Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 20 of 207
Found at i:6017076 original size:18 final size:19
Alignment explanation
Indices: 6017053--6017090 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6017043 TAGACTATTT
*
6017053 TTAATTAATGGTT-TTTTC
1 TTAATTAATGATTATTTTC
6017071 TTAATTAATGATTATTTTC
1 TTAATTAATGATTATTTTC
6017090 T
1 T
6017091 GGGAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (19 bp):
TTAATTAATGATTATTTTC
Found at i:6032053 original size:109 final size:108
Alignment explanation
Indices: 6031683--6032219 Score: 868
Period size: 109 Copynumber: 4.9 Consensus size: 108
6031673 AAAATTCAAG
* * *
6031683 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6031747 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
* *
6031791 AGGATATTAAG-TCATTTGGTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6031855 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
* *
6031899 AGGATATTAAG-TCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6031963 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTT-AAA
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAA
6032008 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* *
6032073 TTTTCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTT-AAA
66 TTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAA
*
6032117 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
6032182 TTTCCAAATGCAAAATATTGCCTTATTTTGAAATATTT
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTT
6032220 CCCTTTTTTA
Statistics
Matches: 408, Mismatches: 15, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
108 199 0.49
109 203 0.50
110 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
Found at i:6032083 original size:217 final size:217
Alignment explanation
Indices: 6031683--6032219 Score: 861
Period size: 217 Copynumber: 2.5 Consensus size: 217
6031673 AAAATTCAAG
* * * *
6031683 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6031747 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTC
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTC
*
6031812 GAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGC
130 GAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGC
6031877 CTTA-TTTTGAAAA-TTTTTGAAA
195 CTTATTTTTGAAAAGTTTTT-AAA
*
6031899 AGGATATTAAG-TCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
6031963 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTT-AAAAGGATATTTAG-CTATTTG
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTG
* *
6032026 GTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTTCAAACGCAAAACAT
127 GTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACAT
6032091 TGCCTTATTTTTGAAAAGTTTTTAAA
192 TGCCTTATTTTTGAAAAGTTTTTAAA
* *
6032117 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
1 AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
6032182 TTTCCAAATGCAAAATATTGCCTTATTTTGAAATATTT
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTT
6032220 CCCTTTTTTA
Statistics
Matches: 299, Mismatches: 13, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
216 84 0.28
217 107 0.36
218 102 0.34
219 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (217 bp):
AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAGTTTTTAAA
Found at i:6032523 original size:16 final size:15
Alignment explanation
Indices: 6032505--6032564 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
6032495 AATATGAAAA
6032505 TATATAAATTATAAG
1 TATATAAATTATAAG
*
6032520 -ATATAAAAATATAAG
1 TATAT-AAATTATAAG
* * *
6032535 TATTTACATATATATG
1 TATATAAAT-TATAAG
*
6032551 TATATAGATTATAA
1 TATATAAATTATAA
6032565 AATACAAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
14 4 0.12
15 15 0.44
16 15 0.44
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (15 bp):
TATATAAATTATAAG
Found at i:6032790 original size:3 final size:3
Alignment explanation
Indices: 6032782--6032823 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
6032772 TATAAAAACG
*
6032782 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6032824 GGACTAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6034048 original size:20 final size:21
Alignment explanation
Indices: 6034011--6034050 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6034001 ATTTGACATA
* *
6034011 TAAAAAATTAATTAATATTTT
1 TAAAAAATAAAATAATATTTT
6034032 TAAAAAATAAAAT-ATATTT
1 TAAAAAATAAAATAATATTT
6034051 AGCATAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAAATAAAATAATATTTT
Found at i:6038101 original size:28 final size:28
Alignment explanation
Indices: 6038059--6038116 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
6038049 TTTTGAAGAA
* *
6038059 AAAAATATGTCTTGTAAAATGCGCTTTC
1 AAAAATATGTATTGTAAAACGCGCTTTC
6038087 AAAAATATGTATTGTAAAACGCGCTTTC
1 AAAAATATGTATTGTAAAACGCGCTTTC
6038115 AA
1 AA
6038117 TCAATAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
AAAAATATGTATTGTAAAACGCGCTTTC
Found at i:6040716 original size:3 final size:3
Alignment explanation
Indices: 6040708--6040740 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6040698 TTTTTAATCC
6040708 ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6040741 ATTCTAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:6040731 original size:11 final size:11
Alignment explanation
Indices: 6040708--6040740 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
6040698 TTTTTAATCC
6040708 ATTATTATTATT
1 ATTATT-TTATT
6040720 ATTATTTTATT
1 ATTATTTTATT
6040731 ATTATTTTAT
1 ATTATTTTAT
6040741 ATTCTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:6040815 original size:12 final size:12
Alignment explanation
Indices: 6040798--6040840 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
6040788 TTAAAATAAA
*
6040798 TTAATACTTATC
1 TTAATACTTATT
6040810 TTAATACATTATT
1 TTAATAC-TTATT
6040823 TCTAATA-TTATT
1 T-TAATACTTATT
6040835 TTAATA
1 TTAATA
6040841 TTTAGCTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 5 0.18
14 5 0.18
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATACTTATT
Found at i:6042266 original size:25 final size:26
Alignment explanation
Indices: 6042215--6042266 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
6042205 TGCAAAGTAA
* *
6042215 ACATATTTGATATAAATTATATATAT
1 ACATATGTGATATAAAATATATATAT
6042241 ACATATGTG-TATAAAATAGTAT-TAT
1 ACATATGTGATATAAAATA-TATATAT
6042266 A
1 A
6042267 AGAGCATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
ACATATGTGATATAAAATATATATAT
Found at i:6048061 original size:24 final size:23
Alignment explanation
Indices: 6048001--6048064 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
6047991 ATGTATGCAT
*
6048001 TATAAAGTATATAAAAATATATG
1 TATAAAGTATATAAAAATATAAG
6048024 TATACAAGGATATATAAATAA-ATAAG
1 TATA-AA-G-TATATAAA-AATATAAG
6048050 ATATAAAGTATATAA
1 -TATAAAGTATATAA
6048065 GTATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.11
24 9 0.26
25 2 0.06
26 14 0.40
27 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
TATAAAGTATATAAAAATATAAG
Found at i:6049960 original size:44 final size:44
Alignment explanation
Indices: 6049766--6050232 Score: 246
Period size: 44 Copynumber: 10.8 Consensus size: 44
6049756 AGACTGGATG
* * * *
6049766 CGATCTGCTCTACTATTGTTTAGAGAGATAAGATCTACAATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * * * * * * ****
6049810 CAACCTACTCCACTGCTTCTCAGGGAGATAGGAT-TGGTTTCTTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TT
* * ** *
6049854 TG-TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TG
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
6049893 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *****
6049937 CGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
** * * * **
6049980 AAATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTT
* * * * *
6050024 CGATCTACTCCACTA--ACTTAGGGAGATAGGATCCACCATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *
6050066 TGA-CTTGCTCCACTACTGCTTAGGGAGATAGGATGTATC-ATCTT
1 CGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTA-CAATCTT
* * * ****
6050110 CGAACTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGT-TT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTT
** * * * **
6050153 AAATCAT-CTTCACTACTGTTTAGGGAGATAAGAATC-GCCGTCTT
1 CGATC-TGCTCCACTACTGCTTAGGGAGATAAG-ATCTACAATCTT
*
6050197 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
6050233 GTCATCTTCA
Statistics
Matches: 317, Mismatches: 83, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
39 2 0.01
40 29 0.09
41 3 0.01
42 32 0.10
43 94 0.30
44 154 0.49
45 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
Found at i:6049987 original size:127 final size:126
Alignment explanation
Indices: 6049747--6050098 Score: 384
Period size: 127 Copynumber: 2.8 Consensus size: 126
6049737 CTGTAACTTC
* * * * *
6049747 AGGGAGATAAGACTGGATGCGATCTGCTCTACTATTGTTTAGAGAGATAAGATCTACAATCTTCA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTA-TGCTTAGGGAGATAAGATCTACAATCTTCG
* * * * * ** *** *
6049812 ACCTACTCCACTGCTTCTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCGCTACTGCTT
65 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
6049874 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCG
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTA-TGCTTAGGGAGATAAGATCTACAATCTTCG
*
6049939 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
65 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * * *
6050001 AGGAAGATAAGA-TTCGCCGTCTTCGATCTACTCCACTA-ACTTAGGGAGATAGGATCCACCATC
1 AGGGAGATAAGACTT----G-ATGCGATCTGCTCCACTATGCTTAGGGAGATAAGATCTACAATC
* *
6050064 TTTGACTTGCTCCACTACTGCTTAGGGAGATAGGA
61 TTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA
6050099 TGTATCATCT
Statistics
Matches: 192, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
126 2 0.01
127 120 0.62
129 54 0.28
130 1 0.01
131 15 0.08
