Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 31 of 150
Found at i:8125842 original size:23 final size:23
Alignment explanation
Indices: 8125805--8125850 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8125795 AGGTTGTAGT
* *
8125805 TGTAATATCCTGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
8125828 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
8125851 AATAAGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:8133207 original size:39 final size:39
Alignment explanation
Indices: 8133153--8133349 Score: 295
Period size: 39 Copynumber: 5.1 Consensus size: 39
8133143 GTTTTCAATA
* * * *
8133153 CACCGGCATACAGCCTGTTAGGCACATACCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
8133192 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATGAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
8133231 CACCGGCACAAAGCCTGGTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
* * *
8133270 TACCAGCACAAAGCCTGCTAGGCACATAGCCTGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
* *
8133309 CACCGGCATAAAGCCTGCTAGGCACATAGCCTGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
8133348 CA
1 CA
8133350 TCGGATTTCT
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.33, C:0.31, G:0.20, T:0.16
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:8134666 original size:39 final size:39
Alignment explanation
Indices: 8134585--8134788 Score: 284
Period size: 39 Copynumber: 5.2 Consensus size: 39
8134575 TGTAAGTTTT
* * ** * *
8134585 TAATACACCGGCACACAGCCTGCTAGGCGTATGGCCCAAA
1 TAAT-CACCAGCACAAAGCCTGCTAGGCACATAGCCCGAA
*
8134625 TAATCACCAGAACAAAGCCTGCTAGGCACATAGCCCGAA
1 TAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAA
* **
8134664 TAATCACCAGCACAAAGCCTGCTAAGCACATAGATCGAA
1 TAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAA
*
8134703 TAATCACCGGCACAAAGCCTGCTAGGCACATAGCCCGAA
1 TAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAA
8134742 TAATCACC-GCCACAAAGCCTGCTAGGCACATAGCCCGAA
1 TAATCACCAG-CACAAAGCCTGCTAGGCACATAGCCCGAA
8134781 TAATCACC
1 TAATCACC
8134789 GGATTTCTAT
Statistics
Matches: 148, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 143 0.97
40 4 0.03
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.14
Consensus pattern (39 bp):
TAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAA
Found at i:8138687 original size:4 final size:4
Alignment explanation
Indices: 8138680--8138719 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
8138670 CAAAATAAAT
*
8138680 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ACTAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A-TTA ATTA ATT
8138720 TCTCAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:8158541 original size:25 final size:25
Alignment explanation
Indices: 8158493--8158542 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8158483 TTTCGAGCTA
*
8158493 TATAACGGGAAGCTCATGTAAGCCG
1 TATAACGGGAAGCTCATGAAAGCCG
*
8158518 TATATCGGGAAGCTCAT-AAGAGCCG
1 TATAACGGGAAGCTCATGAA-AGCCG
8158543 CAATTAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
TATAACGGGAAGCTCATGAAAGCCG
Found at i:8158587 original size:25 final size:25
Alignment explanation
Indices: 8158498--8158715 Score: 65
Period size: 25 Copynumber: 8.7 Consensus size: 25
8158488 AGCTATATAA
*
8158498 CGGGAAGCTCATGTA-AGCC-GTATAT
1 CGGGAAGCTCATG-AGAGCCATTA-AT
* **
8158523 CGGGAAGCTCATAAGAGCC-GCAAT
1 CGGGAAGCTCATGAGAGCCATTAAT
** *
8158547 TAGGTAGCTC-TAGAGAGCCATTAAT
1 CGGGAAGCTCAT-GAGAGCCATTAAT
*
8158572 CGGGAAGCTCATGAGAGAGCCTTTAAT
1 CGGGAAGCTCAT--GAGAGCCATTAAT
** * * **
8158599 CAAGAAGCTCGTAAGAGCCATATGTT
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* * * * *
8158625 AGGG-TGCTCATAAGAGCTAAATAA-
1 CGGGAAGCTCATGAGAGC-CATTAAT
* *
8158649 CGGGAAGCTCGTGAGAGCCA-AATAT
1 CGGGAAGCTCATGAGAGCCATTA-AT
* * * *
8158674 CAGGAAGCTCAAGAGAGACAAT-AT
1 CGGGAAGCTCATGAGAGCCATTAAT
* *
8158698 TGGGATGCTCATGAGAGC
1 CGGGAAGCTCATGAGAGC
8158716 GAATAATGGG
Statistics
Matches: 138, Mismatches: 44, Indels: 23
0.67 0.21 0.11
Matches are distributed among these distances:
23 2 0.01
24 36 0.26
25 73 0.53
26 5 0.04
27 22 0.16
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATTAAT
Found at i:8158615 original size:27 final size:27
Alignment explanation
Indices: 8158558--8158615 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
8158548 AGGTAGCTCT
** *
8158558 AGAGAGCCATTAATCGGGAAGCTCATG
1 AGAGAGCCATTAATCAAGAAGCTCATA
* *
8158585 AGAGAGCCTTTAATCAAGAAGCTCGTA
1 AGAGAGCCATTAATCAAGAAGCTCATA
8158612 AGAG
1 AGAG
8158616 CCATATGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (27 bp):
AGAGAGCCATTAATCAAGAAGCTCATA
Found at i:8158720 original size:24 final size:24
Alignment explanation
Indices: 8158680--8158726 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8158670 ATATCAGGAA
*
8158680 GCTCAAGAGAGACAATATTGGGAT
1 GCTCAAGAGAGACAATAATGGGAT
*
8158704 GCTCATGAGAG-CGAATAATGGGA
1 GCTCAAGAGAGAC-AATAATGGGA
8158727 CACTCTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (24 bp):
GCTCAAGAGAGACAATAATGGGAT
Found at i:8170025 original size:18 final size:19
Alignment explanation
Indices: 8169993--8170028 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8169983 ATTGAATATA
8169993 TTTTTAATATATTTTTTAG
1 TTTTTAATATATTTTTTAG
*
8170012 TTTTTATTAT-TTTTTTA
1 TTTTTAATATATTTTTTA
8170029 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTAATATATTTTTTAG
Found at i:8173786 original size:26 final size:26
Alignment explanation
Indices: 8173751--8173837 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
8173741 TTTTACTCAA
* *
8173751 ATAAATTTTTGACAATTTTACCCCCG
1 ATAAAATTTTGACAATTTTACCCCTG
**
8173777 ATAAAATTTTGACAATTTTACCATTG
1 ATAAAATTTTGACAATTTTACCCCTG
*
8173803 GTAAAATTTTGACAATTTTACCCCTG
1 ATAAAATTTTGACAATTTTACCCCTG
8173829 ATAAAATTT
1 ATAAAATTT
8173838 ATTTTCATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (26 bp):
ATAAAATTTTGACAATTTTACCCCTG
Found at i:8178384 original size:25 final size:25
Alignment explanation
Indices: 8178337--8178402 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
8178327 CCTGTAAATG
**
8178337 TATGCTCATACAAGCTATGAATCTA
1 TATGCTCATACAAGCTACAAATCTA
**
8178362 TATGCTC-TCACAAGCTACAAATCGG
1 TATGCTCAT-ACAAGCTACAAATCTA
* *
8178387 TAAGCTCATACGAGCT
1 TATGCTCATACAAGCT
8178403 GTGATGTGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (25 bp):
TATGCTCATACAAGCTACAAATCTA
Found at i:8180315 original size:3 final size:3
Alignment explanation
Indices: 8180307--8180393 Score: 156
Period size: 3 Copynumber: 29.0 Consensus size: 3
8180297 TACTGTATTA
*
8180307 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
8180355 AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
8180394 CCGGTAGTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8182172 original size:6 final size:6
Alignment explanation
Indices: 8182161--8182208 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
8182151 GGAAAATTTT
* * *
8182161 CCTTTC CCTTTC CCTTCC CCTTCC CCTTCC CTTTCC CCTTCC CCTTCC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC
8182209 TCTATCCTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
CCTTCC
Found at i:8184979 original size:34 final size:35
Alignment explanation
Indices: 8184921--8184987 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
8184911 CAAACACCAA
8184921 AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
*
8184956 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
8184988 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
Found at i:8185526 original size:16 final size:15
Alignment explanation
Indices: 8185505--8185550 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
8185495 TAAAAATATT
8185505 TAAAATATATAAATTA
1 TAAAATATATAAA-TA
*
8185521 TAAAATATATATAATG
1 TAAAATATATA-AATA
8185537 TAAAATATTATAAA
1 TAAAATA-TATAAA
8185551 AAGGCAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TAAAATATATAAATA
Found at i:8188674 original size:19 final size:18
Alignment explanation
Indices: 8188650--8188713 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
8188640 AAAAATAAAA
*
8188650 ATAAAAATCAATAAAAGTT
1 ATAAAAAT-AATAAAAATT
**
8188669 ATAAAAATAATTAAATTTT
1 ATAAAAATAA-TAAAAATT
*
8188688 AATAAAAATATTAAAAATT
1 -ATAAAAATAATAAAAATT
8188707 ATAAAAA
1 ATAAAAA
8188714 AATTATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.24
19 20 0.53
20 9 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAAAAATAATAAAAATT
Found at i:8188714 original size:19 final size:19
Alignment explanation
Indices: 8188661--8188723 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
8188651 TAAAAATCAA
*
8188661 TAAAAGTTAT-AAAAATAAT
1 TAAAAATTATAAAAAAT-AT
**
8188680 TAAATTTTA-ATAAAAATAT
1 TAAAAATTATA-AAAAATAT
8188699 TAAAAATTATAAAAAA-AT
1 TAAAAATTATAAAAAATAT
8188717 TATAAAA
1 TA-AAAA
8188724 ATCGTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.11
19 25 0.69
20 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAAAATAT
