Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 75 of 345
Found at i:24058268 original size:49 final size:49
Alignment explanation
Indices: 24058096--24058327 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
24058086 TCTATTGTGA
* * * * ** *
24058096 GGTCGCATGTGTAGTACTAAGTGAAGGCTACTATGCGTACCCAAAAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * * **
24058145 GTGATCACGTGTGTAGTACTAAGTACAGGATACTACGTGTATCAGATGGTT
1 G-G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
24058196 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
24058246 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
24058295 GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
24058328 TGCGTACTAG
Statistics
Matches: 155, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 78 0.50
50 41 0.26
51 35 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:24069755 original size:45 final size:45
Alignment explanation
Indices: 24069691--24069777 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
24069681 ACATAGGTTA
24069691 AACAATGGAAACTCTCAAAATCTTTAACAGATTCGAAATCTATTC
1 AACAATGGAAACTCTCAAAATCTTTAACAGATTCGAAATCTATTC
*
24069736 AACAATGGAAACTCTCAAAATCTTTAACAGATTTGAAATCTA
1 AACAATGGAAACTCTCAAAATCTTTAACAGATTCGAAATCTA
24069778 AGGTACAGGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (45 bp):
AACAATGGAAACTCTCAAAATCTTTAACAGATTCGAAATCTATTC
Found at i:24088315 original size:44 final size:44
Alignment explanation
Indices: 24088266--24088353 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
24088256 TCACATGCAT
* *
24088266 CGCATCCATAATGAACTCAGACCAACTGAACGAGCTCGGATGCC
1 CGCATCCATAATGAACTCAAACCAACTCAACGAGCTCGGATGCC
*
24088310 CGCATCCATAATGAACTCAAACCAACTCAATGAGCTCGGATGCC
1 CGCATCCATAATGAACTCAAACCAACTCAACGAGCTCGGATGCC
24088354 TCCCATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.32, G:0.18, T:0.17
Consensus pattern (44 bp):
CGCATCCATAATGAACTCAAACCAACTCAACGAGCTCGGATGCC
Found at i:24088382 original size:45 final size:44
Alignment explanation
Indices: 24088272--24088385 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
24088262 GCATCGCATC
* * * *
24088272 CATAATGAACTCAGACCAACTGAACGAGCTCGGATGCCCGCATC
1 CATAACGAACTCAGACCAACTCAACGAGCTCGGATGCCCCCATA
* * *
24088316 CATAATGAACTCAAACCAACTCAATGAGCTCGGATGCCTCCCATA
1 CATAACGAACTCAGACCAACTCAACGAGCTCGGATGCC-CCCATA
* * *
24088361 TATTACGAACTTAGACCAACTCAAC
1 CATAACGAACTCAGACCAACTCAAC
24088386 AAGTTCGAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 35 0.60
45 23 0.40
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.19
Consensus pattern (44 bp):
CATAACGAACTCAGACCAACTCAACGAGCTCGGATGCCCCCATA
Found at i:24097608 original size:51 final size:50
Alignment explanation
Indices: 24097428--24097623 Score: 214
Period size: 50 Copynumber: 3.9 Consensus size: 50
24097418 GTAGCCAAAC
* * * *
24097428 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAA-T
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * * *
24097477 TATCCGGTACACGTAGTAGCGTGCACTTAGTACTACACACGTGACCTAGC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * *
24097527 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGT
* * ** *
24097578 TCTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
24097624 TAGCTACATC
Statistics
Matches: 121, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 40 0.33
50 41 0.34
51 40 0.33
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (50 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
Found at i:24097628 original size:101 final size:99
Alignment explanation
Indices: 24097427--24097629 Score: 262
Period size: 101 Copynumber: 2.0 Consensus size: 99
24097417 TGTAGCCAAA
* * *
24097427 CTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTA
1 CTATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACATA
* *
24097492 GTAGCGTGCACTTAGTACTACACACGTGACCTAG
66 GTAGCCTGCACTTAGTACTACACACGCGACCTAG
* * * * * * **
24097526 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTCTCGGGTATGCA
1 CTATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACA
*
24097591 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAG
64 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAG
24097627 CTA
1 CTA
24097630 CATCATAATG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 40 0.45
100 3 0.03
101 45 0.51
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (99 bp):
CTATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACATA
GTAGCCTGCACTTAGTACTACACACGCGACCTAG
Found at i:24098059 original size:18 final size:19
Alignment explanation
Indices: 24098036--24098071 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24098026 AACTTGGCAC
*
24098036 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
24098054 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
24098072 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:24098403 original size:30 final size:30
Alignment explanation
Indices: 24098367--24098427 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24098357 TCCTTAACTC
*
24098367 AAACTTTGGAAAATTTACAATTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
24098397 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
24098427 A
1 A
24098428 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:24101119 original size:46 final size:46
Alignment explanation
Indices: 24101069--24101241 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
24101059 TGGTTGAGCA
24101069 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24101115 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
24101160 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
24101208 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24101242 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24101225 original size:93 final size:93
Alignment explanation
Indices: 24101066--24101236 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
24101056 GGATGGTTGA
* *
24101066 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24101131 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
24101159 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24101224 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24101237 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24108634 original size:91 final size:88
Alignment explanation
Indices: 24108480--24108645 Score: 210
Period size: 91 Copynumber: 1.8 Consensus size: 88
24108470 GATGGTTGAG
* * *
24108480 GCATCCGAACTCGTTTGAGTTGAGTCCGAGTTCCCTTGGATGCGAATGTCTGAACTCGTTGAGTT
1 GCATCCGAACTCG-TTGAGTTGAGTCCGAGTTCCCTTGGATGCGAACGCCCGAACTCGTTGAG-T
*
24108545 GAGTCGAGTTCGTGAGATGTAACTA
64 GAGTCCAGTTCGTGAGATGTAACTA
* *
24108570 GCATCCCGAACTC-TTGAGTTAGAGTCCGAG-TCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GCAT-CCGAACTCGTTGAGTT-GAGTCCGAGTTC-CCT-TGGATGCGAACGCCCGAACTCGTTGA
24108633 GTGAGTCCAGTTC
62 GTGAGTCCAGTTC
24108646 ACTTTTAGGG
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
89 9 0.14
90 26 0.39
91 31 0.47
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (88 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTGGATGCGAACGCCCGAACTCGTTGAGTGA
GTCCAGTTCGTGAGATGTAACTA
Found at i:24121762 original size:40 final size:40
Alignment explanation
Indices: 24121679--24121863 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
24121669 TTGAATGATG
* * * *
24121679 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
24121719 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24121759 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24121799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24121840 -CCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24121864 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 14 0.11
40 108 0.82
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24121893 original size:39 final size:40
Alignment explanation
Indices: 24121731--24121896 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
24121721 CGGACTAAGA
*
24121731 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
1 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAAT
* *
24121771 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
1 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAAT
* *
24121811 CCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCT--AT
1 TCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAAT
** *
24121849 GTCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAAT
1 -TCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAAT
24121889 TCCGAAGG
1 TCCGAAGG
24121897 TACGTGATTT
Statistics
Matches: 112, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
38 7 0.06
39 30 0.27
40 73 0.65
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAAT
Found at i:24135772 original size:40 final size:40
Alignment explanation
Indices: 24135688--24135912 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
24135678 TTGAATGATG
* * * *
24135688 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
24135728 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24135768 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24135807 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24135847 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24135888 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24135913 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24135934 original size:119 final size:119
