Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 35 of 75
Found at i:11057875 original size:83 final size:83
Alignment explanation
Indices: 11057777--11057942 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
11057767 AAGAATAAAG
* * * * *
11057777 AGATAGGAAAGCAAAAGAGAATTGTGTAATTTATTTATAATGAGAATATGCTTTTCCTAAGTTTA
1 AGATAGAAAAGCAAAAGAGAACTGTGTAATTTATTTATAATGAGAATATGCTTCTCCAAAGTCTA
11057842 TATTTATAAACATAAGAA
66 TATTTATAAACATAAGAA
11057860 AGATAGAAAAGCAAAAGAGAACTGTGTAATTTATTTATAATGAGAATATGCTTCTCCAAAGTCTA
1 AGATAGAAAAGCAAAAGAGAACTGTGTAATTTATTTATAATGAGAATATGCTTCTCCAAAGTCTA
* *
11057925 TATTTATAGATATAAGAA
66 TATTTATAAACATAAGAA
11057943 GTATATATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (83 bp):
AGATAGAAAAGCAAAAGAGAACTGTGTAATTTATTTATAATGAGAATATGCTTCTCCAAAGTCTA
TATTTATAAACATAAGAA
Found at i:11062305 original size:38 final size:39
Alignment explanation
Indices: 11062249--11062322 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 39
11062239 TATTATTTCA
*
11062249 CATATATATAAATTAATAAATATAATCATACAATTCAAC
1 CATATATATAAATTAATAAATATAATCATAAAATTCAAC
11062288 CATA-ATATAAATTAATAAATATAATCATAAAATTC
1 CATATATATAAATTAATAAATATAATCATAAAATTC
11062323 CATATGAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 30 0.88
39 4 0.12
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (39 bp):
CATATATATAAATTAATAAATATAATCATAAAATTCAAC
Found at i:11080234 original size:133 final size:132
Alignment explanation
Indices: 11080015--11080265 Score: 387
Period size: 133 Copynumber: 1.9 Consensus size: 132
11080005 AAACGATTGG
11080015 ATTTATTTAAGAAACTAAAGTCTATGGGTAAGCCCCTAGGCAAAGGCCAAAAGTTTGAAATATTG
1 ATTTATTTAAGAAACTAAAGTCTATGGGTAAGCCCCTAGGCAAAGGCCAAAAGTTTGAAATATTG
* *
11080080 TCTAGAAGAATAGAGATTAAGGAATTAGTTTTAAGTGTTCAACGTTAGAATTTTTGAAAATGATT
66 TCTAGAAGAATAAAGATTAAGGAATTAGTTTTAAGTGTTCAACGGTAGAATTTTTGAAAATGATT
11080145 AA
131 AA
* * * ** *
11080147 ATTTATTTAAGAAATTGAAGTCTATGGGTAAGCCCCTCGGTGAA-GCCTTGAAAGTTTGAAATAT
1 ATTTATTTAAGAAACTAAAGTCTATGGGTAAGCCCCTAGGCAAAGGCC--AAAAGTTTGAAATAT
* *
11080211 TGTCTAGAAGAATAAAGCTTAAGGAATTAGTTTTAAGTGTTCAACGGTAGGATTT
64 TGTCTAGAAGAATAAAGATTAAGGAATTAGTTTTAAGTGTTCAACGGTAGAATTT
11080266 GACTAAGTGT
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
131 3 0.03
132 39 0.36
133 65 0.61
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (132 bp):
ATTTATTTAAGAAACTAAAGTCTATGGGTAAGCCCCTAGGCAAAGGCCAAAAGTTTGAAATATTG
TCTAGAAGAATAAAGATTAAGGAATTAGTTTTAAGTGTTCAACGGTAGAATTTTTGAAAATGATT
AA
Found at i:11081891 original size:27 final size:29
Alignment explanation
Indices: 11081836--11081907 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 29
11081826 ATCGGTAAAT
* * *
11081836 AATGACCTTTGTGGCCTTTTTCTGTTAAAA-
1 AATG-CCTTTATGG-CTATTTCTGCTAAAAG
11081866 AA-GCCTTTATGGCTATTTCTGCTAAAAG
1 AATGCCTTTATGGCTATTTCTGCTAAAAG
*
11081894 AATGCCTTTGTGGC
1 AATGCCTTTATGGC
11081908 AATTAGTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.36
28 10 0.28
29 11 0.31
30 2 0.06
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (29 bp):
AATGCCTTTATGGCTATTTCTGCTAAAAG
Found at i:11082060 original size:28 final size:27
Alignment explanation
Indices: 11082029--11082118 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
11082019 AGTCTCTAGA
*
11082029 AAAGAACGCCTTTATGGCTGACTCTATT
1 AAAGAA-GCCTTTGTGGCTGACTCTATT
*
11082057 AAAGAAAGCATTTGTGGCTGACTCTATT
1 AAAG-AAGCCTTTGTGGCTGACTCTATT
* *
11082085 AAAGGAAGCCTTTGTGGTTGACTCTTTT
1 AAA-GAAGCCTTTGTGGCTGACTCTATT
11082113 AAAGAA
1 AAAGAA
11082119 ACCCTCGCGG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 3 0.05
28 49 0.89
29 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAGAAGCCTTTGTGGCTGACTCTATT
Found at i:11098513 original size:17 final size:17
Alignment explanation
Indices: 11098491--11098523 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11098481 TCCCAGGTTT
11098491 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
11098508 TGATACCCATATCTTT
1 TGATACCCATATCTTT
11098524 AACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:11119877 original size:29 final size:29
Alignment explanation
Indices: 11119839--11119899 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
11119829 AAGTAATTAA
* *
11119839 TATTATATATGAAAGATATAAACTTATAT
1 TATTATATATAAAAGATATAAACTTAAAT
*
11119868 TATTATATATAAAATATATAAACTTAAAT
1 TATTATATATAAAAGATATAAACTTAAAT
11119897 TAT
1 TAT
11119900 AATAGCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TATTATATATAAAAGATATAAACTTAAAT
Found at i:11120203 original size:22 final size:21
Alignment explanation
Indices: 11120178--11120232 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
11120168 AAAAATCTTT
11120178 AAATTTGAAAAAAAAATACAAA
1 AAATTT-AAAAAAAAATACAAA
* * *
11120200 AAATTATAAAAAAAATTAGAGA
1 AAATT-TAAAAAAAAATACAAA
*
11120222 AAATTTTAAAA
1 AAATTTAAAAA
11120233 TATGTATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.18
22 22 0.79
23 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (21 bp):
AAATTTAAAAAAAAATACAAA
Found at i:11123045 original size:25 final size:25
Alignment explanation
Indices: 11123017--11123065 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11123007 AATACTTATA
*
11123017 TGAG-CATGTAAACGGGAAGCTCATG
1 TGAGTCATGT-AACGGAAAGCTCATG
11123042 TGAGTCATGTAACGGAAAGCTCAT
1 TGAGTCATGTAACGGAAAGCTCAT
11123066 AAGAGCTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (25 bp):
TGAGTCATGTAACGGAAAGCTCATG
Found at i:11123153 original size:25 final size:25
Alignment explanation
Indices: 11123125--11123202 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
11123115 AGAACCGTTA
* *
11123125 ATCAGGAAGCTCATGACAGCCAGAT
1 ATCAGGAAGCTCATGAGAGCCAAAT
*
11123150 ATCAGGAAGCTCGTGAGAGCCAAAT
1 ATCAGGAAGCTCATGAGAGCCAAAT
* * *
11123175 AACAGGAAGCTCAAGAGAGCCATAT
1 ATCAGGAAGCTCATGAGAGCCAAAT
11123200 ATC
1 ATC
11123203 GATAAATACA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.15
Consensus pattern (25 bp):
ATCAGGAAGCTCATGAGAGCCAAAT
Found at i:11123357 original size:25 final size:25
Alignment explanation
Indices: 11123309--11123357 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11123299 TCCGAGCTAT
* * **
11123309 ATATAACGGGAAGCTCATGTGAGTC
1 ATATAACAGAAAGCTCATAAGAGTC
11123334 ATATAACAGAAAGCTCATAAGAGT
1 ATATAACAGAAAGCTCATAAGAGT
11123358 TGTAATCAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (25 bp):
ATATAACAGAAAGCTCATAAGAGTC
Found at i:11123541 original size:25 final size:25
Alignment explanation
Indices: 11123417--11123555 Score: 127
Period size: 25 Copynumber: 5.6 Consensus size: 25
11123407 GTTAATCAGA
* *
11123417 AAGCTCATGAGAGCCAGATATCGAG
1 AAGCTCATGAGAGCCAAATATCGGG
* * *
11123442 AAGCTCGTGAGAGCCAAATAACAGG
1 AAGCTCATGAGAGCCAAATATCGGG
* *
11123467 AAGCTCAAGAGAGCCATATATCGGG
1 AAGCTCATGAGAGCCAAATATCGGG
* * * *
11123492 AAGTTCATAAGAGCTAAATAACGGG
1 AAGCTCATGAGAGCCAAATATCGGG
* * *
11123517 CAGATCATGAGAGCCATATATCGGG
1 AAGCTCATGAGAGCCAAATATCGGG
*
11123542 ACA-CTCATAAGAGC
1 A-AGCTCATGAGAGC
11123556 TGTGGTGAGT
Statistics
Matches: 88, Mismatches: 25, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
25 87 0.99
26 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (25 bp):
AAGCTCATGAGAGCCAAATATCGGG
Found at i:11123556 original size:50 final size:50
Alignment explanation
Indices: 11123421--11123556 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
11123411 ATCAGAAAGC
* * * * * *
11123421 TCATGAGAGCCAGATATCGAGAAGCTCGTGAGAGCCAAATAACAGGAAGC
1 TCATGAGAGCCATATATCGGGAAGCTCATAAGAGCTAAATAACAGGAAGA
* * * *
11123471 TCAAGAGAGCCATATATCGGGAAGTTCATAAGAGCTAAATAACGGGCAGA
1 TCATGAGAGCCATATATCGGGAAGCTCATAAGAGCTAAATAACAGGAAGA
11123521 TCATGAGAGCCATATATCGGGACA-CTCATAAGAGCT
1 TCATGAGAGCCATATATCGGGA-AGCTCATAAGAGCT
11123557 GTGGTGAGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 72 0.99
51 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.18
Consensus pattern (50 bp):
TCATGAGAGCCATATATCGGGAAGCTCATAAGAGCTAAATAACAGGAAGA
Found at i:11125965 original size:25 final size:25
Alignment explanation
Indices: 11125937--11126010 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
11125927 TAAACTCCTC
*
11125937 CGAGCTGAATAACGATAAGCTCTTT
1 CGAGCTGAATAACGATAAGCTCATT
* *
11125962 CGAGCTGAATAACGGTAAGTTCATT
1 CGAGCTGAATAACGATAAGCTCATT
* *
11125987 CGAGCTGAATATCAATAAGCTCAT
1 CGAGCTGAATAACGATAAGCTCAT
11126011 ACAAGATGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (25 bp):
CGAGCTGAATAACGATAAGCTCATT
Found at i:11125966 original size:49 final size:50
Alignment explanation
Indices: 11125906--11126008 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
11125896 GAATCGGTAT
* *
11125906 GCTCTTACGAGCT--ATAAACGGTAAACTCCTCCGAGCTGAATAACGATAA
1 GCTCTTACGAGCTGAAT-AACGGTAAACTCATCCGAGCTGAATAACAATAA
* ** * *
11125955 GCTCTTTCGAGCTGAATAACGGTAAGTTCATTCGAGCTGAATATCAATAA
1 GCTCTTACGAGCTGAATAACGGTAAACTCATCCGAGCTGAATAACAATAA
11126005 GCTC
1 GCTC
11126009 ATACAAGATG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 12 0.27
50 31 0.69
51 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
GCTCTTACGAGCTGAATAACGGTAAACTCATCCGAGCTGAATAACAATAA
Found at i:11129830 original size:25 final size:25
Alignment explanation
Indices: 11129775--11129844 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
11129765 AGCTATAAAT
* *
11129775 GGTAAGCTCCTCCGAGCTGAATAAC
1 GGTAAGCTCTTTCGAGCTGAATAAC
**
11129800 AATAAGCTCTTTCGAGCTGAATAAC
1 GGTAAGCTCTTTCGAGCTGAATAAC
*
11129825 GGTAAGTTCATTT-GAGCTGA
1 GGTAAGCTC-TTTCGAGCTGA
11129845 GTATCAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 34 0.92
26 3 0.08
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCTTTCGAGCTGAATAAC
Found at i:11136669 original size:58 final size:58
Alignment explanation
Indices: 11136605--11136733 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 58
11136595 GAATGAATAG
* *
11136605 AAATAGAGAAATGAAAAAT-ATTTAGGGAATG-ATTATGATTTTCTCCAAATGAAAATGA
1 AAATAGAGAAATGAAAAATCATTT-GGAAATGAATT-TGATTTTCTCAAAATGAAAATGA
* *
11136663 AAATAGAGAAAATG--GAATCATTTGGAAATGAATTTGATTTTCTCAAAATGGAAATGA
1 AAATAGAG-AAATGAAAAATCATTTGGAAATGAATTTGATTTTCTCAAAATGAAAATGA
11136720 AAAT-GAGAAATGAA
1 AAATAGAGAAATGAA
11136734 TTCATTTAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
55 5 0.08
56 3 0.05
57 34 0.55
58 15 0.24
59 5 0.08
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.28
Consensus pattern (58 bp):
AAATAGAGAAATGAAAAATCATTTGGAAATGAATTTGATTTTCTCAAAATGAAAATGA
Found at i:11136702 original size:57 final size:55
Alignment explanation
Indices: 11136632--11136746 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 55
11136622 ATATTTAGGG
* *
11136632 AATGATTATGATTTTCTCCAAATGAAAATGAAAATAGAGAAAATGGAA-TCATTTGGA
1 AATGATTATGATTTTCTCAAAATGAAAATGAAAAT-GAG-AAAT-GAATTCATTTAGA
*