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (126 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTATGCTTAGGGAGATAAGATCTACAATCTTCGA
CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
Found at i:6050009 original size:87 final size:88
Alignment explanation
Indices: 6049856--6050226 Score: 334
Period size: 87 Copynumber: 4.3 Consensus size: 88
6049846 GTTTCTTTTG
* * * *
6049856 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGAT-GC---GATC-TGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAATCATGCTCCACTACTGCTTAG
*
6049916 GGAGATAAGATCTACAATCTTCGA
65 GGAGATAAGATCTACCATCTTCGA
* *
6049940 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATC-TGCTTCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCATGCTCCACTACTGCTTAGG
* * *
6050004 AAGATAAGAT-TCGCCGTCTTCGA
66 GAGATAAGATCT-ACCATCTTCGA
* * ****** ** *
6050027 TCTACTCCACTA--ACTTAGGGAGATAGGATCCACCATCTTTGA-CTTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCATGCTCCACTACTGCTTAG
* * *
6050089 GGAGATAGGATGTATCATCTTCGA
65 GGAGATAAGATCTACCATCTTCGA
* * * * *
6050113 ACTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCAT-CTTCACTACTGTTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCATGCTCCACTACTGCTTAGG
* *
6050177 GAGATAAGAATC-GCCGTCTTCGA
66 GAGATAAG-ATCTACCATCTTCGA
*
6050200 TCTGCTCTACTACTGCTTAGGGAGATA
1 TCTGCTCCACTACTGCTTAGGGAGATA
6050227 AGATCTGTCA
Statistics
Matches: 226, Mismatches: 49, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
83 3 0.01
84 30 0.13
85 16 0.07
86 51 0.23
87 107 0.47
88 19 0.08
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (88 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCATGCTCCACTACTGCTTAGG
GAGATAAGATCTACCATCTTCGA
Found at i:6050086 original size:173 final size:174
Alignment explanation
Indices: 6049898--6050231 Score: 512
Period size: 173 Copynumber: 1.9 Consensus size: 174
6049888 TGATGCGATC
* *
6049898 TGCTCCACTACTGCTTAGGGAGATAAGATCTA-CAATCTTCGACCTGCTCCACTACTGCTTAGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTATC-ATCTTCGAACTACTCCACTACTGCTTAGGG
*
6049962 AGATAGGACTGGTGGCTTAAATC-TGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
65 AGATAGGACTGGTGGCTTAAATCAT-CTTCACTACTGCTTAGGAAGATAAGAATCGCCGTCTTCG
*
6050026 ATCTACTCCACTA-ACTTAGGGAGATAGGATCCACCATCTTTGACT
129 ATCTACTCCACTACACTTAGGGAGATAAGATCCACCATCTTTGACT
* *
6050071 TGCTCCACTACTGCTTAGGGAGATAGGATGTATCATCTTCGAACTACTCCACTACTGCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTATCATCTTCGAACTACTCCACTACTGCTTAGGGA
* * *
6050136 GATAGGACTGGTGGTTTAAATCATCTTCACTACTGTTTAGGGAGATAAGAATCGCCGTCTTCGAT
66 GATAGGACTGGTGGCTTAAATCATCTTCACTACTGCTTAGGAAGATAAGAATCGCCGTCTTCGAT
* * *
6050201 CTGCTCTACTACTGCTTAGGGAGATAAGATC
131 CTACTCCACTAC-ACTTAGGGAGATAAGATC
6050232 TGTCATCTTC
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
173 127 0.88
174 2 0.01
175 16 0.11
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (174 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTATCATCTTCGAACTACTCCACTACTGCTTAGGGA
GATAGGACTGGTGGCTTAAATCATCTTCACTACTGCTTAGGAAGATAAGAATCGCCGTCTTCGAT
CTACTCCACTACACTTAGGGAGATAAGATCCACCATCTTTGACT
Found at i:6050241 original size:44 final size:44
Alignment explanation
Indices: 6049856--6050246 Score: 281
Period size: 44 Copynumber: 9.1 Consensus size: 44
6049846 GTTTCTTTTG
* * *
6049856 TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
*
6049896 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTC-ATCTTCGA
* * ** **
6049940 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGT-GGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *
6049983 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *** *
6050027 TCTACTCCACTA--ACTTAGGGAGATAGGATCCACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
* * *
6050069 -CTTGCTCCACTACTGCTTAGGGAGATAGGATGTATCATCTTCGA
1 TC-TGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
* * * ** **
6050113 ACTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGT-TTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *
6050156 TCAT-CTTCACTACTGTTTAGGGAGATAAGAATC-GCCGTCTTCGA
1 TC-TGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTCATCTTCGA
* *
6050200 TCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTCATCTTCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
6050244 TCT
1 TCT
6050247 ATTCTCTGGG
Statistics
Matches: 275, Mismatches: 56, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
40 29 0.11
41 3 0.01
42 32 0.12
43 68 0.25
44 141 0.51
45 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
Found at i:6051168 original size:108 final size:108
Alignment explanation
Indices: 6050995--6051216 Score: 275
Period size: 108 Copynumber: 2.1 Consensus size: 108
6050985 GAGAAATGGT
* * * *
6050995 TGAAAAAGATTATCAAAATGGAGAAGATGGAATTTAATTGAGAATAAGGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* * *
6051060 TAATCAACATAGA-AAATTTAGCTAAGATTCAAAATGAATAAGA
66 TAATAAAAATA-ACAAATTTAGCTAAGATACAAAATGAATAAGA
* * * * * * *
6051103 TTAAAAGGATTATCACAATGGATAAGATGAAATTTTACTGATAACAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* * *
6051168 TAGTAAAAATAACAAATTTTGCTAAGATACAAAATGAATTAGA
66 TAATAAAAATAACAAATTTAGCTAAGATACAAAATGAATAAGA
6051211 TGAAAA
1 TGAAAA
6051217 CAGGTGCCCC
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
107 1 0.01
108 94 0.99
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
TAATAAAAATAACAAATTTAGCTAAGATACAAAATGAATAAGA
Found at i:6062666 original size:24 final size:23
Alignment explanation
Indices: 6062606--6062669 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
6062596 ATGTATGCAT
*
6062606 TATAAAGTATATAAAAATATATG
1 TATAAAGTATATAAAAATATAAG
6062629 TATACAAGGATATATAAATAA-ATAAG
1 TATA-AA-G-TATATAAA-AATATAAG
6062655 ATATAAAGTATATAA
1 -TATAAAGTATATAA
6062670 GTATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.11
24 9 0.26
25 2 0.06
26 14 0.40
27 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
TATAAAGTATATAAAAATATAAG
Found at i:6080740 original size:19 final size:19
Alignment explanation
Indices: 6080704--6080742 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6080694 GGTCTTTAGG
*
6080704 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGTTTT
6080723 TGAAAG-AATTTCTGGTTTT
1 TGAAAGCAATTTCT-GTTTT
6080742 T
1 T
6080743 CTTTCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (19 bp):
TGAAAGCAATTTCTGTTTT
Found at i:6080741 original size:18 final size:19
Alignment explanation
Indices: 6080704--6080741 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6080694 GGTCTTTAGG
* *
6080704 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGGTTT
6080723 TGAAAG-AATTTCTGGTTT
1 TGAAAGCAATTTCTGGTTT
6080741 T
1 T
6080742 TCTTTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (19 bp):
TGAAAGCAATTTCTGGTTT
Found at i:6083739 original size:31 final size:32
Alignment explanation
Indices: 6083703--6083767 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
6083693 CTTAGATAAT
6083703 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
6083734 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
6083766 TT
1 TT
6083768 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:6089896 original size:31 final size:32
Alignment explanation
Indices: 6089861--6089925 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6089851 ATTAGATAAT
6089861 TTTAAAGAG-TTTTAATAGGATTCAATTACTC
1 TTTAAAGAGTTTTTAATAGGATTCAATTACTC
*
6089892 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTAATAGGATTCAATTACTC
6089924 TT
1 TT
6089926 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (32 bp):
TTTAAAGAGTTTTTAATAGGATTCAATTACTC
Found at i:6090232 original size:3 final size:3
Alignment explanation
Indices: 6090224--6090252 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6090214 ATCTATCCTT
6090224 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6090253 TAACTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6092729 original size:18 final size:18
Alignment explanation
Indices: 6092706--6092740 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6092696 TTGAAATGAT
6092706 AAAATAAATATATTATTA
1 AAAATAAATATATTATTA
* *
6092724 AAAATAATTTTATTATT
1 AAAATAAATATATTATT
6092741 TGTGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATAAATATATTATTA
Found at i:6093537 original size:18 final size:18
Alignment explanation
Indices: 6093516--6093556 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6093506 TCAAGGGCAA
*
6093516 GAAGATGAAGATAATAGT
1 GAAGACGAAGATAATAGT
*
6093534 GAAGACGAAGATGATAGT
1 GAAGACGAAGATAATAGT
6093552 GAAGA
1 GAAGA
6093557 AGAGTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (18 bp):
GAAGACGAAGATAATAGT
Found at i:6093538 original size:21 final size:20
Alignment explanation
Indices: 6093514--6093559 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
6093504 GTTCAAGGGC
*
6093514 AAGAAGATGAAGATAATAGT
1 AAGAAGACGAAGATAATAGT
*
6093534 --GAAGACGAAGATGATAGT
1 AAGAAGACGAAGATAATAGT
6093552 GAAGAAGA
1 -AAGAAGA
6093560 GTTCAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 16 0.76
21 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.30, T:0.15
Consensus pattern (20 bp):
AAGAAGACGAAGATAATAGT
Found at i:6098877 original size:23 final size:23
Alignment explanation
Indices: 6098821--6098865 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6098811 TTCTTCTATG
*
6098821 CAAGA-AAGATTAAAGGGTCTTT
1 CAAGAGAATATTAAAGGGTCTTT
6098843 CAAGAGAATATTAAAGGGTCTTT
1 CAAGAGAATATTAAAGGGTCTTT
6098866 TTAGGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (23 bp):
CAAGAGAATATTAAAGGGTCTTT
Found at i:6098936 original size:18 final size:20
Alignment explanation
Indices: 6098908--6098944 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6098898 GTTTTAGTCT
6098908 TTAACTATTTGC-TTAATTG
1 TTAACTATTTGCATTAATTG
6098927 TTAA-TATTTGCATTAATT
