA
23636118 GTTACTATATCC
65 GTTACTATATCC
*
23636130 GGCTAAGTCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTA-CTATATC
23636167 CGGAAATCCG
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
75 9 0.09
76 36 0.34
77 59 0.56
78 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (76 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCC
Found at i:23640342 original size:46 final size:48
Alignment explanation
Indices: 23640261--23640382 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 48
23640251 ATCTTACAAG
*
23640261 CCATGGTCCTTTATGTCATTTCATGTCACCCTGCCATGGT-TATCTTTC-CA
1 CCATGGT-C-TTAT-TCATTTCATATCACCCTGCCATGGTAT-TCTTTCACA
**
23640311 CCAT-GTCTTATTCATTTCATATCACGTTGCCATGGTATTCTTTCAACA
1 CCATGGTCTTATTCATTTCATATCACCCTGCCATGGTATTCTTTC-ACA
*
23640359 CCATGGTCTTA-ACATTTTCATATC
1 CCATGGTCTTATTCA-TTTCATATC
23640383 CAGAGAGACA
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
46 28 0.44
47 5 0.08
48 9 0.14
49 17 0.27
50 4 0.06
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.41
Consensus pattern (48 bp):
CCATGGTCTTATTCATTTCATATCACCCTGCCATGGTATTCTTTCACA
Found at i:23640845 original size:20 final size:19
Alignment explanation
Indices: 23640813--23640883 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 19
23640803 AAAAACATAT
23640813 AATAAAAATAAATAGATGAGA
1 AATAAAAA-AAATA-ATGAGA
* *
23640834 AATAAAAAAAATTACA-AAAA
1 AATAAAAAAAA-TA-ATGAGA
23640854 AATAAAAGAAATATAATGAG-
1 AATAAAA-AAA-ATAATGAGA
23640874 AATAAAAAAA
1 AATAAAAAAA
23640884 TAAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 3 0.07
20 20 0.49
21 17 0.41
22 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.17
Consensus pattern (19 bp):
AATAAAAAAAATAATGAGA
Found at i:23640858 original size:41 final size:36
Alignment explanation
Indices: 23640794--23640898 Score: 95
Period size: 44 Copynumber: 2.6 Consensus size: 36
23640784 TATCCATTTG
*
23640794 AAAAAAAGAAAAAACATATAATAAAAATAAATAGATGAGAAAT
1 AAAAAAATAAAAAA-A-ATAA-AAAAAT--ATA-ATGAG-AAT
23640837 AAAAAAAATTACAAAAAAATAAAAGAAATATAATGAGAAT
1 -AAAAAAA-TA-AAAAAAATAAAA-AAATATAATGAGAAT
23640877 AAAAAAATAAAAAAAA-AAAAAA
1 AAAAAAATAAAAAAAATAAAAAA
23640899 CATACATTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
35 2 0.04
36 4 0.07
37 7 0.12
38 2 0.04
39 7 0.12
40 3 0.05
41 5 0.09
42 3 0.05
43 2 0.04
44 15 0.26
45 2 0.04
46 5 0.09
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (36 bp):
AAAAAAATAAAAAAAATAAAAAAATATAATGAGAAT
Found at i:23640889 original size:9 final size:9
Alignment explanation
Indices: 23640833--23640898 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
23640823 AATAGATGAG
23640833 AAATAAAAA
1 AAATAAAAA
23640842 AAATTACAAAA
1 AAA-TA-AAAA
23640853 AAATAAAAGA
1 AAATAAAA-A
**
23640863 AATATAATGA
1 AA-ATAAAAA
*
23640873 GAAT-AAAA
1 AAATAAAAA
23640881 AAATAAAAA
1 AAATAAAAA
23640890 AAA-AAAAA
1 AAATAAAAA
23640898 A
1 A
23640899 CATACATTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 11 0.24
9 15 0.33
10 9 0.20
11 11 0.24
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (9 bp):
AAATAAAAA
Found at i:23642404 original size:14 final size:15
Alignment explanation
Indices: 23642375--23642417 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
23642365 ATACTAAATA
23642375 AATAATAATATACAT
1 AATAATAATATACAT
*
23642390 AATAA-AATATTCAT
1 AATAATAATATACAT
23642404 AAATAATACATATA
1 -AATAATA-ATATA
23642418 TTTATCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.35
15 10 0.43
16 1 0.04
17 4 0.17
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATATACAT
Found at i:23643762 original size:40 final size:40
Alignment explanation
Indices: 23643680--23643881 Score: 311
Period size: 40 Copynumber: 5.1 Consensus size: 40
23643670 CAGATGATAA
* * * *
23643680 CCGGGCTAGGTCCCGAAGGC-CTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
23643719 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23643759 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23643799 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23643839 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
23643879 CCG
1 CCG
23643882 ACAAAAATCC
Statistics
Matches: 153, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 21 0.14
40 131 0.86
41 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23651616 original size:40 final size:40