Found at i:8188714 original size:20 final size:20
Alignment explanation
Indices: 8188661--8188725 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
8188651 TAAAAATCAA
* *
8188661 TAAAAGTTATAAAAATA-AT
1 TAAAAATTATAAAAAAATAT
*
8188680 T--AAATTTTAATAAAAATAT
1 TAAAAATTATAA-AAAAATAT
8188699 TAAAAATTATAAAAAAAT-T
1 TAAAAATTATAAAAAAATAT
8188718 ATAAAAAT
1 -TAAAAAT
8188726 CGTAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.19
18 4 0.11
19 5 0.14
20 13 0.35
21 8 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATAT
Found at i:8188716 original size:11 final size:11
Alignment explanation
Indices: 8188700--8188724 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8188690 TAAAAATATT
8188700 AAAAATTATAA
1 AAAAATTATAA
8188711 AAAAATTATAA
1 AAAAATTATAA
8188722 AAA
1 AAA
8188725 TCGTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:8189072 original size:10 final size:10
Alignment explanation
Indices: 8189029--8189161 Score: 55
Period size: 10 Copynumber: 13.7 Consensus size: 10
8189019 TTTTTGATGG
* *
8189029 ATTTTACAAT
1 ATTTTATAAA
8189039 ATTTTATAAA
1 ATTTTATAAA
* *
8189049 ATTTTACAAT
1 ATTTTATAAA
8189059 ATTTTATAAA
1 ATTTTATAAA
**
8189069 ATTTT-TCTA
1 ATTTTATAAA
*
8189078 TTTTTAT-AA
1 ATTTTATAAA
*
8189087 TTTTTA-ATAA
1 ATTTTATA-AA
*
8189097 ATTTT-TATA
1 ATTTTATAAA
*
8189106 ATTTT-TAATT
1 ATTTTATAA-A
*
8189116 TTTTTATTAAA
1 ATTTTA-TAAA
*
8189127 ATTTAAT-AA
1 ATTTTATAAA
*
8189136 TTTTTAT-AA
1 ATTTTATAAA
*
8189145 ATTTTATTAA
1 ATTTTATAAA
*
8189155 TTTTTAT
1 ATTTTAT
8189162 TTTTAAAATT
Statistics
Matches: 93, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
9 36 0.39
10 50 0.54
11 4 0.04
12 3 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTATAAA
Found at i:8189084 original size:19 final size:20
Alignment explanation
Indices: 8189029--8189086 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
8189019 TTTTTGATGG
8189029 ATTTTACAATATTTTATAAA
1 ATTTTACAATATTTTATAAA
8189049 ATTTTACAATATTTTATAAA
1 ATTTTACAATATTTTATAAA
* *
8189069 ATTTTTCTAT-TTTTATAA
1 ATTTTACAATATTTTATAA
8189087 TTTTTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 8 0.22
20 28 0.78
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTACAATATTTTATAAA
Found at i:8189096 original size:29 final size:27
Alignment explanation
Indices: 8189077--8189174 Score: 64
Period size: 29 Copynumber: 3.6 Consensus size: 27
8189067 AAATTTTTCT
8189077 ATTTTTAT-AATTTTTAATAAATTTTTATA
1 ATTTTTATAAATTTTT-AT-AA-TTTTATA
** *
8189106 ATTTTTA-ATTTTTTTATTAAAATTTAATA
1 ATTTTTATAAATTTTTA-T--AATTTTATA
8189135 ATTTTTATAAA-TTTTATTAATTTT-T-
1 ATTTTTATAAATTTTTA-TAATTTTATA
8189160 ATTTTTA-AAATTTTT
1 ATTTTTATAAATTTTT
8189175 GCCACATGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.05
25 11 0.19
26 1 0.02
27 5 0.09
28 1 0.02
29 33 0.57
30 4 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTTATAAATTTTTATAATTTTATA
Found at i:8189101 original size:19 final size:19
Alignment explanation
Indices: 8189040--8189161 Score: 106
Period size: 20 Copynumber: 6.3 Consensus size: 19
8189030 TTTTACAATA
*
8189040 TTTTATAAAATTTT-ACAAT
1 TTTTAT-AAATTTTAATAAT
**
8189059 ATTTTATAAAATTTTTCT-AT
1 -TTTTAT-AAATTTTAATAAT
*
8189079 TTTTATAATTTTTAATAAAT
1 TTTTATAAATTTTAAT-AAT
* *
8189099 TTTTATAATTTTTAAT-TT
1 TTTTATAAATTTTAATAAT
*
8189117 TTTTATTAAAATTTAATAAT
1 TTTTA-TAAATTTTAATAAT
*
8189137 TTTTATAAATTTTATTAAT
1 TTTTATAAATTTTAATAAT
8189156 TTTTAT
1 TTTTAT
8189162 TTTTAAAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
18 13 0.15
19 33 0.38
20 40 0.47
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTTAATAAT
Found at i:8189162 original size:10 final size:10
Alignment explanation
Indices: 8189077--8189162 Score: 74
Period size: 9 Copynumber: 8.9 Consensus size: 10
8189067 AAATTTTTCT
8189077 ATTTTTA-TA
1 ATTTTTATTA
*
8189086 ATTTTTAATAA
1 ATTTTT-ATTA
8189097 ATTTTTA-TA
1 ATTTTTATTA
8189106 ATTTTTAATT-
1 ATTTTT-ATTA
8189116 -TTTTTATTA
1 ATTTTTATTA
** *
8189125 AAATTTAATA
1 ATTTTTATTA
8189135 ATTTTTA-TA
1 ATTTTTATTA
*
8189144 AATTTTATTA
1 ATTTTTATTA
8189154 ATTTTTATT
1 ATTTTTATT
8189163 TTTAAAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.05
9 26 0.43
10 24 0.39
11 8 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:8189162 original size:39 final size:37
Alignment explanation
Indices: 8189040--8189161 Score: 122
Period size: 39 Copynumber: 3.2 Consensus size: 37
8189030 TTTTACAATA
* *
8189040 TTTTATAAAATTTTACAATATTTTATAAAATTTT-TCTAT
1 TTTTATAAAATTTAATAAT-TTTTAT-AAATTTTAT-TAT
** *
8189079 TTTTATAATTTTTAATAAATTTTTATAATTTTTAATT-T
1 TTTTATAAAATTTAAT-AATTTTTATAAATTTT-ATTAT
8189117 TTTTATTAAAATTTAATAATTTTTATAAATTTTATTAAT
1 TTTTA-TAAAATTTAATAATTTTTATAAATTTTATT-AT
8189156 TTTTAT
1 TTTTAT
8189162 TTTTAAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
37 3 0.04
38 28 0.41
39 34 0.49
40 4 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (37 bp):
TTTTATAAAATTTAATAATTTTTATAAATTTTATTAT
Found at i:8189458 original size:88 final size:88
Alignment explanation
Indices: 8189279--8189458 Score: 204
Period size: 88 Copynumber: 2.0 Consensus size: 88
8189269 TAAAGAACCG
* * * * *
8189279 TTTTGATGCATTTTACAGTTCAAGTACCTAATTGAGTGAAAAAAATCAGGGACTTAATTGATTTT
1 TTTTAATGCATTTGAAAGTTCAAATACCTAATTGAGTGAAAAAAAACAGGGACTTAATTGATTTT
* *
8189344 CTTTAAAAAAGTTTGAGGGTTTT
66 CTTTAAAAAAGTTTGAAGGTTCT
* * * *
8189367 TTTTAATGCATTTGAAAGTTCAAATACCTAATTGCGTGCAAAAAAAAACAATGGTC-TAATTGCT
1 TTTTAATGCATTTGAAAGTTCAAATACCTAATTGAGTG--AAAAAAAAC-AGGGACTTAATTGAT
*
8189431 TTT-TTTGAAAAAGTTTGAAGG-TCT
63 TTTCTTTAAAAAAGTTTGAAGGTTCT
8189455 TTTT
1 TTTT
8189459 GATATATTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
88 39 0.51
89 16 0.21
90 18 0.23
91 4 0.05
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (88 bp):
TTTTAATGCATTTGAAAGTTCAAATACCTAATTGAGTGAAAAAAAACAGGGACTTAATTGATTTT
CTTTAAAAAAGTTTGAAGGTTCT
Found at i:8189474 original size:89 final size:87
Alignment explanation
Indices: 8189295--8189530 Score: 192
Period size: 89 Copynumber: 2.7 Consensus size: 87
8189285 TGCATTTTAC
* *
8189295 AGTTCAAGTACCTAATTGAGTGAAAAAAATCAGGGACTTAATTGATTTTCTTTAAAAAAGTTTGA
1 AGTTCAAATACCTAATTGAGTGAAAAAAAACAGGGACTTAATTGATTTTCTTTAAAAAAGTTTGA
* * * *
8189360 GGGTTTTTTTTAATGCATTTGAA
66 AGGTCTTTTTGAAT-CATTTAAA
* * * * *
8189383 AGTTCAAATACCTAATTGCGTGCAAAAAAAAACAATGGTC-TAATTGCTTTT-TTTGAAAAAGTT
1 AGTTCAAATACCTAATTGAGTG--AAAAAAAAC-AGGGACTTAATTGATTTTCTTTAAAAAAGTT
8189446 TGAAGGTCTTTTTGATAT-ATTTTAAA
63 TGAAGGTCTTTTTGA-ATCA-TTTAAA
* * * * * * * * *
8189472 AGTTTAAGTATCTTATTAAGTGAAAAAAGAAGTAGGGGCTTAGTTGCTTTT-TTTAAAAA
1 AGTTCAAATACCTAATTGAGTGAAAAAA-AA-CAGGGACTTAATTGATTTTCTTTAAAAA
8189531 CAAATTAAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
87 6 0.05
88 27 0.23
89 61 0.52
90 20 0.17
91 4 0.03
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (87 bp):
AGTTCAAATACCTAATTGAGTGAAAAAAAACAGGGACTTAATTGATTTTCTTTAAAAAAGTTTGA
AGGTCTTTTTGAATCATTTAAA
Found at i:8190887 original size:42 final size:42
Alignment explanation
Indices: 8190834--8191054 Score: 298
Period size: 42 Copynumber: 5.2 Consensus size: 42
8190824 CACAAAAAAC
* *
8190834 GCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCACAATT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCACAAAT
* *
8190876 GCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTTCCAAAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCACAAAT
* ** * *
8190918 GCCGCTAAAGACCAAAACCTTTAGTAGCACTTTTCCACAATT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCACAAAT
*
8190960 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCACAAAT
* * * *
8191003 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CACAAAT
8191046 GCCGCTAAA
1 GCCGCTAAA
8191055 AACATAACCT
Statistics
Matches: 157, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 104 0.66
43 53 0.34
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (42 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCACAAAT
Found at i:8190927 original size:84 final size:85
Alignment explanation
Indices: 8190828--8191037 Score: 332
Period size: 84 Copynumber: 2.5 Consensus size: 85
8190818 AAGCGCCACA
*
8190828 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCACAATTGCCGCTAAAGACTAAGA
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCACAATTGCCGCTAAAGACCAAGA
8190893 CCTTTAGCGGCGC-TTTTCC
66 CCTTTAGCGGCGCTTTTTCC
* * **
8190912 AAAAATGCCGCTAAAGACCAAAACCTTTAGTAGCACTTTTCCACAATTGCCGCTAAAGACCAAGA
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCACAATTGCCGCTAAAGACCAAGA
8190977 CCTTTAGCGGCGCTTTTTCC
66 CCTTTAGCGGCGCTTTTTCC
* * * *
8190997 ACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTC
8191038 TCAAAAACGC
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 73 0.65
85 39 0.35
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCACAATTGCCGCTAAAGACCAAGA
CCTTTAGCGGCGCTTTTTCC
Found at i:8196790 original size:19 final size:19
Alignment explanation
Indices: 8196766--8196803 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8196756 TATAAATTTC
