Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 87 of 109
Found at i:27893523 original size:15 final size:16
Alignment explanation
Indices: 27893444--27893533 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 16
27893434 ACATTCGGCT
*
27893444 GAAGGAGAAGAAAGGA
1 GAAGAAGAAGAAAGGA
*
27893460 GAAGAAAGAA-AAAAGA
1 GAAG-AAGAAGAAAGGA
27893476 -AAGAA-AAGGAAAGGA
1 GAAGAAGAA-GAAAGGA
27893491 GAAGAAAGGAAAGGAAAGGA
1 GAAG-AA-G-AA-GAAAGGA
*
27893511 GAAGAAGAA-AAAGAA
1 GAAGAAGAAGAAAGGA
*
27893526 GGAGAAGA
1 GAAGAAGA
27893534 CACGGGAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
13 2 0.03
14 2 0.03
15 20 0.33
16 12 0.20
17 8 0.13
18 1 0.02
19 2 0.03
20 14 0.23
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAGAAGAAGAAAGGA
Found at i:27893563 original size:48 final size:49
Alignment explanation
Indices: 27893445--27893567 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 49
27893435 CATTCGGCTG
27893445 AAGGAGAAGA-AAGGAGAAGAAAGAAAAAAGAAAGAAAAGGAAAGGAGAAGA
1 AAGGA-AAGAGAAGGAGAAG-AAG-AAAAAGAAAGAAAAGGAAAGGAGAAGA
* * *
27893496 AAGGAAAG-GAAAGGAGAAGAAGAAAAAGAAGGAGAA-GACACGG-GAA-A
1 AAGGAAAGAG-AAGGAGAAGAAGAAAAAGAAAGAAAAGGA-AAGGAGAAGA
27893543 AAGAGAAAGAGAAGGAGAAGAAGAA
1 AAG-GAAAGAGAAGGAGAAGAAGAA
27893568 GGTATTTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
47 4 0.06
48 24 0.38
49 16 0.25
50 6 0.09
51 14 0.22
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (49 bp):
AAGGAAAGAGAAGGAGAAGAAGAAAAAGAAAGAAAAGGAAAGGAGAAGA
Found at i:27893754 original size:70 final size:70
Alignment explanation
Indices: 27893610--27893749 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 70
27893600 GTATTATTTG
** * * * *
27893610 TGTAAAAAACTAATGTTATGTAGTTTTATTATTTTATTTAGCATATATTTTTTATGAGATTTATT
1 TGTAAAAAACTAATGTTATGTAGCATTACTATGTTAATTAGCATATATTTTTTATGAAATTTATT
27893675 TAGCA
66 TAGCA
*
27893680 TGTAAAAAACTCATGTTATGTA-CATT-CTATGTTAATTAG-ATATATTTTTTATGAAATTTATT
1 TGTAAAAAACTAATGTTATGTAGCATTACTATGTTAATTAGCATATATTTTTTATGAAATTTATT
27893742 TAGCA
66 TAGCA
27893747 TGT
1 TGT
27893750 TGTAATGAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 30 0.48
68 10 0.16
69 2 0.03
70 21 0.33
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (70 bp):
TGTAAAAAACTAATGTTATGTAGCATTACTATGTTAATTAGCATATATTTTTTATGAAATTTATT
TAGCA
Found at i:27893803 original size:16 final size:16
Alignment explanation
Indices: 27893782--27893831 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
27893772 AAATAACATT
27893782 AAAAATAAAATACTGA
1 AAAAATAAAATACTGA
***
27893798 AAAAATATGTTTA-TGA
1 AAAAATA-AAATACTGA
27893814 AAAAATAAAATAC-GA
1 AAAAATAAAATACTGA
27893829 AAA
1 AAA
27893832 GAAATAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 17 0.65
17 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATACTGA
Found at i:27893845 original size:17 final size:17
Alignment explanation
Indices: 27893816--27893848 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27893806 GTTTATGAAA
*
27893816 AAATAAAATACGAAAAG
1 AAATAAAAAACGAAAAG
27893833 AAATAAAAAACGAAAA
1 AAATAAAAAACGAAAA
27893849 TAGTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAAAACGAAAAG
Found at i:27894781 original size:161 final size:160
Alignment explanation
Indices: 27893834--27895531 Score: 2647
Period size: 161 Copynumber: 10.6 Consensus size: 160
27893824 TACGAAAAGA
* * ** * *
27893834 AATAAAAAACGAAAATAGTATATTTACTGAAAGA-AATAAAAT-T-TGAAAATAA-AAAAATTAC
1 AATAAAATACAAAAATAGTATATTTTTTGAAA-ATAATAAAATCTGGGAAAA-AAGAAAAA-TAT
* * * * * * * *
27893895 GAACAAAGGGCCAAAATAATGATTTTTTACTAATTTTTTTTAAAAACACACACTAAATTAATATA
63 GAAAAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACA
* *
27893960 TTTCAAACATAATGTAGTAAAATAATATAAAAA
128 TTTCAAACATAATGTACTAAAATAATATAAAAT
* *
27893993 AATAAAATACAAAAATAGTATA-TTTTTGAAAGTAATAAAAT-TCGGGAAAAAAAGAAAAATAAG
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCT-GGG-AAAAAAGAAAAATATG
* * * *
27894056 -AACAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTA--TATAAAAACAAACTAAATTAATACA
64 AAAAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACA
27894118 TTTCAAACATAATGTACTAAAATAATATAAAAT
128 TTTCAAACATAATGTACTAAAATAATATAAAAT
* * * *
27894151 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATAGGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
* * *
27894216 CAAAA-GGCCAAAATAAGGGTTTTTTTACTAAATTTA--TATAAAAACAAACTAAATTAATACAT
66 -AAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACAT
27894278 TTCAAACATAATGTACTAAAATAATATAAAAT
129 TTCAAACATAATGTACTAAAATAATATAAAAT
** * * *
27894310 AATAAAATACGGAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATAGGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
* * *
27894375 CAAAA-GGCCAAAATAAGGGTTTTTTTACTAAATTTA--TATAAAAACAAACTAAATTAATACAT
66 -AAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACAT
27894437 TTCAAACATAATGTACTAAAATAATATAAAAT
129 TTCAAACATAATGTACTAAAATAATATAAAAT
* * * *
27894469 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
27894534 CAAAA-GGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
66 -AAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
*
27894598 TCAAACGTAATGTACTAAAATAATATAAAAT
130 TCAAACATAATGTACTAAAATAATATAAAAT
27894629 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
27894694 AAAAGGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
66 AAAA-GGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
*
27894759 TCAAACGTAATGTACTAAAATAATATAAAAT
130 TCAAACATAATGTACTAAAATAATATAAAAT
27894790 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
27894855 AAAAGGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
66 AAAA-GGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
*
27894920 TCAAACGTAATGTACTAAAATAATATAAAAT
130 TCAAACATAATGTACTAAAATAATATAAAAT
27894951 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
27895016 AAAAGGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
66 AAAA-GGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
*
27895081 TCAAACGTAATGTACTAAAATAATATAAAAT
130 TCAAACATAATGTACTAAAATAATATAAAAT
27895112 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
27895177 AAAAGGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
66 AAAA-GGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
*
27895242 TCAAACGTAATGTACTAAAATAATATAAAAT
130 TCAAACATAATGTACTAAAATAATATAAAAT
27895273 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
* *
27895338 AAAAGGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATCAATGCATT
66 AAAA-GGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATT
27895403 TCAAACATAATGTACTAAAATAATATAAAAT
130 TCAAACATAATGTACTAAAATAATATAAAAT
* * * *
27895434 AATAAAATACGAAAATAGTATATTTTTT-AAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
* *
27895498 CAAAGGGCCAAAATAAGAGTTTTTTACTAAATTT
66 AAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
27895532 GTTTTGAAGT
Statistics
Matches: 1482, Mismatches: 43, Indels: 28
0.95 0.03 0.02
Matches are distributed among these distances:
158 120 0.08
159 421 0.28
160 174 0.12
161 767 0.52
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (160 bp):
AATAAAATACAAAAATAGTATATTTTTTGAAAATAATAAAATCTGGGAAAAAAGAAAAATATGAA
AAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAAACACACTAAATGAATACATTT
CAAACATAATGTACTAAAATAATATAAAAT
Found at i:27898477 original size:12 final size:12
Alignment explanation
Indices: 27898456--27898487 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27898446 AGATCCTAAT
*
27898456 CTCGAACCGGAG
1 CTCGAGCCGGAG
27898468 CTCGAGCCGGAG
1 CTCGAGCCGGAG
27898480 CTCGAGCC
1 CTCGAGCC
27898488 AAATCCCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.38, G:0.34, T:0.09
Consensus pattern (12 bp):
CTCGAGCCGGAG
Found at i:27902034 original size:3 final size:3
Alignment explanation
Indices: 27902026--27902053 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27902016 TAACTAACAC
27902026 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27902054 GTTTTTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27902110 original size:40 final size:38
Alignment explanation
Indices: 27902029--27902126 Score: 121
Period size: 37 Copynumber: 2.6 Consensus size: 38
27902019 CTAACACAAT
* **
27902029 AATAATAATAA-TAATAATAATAATAGTTTTTTACTAAA
1 AATAAT-ATAACTAACAATAATAATAGGGTTTTACTAAA
27902067 AATAATACTAACTAACAATAATAATTAGGGTTTTACTAAA
1 AATAATA-TAACTAACAATAATAA-TAGGGTTTTACTAAA
27902107 AAT-A-ATAACTAACAATAATA
1 AATAATATAACTAACAATAATA
27902127 TAAATAACTA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
37 16 0.30
38 10 0.19
39 12 0.22
40 16 0.30
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (38 bp):
AATAATATAACTAACAATAATAATAGGGTTTTACTAAA
Found at i:27902488 original size:27 final size:27
Alignment explanation
Indices: 27902458--27902529 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
27902448 AATGGTGCAG
* * *
27902458 TGGTGCCGCCTGTGGCAGTGGTACCTT
1 TGGTGCCACCTGTGGCAGAGGCACCTT
* * *
27902485 TGGTGCCACCTCTGCCACAGGCACCTT
1 TGGTGCCACCTGTGGCAGAGGCACCTT
* *
27902512 TGGTGTCTCCTGTGGCAG
1 TGGTGCCACCTGTGGCAG
27902530 GCCCTCCACC
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.31, G:0.32, T:0.28
Consensus pattern (27 bp):
TGGTGCCACCTGTGGCAGAGGCACCTT
Found at i:27902952 original size:20 final size:19
Alignment explanation
Indices: 27902929--27902977 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
27902919 TTGTGTTAGT
*
27902929 AAAAAAATGAATGAAAAAAG
1 AAAAAAAAGAATG-AAAAAG
**
27902949 AAAAAAAAGTTTGAAAAAG
1 AAAAAAAAGAATGAAAAAG
27902968 AAAAAAAAGA
1 AAAAAAAAGA
27902978 GCTGGAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (19 bp):
AAAAAAAAGAATGAAAAAG
Found at i:27902986 original size:20 final size:19
Alignment explanation
Indices: 27902943--27902987 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27902933 AAATGAATGA
**
27902943 AAAAAGAAAAAAAAGTTTG
1 AAAAAGAAAAAAAAGGCTG
27902962 AAAAAGAAAAAAAAGAGCTG
1 AAAAAGAAAAAAAAG-GCTG
*
27902982 GAAAAG
1 AAAAAG
27902988 CAGAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.20, T:0.09
Consensus pattern (19 bp):
AAAAAGAAAAAAAAGGCTG
Found at i:27907235 original size:23 final size:23
Alignment explanation
Indices: 27907205--27907249 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27907195 GTATGTTTTG
27907205 AATGTTTGAGATTAAGCAATTTA
1 AATGTTTGAGATTAAGCAATTTA
**
27907228 AATGTTTGAGATTGTGCAATTT
1 AATGTTTGAGATTAAGCAATTT
27907250 GGGTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.42
Consensus pattern (23 bp):
AATGTTTGAGATTAAGCAATTTA
Found at i:27917855 original size:255 final size:253
Alignment explanation
Indices: 27917119--27918072 Score: 1630
Period size: 253 Copynumber: 3.8 Consensus size: 253
27917109 AAAAAATAAT
* * * * * *
27917119 GGCCAAAATG--AAAAATGTTTAAACATTAGGGGCTAAATTTATCTTCATGCCTAAATATAAAGG
1 GGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAAGC
*** * *
27917182 CCCAATTGTTAAAAAAATTTTC-AAAAAAACTCCGATACCTTTTTTAAAGAATAGAATATCTTTC
66 CCCAATTGTT-AAATTTTTTTCTAAAAAAACTCTGATACTTTTTTTAAAGAATAGAATATCTTTC
* *
27917246 TACAACTTTCTTTCTTTTTTCCCTTCAAATGTGTATTCTTAATTCCCCAATGATGGAAAACCTTG
130 TACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCTTG
*
27917311 CCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTT-AAAGATGAG
195 CCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTGAG
27917369 GGCCAAAATGAAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAAG
1 GGCCAAAATG-AAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAAG
*
27917434 TCCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATACTTTTTTTAAAGAATAGAATATCTTTC
65 CCCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATACTTTTTTTAAAGAATAGAATATCTTTC
*
27917499 TACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAAGCTTG
130 TACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCTTG
*
27917564 CCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTGGG
195 CCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTGAG
27917623 GGCCAAAATG-AAAAAATGATTAAACATTAGGGGCTGATTTTTATCTTTATACCTAAATATAAAG
1 GGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGA-TTTTATCTTTATACCTAAATATAAAG
27917687 CCCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATACTTTTTTTTTAAAGAATAGAATATCTT
65 CCCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATAC--TTTTTTTAAAGAATAGAATATCTT
27917752 TCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCT
128 TCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCT
27917817 TGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTGAG
193 TGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTGAG
* *
27917878 GGCCAAAATGAAAAAAATGATTAAACATTAGAGGCTGATTTTATCTTTACACCTAAATATAAAGC
1 GGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAAGC
*
27917943 CCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATATTTTTTTTTAAAGAATAGAATATCTTTC
66 CCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATA-CTTTTTTTAAAGAATAGAATATCTTTC
*
27918008 TACAACTTTCTTTCCTTTTTCCCTTCAAAAGTGTATTCTTAATTCCCTAATGATGGAAAACCTTG
130 TACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCTTG
27918073 GCAAAATTAA
Statistics
Matches: 671, Mismatches: 23, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
250 10 0.01
252 35 0.05
253 272 0.41
254 107 0.16
255 221 0.33
256 26 0.04
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (253 bp):
GGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAAGC
CCCAATTGTTAAATTTTTTTCTAAAAAAACTCTGATACTTTTTTTAAAGAATAGAATATCTTTCT
ACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCTTGC
CAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTGAG
Found at i:27920647 original size:16 final size:16
Alignment explanation
Indices: 27920626--27920659 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27920616 TCTTCAAGTA
*
27920626 AAGAAAGATTACACCC
1 AAGAAAGAGTACACCC
*
27920642 AAGAAAGAGTACGCCC
1 AAGAAAGAGTACACCC
27920658 AA
1 AA
27920660 AGTATTGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.18, T:0.09
Consensus pattern (16 bp):
AAGAAAGAGTACACCC
Found at i:27923382 original size:11 final size:11
Alignment explanation
Indices: 27923366--27923399 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27923356 AATATGGTGT
27923366 AAAGAAAATAA
1 AAAGAAAATAA
27923377 AAAGAAAATAA
1 AAAGAAAATAA
* *
27923388 AACGAGAATAA
1 AAAGAAAATAA
27923399 A
1 A
27923400 TAAAAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:27929131 original size:16 final size:16
Alignment explanation
Indices: 27929110--27929181 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
27929100 CGTTTAGTTC
27929110 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
27929126 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
27929142 GTTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
* *
27929158 ACTATAATGGAATAGA
1 GCTGTAATGGAATAGA
*
27929174 GCTATAAT
1 GCTGTAAT
27929182 CAGTAATTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:27929458 original size:62 final size:62
Alignment explanation
Indices: 27929366--27929486 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 62
27929356 TAAATTTAAT
* * *
27929366 AATAAATAATTTAGTCATATTTTAATATAATTATTA-CCAAATAT-AATTTAATAAAAATGAA
1 AATAAATAATTTAGTAACATTTTAATATAATTATTATCAAAATATGAA-TTAATAAAAATGAA
* *
27929427 AATATATAATTTAGTAACATTCTTAATATAATTATTATTAAAATATGAATTAATAAAAAT
1 AATAAATAATTTAGTAACATT-TTAATATAATTATTATCAAAATATGAATTAATAAAAAT
27929487 CATAACATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 18 0.35
62 15 0.29
63 17 0.33
64 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (62 bp):
AATAAATAATTTAGTAACATTTTAATATAATTATTATCAAAATATGAATTAATAAAAATGAA
Found at i:27930375 original size:63 final size:63
Alignment explanation
Indices: 27930298--27930426 Score: 231
Period size: 63 Copynumber: 2.0 Consensus size: 63
27930288 TCACATGGAG
*
27930298 ATATTCTTATCACATCAAGAATGAGGCGCATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
1 ATATTCTTATCACATCAAGAATGAGGCACATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
* *
27930361 ATATTCTTATCACATCGAGAATGAGGCATATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
1 ATATTCTTATCACATCAAGAATGAGGCACATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
27930424 ATA
1 ATA
27930427 AATCAGGTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (63 bp):
ATATTCTTATCACATCAAGAATGAGGCACATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
Found at i:27931645 original size:30 final size:28
Alignment explanation
Indices: 27931587--27931645 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
27931577 CGCATTCAAG
* *
27931587 TTAGCCCATTTTTTCGTTTTAATTCAAT
1 TTAGCCCATTTTTTAGTTTTAATACAAT
*
27931615 TTAGCCCATTTTTTTAGTTTTTATCACAAT
1 TTAGCCCA-TTTTTTAGTTTTAAT-ACAAT
27931645 T
1 T
27931646 ACGCCATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 13 0.50
30 5 0.19
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (28 bp):
TTAGCCCATTTTTTAGTTTTAATACAAT
Found at i:27933957 original size:13 final size:13
Alignment explanation
Indices: 27933939--27933965 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27933929 AAAGAGATTT
27933939 GTTTTCTAGTGAA
1 GTTTTCTAGTGAA
27933952 GTTTTCTAGTGAA
1 GTTTTCTAGTGAA
27933965 G
1 G
27933966 AATTGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (13 bp):
GTTTTCTAGTGAA
Found at i:27935926 original size:18 final size:19
Alignment explanation
Indices: 27935903--27935941 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
27935893 GCAAATGTTC
27935903 TTTCATTCTTT-ACATTTT
1 TTTCATTCTTTCACATTTT
*
27935921 TTTCATTCTTTCAGATTTT
1 TTTCATTCTTTCACATTTT
27935940 TT
1 TT
27935942 CTGTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCATTCTTTCACATTTT
Found at i:27939377 original size:221 final size:221
Alignment explanation
Indices: 27938124--27939265 Score: 2221
Period size: 221 Copynumber: 5.2 Consensus size: 221
27938114 GTGATGATAA
*
27938124 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGAG
1 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
27938189 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
66 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
* * *
27938254 TGTTGAATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTTG
131 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
27938319 GCAGCAGCGAAATGGATTGAAGATTT
196 GCAGCAGCGAAATGGATTGAAGATTT
27938345 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
1 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
27938410 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
66 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
27938475 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
131 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
27938540 GCAGCAGCGAAATGGATTGAAGATTT
196 GCAGCAGCGAAATGGATTGAAGATTT
27938566 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
1 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
27938631 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
66 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
27938696 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
131 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
27938761 GCAGCAGCGAAATGGATTGAAGATTT
196 GCAGCAGCGAAATGGATTGAAGATTT
27938787 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
1 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
27938852 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
66 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
27938917 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
131 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
27938982 GCAGCAGCGAAATGGATTGAAGATTT
196 GCAGCAGCGAAATGGATTGAAGATTT
27939008 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
1 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
27939073 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
66 ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
27939138 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
131 TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
27939203 GCAGCAGCGAAATGGATTGAAGATTT
196 GCAGCAGCGAAATGGATTGAAGATTT
* * *
27939229 CAGATCTTGCCTTCCTGCATAGACAGCGGAGCAGATC
1 CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATC
27939266 AAAGATGTTG
Statistics
Matches: 914, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 914 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (221 bp):
CAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGCCACCAACCTCGCCTCCCTCGGAG
ACAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCAGGATAGAGAGCGGAGCAGATCAAAGA
TGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATAATTCTACTTCCCTTG
GCAGCAGCGAAATGGATTGAAGATTT
Found at i:27939656 original size:264 final size:263
Alignment explanation
Indices: 27939123--27939713 Score: 895
Period size: 264 Copynumber: 2.2 Consensus size: 263
27939113 GATAGAGAGC
*
27939123 GGAGCAGATCAAAGATGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATA
1 GGAGCAGATCAAAGATG-TGAATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAATA
*
27939188 ATTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGCCTTCCTGCATAGAC
65 ATTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGCCTCCCTGCA-AGAC
* *
27939253 AGCGGAGCAGATCAAAGATGTTGAATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCA
129 AGCGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
*
27939318 GTAATTCTACTTCTCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTTCCTCCCTAAGCA
194 GTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTTCCTCCCTAAGCA
27939383 GTAGT
259 GTAGT
27939388 GGAGCAGATCAAAGATG-GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAAT
1 GGAGCAGATCAAAGATGTG-A-ATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAAT
*
27939452 AATTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGTCTCCCT--AAGCA
64 AATTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGCCTCCCTGCAAG-A
* * ** *
27939515 GTAGTGGAGCAGATCAAAGATGGTGGGTTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
128 -CAGCGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* * * *
27939580 CAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAATATTTCAGATCTTGT-TTCTCTA
192 CAGTAATTCTACT-TCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTT-TCCTCCCTA
*
27939643 AGCAGTGGT
255 AGCAGTAGT
* * *
27939652 GGAGCAGATCAAAGATAGTGAATTTTACCTCCCTGTGTTTACAGTGGAGTACATTGAAGCCA
1 GGAGCAGATCAAAGAT-GTGAATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCA
27939714 GTTACCCTAT
Statistics
Matches: 299, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
262 2 0.01
263 4 0.01
264 174 0.58
265 118 0.39
266 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (263 bp):
GGAGCAGATCAAAGATGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAATAA
TTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGCCTCCCTGCAAGACAG
CGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
AATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTTCCTCCCTAAGCAGT
AGT
Found at i:27939730 original size:132 final size:131
Alignment explanation
Indices: 27939123--27939715 Score: 809
Period size: 132 Copynumber: 4.5 Consensus size: 131
27939113 GATAGAGAGC
* * *
27939123 GGAGCAGATCAAAGATGTTGAATTTTACCTCCCTGAGGTTACAGTGGAGGATATTGAAGCCAATA
1 GGAGCAGATCAAAGATG-TGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
27939188 ATTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGCCTTCCT--GCATAG
65 ATTCTACTTCCCTGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC--AG
* *
27939251 ACAGC
128 -TAGT
*
27939256 GGAGCAGATCAAAGATGTTGAATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATG-TGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
27939321 ATTCTACTTCTCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTT-TCCTCCCTAAGCAGT
65 ATTCTACTTCCCTGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGT-CTCCCTAAGCAGT
27939385 AGT
129 AGT
* *
27939388 GGAGCAGATCAAAGATG-GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAAT
1 GGAGCAGATCAAAGATGTG-A-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
* *
27939452 AATTCTACTTCCCTTGGCAGCAGCGAAATGGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
64 AATTCTACTTCCCTGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
27939517 AGT
129 AGT
** *
27939520 GGAGCAGATCAAAGATGGTGGGTTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGAT-GTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
27939585 ATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAATATTTCAGATCTTGTTTCTCTAAGCAGT
65 ATTCTACT-TCCCTGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
*
27939649 GGT
129 AGT
* *
27939652 GGAGCAGATCAAAGATAGTGAATTTTACCTCCCTGTGTTTACAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCAAAGAT-GTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