Alignment explanation
Indices: 24135688--24135945 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
24135678 TTGAATGATG
* *
24135688 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
24135753 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
24135807 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
24135870 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
24135927 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24135946 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:24143220 original size:40 final size:40
Alignment explanation
Indices: 24143077--24143220 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
24143067 CTACTCGCTT
* * *** *
24143077 AAATGCCTTCAGGACTTAGCCCAGTTTTAGTAGCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
* *
24143117 AAATGCCTTCGAGACTTAGCCCGAAAATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
24143157 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
24143197 AAATGCCTTCGGGACTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGG
24143221 TTATCATCCG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
Found at i:24145662 original size:40 final size:40
Alignment explanation
Indices: 24145613--24145787 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
24145603 CGGATGTAAC
* * *
24145613 AACCAGCACGAATGCCTTCAGGACTTAACCCGGTAATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
24145653 AACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
24145693 AACCCGCATGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
24145733 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
24145773 AACCCGCACGAATGC
1 AACCCGCACGAATGC
24145788 TGTGCACATA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:24157531 original size:27 final size:27
Alignment explanation
Indices: 24157467--24157584 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
24157457 AGGGCAAAAT
* *
24157467 GGTAATTTTACCCCACAAGGGTA-TTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24157493 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
24157520 AGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24157547 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
24157574 GGTAATTCTAC
1 GGTAATTCTAC
24157585 AACTTATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 20 0.26
27 58 0.74
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:24164275 original size:71 final size:67
Alignment explanation
Indices: 24164197--24164337 Score: 185
Period size: 67 Copynumber: 2.0 Consensus size: 67
24164187 CACCAGATTT
* * *
24164197 AGATATTGTGGCTAGGCCACCAAAACAGATATATATATGTGGCGAA-GCCACCAGATTGCAGCGA
1 AGATATTGTGACGAAGCCACCAAAACAG----ATATATGTGGC-AAGGCCACCAGATTGCAGCGA
24164261 GGCTGCC
61 GGCTGCC
* *
24164268 AGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
24164333 CC
66 CC
24164335 AGA
1 AGA
24164338 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
66 2 0.03
67 39 0.61
71 23 0.36
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.18
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
CC
Found at i:24164943 original size:26 final size:27
Alignment explanation
Indices: 24164914--24164967 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24164904 CCACACAAGT
*
24164914 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
24164940 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
24164967 T
1 T
24164968 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:24165032 original size:27 final size:27
Alignment explanation
Indices: 24164968--24165084 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 27
24164958 GGGGCAAAAT
* *
24164968 GGTAATTTTACCCCACAAGGGTA-TTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24164994 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
24165021 AGTATTTCTACCCTACAATGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24165048 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
24165075 GGTAATTCTA
1 GGTAATTCTA
24165085 GAACTTATCC
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.26
27 56 0.74
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:24169054 original size:20 final size:19
Alignment explanation
Indices: 24169016--24169055 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24169006 ACCTGTCAGA
* *
24169016 AGAAAATAAATGAAGAATT
1 AGAAAATAAATAAAAAATT
24169035 AGAAAATAAAATAAAAAATT
1 AGAAAAT-AAATAAAAAATT
24169055 A
1 A
24169056 AATTACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
AGAAAATAAATAAAAAATT
Found at i:24176425 original size:8 final size:8
Alignment explanation
Indices: 24176412--24176442 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
24176402 TGTGTATGCT
24176412 AATTGTTG
1 AATTGTTG
24176420 AATTGTTG
1 AATTGTTG
24176428 AATTGTTG
1 AATTGTTG
24176436 AATTGTT
1 AATTGTT
24176443 TTGTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (8 bp):
AATTGTTG
Found at i:24177567 original size:56 final size:56
Alignment explanation
Indices: 24177501--24177625 Score: 196
Period size: 56 Copynumber: 2.2 Consensus size: 56
24177491 GACCATGGCA
* * *
24177501 TCGATATATGTGTGCGAGTAAGACCACATTTTATACATTGGCATCTATATGTGACT
1 TCGATATATGTGTACGAGTAACACCACATTTTATACATTGGCATCGATATGTGACT
* *
24177557 TCGATATATGTGTACGAGTAACACCACGTTTTATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTACGAGTAACACCACATTTTATACATTGGCATCGATATGTGACT
*
24177613 CCGATATATGTGT
1 TCGATATATGTGT
24177626 CAGAGGAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTACGAGTAACACCACATTTTATACATTGGCATCGATATGTGACT
Found at i:24179238 original size:18 final size:18
Alignment explanation
Indices: 24179215--24179255 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24179205 TGACTTGTAT
24179215 AAATGTGTGGTTGTTCGA
1 AAATGTGTGGTTGTTCGA
**
24179233 AAATGTGTTTTTGTTCGA
1 AAATGTGTGGTTGTTCGA
*
24179251 TAATG
1 AAATG
24179256 CCCCATGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (18 bp):
AAATGTGTGGTTGTTCGA
Found at i:24180183 original size:23 final size:24
Alignment explanation
Indices: 24180156--24180201 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24180146 ATTAGGAAAG
24180156 AAATGGTTG-ATTGATATGTTTTT
1 AAATGGTTGAATTGATATGTTTTT
*
24180179 AAATGGTTGAATTGGTATGTTTT
1 AAATGGTTGAATTGATATGTTTT
24180202 GAAAGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (24 bp):
AAATGGTTGAATTGATATGTTTTT
Found at i:24182781 original size:49 final size:48
Alignment explanation
Indices: 24182717--24182980 Score: 215
Period size: 49 Copynumber: 5.6 Consensus size: 48
24182707 ATCTAAGTCA
* * *
24182717 ATGCCATGCCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC-TCCATATATCGAGGCCG
* * *
24182766 ATGTCATGTCCCAGACAGGTCTTACA-TTAGCTCTCATATATCG-GTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTC-CATATATCGAG-GCCG
* * *
24182815 ATGCCATGTCCCAGACAGGTCTTACACTGA---CACATGTC-AAGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCCATATATCGAGGCCG
* * * * * *
24182859 ATGCCATGTCCTAGACAGGTCTTACACTGGCTTGCATATCTCAAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC-TCCATATATCGAGGCCG
* * * *
24182908 ATG-CATGTCCCACACATGTCTTACACTGGCTCTCATA-AT-GTGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTC-CATATATCGAGGCCG
* *
24182954 ATG-TATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
24182981 AGCACACGTA
Statistics
Matches: 176, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 31 0.18
45 6 0.03
46 29 0.16
47 2 0.01
48 39 0.22
49 67 0.38
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCCATATATCGAGGCCG
Found at i:24183667 original size:20 final size:18
Alignment explanation
Indices: 24183630--24183680 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
24183620 CTATAGAAAC
24183630 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
24183647 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
24183667 TTACAACTTTACAA
1 TCACAA-TTTACAA
24183681 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:24186078 original size:14 final size:14
Alignment explanation
Indices: 24186056--24186091 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24186046 GGGGTAGGAT
24186056 TCTGATTATCTGAC
1 TCTGATTATCTGAC
*
24186070 TCTGTTTATCTGAC
1 TCTGATTATCTGAC
24186084 TCT-ATTAT
1 TCTGATTAT
24186092 TTGTATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.50
Consensus pattern (14 bp):
TCTGATTATCTGAC
Found at i:24191738 original size:24 final size:24
Alignment explanation
Indices: 24191710--24191761 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24191700 TTAGTAGGTA
* *
24191710 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
24191734 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
24191758 AAAT
1 AAAT
24191762 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:24193692 original size:24 final size:24
Alignment explanation
Indices: 24193664--24193715 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24193654 TTAGTAGGTC
* *
24193664 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
24193688 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
24193712 AAAT
1 AAAT
24193716 CTTCTAGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:24194198 original size:14 final size:15
Alignment explanation