1 TTAACTATTTGCATTAATT
6098945 TTTTTTGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (20 bp):
TTAACTATTTGCATTAATTG
Found at i:6115783 original size:25 final size:25
Alignment explanation
Indices: 6115755--6115835 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
6115745 TAAACTCCTC
6115755 CGAGCTAAATATCGATAAGCTCATA
1 CGAGCTAAATATCGATAAGCTCATA
* *
6115780 CGAGCTGAATATCGGTAAGCTC-TCA
1 CGAGCTAAATATCGATAAGCTCAT-A
* * *
6115805 CAAGCTACAA-ATTGATAAGATCATA
1 CGAGCTA-AATATCGATAAGCTCATA
*
6115830 CTAGCT
1 CGAGCT
6115836 GTCGTGAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.02
25 41 0.91
26 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (25 bp):
CGAGCTAAATATCGATAAGCTCATA
Found at i:6117996 original size:16 final size:16
Alignment explanation
Indices: 6117963--6118008 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6117953 AAAAACACAC
*
6117963 TTGTTTTAAATATAAG
1 TTGTTTTAAACATAAG
6117979 TTGTTTTAAACA-ACAG
1 TTGTTTTAAACATA-AG
*
6117995 TTGTTCTAAACATA
1 TTGTTTTAAACATA
6118009 GTTATTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (16 bp):
TTGTTTTAAACATAAG
Found at i:6118162 original size:16 final size:17
Alignment explanation
Indices: 6118121--6118164 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
6118111 TATTCTAAAC
6118121 ATAGCTATTCTTGAACA
1 ATAGCTATTCTTGAACA
* **
6118138 ACAATTATT-TTGAACA
1 ATAGCTATTCTTGAACA
6118154 ATAGCTATTCT
1 ATAGCTATTCT
6118165 AAACAAGAGT
Statistics
Matches: 20, Mismatches: 6, Indels: 2
0.71 0.21 0.07
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (17 bp):
ATAGCTATTCTTGAACA
Found at i:6118169 original size:16 final size:16
Alignment explanation
Indices: 6118110--6118170 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
6118100 AACTAAAGCC
6118110 CTATTCTAAAC-ATAG
1 CTATTCTAAACAATAG
* * *
6118125 CTATTCTTGAACAACAA
1 CTATTC-TAAACAATAG
* * *
6118142 TTATTTTGAACAATAG
1 CTATTCTAAACAATAG
6118158 CTATTCTAAACAA
1 CTATTCTAAACAA
6118171 GAGTTGTTAC
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
15 6 0.18
16 22 0.65
17 6 0.18
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (16 bp):
CTATTCTAAACAATAG
Found at i:6118625 original size:31 final size:31
Alignment explanation
Indices: 6118582--6118641 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
6118572 TTAACGAAGA
6118582 GTGACCACAATAGAAATGATCTAAAACATGG
1 GTGACCACAATAGAAATGATCTAAAACATGG
*
6118613 GTGACC-CGAATAGAAATTATCTAAAACAT
1 GTGACCAC-AATAGAAATGATCTAAAACAT
6118642 TAGTGATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (31 bp):
GTGACCACAATAGAAATGATCTAAAACATGG
Found at i:6120155 original size:7 final size:7
Alignment explanation
Indices: 6120143--6120172 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
6120133 TTATTTTATT
6120143 TTAATAA
1 TTAATAA
6120150 TTAATAA
1 TTAATAA
6120157 TTAATAA
1 TTAATAA
6120164 TTAATAA
1 TTAATAA
6120171 TT
1 TT
6120173 TTATATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAATAA
Found at i:6127214 original size:21 final size:21
Alignment explanation
Indices: 6127188--6127263 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
6127178 TTAGTACGAT
6127188 AATTTTTATAATTTTTTTACG
1 AATTTTTATAATTTTTTTACG
* *
6127209 AA-TTTTA-CATTTCTTTACG
1 AATTTTTATAATTTTTTTACG
** *
6127228 TTTTTTTATAATTTTCTTACG
1 AATTTTTATAATTTTTTTACG
* * *
6127249 ACTTTATAAAATTTT
1 AATTTTTATAATTTT
6127264 ATATTTTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 10 0.24
20 10 0.24
21 22 0.52
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTTTTATAATTTTTTTACG
Found at i:6127310 original size:18 final size:18
Alignment explanation
Indices: 6127289--6127416 Score: 64
Period size: 18 Copynumber: 6.8 Consensus size: 18
6127279 TTTCTATATA
6127289 TTTTATAATTTTTATGAT
1 TTTTATAATTTTTATGAT
* **
6127307 TTTTATAAAATTTTACAATT
1 TTTTAT-AATTTTTATGA-T
* * *
6127327 TTTTATAATTTTTTTCTAA
1 TTTTATAATTTTTAT-GAT
6127346 TTTT-TAATTTTTAAT-ATT
1 TTTTATAATTTTT-ATGA-T
* * *
6127364 TTTTATTAAAATTTAATCAT
1 TTTTA-T-AATTTTTATGAT
*
6127384 TTTTATAAATTTTATTGAT
1 TTTTATAATTTTTA-TGAT
*
6127403 TTTT-TATTTTTTAT
1 TTTTATAATTTTTAT
6127417 CTTTTTTGCC
Statistics
Matches: 84, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
17 2 0.02
18 32 0.38
19 27 0.32
20 17 0.20
21 6 0.07
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTATGAT
Found at i:6127329 original size:29 final size:28
Alignment explanation
Indices: 6127251--6127396 Score: 109
Period size: 29 Copynumber: 5.1 Consensus size: 28
6127241 TTCTTACGAC
*
6127251 TTTATAAAATTTTATATTTTTTTCTATATT
1 TTTATAAAATTTTATA-ATTTTT-TATATT
* *
6127281 TCTAT-ATATTTTATAA-TTTTTATGATT
1 TTTATAAAATTTTATAATTTTTTAT-ATT
*
6127308 TTTATAAAATTTTACAATTTTTTATAATT
1 TTTATAAAATTTTATAATTTTTTAT-ATT
* ** *
6127337 TTTTTCTAATTTT-TAATTTTTAATATTT
1 TTTATAAAATTTTATAATTTTTTATA-TT
* * *
6127365 TTTATTAAAATTTAATCATTTTTATAAATT
1 TTTA-TAAAATTTTATAATTTTT-TATATT
6127395 TT
1 TT
6127397 ATTGATTTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
26 3 0.03
27 12 0.13
28 23 0.26
29 35 0.39
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:6127329 original size:57 final size:57
Alignment explanation
Indices: 6127251--6127423 Score: 144
Period size: 57 Copynumber: 3.1 Consensus size: 57
6127241 TTCTTACGAC
* * *
6127251 TTTATAAAATTTTATATTTTTTTCTATATTTCTATAT-ATTTTATAATTTTT-ATGA-TT
1 TTTATAAAATTTTACAATTTTTTATA-ATTTCTATATAATTTT-TAATTTTTAAT-ATTT
* * *
6127308 TTTATAAAATTTTACAATTTTTTATAATTTTTTTCTAATTTTTAATTTTTAATATTT
1 TTTATAAAATTTTACAATTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
* * * * *
6127365 TTTATTAAAATTTAATC-A-TTTTTATAAATTT-TAT-TGATTTTTTATTTTTTATCTTT
1 TTTA-TAAAATTTTA-CAATTTTTTAT-AATTTCTATATAATTTTTAATTTTTAATATTT
6127421 TTT
1 TTT
6127424 GCCACATGTC
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
56 37 0.38
57 45 0.46
58 15 0.15
59 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (57 bp):
TTTATAAAATTTTACAATTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
Found at i:6127340 original size:20 final size:19
Alignment explanation
Indices: 6127289--6127339 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6127279 TTTCTATATA
**
6127289 TTTTATAATTTTTATGA-T
1 TTTTATAATTTTTACAATT
*
6127307 TTTTATAAAATTTTACAATT
1 TTTTAT-AATTTTTACAATT
6127327 TTTTATAATTTTT
1 TTTTATAATTTTT
6127340 TTCTAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTACAATT
Found at i:6127378 original size:20 final size:21
Alignment explanation
Indices: 6127355--6127410 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
6127345 ATTTTTAATT
6127355 TTTAAT-ATTTTTTATTAAAA
1 TTTAATCATTTTTTATTAAAA
*
6127375 TTTAATCA-TTTTTA-TAAAT
1 TTTAATCATTTTTTATTAAAA
* *
6127394 TTTATTGATTTTTTATT
1 TTTAATCATTTTTTATT
6127411 TTTTATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.33
20 18 0.60
21 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTAATCATTTTTTATTAAAA
Found at i:6127653 original size:93 final size:92
Alignment explanation
Indices: 6127485--6127696 Score: 257
Period size: 93 Copynumber: 2.3 Consensus size: 92
6127475 TTAGGGTCGG
** * * * * *
6127485 TTCAAGTATTCAATGGAGTGCAAAAAAAAAAGAGCAAGGGTTTAATTACTTTTTTGAAAAAGTTT
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAAAGCAAGGGCTTAACTACTTTTTTAAAAAAGTTT
*
6127550 GAGAGCCTTTTTGATGCATTCTAAAAA
66 AAGAGCCTTTTTGATGCATTCTAAAAA
6127577 TTCAAG-ACCCAATTGAGTGCAAAAAAAAAAAAGCAAGGGCTTAACTACTATTTTTTAAAAAAGT
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAAAGCAAGGGCTTAACTAC--TTTTTTAAAAAAGT
* * * * *
6127641 TTAAGGGTCTTTTTGATGCATTGTGAAAG
64 TTAAGAGCCTTTTTGATGCATTCTAAAAA
* *
6127670 TTCAAGTACCCAAGTGAATG-AAAAAAA
1 TTCAAGTACCCAATTGAGTGCAAAAAAA
6127697 GTAGGGACTT
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
91 36 0.35
92 6 0.06
93 49 0.48
94 11 0.11
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (92 bp):
TTCAAGTACCCAATTGAGTGCAAAAAAAAAAAAGCAAGGGCTTAACTACTTTTTTAAAAAAGTTT
AAGAGCCTTTTTGATGCATTCTAAAAA
Found at i:6130119 original size:29 final size:29
Alignment explanation
Indices: 6130077--6130200 Score: 133
Period size: 29 Copynumber: 4.2 Consensus size: 29
6130067 TTTTTTTTAA
*
6130077 AAAATTTGCATTTTGACCCCTCTAATTTTT
1 AAAA-TTGCATTTTGACCCCTATAATTTTT
* *
6130107 AAAATTGCATTTTGGCCCCTAAAATTTTT
1 AAAATTGCATTTTGACCCCTATAATTTTT
* * * *
6130136 AAAATTTCATTATGACCCTTA-AACTTCTT
1 AAAATTGCATTTTGACCCCTATAA-TTTTT
* *
6130165 GAAATTGCATTTTGACCCCTATACTTTCTT
1 AAAATTGCATTTTGACCCCTATAATTT-TT
6130195 AAAATT
1 AAAATT
6130201 TCACTATGCT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
28 2 0.03
29 62 0.82
30 12 0.16
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (29 bp):
AAAATTGCATTTTGACCCCTATAATTTTT
Found at i:6130565 original size:12 final size:12
Alignment explanation
Indices: 6130548--6130573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6130538 ACTAGGGTTT
6130548 GAGGAAGAAGAA
1 GAGGAAGAAGAA
6130560 GAGGAAGAAGAA
1 GAGGAAGAAGAA
6130572 GA
1 GA
6130574 AAGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:6130571 original size:15 final size:15
Alignment explanation
Indices: 6130552--6130612 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
6130542 GGGTTTGAGG
* * *
6130552 AAGAAGAAGAGGAAG
1 AAGAAAAAGAGAAAA
*
6130567 AAGAAGAA-AGAAAA
1 AAGAAAAAGAGAAAA
6130581 AAGAAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
6130596 AAGAAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
6130611 AA
1 AA
6130613 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 11 0.26
15 31 0.74
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAGAAAA
Found at i:6130593 original size:8 final size:7
Alignment explanation
Indices: 6130567--6130612 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
6130557 GAAGAGGAAG
*
6130567 AAGAAGA
1 AAGAAAA
6130574 AAGAAAA
1 AAGAAAA
6130581 AAGAAAA
1 AAGAAAA
6130588 AGAGAAAA
1 A-AGAAAA
6130596 AAGAAAA