*
8196766 ATTTTTTTATTTCATTTTT
1 ATTTTTGTATTTCATTTTT
*
8196785 ATTTTTGTATTTTATTTTT
1 ATTTTTGTATTTCATTTTT
8196804 TCTTATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (19 bp):
ATTTTTGTATTTCATTTTT
Found at i:8197168 original size:22 final size:22
Alignment explanation
Indices: 8197142--8197192 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
8197132 ACCTTTGAAA
* *
8197142 CCCTAAATCCCTAGCTCTTAAC
1 CCCTAAATCCCTAACTCCTAAC
*
8197164 CCCTAACTCCCTAACTCCTAAC
1 CCCTAAATCCCTAACTCCTAAC
8197186 CCCTAAA
1 CCCTAAA
8197193 CCTTAAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.45, G:0.02, T:0.24
Consensus pattern (22 bp):
CCCTAAATCCCTAACTCCTAAC
Found at i:8197213 original size:21 final size:20
Alignment explanation
Indices: 8197183--8197223 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8197173 CCTAACTCCT
*
8197183 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
8197204 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
8197224 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:8197435 original size:25 final size:25
Alignment explanation
Indices: 8197389--8197436 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8197379 TATATGAAAT
* **
8197389 TATTTAATATATAAATTTAAAAACA
1 TATTTAAAATATAAATAAAAAAACA
8197414 TATTTAAAATATAAATAAAAAAA
1 TATTTAAAATATAAATAAAAAAA
8197437 TTAATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATAAAAAAACA
Found at i:8197514 original size:21 final size:22
Alignment explanation
Indices: 8197483--8197525 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8197473 ATCCTAAACT
*
8197483 CTAAATCCTTAACTATTAACCC
1 CTAAATCCTTAAATATTAACCC
*
8197505 CTAAA-CCTTAAATCTTAACCC
1 CTAAATCCTTAAATATTAACCC
8197526 AACCCTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (22 bp):
CTAAATCCTTAAATATTAACCC
Found at i:8197562 original size:33 final size:33
Alignment explanation
Indices: 8197520--8197583 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
8197510 CCTTAAATCT
* *
8197520 TAACCCAACCCTGAATCTC-TAATCCCTAAACCC
1 TAACCCAACCCAGAATC-CATAACCCCTAAACCC
8197553 TAACCCAACCCAGAATCCATAACCCCTAAAC
1 TAACCCAACCCAGAATCCATAACCCCTAAAC
8197584 ATTATTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.38, C:0.42, G:0.03, T:0.17
Consensus pattern (33 bp):
TAACCCAACCCAGAATCCATAACCCCTAAACCC
Found at i:8197704 original size:14 final size:14
Alignment explanation
Indices: 8197681--8197713 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8197671 TAACTGATCT
*
8197681 TAACCTCTAGCCCC
1 TAACCCCTAGCCCC
8197695 TAACCCCTAGCCCC
1 TAACCCCTAGCCCC
8197709 TAACC
1 TAACC
8197714 TATAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.52, G:0.06, T:0.18
Consensus pattern (14 bp):
TAACCCCTAGCCCC
Found at i:8198525 original size:41 final size:41
Alignment explanation
Indices: 8198474--8198738 Score: 377
Period size: 41 Copynumber: 6.5 Consensus size: 41
8198464 GTTTTTTTTA
*
8198474 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTT
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
* ** *
8198515 AAAAATGCCGCTAAAGATCTGAGCATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
* **
8198556 AAAAACGCCGCTAAAGGCTAGAGCATTAGCAACGCTTCTTC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
* * * *
8198597 AAAAACGCCGCTAAATGCCCGAACACTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
* *
8198638 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
* *
8198679 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGTGCTTATTC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
*
8198720 AAAAACGCCACTAAAGGCC
1 AAAAACGCCGCTAAAGGCC
8198739 CCAAAAACTC
Statistics
Matches: 198, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 198 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTC
Found at i:8198842 original size:39 final size:40
Alignment explanation
Indices: 8198799--8198909 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
8198789 TTCAGAAAAT
* *
8198799 GCCGCTAATGCT-TATTTTTAGCGGTGTTTTTGGAGAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTGGAAAAGC
* ** *
8198838 GCCGCTAATACTCTACCTTTAGCGGCGTTTTTGTAAAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTGGAAAAGC
* *
8198878 GCCGCTAATGCTCGATTTTTAGTGGCGTTTTT
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTT
8198910 TTGTCCAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 11 0.18
40 49 0.82
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (40 bp):
GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTGGAAAAGC
Found at i:8200336 original size:2 final size:2
Alignment explanation
Indices: 8200331--8200372 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
8200321 CTTTTCTTTT
* *
8200331 TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG T- TG GG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8200372 T
1 T
8200373 TGGGTGGGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8204278 original size:24 final size:24
Alignment explanation
Indices: 8204228--8204281 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
8204218 TATTCTGTTA
* *
8204228 GCCTTTGTGGCGTATTCTAATTTG
1 GCCTTTATGGCGTATTCTAATTGG
8204252 GCCTTTATGGCGTATTCTAGA-TGG
1 GCCTTTATGGCGTATTCTA-ATTGG
8204276 GCCTTT
1 GCCTTT
8204282 GTAGCATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.43
Consensus pattern (24 bp):
GCCTTTATGGCGTATTCTAATTGG
Found at i:8210934 original size:17 final size:17
Alignment explanation
Indices: 8210912--8210956 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
8210902 CTTTATGAAC
8210912 TATTTTATTTATTTATT
1 TATTTTATTTATTTATT
*
8210929 TATTTTATTTATTTCTT
1 TATTTTATTTATTTATT
8210946 TACTTTT-TTTA
1 TA-TTTTATTTA
8210957 ATACTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTATTTATTTATT
Found at i:8211177 original size:24 final size:24
Alignment explanation
Indices: 8211149--8211198 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8211139 ACTAGCATAG
* *
8211149 TATTT-TTTATTTTATCTTTTATTT
1 TATTTATTTA-TTTATCTATCATTT
8211173 TATTTATTTATTTATCTATCATTT
1 TATTTATTTATTTATCTATCATTT
8211197 TA
1 TA
8211199 ATATCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTATTTATTTATCTATCATTT
Found at i:8213055 original size:14 final size:14
Alignment explanation
Indices: 8213036--8213062 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8213026 TTCCAGCAAC
8213036 TATGAATTTATTTT
1 TATGAATTTATTTT
8213050 TATGAATTTATTT
1 TATGAATTTATTT
8213063 GATGATGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TATGAATTTATTTT
Found at i:8213237 original size:50 final size:50
Alignment explanation
Indices: 8213162--8213404 Score: 387
Period size: 50 Copynumber: 4.8 Consensus size: 50
8213152 ATTTGGGTAA
8213162 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
8213212 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
8213262 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
8213312 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
8213362 AGAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
8213405 TGTTATTATC
Statistics
Matches: 177, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 144 0.81
51 33 0.19
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:8217006 original size:30 final size:30
Alignment explanation
Indices: 8216968--8217035 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
8216958 CTCTATGATT
*
8216968 GAGTTGAAAGCAAGACTAACTAAGATTGAT
1 GAGTTGAAAGCAAGACTAACTAAGATTGAA
* *
8216998 GATTTGAAAGCAAGGCTAACTAAGATTGAA
1 GAGTTGAAAGCAAGACTAACTAAGATTGAA
8217028 GAGTTGAA
1 GAGTTGAA
8217036 GAGAAAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.24
Consensus pattern (30 bp):
GAGTTGAAAGCAAGACTAACTAAGATTGAA
Found at i:8219649 original size:41 final size:41
Alignment explanation
Indices: 8219592--8219674 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
8219582 GGGCCAGGAT
* *
8219592 ATTAGTTTCTTCAAGTGCAGTGGGAGGTGCTATGACCTGGC
1 ATTAGTTTCTTCAAGTGCAGTGGGAAGTGCTATAACCTGGC
8219633 ATTAGTTTCTTCAAGTGCAGTGGGAAGTGCTATAACCTGGC
1 ATTAGTTTCTTCAAGTGCAGTGGGAAGTGCTATAACCTGGC
8219674 A
1 A
8219675 AATGCAAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (41 bp):
ATTAGTTTCTTCAAGTGCAGTGGGAAGTGCTATAACCTGGC
Found at i:8224071 original size:225 final size:225
Alignment explanation
Indices: 8223634--8224084 Score: 753
Period size: 225 Copynumber: 2.0 Consensus size: 225
8223624 GATGTGTAGA
* * * *
8223634 TGTAAACTGAAAAATATATAAGATTTTTCCTATATAATTCATTACCTTTTTACTTAAATTTGTTG
1 TGTAAACGGAAAAATATATAAGATTTTTCCTATATAATTAATCACCTTTTTACTTAAAATTGTTG
8223699 TTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGGAAAAAATATGAAATTAGGACATAGA
66 TTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGG-AAAAATATGAAATTAGGACATAGA
*
8223764 AATTATTAAAATGTGATTTTATACCTTATTATATAGTCTTCATGCATAAAATGGCATATTTTATA
130 AATTATTAAAATGTGATTTTATACCTTATTATATAGTCTTCATGCATAAAATGGCATATTTAATA
*
8223829 TTAATTTGAGCATATTATATTTTTAAGCTAT
195 TTAATTTAAGCATATTATATTTTTAAGCTAT
*
8223860 TGTAAACGGAAAAATATA-AAGGATTTTTCTTATATAATTAATCACCTTTTTACTTAAAATTGTT
