Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 217 of 325
Found at i:67300284 original size:40 final size:40
Alignment explanation
Indices: 67300080--67300286 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
67300070 AAATTGAATG
* * * * **
67300080 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
67300120 ATATCCGGGTTAA-ACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
67300159 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
67300199 CTATCCGGGCTAAGACCCGAAGGCATTCGAGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
67300239 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
67300279 ATATCCGG
1 ATATCCGG
67300287 TTATATTCCG
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 30 0.21
40 112 0.79
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:67304682 original size:43 final size:41
Alignment explanation
Indices: 67304635--67304776 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 41
67304625 ATGATACCGA
67304635 TGTCCCAGACATGGTCCTTTACATAAATCTTAATCGAGGCCTG
1 TGTCCCAGACATGGT-CTTTACATAAATC-TAATCGAGGCCTG
* ** ** *
67304678 TGTCCCAAACACAGTC-TTACGCGAAATC-AGATACGATGCC-G
1 TGTCCCAGACATGGTCTTTAC-ATAAATCTA-AT-CGAGGCCTG
* *
67304719 ATATCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTG
1 -TGTCCCAGACATGGTCTT-TACATAAATCT-AATCGAGGCCTG
67304763 TGTCCCAGACATGG
1 TGTCCCAGACATGG
67304777 CCTTACACGA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
40 1 0.01
41 7 0.09
42 24 0.32
43 37 0.49
44 6 0.08
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGTCCCAGACATGGTCTTTACATAAATCTAATCGAGGCCTG
Found at i:67304695 original size:85 final size:85
Alignment explanation
Indices: 67304606--67304769 Score: 258
Period size: 85 Copynumber: 1.9 Consensus size: 85
67304596 CCCAGATAGG
* * *
67304606 GTCTTACACGAAATCAGATATGATACCGATGTCCCAGACATGGTCCTT-TACATAAATCTTAATC
1 GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGT-CTTATACATAAATCTCAATC
67304670 GAGGCCTGTGTCCCAAACACA
65 GAGGCCTGTGTCCCAAACACA
* * *
67304691 GTCTTACGCGAAATCAGATACGATGCCGATATCCCAGACATGGTCTTATACGTAAATCTCAATCG
1 GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGTCTTATACATAAATCTCAATCG
67304756 AGGCCTGTGTCCCA
66 AGGCCTGTGTCCCA
67304770 GACATGGCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
84 3 0.04
85 69 0.96
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGTCTTATACATAAATCTCAATCG
AGGCCTGTGTCCCAAACACA
Found at i:67304737 original size:42 final size:41
Alignment explanation
Indices: 67304593--67304738 Score: 100
Period size: 42 Copynumber: 3.5 Consensus size: 41
67304583 TCGATGCATC
* * * *
67304593 TATCCCAGATAGGGTCTTACACGAAATCAGATATGATACCGA
1 TATCCCAGACATGGTCTTAC-CGAAATCAGATACGATGCCGA
* ** *
67304635 TGTCCCAGACATGGTCCTTTACATAAATCTTA-AT-CGAGGCCTG-
1 TATCCCAGACATGGT-C-TTACCGAAATC--AGATACGATGCC-GA
* * **
67304678 TGTCCCAAACACAGTCTTACGCGAAATCAGATACGATGCCGA
1 TATCCCAGACATGGTCTTAC-CGAAATCAGATACGATGCCGA
67304720 TATCCCAGACATGGTCTTA
1 TATCCCAGACATGGTCTTA
67304739 TACGTAAATC
Statistics
Matches: 77, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
40 1 0.01
41 7 0.09
42 39 0.51
43 22 0.29
44 7 0.09
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
TATCCCAGACATGGTCTTACCGAAATCAGATACGATGCCGA
Found at i:67309743 original size:40 final size:40
Alignment explanation
Indices: 67309684--67309891 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
67309674 CAATTGAATG
* * * *
67309684 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
67309724 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67309764 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67309804 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
67309844 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
67309884 ATATCCGG
1 ATATCCGG
67309892 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:67309822 original size:80 final size:80
Alignment explanation
Indices: 67309685--67309891 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
67309675 AATTGAATGA
* * ** * * *
67309685 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
67309750 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
67309763 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
67309828 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
67309845 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
67309892 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:67317792 original size:40 final size:40
Alignment explanation
Indices: 67317723--67317940 Score: 211
Period size: 40 Copynumber: 5.5 Consensus size: 40
67317713 GTGTGCATGA
* * * * *
67317723 GCAATTAATGATATCCGGGCTAAGTCCCGAAGACATTTAT
1 GCAAGTAATTATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
67317763 GCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGT
1 GCAAGTAATTATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * * *
67317803 GCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAGTAATTATATCCGGGCTAAGACCCGAAGGCATTTGT
** * *
67317843 GCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTGT
1 GCAAGTAATTATATCCGGGCTAAGACCCGAAGGCATTTGT
*** * *
67317883 GCAAGCCGTTCTATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAGTAATTATATCCGGGCTAAGACCCGAAGGCATTTGT
* **
67317923 GCATGTGGTTATATCCGG
1 GCAAGTAATTATATCCGG
67317941 TTGTATTCCG
Statistics
Matches: 147, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
GCAAGTAATTATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:67317871 original size:80 final size:80
Alignment explanation
Indices: 67317734--67317940 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
67317724 CAATTAATGA
* * ** * * *
67317734 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
67317799 TTGTGCTAGTGAC-TAC
66 TTGTGC-A-AGACGTAC
* * * *
67317815 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
* *
67317879 TTGTGCAAGCCGTTC
66 TTGTGCAAGACGTAC
* *
67317894 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
67317941 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.02
79 3 0.03
80 102 0.95
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGACGTAC
Found at i:67323357 original size:42 final size:42
Alignment explanation
Indices: 67323255--67323406 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 42
67323245 TACAATGTCG
* * * *
67323255 ATGTCCTAGACGTGGTCTTACATGTAATTCAATACCGATGCCT
1 ATGTCCCAGACATGGTCTTACACGTAAATCAATA-CGATGCCT
* * * * *
67323298 CTGTCCCAAATAGGGTCTTACACG-AAATCAAATACGATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAAATC-AATACGATGCCT
