Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 133 of 211
Found at i:42197098 original size:27 final size:27
Alignment explanation
Indices: 42197068--42197146 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
42197058 CAATAAACAC
42197068 GGGGTAGTCCGTCGGGACAATAAATGT
1 GGGGTAGTCCGTCGGGACAATAAATGT
** * *
42197095 GGGGTAGTTTG-CTGGGACATTAAACGT
1 GGGGTAGTCCGTC-GGGACAATAAATGT
42197122 GGGGTAGTCCGTCGGGACAATAAAT
1 GGGGTAGTCCGTCGGGACAATAAAT
42197147 ATGAGGTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.37, T:0.24
Consensus pattern (27 bp):
GGGGTAGTCCGTCGGGACAATAAATGT
Found at i:42197126 original size:54 final size:54
Alignment explanation
Indices: 42197068--42197172 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
42197058 CAATAAACAC
* * * *
42197068 GGGGTAGTCCGTCGGGACAATAAATGTGGGGTAGTTTGCTGGGACATTAAACGT
1 GGGGTAGTCCGTCGGGACAATAAATATGAGGTAATTTGCTGGAACATTAAACGT
42197122 GGGGTAGTCCGTCGGGACAATAAATATGAGGTAATTTGCTGGAACATTAAA
1 GGGGTAGTCCGTCGGGACAATAAATATGAGGTAATTTGCTGGAACATTAAA
42197173 TGCAGAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.26
Consensus pattern (54 bp):
GGGGTAGTCCGTCGGGACAATAAATATGAGGTAATTTGCTGGAACATTAAACGT
Found at i:42197154 original size:27 final size:27
Alignment explanation
Indices: 42197056--42197154 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
42197046 AATCTTTCGA
*
42197056 GACAATAAACACGGGGTAGTCCGTCGG
1 GACAATAAACATGGGGTAGTCCGTCGG
** **
42197083 GACAATAAATGTGGGGTAGTTTG-CTGG
1 GACAATAAACATGGGGTAGTCCGTC-GG
* *
42197110 GACATTAAACGTGGGGTAGTCCGTCGG
1 GACAATAAACATGGGGTAGTCCGTCGG
* *
42197137 GACAATAAATATGAGGTA
1 GACAATAAACATGGGGTA
42197155 ATTTGCTGGA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.22
Consensus pattern (27 bp):
GACAATAAACATGGGGTAGTCCGTCGG
Found at i:42197198 original size:54 final size:54
Alignment explanation
Indices: 42197072--42197208 Score: 157
Period size: 54 Copynumber: 2.5 Consensus size: 54
42197062 AAACACGGGG
* * * ** **
42197072 TAGTCCGTCGGGACAATAAATGTGGGGTAGTTTGCTGGGACATTAAACGTGGGG
1 TAGTCCGTCGGGACAATAAATATGGGGTAATTTGCTGGAACATTAAACGCAGAA
* *
42197126 TAGTCCGTCGGGACAATAAATATGAGGTAATTTGCTGGAACATTAAATGCAGAA
1 TAGTCCGTCGGGACAATAAATATGGGGTAATTTGCTGGAACATTAAACGCAGAA
* * * *
42197180 TAGTTCGTTGGGATAATAAACATGGGGTA
1 TAGTCCGTCGGGACAATAAATATGGGGTA
42197209 TTCCAAGTTA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (54 bp):
TAGTCCGTCGGGACAATAAATATGGGGTAATTTGCTGGAACATTAAACGCAGAA
Found at i:42197249 original size:27 final size:27
Alignment explanation
Indices: 42197218--42197288 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
42197208 ATTCCAAGTT
* *
42197218 ATTAAACGTAGGGTAGTCCATCAAGAC
1 ATTAAACGCAGGGTAGTCCACCAAGAC
* * *
42197245 ATTAAATGCGGGGTAGTCTACCAAGAC
1 ATTAAACGCAGGGTAGTCCACCAAGAC
*
42197272 ATTAAACCCA-GGTAGTC
1 ATTAAACGCAGGGTAGTC
42197289 TGTCGGGACA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 7 0.19
27 29 0.81
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
ATTAAACGCAGGGTAGTCCACCAAGAC
Found at i:42197312 original size:53 final size:54
Alignment explanation
Indices: 42197255--42197359 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 54
42197245 ATTAAATGCG
** *
42197255 GGGTAGTCTACCAAGACATTAAAC-CCAGGTAGTCTGTCGGGACAATAAACATA
1 GGGTAGTCTACCAAGACATTAAACGCCAGGTAGTCCATCGGAACAATAAACATA
* * * *
42197308 GGGTAGTCTGCTAGGACATTAAACGCGAGGTAGTCCATCGGAACAATAAACA
1 GGGTAGTCTACCAAGACATTAAACGCCAGGTAGTCCATCGGAACAATAAACA
42197360 CGTGGTGGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 21 0.48
54 23 0.52
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (54 bp):
GGGTAGTCTACCAAGACATTAAACGCCAGGTAGTCCATCGGAACAATAAACATA
Found at i:42197339 original size:27 final size:26
Alignment explanation
Indices: 42197242--42197342 Score: 69
Period size: 27 Copynumber: 3.8 Consensus size: 26
42197232 AGTCCATCAA
* * * * *
42197242 GACATTAAATGCGGGGTAGTCTACCAA
1 GACATTAAA-CCGAGGTAGTCTGCTAG
* *
42197269 GACATTAAACCCAGGTAGTCTG-TCGG
1 GACATTAAACCGAGGTAGTCTGCT-AG
* **
42197295 GACAATAAACATAGGGTAGTCTGCTAG
1 GACATTAAACCGA-GGTAGTCTGCTAG
42197322 GACATTAAACGCGAGGTAGTC
1 GACATTAAAC-CGAGGTAGTC
42197343 CATCGGAACA
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
26 19 0.34
27 35 0.62
28 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (26 bp):
GACATTAAACCGAGGTAGTCTGCTAG
Found at i:42205520 original size:13 final size:13
Alignment explanation
Indices: 42205499--42205536 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
42205489 TAACCCATTG
*
42205499 CACATAAAACAAA
1 CACACAAAACAAA
42205512 CACACAAAAACAAA
1 CACAC-AAAACAAA
42205526 -ACACAAAACAA
1 CACACAAAACAA
42205537 CCAAAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
14 8 0.35
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (13 bp):
CACACAAAACAAA
Found at i:42205527 original size:15 final size:15
Alignment explanation
Indices: 42205499--42205530 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42205489 TAACCCATTG
42205499 CACATAAAACAAACA
1 CACATAAAACAAACA
42205514 CACA-AAAACAAA-A
1 CACATAAAACAAACA
42205527 CACA
1 CACA
42205531 AAACAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 8 0.47
15 4 0.24
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (15 bp):
CACATAAAACAAACA
Found at i:42206854 original size:27 final size:27
Alignment explanation
Indices: 42206784--42206913 Score: 122
Period size: 27 Copynumber: 4.7 Consensus size: 27
42206774 ATTTTGTGTG
42206784 CGCCACAAAGGCGTTCCTTTAATCAT-T-T
1 CGCCACAAAGGC-TTCCTTT--TCATATAT
* *
42206812 -GCCACTAAGGCTTTCCTTTTCTTATAT
1 CGCCACAAAGGC-TTCCTTTTCATATAT
* *
42206839 CGCCACAAAGGCTTCCATTTCATATAA
1 CGCCACAAAGGCTTCCTTTTCATATAT
* *
42206866 CGCCACAAAGGCTTCCATTTCATAGAT
1 CGCCACAAAGGCTTCCTTTTCATATAT
* *
42206893 TGTCACAAAGGCTTCCATTTT
1 CGCCACAAAGGCTTCC-TTTT
42206914 TCTGGCGTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 69 0.80
28 13 0.15
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (27 bp):
CGCCACAAAGGCTTCCTTTTCATATAT
Found at i:42213430 original size:19 final size:19
Alignment explanation
Indices: 42213376--42213429 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
42213366 GAAGAAAAGT
*
42213376 TACTGGGAAATATAAAATT
1 TACTGGGAAATATAAAATC
* *
42213395 TATTAGGAAATATAAAATC
1 TACTGGGAAATATAAAATC
42213414 TACTGGGAAA-ATAAAA
1 TACTGGGAAATATAAAA
42213430 AAACCTAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.28
Consensus pattern (19 bp):
TACTGGGAAATATAAAATC
Found at i:42215764 original size:26 final size:27
Alignment explanation
Indices: 42215682--42215746 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
42215672 GGAAAGAAAA
* * * *
42215682 GCCTTTGTGACAAAATATG-AATGAAAA
1 GCCTTTGTGGCAAACTATGTAA-GGAAT
*
42215709 GCCTTTGTGGCAAACTCTGTAAGGAAT
1 GCCTTTGTGGCAAACTATGTAAGGAAT
42215736 GCCTTTGTGGC
1 GCCTTTGTGGC
42215747 GCACTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (27 bp):
GCCTTTGTGGCAAACTATGTAAGGAAT
Found at i:42218768 original size:5 final size:5
Alignment explanation
Indices: 42218758--42218789 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
42218748 TAATTTATCT
42218758 AATTA AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AA
42218790 AATAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:42219397 original size:159 final size:159
Alignment explanation
Indices: 42219061--42219387 Score: 433
Period size: 159 Copynumber: 2.0 Consensus size: 159
42219051 ATATCTTCCT
* * * **
42219061 ATAAATATTTGGTATTGGTAGAGCTATACATACAACAGTTTTCAATACTGTTATTCAGTCTGAAA
1 ATAAATATATGGTACTGGTAGAGCTATACATACAACAGTTTTCAATACTGTTATTCAGCCCAAAA
* * *
42219126 ATAGTGATAATTTATTTTCTAAGTATAAATTTTATTTTTTGAGATTAATTCTACTAGTTTCTATT
66 ATAGTGATAATTTATTTTCTAAGTATAAATTCTATTTTTTGAGATCAATTCTACTAGTATCTATT
* **
42219191 GAGAGAGAATTGTTTTCCTACTAAAAGTG
131 AAGAGAGAATTAATTTCCTACTAAAAGTG
* * * **
42219220 ATAAATATATGGTACTGGTAGGGCTATACATACAACAGTTTTCAATATTTTTATTTTGCCCAAAA
1 ATAAATATATGGTACTGGTAGAGCTATACATACAACAGTTTTCAATACTGTTATTCAGCCCAAAA
42219285 ATAGTGATAATTTATTTTCTAAGTATAAATTCTATTTTCTGTGA-ATAACAATTCTACT-GATAT
66 ATAGTGATAATTTATTTTCTAAGTATAAATTCTATTTT-T-TGAGAT--CAATTCTACTAG-TAT
* *
42219348 CTATTAAGAGAGAATTAATTTCCTATTGAAAGTG
126 CTATTAAGAGAGAATTAATTTCCTACTAAAAGTG
42219382 ATAAAT
1 ATAAAT
42219388 TGTTTCTGGT
Statistics
Matches: 145, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
159 92 0.63
160 3 0.02
161 4 0.03
162 46 0.32
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (159 bp):
ATAAATATATGGTACTGGTAGAGCTATACATACAACAGTTTTCAATACTGTTATTCAGCCCAAAA
ATAGTGATAATTTATTTTCTAAGTATAAATTCTATTTTTTGAGATCAATTCTACTAGTATCTATT
AAGAGAGAATTAATTTCCTACTAAAAGTG
Found at i:42223575 original size:51 final size:52
Alignment explanation
Indices: 42223519--42223627 Score: 193
Period size: 51 Copynumber: 2.1 Consensus size: 52
42223509 ATGCCAAAAC
*
42223519 TAGCAAGCATAACTACCATTTTTAAAAATAGTTTAATATTTTTAGAC-AAAT
1 TAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGACTAAAT
*
42223570 TAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGACTAATT
1 TAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGACTAAAT
42223622 TAGCAA
1 TAGCAA
42223628 AGGTAATGAC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 46 0.84
52 9 0.16
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (52 bp):
TAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGACTAAAT
Found at i:42227458 original size:20 final size:20
Alignment explanation
Indices: 42227433--42227472 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42227423 CGTAAAATGA
*
42227433 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
42227453 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
42227473 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:42227462 original size:34 final size:35
Alignment explanation
Indices: 42227418--42227484 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
42227408 CAGTAAAATA
*
42227418 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
42227452 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
42227485 TTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:42227596 original size:20 final size:20
Alignment explanation
Indices: 42227571--42227609 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
42227561 GTTTTTACAT
42227571 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
42227591 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
42227610 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:42231042 original size:25 final size:25
Alignment explanation
Indices: 42231014--42231063 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
42231004 AGAAGAGAAG
*
42231014 ATGAAGAACAGAAGAAGAAAAAGGA
1 ATGAAAAACAGAAGAAGAAAAAGGA
** *
42231039 ATGAAAAAGGGAAGAAGAAGAAGGA
1 ATGAAAAACAGAAGAAGAAAAAGGA
42231064 GCCTTACCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.32, T:0.04
Consensus pattern (25 bp):
ATGAAAAACAGAAGAAGAAAAAGGA
Found at i:42232258 original size:32 final size:31
Alignment explanation
Indices: 42232222--42232284 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
42232212 TAAAATAGGG
* *
42232222 TTTTAAGTTCTTTAAAAGTTAGAGAAAAAAAA
1 TTTTAAGTCCCTTAAAAGTT-GAGAAAAAAAA
*
42232254 TTTTAAGTCCCTTAAAAGTTGATAAAAAAAA
1 TTTTAAGTCCCTTAAAAGTTGAGAAAAAAAA
42232285 GATTTGAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.33
Consensus pattern (31 bp):
TTTTAAGTCCCTTAAAAGTTGAGAAAAAAAA
Found at i:42236528 original size:31 final size:29
Alignment explanation
Indices: 42236459--42236529 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
42236449 ACAAAATAAT
* *
42236459 AACATAAGTGACTAAAACGTAACATTTCA
1 AACAAAAGTGACTAAAACGTAACATGTCA
* *
42236488 AACATAAGTGACTAAAATGTAACATGAGTCA
1 AACAAAAGTGACTAAAACGTAACAT--GTCA
*
42236519 AATAAAAGTGA
1 AACAAAAGTGA
42236530 TTATTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 24 0.67
31 12 0.33
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.23
Consensus pattern (29 bp):
AACAAAAGTGACTAAAACGTAACATGTCA
Found at i:42254191 original size:44 final size:45
Alignment explanation
Indices: 42254129--42254847 Score: 574
Period size: 44 Copynumber: 16.3 Consensus size: 45
42254119 AAAGCAGTAA
* * * *
42254129 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * *
42254173 GTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * * *
42254216 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGGTCGAAGAAAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * * * *
42254261 ATCTTTTCTTCATGTAGTGG-CGTGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * **
42254305 ATCCTGTCTTCCTATATTGGTAGCGAAGTGGATTAAAGAT-GCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
** * * * * * **
42254349 ATCTTGTCTTCGAATACTCGTGGCGAAGTAGATC-AAAAAAGTGG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * * *
42254393 ATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATAGCA-
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * *
42254436 AGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAG
1 A-TCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * *
42254480 ATCTTGTCTTCCCATATTGGTGGCGAAGAAGATTGAAGATAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * *
42254525 ATCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAT
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * * * *
42254569 ATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * * * *
42254614 ATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAATATAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * *
42254658 ATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GTAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* * * * *
42254702 ATCTTGTCTTCCCAT-TCTGGTGGCAAAGTAGATCGGAA-AAAGTAG
1 ATCTTGTCTTCCTATAT-TGGTAGCGAAGTAGATC-GAAGATAGCAG
* * * * *
42254747 ATCTTGTCTTCATGTATT-G-ACGTGAAGTAGATTGAAGATGGCAG
1 ATCTTGTCTTCCTATATTGGTA-GCGAAGTAGATCGAAGATAGCAG
* * * *
42254791 ATC-TGTCTTCCTATATCGGTAGCGAAGGAGATCAAAAATAGCAG
1 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
* *
42254835 ACCTTGCCTTCCT
1 ATCTTGTCTTCCT
42254848 TTACTGGCAG
Statistics
Matches: 521, Mismatches: 132, Indels: 43
0.75 0.19 0.06
Matches are distributed among these distances:
43 72 0.14
44 312 0.60
45 136 0.26
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAG
Found at i:42254646 original size:264 final size:263
Alignment explanation
Indices: 42254129--42254624 Score: 724
Period size: 264 Copynumber: 1.9 Consensus size: 263
42254119 AAAGCAGTAA
* *
42254129 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGT
1 ATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAGTCCTATCTTCCTATATTGGT
* *
42254194 AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGGTCGAAGAAAGC
66 AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGAAGATCGAAGAAAGC
* * * * * * * *
42254259 AGATCTTTTCTTCATGTAGTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
131 AGATCATGTCTTCATATAGTGGAGCGAAGTAGATCGAAGATAGCAGATCCTATCTTCCCATACTG
* * * * *
42254324 GTAGCGAAGTGGATTAAAGATGCAGATCTTGTCTTCGAATACTCGTGGCGAAGTAGATCAAAAAA
196 GTAGCGAAGTAGATGAAAAAAGCAGATCTTATCTTCGAATACTC-TGGCGAAGTAGATCAAAAAA
42254389 GTGG
260 GTGG
42254393 ATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAGTCCTATCTTCCTATATTGGT
1 ATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAGTCCTATCTTCCTATATTGGT
* * *
42254458 AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGAAGATTGAAGATAGC
66 AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGAAGATCGAAGAAAGC
* * * * *
42254523 AGATCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCATATCTTATCTTCCCATACT
131 AGATCATGTCTTCATATAGTGG-AGCGAAGTAGATCGAAGATAGCAGATCCTATCTTCCCATACT
*
42254587 GGTGGCGAAGTAGATCGAAAAAAGCAGATCTTATCTTC
195 GGTAGCGAAGTAGAT-GAAAAAAGCAGATCTTATCTTC
42254625 ATGTATTGGC
Statistics
Matches: 204, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
264 170 0.83
265 34 0.17
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (263 bp):
ATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAGTCCTATCTTCCTATATTGGT
AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGAAGATCGAAGAAAGC
AGATCATGTCTTCATATAGTGGAGCGAAGTAGATCGAAGATAGCAGATCCTATCTTCCCATACTG
GTAGCGAAGTAGATGAAAAAAGCAGATCTTATCTTCGAATACTCTGGCGAAGTAGATCAAAAAAG
TGG
Found at i:42254655 original size:133 final size:130
Alignment explanation
Indices: 42254416--42254817 Score: 491
Period size: 133 Copynumber: 3.0 Consensus size: 130
42254406 GTATTAGCGT
* * * * * * * *
42254416 GAAGTAGATCGAAGATAGCAAGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAG
1 GAAGTGGATCGAAGAT-GCAA-TCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAGCAG
*** * * *
42254480 ATCTTGTCTTCCCATATTGGTGGCGAAGAAGATTGAAGATAGCAGATCATGTCTTCCTATATTGG
64 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATTGAAGATAGCAGATC-TGTCTTCCTATATTGG
42254545 TAGC
127 TAGC
42254549 GAAGTGGATCGAAGATGCATATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAAGCAG
1 GAAGTGGATCGAAGATGCA-ATCTTATCTTCCCATACTGGTGGCGAAGTAGATCG-AAAAAGCAG
* * *
42254614 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCAGATCCTGTCTTCCTATATTGGT
64 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAGCAGAT-CTGTCTTCCTATATTGGT
42254679 AGC
128 AGC
* * * * *
42254682 GAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATTCTGGTGGCAAAGTAGATCGGAAAAAGTAG
1 GAAGTGGATCGAAGATGCA-ATCTTATCTTCCCATACTGGTGGCGAAGTAGATC-GAAAAAGCAG
* * *
42254747 ATCTTGTCTTCATGTATTGACGTGAAGTAGATTGAAGATGGCAGATCTGTCTTCCTATATCGGTA
64 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAGCAGATCTGTCTTCCTATATTGGTA
42254812 GC
129 GC
42254814 GAAG
1 GAAG
42254818 GAGATCAAAA
Statistics
Matches: 235, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
132 45 0.19
133 165 0.70
134 25 0.11
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (130 bp):
GAAGTGGATCGAAGATGCAATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAGCAGAT
CTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAGCAGATCTGTCTTCCTATATTGGTAGC
Found at i:42254942 original size:50 final size:50
Alignment explanation
Indices: 42254880--42254992 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 50
42254870 AAGACATCAG
* *
42254880 TCTTATCGCCTTGACG-TAGCAATGGAAAAGATTGAAGCCACAACGGTGAA
1 TCTTATCTCCTTGACGTTA-CAACGGAAAAGATTGAAGCCACAACGGTGAA
* * * * ** *
42254930 TCTTATTTCCTTGGCGTTATAGCGGAGTAGATTGAAGCCACGACGGTGAA
1 TCTTATCTCCTTGACGTTACAACGGAAAAGATTGAAGCCACAACGGTGAA
*
42254980 TTTTATCTCCTTG
1 TCTTATCTCCTTG
42254993 GCGTCAAGGC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 49 0.96
51 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (50 bp):