1 TGTAAACGGAAAAATATATAA-GATTTTTCCTATATAATTAATCACCTTTTTACTTAAAATTGTT
8223924 GTTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGTG-AAAATATGAAATTAGGACATAG
65 GTTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATG-GAAAAATATGAAATTAGGACATAG
*** * *
8223988 AAATTATTAAAATGTGATTTTATGTTTTATTATATAGTTTTCATGCATAAAATGGCTTATTTAAT
129 AAATTATTAAAATGTGATTTTATACCTTATTATATAGTCTTCATGCATAAAATGGCATATTTAAT
8224053 ATTAATTTAAGCATATTATATTTTTAAGCTAT
194 ATTAATTTAAGCATATTATATTTTTAAGCTAT
8224085 GAAGTGGGCC
Statistics
Matches: 211, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
225 114 0.54
226 96 0.45
227 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (225 bp):
TGTAAACGGAAAAATATATAAGATTTTTCCTATATAATTAATCACCTTTTTACTTAAAATTGTTG
TTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGGAAAAATATGAAATTAGGACATAGAA
ATTATTAAAATGTGATTTTATACCTTATTATATAGTCTTCATGCATAAAATGGCATATTTAATAT
TAATTTAAGCATATTATATTTTTAAGCTAT
Found at i:8224637 original size:7 final size:7
Alignment explanation
Indices: 8224621--8224678 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
8224611 ACTTTTTCAA
*
8224621 TCATCCC
1 TCATCTC
*
8224628 TCATCAC
1 TCATCTC
8224635 TCATCCCTC
1 TCAT--CTC
8224644 TCATCTC
1 TCATCTC
8224651 TCATCTC
1 TCATCTC
8224658 TCATC-C
1 TCATCTC
8224664 TC-TCTC
1 TCATCTC
*
8224670 TCAACTC
1 TCATCTC
8224677 TC
1 TC
8224679 TTAGCTCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.05
6 6 0.14
7 30 0.68
9 6 0.14
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.36
Consensus pattern (7 bp):
TCATCTC
Found at i:8224653 original size:23 final size:24
Alignment explanation
Indices: 8224621--8224669 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
8224611 ACTTTTTCAA
8224621 TCATCCCTCATCACTCATCC-CTC
1 TCATCCCTCATCACTCATCCTCTC
* *
8224644 TCATCTCTCATCTCTCATCCTCTC
1 TCATCCCTCATCACTCATCCTCTC
8224668 TC
1 TC
8224670 TCAACTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.14, C:0.49, G:0.00, T:0.37
Consensus pattern (24 bp):
TCATCCCTCATCACTCATCCTCTC
Found at i:8237110 original size:19 final size:19
Alignment explanation
Indices: 8237088--8237125 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8237078 TGAATTATCC
8237088 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
8237107 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
8237126 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:8244158 original size:34 final size:35
Alignment explanation
Indices: 8244109--8244178 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
8244099 CTATAATTTT
*
8244109 GAGGCCTTTTTCATTGTAATAAACATACATTATAA
1 GAGGCCTTGTTCATTGTAATAAACATACATTATAA
*
8244144 GAGGCC-TGTTCATTGTAATAAACCTACATTATAA
1 GAGGCCTTGTTCATTGTAATAAACATACATTATAA
8244178 G
1 G
8244179 CCAGTACCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (35 bp):
GAGGCCTTGTTCATTGTAATAAACATACATTATAA
Found at i:8245677 original size:19 final size:19
Alignment explanation
Indices: 8245655--8245692 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8245645 TGAATCATCC
8245655 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
8245674 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
8245693 ACCCTTTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:8248767 original size:94 final size:95
Alignment explanation
Indices: 8248602--8248907 Score: 281
Period size: 94 Copynumber: 3.3 Consensus size: 95
8248592 CAGTGAAACA
* * * * *
8248602 AATC-CTATACCCTTGAAGTTGTAATGGGTTGGATTGAACTTACCATAGCGAATCTTATCTCTCT
1 AATCTCTATACCCCTGAAGTTGCAGTGGGTTGAATTGAACTTACCATAGCAAATCTTATCTCTCT
* *
8248666 GAAGTTGCAGTGGATC-TGATTGAAGCTAC-
66 GAAGTTGCAGTGGAACAAGA-TGAAGCTACT
*
8248695 AATTTCTATACCCCTGAAGTTGCAGTGGGTCT-AATTGAA-TCTACCATAGCAAATCTTATCTC-
1 AATCTCTATACCCCTGAAGTTGCAGTGGGT-TGAATTGAACT-TACCATAGCAAATCTTATCTCT
8248757 CTTGAAGTTGCAGTGGAACAAGATGAAGCTACT
64 C-TGAAGTTGCAGTGGAACAAGATGAAGCTACT
* * * * * * * *
8248790 AATCT-TATGCCCCTGAAGTTGCAGTGATGTGGAA-TGAAGTT-GCAGTTGTAAATCTTATCTCC
1 AATCTCTATACCCCTGAAGTTGCAGTG-GGTTGAATTGAACTTACCA-TAGCAAATCTTATCTCT
* * * *
8248852 CTGAAGTTGTAGTGGAGCAAGATGAGGCTACA
64 CTGAAGTTGCAGTGGAACAAGATGAAGCTACT
** *
8248884 AATC-CTATATTCTTGAAGTTGCAG
1 AATCTCTATACCCCTGAAGTTGCAG
8248908 CGGAATAGAT
Statistics
Matches: 178, Mismatches: 23, Indels: 23
0.79 0.10 0.10
Matches are distributed among these distances:
93 7 0.04
94 158 0.89
95 13 0.07
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (95 bp):
AATCTCTATACCCCTGAAGTTGCAGTGGGTTGAATTGAACTTACCATAGCAAATCTTATCTCTCT
GAAGTTGCAGTGGAACAAGATGAAGCTACT
Found at i:8251622 original size:18 final size:19
Alignment explanation
Indices: 8251601--8251636 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8251591 ATATATATAT
8251601 ATAAAATCAT-AAATTTTG
1 ATAAAATCATAAAATTTTG
*
8251619 ATAAAATTATAAAATTTT
1 ATAAAATCATAAAATTTT
8251637 ATTTCGTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
ATAAAATCATAAAATTTTG
Found at i:8264411 original size:20 final size:20
Alignment explanation
Indices: 8264360--8264411 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
8264350 AATTATTCTA
*
8264360 AAAATTAAAAAAAAAGCTTT
1 AAAATTAAAAAAAAAGCTAT
*
8264380 AAAATTTTAAAAAAAGAG-TAT
1 AAAA--TTAAAAAAAAAGCTAT
8264401 -AAATTAAAAAA
1 AAAATTAAAAAA
8264412 GTAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 8 0.29
20 7 0.25
21 2 0.07
22 11 0.39
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATTAAAAAAAAAGCTAT
Found at i:8265630 original size:13 final size:13
Alignment explanation
Indices: 8265614--8265666 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
8265604 TTTAAACTAA
8265614 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
*
8265627 ACTTCTCAAAAAT
1 ACTTTTCAAAAAT
* * * *
8265640 ATTTTTCTACAAC
1 ACTTTTCAAAAAT
8265653 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
8265666 A
1 A
8265667 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:8266466 original size:18 final size:20
Alignment explanation
Indices: 8266443--8266479 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
8266433 TTCTTATAGG
8266443 TTTTTGAT-T-ATATCTATT
1 TTTTTGATATAATATCTATT
8266461 TTTTTGATATAATATCTAT
1 TTTTTGATATAATATCTAT
8266480 AATTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTGATATAATATCTATT
Found at i:8269058 original size:24 final size:23
Alignment explanation
Indices: 8269030--8269092 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
8269020 GATGACAAAA
*
8269030 AAATAATAAATAATAATAAACAAG
1 AAATAATAAATAATAAT-AACAAC
*
8269054 TAATAATATAAT-ATAATAACAAC
1 AAATAATA-AATAATAATAACAAC
8269077 AAATAA-AAATAATAAT
1 AAATAATAAATAATAAT
8269093 TAAATAGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.09
22 6 0.18
23 10 0.29
24 12 0.35
25 3 0.09
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (23 bp):
AAATAATAAATAATAATAACAAC
Found at i:8269098 original size:27 final size:27
Alignment explanation
Indices: 8269028--8269098 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
8269018 ATGATGACAA
*
8269028 AAAAATAATAA-ATAATAATAAACAAGT
1 AAAAATAATAATA-AATAATAAACAAAT
* *
8269055 AATAAT-ATAATATAATAA-CAACAAAT
1 AAAAATAATAATA-AATAATAAACAAAT
8269081 AAAAATAATAATTAAATA
1 AAAAATAATAA-TAAATA
8269099 GTGAAATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 15 0.41
27 20 0.54
28 2 0.05
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (27 bp):
AAAAATAATAATAAATAATAAACAAAT
Found at i:8270037 original size:19 final size:18
Alignment explanation
Indices: 8270008--8270044 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
8269998 CACTGAAGGC
8270008 GAGGGTTGTTGCGGCGCT
1 GAGGGTTGTTGCGGCGCT
8270026 GAGGGCTTGTTGCGGCGCT
1 GAGGG-TTGTTGCGGCGCT
8270045 CCCTATTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.05, C:0.19, G:0.49, T:0.27
Consensus pattern (18 bp):
GAGGGTTGTTGCGGCGCT
Found at i:8270639 original size:45 final size:44
Alignment explanation
Indices: 8270586--8270683 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
8270576 AAGACTTGTA
* **
8270586 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTT
* * *
8270631 TTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTT
8270675 TCTTCGATC
1 TCTTCGATC
8270684 GATTCCACTG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 31 0.67
45 15 0.33
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTT
Found at i:8270933 original size:45 final size:44
Alignment explanation
Indices: 8270856--8271120 Score: 169
Period size: 44 Copynumber: 6.0 Consensus size: 44
8270846 TGTTGTATTT
* *
8270856 GATCTACTTCGCGCC-GATACATGAAGACAAGATCTGTTTTCTTC
1 GATCTACTTCACGCCAG-TACAGGAAGACAAGATCTGTTTTCTTC
* * * * * * *
8270900 GATCTGCTTCGC-CATCAGTACGGGAAGACAAGATCCGGTATCTTT
1 GATCTACTTCACGC--CAGTACAGGAAGACAAGATCTGTTTTCTTC
* *
8270945 GATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTC
1 GATCTACTTCACGCCAGTACAGGAAGACAAGATCTGTTTTCTTC
* * * * * * *
8270989 GATCTACTCCACCACCAGTATAGGGAGACAAGATATG-TATATTC
1 GATCTACTTCA-CGCCAGTACAGGAAGACAAGATCTGTTTTCTTC
* * * * * * ** * *