27939716 TACCCTATTT
Statistics
Matches: 415, Mismatches: 36, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
130 1 0.00
131 2 0.00
132 294 0.71
133 115 0.28
134 1 0.00
135 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (131 bp):
GGAGCAGATCAAAGATGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
TTCTACTTCCCTGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
T
Found at i:27940358 original size:17 final size:17
Alignment explanation
Indices: 27940327--27940360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27940317 CGGAGCCAGC
*
27940327 CTCCTCCACATGCGCCA
1 CTCCTCCACACGCGCCA
*
27940344 CTCCTCCACGCGCGCCA
1 CTCCTCCACACGCGCCA
27940361 TGCCTTGCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.56, G:0.15, T:0.15
Consensus pattern (17 bp):
CTCCTCCACACGCGCCA
Found at i:27943810 original size:16 final size:16
Alignment explanation
Indices: 27943784--27943822 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27943774 AATAATTTTT
*
27943784 AAAATAATAAAATATTC
1 AAAA-AATAAAAAATTC
27943801 AAAAAATAAAAAATTC
1 AAAAAATAAAAAATTC
27943817 AAAAAA
1 AAAAAA
27943823 GTATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAATAAAAAATTC
Found at i:27944151 original size:36 final size:32
Alignment explanation
Indices: 27944105--27944171 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 32
27944095 CAAATTTATG
*
27944105 ATATCCATATTGCAATTTTTTATATATTTATTTTTA
1 ATATCAATATT-C-ATTTTTTATA-A-TTATTTTTA
27944141 ATATCAATATTCATTTTTTATAATTATTTTT
1 ATATCAATATTCATTTTTTATAATTATTTTT
27944172 TAGGTATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 8 0.27
33 1 0.03
34 10 0.33
35 1 0.03
36 10 0.33
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (32 bp):
ATATCAATATTCATTTTTTATAATTATTTTTA
Found at i:27952327 original size:50 final size:49
Alignment explanation
Indices: 27952239--27952552 Score: 186
Period size: 50 Copynumber: 6.3 Consensus size: 49
27952229 GATTCGTCAT
* * *
27952239 TGTGACTTTAATCCTTTTAACTGCAATGTTGGGAAAGTAAGATTCGCTGC
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGG-AAGTAAGATTCGCTGC
* * * *
27952289 TGTAGCTTTAATCTTTTTAACCGCAATGTCGAGGAAGTAGGATACGACAT--
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCG-GGAAGTAAGATTCG-C-TGC
*** ** * * * * * *
27952339 TGTGGCTTTAATCAGCTCCACTGC-ATCTCCAGGAAAGTAACACTCACCGC
1 TGTGGCTTTAATCTTTTTAACTGCAATGT-C-GGGAAGTAAGATTCGCTGC
* * * * * *
27952389 TATGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGTAAGATTCGCTGC
* *** * * * *
27952439 TGTGGCTTTAATCTGTTCCGCTGC-ATCGCCTGGGGAGTAAGATTTGCTGT
1 TGTGGCTTTAATCTTTTTAACTGCAAT-GTC-GGGAAGTAAGATTCGCTGC
* * * *
27952489 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGTAAGATTCGCTGC
27952539 TGTGGCTTTAATCT
1 TGTGGCTTTAATCT
27952553 GTTCCACTGC
Statistics
Matches: 192, Mismatches: 62, Indels: 20
0.70 0.23 0.07
Matches are distributed among these distances:
49 6 0.03
50 176 0.92
51 9 0.05
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (49 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGAAGTAAGATTCGCTGC
Found at i:27952374 original size:100 final size:101
Alignment explanation
Indices: 27952270--27952563 Score: 337
Period size: 100 Copynumber: 2.9 Consensus size: 101
27952260 TGCAATGTTG
* * * * *
27952270 GGAAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCGAGGAAGTAGGATACG
1 GGAAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
* * *
27952335 AC-ATTGTGGCTTTAATCAGCTCCACTGCATCTCCA
66 ACGATTGTGGCTTTAATCTGTTCCACTGCATCGCCA
* * * * * * *
27952370 GGAAAGTAACACTCACCGCTATGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC-
1 GGAAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
* *
27952434 ACCGA-TGTGGCTTTAATCTGTTCCGCTGCATCGCCT
66 A-CGATTGTGGCTTTAATCTGTTCCACTGCATCGCCA
** * * *
27952470 GGGGAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
1 GGAAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
27952535 -CTG-TTGTGGCTTTAATCTGTTCCACTGCA
66 AC-GATTGTGGCTTTAATCTGTTCCACTGCA
27952564 CCGTTTGGGA
Statistics
Matches: 159, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
99 2 0.01
100 156 0.98
101 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (101 bp):
GGAAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
ACGATTGTGGCTTTAATCTGTTCCACTGCATCGCCA
Found at i:27952574 original size:50 final size:50
Alignment explanation
Indices: 27952408--27952575 Score: 156
Period size: 50 Copynumber: 3.4 Consensus size: 50
27952398 AGTCTTTTTA
* * * * *
27952408 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
1 ACTGCAACGTCTGGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCC
* * * * * * * * **
27952458 GCTGCATCGCCTGGGGAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
1 ACTGCAACGTCTGGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCC
* * *
27952508 ACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCC
1 ACTGCAACGTCTGGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCC
* *
27952558 ACTGCACCGTTTGGGAAG
1 ACTGCAACGTCTGGGAAG
27952576 ATTGTAATTC
Statistics
Matches: 86, Mismatches: 32, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (50 bp):
ACTGCAACGTCTGGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCC
Found at i:27952690 original size:44 final size:44
Alignment explanation
Indices: 27952640--27952801 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
27952630 GATCTACTCT
*
27952640 ACTGTAACTTCAGAGAGATAAAATCTTTTATTTTAATCCGCTCC
1 ACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCC
* * *
27952684 ACTGTAA-TCTCAGGGAGATAAGAT-TTTTGGCTTTAATCTAATGCGATCTACTC
1 ACTGTAACT-TCAGAGAGATAAGATCTTTT---ATT--T-TAATCCG--CT-C-C
*
27952737 TACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCC
*
27952782 ACTGTAATCTT-AGGGAGATA
1 ACTGTAA-CTTCAGAGAGATA
27952802 GGATTACTGG
Statistics
Matches: 94, Mismatches: 9, Indels: 30
0.71 0.07 0.23
Matches are distributed among these distances:
43 5 0.05
44 35 0.37
45 4 0.04
46 3 0.03
47 2 0.02
48 1 0.01
49 12 0.13
50 1 0.01
51 2 0.02
52 3 0.03
53 1 0.01
54 21 0.22
55 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (44 bp):
ACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCC
Found at i:27952799 original size:98 final size:98
Alignment explanation
Indices: 27952630--27952821 Score: 321
Period size: 98 Copynumber: 2.0 Consensus size: 98
27952620 GTCCTGATGT
*
27952630 GATCTACTCTACTGTAACTTCAGAGAGATAAAATCTTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTGTAATCTC
** *
27952695 AGGGAGATAAGATTTTTGGCTTTAATCTAATGC
66 AGGGAGATAAGATTACTGGCTTCAATCTAATGC
* *
27952728 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTGTAATCTC
*
27952793 AGGGAGATAGGATTACTGGCTTCAATCTA
66 AGGGAGATAAGATTACTGGCTTCAATCTA
27952822 CTTCCTTATA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (98 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTGTAATCTC
AGGGAGATAAGATTACTGGCTTCAATCTAATGC
Found at i:27953165 original size:88 final size:88
Alignment explanation
Indices: 27952940--27953167 Score: 348
Period size: 88 Copynumber: 2.6 Consensus size: 88
27952930 AGACTTGTAA
* * * *
27952940 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATTTGCTATCTTCAACCTACTCCACTCC
1 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATTTGTTATCTTTAACCTACTCCACTCC
** * *
27953005 AACTGATGGAGGCAAGGCTGGGG
66 AACCAATGGACGCAAGGCTGGAG
* *
27953028 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATTTGTTATCTTTAACCTACTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATTTGTTATCTTTAACCTACTCCACTCC
27953093 AACCAATGGACGCAAGGCTGGAG
66 AACCAATGGACGCAAGGCTGGAG
* *
27953116 TCTTCGATCTGCTTCGCTGTCTATCCAGGAAGGCAAGATCTGTTATCTTTAA
1 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATTTGTTATCTTTAA
27953168 TTATTAATTA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 127 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATTTGTTATCTTTAACCTACTCCACTCC
AACCAATGGACGCAAGGCTGGAG
Found at i:27955863 original size:37 final size:35
Alignment explanation
Indices: 27955819--27955891 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
27955809 GTGATAGCTT
*
27955819 TAGCTACACTTATCTGATTAAGAGACAAAGTGATAAG
1 TAGCTACACTTATCT-AATAAGAGAC-AAGTGATAAG
* * *
27955856 TAGCTACATTTATCTAATCAGTGACAAGTGATAAG
1 TAGCTACACTTATCTAATAAGAGACAAGTGATAAG
27955891 T
1 T
27955892 GATCATACGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 11 0.34
36 7 0.22
37 14 0.44
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (35 bp):
TAGCTACACTTATCTAATAAGAGACAAGTGATAAG
Found at i:27956628 original size:12 final size:12
Alignment explanation
Indices: 27956570--27956628 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
27956560 AAAATAAACC
27956570 AATAATAAAA-A
1 AATAATAAAATA
27956581 GGAATAATAAGAATA
1 --AATAATAA-AATA
*
27956596 AATAATAAGATA
1 AATAATAAAATA
27956608 AATAATAAAATA
1 AATAATAAAATA
*
27956620 AAAAATAAA
1 AATAATAAA
27956629 CAAACTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
12 22 0.54
13 16 0.39
14 2 0.05
15 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:27956637 original size:24 final size:24
Alignment explanation
Indices: 27956583--27956642 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
27956573 AATAAAAAGG
* *
27956583 AATAATAAGAATAAATAATAAGATA
1 AATAATAA-AATAAAAAATAAGACA
27956608 AATAATAAAATAAAAAATAA-ACA
1 AATAATAAAATAAAAAATAAGACA
27956631 AACTAATTAAAA
1 AA-TAA-TAAAA
27956643 ATATGAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.13
24 14 0.45
25 13 0.42
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (24 bp):
AATAATAAAATAAAAAATAAGACA
Found at i:27956755 original size:6 final size:6
Alignment explanation
Indices: 27956744--27956873 Score: 109
Period size: 6 Copynumber: 21.7 Consensus size: 6
27956734 ACAGTTCAAA
* ** * * * * *
27956744 AATAAT AATAAT AATAGT GGTAAA AATAAA AATAAA AATATT AGTAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* * * * *
27956792 AATAA- AAGTAAT AGTAAT AGTAAT AATAAC AATAAT AGTAAT AATAAA
1 AATAAT AA-TAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* *
27956840 AATAGT AATAAT AATAAT AATAAT AATAGT AATA
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATA
27956874 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
5 2 0.02
6 96 0.97
7 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:27956809 original size:15 final size:15
Alignment explanation
Indices: 27956746--27956873 Score: 106
Period size: 15 Copynumber: 8.9 Consensus size: 15
27956736 AGTTCAAAAA
27956746 TAATAATAATAATAG
1 TAATAATAATAATAG
** *
27956761 TGGTAAAAATAA-A-
1 TAATAATAATAATAG
* *
27956774 -AATAAAAATATTAG
1 TAATAATAATAATAG
27956788 TAATAAT-A-AA-AG
1 TAATAATAATAATAG
* * *
27956800 TAATAGTAATAGTAA
1 TAATAATAATAATAG
*
27956815 TAATAACAATAATAG
1 TAATAATAATAATAG
*
27956830 TAATAATAAAAATAG
1 TAATAATAATAATAG
*
27956845 TAATAATAATAATAA
1 TAATAATAATAATAG
*
27956860 TAATAATAGTAATA
1 TAATAATAATAATA
27956874 NNNNNNNNNN
Statistics
Matches: 87, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
12 16 0.18
13 3 0.03
14 3 0.03
15 65 0.75
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.30
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:27958542 original size:45 final size:45
Alignment explanation
Indices: 27958403--27959230 Score: 676
Period size: 45 Copynumber: 18.6 Consensus size: 45
27958393 CCTCAATCTA
* * * * ** *
27958403 CTCCATTGCAACCTCAAGGAGATAATA-TTAG-TATCTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAGTCTG
* * * *
27958447 CTCCACTGCAATTTCAGGGAGATAAGGCTGGTTA-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
* * * *
27958491 CCCCACTACAACTTCAGAGG-GATAATACTTGCTTTCTTCAGTCTG
1 CTCCACTGCAACTTCAG-GGAGATAAGACTTGCTATCTTCAGTCTG
* * *
27958536 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
* * ** * *
27958580 CTCCACTGCAATTTCAGGGAGATAGGA-TTATTGA-CTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ATCTTCAGTCTG
** * * *
27958624 CTCCACTAAAATTTTAGGGAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAGTCTG
* * *
27958669 CTCCACTACAACTTCAGGG-GCATAAGACTAGTTA-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAG-ATAAGACTTGCTATCTTCAGTCTG
* * * *
27958713 CCCCATTGCAACTTTAGAGG-GATAAGACTTGCTTTCTTCAGTCTG
1 CTCCACTGCAACTTCAG-GGAGATAAGACTTGCTATCTTCAGTCTG
* * * *
27958758 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
* * * * *
27958802 CTCCACTACAACTTCAGGGAGATAGGATTATTG-GAT-TT-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTATCTTCAGTCTG
*
27958846 CTCTACTGCAACTTCAGGGAGATAAGA-TT-CGTCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGC-T-ATCTTCAGTCTG
* * * *
27958891 CCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
27958936 CTCCACTGCAACTTCAGGGAGATAAGA-TT-CGTCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGC-T-ATCTTCAGTCTG
* * * *
27958981 CCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
* *
27959026 CTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAGTCTG
* ** * *
27959071 CCCCGTTGCAACTTCA-GGAGGATAAGTCTTGCTTTCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCTATCTTCAGTCTG
* * * **
27959116 CTCCACTGTAACTTCAGGGAGATAAGACTTG-TAACTTCAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
* * ** * * *
27959160 CTCCACTGCAACTTTAGGAAGATAAGA-TTATTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
* * * *
27959204 GTCCACTGCAGCTTTAGGTAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
27959231 TTCACCATCT
Statistics
Matches: 637, Mismatches: 115, Indels: 64
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.00
43 7 0.01
44 300 0.47
45 310 0.49
46 16 0.03
47 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTG
Found at i:27958592 original size:133 final size:132
Alignment explanation
Indices: 27958403--27959232 Score: 674
Period size: 133 Copynumber: 6.2 Consensus size: 132
27958393 CCTCAATCTA
* * * * * * * *
27958403 CTCCATTGCAACCTCAAGGAGATAATATTAGTATCTTCAACCTACTCCACTGCAATTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
27958468 ATAAGGCTGGTTACTTCAGTCTGCCCCACTACAACTTCAGAGG-GATAATACTTGCTTTCTTCAG
66 ATAAGACTGCTTACTTCAGTCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTGCTATCTTCAG
27958532 TCTG
129 TCTG
* *
27958536 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAATCTGCTCCACTGCAATTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAACTTCAATCTGCTCCACTGCAACTTCAGGGA
* ** * * ** * * *
27958600 GATAGGA-TTATTGACTTTAATCTGCTCCACTAAAATTTTAGGGAGATAAGATTCGCCATCTTCA
65 GATAAGACTGCTT-ACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCA
27958664 GTCTG
128 GTCTG
* * * * * * *
27958669 CTCCACTACAACTTCAGGG-GCATAAGACTAGTTACTTCAGTCTGCCCCATTGCAACTTTAGAGG
1 CTCCACTGCAACTTCAGGGAG-ATAAGATTAGTAACTTCAATCTGCTCCACTGCAACTTCAG-GG
* * *
27958733 -GATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTT
64 AGATAAGAC-TGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTC
*
27958796 AATCTG
127 AGTCTG
* * * * * *
27958802 CTCCACTACAACTTCAGGGAGATAGGATTATTGGA-TTTAATCTGCTCTACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGT-AACTTCAATCTGCTCCACTGCAACTTCAGGGA
* * * * *
27958866 GATAAGA-TTCGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTC
65 GATAAGACTGC-TTA-CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTC
*
27958930 AGTTTG
127 AGTCTG
* * * * *
27958936 CTCCACTGCAACTTCAGGGAGATAAGATTCGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGGG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGT-AACTTCAATCTGCTCCACTGCAACTTCAGGGA
* * * *
27959001 GATAAGACTTGCTTTCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTA
65 GATAAGAC-TGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCA
27959066 GTCTG
128 GTCTG
* ** * ** * *
27959071 CCCCGTTGCAACTTCA-GGAGGATAAG-TCTTGCTTTCTTCAGTCTGCTCCACTGTAACTTCAGG
1 CTCCACTGCAACTTCAGGGA-GATAAGAT-TAG-TAACTTCAATCTGCTCCACTGCAACTTCAGG
* * ** * * ** * *
27959134 GAGATAAGACTTG-TAACTTCAATCCACTCCACTGCAACTTTAGGAAGATAAGATTATTAGCTTT
63 GAGATAAGAC-TGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTC
*
27959198 AATCTG
127 AGTCTG
* * * *
27959204 GTCCACTGCAGCTTTAGGTAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
27959233 CACCATCTTC
Statistics
Matches: 557, Mismatches: 115, Indels: 50
0.77 0.16 0.07
Matches are distributed among these distances:
131 2 0.00
132 12 0.02
133 281 0.50
134 117 0.21
135 141 0.25
136 2 0.00
137 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTC
TG
Found at i:27958705 original size:222 final size:221
Alignment explanation
Indices: 27958447--27959054 Score: 828
Period size: 222 Copynumber: 2.7 Consensus size: 221
27958437 CTTCAACCTA
* * * *
27958447 CTCCACTGCAATTTCAGGGAGATAAGGCTGGTTACTTCAGTCTGCCCCACTACAACTTCAGAGGG
1 CTCCACTGCAACTTCAGGG-GATAAGACTAGTTACTTCAGTCTGCCCCACTGCAACTTCAGAGGG
*
27958512 ATAATACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAAT
65 ATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAAT
* * *
27958577 CTGCTCCACTGCAATTTCAGGGAGATAGGATTATT-GACTTTAATCTGCTCCACTAAAATTTTAG
130 CTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGA-TTTAATCTGCTCCACTAAAACTTCAG
27958641 GGAGATAAGATTCGCCATCTTCAGTCTG
194 GGAGATAAGATTCGCCATCTTCAGTCTG
* * *
27958669 CTCCACTACAACTTCAGGGGCATAAGACTAGTTACTTCAGTCTGCCCCATTGCAACTTTAGAGGG
1 CTCCACTGCAACTTCAGGGG-ATAAGACTAGTTACTTCAGTCTGCCCCACTGCAACTTCAGAGGG
*
27958734 ATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAAT
65 ATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAAT
* * **
27958799 CTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGATTTAATCTGCTCTACTGCAACTTCAGG
130 CTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGATTTAATCTGCTCCACTAAAACTTCAGG
*
27958864 GAGATAAGATTCGTCATCTTCAGTCTG
195 GAGATAAGATTCGCCATCTTCAGTCTG
* * * * *
27958891 CCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTGCTCCACTGCAACTTCAG-GG
1 CTCCACTGCAACTTCA-GGGGATAAGACTAG-TTACTTCAGTCTGCCCCACTGCAACTTCAGAGG
* * * **
27958955 AGATAAGA-TT-CGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCT
64 -GATAAGACTTGC-T-TTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACT
* * * *
27959018 TCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGATT
125 TTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT
27959055 CGCCATCTTT
Statistics
Matches: 342, Mismatches: 36, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
221 2 0.01
222 228 0.67
223 77 0.23
224 35 0.10
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (221 bp):
CTCCACTGCAACTTCAGGGGATAAGACTAGTTACTTCAGTCTGCCCCACTGCAACTTCAGAGGGA
TAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATC
TGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGATTTAATCTGCTCCACTAAAACTTCAGGG
AGATAAGATTCGCCATCTTCAGTCTG
Found at i:27965557 original size:12 final size:11
Alignment explanation
Indices: 27965488--27965565 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 11
27965478 CTAACAGTTG
27965488 AAATAAAATAA
1 AAATAAAATAA
27965499 ACTAATAATAA-AA
1 A--AATAA-AATAA
**
27965512 AAGGAATAATAA
1 AAATAA-AATAA
* *
27965524 GAATAAAATCA
1 AAATAAAATAA
*
27965535 AAATAAGATAA
1 AAATAAAATAA
27965546 ATAATAAAATAAA
1 A-AATAAAAT-AA
27965559 AAATAAA
1 AAATAAA
27965566 CAAACTAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
11 20 0.39
12 18 0.35
13 11 0.22
14 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:27965574 original size:24 final size:23
Alignment explanation
Indices: 27965525--27965579 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
27965515 GAATAATAAG
* *
27965525 AATAAAATCAAAATAAGATAAAT
1 AATAAAATAAAAATAAGACAAAT
27965548 AATAAAATAAAAAATAA-ACAAACT
1 AATAAAAT-AAAAATAAGACAAA-T
27965572 AATTAAAA
1 AA-TAAAA
27965580 ATATGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.44
24 10 0.37
25 5 0.19
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (23 bp):
AATAAAATAAAAATAAGACAAAT
Found at i:27965581 original size:43 final size:43
Alignment explanation
Indices: 27965534--27965624 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
27965524 GAATAAAATC
*
27965534 AAAATAAGA-TAAAT-AATAAAATAAAAAATAAACAAACTAATTA
1 AAAATAAGAGTAAATAAAT-AAATAAAAAATAAA-AAAATAATTA
* * * *
27965577 AAAATATGAGTAAGTAAATAAATGAAAACTAAAAAAATAATTA
1 AAAATAAGAGTAAATAAATAAATAAAAAATAAAAAAATAATTA
27965620 AAAAT
1 AAAAT
27965625 TTAATAGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 22 0.54
44 16 0.39
45 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (43 bp):
AAAATAAGAGTAAATAAATAAATAAAAAATAAAAAAATAATTA
Found at i:27965689 original size:3 final size:3
Alignment explanation
Indices: 27965681--27965833 Score: 119
Period size: 3 Copynumber: 50.7 Consensus size: 3
27965671 ACAGTTCAAA
* ** * * * * *
27965681 AAT AAT AAT AAT AAT AGT GGT AAA AAT AAA AAT AAA AAT ATT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
27965729 AAT AA- AAGT AAT AGT AAT AGT AAT AAT AAC AAT ATT AAT ATT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** *
27965774 ATT AAT TAT AAT AAT AAT GGT AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27965822 AAGT AAT AAT AA
1 AA-T AAT AAT AA
27965834 ATACAATAAG
Statistics
Matches: 114, Mismatches: 33, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
2 2 0.02
3 107 0.94
4 5 0.04
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27965707 original size:24 final size:24
Alignment explanation
Indices: 27965682--27965833 Score: 132
Period size: 24 Copynumber: 6.4 Consensus size: 24
27965672 CAGTTCAAAA
* * *
27965682 ATAATAATAATAATAGTGGTAAAA
1 ATAATAATAATAATAATAGTAATA
* * *
27965706 ATAAAAATAAAAATATTAGTAATA
1 ATAATAATAATAATAATAGTAATA
*
27965730 ATAA-AAGTAATAGTAATAGTAATA
1 ATAATAA-TAATAATAATAGTAATA
* *
27965754 ATAACAAT-AT--TAATATTAATA
1 ATAATAATAATAATAATAGTAATA
* * * *
27965775 TTAATTATAATAATAATGGTAATG
1 ATAATAATAATAATAATAGTAATA
*
27965799 ATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAGTAATA
27965823 AGTAATAATAA
1 A-TAATAATAA
27965834 ATACAATAAG
Statistics
Matches: 102, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.15
22 2 0.02
23 4 0.04
24 70 0.69
25 11 0.11
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (24 bp):
ATAATAATAATAATAATAGTAATA
Found at i:27972585 original size:13 final size:13
Alignment explanation
Indices: 27972567--27972594 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27972557 GATAAAAGAA
27972567 CATATAGAATACC
1 CATATAGAATACC
27972580 CATATAGAATACC
1 CATATAGAATACC
27972593 CA
1 CA
27972595 GAAGAGATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:27974157 original size:6 final size:6
Alignment explanation
Indices: 27974126--27974174 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
27974116 CCAAACACAC
* *
27974126 CAGTAAA CAGTAA TCAGTAA CGGTAA CAGTAA CAGTAA AAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
27974175 TTCAACACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 27 0.73
7 10 0.27
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:27978887 original size:22 final size:19
Alignment explanation
Indices: 27978844--27978901 Score: 89
Period size: 22 Copynumber: 2.9 Consensus size: 19
27978834 TAGAGTTTAA
27978844 TTTGTGTAACTATTGAATG
1 TTTGTGTAACTATTGAATG
27978863 TTTGTGTAACTATTAGTCAATG
1 TTTGTGTAACTATT-G--AATG
27978885 TTTGTGTAACTATTGAA
1 TTTGTGTAACTATTGAA
27978902 AGATAGAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.44
20 1 0.03
21 1 0.03
22 18 0.50
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (19 bp):
TTTGTGTAACTATTGAATG
Found at i:27981641 original size:5 final size:5
Alignment explanation
Indices: 27981631--27981660 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
27981621 GCCTAAGATG
27981631 TGAAT TGAAT TGAAT TGAAT TGAAT ATGAA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAA
27981661 ATGTGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (5 bp):
TGAAT
Found at i:27982160 original size:64 final size:64
Alignment explanation
Indices: 27982055--27982174 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
27982045 CAAGCATCTC
* * * * *
27982055 GATCGGTATTGATCCTGCATGTGTTGCGGATATACCGCAACTCTTTGTGAGCGTCCTGTTATAT
1 GATCGGTATTGATCCTGCATATATTGCGGACATACCACAACTCTTTATGAGCGTCCTGTTATAT
* * *
27982119 GATCGGTATTGATTCTGTATATATTGCGGACATGCCACAACTCTTTATGAGCGTCC
1 GATCGGTATTGATCCTGCATATATTGCGGACATACCACAACTCTTTATGAGCGTCC
27982175 CGATATAGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (64 bp):
GATCGGTATTGATCCTGCATATATTGCGGACATACCACAACTCTTTATGAGCGTCCTGTTATAT
Found at i:27988558 original size:12 final size:12
Alignment explanation
Indices: 27988541--27988566 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27988531 CAAAACAGGC
27988541 TTTTAGCGGCGT
1 TTTTAGCGGCGT
27988553 TTTTAGCGGCGT
1 TTTTAGCGGCGT
27988565 TT
1 TT
27988567 GGATAAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:27988977 original size:115 final size:113
Alignment explanation
Indices: 27988635--27989003 Score: 524