Indices: 24194179--24194211 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24194169 TAGTGGCACC
24194179 AAATTTT-CTAAAAA
1 AAATTTTACTAAAAA
*
24194193 AAATTTTATTAAAAA
1 AAATTTTACTAAAAA
24194208 AAAT
1 AAAT
24194212 ATTAGTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTTTACTAAAAA
Found at i:24200516 original size:18 final size:17
Alignment explanation
Indices: 24200487--24200538 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
24200477 AACCCACGGA
24200487 ATTTTTTT-TATTTTTT
1 ATTTTTTTGTATTTTTT
24200503 ATTTTTTTCGTA--TTTT
1 ATTTTTTT-GTATTTTTT
24200519 ATTTTTTTGTACTTTTTT
1 ATTTTTTTGTA-TTTTTT
24200537 AT
1 AT
24200539 CACTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.10
16 20 0.65
18 8 0.26
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (17 bp):
ATTTTTTTGTATTTTTT
Found at i:24201832 original size:27 final size:27
Alignment explanation
Indices: 24201802--24201859 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
24201792 AACTCAATTA
24201802 ATTTTCATATCAATTTTTTTCAA-ATAT
1 ATTTTC-TATCAATTTTTTTCAAGATAT
* *
24201829 ATTTTCTATCATTTTTTTTGAAGATAT
1 ATTTTCTATCAATTTTTTTCAAGATAT
24201856 ATTT
1 ATTT
24201860 GCCATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (27 bp):
ATTTTCTATCAATTTTTTTCAAGATAT
Found at i:24201855 original size:25 final size:27
Alignment explanation
Indices: 24201802--24201855 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
24201792 AACTCAATTA
*
24201802 ATTTTCATATCAATTTTTTTCAAATAT
1 ATTTTCATATCAATTTTTTTCAAAGAT
**
24201829 ATTTTC-TATC-ATTTTTTTTGAAGAT
1 ATTTTCATATCAATTTTTTTCAAAGAT
24201854 AT
1 AT
24201856 ATTTGCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 4 0.17
27 6 0.25
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (27 bp):
ATTTTCATATCAATTTTTTTCAAAGAT
Found at i:24204816 original size:13 final size:13
Alignment explanation
Indices: 24204798--24204823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24204788 AATTATTCAA
24204798 TTCATAACCATCT
1 TTCATAACCATCT
24204811 TTCATAACCATCT
1 TTCATAACCATCT
24204824 CAATAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCATAACCATCT
Found at i:24210843 original size:15 final size:14
Alignment explanation
Indices: 24210828--24210868 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
24210818 CAATAAAATA
24210828 AGAAAAAATATTAT
1 AGAAAAAATATTAT
*
24210842 A-AAAATATA-TAT
1 AGAAAAAATATTAT
24210854 AGAAAAAATATTAT
1 AGAAAAAATATTAT
24210868 A
1 A
24210869 AAATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
AGAAAAAATATTAT
Found at i:24211670 original size:24 final size:24
Alignment explanation
Indices: 24211629--24211701 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 24
24211619 ATATTCTCCC
24211629 TTATAATAA-TTATATTTTATATT
1 TTATAATAATTTATATTTTATATT
*
24211652 TTATAATAATTTAT-TTTTTTCATT
1 TTATAATAATTTATATTTTAT-ATT
*
24211676 TTAT-ATATTTTTATATTTTAT-TT
1 TTATAATA-ATTTATATTTTATATT
24211699 TTA
1 TTA
24211702 ATTTTTATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 22 0.51
24 16 0.37
25 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (24 bp):
TTATAATAATTTATATTTTATATT
Found at i:24211678 original size:31 final size:31
Alignment explanation
Indices: 24211642--24211700 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
24211632 TAATAATTAT
24211642 ATTTTATAT-TTTATAATAATTTATTTTTTTC
1 ATTTTATATATTT-TAATAATTTATTTTTTTC
* *
24211673 ATTTTATATATTTTTATATTTTATTTTT
1 ATTTTATATATTTTAATAATTTATTTTT
24211701 AATTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (31 bp):
ATTTTATATATTTTAATAATTTATTTTTTTC
Found at i:24211716 original size:22 final size:23
Alignment explanation
Indices: 24211638--24211709 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 23
24211628 CTTATAATAA
*
24211638 TTATATTTTATATTTTATAATAATTT
1 TTATATTTT-CATTTTAT-AT-ATTT
24211664 ATT-T-TTTTCATTTTATATATTT
1 -TTATATTTTCATTTTATATATTT
24211686 TTATATTTT-ATTTT-TA-ATTT
1 TTATATTTTCATTTTATATATTT
24211706 TTAT
1 TTAT
24211710 TGATTTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
20 8 0.19
21 4 0.10
22 10 0.24
23 6 0.14
24 7 0.17
25 4 0.10
26 1 0.02
27 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATATTTTCATTTTATATATTT
Found at i:24212911 original size:20 final size:18
Alignment explanation
Indices: 24212871--24212914 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
24212861 TACTCTATTC
* *
24212871 AATTTAAAAAATAAATTA
1 AATTAAAAAAATAAATAA
24212889 AATTAAAAATAATAAAATAA
1 AATTAAAAA-AAT-AAATAA
24212909 AATTAA
1 AATTAA
24212915 TCAAGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTAAAAAAATAAATAA
Found at i:24213511 original size:43 final size:43
Alignment explanation
Indices: 24213457--24213550 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
24213447 AATTTTAAAA
*
24213457 TTTAAA-ATATATATAGAAAGTATAAACATATTGTAACTTTTT
1 TTTAAACATATATATAGAAAGTATAAACATATTCTAACTTTTT
*
24213499 TTTAAACATATATATAGAAAGTATAAGCATATTCTAACTTTTT
1 TTTAAACATATATATAGAAAGTATAAACATATTCTAACTTTTT
*
24213542 TTTTAACAT
1 TTTAAACAT
24213551 TAGTATGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 6 0.12
43 42 0.88
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (43 bp):
TTTAAACATATATATAGAAAGTATAAACATATTCTAACTTTTT
Found at i:24213961 original size:56 final size:57
Alignment explanation
Indices: 24213869--24213977 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 57
24213859 ATGCACACAG
* *
24213869 CAGTAAAAAAAATTATAGAAGAAGAGAGGGAAAAGAGAAGA-AAGAAAGAAAAAATT
1 CAGTAAAAAAAATTACAGAAAAAGAGAGGGAAAAGAGAAGAGAAGAAAGAAAAAATT
** *
24213925 CAGT-AAAAAAATTACAGAAAAAAGAGAGGGGGAAGAGAAGAGAAGAAATAAAA
1 CAGTAAAAAAAATTACAG-AAAAAGAGAGGGAAAAGAGAAGAGAAGAAAGAAAA
24213978 GGTCTCTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
55 12 0.26
56 24 0.52
57 10 0.22
ACGTcount: A:0.63, C:0.03, G:0.25, T:0.09
Consensus pattern (57 bp):
CAGTAAAAAAAATTACAGAAAAAGAGAGGGAAAAGAGAAGAGAAGAAAGAAAAAATT
Found at i:24214916 original size:36 final size:36
Alignment explanation
Indices: 24214869--24214940 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24214859 AAGATGGAAG
24214869 AAAACGTATAACTGAATTTAAGTGGTTAAATGTAAA
1 AAAACGTATAACTGAATTTAAGTGGTTAAATGTAAA
24214905 AAAACGTATAACTGAATTTAAGTGGTTAAATGTAAA
1 AAAACGTATAACTGAATTTAAGTGGTTAAATGTAAA
24214941 GATAAATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.31
Consensus pattern (36 bp):
AAAACGTATAACTGAATTTAAGTGGTTAAATGTAAA
Found at i:24220684 original size:46 final size:46
Alignment explanation
Indices: 24220588--24220761 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
24220578 TCATCACGTA
** * * * * *
24220588 GCCGATGCATGTCTGAGACATGTCTTACATTGGCT-TACGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTATCAAT
*
24220634 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
* *
24220680 GCCGATGCCATGTCCCAGACTTGGTCTTACACTGGCTCTC--AT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTATCAA--T
*
24220727 GGTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
24220762 CCACAAACAA
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.02
46 57 0.52
47 28 0.26
48 22 0.20
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
Found at i:24222903 original size:53 final size:53
Alignment explanation
Indices: 24222841--24222947 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
24222831 CCTCCAGAGT
24222841 GATAGTGCACTCCCCACATGGCAAATGAAAAGTGTGGGTCTCCGGGCGCCAAC
1 GATAGTGCACTCCCCACATGGCAAATGAAAAGTGTGGGTCTCCGGGCGCCAAC
24222894 GATAGTGCACTCCCCACATGGCAAATGAAAAGTGTGGGTCTCCGGGCGCCAAC
1 GATAGTGCACTCCCCACATGGCAAATGAAAAGTGTGGGTCTCCGGGCGCCAAC
24222947 G
1 G
24222948 CTCGACCGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (53 bp):
GATAGTGCACTCCCCACATGGCAAATGAAAAGTGTGGGTCTCCGGGCGCCAAC
Found at i:24223990 original size:145 final size:145
Alignment explanation
Indices: 24223720--24224394 Score: 850
Period size: 145 Copynumber: 4.6 Consensus size: 145
24223710 TTTTGTTGGG
* * * *
24223720 TGATTTTGGCCCTTTGTTGGTATTTTTTTATTTTCGGATTTTACTTTTTAAAACATACTATTTTC
1 TGATTTTGGCACTTTGTTAGTA--TTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTC
* *
24223785 GTATTTTATTTTTATATTATTTAAGTATATAATGTTTCAAATGTATTATTTTAGTATTTTTTATA
64 GTATTTTATTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTA-TTTA-TATTTTTTATA
*
24223850 TTAATTTAGTAAATAACCC
127 TTAATTTAATAAATAACCC
* *
24223869 TGATTTTGGCCCTTTGTTAGTA-TTTT-TTTTCGGATTTTATTTTTTAAAATATATTATTTTCGT
1 TGATTTTGGCACTTTGTTAGTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
* * *
24223932 ATTCTATTTTTATATTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTGTTTTTTTATAT
66 ATTTTATTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTA-TTTA-T-ATTTTTTATAT
* *
24223997 TAATTTAGTAAATAACCT
128 TAATTTAATAAATAACCC
* * * * *
24224015 TGA-TTTGACACTTTGATCGTATTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTTT
1 TGATTTTGGCACTTTGTTAGTA-TTTTTATTTTCGGATTTTATTTTTTAAAATATACTA-TTTTC
* *
24224079 GTATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTA-ATTTTTTATA
64 GTATTTTA--TTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTATATTTTTTATA
* *
24224143 TTAATTTAATAAATAGCCT
127 TTAATTTAATAAATAACCC
* * *
24224162 TGATTTTGGTACTTTGTTTGTATTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCG
1 TGATTTTGGCACTTTGTTAGTA-TTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCG
* *
24224227 TATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATGTTTTTTATATTA
65 TATTTTATTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTATATTTTTTATATTA
*
24224292 ATTTAATAAATAAGCC
130 ATTTAATAAATAACCC
** * *
24224308 TGATTTTGGCACTTTGTTCA-TATTTTTTATTTT---A-AAT-TTTTTTAGAATATACTGTTTTC
1 TGATTTTGGCACTTTGTT-AGTA-TTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTC
24224367 GTATTTTATTTTTATATT-TTTTAGTAAA
64 GTATTTTATTTTTATATTATTTTAGTAAA
24224395 AACCCCTCCC
Statistics
Matches: 475, Mismatches: 41, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
140 9 0.02
141 38 0.08
142 1 0.00
143 1 0.00
145 140 0.29
146 89 0.19
147 45 0.09
148 79 0.17
149 32 0.07
150 4 0.01
151 37 0.08
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (145 bp):
TGATTTTGGCACTTTGTTAGTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
ATTTTATTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTATATTTTTTATATTAA
TTTAATAAATAACCC
Found at i:24224065 original size:293 final size:290
Alignment explanation
Indices: 24223743--24224389 Score: 889
Period size: 296 Copynumber: 2.2 Consensus size: 290
24223733 TTGTTGGTAT
* *
24223743 TTTTTTATTTTCGGATTTTACTTTTTAAAACATACTATTTTCGTATTTTATTTTTATATTATTTA
1 TTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATATTATTTA
* * *
24223808 AGTATATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACCCTGAT
66 AGTACATAATATTTCAAATGTATTA-TTTA--ATTTTTTATATTAATTTAATAAATAACCCTGAT
* * *
24223873 TTTGGCCCTTTGTTAGTA-TTTT-TTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTC
128 TTTGGCACTTTGTTAGTATTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTC
24223936 TATTTTTATATTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTGTTTTTTTATATTAAT
193 TATTTTTATATTATTTTAGTAAATAATGTTTCAAATATATTA-TTTA-TG-TTTTTTATATTAAT
* *
24224001 TTAGTAAATAA-CCTTGA-TTTGACACTTTGATCGTA
255 TTAATAAATAAGCC-TGATTTTGACACTTTGATCATA
* *
24224036 TTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTTTGTATTTTATTTTTTTATATTAT
1 TTTTTTATTTTCGGATTTTATTTTTTAAAATATACTA-TTTTCGTATTTTA--TTTTTATATTAT
* * *
24224101 TTTAGTACATAATATTTCAAATGTATTATTTAATTTTTTATATTAATTTAATAAATAGCCTTGAT
63 TTAAGTACATAATATTTCAAATGTATTATTTAATTTTTTATATTAATTTAATAAATAACCCTGAT
* *
24224166 TTTGGTACTTTGTTTGTATTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATT
128 TTTGGCACTTTGTTAGTA-TTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATT
* * *
24224231 TTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATGTTTTTTATATTAATTT
192 CTATTTTTATATTATTTTAGTAAATAATGTTTCAAATATATTATTTATGTTTTTTATATTAATTT
* *
24224296 AATAAATAAGCCTGATTTTGGCACTTTGTTCATA
257 AATAAATAAGCCTGATTTTGACACTTTGATCATA
** * * *
24224330 TTTTTTATTTT---A-AAT-TTTTTTAGAATATACTGTTTTCGTATTTTATTTTTATATTTTTTA
1 TTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATATTATTTA
24224390 GTAAAAACCC
Statistics
Matches: 316, Mismatches: 30, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
286 13 0.04
288 12 0.04
289 14 0.04
290 1 0.00
291 1 0.00
293 106 0.34
294 42 0.13
295 12 0.04
296 115 0.36
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (290 bp):
TTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATATTATTTA
AGTACATAATATTTCAAATGTATTATTTAATTTTTTATATTAATTTAATAAATAACCCTGATTTT
GGCACTTTGTTAGTATTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTCTAT
TTTTATATTATTTTAGTAAATAATGTTTCAAATATATTATTTATGTTTTTTATATTAATTTAATA
AATAAGCCTGATTTTGACACTTTGATCATA
Found at i:24224100 original size:13 final size:14
Alignment explanation
Indices: 24224066--24224103 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
24224056 TTTTTTAAAA
24224066 TATATTATTTTTTG
1 TATATTATTTTTTG
*
24224080 TATTTTATTTTTT-
1 TATATTATTTTTTG
24224093 TATATTATTTT
1 TATATTATTTT
24224104 AGTACATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TATATTATTTTTTG
Found at i:24224446 original size:15 final size:15
Alignment explanation
Indices: 24224426--24224479 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
24224416 TCCAAAAAAG
24224426 TTATTTTTTAGTATT
1 TTATTTTTTAGTATT
* **
24224441 TTATTTTTTATTAAG
1 TTATTTTTTAGTATT
* *
24224456 ATATTTTGTAGTATT
1 TTATTTTTTAGTATT
24224471 TTATTTTTT
1 TTATTTTTT
24224480 TATACTATTT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTATTTTTTAGTATT
Found at i:24224928 original size:9 final size:10
Alignment explanation
Indices: 24224905--24224934 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24224895 AAATTTACAT
24224905 TTTTTCCTTC
1 TTTTTCCTTC
*
24224915 TTTTTCTTTC
1 TTTTTCCTTC
24224925 TTTTTCCTTC
1 TTTTTCCTTC
24224935 CCTCCCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCCTTC
Found at i:24225842 original size:48 final size:48
Alignment explanation
Indices: 24225786--24225882 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
24225776 CAACCTAAGA
24225786 AGGATATCATATGTATGCAGCAGATATGTGTCTCACATCCATAATCTT
1 AGGATATCATATGTATGCAGCAGATATGTGTCTCACATCCATAATCTT
24225834 AGGATATCATATGTATGCAGCAGATATGTGTCTCACATCCATAATCTT
1 AGGATATCATATGTATGCAGCAGATATGTGTCTCACATCCATAATCTT
24225882 A
1 A
24225883 CATTCAATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (48 bp):
AGGATATCATATGTATGCAGCAGATATGTGTCTCACATCCATAATCTT
Found at i:24226271 original size:29 final size:29
Alignment explanation
Indices: 24226205--24226282 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 29
24226195 TACATACATG
*
24226205 CATATGGCCCA-CTTGGCCCAATCTCATTT
1 CATATGGCCCATC-AGGCCCAATCTCATTT
24226234 -ATATGGCCCATCAGGCCCAAT-TCATATT
1 CATATGGCCCATCAGGCCCAATCTCAT-TT
*
24226262 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCATCAGGCCCAA
24226283 ATTACCTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
27 4 0.09
28 20 0.45
29 20 0.45
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATCTCATTT
Found at i:24226295 original size:29 final size:27
Alignment explanation
Indices: 24226206--24226307 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 27
24226196 ACATACATGC
24226206 ATATGGCCCACTT-GGCCCAATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAT-TCATTT
*
24226234 ATATGGCCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAATTCAT-TT
*
24226262 CATATGGCCCATTAGGCCCAAATTACCTTT
1 -ATATGGCCCATTAGGCCC-AATT-CATTT
* *
24226292 ATATGACCCGTTAGGC
1 ATATGGCCCATTAGGC
24226308 TCAAATCACC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.08
28 20 0.31
29 31 0.48
30 6 0.09
31 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCCAATTCATTT
Found at i:24226312 original size:29 final size:28
Alignment explanation
Indices: 24226232--24226323 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 28
24226222 CCAATCTCAT
* * * **
24226232 TTATATGGCCCATCAGGCCCAATTCATA
1 TTATATGACCCATTAGGCCCAAATCACC
* *
24226260 TTCATATGGCCCATTAGGCCCAAATTACC
1 TT-ATATGACCCATTAGGCCCAAATCACC
* *
24226289 TTTATATGACCCGTTAGGCTCAAATCACC
1 -TTATATGACCCATTAGGCCCAAATCACC
24226318 TTATAT
1 TTATAT
24226324 TCATGCTCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 8 0.15
29 43 0.81
30 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (28 bp):
TTATATGACCCATTAGGCCCAAATCACC
Found at i:24226404 original size:17 final size:18
Alignment explanation
Indices: 24226382--24226417 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24226372 TTTCTTATTA
24226382 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
24226399 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
24226417 T
1 T
24226418 CTAGCCCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.25
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:24234022 original size:29 final size:29
Alignment explanation
Indices: 24233957--24234060 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 29
24233947 TACATACATG
24233957 CATATGGCCCACTT-GGCCCAATCTCATTT
1 CATATGGCCCA-TTAGGCCCAATCTCATTT
*
24233986 -ATATGGCCTATTAGGCCCAAT-TCATATT
1 CATATGGCCCATTAGGCCCAATCTCAT-TT
* *
24234014 CATATGGCCCATTAGGCCCAAATCACCTTT
1 CATATGGCCCATTAGGCCC-AATCTCATTT
* *
24234044 -ATATAGCCCGTTAGGCC
1 CATATGGCCCATTAGGCC
24234061 TAAATCACCT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.09
28 19 0.30
29 32 0.50
30 5 0.08
31 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATCTCATTT
Found at i:24234065 original size:29 final size:28
Alignment explanation
Indices: 24233984--24234075 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 28
24233974 CCAATCTCAT
* * * **
24233984 TTATATGGCCTATTAGGCCCAATTCATA
1 TTATATAGCCCATTAGGCCCAAATCACC
*
24234012 TTCATATGGCCCATTAGGCCCAAATCACC
1 TT-ATATAGCCCATTAGGCCCAAATCACC
* *
24234041 TTTATATAGCCCGTTAGGCCTAAATCACC
1 -TTATATAGCCCATTAGGCCCAAATCACC
24234070 TTATAT
1 TTATAT
24234076 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.15
29 45 0.82
30 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (28 bp):
TTATATAGCCCATTAGGCCCAAATCACC
Found at i:24235621 original size:16 final size:17
Alignment explanation
Indices: 24235600--24235633 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
24235590 CTCCATCTCC
24235600 TTCTTCTTCT-CTTCTT
1 TTCTTCTTCTCCTTCTT
24235616 TTCTTCTTCTCCTTCTT
1 TTCTTCTTCTCCTTCTT
24235633 T
1 T
24235634 CTTTACGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTTCTTCTCCTTCTT
Found at i:24235825 original size:19 final size:20
Alignment explanation
Indices: 24235801--24235843 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