TCTTATCTCCTTGACGTTACAACGGAAAAGATTGAAGCCACAACGGTGAA
Found at i:42267605 original size:25 final size:26
Alignment explanation
Indices: 42267539--42267605 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 26
42267529 TCCAACCCAT
42267539 AGCTCGTGTGAGCAT-ACTGATTCAC
1 AGCTCGTGTGAGCATAACTGATTCAC
*
42267564 AGCTCGTGTGAGCATAAC-GATTCAG
1 AGCTCGTGTGAGCATAACTGATTCAC
42267589 AGCTCGTGTGAGCATAA
1 AGCTCGTGTGAGCATAA
42267606 ATTTACAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (26 bp):
AGCTCGTGTGAGCATAACTGATTCAC
Found at i:42276548 original size:57 final size:57
Alignment explanation
Indices: 42276479--42276591 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
42276469 TGAACGTAGG
42276479 ATAGAGTACAATTGGCATGCCAATAGGTTATATTGCAAGCAGTATGAGATTTGACTT
1 ATAGAGTACAATTGGCATGCCAATAGGTTATATTGCAAGCAGTATGAGATTTGACTT
* * *
42276536 ATAGAGTACAATTGGCATGTCAATAGGTTATATTGCACGCAGTATGGGATTTGACT
1 ATAGAGTACAATTGGCATGCCAATAGGTTATATTGCAAGCAGTATGAGATTTGACT
42276592 GAGTTGATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (57 bp):
ATAGAGTACAATTGGCATGCCAATAGGTTATATTGCAAGCAGTATGAGATTTGACTT
Found at i:42278142 original size:19 final size:19
Alignment explanation
Indices: 42278118--42278166 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
42278108 GTGACCCATG
42278118 TTTTCAAAATTTGTC-ATTT
1 TTTTCAAAATTT-TCGATTT
*
42278137 TTTTCAAACTTTTCTGATTT
1 TTTTCAAAATTTTC-GATTT
*
42278157 GTTTCAAAAT
1 TTTTCAAAAT
42278167 GATCCCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 11 0.44
20 12 0.48
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTTCAAAATTTTCGATTT
Found at i:42279344 original size:14 final size:14
Alignment explanation
Indices: 42279325--42279352 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42279315 TAAATATTAA
42279325 TAATATTTACGAAT
1 TAATATTTACGAAT
42279339 TAATATTTACGAAT
1 TAATATTTACGAAT
42279353 CAAATATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATATTTACGAAT
Found at i:42282959 original size:14 final size:15
Alignment explanation
Indices: 42282931--42282959 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42282921 GCTAATAAAA
42282931 ACTTACACTAAAATT
1 ACTTACACTAAAATT
42282946 ACTTACAC-AAAATT
1 ACTTACACTAAAATT
42282960 TTCAACCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ACTTACACTAAAATT
Found at i:42284493 original size:27 final size:27
Alignment explanation
Indices: 42284448--42284509 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
42284438 GGTGAGCTAA
*
42284448 GGTTCACCAAAGGGACTAGCGAGCTGG
1 GGTTCACCAAAGGGACTAGCGAGATGG
* *
42284475 GGTTCACCAATA-GGCCTAGTGAGATGG
1 GGTTCACCAA-AGGGACTAGCGAGATGG
42284502 GGTTCACC
1 GGTTCACC
42284510 CTGACAGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.34, T:0.19
Consensus pattern (27 bp):
GGTTCACCAAAGGGACTAGCGAGATGG
Found at i:42288116 original size:16 final size:16
Alignment explanation
Indices: 42288095--42288134 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
42288085 TAATATAGTA
42288095 AATTTTGCTTTTAGGT
1 AATTTTGCTTTTAGGT
*
42288111 AATTTTGTTTTTAGGT
1 AATTTTGCTTTTAGGT
42288127 AATTTTGC
1 AATTTTGC
42288135 ATTCCGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.17, T:0.57
Consensus pattern (16 bp):
AATTTTGCTTTTAGGT
Found at i:42288886 original size:2 final size:2
Alignment explanation
Indices: 42288879--42288914 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
42288869 TTAATTAAGT
42288879 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
42288915 CAAATGTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42296030 original size:30 final size:31
Alignment explanation
Indices: 42295974--42296032 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
42295964 TAAAAGGATA
*
42295974 ATATATATAAAAAGAATATAACAAATAATGT
1 ATATATATAAAAAGAATAAAACAAATAATGT
* *
42296005 ATATATAT-AAAAGTATAAAATAAATAAT
1 ATATATATAAAAAGAATAAAACAAATAAT
42296033 AAAAAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (31 bp):
ATATATATAAAAAGAATAAAACAAATAATGT
Found at i:42301799 original size:21 final size:22
Alignment explanation
Indices: 42301749--42301801 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
42301739 ATTTAGTCTT
*
42301749 TATTCTTAAAAATTAAAAATTAAA
1 TATT-TTAAAAAATAAAAA-TAAA
*
42301773 -ACTTTAAAAAATAAAAA-AAA
1 TATTTTAAAAAATAAAAATAAA
42301793 TATTTTAAA
1 TATTTTAAA
42301802 GTTCGGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 7 0.28
22 13 0.52
23 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
TATTTTAAAAAATAAAAATAAA
Found at i:42302300 original size:18 final size:18
Alignment explanation
Indices: 42302259--42302298 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
42302249 GAAATTTAAC
42302259 TTTTAAATAATTTTTTGAT
1 TTTTAAAT-ATTTTTTGAT
*
42302278 TTTTAAAT-TTTTTTTAT
1 TTTTAAATATTTTTTGAT
42302295 TTTT
1 TTTT
42302299 TATTTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTAAATATTTTTTGAT
Found at i:42306685 original size:39 final size:39
Alignment explanation
Indices: 42306639--42306717 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
42306629 ACACATCATT
42306639 TAACTCATCAATAATATCATAAGATCACGATTCATTCCA
1 TAACTCATCAATAATATCATAAGATCACGATTCATTCCA
42306678 TAACTCATCAATAATATCATAAGATCACGATTCATTCCA
1 TAACTCATCAATAATATCATAAGATCACGATTCATTCCA
42306717 T
1 T
42306718 TTGCATACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (39 bp):
TAACTCATCAATAATATCATAAGATCACGATTCATTCCA
Found at i:42310762 original size:5 final size:5
Alignment explanation
Indices: 42310752--42310816 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
42310742 CTTTTTACCA
* *
42310752 TATAT TATAT TATAT TATAT TATAT TATATT TATAAT T-T-T TATAA CAT-T
1 TATAT TATAT TATAT TATAT TATAT TATA-T TAT-AT TATAT TATAT TATAT
42310801 TATAT TATA- TATAT TA
1 TATAT TATAT TATAT TA
42310817 GTTTTTCATC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 2 0.04
4 7 0.14
5 34 0.68
6 6 0.12
7 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:42310765 original size:10 final size:10
Alignment explanation
Indices: 42310752--42310816 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 10
42310742 CTTTTTACCA
42310752 TATATTATAT
1 TATATTATAT
42310762 TATATTATAT
1 TATATTATAT
42310772 TATATTATATT
1 TATATTATA-T
42310783 TATAATT-T-T
1 TAT-ATTATAT
**
42310792 TATAACAT-T
1 TATATTATAT
42310801 TATATTATA-
1 TATATTATAT
42310810 TATATTA
1 TATATTA
42310817 GTTTTTCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 1 0.02
9 19 0.40
10 19 0.40
11 5 0.11
12 3 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATTATAT
Found at i:42322321 original size:14 final size:14
Alignment explanation
Indices: 42322302--42322341 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
42322292 TTTGGATCTA
*
42322302 GGGTTCACACATAT
1 GGGTTCACACATAG
* *
42322316 GGGTTCAAACCTAG
1 GGGTTCACACATAG
42322330 GGGTTCACACAT
1 GGGTTCACACAT
42322342 CTAGGCATGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (14 bp):
GGGTTCACACATAG
Found at i:42329533 original size:28 final size:28
Alignment explanation
Indices: 42329493--42329549 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
42329483 ATGAACCGGA
*
42329493 TACTTCAGTCATATCTAGATAGATTTGT
1 TACTTCAATCATATCTAGATAGATTTGT
*
42329521 TACTTCAATCATATCTGGATAGATTTGT
1 TACTTCAATCATATCTAGATAGATTTGT
42329549 T
1 T
42329550 TTCGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (28 bp):
TACTTCAATCATATCTAGATAGATTTGT
Found at i:42335678 original size:14 final size:15
Alignment explanation
Indices: 42335659--42335688 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
42335649 TCTCGACTCT
42335659 TAAAAAAA-TAAAAG
1 TAAAAAAATTAAAAG
42335673 TAAAAAAATTAAAAG
1 TAAAAAAATTAAAAG
42335688 T
1 T
42335689 TCATTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
TAAAAAAATTAAAAG
Found at i:42337086 original size:24 final size:24
Alignment explanation
Indices: 42337058--42337182 Score: 77
Period size: 24 Copynumber: 5.3 Consensus size: 24
42337048 TATCTAAGTT
42337058 AATTTATTGTATATTATTATTTTA
1 AATTTATTGTATATTATTATTTTA
* *
42337082 GATTTATCACGT-T-TTATTATTTGT-
1 AATTTAT--TGTATATTATTATTT-TA
**
42337106 AATTTA-TCAATATTATTATTTTA
1 AATTTATTGTATATTATTATTTTA
* * *
42337129 AATTTATCGTA-A-CACTATTTTA
1 AATTTATTGTATATTATTATTTTA
42337151 AATTTATCATGTATA-T-TTATTTTA
1 AATTTAT--TGTATATTATTATTTTA
42337175 CAATTTAT
1 -AATTTAT
42337183 CATTAATATT
Statistics
Matches: 76, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
22 17 0.22
23 16 0.21
24 31 0.41
25 10 0.13
26 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
AATTTATTGTATATTATTATTTTA
Found at i:42337125 original size:23 final size:23
Alignment explanation
Indices: 42337068--42337136 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
42337058 AATTTATTGT
42337068 ATATTATTATTTTAGATTTATCAC
1 ATATTATTATTTTA-ATTTATCAC
* *
42337092 GTTTTATTATTTGTAATTTATCA-
1 ATATTATTATTT-TAATTTATCAC
42337115 ATATTATTATTTTAAATTTATC
1 ATATTATTATTTT-AATTTATC
42337137 GTAACACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 18 0.46
24 18 0.46
25 2 0.05
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (23 bp):
ATATTATTATTTTAATTTATCAC
Found at i:42337171 original size:69 final size:66
Alignment explanation
Indices: 42337075--42337202 Score: 152