8271033 GATCCACTTCGCTACC-GATATAGGAAGACAGGACCTACTATCTTT
1 GATCTACTTCAC-GCCAG-TACAGGAAGACAAGATCTGTTTTCTTC
* * *
8271078 GATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTT
1 GATCTACTTCACGCCAGTACAGGAAGACAAGATCTGTTTTCTT
8271121 TCAACCTGCT
Statistics
Matches: 167, Mismatches: 45, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
43 3 0.02
44 95 0.57
45 67 0.40
46 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
GATCTACTTCACGCCAGTACAGGAAGACAAGATCTGTTTTCTTC
Found at i:8271008 original size:89 final size:89
Alignment explanation
Indices: 8270853--8271022 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 89
8270843 ATATGTTGTA
* * * * * *
8270853 TTTGATCTACTTCGCGCCGATACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCATCAG
1 TTTGATCTACTTCACGCCGATACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCACCAG
*
8270918 TA-CGGGAAGACAAGATCCGGTATC
66 TATAGGG-AGACAAGATCCGGTATC
8270942 TTTGATCTACTTCACGCC-AGTACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCACCA
1 TTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCACCA
8271006 GTATAGGGAGACAAGAT
65 GTATAGGGAGACAAGAT
8271023 ATGTATATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 1 0.01
89 68 0.94
90 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (89 bp):
TTTGATCTACTTCACGCCGATACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCACCAG
TATAGGGAGACAAGATCCGGTATC
Found at i:8282583 original size:18 final size:18
Alignment explanation
Indices: 8282552--8282607 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
8282542 TAAATGATTT
*
8282552 TTTTATTAAGTAATAATA
1 TTTTATTAAATAATAATA
*
8282570 TTTTAATAAATAATAATA
1 TTTTATTAAATAATAATA
*
8282588 TTTTATTAATTAATTAATA
1 TTTTATTAAATAA-TAATA
8282607 T
1 T
8282608 ATATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTATTAAATAATAATA
Found at i:8282611 original size:2 final size:2
Alignment explanation
Indices: 8282604--8282660 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
8282594 TAATTAATTA
8282604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8282646 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
8282661 AGAGAAAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8283177 original size:26 final size:27
Alignment explanation
Indices: 8283132--8283192 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
8283122 GGCCCGGCCC
* *
8283132 ATTTT-AAAAT-AAATATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
8283157 ATTTTAAAAATAAAAAATAAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
8283184 ATTTTAAAA
1 ATTTTAAAA
8283193 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 5 0.16
26 5 0.16
27 22 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAATT
Found at i:8285531 original size:22 final size:23
Alignment explanation
Indices: 8285499--8285560 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
8285489 TTATGCACTA
8285499 TTAAACAGAGAGCACTAAA-GTG
1 TTAAACAGAGAGCACTAAATGTG
*
8285521 TTATACAGAGAGCAC-AAATGTG
1 TTAAACAGAGAGCACTAAATGTG
8285543 TTAAAC-GAAGAGCACTAA
1 TTAAACAG-AGAGCACTAA
8285561 CGTGCTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 4 0.11
22 29 0.83
23 2 0.06
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (23 bp):
TTAAACAGAGAGCACTAAATGTG
Found at i:8285585 original size:25 final size:25
Alignment explanation
Indices: 8285551--8285598 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
8285541 TGTTAAACGA
8285551 AGAGCACTAACGTGCTAATAATCGG
1 AGAGCACTAACGTGCTAATAATCGG
8285576 AGAGCACTAACGTGCTAATAATC
1 AGAGCACTAACGTGCTAATAATC
8285599 ATAGAGCGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAGCACTAACGTGCTAATAATCGG
Found at i:8285604 original size:25 final size:25
Alignment explanation
Indices: 8285551--8285605 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
8285541 TGTTAAACGA
*
8285551 AGAGCACTAACGTGCTAATAATCGG
1 AGAGCACTAACGTGCTAATAATCAG
*
8285576 AGAGCACTAACGTGCTAATAATCAT
1 AGAGCACTAACGTGCTAATAATCAG
8285601 AGAGC
1 AGAGC
8285606 GCGCTAAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
AGAGCACTAACGTGCTAATAATCAG
Found at i:8294196 original size:126 final size:126
Alignment explanation
Indices: 8293971--8294199 Score: 406
Period size: 126 Copynumber: 1.8 Consensus size: 126
8293961 ATTATTTCGA
* *
8293971 GTTGAAGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGGGAAGAAATTGT
1 GTTGAAGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCAATTTGAGAAGAAATTGT
*
8294036 GAAATCGCGCCCTTGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
*
8294097 GTTGATGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCAATTTGAGAAGAAATTG
1 GTTGAAGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCAATTTGAGAAGAAATTG
8294161 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
8294200 CAAGTTTGGG
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 97 0.99
127 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (126 bp):
GTTGAAGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCAATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
Found at i:8297328 original size:10 final size:10
Alignment explanation
Indices: 8297313--8297337 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8297303 CAAATCTAAC
8297313 ATTATGTAAA
1 ATTATGTAAA
8297323 ATTATGTAAA
1 ATTATGTAAA
8297333 ATTAT
1 ATTAT
8297338 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:8297416 original size:56 final size:56
Alignment explanation
Indices: 8297329--8297531 Score: 295
Period size: 56 Copynumber: 3.6 Consensus size: 56
8297319 TAAAATTATG
* *
8297329 TAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGTC-TAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
8297386 TAAAATTATTAAGTCTAGAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* * *
8297441 TAAAATTATTAAG-CCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
8297496 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTA
1 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTA
8297532 CGGTTAAGGT
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
54 26 0.20
55 43 0.33
56 46 0.36
57 14 0.11
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (56 bp):
TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:8297520 original size:110 final size:112
Alignment explanation
Indices: 8297320--8297531 Score: 374
Period size: 110 Copynumber: 1.9 Consensus size: 112
8297310 AACATTATGT
*
8297320 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAATTATGTAAAATTATTAAGCC-AAAAAATTGTATTAATGGTTAGTAAAATTTATCAAATAAA
*
8297385 CTAAAATTATTAAGTCTAGAAATTGTGTTAATGGTTAGTAAAATTATC
65 CTAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
8297433 AAAA-TATGTAAAATTATTAAGCC-AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 AAAATTATGTAAAATTATTAAGCCAAAAAATTGTATTAATGGTTAGTAAAATTTATCAAATAAAC
8297496 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTA
66 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTA
8297532 CGGTTAAGGT
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
110 73 0.76
112 19 0.20
113 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (112 bp):
AAAATTATGTAAAATTATTAAGCCAAAAAATTGTATTAATGGTTAGTAAAATTTATCAAATAAAC
TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:8297560 original size:29 final size:28
Alignment explanation
Indices: 8297528--8297826 Score: 174
Period size: 29 Copynumber: 10.5 Consensus size: 28
8297518 TGTGTTAATG
*
8297528 GTTACGGTTAAGGTTAGGGTTTAAGTTAG
1 GTTA-GGTTAAGGTTAGGGTTTAAGTTAA
8297557 GTTAGGGTT-AGGATT----TTTAA-TTAA
1 GTTA-GGTTAAGG-TTAGGGTTTAAGTTAA
* * *
8297581 TTTAGGTTAAGGTTAAGGTTTTTAGTTAA
1 GTTAGGTTAAGGTT-AGGGTTTAAGTTAA
* *
8297610 GTTAGGTTAGGGTTAGGGTTTTTAGTTAA
1 GTTAGGTTAAGGTTAGGG-TTTAAGTTAA
* **
8297639 TTTAGGTTTGGGTTAGGGTTTTTAA-TTAA
1 GTTAGGTTAAGGTTAGGG--TTTAAGTTAA
* *
8297668 TTTAGGTTAGGGTTAGGGTTTTTAA-TTAA
1 GTTAGGTTAAGGTTAGGG--TTTAAGTTAA
* *
8297697 TTTAGGTTAGGGTTAGGGTTTTTAA-TTAA
1 GTTAGGTTAAGGTTAGGG--TTTAAGTTAA
*
8297726 TTTAGGTT-AGTGTTAGGGTTTTTAA-TTAA
1 GTTAGGTTAAG-GTTAGGG--TTTAAGTTAA
* *
8297755 TTTAGGTTAGGGTTAGGGTTTTTAA-TTAA
1 GTTAGGTTAAGGTTAGGG--TTTAAGTTAA
* *
8297784 TTTAGGTTAGGGTTAGGGTTTTTAA-TTAA
1 GTTAGGTTAAGGTTAGGG--TTTAAGTTAA
*
8297813 GTTAGGTTAGGGTT
1 GTTAGGTTAAGGTT
8297827 TTCAATTAAA
Statistics
Matches: 244, Mismatches: 14, Indels: 24
0.87 0.05 0.09
Matches are distributed among these distances:
23 6 0.02
24 9 0.04
25 5 0.02
28 11 0.05
29 207 0.85
30 6 0.02
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (28 bp):
GTTAGGTTAAGGTTAGGGTTTAAGTTAA
Found at i:8297598 original size:58 final size:58
Alignment explanation
Indices: 8297548--8297826 Score: 468
Period size: 58 Copynumber: 4.8 Consensus size: 58
8297538 AGGTTAGGGT
* * * * *
8297548 TTAAGTTAGGTTAGGGTTAGGATTTTTAATTAATTTAGGTTAAGGTTAAGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
* * *
8297606 TTAAGTTAGGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTTGGGTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
8297664 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