* *
67323340 ATGTCCCAGACATGGTCTTATACGTAAATCTCAAT-CGAGGCCT
1 ATGTCCCAGACATGGTCTTACACGTAAA--TCAATACGATGCCT
* *
67323383 GTGTCCCAGACAAGGTCTTACACG
1 ATGTCCCAGACATGGTCTTACACG
67323407 ATATCTCAGA
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.35
43 51 0.59
44 3 0.03
45 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACACGTAAATCAATACGATGCCT
Found at i:67342009 original size:38 final size:38
Alignment explanation
Indices: 67341967--67342152 Score: 282
Period size: 38 Copynumber: 4.9 Consensus size: 38
67341957 TCTGGGTTAA
* *
67341967 ATCCCGCAGGCTTAGTGCTGGTATTATATCCGAGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTT
*
67342005 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTT
* *
67342043 ATCCCGCAGGCTTCGTGCTAGTATTATATTCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTT
* * **
67342081 ATCCTGCAGGCTTCGTGCTGGTATTATATTCGGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTT
*
67342119 ATCCCGCAGGCTTAGTGCTGGTATTATATTCGAG
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAG
67342153 CTTAAAGTTC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 137 1.00
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTT
Found at i:67342179 original size:40 final size:38
Alignment explanation
Indices: 67341963--67342180 Score: 208
Period size: 38 Copynumber: 5.7 Consensus size: 38
67341953 TATATCTGGG
* * *
67341963 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGAG-
1 TTAAATCCTGCAGGCTTCGTGCTGGTATTATATTCG-GC
** * *
67342001 TTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG-
1 TTAAATCCTGCAGGCTTCGTGCTGGTATTATATTCG-GC
** * * *
67342039 TTTTATCCCGCAGGCTTCGTGCTAGTATTATATTCGGG
1 TTAAATCCTGCAGGCTTCGTGCTGGTATTATATTCGGC
** *
67342077 TTTTATCCTGCAGGCTTCGTGCTGGTATTATATTCGGG
1 TTAAATCCTGCAGGCTTCGTGCTGGTATTATATTCGGC
* *
67342115 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATTCGAGC
1 TTAAATCCTGCAGGCTTCGTGCTGGTATTATATTCG-GC
*
67342154 TTAAAGTTCTGCAGG-TTCTGTGCTGGT
1 TTAAA-TCCTGCAGGCTTC-GTGCTGGT
67342181 GACTGGATTC
Statistics
Matches: 161, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
37 1 0.01
38 137 0.85
39 8 0.05
40 15 0.09
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (38 bp):
TTAAATCCTGCAGGCTTCGTGCTGGTATTATATTCGGC
Found at i:67345156 original size:40 final size:40
Alignment explanation
Indices: 67345037--67345226 Score: 291
Period size: 40 Copynumber: 4.8 Consensus size: 40
67345027 TCGAATGATG
* *
67345037 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
67345076 TCCGGACTAAGATCCGAAGGCAATT-TGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67345115 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67345155 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67345195 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAG
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAG
67345227 CTGCTATAAC
Statistics
Matches: 142, Mismatches: 4, Indels: 9
0.92 0.03 0.06
Matches are distributed among these distances:
39 56 0.39
40 83 0.58
41 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67345167 original size:79 final size:80
Alignment explanation
Indices: 67345037--67345226 Score: 307
Period size: 79 Copynumber: 2.4 Consensus size: 80
67345027 TCGAATGATG
* *
67345037 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTTACTAAATCCGGACTAAGATCCGAAGGCAATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATT
67345101 -TGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
67345115 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAAT
67345179 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
67345195 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAG
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAG
67345227 CTGCTATAAC
Statistics
Matches: 104, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
78 18 0.17
79 43 0.41
80 40 0.38
81 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGTTACTAAA
Found at i:67345259 original size:39 final size:39
Alignment explanation
Indices: 67345038--67345259 Score: 183
Period size: 40 Copynumber: 5.6 Consensus size: 39
67345028 CGAATGATGT
* * *
67345038 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTTACTAAA
1 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTAAA
* *
67345076 TCC-GGACTAAGAT-CCGAAGGCAATT-TGCGAGTTACTAAA
1 -CCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAA
*
67345115 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 -CCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAA
*
67345155 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 -CCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAA
*
67345195 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTGCTATAA
1 -CCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AA
* * *
67345236 -CGGGCTATGTCCCGAAGGTATTTG
1 CCGGGATAAGTCCCGAAGGCATTTG
67345260 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.44
40 87 0.52
41 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTAAA
Found at i:67353292 original size:38 final size:40
Alignment explanation
Indices: 67353211--67353406 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
67353201 TCGAATGATG
* *
67353211 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
67353251 TCCGGACTAAGATCCGAAGGCA-TT-TGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67353289 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
67353329 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
67353369 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
67353407 TAACGGGCTA
Statistics
Matches: 147, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
38 32 0.22
39 6 0.04
40 105 0.71
41 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67353340 original size:78 final size:80
Alignment explanation
Indices: 67353211--67353406 Score: 303
Period size: 78 Copynumber: 2.5 Consensus size: 80
67353201 TCGAATGATG
* *
67353211 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCA-T
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
67353274 T-TGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
67353289 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
67353353 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
*
67353369 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
67353407 TAACGGGCTA
Statistics
Matches: 109, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
78 50 0.46
79 11 0.10
80 45 0.41