11136689 AATGAATT-TGATTTTCTCAAAATGGAAATGAAAATGAGAAATGAATTCATTTAGA
1 AATG-ATTATGATTTTCTCAAAATGAAAATGAAAATGAGAAATGAATTCATTTAGA
11136744 AAT
1 AAT
11136747 AGAAAATGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
54 3 0.06
55 15 0.28
56 3 0.06
57 29 0.55
58 3 0.06
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (55 bp):
AATGATTATGATTTTCTCAAAATGAAAATGAAAATGAGAAATGAATTCATTTAGA
Found at i:11136761 original size:55 final size:57
Alignment explanation
Indices: 11136639--11136765 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 57
11136629 GGGAATGATT
* * * *
11136639 ATGATTTTCTCCAAATGAAAATGAAAATAGAGAAAATGGAATCATTTGGAAATGAAT
1 ATGATATTCTCAAAATGAAAATGAAAATAGAGAAAATGGAATCATTTAGAAATGAAA
* * *
11136696 TTGATTTTCTCAAAATGGAAATGAAAAT-GAG-AAAT-GAATTCATTTAGAAATAGAAA
1 ATGATATTCTCAAAATGAAAATGAAAATAGAGAAAATGGAA-TCATTTAGAAAT-GAAA
11136752 ATGA-ATTCTCAAAA
1 ATGATATTCTCAAAA
11136766 ATAATCAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
54 3 0.05
55 24 0.39
56 9 0.15
57 25 0.41
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (57 bp):
ATGATATTCTCAAAATGAAAATGAAAATAGAGAAAATGGAATCATTTAGAAATGAAA
Found at i:11137941 original size:6 final size:6
Alignment explanation
Indices: 11137925--11137975 Score: 75
Period size: 6 Copynumber: 8.3 Consensus size: 6
11137915 TTTCTTTCCA
* *
11137925 TTCTCTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTC TTATTT TTCTTT
1 TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
11137974 TT
1 TT
11137976 ACTTGTTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 36 0.90
7 4 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:11142420 original size:473 final size:474
Alignment explanation
Indices: 11141552--11142498 Score: 1871
Period size: 473 Copynumber: 2.0 Consensus size: 474
11141542 TGAAGGCCTT
11141552 TTTTATGCATTTTGAAAGTTTAAGTACTCAATTGAGTGCAAAAAAAAAAAACGCAAGTACTTAAT
1 TTTTATGCATTTTGAAAGTTTAAGTACTCAATTGAGTGCAAAAAAAAAAAACGCAAGTACTTAAT
11141617 TGCCTTTTTTGAAAAAAATTGAAGGTTTTTTACTTTTTAAATTTTTCTTAACAACAATTCTAATA
66 TGCCTTTTTTGAAAAAAATTGAAGGTTTTTTACTTTTTAAATTTTTCTTAACAACAATTCTAATA
11141682 TATTTTTAAAAATATTTAATTTTAAATATAAATTATTAAAAATATATGACCAATAAGTAACATTG
131 TATTTTTAAAAATATTTAATTTTAAATATAAATTATTAAAAATATATGACCAATAAGTAACATTG
11141747 GATCATTTCCCGTATACAAAACTGAAACAAACCTCTCTGGCATATATAAACAAATTTTATAAAGG
196 GATCATTTCCCGTATACAAAACTGAAACAAACCTCTCTGGCATATATAAACAAATTTTATAAAGG
11141812 TCTTAGTTTCCGTGATTCTCTCAGTAACCCATCAATTATTCAGGGAATAATAGTCCCATTAAAAA
261 TCTTAGTTTCCGTGATTCTCTCAGTAACCCATCAATTATTCAGGGAATAATAGTCCCATTAAAAA
11141877 ATACAGGAAAAGGAAAACCAAAAACATCCATTAATTTTTTTTAAAAGGTGAACTTTTGAAAGAAA
326 ATACAGGAAAAGGAAAACCAAAAACATCCATTAATTTTTTTTAAAAGGTGAACTTTTGAAAGAAA
11141942 TTTAAAGTTACCATCTTAGGCTTCCTTTAGATTCGCGTTCAACCTCAGTGCAGTGAGATTTATAT
391 TTTAAAGTTACCATCTTAGGCTTCCTTTAGATTCGCGTTCAACCTCAGTGCAGTGAGATTTATAT
11142007 GAAAAATTGTGCAATCGCA
456 GAAAAATTGTGCAATCGCA
11142026 TTTTATGCA-TTTGAAAGTTTAAGTACTCAATTGAGTGCAAAAAAAAAAAACGCAA-TGACTTAA
1 TTTTATGCATTTTGAAAGTTTAAGTACTCAATTGAGTGCAAAAAAAAAAAACGCAAGT-ACTTAA
11142089 TTGCCTTTTTTGAAAAAAATTGAAGGTTTTTTACTTTTTAAATTTTTCTTAACAACAATTCTAAT
65 TTGCCTTTTTTGAAAAAAATTGAAGGTTTTTTACTTTTTAAATTTTTCTTAACAACAATTCTAAT
11142154 ATATTTTTAAAAATATTTAATTTTAAATATAAATTATTAAAAATATATGACCAATAAGTAACATT
130 ATATTTTTAAAAATATTTAATTTTAAATATAAATTATTAAAAATATATGACCAATAAGTAACATT
11142219 GGATCATTTCCCGTATACAAAACTGAAACAAACCTCTCTGGCATATATAAACAAATTTTATAAAG
195 GGATCATTTCCCGTATACAAAACTGAAACAAACCTCTCTGGCATATATAAACAAATTTTATAAAG
11142284 GTCTTAGTTTCCGTGATTCTCTCAGTAACCCATCAATTATTCAGGGAATAATAGTCCCATTAAAA
260 GTCTTAGTTTCCGTGATTCTCTCAGTAACCCATCAATTATTCAGGGAATAATAGTCCCATTAAAA
11142349 AATACAGGAAAAGGAAAACCAAAAACATCCATTAATTTTTTTTAAAAGGTGAACTTTTGAAAGAA
325 AATACAGGAAAAGGAAAACCAAAAACATCCATTAATTTTTTTTAAAAGGTGAACTTTTGAAAGAA
11142414 ATTTAAAGTTACCATCTTAGGCTTCCTTTAGATTCGCGTTCAACCTCAGTGCAGTGAGATTTATA
390 ATTTAAAGTTACCATCTTAGGCTTCCTTTAGATTCGCGTTCAACCTCAGTGCAGTGAGATTTATA
11142479 TGAAAAATTGTGCAATCGCA
455 TGAAAAATTGTGCAATCGCA
11142499 ACTCAATATT
Statistics
Matches: 472, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
472 1 0.00
473 462 0.98
474 9 0.02
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (474 bp):
TTTTATGCATTTTGAAAGTTTAAGTACTCAATTGAGTGCAAAAAAAAAAAACGCAAGTACTTAAT
TGCCTTTTTTGAAAAAAATTGAAGGTTTTTTACTTTTTAAATTTTTCTTAACAACAATTCTAATA
TATTTTTAAAAATATTTAATTTTAAATATAAATTATTAAAAATATATGACCAATAAGTAACATTG
GATCATTTCCCGTATACAAAACTGAAACAAACCTCTCTGGCATATATAAACAAATTTTATAAAGG
TCTTAGTTTCCGTGATTCTCTCAGTAACCCATCAATTATTCAGGGAATAATAGTCCCATTAAAAA
ATACAGGAAAAGGAAAACCAAAAACATCCATTAATTTTTTTTAAAAGGTGAACTTTTGAAAGAAA
TTTAAAGTTACCATCTTAGGCTTCCTTTAGATTCGCGTTCAACCTCAGTGCAGTGAGATTTATAT
GAAAAATTGTGCAATCGCA
Found at i:11143174 original size:39 final size:39
Alignment explanation
Indices: 11143120--11143198 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
11143110 TTCCGGTGAT
*
11143120 CCCTTGGCGAATGACGCGAGTGTTTTTGTCTACGAAAAC
1 CCCTTGGCAAATGACGCGAGTGTTTTTGTCTACGAAAAC
11143159 CCCTTGGCAAATGACGCGAGTGTTTTTGTCTACGAAAAC
1 CCCTTGGCAAATGACGCGAGTGTTTTTGTCTACGAAAAC
11143198 C
1 C
11143199 ACCGGTTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (39 bp):
CCCTTGGCAAATGACGCGAGTGTTTTTGTCTACGAAAAC
Found at i:11144888 original size:87 final size:87
Alignment explanation
Indices: 11144742--11144923 Score: 337
Period size: 87 Copynumber: 2.1 Consensus size: 87
11144732 CAACAAATGA
11144742 TAAAATCATCAATGCATAAAAACTTATAAAATATAGAACTTGACTGATGCACTTTAACAAATTGT
1 TAAAATCATCAATGCATAAAAACTTATAAAATATAGAACTTGACTGATGCACTTTAACAAATTGT
11144807 TTAAACTTAAACCAGATAAGTG
66 TTAAACTTAAACCAGATAAGTG
* *
11144829 TAAAATCATCAATGCGTAAAAACTTATAAAATATAGAACTTGACTGATGCATTTTAACAAATTGT
1 TAAAATCATCAATGCATAAAAACTTATAAAATATAGAACTTGACTGATGCACTTTAACAAATTGT
11144894 TTAAACTTAAACCAGATAAGTG
66 TTAAACTTAAACCAGATAAGTG
*
11144916 TAATATCA
1 TAAAATCA
11144924 ATGTTAGTCA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (87 bp):
TAAAATCATCAATGCATAAAAACTTATAAAATATAGAACTTGACTGATGCACTTTAACAAATTGT
TTAAACTTAAACCAGATAAGTG
Found at i:11147092 original size:125 final size:126
Alignment explanation
Indices: 11146935--11147186 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 126
11146925 TTTCTATTTG
11146935 ACAACCGAAATTTATTTTATAATAAAATAATATTTTATAATAATTAATATCCCATATACCTTTAA
1 ACAACCGAAATTTATTTTATAATAAAATAATATTTTATAATAATTAATATCCCATATACCTTTAA
11147000 TAATAATCAGTGTCTAATTAAAATTTAATTTGAAGTACCAATAGGTGGTTGGGAGAAGTAA
66 TAATAATCAGTGTCTAATTAAAATTTAATTTGAAGTACCAATAGGTGGTTGGGAGAAGTAA
11147061 ACAACCGAAA-TTATTTTATAATAAAATAATATTTTATAATAATTAATATCCCATATACCTTTAA
1 ACAACCGAAATTTATTTTATAATAAAATAATATTTTATAATAATTAATATCCCATATACCTTTAA
11147125 TAATAATCAGTGTCTAATTAAAATTTAATTTGAAGTACCAATAGGTGGTTGGGAGAAGTAA
66 TAATAATCAGTGTCTAATTAAAATTTAATTTGAAGTACCAATAGGTGGTTGGGAGAAGTAA
11147186 A
1 A
11147187 AGTAGAGTTC
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 116 0.92
126 10 0.08
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (126 bp):
ACAACCGAAATTTATTTTATAATAAAATAATATTTTATAATAATTAATATCCCATATACCTTTAA
TAATAATCAGTGTCTAATTAAAATTTAATTTGAAGTACCAATAGGTGGTTGGGAGAAGTAA
Found at i:11151629 original size:18 final size:18
Alignment explanation
Indices: 11151583--11151633 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
11151573 AGCTCTCAGG
11151583 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
11151601 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
11151619 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
11151634 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:11152353 original size:12 final size:12
Alignment explanation
Indices: 11152338--11152365 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11152328 GCCGTTTGTG
11152338 TGTTCGATATAA
1 TGTTCGATATAA
11152350 TGTTCGATATAA
1 TGTTCGATATAA
11152362 TGTT
1 TGTT
11152366 TTCTGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (12 bp):
TGTTCGATATAA
Found at i:11153790 original size:13 final size:13
Alignment explanation
Indices: 11153772--11153799 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11153762 CTTCTACAAG
11153772 TAAACTTCATAAA
1 TAAACTTCATAAA
11153785 TAAACTTCATAAA
1 TAAACTTCATAAA
11153798 TA
1 TA
11153800 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:11154046 original size:20 final size:20
Alignment explanation
Indices: 11154021--11154058 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11154011 AATATTTTCC
*
11154021 AGTAAATCATTTTACAGACA
1 AGTAAAACATTTTACAGACA
*
11154041 AGTAAAACATTTTCCAGA
1 AGTAAAACATTTTACAGA
11154059 AATCATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (20 bp):
AGTAAAACATTTTACAGACA
Found at i:11154079 original size:14 final size:15
Alignment explanation
Indices: 11154041--11154083 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
11154031 TTTACAGACA
*
11154041 AGTAAAACATTTTCC
1 AGTAAAACATTTTAC
*
11154056 AG-AAATCATTTTAC
1 AGTAAAACATTTTAC
11154070 -GTAAAACATTTTAC
1 AGTAAAACATTTTAC
11154084 TGGCAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 21 0.88
15 2 0.08
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (15 bp):
AGTAAAACATTTTAC
Found at i:11155664 original size:43 final size:44
Alignment explanation
Indices: 11155537--11155665 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 44
11155527 ATAGGATTTC
*
11155537 ATTATGTG-TTATCGTGTAAGACCGCGTCTGGGACGTTGGCATCG
1 ATTATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCG
* ** *
11155581 ACT-TGTGACTTACGTGTAAGACCTTGTCTGGGATAG-TGGCATCG
1 ATTATGTGA-TTACGTGTAAGACCACGTCTGGGA-CGTTGGCATCG
* *
11155625 -TTATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 ATTATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
11155666 TGTATGAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 31 0.44
44 34 0.49
45 4 0.06
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (44 bp):
ATTATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:11158089 original size:3 final size:3
Alignment explanation
Indices: 11158083--11158128 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
11158073 ATATGTTATT
11158083 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11158129 ATGAAAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11158984 original size:16 final size:15
Alignment explanation
Indices: 11158963--11158992 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11158953 GTGAGTTGGA
11158963 TATATATATGTATAAT
1 TATATATA-GTATAAT
11158979 TATATATAGTATAA
1 TATATATAGTATAA
11158993 ATGTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATATAGTATAAT
Found at i:11164229 original size:21 final size:21
Alignment explanation
Indices: 11164189--11164229 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11164179 TCAAAGGTAA
*
11164189 ATAAACAATATCATACACTTT
1 ATAAACAATATCATAAACTTT
11164210 ATAAA-AATATCATCAAACTT