Alignment explanation
Indices: 23651560--23651763 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
23651550 CGGATGATAA
* * * *
23651560 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
23651600 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23651640 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23651680 CTGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23651720 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
23651760 CCGG
1 CCGG
23651764 AAAAATCCCG
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 148 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23653159 original size:38 final size:38
Alignment explanation
Indices: 23653117--23653202 Score: 145
Period size: 38 Copynumber: 2.3 Consensus size: 38
23653107 TACCAATTTT
* *
23653117 ACTGCTTCTGCCCTACTGAGTACATGTTAAGCCTGTCC
1 ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCC
*
23653155 ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCT
1 ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCC
23653193 ACTGCTTCTG
1 ACTGCTTCTG
23653203 TTGAACTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (38 bp):
ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCC
Found at i:23653211 original size:38 final size:38
Alignment explanation
Indices: 23653116--23653231 Score: 133
Period size: 38 Copynumber: 3.1 Consensus size: 38
23653106 TTACCAATTT
* * *
23653116 TACTGCTTCTGCCCTACTGAGTACATGTTAAGCCTGTC
1 TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
* * *
23653154 CACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTC
1 TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
*** * *
23653192 TACTGCTTCTGTTGAACTGAATATATGTCAAGCATGTC
1 TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
23653230 TA
1 TA
23653232 TTATTTCTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (38 bp):
TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
Found at i:23654608 original size:43 final size:42
Alignment explanation
Indices: 23654552--23654726 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 42
23654542 ACATAGGATT
23654552 TTGATTTGTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
1 TTGATTT-TGATTTCGTGTAAGACCACATCTGGGACATTGGCA
* ** *
23654595 TTGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TTGATTT-TGATTT-CGTGTAAGACCACATCTGGGACATTGGCA
* * * *
23654639 -TCATATTTGATTTCGTGTAAGACC-CTATTTAGGACAGTGGCA
1 TTGAT-TTTGATTTCGTGTAAGACCAC-ATCTGGGACATTGGCA
* * * ** *
23654681 TCGATATTTGATTACATGTAAGACCATGTCTGGCACATTGGCA
1 TTGAT-TTTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
23654724 TTG
1 TTG
23654727 TACGAGCTCT
Statistics
Matches: 104, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
42 22 0.21
43 54 0.52
44 28 0.27
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TTGATTTTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
Found at i:23654649 original size:50 final size:44
Alignment explanation
Indices: 23654551--23654662 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
23654541 GACATAGGAT
* *
23654551 TTTGATTTGTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
1 TTTGATTTGAGATTTCGTGTAAGACCACATCTGGGACATCGGCA
**
23654595 -TTGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TTTGATTTGAGATTT-CGTGTAAGACCACATCTGGGACATCGGCA
*
23654639 TCAT-ATTT--GATTTCGTGTAAGACC
1 T-TTGATTTGAGATTTCGTGTAAGACC
23654663 CTATTTAGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 11 0.18
43 18 0.30
44 26 0.43
45 4 0.07
46 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (44 bp):
TTTGATTTGAGATTTCGTGTAAGACCACATCTGGGACATCGGCA
Found at i:23658209 original size:13 final size:13
Alignment explanation
Indices: 23658191--23658217 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23658181 GCTTGAGAAG
23658191 GACACGCCCGTGT
1 GACACGCCCGTGT
23658204 GACACGCCCGTGT
1 GACACGCCCGTGT
23658217 G
1 G
23658218 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:23669467 original size:42 final size:42
Alignment explanation
Indices: 23669420--23669583 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 42
23669410 ATTGGCATCA
*
23669420 ATATGAGTTATCATGTAAGACCATATCTGGGATATGGCGTTG
1 ATATGAGTTATCATGTAAGACCATATCTGGGATATGGCGTCG
* *
23669462 ATATGAGATT-TCGTGTAAGACCACATCTGGGATATGGCGTCG
1 ATATGAG-TTATCATGTAAGACCATATCTGGGATATGGCGTCG