1 AAGAAAA
6130603 AGAGAAAA
1 A-AGAAAA
6130611 AA
1 AA
6130613 AAATTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 22 0.61
8 14 0.39
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:6130599 original size:29 final size:28
Alignment explanation
Indices: 6130552--6130615 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
6130542 GGGTTTGAGG
* * *
6130552 AAGAAGAAGAGGAAGAAGAAGAAAGAAAA
1 AAGAAAAAGAGAAAAAAGAA-AAAGAAAA
*
6130581 AAGAAAAAGAGAAAAAAGAAAAAGAGAA
1 AAGAAAAAGAGAAAAAAGAAAAAGAAAA
6130609 AA-AAAAA
1 AAGAAAAA
6130616 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 9 0.29
29 17 0.55
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (28 bp):
AAGAAAAAGAGAAAAAAGAAAAAGAAAA
Found at i:6130735 original size:10 final size:10
Alignment explanation
Indices: 6130720--6130762 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
6130710 AGCCCAATCC
6130720 AAAAAAAAAG
1 AAAAAAAAAG
6130730 -AAAAAAAAG
1 AAAAAAAAAG
6130739 AAAAAAAAAG
1 AAAAAAAAAG
* *
6130749 CATAAAAAAG
1 AAAAAAAAAG
6130759 AAAA
1 AAAA
6130763 CAGCCCATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6130745 original size:20 final size:20
Alignment explanation
Indices: 6130720--6130762 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6130710 AGCCCAATCC
6130720 AAAAAAAAAG-AAAAAAAAG
1 AAAAAAAAAGCAAAAAAAAG
*
6130739 AAAAAAAAAGCATAAAAAAG
1 AAAAAAAAAGCAAAAAAAAG
6130759 AAAA
1 AAAA
6130763 CAGCCCATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGCAAAAAAAAG
Found at i:6130960 original size:25 final size:25
Alignment explanation
Indices: 6130920--6130992 Score: 55
Period size: 26 Copynumber: 2.9 Consensus size: 25
6130910 TAGCCCAGCA
*
6130920 GAAAAAAAAAAGAAAAGAGAAGAAA-A
1 GAAAAAAGAAAGAAAAGA-AA-AAAGA
6130946 GAAAAAGAGAAA-AAAGAGAAAAAAGA
1 GAAAAA-AGAAAGAAA-AGAAAAAAGA
*
6130972 -AAGAAAAGAAA-AAAGGAAAAA
1 GAA-AAAAGAAAGAAAAGAAAAA
6130993 GGGTCGTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 6 0.15
25 13 0.32
26 15 0.37
27 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
GAAAAAAGAAAGAAAAGAAAAAAGA
Found at i:6130976 original size:33 final size:31
Alignment explanation
Indices: 6130923--6130993 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
6130913 CCCAGCAGAA
* *
6130923 AAAAAAAAGAAAAGAGAAGAAAAGAAAAAGAG
1 AAAAAAGAGAAAAAAGAAGAAAAGAAAAA-AG
6130955 AAAAAAGAGAAAAAAGAAAGAAAAGAAAAAAG
1 AAAAAAGAGAAAAAAG-AAGAAAAGAAAAAAG
*
6130987 GAAAAAG
1 AAAAAAG
6130994 GGTCGTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (31 bp):
AAAAAAGAGAAAAAAGAAGAAAAGAAAAAAG
Found at i:6130985 original size:16 final size:16
Alignment explanation
Indices: 6130927--6130986 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
6130917 GCAGAAAAAA
*
6130927 AAAAGAAAAGAG-AAG
1 AAAAGAAAAAAGAAAG
6130942 AAAAGAAAAAGAGAAA-
1 AAAAGAAAAA-AGAAAG
6130958 AAAGAGAAAAAAGAAAG
1 AAA-AGAAAAAAGAAAG
6130975 AAAAGAAAAAAG
1 AAAAGAAAAAAG
6130987 GAAAAAGGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 9 0.22
16 19 0.47
17 12 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:6136896 original size:16 final size:16
Alignment explanation
Indices: 6136860--6136897 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6136850 AATTATATTC
6136860 AATAATTTTATAGATT
1 AATAATTTTATAGATT
*
6136876 TATAATTTTATTA-ATT
1 AATAATTTTA-TAGATT
6136892 AATAAT
1 AATAAT
6136898 ATATTATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATAATTTTATAGATT
Found at i:6136975 original size:16 final size:16
Alignment explanation
Indices: 6136954--6137016 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
6136944 TTAATTAATT
6136954 TCACATTAATATATTA
1 TCACATTAATATATTA
*
6136970 TCACATTAAT-TAATA
1 TCACATTAATATATTA
* *
6136985 TTA-ATT-TTATTATTA
1 TCACATTAATA-TATTA
6137000 TCACA-TAATAATATTA
1 TCACATTAAT-ATATTA
6137016 T
1 T
6137017 TAAATTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
13 1 0.03
14 3 0.08
15 13 0.36
16 18 0.50
17 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
TCACATTAATATATTA
Found at i:6137477 original size:17 final size:18
Alignment explanation
Indices: 6137455--6137488 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6137445 TACTTAGAAT
6137455 TCTATTCAAA-TAATAAC
1 TCTATTCAAATTAATAAC
*
6137472 TCTATTTAAATTAATAA
1 TCTATTCAAATTAATAA
6137489 AATTAGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TCTATTCAAATTAATAAC
Found at i:6139606 original size:14 final size:15
Alignment explanation
Indices: 6139575--6139608 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6139565 TAATATTTTT
6139575 AATTATTTCAAAAAA
1 AATTATTTCAAAAAA
*
6139590 AATTATTT-AAAAGA
1 AATTATTTCAAAAAA
6139604 AATTA
1 AATTA
6139609 ATATGGTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
AATTATTTCAAAAAA
Found at i:6140986 original size:19 final size:19
Alignment explanation
Indices: 6140935--6140986 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6140925 CAATTAATTT
6140935 TAAAATTATAAAAATATTCA
1 TAAAATTA-AAAAATATTCA
* * * *
6140955 AAAAAATATAAAATGTTCA
1 TAAAATTAAAAAATATTCA
6140974 TAAAATTAAAAAA
1 TAAAATTAAAAAA
6140987 AGTAGTATGA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAATTAAAAAATATTCA
Found at i:6142383 original size:17 final size:17
Alignment explanation
Indices: 6142344--6142381 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6142334 TTAATTTTTT
*
6142344 AAAATTTAAAATATATA
1 AAAAATTAAAATATATA
6142361 AAAAATTAAAAT-TATA
1 AAAAATTAAAATATATA
6142377 AAAAA
1 AAAAA
6142382 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTAAAATATATA
Found at i:6150576 original size:6 final size:6
Alignment explanation
Indices: 6150565--6150607 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
6150555 GAGGAAGGCT
* *
6150565 TGGGGC TGGGGC TGTGGC TGGGGC TGGGGC TGGGGC TGCGGC T
1 TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC T
6150608 CCTCTTGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.19, G:0.60, T:0.21
Consensus pattern (6 bp):
TGGGGC
Found at i:6154232 original size:22 final size:23
Alignment explanation
Indices: 6154201--6154253 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
6154191 ATATATAAAC
*
6154201 GTATACTAAAAAACCTATGTGCAT
1 GTATA-TAAAAAACCTATGCGCAT
6154225 -TATATAAAAAACCTATGCGCAT
1 GTATATAAAAAACCTATGCGCAT
6154247 GTATATA
1 GTATATA
6154254 CAGTAGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (23 bp):
GTATATAAAAAACCTATGCGCAT
Found at i:6154320 original size:23 final size:25
Alignment explanation
Indices: 6154294--6154340 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6154284 AATATCATAG
*
6154294 AAATAATAACA-T-TAAAAAAAATT
1 AAATAATAAAACTGTAAAAAAAATT
*
6154317 AAATAGTAAAACTGTAAAAAAAAT
1 AAATAATAAAACTGTAAAAAAAAT
6154341 GGACTAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAATAAAACTGTAAAAAAAATT
Found at i:6155953 original size:44 final size:43
Alignment explanation
Indices: 6155829--6156265 Score: 496
Period size: 44 Copynumber: 9.9 Consensus size: 43
6155819 ACCTGCTATA
* * *
6155829 TTTGATCTACTTTATGCCAATACATGAAGACAAGATCCGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-C
* * * *** *
6155873 TTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGATATC
1 TTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCT-TC
* *
6155918 TTCGATCTACTTCACGCCAATACATGAAGACAAGATATGCTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TTC
*
6155962 TTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-C
* * * * ***
6156006 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 TTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCT-TC
*
6156051 TTTGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TTC
*
6156095 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG-CTTC
* * *
6156139 TTTGATCTACTTCACACCAATACATGAAGACAAGATCCGCTTGT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-C
6156183 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TC
* * * * *
6156227 TTTGATCAATTTCACTGCCAGTACAAGAAGATAAGATCT
1 TTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCT
6156266 AATGGCTTCA
Statistics
Matches: 332, Mismatches: 50, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
43 4 0.01
44 235 0.71
45 91 0.27
46 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTC
Found at i:6156071 original size:133 final size:133
Alignment explanation
Indices: 6155829--6156265 Score: 626
Period size: 133 Copynumber: 3.3 Consensus size: 133
6155819 ACCTGCTATA
* * *
6155829 TTTGATCTACTTTATGCCAATACATGAAGACAAGATCCGCTTGCTTCGATCTACTTCGCCACCAA
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAA
* * *
6155894 TATGGGAAGACAAGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGCT
66 TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
6155959 TTC
131 TTC
* *
6155962 TTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAG
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAA
*
6156027 TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCTGCT
66 TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
6156092 TTC
131 TTC
* * * *
6156095 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTC-ACACCAA
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAA
*** * *
6156159 TACATGAAGACAAGATCCGCT-TGTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 TATGGGAAGACAAGATCTGCTAT-CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
6156223 TATC
130 TTTC
* * * * *
6156227 TTTGATCAATTTCACTGCCAGTACAAGAAGATAAGATCT
1 TTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCT
6156266 AATGGCTTCA
Statistics
Matches: 275, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 77 0.28
133 197 0.72
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (133 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAA
TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
TTC
Found at i:6156747 original size:265 final size:264
Alignment explanation