*
8297722 TTAATTTAGGTTAGTGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
*
8297780 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTT
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTT
8297827 TTCAATTAAA
Statistics
Matches: 209, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 209 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (58 bp):
TTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
Found at i:8297624 original size:87 final size:87
Alignment explanation
Indices: 8297548--8297826 Score: 468
Period size: 87 Copynumber: 3.2 Consensus size: 87
8297538 AGGTTAGGGT
* * * * *
8297548 TTAAGTTAGGTTAGGGTTAGGATTTTTAATTAATTTAGGTTAAGGTTAAGGTTTTTAGTTAAGTT
1 TTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTT
*
8297613 AGGTTAGGGTTAGGGTTTTTAG
66 AGGTTAGGGTTAGGGTTTTTAA
* *
8297635 TTAATTTAGGTTTGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTT
1 TTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTT
8297700 AGGTTAGGGTTAGGGTTTTTAA
66 AGGTTAGGGTTAGGGTTTTTAA
* *
8297722 TTAATTTAGGTTAGTGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTT
1 TTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTT
8297787 AGGTTAGGGTTAGGGTTTTTAA
66 AGGTTAGGGTTAGGGTTTTTAA
8297809 TTAAGTTAGGTTAGGGTT
1 TTAAGTTAGGTTAGGGTT
8297827 TTCAATTAAA
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 180 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (87 bp):
TTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTT
AGGTTAGGGTTAGGGTTTTTAA
Found at i:8297919 original size:26 final size:25
Alignment explanation
Indices: 8297889--8297937 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8297879 CTTCAAAAAT
8297889 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
8297915 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
8297938 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:8298510 original size:18 final size:18
Alignment explanation
Indices: 8298466--8298511 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8298456 TATTCGGAAA
* *
8298466 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
8298484 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
8298502 AGGAAACATA
1 AGGATACATA
8298512 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:8299148 original size:7 final size:7
Alignment explanation
Indices: 8299136--8299160 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8299126 TTACATATAT
8299136 AATACTA
1 AATACTA
8299143 AATACTA
1 AATACTA
8299150 AATACTA
1 AATACTA
8299157 AATA
1 AATA
8299161 TCAATCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:8300144 original size:15 final size:16
Alignment explanation
Indices: 8300119--8300149 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8300109 ATAATTATCT
8300119 AAAAATACTTAAATAA
1 AAAAATACTTAAATAA
8300135 AAAAAT-CTTAAATAA
1 AAAAATACTTAAATAA
8300150 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATACTTAAATAA
Found at i:8300279 original size:30 final size:30
Alignment explanation
Indices: 8300242--8300307 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
8300232 GCCATTGATG
8300242 AAAATATAAAAAA-TTTAAAATTATTTTTAA
1 AAAATATAAAAAAGTTTAAAATTA-TTTTAA
* *
8300272 CAAATATAAAAAAGTTTATAATTATTTTAA
1 AAAATATAAAAAAGTTTAAAATTATTTTAA
8300302 AAAATA
1 AAAATA
8300308 GATTTGAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAAAGTTTAAAATTATTTTAA
Found at i:8300409 original size:24 final size:22
Alignment explanation
Indices: 8300362--8300405 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8300352 AAATATGGGT
*
8300362 TTGAGACAATTTTGGAAGGAAA
1 TTGAGACAATTTTAGAAGGAAA
*
8300384 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGACAATTTTAGAAGGAAA
8300406 AATTAGATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.27
Consensus pattern (22 bp):
TTGAGACAATTTTAGAAGGAAA
Found at i:8313536 original size:7 final size:7
Alignment explanation
Indices: 8313524--8313548 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8313514 CAATTAAAAC
8313524 AATTAAT
1 AATTAAT
8313531 AATTAAT
1 AATTAAT
8313538 AATTAAT
1 AATTAAT
8313545 AATT
1 AATT
8313549 TTTTGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:8320215 original size:5 final size:5
Alignment explanation
Indices: 8320205--8320282 Score: 156
Period size: 5 Copynumber: 15.6 Consensus size: 5
8320195 CCTGCCAAGT
8320205 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
8320255 ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATA
8320283 CCCAATTAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:8326038 original size:6 final size:6
Alignment explanation
Indices: 8326027--8326056 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8326017 GAGCATCTAT
8326027 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG
8326057 AATGCTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:8331131 original size:20 final size:21
Alignment explanation
Indices: 8331087--8331137 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
8331077 TGTCAATCCT
* * *
8331087 ATGAATAGTGGGGTCAAGTTC
1 ATGAACAGTGGAGTCAAGATC
8331108 ATGAACAGTGGAGTCAA-ATC
1 ATGAACAGTGGAGTCAAGATC
8331128 ATGAACAGTG
1 ATGAACAGTG
8331138 ATAGTATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (21 bp):
ATGAACAGTGGAGTCAAGATC
Found at i:8332990 original size:3 final size:3
Alignment explanation
Indices: 8332982--8333015 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
8332972 TTAAGTACCT
*
8332982 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8333016 ATAATGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:8337471 original size:24 final size:22
Alignment explanation
Indices: 8337443--8337528 Score: 60
Period size: 24 Copynumber: 3.9 Consensus size: 22
8337433 GATAGTGCTT
8337443 TATTAATTTAATATTAATATCAAA
1 TATTAATTTAATATTAATAT--AA
8337467 TATTACA-TTAA-ATTAA-AT-A
1 TATTA-ATTTAATATTAATATAA
8337486 T-TT-ATTTAGATATTAATATGAGA
1 TATTAATTTA-ATATTAATAT-A-A
8337509 TATTAAATTTAAT-TTAATAT
1 TATT-AATTTAATATTAATAT
8337529 TTATCTAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 22
0.70 0.00 0.30
Matches are distributed among these distances:
16 1 0.02
17 3 0.06
18 3 0.06
19 7 0.14
20 2 0.04
22 2 0.04
23 7 0.14
24 18 0.35
25 3 0.06
26 5 0.10
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
TATTAATTTAATATTAATATAA
Found at i:8337477 original size:103 final size:103
Alignment explanation
Indices: 8337362--8337563 Score: 307
Period size: 103 Copynumber: 2.0 Consensus size: 103
8337352 TAATGAATTT
*
8337362 AATATTAAATTAAATTTAAA-ATTTATCTAGATACTAATATGAGATATTTAATTTAATTTAATAC
1 AATATTAAATTAAA-TTAAATATTTATCTAGATACTAATATGAGATATTAAATTTAATTTAATAC
* *
8337426 TTATCTAGATAGTGCTTTATTAATTTAATATTAATATCA
65 TTATCTAGATAATACTTTATTAATTTAATATTAATATCA
* * * *
8337465 AATATTACATTAAATTAAATATTTATTTAGATATTAATATGAGATATTAAATTTAATTTAATATT
1 AATATTAAATTAAATTAAATATTTATCTAGATACTAATATGAGATATTAAATTTAATTTAATACT
* *
8337530 TATCTAGATAATATTTTGTTAATTTAATATTAAT
66 TATCTAGATAATACTTTATTAATTTAATATTAAT
8337564 GTGATTAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 5 0.06
103 84 0.94
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (103 bp):
AATATTAAATTAAATTAAATATTTATCTAGATACTAATATGAGATATTAAATTTAATTTAATACT
TATCTAGATAATACTTTATTAATTTAATATTAATATCA
Found at i:8337499 original size:42 final size:42
Alignment explanation
Indices: 8337443--8337539 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
8337433 GATAGTGCTT
* *
8337443 TATTAATTTA-ATATTAATATCAAATATTACATTAAATTAAA
1 TATTTATTTAGATATTAATATCAAATATTAAATTAAATTAAA
* * * *
8337484 TATTTATTTAGATATTAATATGAGATATTAAATTTAATTTAA
1 TATTTATTTAGATATTAATATCAAATATTAAATTAAATTAAA
*
8337526 TATTTATCTAGATA
1 TATTTATTTAGATA
8337540 ATATTTTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 9 0.19
42 39 0.81
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (42 bp):
TATTTATTTAGATATTAATATCAAATATTAAATTAAATTAAA
Found at i:8338691 original size:38 final size:37
Alignment explanation
Indices: 8338639--8338713 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
8338629 GGTTTAACCT
8338639 TACAATCTCCCTTAAGATTTATACCCCAAAATCTTAAGA
1 TACAATCTCCCTTAAGATTTATA-CCC-AAATCTTAAGA
* *
8338678 TACAA-CTCCCTTAAGGTTTCTACCCAAATCTTAAGA
1 TACAATCTCCCTTAAGATTTATACCCAAATCTTAAGA
8338714 ATTAACCCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 11 0.32
37 3 0.09
38 15 0.44
39 5 0.15
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (37 bp):
TACAATCTCCCTTAAGATTTATACCCAAATCTTAAGA
Found at i:8338907 original size:28 final size:28
Alignment explanation
Indices: 8338870--8338929 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
8338860 TACTAGCAGG
8338870 CCTAAACCCACCCAAGC-CCAAACTAAA
1 CCTAAACCCACCCAAGCTCCAAACTAAA
* *
8338897 CCTAATACCCACCTAAGCTCCAAACTAAC
1 CCTAA-ACCCACCCAAGCTCCAAACTAAA
8338926 CCTA
1 CCTA
8338930 GCCCAGCAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 11 0.38
29 13 0.45
ACGTcount: A:0.40, C:0.43, G:0.03, T:0.13
Consensus pattern (28 bp):