1 ATAAACAATATCAT-AAACTT
11164230 ACAACTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAACAATATCATAAACTTT
Found at i:11164961 original size:57 final size:58
Alignment explanation
Indices: 11164863--11164988 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 58
11164853 AAGGCATCGC
*
11164863 AACACATCCCTTCTAAACACACCAAAGAGCACCTAAGTGCTAAACCCAAAGGCAAGAG
1 AACACATCCCTTCTAAACACACCAAAGAGCACCTAAGTGCTAAACCCAAAGGCAACAG
* *** *
11164921 ATCACATCCCTTC-AAACACACTTGAGAGCACAC-AAGTGCTAAACCCGAAGGCAACAG
1 AACACATCCCTTCTAAACACACCAAAGAGCAC-CTAAGTGCTAAACCCAAAGGCAACAG
11164978 AACACATCCCT
1 AACACATCCCT
11164989 ATTGGCATGC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 47 0.78
58 13 0.22
ACGTcount: A:0.40, C:0.33, G:0.13, T:0.13
Consensus pattern (58 bp):
AACACATCCCTTCTAAACACACCAAAGAGCACCTAAGTGCTAAACCCAAAGGCAACAG
Found at i:11165824 original size:20 final size:20
Alignment explanation
Indices: 11165801--11165845 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11165791 AAGATGTTCA
11165801 ATAATCCAATAAGAAATTCT
1 ATAATCCAATAAGAAATTCT
***
11165821 ATAATTTTATAAGAAATTCT
1 ATAATCCAATAAGAAATTCT
11165841 ATAAT
1 ATAAT
11165846 TTTTAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (20 bp):
ATAATCCAATAAGAAATTCT
Found at i:11165845 original size:40 final size:40
Alignment explanation
Indices: 11165769--11165845 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
11165759 TTATAATATG
* * **
11165769 ATAAGAGATTCAATAATGTTGTAAGATGTTCAATAATCCA
1 ATAAGAAATTCAATAATGTTATAAGAAATTCAATAATCCA
* * *
11165809 ATAAGAAATTCTATAATTTTATAAGAAATTCTATAAT
1 ATAAGAAATTCAATAATGTTATAAGAAATTCAATAAT
11165846 TTTTAATAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (40 bp):
ATAAGAAATTCAATAATGTTATAAGAAATTCAATAATCCA
Found at i:11165846 original size:20 final size:20
Alignment explanation
Indices: 11165809--11165848 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11165799 CAATAATCCA
11165809 ATAAGAAATTCTATAATTTT
1 ATAAGAAATTCTATAATTTT
11165829 ATAAGAAATTCTATAATTTT
1 ATAAGAAATTCTATAATTTT
11165849 TAATAATTTT
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:0.05, T:0.45
Consensus pattern (20 bp):
ATAAGAAATTCTATAATTTT
Found at i:11165857 original size:30 final size:30
Alignment explanation
Indices: 11165821--11165877 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11165811 AAGAAATTCT
*
11165821 ATAATTTTATAA-GAAATTCTATAATTTTTA
1 ATAATTTTA-AAGGAAATTCAATAATTTTTA
*
11165851 ATAATTTTAAAGGAGATTCAATAATTT
1 ATAATTTTAAAGGAAATTCAATAATTT
11165878 ACAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (30 bp):
ATAATTTTAAAGGAAATTCAATAATTTTTA
Found at i:11167349 original size:11 final size:11
Alignment explanation
Indices: 11167319--11167350 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
11167309 AAAAGAAAAA
11167319 ATTATAAAATT
1 ATTATAAAATT
11167330 ATT-TAAAATT
1 ATTATAAAATT
11167340 ATTATAAAATT
1 ATTATAAAATT
11167351 TTAACATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTATAAAATT
Found at i:11167519 original size:19 final size:19
Alignment explanation
Indices: 11167495--11167558 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
11167485 GTAGATTATG
11167495 AATTTTTAAATTTTTTAAT
1 AATTTTTAAATTTTTTAAT
** *
11167514 AATTTTCGAA-GTTTTAAT
1 AATTTTTAAATTTTTTAAT
* * *
11167532 ATTTTTTGAGTTTTTTAAT
1 AATTTTTAAATTTTTTAAT
11167551 --TTTTTAAA
1 AATTTTTAAA
11167559 AATTTTCTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
17 6 0.17
18 14 0.40
19 15 0.43
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (19 bp):
AATTTTTAAATTTTTTAAT
Found at i:11167546 original size:18 final size:20
Alignment explanation
Indices: 11167505--11167555 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
11167495 AATTTTTAAA
*
11167505 TTTTTTAATAATTTTCGAAG
1 TTTTTTAATATTTTTCGAAG
*
11167525 --TTTTAATATTTTTTG-AG
1 TTTTTTAATATTTTTCGAAG
11167542 TTTTTTAAT-TTTTT
1 TTTTTTAATATTTTT
11167556 AAAAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 2 0.07
18 18 0.67
19 7 0.26
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTTTAATATTTTTCGAAG
Found at i:11175489 original size:21 final size:21
Alignment explanation
Indices: 11175464--11175504 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11175454 TCAAACATGG
*
11175464 CCGTGTGGCTA-TCTCACACAT
1 CCGTGTGACTACTC-CACACAT
11175485 CCGTGTGACTACTCCACACA
1 CCGTGTGACTACTCCACACA
11175505 CCTGTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (21 bp):
CCGTGTGACTACTCCACACAT
Found at i:11175525 original size:147 final size:147
Alignment explanation
Indices: 11175258--11175560 Score: 455
Period size: 147 Copynumber: 2.1 Consensus size: 147
11175248 CCTACAGTGG
* *
11175258 TCACACGCCGTCTGTCCAGAACGTTTGATAGAGCCTAGACTGTATGGCTCCAAACATGGCTATGT
1 TCACACGCCGTCTGTCCAGAACGTTTGATAGAGCCCAGACTGTATGGCTCCAAACATGGCCATGT
* * *
11175323 GGTTATCCGACACGCCCGTGTGACTACTCCACACACCCATGTGTCCAACCGTGTGCTTACCCGTG
66 GGCTATCCGACACACCCGTGTGACTACTCCACACACCCATGTATCCAACCGTGTGCTTACCCGTG
11175388 TAACTCACAGACTTGAC
131 TAACTCACAGACTTGAC
* * * *
11175405 TCACACGTCGTGTGTCCAGAACGTTTGATAGAGCCCAGACTGTATGGCTTCAAACATGGCCGTGT
1 TCACACGCCGTCTGTCCAGAACGTTTGATAGAGCCCAGACTGTATGGCTCCAAACATGGCCATGT
* ** *
11175470 GGCTATCTC-ACACATCCGTGTGACTACTCCACACACCTGTGTATCCAACTGTGTGCTTACCCGT
66 GGCTATC-CGACACACCCGTGTGACTACTCCACACACCCATGTATCCAACCGTGTGCTTACCCGT
* *
11175534 GTAACTCACTGACTTGGC
130 GTAACTCACAGACTTGAC
11175552 TCACACGCC
1 TCACACGCC
11175561 CGTGTCTCAG
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
147 138 0.99
148 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (147 bp):
TCACACGCCGTCTGTCCAGAACGTTTGATAGAGCCCAGACTGTATGGCTCCAAACATGGCCATGT
GGCTATCCGACACACCCGTGTGACTACTCCACACACCCATGTATCCAACCGTGTGCTTACCCGTG
TAACTCACAGACTTGAC
Found at i:11180349 original size:90 final size:90
Alignment explanation
Indices: 11180190--11180441 Score: 258
Period size: 90 Copynumber: 2.8 Consensus size: 90
11180180 ATAAGCTCAT
* * ** * * *
11180190 TGCTCTTAATAAGTTCATAGCCCAAATTTTGGGTGGTCTTGCT-AGGACGGACTTGATGAATTCA
1 TGCTCTTAATGAGTTCATAACCCAAGCTTTGGGTGGTCCTACTGA-GACGGACTTGATGAACTCA
* *
11180254 CCGAATTTATAAGATGAAG-TACTAGA
65 CCGAATTTATAAGAT-AAGCCACTAAA
* * *
11180280 TGCTCTTAATGAGTTCATAACCCATGGTTTGGGTGGTCCTATTGAGACGGACTTGATGAAC-CTA
1 TGCTCTTAATGAGTTCATAACCCAAGCTTTGGGTGGTCCTACTGAGACGGACTTGATGAACTC-A
* *
11180344 TCGAATTTATAGGATAAGCCACTAAA
65 CCGAATTTATAAGATAAGCCACTAAA
* * * * * * *
11180370 TGTTCTTAATGAATTCATATCCCAAGCTTTAGGTGGTCCTAGTGAGACAGACTTGATGAATTCAC
1 TGCTCTTAATGAGTTCATAACCCAAGCTTTGGGTGGTCCTACTGAGACGGACTTGATGAACTCAC
*
11180435 TGAATTT
66 CGAATTT
11180442 TTAAACTGAG
Statistics
Matches: 134, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
89 4 0.03
90 128 0.96
91 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (90 bp):
TGCTCTTAATGAGTTCATAACCCAAGCTTTGGGTGGTCCTACTGAGACGGACTTGATGAACTCAC
CGAATTTATAAGATAAGCCACTAAA
Found at i:11181366 original size:66 final size:64
Alignment explanation
Indices: 11181211--11181454 Score: 224
Period size: 66 Copynumber: 3.8 Consensus size: 64
11181201 TTTTAAGTGT
* ** * * *
11181211 TTAATTAAGGTTTATGGTTTATTAAATTAGGGTTTTGGATTTTATTATT-T--TTAAGTATGTA
1 TTAATTAAGGTTTAAGGTTTATTAAATTAGGGTTAAGGATTTTATTATTATGGTTTAGTGTTTA
* * *
11181272 TTAATTAGGGTTTTAAGGTTTGTTAAATTATGGTTAAGGATTTTATTATTATGGTCATTAGTGTT
1 TTAATTAAGG-TTTAAGGTTTATTAAATTAGGGTTAAGGATTTTATTATTATGGT--TTAGTGTT
*
11181337 TG
63 TA
* * * * * *
11181339 TTAATTAGGGTTTATGGTTTGTTAAATTAGGGTTAATGATTTTATTATGAGGGTTTTTAGTGTTT
1 TTAATTAAGGTTTAAGGTTTATTAAATTAGGGTTAAGGATTTTATTATTATGG--TTTAGTGTTT
11181404 A
64 A
* * * * * *
11181405 TAAATTAAGGTTTAAAGTTTATTAATTTAAGATTAATGATTTTATTATTA
1 TTAATTAAGGTTTAAGGTTTATTAAATTAGGGTTAAGGATTTTATTATTA
11181455 GAGTTTTAGG
Statistics
Matches: 150, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
61 9 0.06
62 34 0.23
63 1 0.01
65 1 0.01
66 88 0.59
67 16 0.11
68 1 0.01
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (64 bp):
TTAATTAAGGTTTAAGGTTTATTAAATTAGGGTTAAGGATTTTATTATTATGGTTTAGTGTTTA
Found at i:11181369 original size:22 final size:22
Alignment explanation
Indices: 11181208--11181372 Score: 71
Period size: 21 Copynumber: 7.7 Consensus size: 22
11181198 GGGTTTTAAG
* *
11181208 TGTTTAATTAAGGTTTATGGTT
1 TGTTAAATTAGGGTTTATGGTT
* *
11181230 TATTAAATTAGGGTTT-TGGAT
1 TGTTAAATTAGGGTTTATGGTT
** * *
11181251 T-TT--ATTA-TTTTTA-AGTA
1 TGTTAAATTAGGGTTTATGGTT
* *
11181268 TGTATTAATTAGGGTTTTAAGGTT
1 TGT-TAAATTAGGG-TTTATGGTT
* * *
11181292 TGTTAAATTATGG-TTAAGGAT
1 TGTTAAATTAGGGTTTATGGTT
* *
11181313 T-TTATTATTATGGTCATTA-GTGTT
1 TGTTA-AATTAGGGT--TTATG-GTT
11181337 TGTT-AATTAGGGTTTATGGTT
1 TGTTAAATTAGGGTTTATGGTT
11181358 TGTTAAATTAGGGTT
1 TGTTAAATTAGGGTT
11181373 AATGATTTTA
Statistics
Matches: 107, Mismatches: 20, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
17 5 0.05
18 5 0.05
19 1 0.01
20 5 0.05
21 34 0.32
22 24 0.22
23 20 0.19
24 11 0.10
25 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (22 bp):
TGTTAAATTAGGGTTTATGGTT
Found at i:11182003 original size:36 final size:36
Alignment explanation
Indices: 11181956--11182027 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
11181946 TTTCAGAAGA
11181956 ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
1 ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
*
11181992 ATAGAAGTTCATAGGGAAGGCATAAGTTGGAGCAAT
1 ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
11182028 GGTACTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.22
Consensus pattern (36 bp):
ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
Found at i:11187390 original size:155 final size:156
Alignment explanation
Indices: 11187108--11187421 Score: 612
Period size: 155 Copynumber: 2.0 Consensus size: 156
11187098 ATACTTGTAA
11187108 CATCCCGATTTTAGGCCTAGTCAGAACAGTAGTTTCGGGACCACAAATCTGATGAGGAAAATTTT
1 CATCCCGATTTTAGGCCTAGTCAGAACAGTAGTTTCGGGACCACAAATCTGATGAGGAAAATTTT
11187173 ATTTTTACTATATTTTTATGGCCTACAATTTCACGGAATGATTTTTTGAAAATTTCGTTCAAAAA
66 ATTTTTACTATATTTTTATGGCCTACAATTTCACGGAATGATTTTTTGAAAATTTCGTTCAAAAA
11187238 TTTTGACGTTTGGG-CACAATTTAGT
131 TTTTGACGTTTGGGACACAATTTAGT
11187263 CATCCCGATTTTAGGCCTAGTCAGAACAGTAGTTTCGGGACCACAAATCTGATGAGGAAAATTTT
1 CATCCCGATTTTAGGCCTAGTCAGAACAGTAGTTTCGGGACCACAAATCTGATGAGGAAAATTTT
11187328 ATTTTTACTATATTTTTATGGCCTACAATTTCACGGAATGATTTTTTGAAAATTTCGTTCAAAAA
66 ATTTTTACTATATTTTTATGGCCTACAATTTCACGGAATGATTTTTTGAAAATTTCGTTCAAAAA
11187393 TTTTGACGTTTGGGCACACAATTTAGT
131 TTTTGACGTTTGGG-ACACAATTTAGT
11187420 CA
1 CA
11187422 AAAGGACTAA
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
155 144 0.92
157 13 0.08
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (156 bp):
CATCCCGATTTTAGGCCTAGTCAGAACAGTAGTTTCGGGACCACAAATCTGATGAGGAAAATTTT
ATTTTTACTATATTTTTATGGCCTACAATTTCACGGAATGATTTTTTGAAAATTTCGTTCAAAAA