81 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:67353433 original size:39 final size:39
Alignment explanation
Indices: 67353212--67353433 Score: 242
Period size: 40 Copynumber: 5.6 Consensus size: 39
67353202 CGAATGATGT
*
67353212 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
67353251 TCCGGACTAAGAT-CCGAAGGCA-TT-TGCGAGTTACTAAA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
67353289 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
67353329 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
67353369 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
67353410 -CGGGCTATGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
67353434 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
38 32 0.19
39 27 0.16
40 106 0.63
41 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67353466 original size:118 final size:117
Alignment explanation
Indices: 67353211--67353440 Score: 265
Period size: 118 Copynumber: 1.9 Consensus size: 117
67353201 TCGAATGATG
*
67353211 TCCGGGCTAAG-TCCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGAT-CCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* **
67353275 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
65 TGCGAGCTACTAAA-CCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
*
67353329 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCA
1 TCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCA
* * *
67353391 TTTGTGCGAGCTACTATAA-CGGGCTATG-TCCCGAAGGTATTTGAACGAGT
63 -TT-TGCGAGCTACTA-AACCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
67353441 AGCTATATCC
Statistics
Matches: 96, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
117 1 0.01
118 45 0.47
119 37 0.39
120 11 0.11
121 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (117 bp):
TCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GCGAGCTACTAAACCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:67356495 original size:31 final size:31
Alignment explanation
Indices: 67356454--67356517 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
67356444 CCTTTTCATA
* * *
67356454 TTTCATATTTCATAACATTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
67356485 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
67356516 TT
1 TT
67356518 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:67356766 original size:23 final size:23
Alignment explanation
Indices: 67356709--67356901 Score: 208
Period size: 25 Copynumber: 8.0 Consensus size: 23
67356699 TGCTTTATCA
*
67356709 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
67356733 TAGTAACTGGGGCAAAAGCCCTTT
1 TA-TAACTGGGGCATAAGCCCTTT
67356757 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
67356780 ATCACAACTGGGGCATAAGCCCTTCAT
1 -T-ATAACTGGGGCATAAGCCCTT--T
* * *
67356807 CATAACTAGGGCATAATCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
* *
67356830 ATCATAACTGGGGCATAAACTCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
67356855 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
67356878 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
67356901 T
1 T
67356902 GCACTTCCTC
Statistics
Matches: 145, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
23 64 0.44
24 12 0.08
25 68 0.47
27 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:67356975 original size:20 final size:20
Alignment explanation
Indices: 67356947--67357017 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
67356937 GCATTTATGA
*
67356947 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
67356967 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
67356987 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
67357007 ACATACCATGT
1 ACATATCATGT
67357018 TTATCTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:67356982 original size:11 final size:11
Alignment explanation
Indices: 67356952--67357006 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
67356942 TATGAACATC
67356952 TCATGTGCATA
1 TCATGTGCATA
*
67356963 TCA--TACATA
1 TCATGTGCATA
67356972 TCATGTGCATA
1 TCATGTGCATA
* *
67356983 TCA--TACATG
1 TCATGTGCATA
67356992 TCATGTGCATA
1 TCATGTGCATA
67357003 TCAT
1 TCAT
67357007 ACATACCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:67357082 original size:25 final size:25
Alignment explanation
Indices: 67357054--67357101 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67357044 ATGTATAAAC
* *
67357054 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
*
67357079 CCTAGGGGCAAAATTGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
67357102 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:67358321 original size:27 final size:27
Alignment explanation
Indices: 67358259--67358336 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
67358249 GGGCATATTC
67358259 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
67358286 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
67358313 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
67358337 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:67358407 original size:27 final size:27
Alignment explanation
Indices: 67358354--67358632 Score: 143
Period size: 27 Copynumber: 10.3 Consensus size: 27
67358344 TTTCATCCTA
* * * * *
67358354 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
67358381 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
67358408 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* * * *
67358437 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
67358464 CAGGGGT-TTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * * *
67358490 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAC
*
67358517 CAAGGGTATTTT-GATAATTTTACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAC
* * * *
67358544 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
67358571 TAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *** * * *
67358598 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
67358625 CAAGGGTA
1 CAAGGGTA
67358633 AAACTGTAAT
Statistics
Matches: 199, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 23 0.12
27 144 0.72
28 19 0.10
29 13 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:67358529 original size:54 final size:54
Alignment explanation
Indices: 67358467--67358605 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
67358457 TGTAAATCAG
67358467 GGGT-TTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
* * * * * *
67358520 GGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCAA
* ** *