CCTAAACCCACCCAAGCTCCAAACTAAA
Found at i:8343237 original size:3 final size:3
Alignment explanation
Indices: 8343229--8343254 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8343219 TTGCTAGGAA
8343229 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
8343255 AAAATAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8345684 original size:24 final size:25
Alignment explanation
Indices: 8345652--8345712 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 25
8345642 ACAATTGCAA
* *
8345652 TTCAGATACATAATCAGATG-TAAT
1 TTCATATACATAATCAGATGCAAAT
8345676 TTCATATACATAATCAGATGCAAAT
1 TTCATATACATAATCAGATGCAAAT
8345701 TTCATATACATA
1 TTCATATACATA
8345713 TTCATATCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (25 bp):
TTCATATACATAATCAGATGCAAAT
Found at i:8347431 original size:14 final size:14
Alignment explanation
Indices: 8347412--8347441 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8347402 CCATGATTCC
8347412 ACCACATAACCTTA
1 ACCACATAACCTTA
8347426 ACCACATAACCTTA
1 ACCACATAACCTTA
8347440 AC
1 AC
8347442 TAACAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCACATAACCTTA
Found at i:8353124 original size:25 final size:24
Alignment explanation
Indices: 8353091--8353139 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
8353081 CATGGCACGA
*
8353091 TTTATAATAAATAATAACAATATATT
1 TTTATAATAAA-AATAA-AAAATATT
8353117 TTTA-AATAAAAATAAAAAATATT
1 TTTATAATAAAAATAAAAAATATT
8353140 AATGAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 5 0.23
25 6 0.27
26 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTATAATAAAAATAAAAAATATT
Found at i:8356308 original size:58 final size:56
Alignment explanation
Indices: 8356246--8356402 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 56
8356236 TTGTTTTTAA
* *
8356246 ATTTTAATAAGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATCAT
1 ATTTTAATAA-ATTATTATTAAATATAATTTAAT-AAAATAATAAATAATTTAATAAC
* * *
8356304 ATTTTAACACAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATA-AATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAAC
*
8356361 ATTCTTAAT--ATTATTATTAAAATATGAA-TTAA-AAAATCATAA
1 ATT-TTAATAAATTATTATT-AAATAT-AATTTAATAAAATAATAA
8356403 TATATAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
55 17 0.20
56 9 0.10
57 25 0.29
58 34 0.40
59 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (56 bp):
ATTTTAATAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAAC
Found at i:8356419 original size:23 final size:21
Alignment explanation
Indices: 8356388--8356430 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8356378 TAAAATATGA
8356388 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
8356411 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
8356431 CTACTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:8361237 original size:13 final size:13
Alignment explanation
Indices: 8361219--8361249 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8361209 CTTAAGTGTA
8361219 GTATATTCATTTT
1 GTATATTCATTTT
*
8361232 GTATATTCGTTTT
1 GTATATTCATTTT
8361245 GTATA
1 GTATA
8361250 CATGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (13 bp):
GTATATTCATTTT
Found at i:8367352 original size:18 final size:18
Alignment explanation
Indices: 8367307--8367352 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
8367297 ATTTATGTCC
8367307 TATAAAAT-TAAATATAT
1 TATAAAATGTAAATATAT
8367324 TATATAAATGTAAATAT-T
1 TATA-AAATGTAAATATAT
8367342 TATAAATATGT
1 TATAAA-ATGT
8367353 TAAAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.23
18 13 0.50
19 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
TATAAAATGTAAATATAT
Found at i:8367356 original size:19 final size:20
Alignment explanation
Indices: 8367314--8367356 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
8367304 TCCTATAAAA
8367314 TTAAATATATTATATAAATG
1 TTAAATATATTATATAAATG
8367334 -TAAATAT-TTATA-AATATG
1 TTAAATATATTATATAA-ATG
8367352 TTAAA
1 TTAAA
8367357 ATTATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.10
18 8 0.38
19 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAATATATTATATAAATG
Found at i:8367447 original size:20 final size:21
Alignment explanation
Indices: 8367402--8367447 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
8367392 ATGTAATAGT
8367402 AATAA-AAATATATAAATATA
1 AATAATAAATATATAAATATA
*
8367422 ACTAATAAATAT-TAAAT-TAA
1 AATAATAAATATATAAATAT-A
8367442 AATAAT
1 AATAAT
8367448 TATATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.05
20 15 0.68
21 6 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAATATATAAATATA
Found at i:8368983 original size:14 final size:14
Alignment explanation
Indices: 8368952--8368984 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
8368942 CTAGACCGTG
8368952 TGTCACACACGGCC
1 TGTCACACACGGCC
8368966 --TCACACACGGCC
1 TGTCACACACGGCC
8368978 TGTCACA
1 TGTCACA
8368985 TAGCTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.71
14 5 0.29
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.15
Consensus pattern (14 bp):
TGTCACACACGGCC
Found at i:8370771 original size:32 final size:32
Alignment explanation
Indices: 8370708--8370787 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
8370698 TTTGGGCCCA
* * *
8370708 CATGCCCGTATGGCCCACACGGCCCATATTGC
1 CATGCCCGTGTGGCCCACACGACCCAAATTGC
** *
8370740 CATGCCCGTGTGGCCTGCACGACCGAAATTGC
1 CATGCCCGTGTGGCCCACACGACCCAAATTGC
* **
8370772 CTTGCTTGTGTGGCCC
1 CATGCCCGTGTGGCCC
8370788 CCCTATCCGA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (32 bp):
CATGCCCGTGTGGCCCACACGACCCAAATTGC
Found at i:8373081 original size:27 final size:27
Alignment explanation
Indices: 8373051--8373104 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8373041 AGTTTTGGAA
8373051 AATCAAAATTTGTATTTTGATTCTTTC
1 AATCAAAATTTGTATTTTGATTCTTTC
8373078 AATCAAAATTTGTATTTTGATTCTTTC
1 AATCAAAATTTGTATTTTGATTCTTTC
8373105 CAGTTTCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (27 bp):
AATCAAAATTTGTATTTTGATTCTTTC
Found at i:8376374 original size:21 final size:21
Alignment explanation
Indices: 8376340--8376380 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8376330 GGGGGAAAGT
*
8376340 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
8376361 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
8376381 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:8383217 original size:44 final size:44
Alignment explanation
Indices: 8383156--8383242 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
8383146 GTTGAAATAA
* * *
8383156 AATAGAAATTGTAATAATTATACATTTAAAAGTAATTATAATTT
1 AATAGAAATTGTAATAATTACACATTTAAAAATAATTAGAATTT
* * *
8383200 AATAGAAGTTGTGATAATTGCACATTTAAAAATAATTAGAATT
1 AATAGAAATTGTAATAATTACACATTTAAAAATAATTAGAATT
8383243 AAAATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (44 bp):
AATAGAAATTGTAATAATTACACATTTAAAAATAATTAGAATTT
Found at i:8386583 original size:41 final size:41
Alignment explanation
Indices: 8386524--8386787 Score: 304
Period size: 41 Copynumber: 6.4 Consensus size: 41
8386514 GATTTTTTAA
*
8386524 ACCTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTTGG
1 ACCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGG
* *
8386565 ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
1 ACCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-TGG
*
8386607 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG
1 ACCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGG
* * * * *
8386647 ATCTTTAGCGGCATTTTTATCTGAGCGCCACTAATTCTCTGG
1 ACCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-TGG
* * * * *
8386689 -CCTTTAACGGTGTTTGTAGCTAAGCGCCGCTAATGCATT-T
1 ACCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TTGG
* *
8386729 ACCTTTAGCGGCGTTTGTAGT-TAAGCGCCGCTAATGCATT-T
1 ACCTTTAGCGGCGTTTTTA-TCTAAGCGCCGCTAATGC-TTGG
8386770 ACCTTTAGCGGCGTTTTT
1 ACCTTTAGCGGCGTTTTT
8386788 GCCGAAGCGC
Statistics
Matches: 191, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
40 2 0.01
41 183 0.96
42 6 0.03
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (41 bp):
ACCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGG
Found at i:8387335 original size:15 final size:15
Alignment explanation
Indices: 8387314--8387351 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8387304 TTTAAGGTTA
8387314 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
8387329 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
8387344 ATTTAGGG
1 ATTTAGGG
8387352 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:8395003 original size:21 final size:21
Alignment explanation
Indices: 8394977--8395045 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
8394967 CAACTTAAAA
* * *
8394977 CAGAGGCGGTAGCGAGGGAAG
1 CAGAGGCCGCAGCGAGAGAAG
*
8394998 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
8395019 CAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
8395040 CAGAGG
1 CAGAGG
8395046 TTCAAAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.32, C:0.19, G:0.46, T:0.03