Period size: 114 Copynumber: 3.2 Consensus size: 113
27988625 GAAATAAGAA
** * *
27988635 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACCGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
27988699 TCGGGGATTTTGTGGCGTTTATAAGAAAGCGCCGCTAATTCTCAGGGCT
66 TCGGGG-TTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
27988748 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
27988813 TCGTGGGTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCT
66 TCG-GGGTTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * * * *
27988862 TTAACAGCGTTTTGGAGAAAGCGCCGCAAAAAAACCTAAGCTCTACGACGTCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-T
* *
27988927 TTCGAGTGTTTAGTGGCGTTTTTAAGAAAGCGCCTCTAATGCTCAGGGCT
65 TTCG-GGGTTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
27988977 TTAGCGGCGTTTTTGAGAAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
27989004 TAATGCTCAT
Statistics
Matches: 227, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
113 25 0.11
114 129 0.57
115 73 0.32
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGTTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:27988996 original size:41 final size:41
Alignment explanation
Indices: 27988935--27989044 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
27988925 TTTTCGAGTG
* * *
27988935 TTTAGTGGCGTTTTTAAGAAAGCGCCTCTAATGCTCAGGGC
1 TTTAGAGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
27988976 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCATGGC
1 TTTAGAGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
*
27989017 TTTAGAGGCGTTTTTGGGAAAGCGCCGC
1 TTTAGAGGCGTTTTTGAGAAAGCGCCGC
27989045 AAAAAAACCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (41 bp):
TTTAGAGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:27989018 original size:156 final size:155
Alignment explanation
Indices: 27988820--27989158 Score: 472
Period size: 156 Copynumber: 2.2 Consensus size: 155
27988810 CTTTCGTGGG
* *
27988820 TTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTA-ACAGCG-TTTTGGAGAAAG
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGA-AGCGTTTTTGG-GAAAG
* * * * *
27988883 CGCCGCAAAAAAACCTAAGCTCTACGACG-TCGTTT-TTTGAGCTTTTCGAGTG-TTTAGTGGCG
64 CGCCGCAAAAAAACCTAAGCCCAACGACGCT-GTTTCCTT-AGC-TTTC-AGGGAATTAGTGGCG
* *
27988945 TTTTTAAGAAAGCGCCTCTAATGCTCAGGGC
125 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
* *
27988976 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCATGGCTTTAGAGGCGTTTTTGGGAAAGCG
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGAAGCGTTTTTGGGAAAGCG
*
27989041 CCGCAAAAAAACCTAAGCCCAACGACGCTGTTTCCTTAGCTTTCAGGGAATTAGTGGCGTTTTTC
66 CCGCAAAAAAACCTAAGCCCAACGACGCTGTTTCCTTAGCTTTCAGGGAATTAGTGGCGTTTTTA
27989106 AGAAAGCGCCGCTAATGCTCAGGGA
131 AGAAAGCGCCGCTAATGCTCAGGGA
*
27989131 TTTAGCGGCGTTTTTGGGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
27989159 AAGAAAAACT
Statistics
Matches: 165, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
154 3 0.02
155 68 0.41
156 84 0.51
157 10 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (155 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGAAGCGTTTTTGGGAAAGCG
CCGCAAAAAAACCTAAGCCCAACGACGCTGTTTCCTTAGCTTTCAGGGAATTAGTGGCGTTTTTA
AGAAAGCGCCGCTAATGCTCAGGGA
Found at i:27989104 original size:114 final size:113
Alignment explanation
Indices: 27988977--27989248 Score: 377
Period size: 114 Copynumber: 2.4 Consensus size: 113
27988967 GCTCAGGGCT
* *
27988977 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCATGGCTTTAGAGGCGTTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTT-AGAAAGCGCCGCTAATGCTCAGGGATTTAGAGGCGTTTTTGGGAAAGCGC
* *
27989042 CGCAA-AAAAACCTAAGCCCAACGACGCTGTTTCCT-TAGCTTTCAGGGAA
65 CGCAAGAAAAA-CTAAGCCAAACGACGCCGTTTCCTGT-GCTTTCAGGGAA
* *
27989091 TTAGTGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTT-AGAAAGCGCCGCTAATGCTCAGGGATTTAGAGGCGTTTTTGGGAAAGCGC
* * * *
27989156 CGCAAGAAAAACTAAGCCAAACGGCGCCGTTTTCTGTGCTTTCGGGGAT
65 CGCAAGAAAAACTAAGCCAAACGACGCCGTTTCCTGTGCTTTCAGGGAA
* *
27989205 TTAGCGGTGTTTTTATGAAAGCGCCGCTAATGCTTAGGGATTTA
1 TTAGCGGCGTTTTTA-GAAAGCGCCGCTAATGCTCAGGGATTTA
27989249 AAATGATTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
113 1 0.01
114 134 0.95
115 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (113 bp):
TTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCAGGGATTTAGAGGCGTTTTTGGGAAAGCGCC
GCAAGAAAAACTAAGCCAAACGACGCCGTTTCCTGTGCTTTCAGGGAA
Found at i:27989517 original size:7 final size:7
Alignment explanation
Indices: 27989505--27989565 Score: 50
Period size: 7 Copynumber: 7.9 Consensus size: 7
27989495 GTGGTATGCT
27989505 TTAGGGG
1 TTAGGGG
27989512 TTAGGGAG
1 TTAGGG-G
*
27989520 ATTTAAGGG
1 --TTAGGGG
27989529 TTAGGGG
1 TTAGGGG
27989536 ATTTAGGGG
1 --TTAGGGG
*
27989545 TTAGGGAT
1 TTAGGG-G
27989553 TTAGGGG
1 TTAGGGG
27989560 TTAGGG
1 TTAGGG
27989566 TTTTAACGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 24 0.55
8 7 0.16
9 8 0.18
10 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:27989570 original size:15 final size:16
Alignment explanation
Indices: 27989504--27989565 Score: 99
Period size: 15 Copynumber: 3.9 Consensus size: 16
27989494 GGTGGTATGC
27989504 TTTAGGGGTTAGGGAGA
1 TTTAGGGGTTAGGG-GA
*
27989521 TTTAAGGGTTAGGGGA
1 TTTAGGGGTTAGGGGA
27989537 TTTAGGGGTTA-GGGA
1 TTTAGGGGTTAGGGGA
27989552 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
27989566 TTTTAACGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
15 15 0.36
16 14 0.33
17 13 0.31
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (16 bp):
TTTAGGGGTTAGGGGA
Found at i:27990837 original size:149 final size:148
Alignment explanation
Indices: 27990511--27990820 Score: 388
Period size: 149 Copynumber: 2.1 Consensus size: 148
27990501 NNNNNNNCGG
** * *
27990511 CGTTTTTCGTAAAAACGCCACAAAAAATTATTTCATTTTGAACAAAACGACGTCGTTTTGTTATG
1 CGTTTTTCACAAAAACGCCAC-AAAAATCATTTCATTTTGAACAAAACGACGTCATTTTGTTATG
* * * * *
27990576 CTAAAAATCCTTTATTTTATCTGCTAGAAATTATTAGTTTGCGGTGTTTTTCGTAAAAACGCCGC
65 CTAAAAATCCTTTATTTTATCTACTAAAAATTATTAGTTTGCGGCGTTTTTCATAAAAACGCCAC
* * *** * *
27990641 TATTGCTTACCTTTTGCGG
130 TATTGATAAAAATTCGCGC
*
27990660 CGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCATTTTGTTATG
1 CGTTTTTCACAAAAACGCCAC-AAAAATCATTTCATTTTGAACAAAACGACGTCATTTTGTTATG
27990725 CTAAAAATCCTTT-TTTTATCTACTAAAAATTATTAGTTTGCGGCGTTTTTCATAAAAACGCCAC
65 CTAAAAATCCTTTATTTTATCTACTAAAAATTATTAGTTTGCGGCGTTTTTCATAAAAACGCCAC
*
27990789 AAATACTTTATAAAAATTCGCGC
130 ---TA-TTGATAAAAATTCGCGC
27990812 CGTATTTTC
1 CGT-TTTTC
27990821 CCCAAATTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
148 46 0.33
149 75 0.54
151 2 0.01
152 12 0.09
153 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (148 bp):
CGTTTTTCACAAAAACGCCACAAAAATCATTTCATTTTGAACAAAACGACGTCATTTTGTTATGC
TAAAAATCCTTTATTTTATCTACTAAAAATTATTAGTTTGCGGCGTTTTTCATAAAAACGCCACT
ATTGATAAAAATTCGCGC
Found at i:27990986 original size:26 final size:27
Alignment explanation
Indices: 27990950--27991000 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
27990940 CTTATATTTT
27990950 AGCTAGAAATCGACGATG-CCAGAAGA
1 AGCTAGAAATCGACGATGACCAGAAGA
27990976 AGCTAGAAATCGACGATGACCAGAA
1 AGCTAGAAATCGACGATGACCAGAA
27991001 ACTGTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (27 bp):
AGCTAGAAATCGACGATGACCAGAAGA
Found at i:27992569 original size:18 final size:17
Alignment explanation
Indices: 27992546--27992578 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27992536 GTTTATTTTA
27992546 AATTTTTTGTACATATT
1 AATTTTTTGTACATATT
27992563 AATTTTTTGTACATAT
1 AATTTTTTGTACATAT
27992579 AAAGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTTTTTGTACATATT
Found at i:27993200 original size:43 final size:41
Alignment explanation
Indices: 27993055--27993304 Score: 275
Period size: 42 Copynumber: 5.9 Consensus size: 41
27993045 GTTTGTGAAA
* * * * ** *
27993055 AAGCGCCGCTAAAGTACGTGATCTATAGCTACGTTTTTATTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT-TTC
* **
27993097 AATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATTC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT-TTC
* * *
27993139 AAGCGCCGCTAAAGAACATGACTTTTAGTGGCGTTTAATTTTA
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT--TTTTC
* * *
27993182 AAGCGTCGCAAAAGAACATGTCCTTTAGCGGCGTTTGGTTTTC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT--TTTTC
* *
27993225 AAGCGCTGCTAAAGAACATGACCTTTAGAGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTT-C
27993267 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT
27993305 ATCTGTAAAC
Statistics
Matches: 176, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
41 4 0.02
42 102 0.58
43 68 0.39
44 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTC
Found at i:27993216 original size:85 final size:84
Alignment explanation
Indices: 27993100--27993306 Score: 283
Period size: 85 Copynumber: 2.4 Consensus size: 84
27993090 TTTATTTAAT
* * *
27993100 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATTCAAGCGCCGCTAAAGAACATGACTTTT
1 CGCCGCAAAAGAACATGTCCTTTAGCGGCGTTTTTATTCAAGCGCCGCTAAAGAACATGACCTTT
*
27993165 AGTGGCGTTTAATTTT-AAAG
66 AGAGGCGTTT--TTTTCAAAG
* *
27993185 CGTCGCAAAAGAACATGTCCTTTAGCGGCGTTTGGTT-TTCAAGCGCTGCTAAAGAACATGACCT
1 CGCCGCAAAAGAACATGTCCTTTAGCGGCGTTT--TTATTCAAGCGCCGCTAAAGAACATGACCT
*
27993249 TTAGAGGCGTTTTTTTCCAAG
64 TTAGAGGCGTTTTTTTCAAAG
* *
27993270 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTAT
1 CGCCGCAAAAGAACATGTCCTTTAGCGGCGTTTTTAT
27993307 CTGTAAACGC
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
83 2 0.02
84 5 0.05
85 63 0.58
86 36 0.33
87 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (84 bp):
CGCCGCAAAAGAACATGTCCTTTAGCGGCGTTTTTATTCAAGCGCCGCTAAAGAACATGACCTTT
AGAGGCGTTTTTTTCAAAG
Found at i:27994275 original size:29 final size:28
Alignment explanation
Indices: 27994220--27994275 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
27994210 ATATTTTAGA
*
27994220 TTTTAAAAAACAAATAAAAGTTTATTTT
1 TTTTAAAAAACAAATAAAAGATTATTTT
*
27994248 TTTTAAAACAA-AAACTTAAAGATTATTT
1 TTTTAAAA-AACAAA-TAAAAGATTATTT
27994276 AGAAAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (28 bp):
TTTTAAAAAACAAATAAAAGATTATTTT
Found at i:28000788 original size:13 final size:13
Alignment explanation
Indices: 28000750--28000797 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
28000740 TAGTGGTTGG
**
28000750 TTTGATTAATTTG
1 TTTGATTAATTAA
*
28000763 TTTTATTAATTAA
1 TTTGATTAATTAA
*
28000776 TTTGATTATTTAA
1 TTTGATTAATTAA
*
28000789 TTTTATTAA
1 TTTGATTAA
28000798 CTGTTTATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TTTGATTAATTAA
Found at i:28015628 original size:30 final size:29
Alignment explanation
Indices: 28015589--28015655 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
28015579 ACCTAAAAAA
*
28015589 GCCGTTTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTT-AAAATTTACCGAAATGG
** *
28015619 GCCGATTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTAAAATTTACCGAAATGG
*
28015648 TCC-ATTTT
1 GCCGATTTT
28015656 CCGGGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.16
29 16 0.50
30 11 0.34
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (29 bp):
GCCGATTTTTTTAAAATTTACCGAAATGG
Found at i:28015875 original size:22 final size:22
Alignment explanation
Indices: 28015847--28016732 Score: 1747
Period size: 22 Copynumber: 40.3 Consensus size: 22
28015837 ACAAATCCTA