67358574 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
67358606 AAATAGTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
53 5 0.07
54 65 0.92
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
Found at i:67358688 original size:38 final size:38
Alignment explanation
Indices: 67358646--67358728 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
67358636 CTGTAATTCT
* *
67358646 GTAAATCGAAGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAATCGAAGGTAAAACGGTAATTATGTAAATCGAGG
* ** * *
67358684 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAATCGAAGGTAAAACGGTAATTATGTAAATCGAGG
67358722 GTTAAAT
1 G-TAAAT
67358729 GGTAATTCTG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 32 0.89
39 4 0.11
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.25
Consensus pattern (38 bp):
GTAAATCGAAGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:67358690 original size:27 final size:27
Alignment explanation
Indices: 67358584--67358692 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
67358574 GGGTATTTTA
* **
67358584 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
67358611 GTAATTCTGTAAATCAAGGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
67358638 GTAATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
67358665 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
67358692 G
1 G
67358693 GGGTAAAATG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:67358697 original size:65 final size:65
Alignment explanation
Indices: 67358628--67358751 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 65
67358618 TGTAAATCAA
* *
67358628 GGGTAAAACT-GTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACG
1 GGGTAAAA-TGGTAATTATGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
67358692 G
65 G
** * * *
67358693 GGGTAAAATGGTAATTATGTAAATCGGGGGTTAAATGGTAATTCTGTAAATCGGGGGTA
1 GGGTAAAATGGTAATTATGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTA
67358752 CTTTGGTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 1 0.02
65 50 0.98
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (65 bp):
GGGTAAAATGGTAATTATGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
Found at i:67358714 original size:27 final size:27
Alignment explanation
Indices: 67358684--67358751 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
67358674 TAAGTCGAGG
*
67358684 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAATGGTAATTAT
* *
67358711 GTAAATCGGGGGTTAAATGGTAATTCT
1 GTAAATCGGGGGTAAAATGGTAATTAT
67358738 GTAAATCGGGGGTA
1 GTAAATCGGGGGTA
67358752 CTTTGGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATGGTAATTAT
Found at i:67358771 original size:92 final size:92
Alignment explanation
Indices: 67358592--67358778 Score: 205
Period size: 92 Copynumber: 2.0 Consensus size: 92
67358582 TAGTAATTTT
* *
67358592 GTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACTGTAATTCTGTAAATCGAAG
1 GTAAAACGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAACTGTAATTCTGTAAATCGAAG
** *
67358657 GTAAAACGGTAATTCTGTAAGTCGAGG
66 GTAAAACGGTAATTCTACAAGTCGAAG
* * ** * **
67358684 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTTAAA-TGGTAATTCTGTAAATCGGG
1 GTAAAACGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAACT-GTAATTCTGTAAATCGAA
**** *
67358748 GGTACTTTGGTAATTTTACAAGTCGAAG
65 GGTAAAACGGTAATTCTACAAGTCGAAG
67358776 GTA
1 GTA
67358779 TTTCAGTAAT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
91 1 0.01
92 76 0.99
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (92 bp):
GTAAAACGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAACTGTAATTCTGTAAATCGAAG
GTAAAACGGTAATTCTACAAGTCGAAG
Found at i:67358778 original size:27 final size:27
Alignment explanation
Indices: 67358757--67358846 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
67358747 GGGTACTTTG
*
67358757 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
67358784 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
67358811 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
67358838 GTAATTTTA
1 GTAATTTTA
67358847 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:67358798 original size:54 final size:54
Alignment explanation
Indices: 67358740--67358846 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
67358730 GTAATTCTGT
* * *
67358740 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
67358794 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
67358847 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:67358860 original size:27 final size:27
Alignment explanation
Indices: 67358757--67358861 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
67358747 GGGTACTTTG
* *
67358757 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
67358784 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
67358811 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
67358838 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
67358862 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:67362063 original size:40 final size:40
Alignment explanation
Indices: 67361969--67362193 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
67361959 TATTCGAATG
*
67361969 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
67362010 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
67362050 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
67362090 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
67362130 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
67362170 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
67362194 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:67362149 original size:80 final size:80
Alignment explanation
Indices: 67361969--67362229 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
67361959 TATTCGAATG
* * * *
67361969 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
67362034 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
67362050 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
67362115 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
67362130 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
67362195 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
67362209 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
67362230 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:67362183 original size:120 final size:120
Alignment explanation
Indices: 67361969--67362229 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
67361959 TATTCGAATG