Period size: 69 Copynumber: 1.9 Consensus size: 66
42337065 TGTATATTAT
* * *
42337075 TATTTTAGATTTATCACGTTTTATTATTTGT-AATTTATCAATATTATTATTTTAAATTTATCGT
1 TATTTTAAATTTATCACGTTATATTATTT-TAAATTTATC---ATTAATATTTTAAATTTATCGT
42337139 AACAC
62 AACAC
*
42337144 TATTTTAAATTTATCATG-TATATTTATTTTACAATTTATCATTAATATTTTAAATTTAT
1 TATTTTAAATTTATCACGTTATA-TTATTTTA-AATTTATCATTAATATTTTAAATTTAT
42337203 TATGTACTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
67 18 0.35
68 4 0.08
69 22 0.42
70 8 0.15
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (66 bp):
TATTTTAAATTTATCACGTTATATTATTTTAAATTTATCATTAATATTTTAAATTTATCGTAACA
C
Found at i:42337180 original size:25 final size:23
Alignment explanation
Indices: 42337072--42337296 Score: 128
Period size: 24 Copynumber: 9.7 Consensus size: 23
42337062 TATTGTATAT
* * *
42337072 TATTATTTTAGATTTATCACGTTT
1 TATTATTTTAAATTTATCATG-TA
*
42337096 TATTATTTGT-AATTTATCA-ATA
1 TATTATTT-TAAATTTATCATGTA
42337118 TTATTATTTTAAATTTATC--GTAA
1 -TATTATTTTAAATTTATCATGT-A
* *
42337141 CACTATTTTAAATTTATCATGTA
1 TATTATTTTAAATTTATCATGTA
42337164 TATTTATTTTACAATTTATCAT-TA
1 TA-TTATTTTA-AATTTATCATGTA
*
42337188 -A-TATTTTAAATTTATTATGTA
1 TATTATTTTAAATTTATCATGTA
** **
42337209 CTATTATTTTGGATTTATCGCGTA
1 -TATTATTTTAAATTTATCATGTA
* **
42337233 TGATTATTCTAGAA-TTATCATCAA
1 T-ATTATTTTA-AATTTATCATGTA
* *
42337257 AATT-TTTAAAATTTTAT-ATGTA
1 TATTATTTTAAA-TTTATCATGTA
*
42337279 TTATTATTTAAAATTTAT
1 -TATTATTTTAAATTTAT
42337297 TATATATTGT
Statistics
Matches: 156, Mismatches: 27, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
20 9 0.06
21 11 0.07
22 25 0.16
23 37 0.24
24 62 0.40
25 12 0.08
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATGTA
Found at i:42337193 original size:45 final size:46
Alignment explanation
Indices: 42337106--42337227 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 46
42337096 TATTATTTGT
* * *
42337106 AATTTATCA-ATATTATTATTTTAAATTTATCGTAACACTATTTTA
1 AATTTATCATGTACTATTATTTTAAATTTATCATAACACTATTTTA
*
42337151 AATTTATCATGTA-TATTTATTTTACAATTTATCATTA-A-TATTTTA
1 AATTTATCATGTACTA-TTATTTTA-AATTTATCATAACACTATTTTA
* **
42337196 AATTTATTATGTACTATTATTTTGGATTTATC
1 AATTTATCATGTACTATTATTTTAAATTTATC
42337228 GCGTATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
44 7 0.10
45 37 0.55
46 13 0.19
47 10 0.15
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (46 bp):
AATTTATCATGTACTATTATTTTAAATTTATCATAACACTATTTTA
Found at i:42337217 original size:69 final size:70
Alignment explanation
Indices: 42337144--42337296 Score: 161
Period size: 69 Copynumber: 2.2 Consensus size: 70
42337134 ATCGTAACAC
* * * *
42337144 TATTTTAAATTTATCATGTAT-ATTTATTTTACAATTTATCATTAATA-TTTT-AAA-TTTATTA
1 TATTTTAAATTTATCACGTATGA-TTATTCTACAA-TTATCATCAAAATTTTTAAAATTTTA-TA
42337205 TGTACTAT
63 TGTACTAT
** * *
42337213 TATTTTGGATTTATCGCGTATGATTATTCTAGAATTATCATCAAAATTTTTAAAATTTTATATGT
1 TATTTTAAATTTATCACGTATGATTATTCTACAATTATCATCAAAATTTTTAAAATTTTATATGT
*
42337278 ATTAT
66 ACTAT
*
42337283 TATTTAAAATTTAT
1 TATTTTAAATTTAT
42337297 TATATATTGT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
68 10 0.15
69 30 0.44
70 24 0.35
71 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (70 bp):
TATTTTAAATTTATCACGTATGATTATTCTACAATTATCATCAAAATTTTTAAAATTTTATATGT
ACTAT
Found at i:42340701 original size:6 final size:6
Alignment explanation
Indices: 42340684--42340721 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
42340674 ACCCTTCTTC
*
42340684 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
42340722 GGGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:42340721 original size:18 final size:18
Alignment explanation
Indices: 42340686--42340721 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
42340676 CCTTCTTCTC
42340686 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
42340704 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
42340722 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:42340815 original size:25 final size:25
Alignment explanation
Indices: 42340787--42340836 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
42340777 AGGCTCCTTC
42340787 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
42340812 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
42340837 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:42342448 original size:13 final size:13
Alignment explanation
Indices: 42342430--42342469 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
42342420 TGTGTATATA
42342430 ATTATTTTATTAT
1 ATTATTTTATTAT
42342443 ATTATTTTATTACGT
1 ATTATTTTATTA--T
42342458 ATTA-TTTATTAT
1 ATTATTTTATTAT
42342470 GTCCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 12 0.48
14 7 0.28
15 5 0.20
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTATTTTATTAT
Found at i:42342718 original size:24 final size:23
Alignment explanation
Indices: 42342659--42342733 Score: 91
Period size: 22 Copynumber: 3.3 Consensus size: 23
42342649 TTTTGTTATC
42342659 TATATATACATGCATATTTTTATAA
1 TATATATACAT--ATATTTTTATAA
* *
42342684 TATATGTATAT-TATTTTTATAA
1 TATATATACATATATTTTTATAA
*
42342706 TATATATACATAT-TTTTTATAT
1 TATATATACATATATTTTTATAA
42342728 TATATA
1 TATATA
42342734 ATTTATACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 34 0.77
23 1 0.02
25 9 0.20
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.55
Consensus pattern (23 bp):
TATATATACATATATTTTTATAA
Found at i:42343017 original size:12 final size:12
Alignment explanation
Indices: 42342996--42343027 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
42342986 TTATATAATC
*
42342996 TTATTCATTTCT
1 TTATTTATTTCT
42343008 TTATTTATTTCT
1 TTATTTATTTCT
42343020 TTATTTAT
1 TTATTTAT
42343028 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:42347239 original size:9 final size:9
Alignment explanation
Indices: 42347227--42347265 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
42347217 CAAATGCACC
42347227 AAAAAAACAA
1 AAAAAAAC-A
42347237 AAAAAAACA
1 AAAAAAACA
*
42347246 AAAAAAA-T
1 AAAAAAACA
42347254 AAAAAAACA
1 AAAAAAACA
42347263 AAA
1 AAA
42347266 GAGGTGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 7 0.27
9 11 0.42
10 8 0.31
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:42347242 original size:10 final size:10
Alignment explanation
Indices: 42347227--42347252 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42347217 CAAATGCACC
42347227 AAAAAAACAA
1 AAAAAAACAA
42347237 AAAAAAACAA
1 AAAAAAACAA
42347247 AAAAAA
1 AAAAAA
42347253 TAAAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:42347248 original size:17 final size:17
Alignment explanation
Indices: 42347226--42347265 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
42347216 TCAAATGCAC
*
42347226 CAAAAAAACAAAAAAAAA
1 CAAAAAAA-ATAAAAAAA
42347244 CAAAAAAAATAAAAAAA
1 CAAAAAAAATAAAAAAA
42347261 CAAAA
1 CAAAA
42347266 GAGGTGAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAAAAATAAAAAAA
Found at i:42347514 original size:5 final size:5
Alignment explanation
Indices: 42347500--42347570 Score: 80
Period size: 5 Copynumber: 14.8 Consensus size: 5
42347490 AAAAACAAAC
*
42347500 AAAA- AAAAG AAAAG AAGAA- AAGAAG AAAAG AAAAG AAAAG AAAAG AAGA-
1 AAAAG AAAAG AAAAG AA-AAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG
42347549 AAAAG AAAAG -AAA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA
42347571 ATAAGAGGTC
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
4 13 0.22
5 42 0.71
6 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:42347517 original size:8 final size:8
Alignment explanation
Indices: 42347501--42347568 Score: 81
Period size: 8 Copynumber: 8.9 Consensus size: 8
42347491 AAAACAAACA
*
42347501 AAAAAAAG
1 AAAAGAAG
42347509 AAAAGAAG
1 AAAAGAAG
42347517 AAAAGAAG
1 AAAAGAAG
42347525 AAAAGAA-
1 AAAAGAAG
42347532 AAGAA-AAG
1 AA-AAGAAG
42347540 AAAAGAAG
1 AAAAGAAG
42347548 -AAA-AAG
1 AAAAGAAG
*
42347554 AAAAGAAA
1 AAAAGAAG
42347562 AAAAGAA
1 AAAAGAA
42347569 AAATAAGAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
6 3 0.06
7 12 0.23
8 38 0.72
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:42347520 original size:13 final size:13
Alignment explanation
Indices: 42347500--42347570 Score: 80
Period size: 13 Copynumber: 5.7 Consensus size: 13
42347490 AAAAACAAAC
42347500 AAAA-AAAAGAA-
1 AAAAGAAAAGAAG
42347511 AAGAAGAAAAGAAG
1 AA-AAGAAAAGAAG
42347525 AAAAG--AA-AAG
1 AAAAGAAAAGAAG
42347535 AAAAGAAAAGAAG
1 AAAAGAAAAGAAG
*
42347548 AAAAAGAAAAGAAA
1 -AAAAGAAAAGAAG
42347562 AAAAGAAAA
1 AAAAGAAAA
42347571 ATAAGAGGTC
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
10 8 0.15
11 4 0.08
12 4 0.08
13 22 0.42
14 14 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAG
Found at i:42347576 original size:9 final size:8
Alignment explanation
Indices: 42347501--42347576 Score: 64
Period size: 8 Copynumber: 9.1 Consensus size: 8
42347491 AAAACAAACA
42347501 AAAAAAAG
1 AAAAAAAG
*
42347509 AAAAGAAG
1 AAAAAAAG
*
42347517 AAAAGAAG
1 AAAAAAAG
*
42347525 AAAAGAA-
1 AAAAAAAG
*
42347532 AAGAAAAG
1 AAAAAAAG
*
42347540 AAAAGAAGAA
1 AAAA-AA-AG
42347550 AAAGAAAAG
1 AAA-AAAAG
42347559 AAAAAAAG
1 AAAAAAAG
42347567 AAAAATAAG
1 AAAAA-AAG
42347576 A
1 A
42347577 GGTCAATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