24235791 GCCTGTAACC
*
24235801 TTTTTTA-TTTTTTAGCTTT
1 TTTTTTACTTTTTCAGCTTT
24235820 TTTTTTACTTTTTCAGCTTT
1 TTTTTTACTTTTTCAGCTTT
24235840 TTTT
1 TTTT
24235844 CTGTTTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTTACTTTTTCAGCTTT
Found at i:24239435 original size:43 final size:43
Alignment explanation
Indices: 24239383--24239465 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
24239373 CTAAAAACAT
*
24239383 GGGCATGTGTCTCAGCCATGTAAGTCACACTGTTCGGCCATAC
1 GGGCATGTGTCTCAGCCATGTAAGTCACACTGTCCGGCCATAC
* * * * *
24239426 GGGCGTGTGTCTTAGCCGTGTGAGTTACACTGTCCGGCCA
1 GGGCATGTGTCTCAGCCATGTAAGTCACACTGTCCGGCCA
24239466 CATGGCTGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (43 bp):
GGGCATGTGTCTCAGCCATGTAAGTCACACTGTCCGGCCATAC
Found at i:24242910 original size:15 final size:15
Alignment explanation
Indices: 24242890--24242919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24242880 TCCTAATTCT
*
24242890 AAAAAATTATTTTTA
1 AAAAAATCATTTTTA
24242905 AAAAAATCATTTTTA
1 AAAAAATCATTTTTA
24242920 GCTATTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAAATCATTTTTA
Found at i:24243390 original size:60 final size:59
Alignment explanation
Indices: 24243231--24243410 Score: 308
Period size: 59 Copynumber: 3.0 Consensus size: 59
24243221 CTCACATGAG
*
24243231 TTAGTTGATGGGTTATAAAGAGTTAAAAATGAATTTAAAAAAATTA-AAATTTTTTAAAT
1 TTAGTTGATGGGTTATAAAGGGTTAAAAATGAATTTAAAAAAATTATAAATTTTTT-AAT
24243290 TTAGTTGATGGGTTATAAAGGGTTAAAAATGAATTTAAAAAAATTATAAATTTTTTAAT
1 TTAGTTGATGGGTTATAAAGGGTTAAAAATGAATTTAAAAAAATTATAAATTTTTTAAT
**
24243349 TTAGTTGATGGGTTATAAAGGGTTAAAAATGAATTTAAAAAAAACAATAAATTTTTTAAT
1 TTAGTTGATGGGTTATAAAGGGTTAAAAATGAATTT-AAAAAAATTATAAATTTTTTAAT
24243409 TT
1 TT
24243411 TTAGAGTTAA
Statistics
Matches: 116, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
59 84 0.72
60 32 0.28
ACGTcount: A:0.46, C:0.01, G:0.14, T:0.39
Consensus pattern (59 bp):
TTAGTTGATGGGTTATAAAGGGTTAAAAATGAATTTAAAAAAATTATAAATTTTTTAAT
Found at i:24247347 original size:71 final size:71
Alignment explanation
Indices: 24247264--24247406 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
24247254 AATTAATACC
24247264 TAAATTTAAAAAAAAAGAAAGAAACATTTACTTGACTAATTTTTTCAACTTGATTTTTGTAACAC
1 TAAATTTAAAAAAAAAGAAAGAAACATTTACTTGACTAATTTTTTCAACTTGATTTTTGTAACAC
24247329 CCCATA
66 CCCATA
24247335 TAAATTTAAAAAAAAAGAAAGAAACATTTACTTGACTAATTTTTTCAACTTGATTTTTGTAACAC
1 TAAATTTAAAAAAAAAGAAAGAAACATTTACTTGACTAATTTTTTCAACTTGATTTTTGTAACAC
24247400 CCCATA
66 CCCATA
24247406 T
1 T
24247407 CCGACTTAGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (71 bp):
TAAATTTAAAAAAAAAGAAAGAAACATTTACTTGACTAATTTTTTCAACTTGATTTTTGTAACAC
CCCATA
Found at i:24254272 original size:45 final size:46
Alignment explanation
Indices: 24254145--24254326 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
24254135 TATATATACA
* * *
24254145 CATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
24254191 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
24254237 CATCTCATACACGTTT-GCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
24254282 CATCTCATACACATTTCGTATTAGCCATTTGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
24254327 ATACACTTCC
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 44 0.35
46 82 0.65
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:24254272 original size:91 final size:92
Alignment explanation
Indices: 24254145--24254326 Score: 276
Period size: 91 Copynumber: 2.0 Consensus size: 92
24254135 TATATATACA
* * *
24254145 CATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGC
*
24254210 ATTAGCCATTCGGCTTTACCTCATATC
66 ATTAGCCATTCGGCTTTACCACATATC
* * * *
24254237 CATCTCATACACGTTT-GCATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCGT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGC
*
24254301 ATTAGCCATTTGGCTTTACCACATAT
66 ATTAGCCATTCGGCTTTACCACATAT
24254327 ATACACTTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 67 0.83
92 14 0.17
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (92 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGC
ATTAGCCATTCGGCTTTACCACATATC
Found at i:24254371 original size:47 final size:47
Alignment explanation
Indices: 24254305--24254678 Score: 561
Period size: 47 Copynumber: 8.0 Consensus size: 47
24254295 TTTCGTATTA
* * * * * *
24254305 GCCATTTGGCTTTACCACATATATACACT-TCCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTG
*
24254352 GCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
24254399 GGCATTCGGCCTTATCACATATATGCATATTCACATTCATCACATTA
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
24254446 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
24254493 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
24254540 GCCATTCAGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
24254587 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
24254634 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
24254679 AAAATCCTAA
Statistics
Matches: 303, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 302 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:24254462 original size:22 final size:22
Alignment explanation
Indices: 24254390--24254464 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
24254380 GTTCACATTC
* *
24254390 ATCACATTGGGCATTCGGCCTT
1 ATCACATTAGCCATTCGGCCTT
* * *
24254412 ATCACATATATGCATATTC-ACATT
1 ATCACAT-TA-GC-CATTCGGCCTT
24254436 CATCACATTAGCCATTCGGCCTT
1 -ATCACATTAGCCATTCGGCCTT
24254459 ATCACA
1 ATCACA
24254465 CATATGCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTAGCCATTCGGCCTT
Found at i:24258531 original size:22 final size:22
Alignment explanation
Indices: 24258468--24258566 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
24258458 CATTATAATA
**
24258468 CCTACTGATTTACACTACGGTG
1 CCTACTGATTTACACTTTGGTG
* *
24258490 CCTACTGATTCACACGTTGGTG
1 CCTACTGATTTACACTTTGGTG
* * *
24258512 CTTACTGCTTTACACTTTGGTA
1 CCTACTGATTTACACTTTGGTG
* ** *
24258534 CCTATTGATCAACACTTCGGTG
1 CCTACTGATTTACACTTTGGTG
*
24258556 ACTACT-ATTTA
1 CCTACTGATTTA
24258567 AAGAACTTCG
Statistics
Matches: 57, Mismatches: 20, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
21 3 0.05
22 54 0.95
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (22 bp):
CCTACTGATTTACACTTTGGTG
Found at i:24267692 original size:53 final size:54
Alignment explanation
Indices: 24267607--24267813 Score: 168
Period size: 53 Copynumber: 3.8 Consensus size: 54
24267597 TTCGTTTTTA
* * * *
24267607 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
24267660 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGAG-ATCTTTGTCTTATAG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTATAG
** * * * * * * * *
24267714 TAGTTTATCACTGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
24267769 AAC-CTTCCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTC-ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
24267814 ACACCCTAAT
Statistics
Matches: 117, Mismatches: 32, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
53 43 0.37
54 34 0.29
55 40 0.34
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (54 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:24267746 original size:55 final size:54
Alignment explanation
Indices: 24267619--24267764 Score: 154
Period size: 55 Copynumber: 2.7 Consensus size: 54
24267609 CTTACCATTT
* *
24267619 CCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCACTG
* * * * ** * *
24267672 CCATGCCTTGGCATGGTCTTACATGAG-ATCTTTGTCTTATAGTAGTTTATCACTG
1 CCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTAT-G-AACTCACCACTG
*
24267727 CCATGTCTTGACATGGTCTTACATGA-TTTCCTTGCCTT
1 CCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTT
24267765 GTAAAACCTT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
53 33 0.45
54 2 0.03
55 39 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCACTG
Found at i:24270718 original size:19 final size:19
Alignment explanation
Indices: 24270694--24270731 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24270684 GCTGTTACAG
24270694 ATACATAGTAAGAAAATGA
1 ATACATAGTAAGAAAATGA
24270713 ATACATAGTAAGAAAATGA
1 ATACATAGTAAGAAAATGA
24270732 CCAGATAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (19 bp):
ATACATAGTAAGAAAATGA
Found at i:24273882 original size:50 final size:46
Alignment explanation
Indices: 24273811--24273932 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
24273801 TGTCTTCGAC
** * *
24273811 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATATATCTAAT
* * *
24273861 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
*
24273907 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
24273933 CTGTCCTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:24275953 original size:40 final size:40
Alignment explanation
Indices: 24275891--24276107 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
24275881 AAGCCAAGTA
* * * *
24275891 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
24275930 CCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24275970 CCTTCGGGACTTAGCCC-GATATAGTAACTCACACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24276009 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
24276049 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