* * *
67361969 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
67362034 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
67362090 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
67362153 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
67362209 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
67362230 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:67372968 original size:39 final size:39
Alignment explanation
Indices: 67372914--67373102 Score: 310
Period size: 39 Copynumber: 4.9 Consensus size: 39
67372904 AATGTTCGAG
67372914 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
67372953 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
67372992 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
67373031 TGATA-CCGGGCTAAG-CCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
67373068 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
67373103 GGTTACCATA
Statistics
Matches: 141, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
37 25 0.18
38 19 0.13
39 81 0.57
40 16 0.11
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:67374842 original size:27 final size:28
Alignment explanation
Indices: 67374812--67374881 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
67374802 ATAGTGTGTC
*
67374812 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
67374839 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
67374867 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67374882 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:67376958 original size:43 final size:43
Alignment explanation
Indices: 67376925--67377115 Score: 251
Period size: 43 Copynumber: 4.5 Consensus size: 43
67376915 AAGTGTTGCG
*
67376925 AAAGGTCATATTCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCT
67376968 AAAGGTCATGTTCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCT
* * * * * **
67377011 AAAGGTCATGTTCTTTAACAGCATTCCT-GGGACAA-TGCAACT
1 AAAGGTCATGTTCTTTAGCGGCGTTTCTAGGGA-AAGCGCCGCT
* * **
67377053 AAAGGTCATGTTCTTTAGCGGCGATTCTAGGAAAAGCGATGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCT
67377096 AAAGGTCATGTTCTTTAGCG
1 AAAGGTCATGTTCTTTAGCG
67377116 ACATTTTTCT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 33 0.26
43 94 0.74
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
AAAGGTCATGTTCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCT
Found at i:67379223 original size:24 final size:24
Alignment explanation
Indices: 67379191--67379239 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
67379181 AATAAAAGTA
67379191 GGTTAACATAATCATACACAGTGC
1 GGTTAACATAATCATACACAGTGC
*
67379215 GGTTAACATAATCATACATAGTGC
1 GGTTAACATAATCATACACAGTGC
67379239 G
1 G
67379240 AGGAGCAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (24 bp):
GGTTAACATAATCATACACAGTGC
Found at i:67380641 original size:23 final size:23
Alignment explanation
Indices: 67380606--67380699 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 23
67380596 TCTCAGCTCG
* *
67380606 TTCAACTCGATAGAGCTTACCGT
1 TTCAGCTCAATAGAGCTTACCGT
* *
67380629 TTCAGCTCAATAGAGATTACCAT
1 TTCAGCTCAATAGAGCTTACCGT
* * *
67380652 TTTAGCTTAATAGAGCTTACTGT
1 TTCAGCTCAATAGAGCTTACCGT
**
67380675 TCATCAGCTCAGGAGGAGCTTACCG
1 T--TCAGCTCAATA-GAGCTTACCG
67380700 ATCATGGCTC
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
23 38 0.70
25 7 0.13
26 9 0.17
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (23 bp):
TTCAGCTCAATAGAGCTTACCGT
Found at i:67386777 original size:40 final size:40
Alignment explanation
Indices: 67386669--67386778 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
67386659 ATTGAATGAT
* * * * *
67386669 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
67386709 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
67386749 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
67386779 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:67386793 original size:40 final size:39
Alignment explanation
Indices: 67386669--67386818 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
67386659 ATTGAATGAT
* * * * * * *
67386669 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
67386709 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
67386749 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
67386789 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
67386819 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:67393324 original size:26 final size:26
Alignment explanation
Indices: 67393295--67393402 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
67393285 TGATACAAAT
67393295 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
67393321 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67393347 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67393373 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67393399 TGAT
1 TGAT
67393403 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67399794 original size:23 final size:23
Alignment explanation
Indices: 67399763--67399828 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
67399753 GAGCTTACTG
* *
67399763 TTCAACTCAAAAAAGCTTGCCAT
1 TTCAGCTCAAAAAAGCTTACCAT
* * *
67399786 TTCAGCTCAATAGAGCTTACCGT
1 TTCAGCTCAAAAAAGCTTACCAT
* * *
67399809 TTTAGCTCAATAGAGCTTAC
1 TTCAGCTCAAAAAAGCTTAC
67399829 TGGTCATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (23 bp):
TTCAGCTCAAAAAAGCTTACCAT
Found at i:67399861 original size:26 final size:24
Alignment explanation
Indices: 67399789--67399861 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 24
67399779 TTGCCATTTC
*
67399789 AGCTCAATAGAGCTTACCGT-TTT
1 AGCTCAATAGAGCTTACCGTCATT
*
67399812 AGCTCAATAGAGCTTACTGGTCATT
1 AGCTCAATAGAGCTTAC-CGTCATT
*
67399837 AGCTCAAGAGGAGCTTACCGATCAT
1 AGCTCAATA-GAGCTTACCG-TCAT
67399862 GGCTTGAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 17 0.40
24 2 0.05
25 11 0.26
26 12 0.29
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACCGTCATT
Found at i:67403036 original size:16 final size:17
Alignment explanation
Indices: 67403005--67403042 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
67402995 TCGAAATTAA
*
67403005 AATTGAATTGAGAAAAT
1 AATTTAATTGAGAAAAT
67403022 AATTTAATT-AGAAAAT
1 AATTTAATTGAGAAAAT
*
67403038 TATTT
1 AATTT
67403043 GACATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
AATTTAATTGAGAAAAT
Found at i:67403454 original size:23 final size:23
Alignment explanation