Indices: 6156268--6157049 Score: 1244
Period size: 265 Copynumber: 3.0 Consensus size: 264
6156258 TAAGATCTAA
6156268 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* *
6156333 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCATTGTTGCCCAGGGAAGTAGAATT
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
** * * * *
6156398 GTTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCATTGATCTGCTCCA
131 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCA
*
6156463 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
196 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAA
6156528 TTAC
261 TTAC
* * * **
6156532 TGGCTTTAATGTACTCCACTGTAACTACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTTACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* * *
6156597 A-T-CTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
66 ACTGCT-TG--GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
*
6156660 ATTACCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCT
128 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCT
* *
6156725 TCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCATTGCTACCCAGGGAAGTA
193 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTA
6156790 GAATTAC
258 GAATTAC
* *
6156797 TAGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
*
6156862 ACTGCTTGGGGAGACAAGATTTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
6156927 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCA
131 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCA
* * * * ** * *
6156992 CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAACCTGCTCCACTGCAACCGAGGGA
196 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCAGGGA
6157050 GGCGAGGTTG
Statistics
Matches: 471, Mismatches: 42, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
262 2 0.00
263 3 0.01
264 226 0.48
265 235 0.50
266 3 0.01
267 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (264 bp):
TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAA
TTAC
Found at i:6157082 original size:132 final size:132
Alignment explanation
Indices: 6156268--6157026 Score: 1216
Period size: 132 Copynumber: 5.7 Consensus size: 132
6156258 TAAGATCTAA
6156268 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* *
6156333 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCATTGTTGCCCAGGGAAGTAGAATT
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
**
6156398 GT
131 AC
* * * *
6156400 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCATTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* * *
6156465 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
6156530 AC
131 AC
* * * **
6156532 TGGCTTTAATGTACTCCACTGTAACTACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTTACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* * *
6156597 A-T-CTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
66 ACTGCT-TG--GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
6156660 ATTAC
128 ATTAC
* *
6156665 CGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTTCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* * * * *
6156730 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCATTGCTACCCAGGGAAGTAGAATT
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
6156795 AC
131 AC
* *
6156797 TAGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
*
6156862 ACTGCTTGGGGAGACAAGATTTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
6156927 AC
131 AC
6156929 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
6156994 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAA
66 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAA
6157027 CCTGCTCCAC
Statistics
Matches: 570, Mismatches: 52, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
130 2 0.00
131 2 0.00
132 447 0.78
133 115 0.20
134 2 0.00
135 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
AC
Found at i:6158351 original size:14 final size:13
Alignment explanation
Indices: 6158332--6158372 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
6158322 TTAGCCTCTC
*
6158332 CATTTTTACCTTTT
1 CATTTTT-CATTTT
6158346 CATTTTTCATTTT
1 CATTTTTCATTTT
6158359 CATCTTTTCATTTT
1 CAT-TTTTCATTTT
6158373 TCACATCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:6158356 original size:21 final size:21
Alignment explanation
Indices: 6158332--6158375 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6158322 TTAGCCTCTC
*
6158332 CATTTTTACCTTTTCATTTTT
1 CATTTTCACCTTTTCATTTTT
*
6158353 CATTTTCATCTTTTCATTTTT
1 CATTTTCACCTTTTCATTTTT
6158374 CA
1 CA
6158376 CATCACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (21 bp):
CATTTTCACCTTTTCATTTTT
Found at i:6158358 original size:6 final size:7
Alignment explanation
Indices: 6158342--6158375 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
6158332 CATTTTTACC
6158342 TTTTCAT
1 TTTTCAT
6158349 TTTTCA-
1 TTTTCAT
6158355 TTTTCAT
1 TTTTCAT
6158362 CTTTTCAT
1 -TTTTCAT
6158370 TTTTCA
1 TTTTCA
6158376 CATCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTCAT
Found at i:6161650 original size:41 final size:41
Alignment explanation
Indices: 6161593--6161860 Score: 446
Period size: 41 Copynumber: 6.5 Consensus size: 41
6161583 TTTAACATAT
* * *
6161593 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
6161634 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
6161675 TCACCGGCACTTAGCCTGATAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
6161716 TCACCGGCACTTAGTCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
6161757 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
6161798 TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
6161839 TCACCGACACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
6161861 ACTTAAAGTC
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 216 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:6161884 original size:41 final size:41
Alignment explanation
Indices: 6161798--6161924 Score: 109
Period size: 41 Copynumber: 3.1 Consensus size: 41
6161788 CTGATTTAGA
** * **
6161798 TCACCGACACTTAGCCTGCTAGGTTTATAA--CCTGATTTAGA
1 TCACCGACACTTAGCCTGCTAGACTTA-AAGTCC-GAATTATT
6161839 TCACCGACACTTAGCCTGCTAGACTTAAAGTCCGAATTATT
1 TCACCGACACTTAGCCTGCTAGACTTAAAGTCCGAATTATT
* * * *
6161880 TCACC-AGCA-TCAAGCCTGCTAGACATAAAGTCTGAAGTATT
1 TCACCGA-CACT-TAGCCTGCTAGACTTAAAGTCCGAATTATT
6161921 TCAC
1 TCAC
6161925 TGGCAATAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
40 4 0.05
41 67 0.92
42 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (41 bp):
TCACCGACACTTAGCCTGCTAGACTTAAAGTCCGAATTATT
Found at i:6163666 original size:28 final size:28
Alignment explanation
Indices: 6163635--6163691 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
6163625 TATGTTTGTT
6163635 TTTATTATTATAA-CTTTATAATATATTA
1 TTTATTATTATAACCTTTATAAT-TATTA
6163663 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATTATAACCTTTATAATTATTA
6163691 T
1 T
6163692 AAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTATTATTATAACCTTTATAATTATTA
Found at i:6163681 original size:15 final size:14
Alignment explanation
Indices: 6163635--6163688 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
6163625 TATGTTTGTT
*
6163635 TTTATTATTATAAC
1 TTTATAATTATAAC
*
6163649 TTTATAATATATTA-
1 TTTATAAT-TATAAC
*
6163663 TTTATTATTATAACC
1 TTTATAATTATAA-C
6163678 TTTATAATTAT
1 TTTATAATTAT
6163689 TATAAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATAATTATAAC
Found at i:6164474 original size:19 final size:19
Alignment explanation
Indices: 6164450--6164495 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6164440 AACGGTGTCT
* *
6164450 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
6164468 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
6164488 AATGCAAA
1 AATGCAAA
6164496 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:6164947 original size:16 final size:16
Alignment explanation
Indices: 6164926--6164956 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6164916 TTCTATAACG
6164926 AAATGCCATGCAGTCT
1 AAATGCCATGCAGTCT
*
6164942 AAATGCTATGCAGTC
1 AAATGCCATGCAGTC
6164957 AATGTGAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:6166717 original size:22 final size:23
Alignment explanation
Indices: 6166686--6166738 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
6166676 ATATATAAAC
*
6166686 GTATACTAAAAAACATATGTGCAT
1 GTATA-TAAAAAACATATGCGCAT
*
6166710 -TATATAAAAAACCTATGCGCAT
1 GTATATAAAAAACATATGCGCAT
6166732 GTATATA
1 GTATATA
6166739 CAGTAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (23 bp):
GTATATAAAAAACATATGCGCAT
Found at i:6169532 original size:71 final size:70
Alignment explanation
Indices: 6169427--6169564 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 70
6169417 TAAACTGACA
* * *
6169427 ATAGGTGTCCTTGCACTAGTTGAATAAACTGACAATGTTTTGCGCCCAACGCTAGTCAGACAAAT
1 ATAGGTGTCCCTGCACTAGTAGAATAAACCGACAATGTTTTGCGCCCAACGCTAGTCAGACAAAT
6169492 TGGTG
66 TGGTG
* *
6169497 ATAGGTGTGCCCTGCACTAGTCAG-ATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCAGATAA
1 ATAGGTGT-CCCTGCACTAGT-AGAATAAACCGACAATGTTTTGCGCCCAACGCTAGTCAGACAA
6169561 ATTG
64 ATTG
6169565 ACGATATCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
70 8 0.13
71 52 0.85
72 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (70 bp):
ATAGGTGTCCCTGCACTAGTAGAATAAACCGACAATGTTTTGCGCCCAACGCTAGTCAGACAAAT
TGGTG
Found at i:6169616 original size:76 final size:76
Alignment explanation
Indices: 6169511--6169711 Score: 253
Period size: 76 Copynumber: 2.6 Consensus size: 76
6169501 GTGTGCCCTG
* * * * * *
6169511 CACTAGTCAGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCAGATAAATTGACGATATCGAA
1 CACTAGTCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTAACGATATCAAA
* *
6169576 TGTGTGTCCAA
66 TGTATGCCCAA
* *