24276089 CCTTCGGGACTTATCCCGG
1 CCTTCGGGACTTAGCCCGG
24276108 TTATCATCCA
Statistics
Matches: 158, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 51 0.32
40 107 0.68
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24276024 original size:79 final size:78
Alignment explanation
Indices: 24275891--24276107 Score: 267
Period size: 79 Copynumber: 2.7 Consensus size: 78
24275881 AAGCCAAGTA
* * * * * *
24275891 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGATATAG-TACTCACACGAATGCCTTCGGGACTTAGCCCGGATATAGT
24275956 AACTCACACAAATG
65 AACTCACACAAATG
24275970 CCTTCGGGACTTAGCCCGATATAGTAACTCACACGAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGATATAGT-ACTCACACGAATGCCTTCGGGACTTAGCCCGGATATAGT
*
24276035 AACTCGCACAAATG
65 AACTCACACAAATG
* * * *
24276049 CCTTTGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAATGCCTTCGGGACTTATCCCGG
1 CCTTCGGGACTTAGCCC-GATA-TAGT-ACTCA-CACGAATGCCTTCGGGACTTAGCCCGG
24276108 TTATCATCCA
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 88 0.72
80 33 0.27
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGATATAGTACTCACACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTCACACAAATG
Found at i:24277927 original size:29 final size:30
Alignment explanation
Indices: 24277861--24277930 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
24277851 AACTTTCACA
*
24277861 CATTCATAATCACATACTTTAGACAATAAAT
1 CATT-ATATTCACATACTTTAGACAATAAAT
* *
24277892 -ATCATATTCACATATTTTAGACAAT-AAT
1 CATTATATTCACATACTTTAGACAATAAAT
24277920 CATTATATTCA
1 CATTATATTCA
24277931 AATAATTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 3 0.09
29 29 0.85
30 2 0.06
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (30 bp):
CATTATATTCACATACTTTAGACAATAAAT
Found at i:24284495 original size:29 final size:29
Alignment explanation
Indices: 24284452--24284575 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
24284442 GAAAGCATGT
24284452 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
24284481 TTATGAATGTGATTTGGGCCCAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
24284510 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
24284539 ATATGAATGAGA-TTGGGCCT-AGGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
24284566 ATATGCATGT
1 ATATGAATGT
24284576 ATATAAACTT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 14 0.17
28 8 0.10
29 61 0.73
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:24294336 original size:18 final size:18
Alignment explanation
Indices: 24294313--24294350 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
24294303 CATTAGTCAG
24294313 TTACATACTA-TCAACACA
1 TTACATA-TACTCAACACA
24294331 TTACATATAGCTCAACACA
1 TTACATATA-CTCAACACA
24294350 T
1 T
24294351 AGCATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 7 0.39
19 9 0.50
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (18 bp):
TTACATATACTCAACACA
Found at i:24307738 original size:33 final size:33
Alignment explanation
Indices: 24307692--24307756 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
24307682 ACGAGAGTGT
*
24307692 TAGCTGACCTAGGGTCGAGGACGATGAAAAACC
1 TAGCTGACATAGGGTCGAGGACGATGAAAAACC
* *
24307725 TAGCTGACATAGGGTTGAGGACGATGACAAAC
1 TAGCTGACATAGGGTCGAGGACGATGAAAAAC
24307757 GTAACTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (33 bp):
TAGCTGACATAGGGTCGAGGACGATGAAAAACC
Found at i:24310239 original size:13 final size:13
Alignment explanation
Indices: 24310218--24310257 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
24310208 GCTCGGCAAG
*
24310218 GACACGCCCGTGT
1 GACAAGCCCGTGT
24310231 GACAAGCCCGTGT
1 GACAAGCCCGTGT
24310244 GACACA-CCCGTGT
1 GACA-AGCCCGTGT
24310257 G
1 G
24310258 CGATTACTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (13 bp):
GACAAGCCCGTGT
Found at i:24314712 original size:17 final size:18
Alignment explanation
Indices: 24314674--24314712 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
24314664 TTGATAAAAT
24314674 AAAAATAAATAAAGCAAG
1 AAAAATAAATAAAGCAAG
*
24314692 -AAAATAAATAAA-TAAG
1 AAAAATAAATAAAGCAAG
24314708 AAAAA
1 AAAAA
24314713 AAAGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAATAAATAAAGCAAG
Found at i:24314806 original size:48 final size:48
Alignment explanation
Indices: 24314727--24314823 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
24314717 ATAAAAATCA
24314727 TTAAACAAATCAGGAAGATTAACCCGCTTCAGGGTTTTTAACTAACTT
1 TTAAACAAATCAGGAAGATTAACCCGCTTCAGGGTTTTTAACTAACTT
* *
24314775 TTAAACAAATCAGGAAGATTAACTCGTTTCAGGGTTTTTAACTAACTT
1 TTAAACAAATCAGGAAGATTAACCCGCTTCAGGGTTTTTAACTAACTT
24314823 T
1 T
24314824 AGATTAGGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (48 bp):
TTAAACAAATCAGGAAGATTAACCCGCTTCAGGGTTTTTAACTAACTT
Found at i:24319772 original size:19 final size:21
Alignment explanation
Indices: 24319737--24319776 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
24319727 ATTTCAAAAT
24319737 ATAAATAAAGATAAAAATAAA
1 ATAAATAAAGATAAAAATAAA
24319758 ATAAA-AAAG-TAAAAATAAA
1 ATAAATAAAGATAAAAATAAA
24319777 TAATAGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
ATAAATAAAGATAAAAATAAA
Found at i:24325713 original size:12 final size:12
Alignment explanation
Indices: 24325696--24325722 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24325686 TTTGTGCAAA
24325696 CTTGATAAATAT
1 CTTGATAAATAT
24325708 CTTGATAAATAT
1 CTTGATAAATAT
24325720 CTT
1 CTT
24325723 CGAAGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (12 bp):
CTTGATAAATAT
Found at i:24328469 original size:6 final size:6
Alignment explanation
Indices: 24328458--24328512 Score: 83
Period size: 6 Copynumber: 9.0 Consensus size: 6
24328448 ATGACCTGAA
* *
24328458 AAAAAT AAAAAT AAAAAT AAAAAT AAAAGT AAAAGT AAAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT
24328507 AAAAAT
1 AAAAAT
24328513 CATATCTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 41 0.89
7 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:24328894 original size:17 final size:17
Alignment explanation
Indices: 24328854--24328903 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
24328844 AAGTTGATGA
*
24328854 GATAAAAATAAATAAAT
1 GATAAAAATAAACAAAT
* *
24328871 TAGAAAAATAAACAAAT
1 GATAAAAATAAACAAAT
*
24328888 GATAAAAATGAACAAA
1 GATAAAAATAAACAAA
24328904 CCAGTCAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (17 bp):
GATAAAAATAAACAAAT
Found at i:24333631 original size:22 final size:23
Alignment explanation
Indices: 24333591--24333689 Score: 139
Period size: 22 Copynumber: 4.4 Consensus size: 23
24333581 GTAGCTCGTA
*
24333591 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
24333614 GGAGCTTACCG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
24333636 AGAGCTTACTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
24333659 AGAGCTTATTG-TTCAGCTCAAA
1 AGAGCTTACTGTTTCAGCTCAAT
24333681 AGAGCTTAC
1 AGAGCTTAC
24333690 CGACCATGAC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 37 0.55
23 30 0.45
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:24333647 original size:45 final size:45
Alignment explanation
Indices: 24333590--24333689 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 45
24333580 CGTAGCTCGT
* *
24333590 AAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGTTCAGCTCAA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTTCAGCTCAA
* **
24333635 TAGAGCTTACTGTTTCAGCTCAATAGAGCTTATTGTTCAGCTCAA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTTCAGCTCAA
24333680 AAGAGCTTAC
1 AAGAGCTTAC
24333690 CGACCATGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTTCAGCTCAA
Found at i:24340951 original size:23 final size:22
Alignment explanation
Indices: 24340925--24341023 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
24340915 ATAGCTCGTA
* *
24340925 GGAGCTTACTATTTCAGCTCATT
1 GGAGCTTACCATTT-AGCTCAAT
24340948 GGAGCTTACCATTTAGCTCAAT
1 GGAGCTTACCATTTAGCTCAAT
* *
24340970 AGAGCTTACCGTTCT-GCTCAAT
1 GGAGCTTACCATT-TAGCTCAAT
* ** *
24340992 AGAGCTTACTGTTCAGCTCGAA-
1 GGAGCTTACCATTTAGCTC-AAT
24341014 GGAGCTTACC
1 GGAGCTTACC
24341024 GACCATGACC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
22 49 0.75
23 16 0.25
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (22 bp):
GGAGCTTACCATTTAGCTCAAT
Found at i:24340974 original size:22 final size:22
Alignment explanation
Indices: 24340926--24341000 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
24340916 TAGCTCGTAG
* * *
24340926 GAGCTTACTATTTCAGCTCATTG
1 GAGCTTACCATTT-AGCTCAATA
24340949 GAGCTTACCATTTAGCTCAATA
1 GAGCTTACCATTTAGCTCAATA
*
24340971 GAGCTTACCGTTCT-GCTCAATA
1 GAGCTTACCATT-TAGCTCAATA
24340993 GAGCTTAC
1 GAGCTTAC
24341001 TGTTCAGCTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
22 34 0.72
23 13 0.28
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (22 bp):
GAGCTTACCATTTAGCTCAATA
Found at i:24341005 original size:22 final size:22
Alignment explanation
Indices: 24340937--24341024 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
24340927 AGCTTACTAT
* * *
24340937 TTCAGCTCATTGGAGCTTACCA
1 TTCAGCTCAATAGAGCTTACCG
*
24340959 TTTAGCTCAATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
* *
24340981 TTCTGCTCAATAGAGCTTACTG
1 TTCAGCTCAATAGAGCTTACCG
*
24341003 TTCAGCTCGAA-GGAGCTTACCG
1 TTCAGCTC-AATAGAGCTTACCG