28015847 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28015869 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28015891 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28015913 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28015935 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28015957 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28015979 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016001 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016023 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016045 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016067 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016089 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016111 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016133 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016155 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016177 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016199 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016221 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016243 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016265 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016287 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016309 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016331 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016353 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016375 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016397 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016419 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016441 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016463 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016485 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016507 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016529 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016551 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016573 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016595 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016617 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016639 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016661 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
28016683 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
28016705 TCTCAATTTCATTCCAAAAAT-C
1 TCTCAATTTCCTTCC-AAAATCC
28016727 TCTCAA
1 TCTCAA
28016733 ATCTATATTA
Statistics
Matches: 862, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
22 857 0.99
23 5 0.01
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:28016802 original size:32 final size:30
Alignment explanation
Indices: 28016766--28016832 Score: 107
Period size: 32 Copynumber: 2.2 Consensus size: 30
28016756 CCTCAATTTC
28016766 ATTTTTTTAAAATAATTTCAAAATTTTTTTAT
1 ATTTTTTTAAAATAATTT--AAATTTTTTTAT
*
28016798 ATTTTTTTAAAATAATTTTAATTTTTTTAT
1 ATTTTTTTAAAATAATTTAAATTTTTTTAT
28016828 ATTTT
1 ATTTT
28016833 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 16 0.47
32 18 0.53
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTTTTTAAAATAATTTAAATTTTTTTAT
Found at i:28017990 original size:46 final size:46
Alignment explanation
Indices: 28017923--28018029 Score: 214
Period size: 46 Copynumber: 2.3 Consensus size: 46
28017913 AAATAGAAGT
28017923 TTATTTGATGTAATACGCATAGAATTTTTTTCGAGTTATTTTGATA
1 TTATTTGATGTAATACGCATAGAATTTTTTTCGAGTTATTTTGATA
28017969 TTATTTGATGTAATACGCATAGAATTTTTTTCGAGTTATTTTGATA
1 TTATTTGATGTAATACGCATAGAATTTTTTTCGAGTTATTTTGATA
28018015 TTATTTGATGTAATA
1 TTATTTGATGTAATA
28018030 AAATAGAAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (46 bp):
TTATTTGATGTAATACGCATAGAATTTTTTTCGAGTTATTTTGATA
Found at i:28018044 original size:71 final size:71
Alignment explanation
Indices: 28017969--28018124 Score: 260
Period size: 71 Copynumber: 2.2 Consensus size: 71
28017959 TATTTTGATA
*
28017969 TTATTTGATGTAATACGCATAG-AATTTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAA
1 TTATTTGATGTAATACGCATAGAAATTTTTTT-GAGTTATTTTGATATTATTTGATATAATAAAA
28018033 TAGAAGT
65 TAGAAGT
* *
28018040 TTATTTGATATAATAGGCATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATATAATAAAAT
1 TTATTTGATGTAATACGCATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATATAATAAAAT
28018105 AGAAGT
66 AGAAGT
28018111 TCTATTTGATGTAA
1 T-TATTTGATGTAA
28018125 AAAAACAGTA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 59 0.75
72 20 0.25
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (71 bp):
TTATTTGATGTAATACGCATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATATAATAAAAT
AGAAGT
Found at i:28018138 original size:71 final size:72
Alignment explanation
Indices: 28017991--28018143 Score: 211
Period size: 71 Copynumber: 2.1 Consensus size: 72
28017981 ATACGCATAG
* *
28017991 AATTTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAG
1 AATTTTTTTCGAGTTATTTTGATATTATTTGATATAATAAAATAGAAGTTTATTTGATATAATAA
** *
28018056 GCATAGA
66 AAACAGA
*
28018063 AATTTTTTT-GAGTTATTTTGATATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAA-A
1 AATTTTTTTCGAGTTATTTTGATATTATTTGATATAATAAAATAGAAGTT-TATTTGATATAATA
*
28018126 AAAACAGT
65 AAAACAGA
*
28018134 AATTTATTTC
1 AATTTTTTTC
28018144 ATACCCTAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
71 51 0.72
72 20 0.28
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.46
Consensus pattern (72 bp):
AATTTTTTTCGAGTTATTTTGATATTATTTGATATAATAAAATAGAAGTTTATTTGATATAATAA
AAACAGA
Found at i:28018181 original size:29 final size:29
Alignment explanation
Indices: 28018146--28018314 Score: 210
Period size: 29 Copynumber: 6.0 Consensus size: 29
28018136 TTTATTTCAT
*
28018146 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
28018175 ACCCTAACAC-TAACCTAATTTAATTAAAA
1 ACCCTAAC-CTTAACCTAATTTAATTAAAA
*
28018204 A--C---CC-TAACCTAATTTAAATAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
28018227 ACCCTAACCCTAAACTTAATTTAATTAAAA
1 ACCCTAA-CCTTAACCTAATTTAATTAAAA
*
28018257 ACCCTAACCTTAACCTAATTT-ATTTAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
28018285 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
28018314 A
1 A
28018315 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
23 20 0.17
24 1 0.01
25 1 0.01
27 1 0.01
28 26 0.21
29 49 0.40
30 23 0.19
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.30
Consensus pattern (29 bp):
ACCCTAACCTTAACCTAATTTAATTAAAA
Found at i:28018182 original size:23 final size:23
Alignment explanation
Indices: 28018156--28018235 Score: 97
Period size: 23 Copynumber: 3.2 Consensus size: 23
28018146 ACCCTAACAT
28018156 TAACCTAATTTAATTAAAAACCCTAACAC
1 TAACCTAATTTAATTAAAAA--C---C-C
28018185 TAACCTAATTTAATTAAAAACCC
1 TAACCTAATTTAATTAAAAACCC
*
28018208 TAACCTAATTTAAATAAAAACCC
1 TAACCTAATTTAATTAAAAACCC
28018231 TAACC
1 TAACC
28018236 CTAAACTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
23 28 0.56
24 1 0.02
27 1 0.02
29 20 0.40
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.28
Consensus pattern (23 bp):
TAACCTAATTTAATTAAAAACCC
Found at i:28018226 original size:52 final size:52
Alignment explanation
Indices: 28018156--28018314 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 52
28018146 ACCCTAACAT
*
28018156 TAACCTAATTTAATTAAAAACCCTAACACTAACCTAATTTAATTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
* *
28018208 TAACCTAATTTAAATAAAAACCCTAACCCTAAACTTAATTTAATTAAAAACCC
1 TAACCTAATTTAATTAAAAACCCTAACCCT-AACCTAATTTAATTAAAAACCC
* *
28018261 TAACCTTAACCTAATTTATTTAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 TAACC-TAA--T--TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
28018315 NNNNNNNNNN
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
52 28 0.30
53 26 0.28
54 3 0.03
56 1 0.01
57 18 0.19
58 18 0.19
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (52 bp):
TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
Found at i:28019529 original size:23 final size:23
Alignment explanation
Indices: 28019499--28019715 Score: 416
Period size: 23 Copynumber: 9.4 Consensus size: 23
28019489 NNNNNNNNNN
28019499 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019522 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019545 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019568 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019591 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019614 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019637 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
28019660 AACCTAATTTATTTAAAAACCCT
1 AACCTAATTTATTTAAAAACCCT
*
28019683 AACCTAATTTATTTAAAAACCAT
1 AACCTAATTTATTTAAAAACCCT
*
28019706 AACATAATTT
1 AACCTAATTT
28019716 TACCTAATTT
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
23 192 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (23 bp):
AACCTAATTTATTTAAAAACCCT
Found at i:28019769 original size:56 final size:56
Alignment explanation
Indices: 28019709--28019833 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
28019699 AAACCATAAC
* * ** *
28019709 ATAATTTTACCTAATTTGAT-AATCTTACTAACCATTAACACACTTTTTTGGGCTTA
1 ATAATTTTACATAATTTGATAAAT-TTACTAACCATTAACAAAAGTTATTGGGCTTA
28019765 ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
1 ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
28019821 ATAATTTTACATA
1 ATAATTTTACATA
28019834 GTTTTATATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 60 0.95
57 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (56 bp):
ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
Found at i:28031452 original size:17 final size:18
Alignment explanation
Indices: 28031430--28031469 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
28031420 GTTTATAAAT
* *
28031430 TTTTATAATATTTTG-AA
1 TTTTATAAAATTTGGTAA
28031447 TTTTATAAAATTTGGTAA
1 TTTTATAAAATTTGGTAA
28031465 TTTTA
1 TTTTA
28031470 AAAGTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTTATAAAATTTGGTAA
Found at i:28031512 original size:17 final size:18
Alignment explanation
Indices: 28031482--28031516 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28031472 AGTTGTTATG
*
28031482 GATTTTAATAAATTTTTA
1 GATTTAAATAAATTTTTA
28031500 GATTTAAAT-AATTTTTA
1 GATTTAAATAAATTTTTA
28031517 ATAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
GATTTAAATAAATTTTTA
Found at i:28041794 original size:6 final size:6
Alignment explanation
Indices: 28041783--28041870 Score: 77
Period size: 6 Copynumber: 14.7 Consensus size: 6
28041773 ACTGGTTCTA
* * * * * *
28041783 ATTTTG ATTTTG ATTTCA ATTTTG ATTTCA ATTTTG ATTTCG ATTTCG
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
* * * * *
28041831 ATTCCA ATTTCG ATTTTG ATTTCA ATTTCG ATTTCA ATTT
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTT
28041871 AGGGTTATCT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (6 bp):
ATTTCG
Found at i:28041805 original size:18 final size:18
Alignment explanation
Indices: 28041782--28041870 Score: 97
Period size: 18 Copynumber: 4.9 Consensus size: 18
28041772 CACTGGTTCT
* *
28041782 AATTTTGATTTTGATTTC
1 AATTTCGATTTCGATTTC
* * *
28041800 AATTTTGATTTCAATTTT
1 AATTTCGATTTCGATTTC
* *
28041818 GATTTCGATTTCGATTCC
1 AATTTCGATTTCGATTTC
*
28041836 AATTTCGATTTTGATTTC
1 AATTTCGATTTCGATTTC
*
28041854 AATTTCGATTTCAATTT
1 AATTTCGATTTCGATTT
28041871 AGGGTTATCT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (18 bp):
AATTTCGATTTCGATTTC
Found at i:28042147 original size:62 final size:61
Alignment explanation
Indices: 28042081--28042209 Score: 222
Period size: 62 Copynumber: 2.1 Consensus size: 61
28042071 GTTATTGTTT
28042081 GTTATTGTCTGCCATGTGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTTCTATTG
1 GTTATTGTCTGCCATGTGCATGACAAAAATGGTTGTGTTTGTATTAAATTA-TTTTCTATTG
* * *
28042143 GTTATTGTCTGCCATGTGTATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTATTG
1 GTTATTGTCTGCCATGTGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTCTATTG
28042204 GTTATT
1 GTTATT
28042210 TATGTTGCAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
61 15 0.23
62 49 0.77
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (61 bp):
GTTATTGTCTGCCATGTGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTCTATTG
Found at i:28043409 original size:26 final size:25
Alignment explanation
Indices: 28043362--28043433 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
28043352 TTAGTGAGTG
*
28043362 TTTTTAATATGCAAGTAGTGACTAT
1 TTTTTAATATGCATGTAGTGACTAT
* *
28043387 TTTTTAATATACATGTTGTTGACTAT
1 TTTTTAATATGCATGTAG-TGACTAT
*
28043413 TTTTTAATATGCATGCAGTGA
1 TTTTTAATATGCATGTAGTGA
28043434 TTGTTGGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (25 bp):
TTTTTAATATGCATGTAGTGACTAT
Found at i:28043483 original size:26 final size:25
Alignment explanation
Indices: 28043447--28043513 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
28043437 TTGGTGTGTA
*
28043447 TGACTATTTTTTAATATACATGCTG
1 TGACTATTTTTTAATATACATGCAG
*
28043472 TTGACTATTTTTTAATATGCATGCAG
1 -TGACTATTTTTTAATATACATGCAG
* *
28043498 TGAGTATATTTTAATA
1 TGACTATTTTTTAATA
28043514 ATATGAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 14 0.38
26 23 0.62
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (25 bp):