Indices: 67403434--67403481 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
67403424 CTAAATTTTG
67403434 AGATAGTTTGCTTTCTGATTTCT
1 AGATAGTTTGCTTTCTGATTTCT
67403457 AGATAGTTTGCTTTCTGATTTCT
1 AGATAGTTTGCTTTCTGATTTCT
67403480 AG
1 AG
67403482 CCTTTGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (23 bp):
AGATAGTTTGCTTTCTGATTTCT
Found at i:67405398 original size:41 final size:41
Alignment explanation
Indices: 67405317--67405398 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
67405307 GGCTATCGAC
* * ***
67405317 GCCACACAGTTGTGTGTCAGGCCATGTGGTAGGTTGTGTAA
1 GCCACACAGTAGTGTGTCAGGCCATGTAGTAGGCCCTGTAA
*
67405358 GCCACACGGTAGTGTGTCAGGCCATGTAGTAGGCCCTGTAA
1 GCCACACAGTAGTGTGTCAGGCCATGTAGTAGGCCCTGTAA
67405399 CTCACTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (41 bp):
GCCACACAGTAGTGTGTCAGGCCATGTAGTAGGCCCTGTAA
Found at i:67408133 original size:24 final size:24
Alignment explanation
Indices: 67408100--67408176 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
67408090 AAGGCTATCA
* *
67408100 GGAGAAGATTTAGTAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
67408124 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
67408148 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
67408172 GGAGA
1 GGAGA
67408177 ACGGTGTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:67409712 original size:26 final size:26
Alignment explanation
Indices: 67409606--67409716 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
67409596 AGGAAGCGTC
* *
67409606 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
67409633 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
67409660 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
67409687 ATGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
67409713 CTGG
1 CTGG
67409717 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:67410720 original size:15 final size:16
Alignment explanation
Indices: 67410679--67410720 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
67410669 GTGGAATGAG
67410679 TTTTACAAAAACAAAGA
1 TTTTA-AAAAACAAAGA
**
67410696 TTTTCGAAAACAAA-A
1 TTTTAAAAAACAAAGA
67410711 TTTTAAAAAA
1 TTTTAAAAAA
67410721 ACTCAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (16 bp):
TTTTAAAAAACAAAGA
Found at i:67410721 original size:16 final size:17
Alignment explanation
Indices: 67410679--67410722 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
67410669 GTGGAATGAG
67410679 TTTTACAAAAACAAAGA
1 TTTTACAAAAACAAAGA
*
67410696 TTTT-CGAAAACAAA-A
1 TTTTACAAAAACAAAGA
*
67410711 TTTTAAAAAAAC
1 TTTTACAAAAAC
67410723 TCAATTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (17 bp):
TTTTACAAAAACAAAGA
Found at i:67416023 original size:24 final size:23
Alignment explanation
Indices: 67415990--67416065 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 23
67415980 AAGGCTATCA
*
67415990 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTA-GAGCTGATAAG
67416014 GGAGAGGATTTAAGAGCTGATAAG
1 GGAGAGGATTT-AGAGCTGATAAG
* *
67416038 GGAGAGAATTTAGAGCTGATTAG
1 GGAGAGGATTTAGAGCTGATAAG
67416061 GGAGA
1 GGAGA
67416066 ACGGTGTTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 16 0.33
24 31 0.65
25 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (23 bp):
GGAGAGGATTTAGAGCTGATAAG
Found at i:67417538 original size:27 final size:26
Alignment explanation
Indices: 67417500--67417607 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
67417490 AAGCGTCCTA
*
67417500 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
67417527 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
67417554 GTGGCTCTGCCACGATTATCT-ATTCTG
1 GTGGCTCTGCCAC-ATTATCTGA-TCTG
* * *
67417581 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
67417607 G
1 G
67417608 CAGCCATGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.20
27 55 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:67417582 original size:54 final size:53
Alignment explanation
Indices: 67417500--67417607 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 53
67417490 AAGCGTCCTA
*
67417500 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTCTG
* * *
67417554 GTGGCTCTGCCACGATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTGCCACATTATCTGTTCTG
67417607 G
1 G
67417608 CAGCCATGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 13 0.27
54 36 0.73
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCTG
Found at i:67420213 original size:22 final size:22
Alignment explanation
Indices: 67420185--67420307 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
67420175 AGATATATAT
67420185 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
67420207 ATGTGATGAATG-TGAAAGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
* *
67420231 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
67420254 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
67420278 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
67420301 ATGTGAT
1 ATGTGAT
67420308 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 25 0.36
23 13 0.19
24 13 0.19
25 18 0.26
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:67420238 original size:47 final size:47
Alignment explanation
Indices: 67420180--67420719 Score: 783
Period size: 47 Copynumber: 11.3 Consensus size: 47
67420170 GTATGAGATA
* *
67420180 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
67420227 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
67420274 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
67420321 TATATATGTGACAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
67420368 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
67420415 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
67420462 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
*
67420513 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
67420560 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
67420609 TATATATATGTGATAAGGCGTAATGGCCGATGTGATGAATGTGAAGGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
67420658 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
67420705 TTTAAATGTGATAAG
1 TATATATGTGATAAG
67420720 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 36, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
47 269 0.60
49 179 0.40
51 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:67430338 original size:14 final size:14
Alignment explanation
Indices: 67430321--67430358 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
67430311 CAAAATGGTT