Consensus pattern (21 bp):
CAGAGGCCGCAGCGAGAGAAG
Found at i:8395611 original size:85 final size:85
Alignment explanation
Indices: 8395522--8395729 Score: 251
Period size: 85 Copynumber: 2.4 Consensus size: 85
8395512 TTTGTAGATG
* * * * *
8395522 AAGCGCCGCTAAAGAACATTACTTTTATCGGCATTTTCTA-CCAAGCGCCGCTATAGAACATTA-
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCATTTT-TACCCAAGCGCCACTAAAGAACATGAT
* *
8395585 CTTTTAGCGGCGTTTTTTTCCT
65 C-ATTAGCGGCATTTTTTTCCT
* * **
8395607 AAGCGCCACTAAAGAACATGA-TCTTTAGCAGCGGTTTTACCCAAGCGCCACTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCATTTTTACCCAAGCGCCACTAAAGAACATGAT
8395671 CATTAGCGGCATTTTTTTCCT
65 CATTAGCGGCATTTTTTTCCT
* *
8395692 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCTTTTTT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCATTTTT
8395730 TCTGTAAGCG
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
84 3 0.03
85 99 0.96
86 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCATTTTTACCCAAGCGCCACTAAAGAACATGATC
ATTAGCGGCATTTTTTTCCT
Found at i:8395625 original size:43 final size:43
Alignment explanation
Indices: 8395478--8395730 Score: 230
Period size: 43 Copynumber: 5.9 Consensus size: 43
8395468 GTTTGTGAAA
* * * **
8395478 TAAGAGCCGCTAAAGAACACT-ACTTTTAGCGGTG-TTTGTAGA
1 TAAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTTTACC
* * * *
8395520 TGAAGCGCCGCTAAAGAACATTACTTTTATCGGCATTTTCTACC
1 T-AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
* * *
8395564 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
* * *
8395606 TAAGCGCCACTAAAGAACATGA-TCTTTAGCAGCG-GTTTTACC
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTACC
* * * * *
8395648 CAAGCGCCACTAAAGAACATGA-TCATTAGCGGCATTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTACC
* *
8395691 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCTTTTTTT
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
8395731 CTGTAAGCGC
Statistics
Matches: 175, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
42 76 0.43
43 94 0.54
44 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
Found at i:8395738 original size:43 final size:42
Alignment explanation
Indices: 8395522--8395740 Score: 224
Period size: 42 Copynumber: 5.1 Consensus size: 42
8395512 TTTGTAGATG
* * * * *
8395522 AAGCGCCGCTAAAGAACATTACTTTTATCGGCATTTTCTACC-
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGC-TTTTTTTCCT
* * *
8395564 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGC-TTTTTTTCCT
* * * ** * *
8395607 AAGCGCCACTAAAGAACATGATCTTTAGCAGCGGTTTTACCC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCTTTTTTTCCT
* * *
8395649 AAGCGCCACTAAAGAACATGATCATTAGCGGCATTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGC-TTTTTTTCCT
*
8395692 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCTTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCTTTTTTTC-CT
8395735 AAGCGC
1 AAGCGC
8395741 AGCAAAAGTT
Statistics
Matches: 149, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
42 81 0.54
43 68 0.46
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCTTTTTTTCCT
Found at i:8405078 original size:24 final size:25
Alignment explanation
Indices: 8404912--8405122 Score: 105
Period size: 24 Copynumber: 8.6 Consensus size: 25
8404902 TAGCCCTCTC
*
8404912 GAGCTTCCCGTTATATGGCTCTTCGT
1 GAGCTTCCCGTTAT-TGGCTCTTCAT
** * **
8404938 GAGCTTCCCGATTAAAGGCTTTTTGT
1 GAGCTTCCCG-TTATTGGCTCTTCAT
* * **
8404964 GAGCTTCCTGATTAATGGCTC-TCCG
1 GAGCTTCCCG-TTATTGGCTCTTCAT
* * * *
8404989 GAGATTCCCGATA-TGGCTC-GCTT
1 GAGCTTCCCGTTATTGGCTCTTCAT
* * * *
8405012 GAACTTCCCGATATATGGCTATCCA-
1 GAGCTTCCCGTTAT-TGGCTCTTCAT
** *
8405037 GAGCTTCCTATTAATGGCTCTTCA-
1 GAGCTTCCCGTTATTGGCTCTTCAT
* **
8405061 GAGCTACCCGTTATTGGCT-AGCAT
1 GAGCTTCCCGTTATTGGCTCTTCAT
8405085 GAGCTTCCCGATTA-TGGCTCTT-AT
1 GAGCTTCCCG-TTATTGGCTCTTCAT
8405109 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
8405123 ACAGTCCGGA
Statistics
Matches: 140, Mismatches: 37, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
23 23 0.16
24 51 0.36
25 26 0.19
26 37 0.26
27 3 0.02
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATTGGCTCTTCAT
Found at i:8405113 original size:72 final size:72
Alignment explanation
Indices: 8404937--8405116 Score: 184
Period size: 72 Copynumber: 2.5 Consensus size: 72
8404927 TGGCTCTTCG
* * * * *
8404937 TGAGCTTCCCGATTAAAGGCTTTTTGTGAGCTTCCTGATTAATGGCTCTCCGGAGATTCCCGATA
1 TGAGCTTCCCGATT-ATGGC-TATTATGAGCTTCCTGATTAATGGCTCTCCAGAGATACCCGATA
* *
8405002 TGGCTCGCT
64 TGGCTAGCA
* * * * *
8405011 TGAACTTCCCGATATATGGCTATCCA-GAGCTTCCT-ATTAATGGCTCTTCAGAGCTACCCGTTA
1 TGAGCTTCCCGAT-TATGGCTAT-TATGAGCTTCCTGATTAATGGCTCTCCAGAGATACCCGATA
8405074 TTGGCTAGCA
64 -TGGCTAGCA
*
8405084 TGAGCTTCCCGATTATGGCTCTTATGAGCTTCC
1 TGAGCTTCCCGATTATGGCTATTATGAGCTTCC
8405117 CGTTATACAG
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
71 1 0.01
72 39 0.45
73 30 0.34
74 16 0.18
75 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (72 bp):
TGAGCTTCCCGATTATGGCTATTATGAGCTTCCTGATTAATGGCTCTCCAGAGATACCCGATATG
GCTAGCA
Found at i:8406739 original size:28 final size:28
Alignment explanation
Indices: 8406700--8406840 Score: 142
Period size: 28 Copynumber: 5.0 Consensus size: 28
8406690 GACCGTGTGT
*
8406700 CCCCTATGTTTT-AAATATTACAATTTTA
1 CCCCTAT-TTTTCAAATATTATAATTTTA
*
8406728 TCCCCTATTTTTCATATATTATAATTTTA
1 -CCCCTATTTTTCAAATATTATAATTTTA
*
8406757 CCCTTATTTTTCAAA-ATTTATAATTTTA
1 CCCCTATTTTTCAAATA-TTATAATTTTA
* * * *
8406785 CCCATATTTTTTTAGATTTTATAATTTTA
1 CCCCTA-TTTTTCAAATATTATAATTTTA
* * *
8406814 CCCCTATTTTTCATATTTTATAGTTTT
1 CCCCTATTTTTCAAATATTATAATTTT
8406841 GTTCCTTATT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.01
28 51 0.53
29 44 0.46
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.55
Consensus pattern (28 bp):
CCCCTATTTTTCAAATATTATAATTTTA
Found at i:8406796 original size:57 final size:57
Alignment explanation
Indices: 8406700--8406840 Score: 153
Period size: 57 Copynumber: 2.5 Consensus size: 57
8406690 GACCGTGTGT
* * *
8406700 CCCCTATGTTTT--AAATATTACAATTTTATCCCCTATTTTTCATATATTATAATTTTA
1 CCCCTAT-TTTTCAAAAT-TTATAATTTTATCCCATATTTTTCAGATATTATAATTTTA
* * *
8406757 CCCTTATTTTTCAAAATTTATAATTTTA-CCCATATTTTTTTAGATTTTATAATTTTA
1 CCCCTATTTTTCAAAATTTATAATTTTATCCCATA-TTTTTCAGATATTATAATTTTA
* * *
8406814 CCCCTATTTTTCATATTTTATAGTTTT
1 CCCCTATTTTTCAAAATTTATAATTTT
8406841 GTTCCTTATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
56 9 0.13
57 58 0.82
58 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.55
Consensus pattern (57 bp):
CCCCTATTTTTCAAAATTTATAATTTTATCCCATATTTTTCAGATATTATAATTTTA
Found at i:8406850 original size:29 final size:31
Alignment explanation
Indices: 8406828--8406900 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
8406818 TATTTTTCAT
8406828 ATTTTATAGTTTTGT-TCCTTATTTTTAAAAA
1 ATTTTATAGTTTTGTCTCCTTATTTTT-AAAA
* *
8406859 ATTTTATAGTTTTGTCTCC-TA-CTTTATAA
1 ATTTTATAGTTTTGTCTCCTTATTTTTAAAA
*
8406888 ATTTTACAGTTTT
1 ATTTTATAGTTTT
8406901 AACCAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 15 0.39
30 3 0.08
31 17 0.45
32 3 0.08
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.58
Consensus pattern (31 bp):
ATTTTATAGTTTTGTCTCCTTATTTTTAAAA
Found at i:8408734 original size:48 final size:48
Alignment explanation
Indices: 8408682--8408829 Score: 122
Period size: 48 Copynumber: 3.2 Consensus size: 48
8408672 CATACATGGT
8408682 ATTATAGAAAAAGTTAAAGGACAAAATGGTAAATATTTGAGTTAGATA
1 ATTATAGAAAAAGTTAAAGGACAAAATGGTAAATATTTGAGTTAGATA
* * ** *
8408730 ATTAT-G-AAAATTTACCAAAAGA-AAGAAT-G--AATCA--T-ACAT-GGT-
1 ATTATAGAAAAAGTT---AAAGGACAA-AATGGTAAAT-ATTTGAGTTAGATA
8408772 ATTATAGAAAAAGTTAAAGGACAAAATGGTAAATATTTGAGTTAGATA
1 ATTATAGAAAAAGTTAAAGGACAAAATGGTAAATATTTGAGTTAGATA
8408820 ATTATA-AAAA
1 ATTATAGAAAA
8408830 GTGTAATGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 33
0.63 0.09 0.28
Matches are distributed among these distances:
41 8 0.11
42 8 0.11
43 4 0.05
44 11 0.15
45 2 0.03
46 11 0.15
47 8 0.11
48 14 0.19
49 8 0.11
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.28
Consensus pattern (48 bp):
ATTATAGAAAAAGTTAAAGGACAAAATGGTAAATATTTGAGTTAGATA
Found at i:8408756 original size:90 final size:90
Alignment explanation
Indices: 8408644--8408829 Score: 363
Period size: 90 Copynumber: 2.1 Consensus size: 90
8408634 GGACTAGAGG
8408644 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
1 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
8408709 GGTAAATATTTGAGTTAGATAATTA
66 GGTAAATATTTGAGTTAGATAATTA
8408734 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
1 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
8408799 GGTAAATATTTGAGTTAGATAATTA
66 GGTAAATATTTGAGTTAGATAATTA
*
8408824 TAAAAA
1 TGAAAA
8408830 GTGTAATGAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 95 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (90 bp):
TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
GGTAAATATTTGAGTTAGATAATTA
Done.