TTTTGACGTTTGGGACACAATTTAGT
Found at i:11188563 original size:50 final size:50
Alignment explanation
Indices: 11188457--11188698 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
11188447 GGGAATGAGA
* * *
11188457 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AG---ATGAGAAG
* * *
11188513 TCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAG
* * * * * *
11188563 T-CCTTCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAG
* * * * * * * *
11188613 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGAAAAA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAG
* * *
11188662 TCACATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
11188699 TATTATTATC
Statistics
Matches: 154, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
49 41 0.27
50 73 0.47
51 2 0.01
53 2 0.01
54 1 0.01
55 1 0.01
56 34 0.22
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAG
Found at i:11194646 original size:16 final size:17
Alignment explanation
Indices: 11194622--11194654 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11194612 CAAAATCTAA
*
11194622 CCATTTTAACC-TAAAT
1 CCATGTTAACCATAAAT
11194638 CCATGTTAACCATAAAT
1 CCATGTTAACCATAAAT
11194655 GCAAGGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CCATGTTAACCATAAAT
Found at i:11204082 original size:12 final size:12
Alignment explanation
Indices: 11204065--11204092 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11204055 CAATTAAATG
11204065 AATTCTATAATT
1 AATTCTATAATT
11204077 AATTCTATAATT
1 AATTCTATAATT
11204089 AATT
1 AATT
11204093 TAATTCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTCTATAATT
Found at i:11207777 original size:18 final size:18
Alignment explanation
Indices: 11207754--11207800 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
11207744 CTCCCACTCA
11207754 TAATAATAATAGT-AATAC
1 TAATAATAATA-TAAATAC
11207772 TAATAATAATATAAATAC
1 TAATAATAATATAAATAC
*
11207790 TAATATTAATA
1 TAATAATAATA
11207801 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (18 bp):
TAATAATAATATAAATAC
Found at i:11207801 original size:12 final size:12
Alignment explanation
Indices: 11207754--11207802 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
11207744 CTCCCACTCA
* *
11207754 TAATAATAATAG
1 TAATATTAATAC
* *
11207766 TAATACTAATAA
1 TAATATTAATAC
*
11207778 TAATATAAATAC
1 TAATATTAATAC
11207790 TAATATTAATAC
1 TAATATTAATAC
11207802 T
1 T
11207803 TACCTCACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (12 bp):
TAATATTAATAC
Found at i:11209883 original size:43 final size:43
Alignment explanation
Indices: 11209835--11209931 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
11209825 TTGACATCAC
***
11209835 AGTGCATCATCGAATAAACCTAAA-CAAAT-ATATTGGCACACAT
1 AGTGCATCATCGAATAAACC-AAAGC-AATCATACCAGCACACAT
* * *
11209878 AGTGCATAATCGGATAAACCAAAGCAATCATACCAGTACACAT
1 AGTGCATCATCGAATAAACCAAAGCAATCATACCAGCACACAT
11209921 AGTGCATCATC
1 AGTGCATCATC
11209932 AGACAAGTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
42 6 0.13
43 39 0.87
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (43 bp):
AGTGCATCATCGAATAAACCAAAGCAATCATACCAGCACACAT
Found at i:11209946 original size:43 final size:42
Alignment explanation
Indices: 11209872--11210066 Score: 110
Period size: 42 Copynumber: 4.6 Consensus size: 42
11209862 ATATATTGGC
* * *
11209872 ACACATAGTGCATAATCGGATAAACCAAAGC-AATCATACCAG
1 ACACATAGTGCATCATCAGACAAACCAAAGCAAAT-ATACCAG
** * *
11209914 TACACATAGTGCATCATCAGACAAGTCGAAGCAAATATACTAG
1 -ACACATAGTGCATCATCAGACAAACCAAAGCAAATATACCAG
* ** *** *
11209957 -CACGTAAGTGCATCATCAGATGAATTGAAGCAAATATACTAG
1 ACACAT-AGTGCATCATCAGACAAACCAAAGCAAATATACCAG
* * * * * *
11209999 -TACATAAGTGAATCATCGGATAAACCAAAACAAATATACTAG
1 ACACAT-AGTGCATCATCAGACAAACCAAAGCAAATATACCAG
* * *
11210041 -CACGTAAGTACATCATCAGATAAACC
1 ACACAT-AGTGCATCATCAGACAAACC
11210067 GAAGTATAAA
Statistics
Matches: 124, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
41 4 0.03
42 86 0.69
43 31 0.25
44 3 0.02
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (42 bp):
ACACATAGTGCATCATCAGACAAACCAAAGCAAATATACCAG
Found at i:11209970 original size:42 final size:41
Alignment explanation
Indices: 11209921--11210060 Score: 154
Period size: 42 Copynumber: 3.3 Consensus size: 41
11209911 CAGTACACAT
11209921 AGTGCATCATCAGACAAGTCGAAGCAAATATACTAGCACGTA
1 AGTGCATCATCAGACAA-TCGAAGCAAATATACTAGCACGTA
* * * *
11209963 AGTGCATCATCAGATGAATTGAAGCAAATATACTAGTACATA
1 AGTGCATCATCAGA-CAATCGAAGCAAATATACTAGCACGTA
* * * * * *
11210005 AGTGAATCATCGGATAAACCAAAACAAATATACTAGCACGTA
1 AGTGCATCATCAGA-CAATCGAAGCAAATATACTAGCACGTA
*
11210047 AGTACATCATCAGA
1 AGTGCATCATCAGA
11210061 TAAACCGAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 79 0.98
43 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (41 bp):
AGTGCATCATCAGACAATCGAAGCAAATATACTAGCACGTA
Found at i:11210002 original size:85 final size:84
Alignment explanation
Indices: 11209899--11210061 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 84
11209889 GGATAAACCA
* ** * *
11209899 AAGCAATCATACCAGTACACATAGTGCATCATCAGACAAGTCGAAGCAAATATACTAGCACGTAA
1 AAGCAATCATACCAGTACACA-AGTGAATCATCAGACAAACCAAAACAAATATACTAGCACGTAA
*
11209964 GTGCATCATCAGATGAATTG
65 GTACATCATCAGATGAATTG
* * * *
11209984 AAGCAAAT-ATACTAGTACATAAGTGAATCATCGGATAAACCAAAACAAATATACTAGCACGTAA
1 AAGC-AATCATACCAGTACACAAGTGAATCATCAGACAAACCAAAACAAATATACTAGCACGTAA
11210048 GTACATCATCAGAT
65 GTACATCATCAGAT
11210062 AAACCGAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 49 0.73
85 15 0.22
86 3 0.04
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (84 bp):
AAGCAATCATACCAGTACACAAGTGAATCATCAGACAAACCAAAACAAATATACTAGCACGTAAG
TACATCATCAGATGAATTG
Found at i:11214492 original size:22 final size:22
Alignment explanation
Indices: 11214467--11214508 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11214457 ACTTTTGAAG
11214467 GGGAAGGGGATGATGATGATGA
1 GGGAAGGGGATGATGATGATGA
* *
11214489 GGGACGGTGATGATGATGAT
1 GGGAAGGGGATGATGATGAT
11214509 TTTAAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
GGGAAGGGGATGATGATGATGA
Found at i:11214530 original size:20 final size:20
Alignment explanation
Indices: 11214502--11214541 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11214492 ACGGTGATGA
*
11214502 TGATGATTTTAAAATCATTT
1 TGATAATTTTAAAATCATTT
11214522 TGATAATTTTAAAATCATTT
1 TGATAATTTTAAAATCATTT
11214542 GCTGATGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (20 bp):
TGATAATTTTAAAATCATTT
Found at i:11220780 original size:16 final size:16
Alignment explanation
Indices: 11220759--11220791 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11220749 ACTATAGTGG
*
11220759 AATGAGTTTATGATTA
1 AATGAGTTTATAATTA
11220775 AATGAGTTTATAATTA
1 AATGAGTTTATAATTA
11220791 A
1 A
11220792 TAGTCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
AATGAGTTTATAATTA
Found at i:11223218 original size:18 final size:17
Alignment explanation
Indices: 11223193--11223228 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
11223183 TTAAAAATTC
*
11223193 ATATTTTTTTATTTTTA
1 ATATTTTTTTAATTTTA
11223210 ATATATTTTTTAATTTTA
1 ATAT-TTTTTTAATTTTA
11223228 A
1 A
11223229 AATACATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTTTAATTTTA
Found at i:11232813 original size:13 final size:13
Alignment explanation
Indices: 11232795--11232819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11232785 TTTTATTTAT
11232795 TTATTCCCACCGA
1 TTATTCCCACCGA
11232808 TTATTCCCACCG
1 TTATTCCCACCG
11232820 GCCGAATGTT
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:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:11232964 original size:6 final size:6
Alignment explanation
Indices: 11232949--11232978 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11232939 TGTTGTTCAA
*
11232949 TTCCTT TTCCTC TTCCTC TTCCTC TTCCTC
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC
11232979 CCCTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
TTCCTC
Found at i:11238194 original size:39 final size:41
Alignment explanation
Indices: 11238138--11238243 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
11238128 TTTCCTTATG
* *
11238138 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
11238178 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
*
11238223 CTATTACGCCTCTATTACATT
1 CTATTACGCCTCTATTCCATT
11238244 ACGCCTCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.34
45 4 0.07
46 14 0.25
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:11238218 original size:44 final size:46
Alignment explanation
Indices: 11238155--11238245 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
11238145 ACCTCTATTC
* *
11238155 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTACATTA
11238199 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTACATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTACATTA
11238245 C
1 C
11238246 GCCTCTATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 19 0.44
45 4 0.09
46 20 0.47
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTACATTA
Found at i:11238246 original size:16 final size:16
Alignment explanation
Indices: 11238225--11238261 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11238215 AGAATTACCT
11238225 ATTACGCCTCTATTAC
1 ATTACGCCTCTATTAC
*
11238241 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTAC
11238257 ATTAC
1 ATTAC
11238262 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTAC
Found at i:11240361 original size:7 final size:7
Alignment explanation
Indices: 11240351--11240375 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11240341 AATAAAAGTA
11240351 TATTTAG
1 TATTTAG
11240358 TATTTAG
1 TATTTAG
11240365 TATTTAG
1 TATTTAG
11240372 TATT
1 TATT
11240376 ATGTATTATG
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:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:11241051 original size:18 final size:18
Alignment explanation
Indices: 11241025--11241059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11241015 AAGTGCGTTT
*
11241025 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
11241043 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
11241060 TCCTTTCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:11246565 original size:125 final size:123
Alignment explanation
Indices: 11246198--11246549 Score: 535
Period size: 125 Copynumber: 2.8 Consensus size: 123
11246188 CCCAAACATG
* *
11246198 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
11246263 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCGAAAAAAATTTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAA-TTATTTCTTACATGAC
* * *
11246323 CTACTGTAGCAAAAGCACGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** * *