67430321 TATGCAAATGGATG
1 TATGCAAATGGATG
*
67430335 TATGCAAATGTATG
1 TATGCAAATGGATG
*
67430349 AATGCAAATG
1 TATGCAAATG
67430359 CACCAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (14 bp):
TATGCAAATGGATG
Found at i:67430809 original size:22 final size:22
Alignment explanation
Indices: 67430784--67430830 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
67430774 GGCCATCAGT
* *
67430784 CACGGCCGTGTATCCCATAACA
1 CACGACCGTGTATCCCAAAACA
* *
67430806 CACGACCGTGTGTCTCAAAACA
1 CACGACCGTGTATCCCAAAACA
67430828 CAC
1 CAC
67430831 ACTCGTATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (22 bp):
CACGACCGTGTATCCCAAAACA
Found at i:67431644 original size:15 final size:15
Alignment explanation
Indices: 67431624--67431655 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
67431614 CATTTCACTA
*
67431624 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
67431639 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
67431654 TT
1 TT
67431656 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:67434318 original size:49 final size:49
Alignment explanation
Indices: 67434258--67434561 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
67434248 TACATATGTG
* * * *
67434258 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
67434307 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
67434356 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
67434405 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
67434448 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
67434494 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
67434543 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
67434562 TAATGTAAAA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 32 0.14
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 190 0.81
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:67434461 original size:89 final size:89
Alignment explanation
Indices: 67434263--67434540 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
67434253 ATGTGTGTGA
* * * *
67434263 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
*
67434328 ATGTGATGAATGTGAAAGTGGATGTATATG
66 ATGTGGTGAATGTGAAA---G-TG--TATG
67434358 TGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
1 T-A--AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
67434423 CCGATGTGGTGAATGTGAAAGTGTATG
63 CCGATGTGGTGAATGTGAAAGTGTATG
*
67434450 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
67434515 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
67434539 TA
1 TA
67434541 TATGTGATAA
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 5 0.03
94 2 0.01
95 2 0.01
96 1 0.01
98 75 0.43
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:67434536 original size:138 final size:138
Alignment explanation
Indices: 67434312--67434561 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
67434302 GTATATGTGA
* *
67434312 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
67434377 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
67434442 AGTGTATG
131 AGTGTATG
* *
67434450 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
67434515 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
67434562 TAATGTAAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (138 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
AGTGTATG
Found at i:67434567 original size:89 final size:90
Alignment explanation
Indices: 67434285--67434571 Score: 368
Period size: 89 Copynumber: 3.1 Consensus size: 90
67434275 GCCAATGCGA
* * *
67434285 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
*
67434350 TGTATATGTGATGAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
67434376 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
67434441 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
67434472 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
67434537 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
67434562 T-AATGTAAAA
1 TGAATGTAAAA
67434572 TATATGTGTG
Statistics
Matches: 172, Mismatches: 10, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 6 0.03
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:67434713 original size:37 final size:37
Alignment explanation
Indices: 67434663--67434747 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
67434653 GGAATATGTT
*
67434663 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
67434700 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
67434737 CCGGGTAAGAC
1 CCGGGTAAGAC
67434748 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:67436622 original size:40 final size:40
Alignment explanation
Indices: 67436565--67436769 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
67436555 GAGAATTGAG
* * * *
67436565 AGTGATATATCCAGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* * *
67436605 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* *
67436645 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* *
67436685 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* *
67436725 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
67436765 AGTGA
1 AGTGA
67436770 CGTGTATTCG
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 155 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
Found at i:67436976 original size:29 final size:29
Alignment explanation
Indices: 67436943--67437135 Score: 341
Period size: 29 Copynumber: 6.7 Consensus size: 29
67436933 CGAATGAATA
67436943 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
67436972 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
67437001 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
67437030 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
67437059 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
67437088 GAGGCACTACGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
67437117 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
67437136 TTTTTCAACA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 158 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:67440572 original size:49 final size:49
Alignment explanation
Indices: 67440512--67440815 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
67440502 TACATATGTG
* * * *
67440512 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
67440561 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
67440610 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
67440659 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