* * * * * *
23669504 AAATGAG-AATTCGTATAAGACCATATCTGGGATATGACATCG
1 ATATGAGTTA-TCATGTAAGACCATATCTGGGATATGGCGTCG
* * ** * *
23669546 ATGTGAGATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATATGAGTTATCATGTAAGACCATATCTGGGATATGGC
23669584 ATTGGCATCT
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 97 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
ATATGAGTTATCATGTAAGACCATATCTGGGATATGGCGTCG
Found at i:23671552 original size:6 final size:6
Alignment explanation
Indices: 23671534--23671635 Score: 165
Period size: 6 Copynumber: 17.5 Consensus size: 6
23671524 GAAGTATAAG
* *
23671534 AAAATA ACAATA AACATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
23671582 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT- AAAAT- AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
23671627 AAAATA AAA
1 AAAATA AAA
23671636 TGAATGGACT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
5 15 0.16
6 76 0.84
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:23673297 original size:4 final size:4
Alignment explanation
Indices: 23673288--23673326 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
23673278 TAACAAATAA
*
23673288 AAAT AAAT AAAT AAAT AAAT AAAT -ATT AAAT AAGAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAA
23673327 GAAAAGGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 25 0.81
5 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:23683785 original size:90 final size:90
Alignment explanation
Indices: 23683632--23683810 Score: 270
Period size: 90 Copynumber: 2.0 Consensus size: 90
23683622 AATTTTCGGC
* *
23683632 AATCCAGTTGTCACACCCTAGAATATATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTAC
1 AATCCAGTTGTCACACCCGAGAATAAATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTAC
23683697 AGGCTCAATGGTTAAGTGATAGTAG
66 AGGCTCAATGGTTAAGTGATAGTAG
* * * *
23683722 AATCCAGTTGTCACACCTCGA-AATAAATATGGTTAAGAAATAAGATTAAAGAAGAAATGAGCTA
1 AATCCAGTTGTCACACC-CGAGAATAAATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTA
* *
23683786 TATGCTCAATGGTTAAGTGATAGTA
65 CAGGCTCAATGGTTAAGTGATAGTA
23683811 CATCCATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 78 0.98
91 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (90 bp):
AATCCAGTTGTCACACCCGAGAATAAATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTAC
AGGCTCAATGGTTAAGTGATAGTAG
Found at i:23687133 original size:64 final size:63
Alignment explanation
Indices: 23687026--23687154 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 63
23687016 GGGATCGACT
* *
23687026 TGGATAGCTTTTTTTTATAAAAATATTTAGACTTATTATTTGAAATTTCTAATATTTGGAAAC
1 TGGATAGCTTTTTTTTATAAAAATATTTAGACTTATTAGTTGAAATTTCTAATATTTAGAAAC
* *
23687089 TGGATAGCTTTTTCTTTATAAAAATATTTAGACTTGTTAGTTGAAATTTCTATTATTTAGAAAC
1 TGGATAGCTTTTT-TTTATAAAAATATTTAGACTTATTAGTTGAAATTTCTAATATTTAGAAAC
23687153 TG
1 TG
23687155 TATTGTTCTA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 13 0.21
64 48 0.79
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (63 bp):
TGGATAGCTTTTTTTTATAAAAATATTTAGACTTATTAGTTGAAATTTCTAATATTTAGAAAC
Found at i:23701799 original size:56 final size:56
Alignment explanation
Indices: 23701631--23701787 Score: 242
Period size: 56 Copynumber: 2.8 Consensus size: 56
23701621 CATGGCATCG
* * *
23701631 ATATATGTGTGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCAAT
1 ATATATGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGAT
* *
23701687 ATATGTGTGCAAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGAT
1 ATATATGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGAT
* * *
23701743 ATTTATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATAT
1 ATATATGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATAT
23701788 TTGGTTTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (56 bp):
ATATATGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGAT
Found at i:23726948 original size:18 final size:19
Alignment explanation
Indices: 23726907--23726949 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
23726897 CCGTGCATCA
*
23726907 TGCCCGTGTGGGCCCACAC
1 TGCCCATGTGGGCCCACAC
*
23726926 -ACCCATGT-GGCCCACAC
1 TGCCCATGTGGGCCCACAC
23726943 TGCCCAT
1 TGCCCAT
23726950 CTTGGTCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.16
Consensus pattern (19 bp):