11246388 TAGAAGCGATTTTATACTATTTGCTCAGAAATATAAAAAAATAATTATTTCTT-CTGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT-CAAAAA-AATTATTTCTTAC-ATGAC
*
11246448 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
11246513 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
11246550 CTCGAAATTA
Statistics
Matches: 205, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
124 3 0.01
125 200 0.98
126 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:11248739 original size:347 final size:348
Alignment explanation
Indices: 11248103--11248758 Score: 1278
Period size: 347 Copynumber: 1.9 Consensus size: 348
11248093 CCTTTTTCCG
11248103 GGAAATCACGTCCACGTCAGCGCGACTTGCTGACTTGGACGCGATTTCCTGGCACCACGTATCAT
1 GGAAATCACGTCCACGTCAGCGCGACTTGCTGACTTGGACGCGATTTCCTGGCACCACGTATCAT
11248168 GTTCCGGGGGACGCGATTTTGCCGATTTTCCCACGTTATGTTTTTTTGGCTTTTAGGGTTTAGGG
66 GTTCCGGGGGACGCGATTTTGCCGATTTTCCCACGTTATGTTTTTTTGGCTTTTAGGGTTTAGGG
*
11248233 TTAAGACTTTTTAGTGTTTTTAGGTCCTGGAATAAATAATTTCGAGTTGACGTTTCTGATCAAAT
131 TTAAGACTTTTTAGTGTTTTTAGGTCCTCGAATAAATAATTTCGAGTTGACGTTTCTGATCAAAT
11248298 AGTATAAAATCACTTCTAGCAAGATGCTATTTGAGAAGAATTTATGAAATCACGCCCTCGTGGAC
196 AGTATAAAATCACTTCTAGCAAGATGCTATTTGAGAAGAATTTATGAAATCACGCCCTCGTGGAC
11248363 GCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGTAATCACGTCCACGTCA
261 GCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGTAATCACGTCCACGTCA
11248428 GCGCGATGTCAGGGTATGCGCCA
326 GCGCGATGTCAGGGTATGCGCCA
*
11248451 GGAAATCGCGTCCACGTCAGCGCGACTTGCTGACTTGGACGCGATTTCCTGGCACCACGTATCAT
1 GGAAATCACGTCCACGTCAGCGCGACTTGCTGACTTGGACGCGATTTCCTGGCACCACGTATCAT
11248516 GTTCCGGGGGACGCGATTTTGCCGATTTTCCCACGTTATG-TTTTTTGGCTTTTAGGGTTTAGGG
66 GTTCCGGGGGACGCGATTTTGCCGATTTTCCCACGTTATGTTTTTTTGGCTTTTAGGGTTTAGGG
11248580 TTAAGACTTTTTAGTGTTTTTAGGTCCTCGAATAAATAATTTCGAGTTGACGTTTCTGATCAAAT
131 TTAAGACTTTTTAGTGTTTTTAGGTCCTCGAATAAATAATTTCGAGTTGACGTTTCTGATCAAAT
*
11248645 AGTATAAAATCGCTTCTAGCAAGATGCTATTTGAGAAGAATTTATGAAATCACGCCCTCGTGGAC
196 AGTATAAAATCACTTCTAGCAAGATGCTATTTGAGAAGAATTTATGAAATCACGCCCTCGTGGAC
11248710 GCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGT
261 GCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGT
11248759 TTTTGAGCAA
Statistics
Matches: 305, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
347 201 0.66
348 104 0.34
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (348 bp):
GGAAATCACGTCCACGTCAGCGCGACTTGCTGACTTGGACGCGATTTCCTGGCACCACGTATCAT
GTTCCGGGGGACGCGATTTTGCCGATTTTCCCACGTTATGTTTTTTTGGCTTTTAGGGTTTAGGG
TTAAGACTTTTTAGTGTTTTTAGGTCCTCGAATAAATAATTTCGAGTTGACGTTTCTGATCAAAT
AGTATAAAATCACTTCTAGCAAGATGCTATTTGAGAAGAATTTATGAAATCACGCCCTCGTGGAC
GCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGTAATCACGTCCACGTCA
GCGCGATGTCAGGGTATGCGCCA
Found at i:11248940 original size:125 final size:125
Alignment explanation
Indices: 11248600--11248978 Score: 546
Period size: 126 Copynumber: 3.0 Consensus size: 125
11248590 TTAGTGTTTT
* * *
11248600 TAGGTCCTC-GAATAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAG
1 TAGGTCC-CGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
* *
11248664 CAAGATGCTATTTGAGAAGAATTTATGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAG
65 CAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *** * *
11248725 TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTGTAG
1 TAGGTCCCGGAAGAAATAATT-TTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
* *
11248790 CAAGATGCTATTTGAGAAGAATTTGTGATATCGCGCCCTCGTGGATGCGCTTTTGCTACAG
65 CAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
11248851 TAGGTCCCGGAAGAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTGTAAAATCGCTTCTCGC
1 TAGGTCCCGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
11248916 AGGATGCTATTTGAGAA-AATTTTGTGAAATCGCGCCATCGTGGACGCGTTTTTGCTACAG
66 AAGATGCTATTTGAGAAGAA-TTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
11248976 TAG
1 TAG
11248979 CATGTTTGGG
Statistics
Matches: 224, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
124 3 0.01
125 108 0.48
126 113 0.50
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCCCGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:11252231 original size:23 final size:23
Alignment explanation
Indices: 11252196--11252307 Score: 80
Period size: 23 Copynumber: 4.6 Consensus size: 23
11252186 CATTGTTAAC
* * *
11252196 TTAGTTTAGGGTTTTTAAATAAT
1 TTAGGTTAGGGTTTTGAAATAAA
* *
11252219 TTAGGTTAAGGTTTTGAATTAAA
1 TTAGGTTAGGGTTTTGAAATAAA
* *
11252242 TTAGGTTAGGGTTAGGGTCTTTAATTAAA
1 TTAGGTTAGGG-T----T-TTGAAATAAA
* *
11252271 TTAGGATTAGGGTTTTTAATTAAA
1 TTAGG-TTAGGGTTTTGAAATAAA
11252295 TTAGGTTAGGGTT
1 TTAGGTTAGGGTT
11252308 AGGGTATTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
23 36 0.48
24 16 0.21
25 1 0.01
28 1 0.01
29 15 0.20
30 6 0.08
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTGAAATAAA
Found at i:11252267 original size:29 final size:29
Alignment explanation
Indices: 11252222--11252408 Score: 194
Period size: 29 Copynumber: 6.6 Consensus size: 29
11252212 AAATAATTTA
* *
11252222 GGTTAAGGTTTTGAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
11252251 GGTTAGGGTCTTTAATTAAATTAGG--A-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
11252277 --TTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
11252304 GGTTAGGGTATTTAATT--A-GAGTTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
11252329 GGTTAGGGTTTTTAATAAAATTAGGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGG-TTAG
*
11252359 GGTTTTTAAGGTTTTTAATTAAATTAGGTTAG
1 GG---TTAGGGTTTTTAATTAAATTAGGTTAG
*
11252391 GGTTAGGGTATTTAATTA
1 GGTTAGGGTTTTTAATTA
11252409 GGATTAGGGT
Statistics
Matches: 130, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
24 22 0.17
25 15 0.12
26 6 0.05
27 3 0.02
28 2 0.02
29 53 0.41
30 2 0.02
32 6 0.05
33 21 0.16
ACGTcount: A:0.30, C:0.01, G:0.26, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:11252274 original size:24 final size:25
Alignment explanation
Indices: 11252201--11252367 Score: 130
Period size: 24 Copynumber: 6.5 Consensus size: 25
11252191 TTAACTTAGT
*
11252201 TTAGGGTTTTTAAATAAT-TTA-GG
1 TTAGGGTTTTTAATTAATATTAGGG
* *
11252224 TTAAGGTTTTGAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AA-TA--TTAGGG
* *
11252253 TTAGGGTCTTTAATTAA-ATTAGGA
1 TTAGGGTTTTTAATTAATATTAGGG
11252277 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AA-TA--TTAGGG
*
11252306 TTAGGGTATTTAATTAGAGT-TTA-GG
1 TTAGGGTTTTTAATTA-A-TATTAGGG
* *
11252331 TTAGGGTTTTTAA-TAAAATTAGGA
1 TTAGGGTTTTTAATTAATATTAGGG
11252355 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
11252368 GGTTTTTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
23 16 0.14
24 37 0.32
25 17 0.15
26 4 0.03
27 1 0.01
28 6 0.05
29 35 0.30
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.44
Consensus pattern (25 bp):
TTAGGGTTTTTAATTAATATTAGGG
Found at i:11252298 original size:53 final size:52
Alignment explanation
Indices: 11252201--11252394 Score: 244
Period size: 53 Copynumber: 3.6 Consensus size: 52
11252191 TTAACTTAGT
* * * *
11252201 TTAGGGTTTTTAAATAATTTAGGTTAAGGTTTTGAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
11252253 TTAGGGTCTTTAATTAAATTAGGATTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGG
* * *
11252306 TTAGGGTATTTAATTAGAGTTTAGGTTAGGGTTTTTAATAAAATTAGGATTAGGG
1 TTAGGGTTTTTAATTA-A-ATTAGGTTAGGGTTTTTAATTAAATTAGG-TTAGGG
*
11252361 TTTTTAAGGTTTTTAATTAAATTAGGTTAGGGTT
1 ---TTAGGGTTTTTAATTAAATTAGGTTAGGGTT
11252395 AGGGTATTTA
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
52 20 0.16
53 42 0.34
54 23 0.19
55 11 0.09
56 13 0.10
57 1 0.01
58 14 0.11
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.45
Consensus pattern (52 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:11252415 original size:19 final size:19
Alignment explanation
Indices: 11252387--11252429 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
11252377 TTAAATTAGG
*
11252387 TTAGGGTTAGGGTATTTAA
1 TTAGGATTAGGGTATTTAA
*
11252406 TTAGGATTAGGGTTTTTAA
1 TTAGGATTAGGGTATTTAA
11252425 TTAGG
1 TTAGG
11252430 GTTTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (19 bp):
TTAGGATTAGGGTATTTAA
Found at i:11252427 original size:13 final size:13
Alignment explanation
Indices: 11252411--11252453 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
11252401 TTTAATTAGG
11252411 ATTAGGGTTTTTA
1 ATTAGGGTTTTTA
11252424 ATTAGGGTTTTTA
1 ATTAGGGTTTTTA
*
11252437 ATTAGGGTTTTGA
1 ATTAGGGTTTTTA
11252450 ATTA
1 ATTA
11252454 ATTTAGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (13 bp):
ATTAGGGTTTTTA
Found at i:11252447 original size:12 final size:12
Alignment explanation
Indices: 11252411--11252515 Score: 66
Period size: 12 Copynumber: 8.1 Consensus size: 12
11252401 TTTAATTAGG
11252411 ATTAGGGTTTTTA
1 ATTAGGG-TTTTA
11252424 ATTAGGGTTTTTA
1 ATTAGGG-TTTTA
11252437 ATTAGGGTTTTGA
1 ATTAGGGTTTT-A
* **
11252450 ATTAATTTAGGTTTGG
1 ATT-A---GGGTTTTA
* ***
11252466 GTTAGGGTTAGG
1 ATTAGGGTTTTA
*
11252478 GTTAGGGTTTTTA
1 ATTAGGG-TTTTA
11252491 ATTAGGGTTTTA
1 ATTAGGGTTTTA
11252503 ATTAGGGTTTTA
1 ATTAGGGTTTTA
11252515 A
1 A
11252516 ATTAATTTAG
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
12 35 0.46
13 32 0.42
14 1 0.01
15 1 0.01
16 2 0.03
17 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (12 bp):
ATTAGGGTTTTA
Found at i:11252497 original size:13 final size:13
Alignment explanation
Indices: 11252479--11252519 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
11252469 AGGGTTAGGG
11252479 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
11252492 TTAGGG-TTTTAA
1 TTAGGGTTTTTAA
*
11252504 TTAGGGTTTTAAA
1 TTAGGGTTTTTAA
11252517 TTA
1 TTA
11252520 ATTTAGGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:11252555 original size:28 final size:28
Alignment explanation
Indices: 11252504--11252568 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
11252494 AGGGTTTTAA
11252504 TTAGGGTTTTAAATTAATTTAGGTTAGGG
1 TTAGGG-TTTAAATTAATTTAGGTTAGGG
* *
11252533 TTAGGGTTTGAATTAATTTAGGTTATGG
1 TTAGGGTTTAAATTAATTTAGGTTAGGG
11252561 TTAGGGTT
1 TTAGGGTT
11252569 AGGGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (28 bp):
TTAGGGTTTAAATTAATTTAGGTTAGGG
Found at i:11252644 original size:13 final size:13
Alignment explanation
Indices: 11252628--11252662 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11252618 GGATTAGGGT
*
11252628 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
*
11252641 TTAGAGTTTTGAA
1 TTAGGGTTTTGAA
11252654 TTAGGGTTT
1 TTAGGGTTT
11252663 AGGTTATGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (13 bp):
TTAGGGTTTTGAA
Found at i:11252691 original size:18 final size:18
Alignment explanation
Indices: 11252654--11252691 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11252644 GAGTTTTGAA
*