TGACTATTTTTTAATATACATGCAG
Found at i:28043588 original size:96 final size:94
Alignment explanation
Indices: 28043362--28043629 Score: 353
Period size: 96 Copynumber: 2.8 Consensus size: 94
28043352 TTAGTGAGTG
* * * * * *
28043362 TTTTTAATATGCAAGTAG-TGACTATTTTTTAATATACATGTTGTTGACTATTTTT--TAATATG
1 TTTTTAATATACATGTTGTTGACTATTTTTTAATATGCATGTAG-TGAGTATTTTTAATAATATG
* *
28043424 CATGCAGTGATTGTTGGTGTGTATGACTAT
65 CATGTAGTGATTGTTGGTGTGCATGACTAT
* *
28043454 TTTTTAATATACATGCTGTTGACTATTTTTTAATATGCATGCAGTGAGTATATTTTAATAATATG
1 TTTTTAATATACATGTTGTTGACTATTTTTTAATATGCATGTAGTGAGTAT-TTTTAATAATATG
* * *
28043519 AATGTTGTGATTGTTGGTGTGCATGACTGTT
65 CATGTAGTGATTGTTGGTGTGCATGACT-AT
*
28043550 TTTTTAATATACATGTTGTTGACTATTTTTTAATATGCATGTAATGAGTATTTTTTAATAATATG
1 TTTTTAATATACATGTTGTTGACTATTTTTTAATATGCATGTAGTGAGTA-TTTTTAATAATATG
28043615 CATGTAGTGATTGTT
65 CATGTAGTGATTGTT
28043630 TTTTAGGTGT
Statistics
Matches: 152, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
92 20 0.13
93 26 0.17
95 31 0.20
96 74 0.49
97 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.49
Consensus pattern (94 bp):
TTTTTAATATACATGTTGTTGACTATTTTTTAATATGCATGTAGTGAGTATTTTTAATAATATGC
ATGTAGTGATTGTTGGTGTGCATGACTAT
Found at i:28043601 original size:25 final size:26
Alignment explanation
Indices: 28043549--28043609 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
28043539 GCATGACTGT
**
28043549 TTTTTTAATATACATGTTGTTGACTA
1 TTTTTTAATATACATGTTAATGACTA
* *
28043575 TTTTTTAATATGCATG-TAATGAGTA
1 TTTTTTAATATACATGTTAATGACTA
28043600 TTTTTTAATA
1 TTTTTTAATA
28043610 ATATGCATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (26 bp):
TTTTTTAATATACATGTTAATGACTA
Found at i:28043619 original size:28 final size:28
Alignment explanation
Indices: 28043580--28043634 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
28043570 GACTATTTTT
28043580 TAATATGCATGTAATGAGTATTTTTTAA
1 TAATATGCATGTAATGAGTATTTTTTAA
* * *
28043608 TAATATGCATGTAGTGATTGTTTTTTA
1 TAATATGCATGTAATGAGTATTTTTTA
28043635 GGTGTGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (28 bp):
TAATATGCATGTAATGAGTATTTTTTAA
Found at i:28044384 original size:21 final size:20
Alignment explanation
Indices: 28044347--28044398 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
28044337 CAATAGGTTA
* *
28044347 CCCCAACTCAATTACAAATTG
1 CCCCAACTC-ATAACAAACTG
*
28044368 CCCCAACTCATCAACAAGCTG
1 CCCCAACTCAT-AACAAACTG
28044389 CCCCAACTCA
1 CCCCAACTCA
28044399 CCATAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.35, C:0.42, G:0.06, T:0.17
Consensus pattern (20 bp):
CCCCAACTCATAACAAACTG
Found at i:28045133 original size:20 final size:20
Alignment explanation
Indices: 28045105--28045167 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 20
28045095 AGTAGCCATG
*
28045105 TATAACAACATAAGCAACAA
1 TATACCAACATAAGCAACAA
**
28045125 TATACCAAC---AGCTATGAA
1 TATACCAACATAAGC-AACAA
28045143 TA-A-CAACATAAGCAACAA
1 TATACCAACATAAGCAACAA
28045161 TATACCA
1 TATACCA
28045168 GCAACAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 10 0.31
19 4 0.12
20 10 0.31
ACGTcount: A:0.54, C:0.22, G:0.06, T:0.17
Consensus pattern (20 bp):
TATACCAACATAAGCAACAA
Found at i:28045187 original size:36 final size:36
Alignment explanation
Indices: 28045106--28045190 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
28045096 GTAGCCATGT
* * *
28045106 ATAACAACATAAGCAACAATATACCAACAGCTATGA
1 ATAAAAACATAAGCAACAATATACCAACAACAATGA
* *
28045142 ATAACAACATAAGCAACAATATACCAGCAACAAT-A
1 ATAAAAACATAAGCAACAATATACCAACAACAATGA
*
28045177 TTACAAAACATAAG
1 ATA-AAAACATAAG
28045191 TTGGTTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.16
Consensus pattern (36 bp):
ATAAAAACATAAGCAACAATATACCAACAACAATGA
Found at i:28053442 original size:43 final size:43
Alignment explanation
Indices: 28053378--28053504 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 43
28053368 TAGGATTCCG
*
28053378 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA
1 ATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATC-A
* * *
28053422 CT-TGTGTTTACGTGTAAGACC-CTATTTGGGACAG-TGGCATCA
1 ATATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCA
* * * * *
28053464 ATATATGATTACATGTAAGACCATGTCCGGGACGTTGGCAT
1 ATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
28053505 TGTACTAGCC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
42 4 0.06
43 60 0.91
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
ATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:28053755 original size:36 final size:37
Alignment explanation
Indices: 28053708--28053791 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 37
28053698 ACAATTGAAC
* * * *
28053708 TTATAAGTGATTCGGCCTACTAATGTATTTGTAATA-
1 TTATAAGTGATTCGGCATAATAATATAGTTGTAATAT
*
28053744 TTATAAGTGATTCGGCATAATGATATAGTTGTAATAT
1 TTATAAGTGATTCGGCATAATAATATAGTTGTAATAT
*
28053781 TTAAAAGTGAT
1 TTATAAGTGAT
28053792 AATTATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (37 bp):
TTATAAGTGATTCGGCATAATAATATAGTTGTAATAT
Found at i:28056390 original size:19 final size:20
Alignment explanation
Indices: 28056366--28056406 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
28056356 GAATTTAGGC
*
28056366 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
28056385 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
28056405 AA
1 AA
28056407 TTGTGCTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:28056667 original size:18 final size:17
Alignment explanation
Indices: 28056625--28056669 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
28056615 GTTTGATAAA
* *
28056625 TTATTGAAATTTTTTAT
1 TTATTGAAAATTTTCAT
28056642 TT-TTGAAAATTTTCATT
1 TTATTGAAAATTTTCA-T
28056659 TTATTGAAAAT
1 TTATTGAAAAT
28056670 GAAAAATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.46
17 5 0.21
18 8 0.33
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (17 bp):
TTATTGAAAATTTTCAT
Found at i:28057550 original size:19 final size:20
Alignment explanation
Indices: 28057526--28057566 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
28057516 GAATTTAGGC
*
28057526 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
28057545 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
28057565 AA
1 AA
28057567 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:28060929 original size:25 final size:24
Alignment explanation
Indices: 28060867--28060930 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
28060857 ATGTTACATG
28060867 AAATAAAAATAAT-T--AATAATT
1 AAATAAAAATAATATACAATAATT
*
28060888 AAATGAAAAACT-GTATACAATTAATT
1 AAAT-AAAAA-TAATATACAA-TAATT
28060914 AAATAAAAATAATATAC
1 AAATAAAAATAATATAC
28060931 GTGCAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 2 0.06
24 1 0.03
25 12 0.35
26 9 0.26
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATAAAAATAATATACAATAATT
Found at i:28080972 original size:26 final size:25
Alignment explanation
Indices: 28080950--28081006 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
28080940 TCAATTTACT
28080950 GCTTGATTCTGTGTGCTGTATTTTAA
1 GCTTGATTCTGTGTGCTGTA-TTTAA
28080976 GCTTGATTCTGTGTGCTGTATTTTAA
1 GCTTGATTCTGTGTGCTGTA-TTTAA
28081002 GCTTG
1 GCTTG
28081007 GCCTTGTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.49
Consensus pattern (25 bp):
GCTTGATTCTGTGTGCTGTATTTAA
Found at i:28087931 original size:2 final size:2
Alignment explanation
Indices: 28087924--28087954 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
28087914 CATGGAAAAT
28087924 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28087955 TCTTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:28088003 original size:21 final size:22
Alignment explanation
Indices: 28087946--28088003 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
28087936 TCTCTCTCTC
*
28087946 TCTCTCTCTTCTTTTTCTTTCTT
1 TCTC-CTCTTATTTTTCTTTCTT
28087969 TCTTCC-CTTA-TTTTCTTTCTT
1 TC-TCCTCTTATTTTTCTTTCTT
28087990 TC-CCTCTTATTTTT
1 TCTCCTCTTATTTTT
28088004 GTTGTCCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 2 0.06
20 4 0.13
21 17 0.55
22 3 0.10
23 3 0.10
24 2 0.06
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.67
Consensus pattern (22 bp):
TCTCCTCTTATTTTTCTTTCTT
Found at i:28097570 original size:43 final size:43
Alignment explanation
Indices: 28097509--28097632 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
28097499 ATTTTTGATA
*
28097509 TGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGA-C
1 TGTGTTTACGTGTAAGACCACGTCTGGGATGTTGGCATCGATC
* * *
28097551 TTGTGTTTACGTGCAAGACC-CTTTCTGGGATAG-TGGTATCGATC
1 -TGTGTTTACGTGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATC
* * * *
28097595 TGTGATCACATGTAAGACCACGTCTGAGATGTTGGCAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGATGTTGGCAT
28097633 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
42 2 0.03
43 60 0.92
44 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGATGTTGGCATCGATC
Found at i:28105834 original size:15 final size:15
Alignment explanation
Indices: 28105814--28105849 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
28105804 TTAGTTGAAC
28105814 TTATTTTTATTATTT-
1 TTATTTTTATT-TTTA
28105829 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
28105844 TTATTT
1 TTATTT
28105850 AAATGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:28112328 original size:27 final size:27
Alignment explanation
Indices: 28112274--28112329 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
28112264 AAAAAATTTG
**
28112274 ATAAAAGTAAAAATAATTAAAATCGAA
1 ATAAAAGTAAAAATAAGCAAAATCGAA
*
28112301 ATAACAGTAAAAAATAAGCAAAAT-GAA
1 ATAAAAGT-AAAAATAAGCAAAATCGAA
28112328 AT
1 AT
28112330 TGAATTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (27 bp):
ATAAAAGTAAAAATAAGCAAAATCGAA
Found at i:28113749 original size:20 final size:20
Alignment explanation
Indices: 28113708--28113749 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
28113698 AATGACCTCG
* *
28113708 AATTAACATTAATAATATAT
1 AATTAACATTAAAAATAAAT
28113728 AATTAAC-TTAAAACATAAAT
1 AATTAACATTAAAA-ATAAAT
28113748 AA
1 AA
28113750 AATAAAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTAACATTAAAAATAAAT
Found at i:28118027 original size:3 final size:3
Alignment explanation
Indices: 28118019--28118057 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
28118009 TAGCAGTGTT
* * *
28118019 TTC TTC TTC TTT TTC TTA TTC TTC TTC TTC CTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
28118058 GCTCTGTTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:28124077 original size:19 final size:19
Alignment explanation
Indices: 28124049--28124088 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
28124039 GGGGAAAATA
*
28124049 TTAGAATATTAAGCATATG
1 TTAGAATATTAAGCACATG
*
28124068 TTAGACTATTAAGCACATG
1 TTAGAATATTAAGCACATG
28124087 TT
1 TT
28124089 TAATGTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAGAATATTAAGCACATG
Found at i:28125222 original size:143 final size:144
Alignment explanation
Indices: 28124968--28125258 Score: 550
Period size: 143 Copynumber: 2.0 Consensus size: 144
28124958 TATCGTTCCA
28124968 TTAAAATAGAGAATTTGTAATATTGCCTTTGGAGTAGAGCTATCAACGGGTCAAGTTGTTTGATC
1 TTAAAATA-AGAATTTGTAATATTGCCTTTGGAGTAGAGCTATCAACGGGTCAAGTTGTTTGATC
28125033 CGCCCAAAACTTCATTTTACTATTCAATAAATAATAAAATATATATTAATTGATATTTTATAAAT
65 CGCCCAAAACTTCATTTTACTATTCAATAAATAATAAAATATATATTAATTGATATTTTATAAAT
28125098 TTTAAAAATATCTTT
130 TTTAAAAATATCTTT
28125113 TTAAAAT-AGAATTTGTAATATTGCCTTTGGAGTAGAGCTATCAACGGGTCAAGTTGTTTGATCC
1 TTAAAATAAGAATTTGTAATATTGCCTTTGGAGTAGAGCTATCAACGGGTCAAGTTGTTTGATCC
28125177 GCCCAAAACTTCATTTTACTATTCAA-AATATAATAAAATATATATTAATTGATATTTTATAAAT
66 GCCCAAAACTTCATTTTACTATTCAATAA-ATAATAAAATATATATTAATTGATATTTTATAAAT
28125241 TTTAAAAATATCTTT
130 TTTAAAAATATCTTT
28125256 TTA
1 TTA
28125259 TTATTTAATT
Statistics
Matches: 145, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
142 2 0.01
143 136 0.94
145 7 0.05
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (144 bp):
TTAAAATAAGAATTTGTAATATTGCCTTTGGAGTAGAGCTATCAACGGGTCAAGTTGTTTGATCC
GCCCAAAACTTCATTTTACTATTCAATAAATAATAAAATATATATTAATTGATATTTTATAAATT
TTAAAAATATCTTT
Found at i:28127289 original size:125 final size:125
Alignment explanation
Indices: 28127160--28127554 Score: 713
Period size: 125 Copynumber: 3.2 Consensus size: 125
28127150 ACCCATGTGT