24341025 ACCATGACCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 53 0.96
23 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACCG
Found at i:24342180 original size:19 final size:19
Alignment explanation
Indices: 24342132--24342170 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
24342122 GTGTCACTTG
24342132 AAAAGTTGAAAATTTTCTA
1 AAAAGTTGAAAATTTTCTA
24342151 AAAAGTTGAAAATTTTCTA
1 AAAAGTTGAAAATTTTCTA
24342170 A
1 A
24342171 GTTTTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (19 bp):
AAAAGTTGAAAATTTTCTA
Found at i:24344657 original size:24 final size:24
Alignment explanation
Indices: 24344630--24344675 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
24344620 TATCCCACCC
*
24344630 CATGCAATGCAACGTA-ATATTATA
1 CATGCAA-GCAACATAGATATTATA
*
24344654 CATGGAAGCAACATAGATATTA
1 CATGCAAGCAACATAGATATTA
24344676 CATGGCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (24 bp):
CATGCAAGCAACATAGATATTATA
Found at i:24347590 original size:20 final size:19
Alignment explanation
Indices: 24347561--24347605 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
24347551 ATTAGAATGT
*
24347561 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
24347580 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
24347600 AAAAAT
1 AAAAAT
24347606 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:24351150 original size:56 final size:56
Alignment explanation
Indices: 24351076--24351399 Score: 490
Period size: 56 Copynumber: 5.8 Consensus size: 56
24351066 TCCAAGACAA
* * * * *
24351076 GGTCTTACTCGTAAACACATATCGGAATCACCTATCGATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * *
24351132 GGTTTTACTCACACACACATATCAGAATCACATATCGATGCC-ACTATATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAAC-GTATTAAACGT
*
24351188 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
24351244 GGTCTTACTCGCACACACATATCAGAATCACATATCGATACCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
24351300 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
*
24351356 GGTCTTACTCGTACACACATATC-GAAATCACATATCGATGCCAA
1 GGTCTTACTCGCACACACATATCAG-AATCACATATCGATGCCAA
24351400 TGTACCAGAC
Statistics
Matches: 246, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
55 2 0.01
56 242 0.98
57 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:24351414 original size:168 final size:168
Alignment explanation
Indices: 24351049--24351434 Score: 515
Period size: 168 Copynumber: 2.3 Consensus size: 168
24351039 ACATGTAATT
* ** * * *
24351049 ACATATCGATGCCACTGT-CCAAGACAAGGTCTTACTCGTAAACACATATCGGAATCACCTATCG
1 ACATATCGATGCCAATGTACC-AGACGTGGTCTTACTCGCAAACACATATCAGAATCACATATCG
* * * *
24351113 ATGCTAACGTATTAAACGTGGTTTTACTCACACACACATATCAGAATCACATATCGATGCCACTA
65 ATACCAACGTATTAAACGTGGTCTTACTCACACACACATATCAAAATCACATATCGATGCCACTA
*
24351178 TATTAAACGTGGTCTTACTCGCACACACATATCGGAATC
130 TATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
* ** * *
24351217 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATCACATATCGA
1 ACATATCGATGCCAATGTACCAGACGTGGTCTTACTCGCAAACACATATCAGAATCACATATCGA
* * *
24351282 TACCAACGTATTAAATGTGGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAAC-G
66 TACCAACGTATTAAACGTGGTCTTACTCACACACACATATCAAAATCACATATCGATGCC-ACTA
* *
24351346 TATTAAATGTGGTCTTACTCGTACACACATATCGAAATC
130 TATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
* * * *
24351385 ACATATCGATGCCAATGTACCAGACGTGGTGTTACACGTAATCACATATC
1 ACATATCGATGCCAATGTACCAGACGTGGTCTTACTCGCAAACACATATC
24351435 GATGCCAACG
Statistics
Matches: 186, Mismatches: 30, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
168 184 0.99
169 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (168 bp):
ACATATCGATGCCAATGTACCAGACGTGGTCTTACTCGCAAACACATATCAGAATCACATATCGA
TACCAACGTATTAAACGTGGTCTTACTCACACACACATATCAAAATCACATATCGATGCCACTAT
ATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
Found at i:24351429 original size:43 final size:43
Alignment explanation
Indices: 24351381--24351475 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
24351371 CACATATCGA
* * *
24351381 AATCACATATCGATGCCAATGTACCAGACGTGGTGTTACACGT
1 AATCACATATCGATGCCAACGTACCACACGTGGTCTTACACGT
* *
24351424 AATCACATATCGATGCCAACGTCCCACACGTGGTCTTACATGT
1 AATCACATATCGATGCCAACGTACCACACGTGGTCTTACACGT
24351467 AATCACATA
1 AATCACATA
24351476 CCAGAAATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTACCACACGTGGTCTTACACGT
Found at i:24351434 original size:112 final size:112
Alignment explanation
Indices: 24351049--24351419 Score: 494
Period size: 112 Copynumber: 3.3 Consensus size: 112
24351039 ACATGTAATT
* ** * * *
24351049 ACATATCGATGCCACTGT-CCAAGACAAGGTCTTACTCGTAAACACATATCGGAATCACCTATCG
1 ACATATCGATGCCAATGTACCAA-ACGTGGTCTTACTCGCACACACATATCGGAATCACATATCG
* * *
24351113 ATGCTAACGTATTAAACGTGGTTTTACTCACACACACATATCAGAATC
65 ATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATC
* * **
24351161 ACATATCGATGCCACTATATTAAACGTGGTCTTACTCGCACACACATATCGGAATCACATATCGA
1 ACATATCGATGCCAATGTACCAAACGTGGTCTTACTCGCACACACATATCGGAATCACATATCGA
24351226 TGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATC
66 TGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATC
* * ** * **
24351273 ACATATCGATACCAACGTATTAAATGTGGTCTTACTCGCACACACATATCAAAATCACATATCGA
1 ACATATCGATGCCAATGTACCAAACGTGGTCTTACTCGCACACACATATCGGAATCACATATCGA
* *
24351338 TGCCAACGTATTAAATGTGGTCTTACTCGTACACACATATC-GAAATC
66 TGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAG-AATC
* *
24351385 ACATATCGATGCCAATGTACCAGACGTGGTGTTAC
1 ACATATCGATGCCAATGTACCAAACGTGGTCTTAC
24351420 ACGTAATCAC
Statistics
Matches: 230, Mismatches: 27, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.00
112 227 0.99
113 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (112 bp):
ACATATCGATGCCAATGTACCAAACGTGGTCTTACTCGCACACACATATCGGAATCACATATCGA
TGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATC
Found at i:24363062 original size:46 final size:46
Alignment explanation
Indices: 24362995--24363169 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 46
24362985 TGTAACCCGC
24362995 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* * * *
24363041 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG--G--T-GTTCGCAT
* ** * **
24363091 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* * * *
24363134 CCATAAGTGAACTCGGGCTCAACTCAACGTGCTCGG
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG
24363170 ATGCCTAGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 3 0.03
46 57 0.56
47 25 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:24363114 original size:47 final size:47
Alignment explanation
Indices: 24363049--24363215 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 47
24363039 ATCCATAAGT
* *
24363049 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
24363096 GAACTTGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
* * *
24363142 GAACTCGGGCTCAACTCAACGTGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
24363189 GAACTCGGGCTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
24363216 AACGTTTGCA
Statistics
Matches: 96, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 24 0.25
47 50 0.52
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24363266 original size:93 final size:93
Alignment explanation
Indices: 24363002--24363266 Score: 386
Period size: 93 Copynumber: 2.8 Consensus size: 93
24362992 CGCCCATAAG
* * * *
24363002 CGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
24363067 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
24363095 CGAACTTGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
24363160 ACGTGCTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* ** *
24363188 CGAACTCGGGCTCAACTCAACGAGTTCGAACGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
24363253 ATGAGTTCAGATGC
66 ACGAGTTCGGATGC
24363267 TCAAATATCC
Statistics
Matches: 151, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 151 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24366798 original size:28 final size:26
Alignment explanation
Indices: 24366742--24366854 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
24366732 AGCATGGCTG
* *
24366742 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
24366768 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
24366796 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
24366823 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
24366851 CCAG
1 CCAG
24366855 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 36 0.49
28 32 0.43
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:24366826 original size:55 final size:54
Alignment explanation
Indices: 24366742--24366854 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
24366732 AGCATGGCTG
*
24366742 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAACCA
* * * * *
24366796 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
24366851 CCAG
1 CCAG
24366855 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:24368298 original size:24 final size:24
Alignment explanation
Indices: 24368271--24368317 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24368261 CTAGATTTCC
**
24368271 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
24368295 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