6169587 CACT-GATCGGATAGACCGACAATGATTTGCACCCAGTGCTAGTC-GAATAAACTAACGATATCA
1 CACTAG-TCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAG-ATAAACTAACGATATCA
*
6169650 AATGTATGCCCAG
64 AATGTATGCCCAA
* *
6169663 CACTAGTTGGATAGATCGACAATGATTTGCGCCCAGCGCTAGTCAGATA
1 CACTAGTCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAGATA
6169712 TAACCGACAA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
75 2 0.02
76 102 0.96
77 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (76 bp):
CACTAGTCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTAACGATATCAAA
TGTATGCCCAA
Found at i:6172729 original size:25 final size:25
Alignment explanation
Indices: 6172673--6172736 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
6172663 CATCTTGTAT
* *
6172673 GAGCTCACCGATTTACAGCTCGTAA
1 GAGCTTACCGATTTACAGCTCGGAA
* *
6172698 GAACTTACCGATATT-CAGCTCGGAG
1 GAGCTTACCGAT-TTACAGCTCGGAA
6172723 GAGCTTACCG-TTTA
1 GAGCTTACCGATTTA
6172737 TCGCTCGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 27 0.84
26 2 0.06
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCGGAA
Found at i:6187764 original size:23 final size:23
Alignment explanation
Indices: 6187732--6187798 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
6187722 TACATGTACT
*
6187732 TATAAAATATAAATAAAAATAAG
1 TATAATATATAAATAAAAATAAG
* * *
6187755 TATAATATATTAATAAAGTATGAG
1 TATAATATATAAATAAA-AATAAG
* *
6187779 TATATATATGTATATAAAAA
1 TATA-ATATATAAATAAAAA
6187799 AATATGAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 15 0.44
24 9 0.26
25 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
TATAATATATAAATAAAAATAAG
Found at i:6187803 original size:16 final size:16
Alignment explanation
Indices: 6187784--6187827 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6187774 ATGAGTATAT
6187784 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
6187800 ATATGAAAATAAAATA
1 ATATGTATATAAAAAA
6187816 ATAATGTATATA
1 AT-ATGTATATA
6187828 TATATGTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:6187939 original size:18 final size:17
Alignment explanation
Indices: 6187899--6187945 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
6187889 CGTGTAAGTG
*
6187899 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
6187916 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
*
6187935 TATAATAATAA
1 TATAAAAATAA
6187946 GGATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:6187941 original size:15 final size:15
Alignment explanation
Indices: 6187904--6187960 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
6187894 AAGTGTATAA
6187904 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
6187920 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
*
6187933 AATATAATAATAAGGAT
1 AA-ATAATAATGA-GAT
6187950 ACAATAATAAT
1 A-AATAATAAT
6187961 ATTAACAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.11
14 1 0.03
15 15 0.43
16 3 0.09
17 11 0.31
18 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:6188938 original size:17 final size:17
Alignment explanation
Indices: 6188916--6188952 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6188906 GGGCGAGGCG
*
6188916 GCTGCAGTGTTAAGCTT
1 GCTGCAGCGTTAAGCTT
6188933 GCTGCAGCGTTAAGCTT
1 GCTGCAGCGTTAAGCTT
6188950 GCT
1 GCT
6188953 ACACTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (17 bp):
GCTGCAGCGTTAAGCTT
Found at i:6189583 original size:44 final size:44
Alignment explanation
Indices: 6189531--6189720 Score: 224
Period size: 44 Copynumber: 4.3 Consensus size: 44
6189521 ACCAGTATGG
* *
6189531 GAAGACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATATAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACAT
* * *
6189575 GAAAACAAGACCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACAT
* ***
6189619 GAAGACAAGATCTACTTTCTTCGATCTACTTC--GCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCA--A-TACAT
*
6189664 GAAGACAAGATCTG-TTATCCTCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCATGCCAATACAT
*
6189708 GAAGACAACATCT
1 GAAGACAAGATCT
6189721 ACTTCACCAC
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
42 4 0.03
44 85 0.69
45 30 0.24
47 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACAT
Found at i:6189690 original size:89 final size:87
Alignment explanation
Indices: 6189531--6189911 Score: 349
Period size: 88 Copynumber: 4.5 Consensus size: 87
6189521 ACCAGTATGG
* * * *
6189531 GAAGACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATATATGAAAACAAGACCTGCTTTCTT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCA-GCCAATATAGGAAAACAAGACCTGCTTTCCT
6189596 CGATCTACTTCACGCCAATACAT
65 CGATCTACTTCACGCCAATACAT
* * *
6189619 GAAGACAAGATCTACTTTCTTCGATCTACTTC-GCCACCAGTATGGGAAGACAAGATCTG-TTAT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCAGCCA--A-TATAGGAAAACAAGACCTGCTT-T
*
6189682 CCTCGATCTACTTCATGCCAATACAT
62 CCTCGATCTACTTCACGCCAATACAT
* * * * * * * * **
6189708 GAAGACAACATCTA----C-T---TC-AC--CA-CCAGTATGGGAAGATAAGATCTGTTGTATTC
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCAGCCAATATAGGAAAACAAGACCTGCTTTCCTC
6189761 GATCTACTTCACGCCAATACAT
66 GATCTACTTCACGCCAATACAT
* * * * * * *
6189783 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCA-GCCAATATAGGAAAACAAGACCTGCTTTCCT
*
6189848 CGATCTACTTCACGCCAGTACAT
65 CGATCTACTTCACGCCAATACAT
**
6189871 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATA
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCA-GCCAATA
6189912 CATGAAGACA
Statistics
Matches: 245, Mismatches: 29, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
75 54 0.22
76 1 0.00
78 4 0.02
79 1 0.00
80 3 0.01
81 2 0.01
83 2 0.01
84 3 0.01
85 1 0.00
86 6 0.02
88 115 0.47
89 53 0.22
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (87 bp):
GAAGACAAGATCTACTTTCTTCGATCTACTTCAGCCAATATAGGAAAACAAGACCTGCTTTCCTC
GATCTACTTCACGCCAATACAT
Found at i:6189733 original size:75 final size:75
Alignment explanation
Indices: 6189642--6189795 Score: 245
Period size: 75 Copynumber: 2.1 Consensus size: 75
6189632 ACTTTCTTCG
* * *
6189642 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCCTCGATCTACTTCATGCCAATACA
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTATACTCGATCTACTTCACGCCAATACA
6189707 TGAAGACAAC
66 TGAAGACAAC
* * *
6189717 ATCTACTTCACCACCAGTATGGGAAGATAAGATCTGTTGTATTCGATCTACTTCACGCCAATACA
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTATACTCGATCTACTTCACGCCAATACA
*
6189782 TGAAGACAAG
66 TGAAGACAAC
6189792 ATCT
1 ATCT
6189796 GCTTTCTTCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (75 bp):
ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTATACTCGATCTACTTCACGCCAATACA
TGAAGACAAC
Found at i:6189794 original size:44 final size:44
Alignment explanation
Indices: 6189739--6189942 Score: 329
Period size: 44 Copynumber: 4.6 Consensus size: 44
6189729 ACCAGTATGG
* *
6189739 GAAGATAAGATCTG-TTGTATTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
*
6189783 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
6189827 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
6189871 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
6189915 GAAGACAAGATTTGCTTTCTTCAATCTA
1 GAAGACAAGATCTGCTTTCTTCGATCTA
6189943 TTCTACTGCC
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 147 0.99
45 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:6190016 original size:132 final size:129
Alignment explanation
Indices: 6189912--6190428 Score: 590
Period size: 132 Copynumber: 3.9 Consensus size: 129
6189902 CACGCCAATA
* * * * *
6189912 CATGAAGACAAGATTTGCTTTCTTCAATCTATTCTACTGCCGACCAGGGAGATAAAATTACTGGC
1 CATGAAGATAAGATTTG-TTTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGC
* * *
6189977 TTCAATATACTCCACTATAACTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTG
65 TTCAATATACTCCACTACAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTG
* ** * *
6190042 CTTAGAGAGATAAGATCTATAATT-TTCAATCTATTCCACTGCTGCCCAGGTAGATGGAATTACT
1 CAT-GA-AGATAAGAT-T-TGTTTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
* *
6190106 GACTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTA
62 GGCTTCAATATACTCCACTACAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTA
6190171 CTG
127 CTG
* * * * * *
6190174 CTTAGGGAGATAAGATCTGTAATCTTCAGTCTATTCCACTGTTGCCCAGGGAGATAGAATTACTG
1 C--ATGAAGATAAGATTTGT-TTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
* *
6190239 GCTTCAATATACTCCACTACAACCTCAGTGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAC
63 GCTTCAATATACTCCACTACAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTAC
6190304 TG
128 TG
* * * * * *
6190306 CTTAGGGAGATAAAATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTG
1 C--ATGAAGATAAGATTTGT-TTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
* ** * *
6190371 GCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCTGCCATCTTCT-ATCTGCT
63 GCTTCAATATACTCCACTACAACCTCAG-GGAGGTAAAATCTGTCATCTT-TGATCTGCT
6190429 TCGCTGTCTA
Statistics
Matches: 340, Mismatches: 37, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
130 3 0.01
131 4 0.01
132 327 0.96
133 5 0.01
134 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (129 bp):
CATGAAGATAAGATTTGTTTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
TCAATATACTCCACTACAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTG
Found at i:6190212 original size:44 final size:44
Alignment explanation
Indices: 6189976--6190361 Score: 183
Period size: 44 Copynumber: 8.8 Consensus size: 44
6189966 AAATTACTGG
* * * **
6189976 CTTCAATATACTCCACTA-TAACTTCAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTACT-GC-TCAGGGAGATAAAATCTGTAAT
** * * * * *
6190021 CTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTATAAT
1 CTTCAATCTACTCCACTACTGCTCAGGGAGATAAAATCTGTAAT
* * * * * * *
6190065 TTTCAATCTATTCCACTGCTGCCCAGGTAGATGGAATTACTG--A-
1 CTTCAATCTACTCCACTACTGCTCAGGGAGAT-AAAAT-CTGTAAT
* * ** * *