11252654 TTAGGGTTTAGGTTATGG
1 TTAGGGTTTAGGTTAGGG
11252672 TTAGGG-TTAGGTTTAGGG
1 TTAGGGTTTAGG-TTAGGG
11252690 TT
1 TT
11252692 TTTAATTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (18 bp):
TTAGGGTTTAGGTTAGGG
Found at i:11252942 original size:13 final size:13
Alignment explanation
Indices: 11252924--11252958 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11252914 TTAATTTAGG
*
11252924 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
*
11252937 TTAGGGTTATGAA
1 TTAGGGTTTTGAA
11252950 TTAGGGTTT
1 TTAGGGTTT
11252959 AGGTTACGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (13 bp):
TTAGGGTTTTGAA
Found at i:11252998 original size:13 final size:13
Alignment explanation
Indices: 11252980--11253084 Score: 77
Period size: 13 Copynumber: 7.4 Consensus size: 13
11252970 ACGGTTAGGG
11252980 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
11252993 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
11253006 TTAAGGTTTTGAATTAA
1 TT-AGGGTTT---TTAA
*
11253023 TTTA-GGTTATGGTTAGGG
1 -TTAGGGTT-T--TTA--A
11253041 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
11253054 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
**
11253067 TTAGGGCATTTAA
1 TTAGGGTTTTTAA
11253080 TTAGG
1 TTAGG
11253085 TAAACTTATA
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
13 44 0.59
14 6 0.08
15 3 0.04
16 6 0.08
17 10 0.13
18 6 0.08
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.49
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:11253082 original size:61 final size:56
Alignment explanation
Indices: 11252922--11253082 Score: 189
Period size: 61 Copynumber: 2.8 Consensus size: 56
11252912 AATTAATTTA
* * * *
11252922 GGTTAGGGTTTTTAATTAGGGTTATGAATTAGGGTTTAGGTT-ACGGTTACGGTTAG
1 GGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGTTTA-ATTAAAGGTTACGGTTAG
* *
11252978 GGTTAGGGTTTTTAATTAGGGTTTTTAATTAAGGTTTTGAATTAATTTAGGTTATGGTTAG
1 GGTTAGGGTTTTTAATTAGGGTTTTTAATT-AGGGTTT-AATTAA---AGGTTACGGTTAG
11253039 GGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGCATTTAATTA
1 GGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGG--TTTAATTA
11253083 GGTAAACTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
56 28 0.31
57 8 0.09
58 2 0.02
60 3 0.03
61 46 0.51
62 3 0.03
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.46
Consensus pattern (56 bp):
GGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGTTTAATTAAAGGTTACGGTTAG
Found at i:11253165 original size:25 final size:25
Alignment explanation
Indices: 11253131--11253182 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11253121 TAACTTGAAA
11253131 AAACTTCTATTTTATTACATCAAAT
1 AAACTTCTATTTTATTACATCAAAT
11253156 AAACTTCTATTTTATTACATCAAAT
1 AAACTTCTATTTTATTACATCAAAT
11253181 AA
1 AA
11253183 TATTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
AAACTTCTATTTTATTACATCAAAT
Found at i:11253224 original size:25 final size:23
Alignment explanation
Indices: 11253135--11253227 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
11253125 TTGAAAAAAC
11253135 TTCTATTTTATTACATCAAATAAA
1 TTCTATTTTATTACATCAAAT-AA
11253159 CTTCTATTTTATTACATCAAATAA
1 -TTCTATTTTATTACATCAAATAA
* * **
11253183 ---TATTTAAATAC-GGAAATCAA
1 TTCTATTTTATTACATCAAAT-AA
11253203 TGTCTATTTTATTACATCAAATAA
1 T-TCTATTTTATTACATCAAATAA
11253227 T
1 T
11253228 ATTTAAATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.07
20 11 0.20
24 14 0.26
25 25 0.46
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (23 bp):
TTCTATTTTATTACATCAAATAA
Found at i:11253651 original size:7 final size:7
Alignment explanation
Indices: 11253641--11253665 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11253631 TTATATACAT
11253641 AATACTA
1 AATACTA
11253648 AATACTA
1 AATACTA
11253655 AATACTA
1 AATACTA
11253662 AATA
1 AATA
11253666 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11254580 original size:11 final size:11
Alignment explanation
Indices: 11254564--11254664 Score: 71
Period size: 11 Copynumber: 8.6 Consensus size: 11
11254554 TAATTTTAGA
11254564 AGGAAATTGAG
1 AGGAAATTGAG
*
11254575 AGGAAATTGAT
1 AGGAAATTGAG
*
11254586 ATGAAATATGAGTTTG
1 AGGAAAT-TGA----G
* *
11254602 AGAGAATTTTAG
1 AG-GAAATTGAG
11254614 AAGGAAATTGAG
1 -AGGAAATTGAG
*
11254626 A-GAAATTTAG
1 AGGAAATTGAG
11254636 AAGGAAATTGAG
1 -AGGAAATTGAG
11254648 AGG-AATTGAG
1 AGGAAATTGAG
11254658 AGGAAAT
1 AGGAAAT
11254665 ATTAGAGAGG
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
10 18 0.26
11 24 0.34
12 19 0.27
13 2 0.03
16 3 0.04
17 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:11254582 original size:51 final size:51
Alignment explanation
Indices: 11254514--11254632 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
11254504 TTTTAAAAAC
* * * *
11254514 GGAAATTTAGAGAAAATTGAAATTAAATATTG-CTTTGAAATAATTTTAGAA
1 GGAAATTGAGAGGAAATTGAAATGAAATA-TGACTTTGAAAGAATTTTAGAA
* * *
11254565 GGAAATTGAGAGGAAATTGATATGAAATATGAGTTTGAGAGAATTTTAGAA
1 GGAAATTGAGAGGAAATTGAAATGAAATATGACTTTGAAAGAATTTTAGAA
11254616 GGAAATTGAGA-GAAATT
1 GGAAATTGAGAGGAAATT
11254633 TAGAAGGAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 8 0.13
51 52 0.87
ACGTcount: A:0.45, C:0.01, G:0.23, T:0.31
Consensus pattern (51 bp):
GGAAATTGAGAGGAAATTGAAATGAAATATGACTTTGAAAGAATTTTAGAA
Found at i:11254627 original size:22 final size:22
Alignment explanation
Indices: 11254599--11254654 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
11254589 AAATATGAGT
11254599 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
*
11254621 TTGAGAGAAATTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
11254643 TTGAGAGGAATT
1 TTGAGA-GAATT
11254655 GAGAGGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:11254644 original size:12 final size:11
Alignment explanation
Indices: 11254615--11254664 Score: 68
Period size: 10 Copynumber: 4.6 Consensus size: 11
11254605 GAATTTTAGA
11254615 AGGAAATTGAG
1 AGGAAATTGAG
*
11254626 A-GAAATTTAG
1 AGGAAATTGAG
11254636 AAGGAAATTGAG
1 -AGGAAATTGAG
11254648 AGG-AATTGAG
1 AGGAAATTGAG
11254658 AGGAAAT
1 AGGAAAT
11254665 ATTAGAGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 18 0.53
11 8 0.24
12 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:11254671 original size:22 final size:22
Alignment explanation
Indices: 11254599--11254664 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
11254589 AAATATGAGT
* *
11254599 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAAATTGAGAAGGAAA
*
11254621 TTGAGAGAAATTTAGAAGGAAA
1 TTGAGAGAAATTGAGAAGGAAA
*
11254643 TTGAGAGGAATTGAG-AGGAAA
1 TTGAGAGAAATTGAGAAGGAAA
11254664 T
1 T
11254665 ATTAGAGAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 7 0.17
22 34 0.83
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTGAGAAGGAAA
Found at i:11254997 original size:29 final size:29
Alignment explanation
Indices: 11254945--11255002 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
11254935 CGGAAAAGGA
*
11254945 CCATTCCGGTAAATAATTGAAAAATGGGC
1 CCATTCCGGTAAATAATTGAAAAAAGGGC
* *
11254974 CCATTTCGGTAAAT-TTTGAAAAAAAGGGC
1 CCATTCCGGTAAATAATTG-AAAAAAGGGC
11255003 TTTTATTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (29 bp):
CCATTCCGGTAAATAATTGAAAAAAGGGC
Found at i:11258612 original size:18 final size:18
Alignment explanation
Indices: 11258589--11258646 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
11258579 TTAATAATGG
11258589 TAATTTATAAATTTGGCA
1 TAATTTATAAATTTGGCA
* *
11258607 TAATTTAGTTAATAATGG--
1 TAATTTA-TAAAT-TTGGCA
11258625 TAATTTATAAATTTGGCA
1 TAATTTATAAATTTGGCA
11258643 TAAT
1 TAAT
11258647 AGTAACTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 18 0.56
19 4 0.12
20 3 0.09
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (18 bp):
TAATTTATAAATTTGGCA
Found at i:11258616 original size:36 final size:36
Alignment explanation
Indices: 11258575--11258646 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
11258565 TTTTCACGAG
11258575 TTAGTTAATAATGGTAATTTATAAATTTGGCATAAT
1 TTAGTTAATAATGGTAATTTATAAATTTGGCATAAT
11258611 TTAGTTAATAATGGTAATTTATAAATTTGGCATAAT
1 TTAGTTAATAATGGTAATTTATAAATTTGGCATAAT
11258647 AGTAACTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (36 bp):
TTAGTTAATAATGGTAATTTATAAATTTGGCATAAT
Found at i:11261271 original size:19 final size:19
Alignment explanation
Indices: 11261249--11261295 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
11261239 ATTGGAACGT
* *
11261249 AAAGTGCATATTGGCGCAC
1 AAAGTGCATACTGGCACAC
*
11261268 AAAGCGCATACTGGCACAC
1 AAAGTGCATACTGGCACAC
11261287 AAAGTGCAT
1 AAAGTGCAT
11261296 CTTGACGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (19 bp):
AAAGTGCATACTGGCACAC
Found at i:11268483 original size:22 final size:22
Alignment explanation
Indices: 11268455--11268507 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
11268445 GTCATGTCTA
11268455 GTCTCGAGACATA-AGGC-CATTT
1 GTCTCGAGACATACA--CTCATTT
*
11268477 GTCTCGAGATATACACTCATTT
1 GTCTCGAGACATACACTCATTT
11268499 GTCTCGAGA
1 GTCTCGAGA
11268508 TAGGATAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (22 bp):
GTCTCGAGACATACACTCATTT
Found at i:11271794 original size:6 final size:6
Alignment explanation
Indices: 11271783--11271821 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
11271773 AAAATAGCCC
* *
11271783 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAA TATAAT TAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAA
11271822 GTACTAAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:11273701 original size:21 final size:21
Alignment explanation
Indices: 11273676--11273715 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11273666 TACCCCCTAA
11273676 ATCCCTTAA-TTAACTCCCCTT
1 ATCCC-TAATTTAACTCCCCTT
*
11273697 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
11273716 AACCGTTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCTT
Found at i:11276823 original size:17 final size:17
Alignment explanation
Indices: 11276801--11276835 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11276791 ATCTTGTGGC
11276801 AAAAAGAAAAGAAAGAG
1 AAAAAGAAAAGAAAGAG
11276818 AAAAAGAAAAGAAAGAG
1 AAAAAGAAAAGAAAGAG
11276835 A
1 A
11276836 TGATAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAGAG
Found at i:11279318 original size:17 final size:17
Alignment explanation
Indices: 11279296--11279330 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11279286 ATCTTTTGGC
11279296 AAAAAGAAAAGAAAGAG
1 AAAAAGAAAAGAAAGAG
11279313 AAAAAGAAAAGAAAGAG
1 AAAAAGAAAAGAAAGAG
11279330 A
1 A
11279331 TGATAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAGAG
Found at i:11289840 original size:6 final size:6
Alignment explanation
Indices: 11289829--11289896 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
11289819 AAAGGGAAGA
* * * *