7 5 0.09
8 35 0.61
9 10 0.18
10 6 0.11
11 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:42349004 original size:44 final size:43
Alignment explanation
Indices: 42348956--42349295 Score: 179
Period size: 44 Copynumber: 7.8 Consensus size: 43
42348946 TTGGCAGCGA
42348956 AGTAGATCGAAGCTTGCAAATCTTATCTCCCTAAGCAGTAGTGG
1 AGTAGATCGAAGC-TGCAAATCTTATCTCCCTAAGCAGTAGTGG
* * * *
42349000 AGTAGATCGAAGATGACGAATCTTATCTTCCTAAG--GTAGCAGG
1 AGTAGATCGAAGCTG-CAAATCTTATCTCCCTAAGCAGTAG-TGG
* ** ** * * *
42349043 AAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCCGTAGTGG
1 -AGTAGATCGAAGCTGCAAATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
42349087 A-TAGGTTGAAACTTGCAGATCTTATCTCCCTAAGCAATAGTGG
1 AGTAGATCGAAGC-TGCAAATCTTATCTCCCTAAGCAGTAGTGG
* * * * * *
42349130 AGTAGATCAAAGACGGCGAAGCTTATCTTCCTAAG-A-TAATAGG
1 AGTAGATCGAAG-CTGCAAATCTTATCTCCCTAAGCAGTAGT-GG
* ** ** * *
42349173 AAGCAGATTTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGG
1 -AGTAGA-TCGAAGCTGCAAATCTTATCTCCCTAAGCAGTAGTGG
* ** * * *
42349218 A-TAGGTTAAAACTTGCAGATCTTATTTCCCTAAGCAGTAGTGG
1 AGTAGATCGAAGC-TGCAAATCTTATCTCCCTAAGCAGTAGTGG
* * * *
42349261 AGCAGGTCGAAGACGGCAAATCTTATCTTCCTAAG
1 AGTAGATCGAAG-CTGCAAATCTTATCTCCCTAAG
42349296 GTAGTAGGAA
Statistics
Matches: 217, Mismatches: 63, Indels: 32
0.70 0.20 0.10
Matches are distributed among these distances:
42 19 0.09
43 75 0.35
44 107 0.49
45 13 0.06
46 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
AGTAGATCGAAGCTGCAAATCTTATCTCCCTAAGCAGTAGTGG
Found at i:42349350 original size:131 final size:130
Alignment explanation
Indices: 42348968--42349335 Score: 592
Period size: 131 Copynumber: 2.8 Consensus size: 130
42348958 TAGATCGAAG
* * *
42348968 CTTGCAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACGAATCTTATCTTCCTA
1 CTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTA
* * *
42349033 AGGTAGCAGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCCGTAGTGGATAGGTTGAAA
66 AGGTAGTAGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTAAAA
* * *
42349098 CTTGCAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCAAAGACGGCGAAGCTTATCTTCCTA
1 CTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTA
* *
42349163 AGATAATAGGAAGCAGATTTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTAAA
66 AGGTAGTAGGAAGCAGA-TTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTAAA
42349228 A
130 A
* * * *
42349229 CTTGCAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGGTCGAAGACGGCAAATCTTATCTTCCTA
1 CTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTA
42349294 AGGTAGTAGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT
66 AGGTAGTAGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT
42349336 GAAGTTGCAG
Statistics
Matches: 217, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 98 0.45
131 119 0.55
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (130 bp):
CTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTA
AGGTAGTAGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTAAAA
Found at i:42349735 original size:173 final size:173
Alignment explanation
Indices: 42349432--42349743 Score: 516
Period size: 173 Copynumber: 1.8 Consensus size: 173
42349422 CATCTCTCTG
* *
42349432 AAGTTGCAGTAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGGCAAGTTG
1 AAGTTGCAGTAAAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGGCAAGTTA
* ** * * *
42349497 AAGATATAAGTTCTATCTTTCTGAAGTTGCAGTGGAGCGGGTCAAAATGATAGATCTCGTCTCTC
66 AAGATATAAGTCCTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAAATGATAGATCTCATCTCTC
42349562 TGAAGTTGCTGTAGAGCAGATCATATCAAAATTTGTCTCTTTA
131 TGAAGTTGCTGTAGAGCAGATCATATCAAAATTTGTCTCTTTA
*
42349605 AAGTTGCAGTAAAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGTAGTGGGGCAAGTTA
1 AAGTTGCAGTAAAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGGCAAGTTA
* * *
42349670 AAGATATAAGTCCTATCTCCCTGAAGTTACAGTGTAGCAGGTCAAAATGATGGATCTTATCTCTC
66 AAGATATAAGTCCTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAAATGATAGATCTCATCTCTC
42349735 TGAAGTTGC
131 TGAAGTTGC
42349744 AGTAAAACTG
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
173 127 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (173 bp):
AAGTTGCAGTAAAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGGCAAGTTA
AAGATATAAGTCCTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAAATGATAGATCTCATCTCTC
TGAAGTTGCTGTAGAGCAGATCATATCAAAATTTGTCTCTTTA
Found at i:42349981 original size:147 final size:147
Alignment explanation
Indices: 42349681--42349999 Score: 349
Period size: 147 Copynumber: 2.2 Consensus size: 147
42349671 AGATATAAGT
* * * ***
42349681 CCTATCTCCCTGAAGTTACAGTGTAGCAGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAG
1 CCTATTTCCCTAAAGTTACAGTGGAATGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAG
* * * * * *
42349746 TAAAACTGATCACATCAAACTTTATTAAAAATTACAAGTCTTATCCCCTGAAGTTGCAGTGGGGC
66 TAAAACAGATCACATCAAACTTTATTAAAAACTACAAGTATTATCCCCTGAAGTTACAATGGAGC
* **
42349811 AAGTTGAAGATACGAGT
131 AAGCTGAAGATACGAAA
* * * *
42349828 CCTATTTCCCTGAAGTTGCAGTGGAATGGGTCAAAATGATGGATCTTATCTTTTTGAAGTTGCAG
1 CCTATTTCCCTAAAGTTACAGTGGAATGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAG
* * * * * *
42349893 TAGAACAGGTCACATCAGA-TTTATT-GAAGCTACAAGTATTATCTCCCTGATGTTACAATGGAG
66 TAAAACAGATCACATCAAACTTTATTAAAAACTACAAGTATTATC-CCCTGAAGTTACAATGGAG
42349956 C-AGACTGAAGATA-GCAAA
130 CAAG-CTGAAGATACG-AAA
42349974 CCTTATTTCCCTAAAGTTACAGTGGA
1 CC-TATTTCCCTAAAGTTACAGTGGA
42350000 GCAAATTGAA
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
145 17 0.12
146 33 0.23
147 93 0.65
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (147 bp):
CCTATTTCCCTAAAGTTACAGTGGAATGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAG
TAAAACAGATCACATCAAACTTTATTAAAAACTACAAGTATTATCCCCTGAAGTTACAATGGAGC
AAGCTGAAGATACGAAA
Found at i:42351939 original size:13 final size:13
Alignment explanation
Indices: 42351921--42351960 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
42351911 TGTGTATATA
42351921 ATTATTTTATTAT
1 ATTATTTTATTAT
42351934 ATTATTTTATTACGT
1 ATTATTTTATTA--T
42351949 ATTA-TTTATTAT
1 ATTATTTTATTAT
42351961 GTCCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 12 0.48
14 7 0.28
15 5 0.20
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTATTTTATTAT
Found at i:42352211 original size:22 final size:21
Alignment explanation
Indices: 42352166--42352225 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 21
42352156 ATACACATGC
**
42352166 ATATTTTTATAATATATGTAT
1 ATATTTTTATAATATATACAT
*
42352187 ATTATTTTTATAATATATACGT
1 A-TATTTTTATAATATATACAT
*
42352209 AT-TTTTTATATTATATA
1 ATATTTTTATAATATATA
42352226 ATTTATACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.41
21 2 0.06
22 18 0.53
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (21 bp):
ATATTTTTATAATATATACAT
Found at i:42352511 original size:12 final size:12
Alignment explanation
Indices: 42352490--42352521 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
42352480 TTATATAATC
*
42352490 TTATTCATTTCT
1 TTATTTATTTCT
42352502 TTATTTATTTCT
1 TTATTTATTTCT
42352514 TTATTTAT
1 TTATTTAT
42352522 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:42355051 original size:12 final size:12
Alignment explanation
Indices: 42355021--42355053 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42355011 ATGCAACAGG
42355021 AAACCAGCA-GC
1 AAACCAGCATGC
42355032 AAACCAGCATGC
1 AAACCAGCATGC
*
42355044 AGACCAGCAT
1 AAACCAGCAT
42355054 CCAAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.42, C:0.33, G:0.18, T:0.06
Consensus pattern (12 bp):
AAACCAGCATGC
Found at i:42356111 original size:21 final size:21
Alignment explanation
Indices: 42356087--42356139 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
42356077 CATTGTTTCT
*
42356087 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
42356108 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
42356129 AATCTCACCGC
1 AATCTCACCGC
42356140 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:42357376 original size:26 final size:27
Alignment explanation
Indices: 42357327--42357386 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 27
42357317 AAAAATAACT
42357327 AAAATATTATAATTTTTTTTATTTATC
1 AAAATATTATAATTTTTTTTATTTATC
*
42357354 AAAATGTTATAA-TTTTTTTATTTATC
1 AAAATATTATAATTTTTTTTATTTATC
42357380 AAAATAT
1 AAAATAT
42357387 AAAAAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (27 bp):
AAAATATTATAATTTTTTTTATTTATC
Found at i:42357481 original size:27 final size:27
Alignment explanation
Indices: 42357443--42357519 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
42357433 GGCCAATCAC
* *
42357443 ATTGGCGGCACCAAAGGTGCTAATGTG
1 ATTGGCGGCACCAATGGTGCCAATGTG
*
42357470 ATTGGCGGCACCAATGTTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAATGTG
42357497 ATTGGCGGCACCAATGGTGCCAA
1 ATTGGCGGCACCAATGGTGCCAA
42357520 AGGACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATGTG
Found at i:42358092 original size:19 final size:19
Alignment explanation
Indices: 42358068--42358163 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
42358058 TCTAATTAAG
42358068 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