6190108 CTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCAT
1 CTTCAATCTACTCCACTAC-TGCTCAGGGAGATAAAATCTGTAAT
** * * *
6190153 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTACTGCTCAGGGAGATAAAATCTGTAAT
* * ** * * *
6190197 CTTCAGTCTATTCCACTGTTGCCCAGGGAGATAGAATTACTG---G
1 CTTCAATCTACTCCACTACTGCTCAGGGAGATA-AAAT-CTGTAAT
* ** * * **
6190240 CTTCAATATACTCCACTACAACCTCAGTGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTAC-TGCTCAGGGAGATAAAATCTGTAAT
** * *
6190285 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGTAAT
1 CTTCAATCTACTCCACTACTGCTCAGGGAGATAAAATCTGTAAT
* ** *
6190329 CTTCAATCTATTCCACTGTTGCCCAGGGAGATA
1 CTTCAATCTACTCCACTACTGCTCAGGGAGATA
6190362 GAATTACTGG
Statistics
Matches: 238, Mismatches: 90, Indels: 27
0.67 0.25 0.08
Matches are distributed among these distances:
42 6 0.03
43 36 0.15
44 142 0.60
45 48 0.20
46 6 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
CTTCAATCTACTCCACTACTGCTCAGGGAGATAAAATCTGTAAT
Found at i:6190297 original size:264 final size:264
Alignment explanation
Indices: 6189932--6190428 Score: 773
Period size: 264 Copynumber: 1.9 Consensus size: 264
6189922 AGATTTGCTT
* *
6189932 TCTTCAATCTATTCTACTGCCGACCAGGGAGATAAAATTACTGGCTTCAATATACTCCACTATAA
1 TCTTCAATCTATTCCACTGCCGACCAGGGAGATAAAATTACTGGCTTCAATATACTCCACTACAA
* *
6189997 CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTAT
66 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTAT
* * *
6190062 AATTTTCAATCTATTCCACTGCTGCCCAGGTAGATGGAATTACTGACTTCAATATACTCCACTGC
131 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATATACTCCACTGC
* *
6190127 AACCTC-AGGGAGGTAAAATCTGTCATCTT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
196 AACCACGA-GGAGGTAAAATCTGCCATCTTCT-ATCTGCTCCACTACTGCTTAGGGAGATAAGAT
6190190 CTGTAA
259 CTGTAA
* ** * *
6190196 TCTTCAGTCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTACAA
1 TCTTCAATCTATTCCACTGCCGACCAGGGAGATAAAATTACTGGCTTCAATATACTCCACTACAA
* * *
6190261 CCTCAGTGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTAT
* * * *
6190326 AATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGT
131 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATATACTCCACTGC
6190391 AACCACGAGGAGGTAAAATCTGCCATCTTCTATCTGCT
196 AACCACGAGGAGGTAAAATCTGCCATCTTCTATCTGCT
6190429 TCGCTGTCTA
Statistics
Matches: 210, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
264 208 0.99
265 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (264 bp):
TCTTCAATCTATTCCACTGCCGACCAGGGAGATAAAATTACTGGCTTCAATATACTCCACTACAA
CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTAT
AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATATACTCCACTGC
AACCACGAGGAGGTAAAATCTGCCATCTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GTAA
Found at i:6190536 original size:44 final size:45
Alignment explanation
Indices: 6190449--6190810 Score: 290
Period size: 44 Copynumber: 8.2 Consensus size: 45
6190439 TGCAGGAATG
* * * * *
6190449 CAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAATACATGAAGA
1 CAAGATCTGCTT-TCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* *
6190493 CAAGATCTGCTTTC-TTAATCTACTTCGCCACCAGTATGGGAAGA
1 CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* * * * * *
6190537 CAAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGA
1 CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* ** *
6190581 CAAGATATGCTTT-TTCAATCTACTTCGCCACCAGTATGGGAAGA
1 CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* * * * * *
6190625 CAAGATATTG-TATCTTTGATCTACTTC-ACGCCAGTACATGAAGA
1 CAAGAT-CTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* * *
6190669 CAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGG
1 CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* * * * * *** * *
6190714 CAAGATCTGGTATCTCTAATCTATTTC-ATGCCAGTACATGAAGA
1 CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
* * * *
6190758 CAATATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATAGAAAGG
1 CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
6190803 CAAGATCT
1 CAAGATCT
6190811 AGTATTTCTG
Statistics
Matches: 238, Mismatches: 71, Indels: 17
0.73 0.22 0.05
Matches are distributed among these distances:
43 24 0.10
44 139 0.58
45 75 0.32
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGA
Found at i:6190751 original size:89 final size:89
Alignment explanation
Indices: 6190443--6190824 Score: 545
Period size: 88 Copynumber: 4.3 Consensus size: 89
6190433 TGTCTATGCA
* * *
6190443 GGAATGCAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
6190507 TTAATCTACTTCGCCACCAGTATG
66 TTAATCTACTTCGCCACCAGTATG
* *
6190531 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTT-T
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
*
6190595 TCAATCTACTTCGCCACCAGTATG
66 TTAATCTACTTCGCCACCAGTATG
* * *
6190619 GGAAGACAAGATATTGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
* *
6190684 TTGATCTGCTTCGCCACCAGTATG
66 TTAATCTACTTCGCCACCAGTATG
* * * * *
6190708 GGAAGGCAAGATCTGGTATCTCTAATCTATTTCATGCCAGTACATGAAGACAATATCTGCTTTCT
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
* * *
6190773 TTGATCTGCTTCGCCACCAGTATA
66 TTAATCTACTTCGCCACCAGTATG
* *
6190797 GAAAGGCAAGATCTAGTAT-TTCTGATCT
1 GGAAGGCAAGATCTGGTATCTT-TGATCT
6190825 GTTCTCTAGG
Statistics
Matches: 266, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
88 142 0.53
89 124 0.47
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (89 bp):
GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
TTAATCTACTTCGCCACCAGTATG
Found at i:6191954 original size:21 final size:20
Alignment explanation
Indices: 6191920--6191962 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
6191910 TTAGCCTCTC
*
6191920 CATTTTTACTTTTCATTCTT
1 CATTTTCACTTTTCATTCTT
*
6191940 CATTTTCATCTTTTCATTTTT
1 CATTTTCA-CTTTTCATTCTT
6191961 CA
1 CA
6191963 CATTACTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
CATTTTCACTTTTCATTCTT
Found at i:6196106 original size:29 final size:30
Alignment explanation
Indices: 6196047--6196104 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6196037 TCCGAGCCTT
*
6196047 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6196077 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6196105 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6196334 original size:13 final size:13
Alignment explanation
Indices: 6196316--6196347 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6196306 TTTCCAGCAA
6196316 TTATGAATTTATT
1 TTATGAATTTATT
6196329 TTATGAATTTATT
1 TTATGAATTTATT
*
6196342 TGATGA
1 TTATGA
6196348 TGATCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6196519 original size:50 final size:50
Alignment explanation
Indices: 6196444--6196732 Score: 479
Period size: 50 Copynumber: 5.8 Consensus size: 50
6196434 TGGGTAAAGA
6196444 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
6196494 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
6196544 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
*
6196594 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
* * * * * * *
6196644 GTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AG
* *
6196695 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6196733 TGTTATTATC
Statistics
Matches: 224, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
50 190 0.85
51 34 0.15
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
Found at i:6198788 original size:23 final size:23
Alignment explanation
Indices: 6198756--6198822 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
6198746 TACATGTACT
*
6198756 TATAAAATATAAATAAAAATAAG
1 TATAATATATAAATAAAAATAAG
* * *
6198779 TATAATATATTAATAAAGTATGAG
1 TATAATATATAAATAAA-AATAAG
* *
6198803 TATATATATGTATATAAAAA
1 TATA-ATATATAAATAAAAA
6198823 ATATGAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 15 0.44
24 9 0.26
25 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
TATAATATATAAATAAAAATAAG
Found at i:6198822 original size:48 final size:46
Alignment explanation
Indices: 6198770--6198860 Score: 110
Period size: 48 Copynumber: 1.9 Consensus size: 46
6198760 AAATATAAAT
* * *
6198770 AAAAATAAGTATAATATATTAATAAAGTATGAGTATATATATGTATATA
1 AAAAATAAG-AAAATAAAATAATAAAGTAT-A-TATATATATGTATATA
* *
6198819 AAAAATATGAAAATAAAATAATAATGTATATATATATATGTA
1 AAAAATAAGAAAATAAAATAATAAAGTATATATATATATGTA
6198861 AAATGCGCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 12 0.32
47 1 0.03
48 16 0.43
49 8 0.22
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (46 bp):
AAAAATAAGAAAATAAAATAATAAAGTATATATATATATGTATATA
Found at i:6198968 original size:18 final size:16
Alignment explanation
Indices: 6198919--6198974 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
6198909 AATGCGTGCA
6198919 AATGTATAA-AAATAAT
1 AATG-ATAATAAATAAT
*
6198935 AATGATGATAAA-AAT
1 AATGATAATAAATAAT
6198950 AATGAATAATACAATAAT
1 AATG-ATAATA-AATAAT
*
6198968 AAGGATA
1 AATGATA
6198975 CAACAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 10 0.30
16 12 0.36
17 5 0.15
18 6 0.18
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.27
Consensus pattern (16 bp):
AATGATAATAAATAAT
Found at i:6200175 original size:13 final size:13
Alignment explanation
Indices: 6200157--6200181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6200147 TTATTTACAT
6200157 AAAATAAATATTA
1 AAAATAAATATTA
6200170 AAAATAAATATT
1 AAAATAAATATT
6200182 TTTTATTTTG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATAAATATTA
Found at i:6205333 original size:58 final size:56
Alignment explanation
Indices: 6205262--6205460 Score: 303
Period size: 55 Copynumber: 3.6 Consensus size: 56
6205252 TCCAAAAAAT
* * *
6205262 GATTGCTTATATGTTTAAATCGATTGTTATGGTGGAATACTTCTTCTTCTTTTGAATC
1 GATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTT-GT-TTCTTTTGAATC
*
6205320 GATTGTTTATATGTTTAAATCGACTGTTATGTTGGAATAC-TGTTTCTTTTGAATC