*
28127160 ACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
1 ACGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
* *
28127224 ATAAAAAACGCTTCAAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGA
66 -TTAAAAACGCTTCAAGCAGGATGCTATT-TGAAAAGAATTTGTGAAATCGCGCCCTCGTGA
28127285 ACGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
1 ACGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
*
28127350 TTAAAAACGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGA
66 TTAAAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGA
28127410 ACGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
1 ACGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
*
28127475 TTAAAAACGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGA
66 TTAAAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGA
28127535 ACGCGCTTTTGCTACAGTAG
1 ACGCGCTTTTGCTACAGTAG
28127555 CATGTTTGAG
Statistics
Matches: 264, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
125 227 0.86
126 37 0.14
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (125 bp):
ACGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
TTAAAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGA
Found at i:28129819 original size:124 final size:125
Alignment explanation
Indices: 28129589--28129833 Score: 404
Period size: 124 Copynumber: 2.0 Consensus size: 125
28129579 GAAATTAAAT
28129589 TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCAG
1 TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTAAAAAAACGCTTCAAGCAG
* *
28129654 ATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACATTAGG
65 ATGCTAATTAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACATTAGG
* * *
28129715 TCCTGGAA-AAATAATTTTGAGTTGACGTTTCTGAGCAAATAG-TATAAAAACGCTTCTAGCAGG
1 TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTCAAGCA-G
*
28129778 ATGCTAATTAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGCTTTTGCTACA
65 ATGCTAATTAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
28129834 GTAACATGTT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
123 17 0.15
124 54 0.48
125 33 0.29
126 8 0.07
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTCAAGCAGA
TGCTAATTAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACATTAGG
Found at i:28131439 original size:128 final size:129
Alignment explanation
Indices: 28131200--28131456 Score: 507
Period size: 128 Copynumber: 2.0 Consensus size: 129
28131190 GATGGATTTA
28131200 GCTATGTTAGCTAGCTTGATATTGCCCACGGTGAAAGCAGATCCTAGGACTTCAGTGTCGGTGTT
1 GCTATGTTAGCTAGCTTGATATTGCCCACGGTGAAAGCAGATCCTAGGACTTCAGTGTCGGTGTT
28131265 AATTGCCAATATCCGTAGCCAAACGGGGTACACACCCTCTTATCGCATGGCTTGGATAGCTAAG
66 AATTGCCAATATCCGTAGCCAAACGGGGTACACACCCTCTTATCGCATGGCTTGGATAGCTAAG
28131329 GCTATGTTAG-TAGCTTGATATTGCCCACGGTGAAAGCAGATCCTAGGACTTCAGTGTCGGTGTT
1 GCTATGTTAGCTAGCTTGATATTGCCCACGGTGAAAGCAGATCCTAGGACTTCAGTGTCGGTGTT
28131393 AATTGCCAATATCCGTAGCCAAACGGGGTACACACCCTCTTATCGCATGGCTTGGATAGCTAAG
66 AATTGCCAATATCCGTAGCCAAACGGGGTACACACCCTCTTATCGCATGGCTTGGATAGCTAAG
28131457 CAAAAGGCAT
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 118 0.92
129 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (129 bp):
GCTATGTTAGCTAGCTTGATATTGCCCACGGTGAAAGCAGATCCTAGGACTTCAGTGTCGGTGTT
AATTGCCAATATCCGTAGCCAAACGGGGTACACACCCTCTTATCGCATGGCTTGGATAGCTAAG
Found at i:28133176 original size:114 final size:114
Alignment explanation
Indices: 28132976--28133327 Score: 695
Period size: 114 Copynumber: 3.1 Consensus size: 114
28132966 TATTTTTTTC
*
28132976 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
28133041 TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
66 TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
28133090 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
28133155 TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
66 TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
28133204 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
28133269 TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
66 TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
28133318 AATTATTAAT
1 AATTATTAAT
28133328 AGGTTTTTTA
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 237 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (114 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
TTAGTACCAGTCAAAACATTTTTTCAAACCTAACATTATGTGAATGTAA
Found at i:28133358 original size:22 final size:22
Alignment explanation
Indices: 28133327--28133536 Score: 190
Period size: 22 Copynumber: 10.0 Consensus size: 22
28133317 AAATTATTAA
*
28133327 TAGGTTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
** * *
28133349 TATAGATTTTAAGTTAAAGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
28133371 TAGGGTTTTAAAGTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
28133392 TAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
28133414 TAGGGTTTTTAAGTTAAGGGTG
1 TAGGGTTTTTAAGTTAAGGGTT
* *
28133436 TAGGGTTTTAAAGTTAAGAG-T
1 TAGGGTTTTTAAGTTAAGGGTT
28133457 TAGGG--TTT-AG----GGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
** * *
28133472 AGGGTT-TTTAAGTTAAGGGTG
1 TAGGGTTTTTAAGTTAAGGGTT
* *
28133493 TAGAGTTTTAAAGTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
* *
28133514 TAGGGTTTTTAGGTTTAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
28133536 T
1 T
28133537 TTAGGTTTAG
Statistics
Matches: 147, Mismatches: 31, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
14 2 0.01
15 3 0.02
16 3 0.02
17 2 0.01
18 2 0.01
19 2 0.01
21 47 0.32
22 86 0.59
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (22 bp):
TAGGGTTTTTAAGTTAAGGGTT
Found at i:28133402 original size:43 final size:43
Alignment explanation
Indices: 28133327--28133602 Score: 208
Period size: 43 Copynumber: 6.7 Consensus size: 43
28133317 AAATTATTAA
* * ** *
28133327 TAGGTTTTTTAAGTTAAGGGTTTATAGATTTTAAGTTAAAGGTT
1 TAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAAGTTAAAGGTT
*
28133371 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTT
* *
28133414 TAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTT-AAGAG-T
1 TAGGGTTTTAAAGTTAAGGGT-TAGGGTTTTTAAGTTAAAG-GTT
* *
28133457 TAGGG-TTT--AG----GGGTTAGGGTTTTTAAGTTAAGGGTG
1 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTT
*
28133493 TAGAGTTTTAAAGTTAAGGGTTAGGG--TTT---TT--AGGTT
1 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTT
* * * * * *
28133529 TAGGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAGGTTTAGGGTT
1 TAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAAGTTAAAGGTT
* *
28133573 TAGGATTTTTAAA-ATAAGGGTTTAGGGTTT
1 TAGG-GTTTTAAAGTTAAGGG-TTAGGGTTT
28133603 GTCAATTAAA
Statistics
Matches: 187, Mismatches: 25, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
35 15 0.08
36 29 0.16
37 9 0.05
38 2 0.01
39 5 0.03
40 2 0.01
41 3 0.02
42 5 0.03
43 56 0.30
44 56 0.30
45 5 0.03
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (43 bp):
TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTT
Found at i:28133406 original size:65 final size:65
Alignment explanation
Indices: 28133327--28133602 Score: 285
Period size: 65 Copynumber: 4.5 Consensus size: 65
28133317 AAATTATTAA
* ** * * *
28133327 TAGGTTTTTTAAGTTAAGGGTTTATAGATTTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGT
1 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGGGT
*
28133392 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGAGT
1 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGGGT
*
28133457 TAGGG--TTT-AG----GGG-TTAGGGTTTTTAAGTTAAGGGTGTAGAGTTTTAAAGTTAAGGGT
1 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGGGT
* * * * * *
28133514 TAGGG--TTT---TT-A-GGTTTAGGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAGGTTTAGGGT
1 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGGG-
28133572 T
65 T
* **
28133573 TAGGATTTTTAAAATAAGGGTTTAGGGTTT
1 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
28133603 GTCAATTAAA
Statistics
Matches: 181, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
57 52 0.29
58 39 0.22
59 5 0.03
61 3 0.02
62 2 0.01
63 3 0.02
64 1 0.01
65 64 0.35
66 12 0.07
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (65 bp):
TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGGGT
Found at i:28133479 original size:57 final size:58
Alignment explanation
Indices: 28133408--28133559 Score: 227
Period size: 57 Copynumber: 2.6 Consensus size: 58
28133398 TTTTAAGTTA
28133408 AGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGAGTTAGGG-TTT
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGAGTTAGGGTTTT
* * *
28133465 AGGGGTTAGGGTTTTTAAGTTAAGGGTGTAGAGTTTTAAAGTTAAGGGTTAGGGTTTTT
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGAGTTAGGG-TTTT
* * *
28133524 A-GGTTTAGGGTTTTTAGGTTTAGGGTTTAGGGTTTT
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTT
28133560 TAGGTTTAGG
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 51 0.60
58 30 0.35
59 4 0.05
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.43
Consensus pattern (58 bp):
AGGGTTTAGGGTTTTTAAGTTAAGGGTGTAGGGTTTTAAAGTTAAGAGTTAGGGTTTT
Found at i:28133491 original size:21 final size:21
Alignment explanation
Indices: 28133467--28133535 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
28133457 TAGGGTTTAG
28133467 GGGTTAGGGTTTTTAAGTTAA
1 GGGTTAGGGTTTTTAAGTTAA
* *
28133488 GGGTGTAGAGTTTTAAAGTTAA
1 GGGT-TAGGGTTTTTAAGTTAA
* *
28133510 GGGTTAGGGTTTTTAGGTTTA
1 GGGTTAGGGTTTTTAAGTTAA
28133531 GGGTT
1 GGGTT
28133536 TTTAGGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 22 0.54
22 19 0.46
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (21 bp):
GGGTTAGGGTTTTTAAGTTAA
Found at i:28133539 original size:37 final size:37
Alignment explanation
Indices: 28133497--28133573 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
28133487 AGGGTGTAGA
*
28133497 GTTTTAAAGTTAAGGG-TTAGGGTTTTTAGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGG
* *
28133533 GTTTTTAGGTTTAGGGTTTAGGGTTTTTAGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGG
28133570 GTTT
1 GTTT
28133574 AGGATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 13 0.35
37 24 0.65
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (37 bp):
GTTTTTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGG
Found at i:28133550 original size:7 final size:7
Alignment explanation
Indices: 28133521--28133576 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
28133511 GGTTAGGGTT
28133521 TTTA-GG
1 TTTAGGG
28133527 TTTAGGG
1 TTTAGGG
28133534 TTTTTA-GG
1 --TTTAGGG
28133542 TTTAGGG
1 TTTAGGG
28133549 TTTAGGG
1 TTTAGGG
28133556 TTTTTA-GG
1 --TTTAGGG
28133564 TTTAGGG
1 TTTAGGG
28133571 TTTAGG
1 TTTAGG
28133577 ATTTTTAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
6 12 0.28
7 19 0.44
8 4 0.09
9 8 0.19
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:28133553 original size:22 final size:22
Alignment explanation
Indices: 28133521--28133602 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
28133511 GGTTAGGGTT
28133521 TTTA-GGTTTAGGGTTTTTAGG
1 TTTAGGGTTTAGGGTTTTTAGG
28133542 TTTAGGGTTTAGGGTTTTTAGG
1 TTTAGGGTTTAGGGTTTTTAGG
* **
28133564 TTTAGGGTTTAGGATTTTTAAA
1 TTTAGGGTTTAGGGTTTTTAGG
* *
28133586 ATAAGGGTTTAGGGTTT
1 TTTAGGGTTTAGGGTTT
28133603 GTCAATTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
21 4 0.07
22 50 0.93
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTAGGGTTTTTAGG
Found at i:28133573 original size:15 final size:15
Alignment explanation
Indices: 28133513--28133551 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
28133503 AAGTTAAGGG
28133513 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
28133528 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
28133543 TTAGGGTTT
1 TTAGGGTTT
28133552 AGGGTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (15 bp):
TTAGGGTTTTTAGGT
Found at i:28133879 original size:21 final size:21
Alignment explanation
Indices: 28133855--28133901 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
28133845 ACGGCGGTTG
28133855 TGGTTCCTCCGGCAGGG-ATT
1 TGGTTCCTCCGGCAGGGCATT
* *
28133875 CTGGTTCTTCCGGTAGGGCATT
1 -TGGTTCCTCCGGCAGGGCATT
28133897 TGGTT
1 TGGTT
28133902 GTCGGAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.09, C:0.21, G:0.34, T:0.36
Consensus pattern (21 bp):
TGGTTCCTCCGGCAGGGCATT
Done.