11289829 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATG AAAA--
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
11289875 AAAATC AAAAATC AAAAT- AAAA
1 AAAATC -AAAATC AAAATC AAAA
11289897 AAAAAGAAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 42 0.75
7 6 0.11
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:11290790 original size:7 final size:7
Alignment explanation
Indices: 11290778--11290824 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
11290768 CTGAGTAAAA
11290778 AAAAATG
1 AAAAATG
11290785 AAAAATG
1 AAAAATG
*
11290792 -AGAATG
1 AAAAATG
11290798 AAAAATG
1 AAAAATG
11290805 AAAAATG
1 AAAAATG
11290812 AAAAA-G
1 AAAAATG
11290818 AAAAATG
1 AAAAATG
11290825 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:11290799 original size:13 final size:14
Alignment explanation
Indices: 11290778--11290824 Score: 71
Period size: 13 Copynumber: 3.5 Consensus size: 14
11290768 CTGAGTAAAA
11290778 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
11290792 -AGAATGAAAAATG
1 AAAAATGAAAAATG
11290805 AAAAATGAAAAA-G
1 AAAAATGAAAAATG
11290818 AAAAATG
1 AAAAATG
11290825 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:11290803 original size:20 final size:20
Alignment explanation
Indices: 11290774--11290824 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
11290764 CACTCTGAGT
11290774 AAAA-AAAAATGAAAAATGA
1 AAAAGAAAAATGAAAAATGA
* *
11290793 GAATGAAAAATGAAAAATGA
1 AAAAGAAAAATGAAAAATGA
11290813 AAAAGAAAAATG
1 AAAAGAAAAATG
11290825 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAAGAAAAATGAAAAATGA
Found at i:11292443 original size:46 final size:46
Alignment explanation
Indices: 11292224--11292420 Score: 349
Period size: 46 Copynumber: 4.3 Consensus size: 46
11292214 GCATCAGGTT
* *
11292224 TTATCTTCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
1 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATC
*
11292270 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTTAGATC
1 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATC
*
11292316 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTTAGATC
1 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATC
11292362 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATC
1 TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATC
*
11292408 TTATCTCTCTGAG
1 TTATCTCCCTGAG
11292421 ATTACAGCAG
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 146 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (46 bp):
TTATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATC
Found at i:11292995 original size:44 final size:44
Alignment explanation
Indices: 11292928--11293723 Score: 301
Period size: 44 Copynumber: 17.7 Consensus size: 44
11292918 GAAGAATTTT
* * * *
11292928 AGATCTTATCTCCCTGAGGTTACAGTAGAGAAGGTTGAAGCTAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
* *
11292972 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
* * *** *
11293016 TA-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAAAAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAG
* ** * * * *
11293059 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCATC-AG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAG
* ** * **
11293103 -G-TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--CTAG
* *
11293147 AGATCTTATCT-CCTCGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCT-GAGATTACAGTGGAGCAGATTGAAGCTAG
* * * * *
11293191 AGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
* * * ** *
11293235 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAG
* *
11293278 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * * * *
11293333 AGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
* * * ** *
11293377 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAG
* *
11293420 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * * * *
11293475 AGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
11293519 TA-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAG
* * * * * *
11293562 ATGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAG
* * * * * * **
11293606 -G-TCTTATCTCCCTGAGGTTATAGTAGAGTAGATCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--CTAG
* *
11293650 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
* *
11293694 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAG
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAG
11293724 TGGATTAAAA
Statistics
Matches: 563, Mismatches: 131, Indels: 116
0.70 0.16 0.14
Matches are distributed among these distances:
41 60 0.11
42 7 0.01
43 18 0.03
44 326 0.58
45 17 0.03
46 63 0.11
47 4 0.01
51 4 0.01
52 2 0.00
53 2 0.00
54 50 0.09
55 10 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
Found at i:11293014 original size:219 final size:219
Alignment explanation
Indices: 11292753--11293320 Score: 897
Period size: 219 Copynumber: 2.6 Consensus size: 219
11292743 GAAGAATTTC
* * *
11292753 AGATCTTATCTCTCTGAGATTACAGCAGAGCAGATTGAAGATAGTAATCCTGTCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
* * *
11292818 ACAGTGCAGTGGATTAAAATAAATGA-CGTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
66 ACAGTGGAGCGGATTAAAATAAAGGATC-TTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
* *
11292882 AAGTCCTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCTTATCTCC-CTGAG
130 AAGTCCTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCTC-GAG
* *
11292946 GTTACAGTAGAGAAGGTTGAAGCTAG
194 GTTACAGTAGAGAAGATTGAAGCCAG
11292972 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
*
11293037 ACAGTGGAGCGGATTAAAAAAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
* *
11293102 GGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCTCGAGGT
131 AGTCCTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCTCGAGGT
* *
11293167 TACAGTGGAGCAGATTGAAGCCAG
196 TACAGTAGAGAAGATTGAAGCCAG
* * * * * *
11293191 AGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCTATCTCTCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
* *
11293256 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
11293321 GATTGAAGCC
Statistics
Matches: 323, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
219 321 0.99
220 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (219 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAGTT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
AGTCCTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCTCGAGGT
TACAGTAGAGAAGATTGAAGCCAG
Found at i:11293361 original size:142 final size:142
Alignment explanation
Indices: 11293177--11293605 Score: 831
Period size: 142 Copynumber: 3.0 Consensus size: 142
11293167 TACAGTGGAG
11293177 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
11293242 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
11293307 AGTAGATCACAT
131 AGTAGATCACAT
11293319 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
11293384 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
11293449 AGTAGATCACAT
131 AGTAGATCACAT
11293461 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
* *
11293526 ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
11293591 AGTAGATCGCAT
131 AGTAGATCACAT
11293603 CAG
1 CAG
11293606 GTCTTATCTC
Statistics
Matches: 284, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 284 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCT
ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:11293723 original size:175 final size:175
Alignment explanation
Indices: 11292363--11293780 Score: 1111
Period size: 175 Copynumber: 8.0 Consensus size: 175
11292353 TTTTAGATCT
* *
11292363 TATCTCCCTGAGGGTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
* * * * *
11292428 CAGAGCAGCTTGAAGATAGTAATCCTGTCTCCCTGAAGTTACAGTGCAGTGGATTAAAATAAATG
66 CAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAATG
* *
11292493 A-CGTTATCTCTCTGAAGTTACAGCAGAGGAGATCGCATCAAGTCC
131 ATC-TTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCC
* *
11292538 TATCTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
* * * * *
11292603 CAGAGCAGCTTGAAGATAGTAATCCTGTCTCCCTGAAGTTACAGTGCAGTGGATTAAAATAAATG
66 CAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAATG
* *
11292668 A-CGTTATCTCTCTGAAGTTACAGCAGAGGAGATCGCATCAAGTCC
131 ATC-TTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCC
* *
11292713 TATCTCCCTGAGGTTATAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
* * * *
11292778 CAGAGCAGATTGAAGATAGTAATCCTGTCTCCCTGAAGTTACAGTGCAGTGGATTAAAATAAATG
66 CAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAATG
*
11292843 A-CGTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCC
131 ATC-TTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCC
* *
11292888 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTGAGGTTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
* * * * * ** *
11292953 TAGAGAAGGTTGAAGCTAG-AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGAT-A
66 CAGAGTAGATTGAAGCTAGTA-ATCCTATCTCCCTGAAG-TTACAGTGGAGTGGATT-AAAATAA
* * * * ** ** *** ** *
11293015 GTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAAAAGGATCT
128 ATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-T-CGCATCAGG-TCC
* * ** * * *
11293066 TATCTCTCTGAAGTTACAGCAGAGTAGATC---GCA--TCAGGTCTTATCTCCCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
** ** * * * * ** ***
11293126 TGGAGTAGACCGAAG-AATTTCAGATCTTATCT-CCTCGAGGTTACAGTGGAGCAGATTGAAGCC
66 CAGAGTAGATTGAAGCTA-GT-A-ATCCTATCTCCCT-GAAGTTACAGTGGAGTGGATT-AAAAT
* * * * *** * *
11293189 AGA-GATCTTATCTCCCTG-AGATTGCAGCGGAGTAGATTTAAGCTGGTAATCC
126 AAATGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATCGCATCAGG---TCC
* * ** ** ** *
11293241 TATCTCTCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGA-AGTTAC
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCTTATCTCCCTGAGA-TTAC
* * * * * *
11293302 AGTAGAGTAGATCACATCAGATTGAAGCCAG-AGATCTTATCTCCCTG-AGATTGCAGCGGAGTA
64 AG--CAG-AG------T-AGATTGAAGCTAGTA-ATCCTATCTCCCTGAAG-TTACAGTGGAGTG
** ** * * ** ** *** * *
11293365 GATTTAAGCT-GGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
117 GA-TTAAAATAAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-CAGG-TCC
* * * *
11293427 TATCTCTCTGAAGTTACAGTAGAGTAGATCAC-ATCAG-ATTGAAGCCAGAGATCTTATCTCCCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGA-C-CGA--AGAATT----TC--AGATCTTATCTCCCT
* * * * *
11293490 GAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT
56 GAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATT
* *
11293555 AAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
121 AAAATAAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCC
* * *
11293610 TATCTCCCTGAGGTTATAGTAGAGTAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
* * *
11293675 CGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGG
66 CAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAATG
* *
11293740 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
131 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
11293781 ATTAAAATCA
Statistics
Matches: 1038, Mismatches: 146, Indels: 118
0.80 0.11 0.09
Matches are distributed among these distances:
172 1 0.00
173 38 0.04
174 9 0.01
175 682 0.66
176 8 0.01
177 6 0.01
178 47 0.05
180 3 0.00
181 6 0.01
182 1 0.00
183 28 0.03
184 3 0.00
185 10 0.01
186 142 0.14
187 15 0.01
188 10 0.01
189 1 0.00
190 2 0.00
191 1 0.00
193 2 0.00
194 1 0.00
196 20 0.02
197 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (175 bp):
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
CAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAATG
ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCC
Found at i:11293724 original size:44 final size:44
Alignment explanation
Indices: 11293462--11293772 Score: 174
Period size: 44 Copynumber: 7.1 Consensus size: 44
11293452 AGATCACATC
* * *
11293462 AGATTGAAGCCAG-AGATCTTATCTCCCTG-AGATTGCAGCGGAGT
1 AGATTGAAGCTAGTA-ATCTTATCTCCCTGAAG-TTACAGTGGAGT
* * * *
11293506 AGATTTAAGCTGGTAATCCTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTGAAGCTAGTAATCTTATCTCCCTGAAGTTACAGTGGAGT
* ** * * * *
11293550 GGATT-AAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGT
1 AGATTGAAGCT-AGTAATCTTATCTCCCTGAAGTTACAGTGGAGT
* * * * * * *
11293594 AGATCGCATC-AG--GTCTTATCTCCCTGAGGTTATAGTAGAGT
1 AGATTGAAGCTAGTAATCTTATCTCCCTGAAGTTACAGTGGAGT
* * * *
11293635 AGATCGAAG-AATTTCAGATCTTATCTCCCTG-AGATTACAGCGGAGT
1 AGATTGAAGCTA-GT-A-ATCTTATCTCCCTGAAG-TTACAGTGGAGT
* *
11293681 AGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGT
1 AGATTGAAGCTAGTAATCTTATCTCCCTGAAGTTACAGTGGAGT
* ** * * *
11293725 GGATT-AAAATAAAG-GATCTTATCTCTCTGAAGTTACAGTAGAGT
1 AGATTGAAGCT--AGTAATCTTATCTCCCTGAAGTTACAGTGGAGT
11293769 AGAT
1 AGAT
11293773 CACATCAGAT
Statistics
Matches: 204, Mismatches: 48, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
41 33 0.16
43 7 0.03
44 122 0.60
45 10 0.05
46 31 0.15
47 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
AGATTGAAGCTAGTAATCTTATCTCCCTGAAGTTACAGTGGAGT
Found at i:11293781 original size:317 final size:317
Alignment explanation
Indices: 11293333--11293922 Score: 911
Period size: 317 Copynumber: 1.9 Consensus size: 317
11293323 TTGAAGCCAG
* * *
11293333 AGATCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCTATCTCTCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTT
11293398 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
* * * * ***
11293463 GATT-GAAGC-CAGAGATCTTATCTCCCTG-AGATTGCAGCGGAGTAGATTTAAGCTGGTA-ATC
131 GATTAAAAGCACA-AG-TCTTATCTCCCTGAAG-TTGCAGCGGAGCAGATTAAAAC-CCCAGATC
11293524 CTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCT-CTGAAGTTACAG
192 CTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCT-TGCTGAAGTTACAG
*
11293588 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTATAGTAGAGTAGATCGAAGAATTTC
256 TAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTATAGTAGAGTAGATCGAAGAATTTC
11293650 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTT
*
11293715 ACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
* * * *
11293780 GATTAAAATCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCAGATCTTAT
131 GATTAAAAGCACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCCCAGATCCTAT
* * * * *
11293845 CTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATGATTGATCTTATCTTGCTGAAGTTGCAGTAGAG
196 CTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTTGCTGAAGTTACAGTAGAG
11293910 CAGATCGCATCAG
261 CAGATCGCATCAG
11293923 ACCTTATTCC
Statistics
Matches: 247, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
316 2 0.01
317 236 0.96
318 7 0.03
319 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (317 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
GATTAAAAGCACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCCCAGATCCTAT
CTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTTGCTGAAGTTACAGTAGAG
CAGATCGCATCAGGTCTTATCTCCCTGAGGTTATAGTAGAGTAGATCGAAGAATTTC
Found at i:11293885 original size:44 final size:44
Alignment explanation
Indices: 11293780--11293910 Score: 156
Period size: 44 Copynumber: 3.0 Consensus size: 44
11293770 GATCACATCA
*
11293780 GATTAAAATCACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCG
1 GATTAAAACCACAGA-TCTTATCTCCCTGAAGTTGCAGTGGAGCG
*
11293824 GATTAAAACCCCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCG
1 GATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCG
* ** ** ** *
11293868 GGTTAAAATGATTGATCTTATCTTGCTGAAGTTGCAGTAGAGC
1 GATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGC
11293911 AGATCGCATC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
44 74 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
GATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCG
Found at i:11295575 original size:14 final size:13
Alignment explanation
Indices: 11295532--11295577 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
11295522 TCATAACTTT
11295532 ATATGTATACATA
1 ATATGTATACATA
*
11295545 A-ATGTACACATGA
1 ATATGTATACAT-A
11295558 ATATGTATACATA
1 ATATGTATACATA
11295571 CATATGT
1 -ATATGT
11295578 TTTTCGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 9 0.32
13 4 0.14
14 15 0.54
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (13 bp):
ATATGTATACATA
Found at i:11295842 original size:112 final size:112
Alignment explanation
Indices: 11295645--11296500 Score: 1488
Period size: 112 Copynumber: 7.7 Consensus size: 112
11295635 TTTTTTAATT
11295645 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
11295710 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
11295757 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
11295822 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
11295869 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
11295934 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
11295981 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
11296046 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
11296093 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
11296158 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
11296205 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
11296270 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
* * *
11296317 AATTCGAGAAAACATGCCCTAAGGTGCTAGGTGTTGATTTTTCTCATTCAACCAAATGACTAAAT
1 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
* * * * *
11296382 ATCCTTTTAAAA-A-TTTCGAAGTAAGGTAATATTTTGCGTTT-GGA
66 ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
* * * * * * ** * *
11296426 AA-TCTAAGGAAACGTGCCCTAATGCGCTGGGTTTCGATTTTTC-CATTTGACCAAATAGCCAAA
1 AATTC-GAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAA
* *
11296489 TATTCTCTTAAA
65 TATCCTTTTAAA
11296501 TCTTAATCCA
Statistics
Matches: 720, Mismatches: 23, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
108 27 0.04
109 35 0.05
110 23 0.03
111 1 0.00
112 634 0.88
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (112 bp):
AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAAT
ATCCTTTTAAAATATTTTCAAAATCAGGCAATGTTTTGCGTTTGGGA
Found at i:11296943 original size:41 final size:41
Alignment explanation
Indices: 11296881--11297051 Score: 222
Period size: 41 Copynumber: 4.2 Consensus size: 41
11296871 ATTATTGCTG
*
11296881 AATTGCACATATGTGCTCC-TGTTTGTACTTCGGTACCCCTA
1 AATTGCACATACGTGC-CCTTGTTTGTACTTCGGTACCCCTA
*
11296922 AATTGAACATACGTGTCCC-TGTTTGTACTTCGGTACCCCTA
1 AATTGCACATACGTG-CCCTTGTTTGTACTTCGGTACCCCTA
* * * *
11296963 AATTGCACATATGTGCCCTTATTTGTACTTCAGTACCCCTG
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTA
* * *
11297004 AATTGCACATACGTGCCCTTTTTTATACTTCGGTACCTCTA
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTA
11297045 AA-TGCAC
1 AATTGCAC
11297052 TTTTTTCCTG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
40 8 0.07
41 106 0.92
42 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (41 bp):
AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTA
Found at i:11304447 original size:33 final size:33
Alignment explanation
Indices: 11304405--11304597 Score: 146
Period size: 33 Copynumber: 5.7 Consensus size: 33
11304395 ATGTGAAGGG
11304405 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
*
11304438 GGTTGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
** *
11304465 GGTTGCTAAGTATTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
11304498 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG---GT
** * *
11304540 GGTTGCTAAGTTTTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
*
11304573 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
11304598 TAACGGACAA
Statistics
Matches: 123, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
27 16 0.13
28 5 0.04
29 2 0.02
30 1 0.01
31 2 0.02
32 5 0.04
33 53 0.43
34 7 0.06
35 1 0.01
36 2 0.02
37 2 0.02
38 3 0.02
39 2 0.02
40 1 0.01
41 3 0.02
42 18 0.15
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:11304495 original size:135 final size:135
Alignment explanation
Indices: 11304303--11304588 Score: 482
Period size: 135 Copynumber: 2.1 Consensus size: 135
11304293 ATATAAAGGG
11304303 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGATTCCCCGAATCATTGGTGGTTG
1 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGATTCCCCGAATCATTGGTGGTTG
* * * * * *
11304368 TTAAGTGCTGATTCCATCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCA
66 CTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
*
11304433 TTGGT
131 CTGGT
*
11304438 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGATTCCCCGATTCATTGGTGGTTG
1 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGATTCCCCGAATCATTGGTGGTTG
**
11304503 CTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTTTTGATTCCCCGAATCA
66 CTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
11304568 CTGGT
131 CTGGT
11304573 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
11304589 ATCCACCGAT
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 141 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (135 bp):
GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGATTCCCCGAATCATTGGTGGTTG
CTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
CTGGT
Found at i:11309602 original size:22 final size:22
Alignment explanation
Indices: 11309558--11309607 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11309548 GGGTCATGTC
*
11309558 TTGTCTCAAGACATAAGACCAT
1 TTGTCTCAAGACATAACACCAT
*
11309580 TTGTCTCAAGATAT-ACACTCAT
1 TTGTCTCAAGACATAACAC-CAT
*
11309602 TCGTCT
1 TTGTCT
11309608 TGAGATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (22 bp):
TTGTCTCAAGACATAACACCAT
Done.