24368318 CTCCTGATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:24372813 original size:12 final size:12
Alignment explanation
Indices: 24372790--24372815 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24372780 TTTTTAAAAA
24372790 ATTTTATTATAT
1 ATTTTATTATAT
24372802 ATTTTATTATAT
1 ATTTTATTATAT
24372814 AT
1 AT
24372816 ATAATATTTA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTATTATAT
Found at i:24377000 original size:45 final size:45
Alignment explanation
Indices: 24376916--24377043 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
24376906 CCAAATTCAT
* * *
24376916 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
24376959 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
24377004 TCACTGGCATTATAGCTTGCTAGGCTCAAAGGCCTGAATA
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
24377044 GTACTGTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 10 0.13
44 14 0.18
45 54 0.69
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:24381661 original size:25 final size:25
Alignment explanation
Indices: 24381627--24381676 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24381617 ATGCCCGATG
24381627 CAGATACAATATGCCCCAAAAAGCT
1 CAGATACAATATGCCCCAAAAAGCT
24381652 CAGATACAATATGCCCCAAAAAGCT
1 CAGATACAATATGCCCCAAAAAGCT
24381677 TACTTCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.28, G:0.12, T:0.16
Consensus pattern (25 bp):
CAGATACAATATGCCCCAAAAAGCT
Found at i:24385162 original size:44 final size:45
Alignment explanation
Indices: 24385098--24385225 Score: 179
Period size: 45 Copynumber: 2.9 Consensus size: 45
24385088 CCGAATTCAT
* *
24385098 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* * *
24385141 TCATCGGCGTTATAGCCTGCTAGGCTCAAAGGTCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
24385186 TCACCTGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
24385226 GTACTGTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 9 0.12
44 14 0.19
45 50 0.68
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:24385748 original size:16 final size:16
Alignment explanation
Indices: 24385723--24385753 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24385713 CGGGCCGTAA
*
24385723 ATAAATAAAAACAAAT
1 ATAAAAAAAAACAAAT
24385739 ATAAAAAAAAACAAA
1 ATAAAAAAAAACAAA
24385754 AAATATAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (16 bp):
ATAAAAAAAAACAAAT
Found at i:24387076 original size:20 final size:21
Alignment explanation
Indices: 24387051--24387103 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
24387041 TATATATTAT
*
24387051 TTATTTTTATTAGT-TAT-ATA
1 TTATTTTTATTA-TCCATCATA
24387071 TTA-TTTTATTATCCATCATA
1 TTATTTTTATTATCCATCATA
24387091 TTATTTTTATTAT
1 TTATTTTTATTAT
24387104 TCTATTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 9 0.31
21 9 0.31
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTTTTATTATCCATCATA
Found at i:24387080 original size:25 final size:25
Alignment explanation
Indices: 24387013--24387076 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
24387003 TTAATCCTTT
24387013 TTATATATTTAATTTATTTTAAATACC
1 TTATATA-TT-ATTTATTTTAAATACC
* * *
24387040 TTATATATTATTTATTTTTATTA-G
1 TTATATATTATTTATTTTAAATACC
24387064 TTATATATTATTT
1 TTATATATTATTT
24387077 TATTATCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.38
25 12 0.35
26 2 0.06
27 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATATATTATTTATTTTAAATACC
Found at i:24387117 original size:17 final size:17
Alignment explanation
Indices: 24387064--24387162 Score: 68
Period size: 17 Copynumber: 6.1 Consensus size: 17
24387054 TTTTTATTAG
24387064 TTATATA-T-TATTTTA
1 TTATATATTATATTTTA
** * *
24387079 TTATCCATCATATTATTT
1 TTATATATTATATT-TTA
*
24387097 TTAT-TATTCTATTTTA
1 TTATATATTATATTTTA
*
24387113 CTTATAAATTATATTTTA
1 -TTATATATTATATTTTA
*
24387131 TTATATATT-T-TATTA
1 TTATATATTATATTTTA
24387146 -TATATATTAT-TTTTA
1 TTATATATTATATTTTA
24387161 TT
1 TT
24387163 TTTAAAATTA
Statistics
Matches: 64, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
14 8 0.12
15 14 0.22
16 4 0.06
17 22 0.34
18 16 0.25
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATATTATATTTTA
Found at i:24387133 original size:31 final size:30
Alignment explanation
Indices: 24387067--24387162 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
24387057 TTATTAGTTA
24387067 TATATTATTTTATTATCCATCATATTATTTTTAT
1 TATA-TATTTTATTAT--AT-ATATTATTTTTAT
*
24387101 TATTCTATTTTACTTATA-A-ATTATATTTTAT
1 TA-TATATTTTA-TTATATATATTAT-TTTTAT
24387132 TATATATTTTATTATATATATTATTTTTAT
1 TATATATTTTATTATATATATTATTTTTAT
24387162 T
1 T
24387163 TTTAAAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
29 5 0.09
30 21 0.38
31 14 0.25
33 1 0.02
34 9 0.16
35 5 0.09
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
TATATATTTTATTATATATATTATTTTTAT
Found at i:24387149 original size:14 final size:14
Alignment explanation
Indices: 24387095--24387153 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
24387085 ATCATATTAT
*
24387095 TTTTATTAT-TCTA
1 TTTTATTATATATA
24387108 TTTTACTTATAAATTATA
1 TTTTA-TTAT--A-TATA
24387126 TTTTA-T-TATATA
1 TTTTATTATATATA
24387138 TTTTATTATATATA
1 TTTTATTATATATA
24387152 TT
1 TT
24387154 ATTTTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
12 9 0.24
13 7 0.18
14 12 0.32
15 1 0.03
16 1 0.03
18 8 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTATATATA
Found at i:24387179 original size:7 final size:6
Alignment explanation
Indices: 24387040--24387184 Score: 54
Period size: 6 Copynumber: 23.8 Consensus size: 6
24387030 TTTAAATACC
* * *
24387040 TTATATA TTATTTA TTTTTA TTAGTTA TATATTA TT-TTA TTATCCA TCA-TA
1 TTAT-TA TTA-TTA TTATTA TTA-TTA T-TATTA TTATTA TTAT-TA TTATTA
* * *
24387091 TTATTT TTATTA TT-CTA TT-TTA CTTATAAA TTA-TA TT-TTA TTATATA
1 TTATTA TTATTA TTATTA TTATTA -TTAT-TA TTATTA TTATTA TTAT-TA
* * **
24387138 TT-TTA TTA-TA TATATTA TTTTTA TTTTTA AAATTA TGTATTA TTATT
1 TTATTA TTATTA T-TATTA TTATTA TTATTA TTATTA T-TATTA TTATT
24387185 TAATTGTATA
Statistics
Matches: 104, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
5 28 0.27
6 38 0.37
7 34 0.33
8 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (6 bp):
TTATTA
Found at i:24387375 original size:21 final size:20
Alignment explanation
Indices: 24387351--24387402 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
24387341 TATATACATT
*
24387351 TTATTATATTTTTTATATTA
1 TTATTATATTTTTCATATTA
* **
24387371 CTTATCATATGATTCATATTA
1 -TTATTATATTTTTCATATTA
24387392 TTA-TATATTTT
1 TTATTATATTTT
24387403 GTTTACAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 16 0.67
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTATATTTTTCATATTA
Found at i:24394224 original size:40 final size:40
Alignment explanation
Indices: 24394123--24394347 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
24394113 TATTCGAATG
* **
24394123 ATATCCGGGCTAAGTCCCGAAGGTTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
24394164 ATAACCGGACTAATATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
24394204 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
24394244 ATATCCGGGCTAAAACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
24394284 ATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
24394324 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
24394348 CTTGCGCAAG
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.82
41 27 0.18
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:24398155 original size:18 final size:19
Alignment explanation
Indices: 24398111--24398156 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
24398101 TTTAGAGGAA
24398111 TCTCAGGATTGTGAAGATG
1 TCTCAGGATTGTGAAGATG
*
24398130 TC-CAGGATTGTGATG-TG
1 TCTCAGGATTGTGAAGATG
*
24398147 TCTCCGGATT
1 TCTCAGGATT
24398157 TGTTGAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (19 bp):
TCTCAGGATTGTGAAGATG
Found at i:24400025 original size:41 final size:41
Alignment explanation
Indices: 24399959--24400100 Score: 171
Period size: 41 Copynumber: 3.5 Consensus size: 41
24399949 TTGGGGTTTA
*
24399959 AATCTGAGCTTGGTCTCGAACGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAACGGCTTTTGAGCCAGTGTCAT
* *
24400000 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAACGGCTTTTGAGCCAGTGTCAT
* * * * * * *
24400041 AA-CCGAACCTAGTTTCGAACGGC-CTTCAGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAACGGCTTTTGA-GCCAGTGTCAT
24400081 AATCCGAGCTTGGTCTCGAA
1 AATCCGAGCTTGGTCTCGAA
24400101 GGGATTTTTG
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 27 0.33
41 53 0.64
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAACGGCTTTTGAGCCAGTGTCAT
Found at i:24407430 original size:41 final size:41
Alignment explanation
Indices: 24407373--24407532 Score: 214
Period size: 41 Copynumber: 3.9 Consensus size: 41
24407363 TTGGGGTTTA
24407373 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
24407414 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
24407455 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* *
24407495 AATCCGAGCTTGGTCTCGAAGGGTTTTTTGAGTCAGTG
1 AATCCGAGCTTGGTCTCGAAGGG-CTTTTGAGCCAGTG
24407533 CTATGAATCG
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 32 0.32
41 59 0.60
42 8 0.08
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Done.