42358087 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
42358105 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* *
42358124 TAATAA-ACTATTATAATT
1 TAATAACTCTATTTTAATT
*
42358142 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTAATT
42358161 TAA
1 TAA
42358164 AATATAAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 31 0.48
19 33 0.52
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:42358109 original size:37 final size:37
Alignment explanation
Indices: 42358068--42358163 Score: 165
Period size: 37 Copynumber: 2.6 Consensus size: 37
42358058 TCTAATTAAG
* *
42358068 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTATAATT
42358105 TAATAACTCTATTTTAATTTAATAAACTATTATAATT
1 TAATAACTCTATTTTAATTTAATAAACTATTATAATT
*
42358142 TAATAACTCTATTTTCATTTAA
1 TAATAACTCTATTTTAATTTAA
42358164 AATATAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTATAATT
Found at i:42358326 original size:82 final size:82
Alignment explanation
Indices: 42358232--42358396 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
42358222 TTAACTAAAA
42358232 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
42358297 TTTATGTTTCCATTATT
66 TTTATGTTTCCATTATT
42358314 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
*
42358379 TTTATGTTTCCGTTATT
66 TTTATGTTTCCATTATT
42358396 T
1 T
42358397 TTTTCCTTTT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.45
Consensus pattern (82 bp):
TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
TTTATGTTTCCATTATT
Found at i:42358541 original size:19 final size:19
Alignment explanation
Indices: 42358480--42358543 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
42358470 AATTTTTTTA
42358480 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
*** *
42358499 AAATGGGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
42358517 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
42358536 AAATTAAA
1 AAATTAAA
42358544 CTATTTTATC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:42358587 original size:22 final size:21
Alignment explanation
Indices: 42358535--42358587 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
42358525 ATAGAGTTAT
**
42358535 TAAATTAAACTATTTTATCTA
1 TAAATTAAACTATTAAATCTA
* *
42358556 TAAACATAAACTATTAAATTTAA
1 TAAA-TTAAACTATTAAATCT-A
42358579 TAAATTAAA
1 TAAATTAAA
42358588 ATAGAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.16
22 16 0.64
23 5 0.20
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTAAACTATTAAATCTA
Found at i:42358955 original size:28 final size:27
Alignment explanation
Indices: 42358883--42358974 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
42358873 TTTTTTTGGT
* *
42358883 ATATTTTGGTAAATAAAAATATTTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
*
42358910 AAATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
42358937 ATATTTTGGTAAATAAAAAAAAATTATA
1 ATATTTTGGTAAAT-AAAAAAAATTATA
42358965 ATATTTTGGT
1 ATATTTTGGT
42358975 TATTTTTTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 37 0.62
28 23 0.38
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:42359730 original size:17 final size:17
Alignment explanation
Indices: 42359708--42359741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42359698 ACAAATGTCA
*
42359708 ATTAATTAATTAATAAT
1 ATTAATTAATAAATAAT
*
42359725 ATTAATTTATAAATAAT
1 ATTAATTAATAAATAAT
42359742 TAAACATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAATTAATAAATAAT
Found at i:42359994 original size:2 final size:2
Alignment explanation
Indices: 42359987--42360024 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
42359977 TATGCATGTT
42359987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42360025 AAGATTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42367585 original size:5 final size:5
Alignment explanation
Indices: 42367575--42367599 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
42367565 AAAAGAAAGT
42367575 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
42367600 AAGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:42368140 original size:56 final size:54
Alignment explanation
Indices: 42368073--42368222 Score: 205
Period size: 53 Copynumber: 2.7 Consensus size: 54
42368063 AATAGTTACG
* *
42368073 TAGGAATCAAATTGTTAAAATATAATTTCCCATAATAATATCCTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAA-ATAATATCCCATAATAATAT-CTATAATATCCCAT
* * *
42368129 TAGGAATCAAATTGCTAAGAAATAATATCCCATAAT-AT-TTTGTAATATCTCAT
1 TAGGAATCAAATTGCTAA-AAATAATATCCCATAATAATATCTATAATATCCCAT
42368182 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATAT
1 TAGGAATCAAATTGCTAAAA-ATAATATCCCATAATAATAT
42368223 ATTAACACCC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
52 2 0.02
53 44 0.52
54 3 0.04
55 3 0.04
56 31 0.36
57 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (54 bp):
TAGGAATCAAATTGCTAAAAATAATATCCCATAATAATATCTATAATATCCCAT
Found at i:42380955 original size:25 final size:25
Alignment explanation
Indices: 42380927--42380975 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
42380917 TACAGTCTAT
* *
42380927 CTATAGTAGTCTCAGTATATACTAC
1 CTATAATAGTCTCAGGATATACTAC
* *
42380952 CTATAATAGTTTTAGGATATACTA
1 CTATAATAGTCTCAGGATATACTA
42380976 TCAAAAAAAT
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:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (25 bp):
CTATAATAGTCTCAGGATATACTAC
Found at i:42382029 original size:12 final size:13
Alignment explanation
Indices: 42382008--42382042 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
42381998 CATGCTAAAA
42382008 CATAATATCAT-G
1 CATAATATCATGG
*
42382020 CATAAAATCATGG
1 CATAATATCATGG
42382033 CATAATATCA
1 CATAATATCA
42382043 ATTAGTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.29
Consensus pattern (13 bp):
CATAATATCATGG
Found at i:42383740 original size:16 final size:17
Alignment explanation
Indices: 42383710--42383741 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42383700 TCACAAGAAA
42383710 ATAAAATTCTAATATTG
1 ATAAAATTCTAATATTG
42383727 ATAAAATT-TAATATT
1 ATAAAATTCTAATATT
42383742 ATGATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
ATAAAATTCTAATATTG
Found at i:42390755 original size:35 final size:35
Alignment explanation
Indices: 42390716--42390813 Score: 160
Period size: 35 Copynumber: 2.8 Consensus size: 35
42390706 TGCTTCAGTT
42390716 GGATTAGCTCTTATGAGCATTGGTGTGTTTCGAAA
1 GGATTAGCTCTTATGAGCATTGGTGTGTTTCGAAA
* * *
42390751 GGATTAGCTCTTATGAGCATTGGTGTATTTCGGAT
1 GGATTAGCTCTTATGAGCATTGGTGTGTTTCGAAA
42390786 GGATTAGCTCTTATGAGCATCTGGTGTG
1 GGATTAGCTCTTATGAGCAT-TGGTGTG
42390814 GTTTGGTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 52 0.90
36 6 0.10
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (35 bp):
GGATTAGCTCTTATGAGCATTGGTGTGTTTCGAAA
Found at i:42394768 original size:43 final size:41
Alignment explanation
Indices: 42394664--42394790 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 41
42394654 GTGTTATCAA
* ** *
42394664 ATATCGATGCCACTGTCTTAGACAGGGTCTTACACGAAATC
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
*
42394705 ATATACGATGCCGATGTCCCAGACATGGTCTTACAC-ATAATC
1 ATAT-CGATGCCAATGTCCCAGACATGGTCTTACACGA-AATC
*
42394747 TATAATCGATGCCAATGTCCCAGACATGGTCTTACACGATATC
1 -AT-ATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
42394790 A
1 A
42394791 CATCTTAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
41 5 0.07
42 31 0.42
43 35 0.47
44 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
Found at i:42398416 original size:50 final size:50
Alignment explanation
Indices: 42398357--42398458 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
42398347 ACATAGAATC
42398357 ATAAGAGAAGCACAACTAGTGATATTTCAACATCTGAAGCTACACAAAAT
1 ATAAGAGAAGCACAACTAGTGATATTTCAACATCTGAAGCTACACAAAAT
*
42398407 ATAAGAGAAGCATAACTAGTGATATTTCAACATCTGAAGCTACACAAAAT
1 ATAAGAGAAGCACAACTAGTGATATTTCAACATCTGAAGCTACACAAAAT
42398457 AT
1 AT
42398459 CAGAAAATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.24
Consensus pattern (50 bp):
ATAAGAGAAGCACAACTAGTGATATTTCAACATCTGAAGCTACACAAAAT
Found at i:42399847 original size:21 final size:22
Alignment explanation
Indices: 42399817--42399858 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
42399807 CACTTCACAA
*
42399817 TCATAAGTCATAGATCATCATC
1 TCATAAGTCAAAGATCATCATC
*
42399839 TCAT-AGTCAAATATCATCAT
1 TCATAAGTCAAAGATCATCAT
42399859 AAAGTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (22 bp):
TCATAAGTCAAAGATCATCATC
Found at i:42401987 original size:42 final size:43
Alignment explanation
Indices: 42401930--42402046 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 43
42401920 GTTATGAAAT
* * *
42401930 ATCGATG-CAACTGTCCCGGATAAGGTCTTACACGAAATCATAT-
1 ATCGATGCCAA-TGTCCCAGACATGGTCTTACACGAAAT-ATATA
* * *
42401973 A-CGATGCCGATGTCCCAGACATGGTCTTACACGTAATGTATA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATATATA
42402015 ATCGATGCCAATGTCCCAGACATGGTCTTACA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACA
42402047 TGATATCACA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
41 3 0.05
42 29 0.45
43 32 0.50
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATATATA
Found at i:42404820 original size:40 final size:40
Alignment explanation
Indices: 42404756--42404968 Score: 295