TGCCCATGTGGGCCCACAC
Found at i:23745374 original size:60 final size:60
Alignment explanation
Indices: 23745288--23745424 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 60
23745278 CAGAGCTATT
* *
23745288 TGGGCCTTAGCCCAGAACAATATTAATCTAGGCCATAGCCCCA-TAC-AGTATCAGAGTATAC
1 TGGGCC-TAGCCCATATCAATATTAATCTAGGCCATAGCCCCATTACAAGTA-CAGA-TATAC
* * * * * * *
23745349 TGGGCCTAGCCCATATCAGTATTAATCTGGGTCGTAGCCCTATTACAAGTAGAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCCATTACAAGTACAGATATAC
*
23745409 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
23745425 TAACACAGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 48 0.75
61 12 0.19
62 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCCATTACAAGTACAGATATAC
Found at i:23745442 original size:20 final size:19
Alignment explanation
Indices: 23745417--23745460 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
23745407 ATTGGGCCTT
23745417 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
23745437 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
23745456 GCCCA
1 GCCCA
23745461 CAGCAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:23747856 original size:19 final size:18
Alignment explanation
Indices: 23747819--23747862 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23747809 ATACATACAG
23747819 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
23747836 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
23747855 TACTAATT
1 TAATAATT
23747863 AAAATTTCAT
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:23748699 original size:21 final size:21
Alignment explanation
Indices: 23748673--23748712 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23748663 GTTTGGTTGT
23748673 CTACACACTCATGTAGAGGCC
1 CTACACACTCATGTAGAGGCC
* *
23748694 CTACACACTCGTGTGGAGG
1 CTACACACTCATGTAGAGG
23748713 GGGCAGACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (21 bp):
CTACACACTCATGTAGAGGCC
Found at i:23755270 original size:13 final size:13
Alignment explanation
Indices: 23755252--23755277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23755242 TCTCAATTCG
23755252 GTGGAAAATGAGC
1 GTGGAAAATGAGC
23755265 GTGGAAAATGAGC
1 GTGGAAAATGAGC
23755278 ACCAGGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.38, T:0.15
Consensus pattern (13 bp):
GTGGAAAATGAGC
Found at i:23761477 original size:25 final size:25
Alignment explanation
Indices: 23761449--23761497 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
23761439 CCAGTAGGAG
*
23761449 TGTAACTCTTCCATTGATCAACCAA
1 TGTAACTCTTCCACTGATCAACCAA
23761474 TGTAACTCTTCCACTGATCAACCA
1 TGTAACTCTTCCACTGATCAACCA
23761498 CCGATAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (25 bp):
TGTAACTCTTCCACTGATCAACCAA
Found at i:23761871 original size:13 final size:13
Alignment explanation
Indices: 23761855--23761879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23761845 TTTTTCAAGA
23761855 AAATTCTTTAATC
1 AAATTCTTTAATC
23761868 AAATTCTTTAAT
1 AAATTCTTTAAT
23761880 TGAATAATTC
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:23778328 original size:27 final size:28
Alignment explanation
Indices: 23778244--23778341 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
23778234 TAAATTGTAC
*
23778244 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
23778272 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
23778300 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
23778327 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23778342 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
27 22 0.34
28 42 0.66
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:23781736 original size:47 final size:47
Alignment explanation
Indices: 23781683--23781867 Score: 262
Period size: 47 Copynumber: 3.9 Consensus size: 47
23781673 GATAATTGTG
** *
23781683 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGACAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
23781730 ATGTGAACATGCATATATGTGATAAGGTCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
23781777 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCATTGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
23781824 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
23781868 AATATATGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Done.