1 GATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTTGTTTCTTTTGAATC
* * *
6205375 GATTGTTTATAAGTTTAAATCTATTGTTATATTGGAATA-TTGTTTCTTTTGAATC
1 GATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTTGTTTCTTTTGAATC
6205430 GATTGTTTATATGTTTAAATCGATTGTTATG
1 GATTGTTTATATGTTTAAATCGATTGTTATG
6205461 CAGTACGTCT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
55 90 0.70
56 1 0.01
57 1 0.01
58 37 0.29
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (56 bp):
GATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTTGTTTCTTTTGAATC
Found at i:6205436 original size:18 final size:18
Alignment explanation
Indices: 6205360--6205437 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
6205350 GTTGGAATAC
6205360 TGTTTCTTTTGAATCGAT
1 TGTTTCTTTTGAATCGAT
* * *
6205378 TGTTTATAAGTTTAAATCTAT
1 TGTTTCT---TTTGAATCGAT
* *
6205399 TGTTAT-ATTGGAAT--AT
1 TGTT-TCTTTTGAATCGAT
6205415 TGTTTCTTTTGAATCGAT
1 TGTTTCTTTTGAATCGAT
6205433 TGTTT
1 TGTTT
6205438 ATATGTTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
18 18 0.40
21 13 0.29
22 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.55
Consensus pattern (18 bp):
TGTTTCTTTTGAATCGAT
Found at i:6205452 original size:21 final size:20
Alignment explanation
Indices: 6205366--6205457 Score: 61
Period size: 21 Copynumber: 4.8 Consensus size: 20
6205356 ATACTGTTTC
*
6205366 TTTTGAATCGATTGTTTATAA
1 TTTTAAATCGATTGTTTAT-A
* *
6205387 GTTTAAATCTATTG-TTATA
1 TTTTAAATCGATTGTTTATA
** *
6205406 -TTGGAAT--ATTG-TT-TC
1 TTTTAAATCGATTGTTTATA
*
6205421 TTTTGAATCGATTGTTTATA
1 TTTTAAATCGATTGTTTATA
6205441 TGTTTAAATCGATTGTT
1 T-TTTAAATCGATTGTT
6205458 ATGCAGTACG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
15 1 0.02
16 12 0.21
18 9 0.16
19 3 0.05
20 6 0.11
21 25 0.45
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.53
Consensus pattern (20 bp):
TTTTAAATCGATTGTTTATA
Found at i:6207168 original size:107 final size:107
Alignment explanation
Indices: 6206941--6207157 Score: 393
Period size: 107 Copynumber: 2.0 Consensus size: 107
6206931 TGAATGGTTA
* *
6206941 TTTGTATGCTTACCCAATTCAAATATAATTCTTGTGATTTTTTCTCTATAAATAGAGACTATAGG
1 TTTGTATGCTTAACCAATTCAAATATAATTCTTGTGATTTTTCCTCTATAAATAGAGACTATAGG
6207006 TGTCGAATTAAATATATATATATATACATACTGAAGAGAAAC
66 TGTCGAATTAAATATATATATATATACATACTGAAGAGAAAC
6207048 TTTGTATGCTTAACCAATTCAAATATAATTCTTGTGATTTTTCCTCTATAAATAGAGACTATAGG
1 TTTGTATGCTTAACCAATTCAAATATAATTCTTGTGATTTTTCCTCTATAAATAGAGACTATAGG
*
6207113 TGTCGAATT-AA-ATATATATATATACATACTGAAGGGAAAC
66 TGTCGAATTAAATATATATATATATACATACTGAAGAGAAAC
6207153 TTTGT
1 TTTGT
6207158 TGAAATTTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
105 33 0.31
106 2 0.02
107 72 0.67
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (107 bp):
TTTGTATGCTTAACCAATTCAAATATAATTCTTGTGATTTTTCCTCTATAAATAGAGACTATAGG
TGTCGAATTAAATATATATATATATACATACTGAAGAGAAAC
Found at i:6219261 original size:16 final size:17
Alignment explanation
Indices: 6219240--6219277 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6219230 TTCTATAGGG
*
6219240 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
6219256 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
6219274 ATTT
1 ATTT
6219278 AAATAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:6220852 original size:17 final size:18
Alignment explanation
Indices: 6220826--6220864 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6220816 TTTACTGTGG
6220826 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
6220842 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
6220860 AAAAT
1 AAAAT
6220865 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:6221035 original size:15 final size:15
Alignment explanation
Indices: 6221015--6221045 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6221005 AAAACAATAT
*
6221015 AACTCTTGGCCTTTC
1 AACTCTTGACCTTTC
6221030 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6221045 A
1 A
6221046 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:6224417 original size:15 final size:15
Alignment explanation
Indices: 6224407--6224436 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6224397 TCCCTTCTTG
6224407 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
6224422 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
6224437 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:6225202 original size:17 final size:18
Alignment explanation
Indices: 6225177--6225216 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6225167 CCAAATTGTG
*
6225177 AAAAATGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
6225194 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
6225212 AAAAT
1 AAAAT
6225217 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:6225390 original size:15 final size:15
Alignment explanation
Indices: 6225367--6225397 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6225357 AAAATAATAT
*
6225367 AACTCTTGACCTTTC
1 AACTATTGACCTTTC
6225382 AACTATTGACCTTTC
1 AACTATTGACCTTTC
6225397 A
1 A
6225398 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTATTGACCTTTC
Found at i:6227822 original size:8 final size:8
Alignment explanation
Indices: 6227809--6227842 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
6227799 TATGAATTAA
6227809 ATATTATT
1 ATATTATT
6227817 ATATTATT
1 ATATTATT
* *
6227825 ATAATAAT
1 ATATTATT
6227833 ATATTATT
1 ATATTATT
6227841 AT
1 AT
6227843 TGTTAACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATATTATT
Found at i:6228339 original size:17 final size:18
Alignment explanation
Indices: 6228317--6228350 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6228307 CAAATGAGTT
6228317 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
6228334 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
6228351 AAATGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:6228669 original size:36 final size:35
Alignment explanation
Indices: 6228629--6228721 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
6228619 TATATGTGTG
* *
6228629 GAATTGAAATGAATAT-TGACTTGAAAATGAAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTGAAAATAAAAAAGT
*
6228665 GAATTTTGAATTGAATTGTGATTGAAAGTAAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATAAAAAAGT
*
6228702 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
6228722 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 18 0.37
37 16 0.33
38 15 0.31
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATAAAAAAGT
Found at i:6230557 original size:15 final size:16
Alignment explanation
Indices: 6230534--6230564 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6230524 TTGTAGTTTA
6230534 GTGATTTTTTTTATCC
1 GTGATTTTTTTTATCC
6230550 GTGA-TTTTTTTATCC
1 GTGATTTTTTTTATCC
6230565 TTTTTAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (16 bp):
GTGATTTTTTTTATCC
Found at i:6232953 original size:6 final size:6
Alignment explanation
Indices: 6232942--6232966 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6232932 AAACAAAAAG
6232942 TATTAA TATTAA TATTAA TATTAA T
1 TATTAA TATTAA TATTAA TATTAA T
6232967 TATAAAAGGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATTAA
Found at i:6238701 original size:31 final size:31
Alignment explanation
Indices: 6238627--6238703 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
6238617 TTTGTCCAAG
* *
6238627 TTAAGCCTTGAACTTGACAATTGTTCTCACA
1 TTAAGCCTTGAACTTAACAATTGTTCCCACA
* *
6238658 TTGAA-CCCTGAACTTAATAATTGTTCCCACA
1 TT-AAGCCTTGAACTTAACAATTGTTCCCACA
*
6238689 TTAAGGCTTGAACTT
1 TTAAGCCTTGAACTT
6238704 TAGGGTTGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 34 0.89
32 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (31 bp):
TTAAGCCTTGAACTTAACAATTGTTCCCACA
Found at i:6250882 original size:41 final size:41
Alignment explanation
Indices: 6250753--6250885 Score: 100
Period size: 37 Copynumber: 3.4 Consensus size: 41
6250743 AGTTTGGCAC
* * *
6250753 CCAGTGCCTCATCGAA-AAATTCGAAGCA-ATAATTTGACAC
1 CCAGTGCCTCATCGAATAAATCCGAAG-AGATAAATTGACAA
* * * *
6250793 CCAATGTCTCATCGATTAAA-CC-AA-AG-TAAATTGGC-A
1 CCAGTGCCTCATCGAATAAATCCGAAGAGATAAATTGACAA
* * *
6250829 CCTACTACCTCATCGAATAAATCCGAAGTGATAAATTGACAA
1 CC-AGTGCCTCATCGAATAAATCCGAAGAGATAAATTGACAA
*
6250871 CCAGTGTCTCATCGA
1 CCAGTGCCTCATCGA
6250886 CTCAAAGTTG
Statistics
Matches: 69, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
36 2 0.03
37 22 0.32
38 2 0.03
39 4 0.06
40 15 0.22
41 21 0.30
42 3 0.04
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (41 bp):
CCAGTGCCTCATCGAATAAATCCGAAGAGATAAATTGACAA
Found at i:6253358 original size:3 final size:3
Alignment explanation
Indices: 6253350--6253380 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6253340 GGATCTATCC
6253350 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
6253381 TTCGAAGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:6253760 original size:7 final size:7
Alignment explanation
Indices: 6253748--6253790 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
6253738 ATACGTACAT
6253748 ATATATA
1 ATATATA
6253755 ATATATA
1 ATATATA
6253762 ATATATA
1 ATATATA
6253769 ATATAT-
1 ATATATA
6253775 A-ATATA
1 ATATATA
6253781 ATATATA
1 ATATATA
6253788 ATA
1 ATA
6253791 ATGTTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 4 0.12
6 2 0.06
7 28 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:6253772 original size:12 final size:12
Alignment explanation
Indices: 6253746--6253790 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
6253736 GAATACGTAC
6253746 ATAT-ATATAAT
1 ATATAATATAAT
6253757 ATATAATATATAAT
1 ATAT-A-ATATAAT
6253771 ATATAATATAAT
1 ATATAATATAAT
6253783 ATATAATA
1 ATATAATA
6253791 ATGTTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.13
12 15 0.48
13 1 0.03
14 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATAATATAAT
Done.