Period size: 40 Copynumber: 5.4 Consensus size: 40
42404746 AGATCAATTG
*
42404756 AACACACCAAAC--AAGCTCATAAGAGCTAATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
* *
42404794 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAATCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
** *
42404834 AACATGCCAAACAGAAGCTCATAAGAGCTGATCCAACTGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
* *
42404874 AACACACCAGACAGAAGCTCATAAGAGTTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
* * *
42404914 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACTGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
* *
42404954 AACACGCTAAACAGA
1 AACACACCAAACAGA
42404969 GAGTATAACA
Statistics
Matches: 154, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 12 0.08
40 142 0.92
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.13
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
Found at i:42404901 original size:80 final size:80
Alignment explanation
Indices: 42404756--42404968 Score: 340
Period size: 80 Copynumber: 2.7 Consensus size: 80
42404746 AGATCAATTG
* *
42404756 AACACACCAAAC--AAGCTCATAAGAGCTAATCCAACCGAAACACACCAAACAGAAGCTCATAAG
1 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACTGAAACACACCAAACAGAAGCTCATAAG
*
42404819 AGTTGATCCAATCGA
66 AGTTGATCCAACCGA
* * *
42404834 AACATGCCAAACAGAAGCTCATAAGAGCTGATCCAACTGAAACACACCAGACAGAAGCTCATAAG
1 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACTGAAACACACCAAACAGAAGCTCATAAG
42404899 AGTTGATCCAACCGA
66 AGTTGATCCAACCGA
* *
42404914 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACTGAAACACGCTAAACAGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACTGAAACACACCAAACAGA
42404969 GAGTATAACA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
78 10 0.08
80 112 0.92
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.13
Consensus pattern (80 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACTGAAACACACCAAACAGAAGCTCATAAG
AGTTGATCCAACCGA
Found at i:42412053 original size:25 final size:25
Alignment explanation
Indices: 42412016--42412064 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
42412006 CAGAATAAAT
* * *
42412016 CAATATTATTAAAAATTTTCATACG
1 CAATATAAGTAAAAATTTTAATACG
*
42412041 CAATATAAGTAAAATTTTTAATAC
1 CAATATAAGTAAAAATTTTAATAC
42412065 TTAGTCTCAG
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:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (25 bp):
CAATATAAGTAAAAATTTTAATACG
Found at i:42416916 original size:2 final size:2
Alignment explanation
Indices: 42416909--42416933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42416899 GGAAATAGAA
42416909 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
42416934 AGAAAGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42420306 original size:24 final size:24
Alignment explanation
Indices: 42420274--42420324 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
42420264 TGGAGTTTAG
42420274 CTAACATTCCCTTATCTCTCCAAA
1 CTAACATTCCCTTATCTCTCCAAA
42420298 CTAACATTCCCTTATCTCTCCAAA
1 CTAACATTCCCTTATCTCTCCAAA
42420322 CTA
1 CTA
42420325 TCTCAGGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.33
Consensus pattern (24 bp):
CTAACATTCCCTTATCTCTCCAAA
Found at i:42422226 original size:9 final size:9
Alignment explanation
Indices: 42422212--42422242 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
42422202 GTTAAACGAA
42422212 TCGAGTTAT
1 TCGAGTTAT
*
42422221 TCGAGTTAA
1 TCGAGTTAT
42422230 TCGAGTTAT
1 TCGAGTTAT
42422239 TCGA
1 TCGA
42422243 ATTAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:42422233 original size:18 final size:18
Alignment explanation
Indices: 42422210--42422252 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
42422200 AAGTTAAACG
*
42422210 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAATT
42422228 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
42422246 AACTCGA
1 AA-TCGA
42422253 ATTTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:42425154 original size:6 final size:6
Alignment explanation
Indices: 42425143--42425170 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
42425133 TAATAGTTAA
42425143 GTGTAT GTGTAT GTGTAT GTGTAT GTGT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGT
42425171 CAAGAGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:42433988 original size:33 final size:32
Alignment explanation
Indices: 42433946--42434046 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 32
42433936 ACAATATCTT
42433946 ATAATATCCCATTAGGAATCAAATTGCTAAGAA
1 ATAATATCCCATTAGGAATCAAATTGCTAA-AA
42433979 ATAATATCCCA-T---AAT-AATATT-CT----
1 ATAATATCCCATTAGGAATCAA-ATTGCTAAAA
42434002 ATAATATCCCATTAGGAATCAAATTGCTAAAA
1 ATAATATCCCATTAGGAATCAAATTGCTAAAA
42434034 GATAATATCCCAT
1 -ATAATATCCCAT
42434047 AATAATATCC
Statistics
Matches: 56, Mismatches: 0, Indels: 24
0.70 0.00 0.30
Matches are distributed among these distances:
23 11 0.20
24 1 0.02
27 6 0.11
28 8 0.14
29 6 0.11
32 1 0.02
33 23 0.41
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.31
Consensus pattern (32 bp):
ATAATATCCCATTAGGAATCAAATTGCTAAAA
Found at i:42433998 original size:56 final size:57
Alignment explanation
Indices: 42433902--42434055 Score: 251
Period size: 56 Copynumber: 2.7 Consensus size: 57
42433892 AGTAGTTACG
* * *
42433902 TAGGAATCAAATTGCTAAAAGATAATATGCCATGACAATATCT-TATAATATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCTCTATAATATCCCAT
42433958 TAGGAATCAAATTGCTAAGAA-ATAATATCCCATAATAATAT-TCTATAATATCCCAT
1 TAGGAATCAAATTGCTAA-AAGATAATATCCCATAATAATATCTCTATAATATCCCAT
42434014 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATC
1 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATC
42434056 CTTACAAAAG
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
55 3 0.03
56 86 0.95
57 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (57 bp):
TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCTCTATAATATCCCAT
Found at i:42438442 original size:43 final size:42
Alignment explanation
Indices: 42438376--42438504 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 42
42438366 ATAGGATTTC
*
42438376 CGATATGTGTTATCGTGAAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * ***
42438419 CCG-TTTGTGTTTACGTGTAAGACC-CTGTTTGGGATAATGGCAT
1 -CGATATGTG-TTACGTGTAAGACCAC-GTCTGGGACGTTGGCAT
* *
42438462 CGATATATGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
42438505 TGTACGAGCT
Statistics
Matches: 67, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.04
43 58 0.87
44 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:42441334 original size:17 final size:18
Alignment explanation
Indices: 42441312--42441349 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
42441302 CAACTGGTTT
42441312 AAAATTA-AAA-ATTCTAA
1 AAAATTACAAACATT-TAA
42441329 AAAATTACAAACATTTAA
1 AAAATTACAAACATTTAA
42441347 AAA
1 AAA
42441350 TGCGTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 9 0.47
19 3 0.16
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTACAAACATTTAA
Found at i:42459235 original size:29 final size:28
Alignment explanation
Indices: 42459184--42459462 Score: 256
Period size: 28 Copynumber: 9.8 Consensus size: 28
42459174 AATTCTGGGT
* *
42459184 CAAAACTATAAAATTTATAAAATAGGGG
1 CAAAACTATAAAATCTAAAAAATAGGGG
* *
42459212 CAAAAATATAAAATCTAAAAAAATATGGG
1 CAAAACTATAAAATCT-AAAAAATAGGGG
* * * *
42459241 TAAAACTTTAAAATCTGAAAAATAGGAG
1 CAAAACTATAAAATCTAAAAAATAGGGG
* *
42459269 CAAAATTATAAAATCTTAAAAATAGGGG
1 CAAAACTATAAAATCTAAAAAATAGGGG
*
42459297 CAAAACTATAAAATCTAAAAAATAAGGGA
1 CAAAACTATAAAATCTAAAAAAT-AGGGG
*
42459326 CAAACCTATAAAATCTAAAAAAATAAGGGG
1 CAAAACTATAAAATCT-AAAAAAT-AGGGG
*
42459356 -AAAACTACAAAATCTAAAAAATAGGGG
1 CAAAACTATAAAATCTAAAAAATAGGGG
** * * *
42459383 -AAATTTTGTAAAATCTAGAAAATAAGGGT
1 CAAA-ACTATAAAATCTAAAAAAT-AGGGG
* * * *
42459412 AACAAATTTTAAAAATCTAAAAAATAGGAG
1 CA-AAACTAT-AAAATCTAAAAAATAGGGG
* *
42459442 TAAAACTGTAAAATCTAAAAA
1 CAAAACTATAAAATCTAAAAA
42459463 CAGGGATTCA
Statistics
Matches: 207, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
27 8 0.04
28 100 0.48
29 64 0.31
30 20 0.10
31 15 0.07
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.22
Consensus pattern (28 bp):
CAAAACTATAAAATCTAAAAAATAGGGG
Found at i:42459253 original size:57 final size:57
Alignment explanation
Indices: 42459180--42459462 Score: 275
Period size: 57 Copynumber: 4.9 Consensus size: 57
42459170 ATATAATTCT
* * * *
42459180 GGGTCAAAACTATAAAATTTATAAAATAGGGGCAAAAATATAAAATCTAAAAAAATAT
1 GGGT-AAAACTATAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAAATAA
* * * * * *
42459238 GGGTAAAACTTTAAAATCTGAAAAATAGGAGCAAAATTATAAAATCT-TAAAAATAG
1 GGGTAAAACTATAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAAATAA
* * *
42459294 GGGCAAAACTATAAAATCTAAAAAATAAGGGACAAACCTATAAAATCTAAAAAAATAA
1 GGGTAAAACTATAAAATCTAAAAAAT-AGGGGCAAAACTATAAAATCTAAAAAAATAA
* * ** * *
42459352 GGGGAAAACTACAAAATCTAAAAAATAGGGG-AAATTTTGTAAAATCT-AGAAAATAA
1 GGGTAAAACTATAAAATCTAAAAAATAGGGGCAAA-ACTATAAAATCTAAAAAAATAA
* * * * *
42459408 GGGTAACAAATTTTAAAAATCTAAAAAATAGGAGTAAAACTGTAAAATCTAAAAA
1 GGGT-A-AAACTAT-AAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAA
42459463 CAGGGATTCA
Statistics
Matches: 185, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
56 44 0.24
57 68 0.37
58 39 0.21
59 28 0.15
60 6 0.03
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.22
Consensus pattern (57 bp):
GGGTAAAACTATAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAAATAA
Found at i:42460314 original size:22 final size:22
Alignment explanation
Indices: 42460272--42460314 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42460262 TATTGAAATT
*
42460272 AAAAAGAAAAATAGGGTGTTTC
1 AAAAAGAAAAATAGGGAGTTTC
42460294 AAAAA-AAAAATAGGGGAGTTT
1 AAAAAGAAAAATA-GGGAGTTT
42460315 GACTTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.21
Consensus pattern (22 bp):
AAAAAGAAAAATAGGGAGTTTC
Found at i:42462533 original size:17 final size:19
Alignment explanation
Indices: 42462497--42462547 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 19
42462487 TTCTGTATGC
42462497 AATTGAAAACTTAAAATTA
1 AATTGAAAACTTAAAATTA
*
42462516 AATT-AAAAC-TAAATTTA
1 AATTGAAAACTTAAAATTA
*
42462533 AATTGAAAGCTTAAA
1 AATTGAAAACTTAAA
42462548 TTGAAGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.39
18 9 0.32
19 8 0.29
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTGAAAACTTAAAATTA
Found at i:42467169 original size:79 final size:79
Alignment explanation
Indices: 42467045--42467192 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 79
42467035 ACGCCTCTGT
* * * * * * *
42467045 GTTACTCTGTTGATGAAGAATATGCGATATTTGAATATTTTAGATTTATTGTTACTGATTTTGAT
1 GTTACTCTATTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTATTACTGATTTTGAT
42467110 TTATCACCCTCTAC
66 TTATCACCCTCTAC
42467124 GTTACTCTATTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTATTACTGATTTTGAT
1 GTTACTCTATTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTATTACTGATTTTGAT
42467189 TTAT
66 TTAT
42467193 ACATGTGCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (79 bp):
GTTACTCTATTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTATTACTGATTTTGAT
TTATCACCCTCTAC
Found at i:42471022 original size:3 final size:3
Alignment explanation
Indices: 42471014--42471061 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
42471004 AAATAAAGCC
* * *
42471014 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
42471060 AA
1 AA
42471062 CACTAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:42473384 original size:51 final size:50
Alignment explanation
Indices: 42473298--42473639 Score: 352
Period size: 51 Copynumber: 6.7 Consensus size: 50
42473288 TATCGATGAA
*
42473298 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * * * * * *
42473349 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATT-GT
* * *
42473400 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * *
42473451 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATT-GT
* * *
42473502 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
* * *
42473553 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACCTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
*
42473603 CACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
42473640 TGAATGATAA
Statistics
Matches: 244, Mismatches: 38, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
50 48 0.20
51 194 0.80
52 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGT
Found at i:42473474 original size:102 final size:101
Alignment explanation
Indices: 42473298--42473636 Score: 441
Period size: 102 Copynumber: 3.3 Consensus size: 101
42473288 TATCGATGAA
* * * *
42473298 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
42473363 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
42473400 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
42473465 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * *
42473502 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA--TGGTCACATGTGTAGT
* * * * * *
42473565 ACTATGTGAAGGCTACTACGTGAACCGTAAAAC-CTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
42473603 CACGTGTGTAGTACTATGTGGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
42473637 TATTGAATGA
Statistics
Matches: 212, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.00
101 40 0.19
102 170 0.80
103 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:42473557 original size:153 final size:152
Alignment explanation
Indices: 42473293--42473639 Score: 430
Period size: 153 Copynumber: 2.3 Consensus size: 152
42473283 TAAGGTATCG
* * *
42473293 ATGAACACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
* * * * * *
42473358 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAG
66 AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAG
* **
42473423 GCTACTACGTGAATCGATAAATG
131 GCTACTACGTGAACCG-TAAAAC
* * * * *
42473446 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGTCACGTGT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGT
* * *
42473509 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTG
64 CTAGTACTAAGTGAAGGCTACAACGTGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTG
42473573 AAGGCTACTACGTGAACCGTAAAAC
128 AAGGCTACTACGTGAACCGTAAAAC
* * *
42473598 CTGATCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTAT
42473640 TGAATGATAA
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
152 45 0.27
153 116 0.70
154 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (152 bp):
ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAG
GCTACTACGTGAACCGTAAAAC
Found at i:42476079 original size:2 final size:2
Alignment explanation
Indices: 42476034--42476061 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42476024 ATTCCTTCAT
42476034 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
42476062 ACGTTAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:42479510 original size:3 final size:3
Alignment explanation
Indices: 42479502--42479540 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
42479492 TGTTACACTT
42479502 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
42479541 AATCTATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:42484409 original size:65 final size:65
Alignment explanation
Indices: 42484241--42484473 Score: 369
Period size: 65 Copynumber: 3.5 Consensus size: 65
42484231 CAAGTTCATC
*
42484241 TAAATAATTGAAGTTGATACAAGAATGAAAATTCAATAGAAAAACAAAACATAATGAAAATATAT
1 TAAATAATTGAAGTTGATACAAGAATGAAAATTCAATAGAAAAACAAAACATAATGCAAATATA-
42484306 G
65 G
* *
42484307 TAAATAATTTAAGTTGATACAAGAATGAAAATTCAATAGAAAAATAGAAACATAATGCAAATATA
1 TAAATAATTGAAGTTGATACAAGAATGAAAATTCAATAGAAAAACA-AAACATAATGCAAATATA
42484372 -
65 G
* * *
42484372 TATATAATTTAAGTTGATACAAGAATGAAAGTTCAATAGAAAAACAAAAACATAATGCAAATATA
1 TAAATAATTGAAGTTGATACAAGAATGAAAATTCAATAGAAAAAC-AAAACATAATGCAAATATA
42484437 TG
65 -G
42484439 TAAATAATTGAAGTTGATACAAGAATGAAAATTCA
1 TAAATAATTGAAGTTGATACAAGAATGAAAATTCA
42484474 CTACATAAAT
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
65 60 0.39
66 45 0.29
67 49 0.32
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.26
Consensus pattern (65 bp):
TAAATAATTGAAGTTGATACAAGAATGAAAATTCAATAGAAAAACAAAACATAATGCAAATATAG
Found at i:42489351 original size:29 final size:29
Alignment explanation
Indices: 42489291--42489352 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
42489281 ATACTATTAT
* * *
42489291 TATAATTATTATCATTATAACTATTATTA
1 TATAACTATTATCATTATAACTATAATCA
*
42489320 TATAACTATTATCATTATTA-TATAATACA
1 TATAACTATTATCATTATAACTATAAT-CA
42489349 TATA
1 TATA
42489353 TATATTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (29 bp):
TATAACTATTATCATTATAACTATAATCA
Found at i:42490830 original size:6 final size:6
Alignment explanation
Indices: 42490821--42490845 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42490811 TCAATTCTAT
42490821 ATATCA ATATCA ATATCA ATATCA A
1 ATATCA ATATCA ATATCA ATATCA A
42490846 GTATTTAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATCA
Found at i:42494544 original size:24 final size:24
Alignment explanation
Indices: 42494509--42494554 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
42494499 TCACACCTGA
42494509 ACTTTAATTTTG-TGCAATTTTAT
1 ACTTTAATTTTGATGCAATTTTAT
*
42494532 ACTTTAAATTTTGATTCAATTTT
1 ACTTT-AATTTTGATGCAATTTT
42494555 CACAAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (24 bp):
ACTTTAATTTTGATGCAATTTTAT
Found at i:42496581 original size:4 final size:4
Alignment explanation
Indices: 42496572--42496597 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
42496562 GGCCGTTAGT
42496572 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
42496598 ACCTTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:42502734 original size:3 final size:3
Alignment explanation
Indices: 42502726--42502762 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
42502716 CATGACTCTG
*
42502726 CAT CAT CAT CAT CAT CAT CAT CAT CAC CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
42502763 GTGACTGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:42516851 original size:18 final size:19
Alignment explanation
Indices: 42516816--42516851 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42516806 AGTTGTCATA
42516816 TTAAAATAATTATAATTTT
1 TTAAAATAATTATAATTTT
*
42516835 TTAAAGTAATT-TAATTT
1 TTAAAATAATTATAATTT
42516852 ATAATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTAAAATAATTATAATTTT
Done.