67440702 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
67440748 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
67440797 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
67440816 TAATGTAAAA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 32 0.14
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 190 0.81
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:67440715 original size:89 final size:89
Alignment explanation
Indices: 67440517--67440794 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
67440507 ATGTGTGTGA
* * * *
67440517 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
*
67440582 ATGTGATGAATGTGAAAGTGGATGTATATG
66 ATGTGGTGAATGTGAAA---G-TG--TATG
67440612 TGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
1 T-A--AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
67440677 CCGATGTGGTGAATGTGAAAGTGTATG
63 CCGATGTGGTGAATGTGAAAGTGTATG
*
67440704 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
67440769 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
67440793 TA
1 TA
67440795 TATGTGATAA
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 5 0.03
94 2 0.01
95 2 0.01
96 1 0.01
98 75 0.43
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:67440790 original size:138 final size:138
Alignment explanation
Indices: 67440566--67440815 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
67440556 GTATATGTGA
* *
67440566 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
67440631 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
67440696 AGTGTATG
131 AGTGTATG
* *
67440704 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
67440769 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
67440816 TAATGTAAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (138 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
AGTGTATG
Found at i:67440821 original size:89 final size:90
Alignment explanation
Indices: 67440539--67440825 Score: 368
Period size: 89 Copynumber: 3.1 Consensus size: 90
67440529 GCCAATGCGA
* * *
67440539 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
*
67440604 TGTATATGTGATGAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
67440630 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
67440695 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
67440726 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
67440791 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
67440816 T-AATGTAAAA
1 TGAATGTAAAA
67440826 TATATGTGTG
Statistics
Matches: 172, Mismatches: 10, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 6 0.03
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:67440967 original size:37 final size:37
Alignment explanation
Indices: 67440917--67441001 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
67440907 GGAATATGTT
*
67440917 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
67440954 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
67440991 CCGGGTAAGAC
1 CCGGGTAAGAC
67441002 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:67446097 original size:42 final size:42
Alignment explanation
Indices: 67446045--67446142 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 42
67446035 ATAGCCTAGC
*
67446045 TATGGTCTTACACGAAATCTCAT-ATCGATACCATAT-TCCAGA
1 TATGGTCTTACACAAAATCTCATAAT-GATACCATATCT-CAGA
**
67446087 TATGGTCTTACACAAAATCTCATAATGATGTCATATCTCAGA
1 TATGGTCTTACACAAAATCTCATAATGATACCATATCTCAGA
67446129 TATGGTCTTACACA
1 TATGGTCTTACACA
67446143 TAGTCTCGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (42 bp):
TATGGTCTTACACAAAATCTCATAATGATACCATATCTCAGA
Found at i:67450012 original size:21 final size:21
Alignment explanation
Indices: 67449986--67450032 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
67449976 GATAGATGGT
67449986 TGCCTAGGCACGACCTTTCGG
1 TGCCTAGGCACGACCTTTCGG
* *
67450007 TGCCTAGGCACGATCTTTTGG
1 TGCCTAGGCACGACCTTTCGG
67450028 TGCCT
1 TGCCT
67450033 GTACTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.30, G:0.28, T:0.30
Consensus pattern (21 bp):
TGCCTAGGCACGACCTTTCGG
Found at i:67455814 original size:34 final size:34
Alignment explanation
Indices: 67455776--67455877 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
67455766 TCTAGTACCA
67455776 GAAAGAAACTGAGAATATTTATTGAAACTACACT
1 GAAAGAAACTGAGAATATTTATTGAAACTACACT
* * *
67455810 GAAAG-AA---AGAA-ATTAATCT---AGTAC-CA
1 GAAAGAAACTGAGAATATTTAT-TGAAACTACACT
67455836 GAAAGAAACTGAGAATATTTATTGAAACTACACT
1 GAAAGAAACTGAGAATATTTATTGAAACTACACT
67455870 GAAAGAAA
1 GAAAGAAA
67455878 GAAATTAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 20
0.67 0.08 0.26
Matches are distributed among these distances:
26 6 0.12
27 6 0.12
29 5 0.10
30 10 0.19
31 5 0.10
33 6 0.12
34 14 0.27
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.23
Consensus pattern (34 bp):
GAAAGAAACTGAGAATATTTATTGAAACTACACT
Found at i:67455857 original size:60 final size:60
Alignment explanation
Indices: 67455764--67455885 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
67455754 ATGAAAAAAA
67455764 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
67455824 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
67455884 AA
1 AA
67455886 CATGTGAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (60 bp):
AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
Found at i:67456497 original size:22 final size:21
Alignment explanation
Indices: 67456450--67456491 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
67456440 GAATCGATCT
67456450 AGATT-AA-TTAATTAATTAG
1 AGATTAAATTTAATTAATTAG
67456469 AGATTAAATTTAATTCAATTAG
1 AGATTAAATTTAATT-AATTAG
67456491 A
1 A
67456492 AGTTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 6 0.30
22 7 0.35
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (21 bp):
AGATTAAATTTAATTAATTAG
Found at i:67465707 original size:31 final size:31
Alignment explanation
Indices: 67465669--67465734 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
67465659 AAAAAAAATC
*
67465669 AATTCAA-CTCTTTTTAAAAAATTGATAGTCG
1 AATTCAACCT-TTTTTAAAAAATTGATAGTCA
*
67465700 AATTCAACCTTTTTTAAAAAATTGATGGTCA
1 AATTCAACCTTTTTTAAAAAATTGATAGTCA
67465731 AATT
1 AATT
67465735 TAATTCAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (31 bp):
AATTCAACCTTTTTTAAAAAATTGATAGTCA
Found at i:67465791 original size:26 final size:23
Alignment explanation
Indices: 67465746--67465793 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
67465736 AATTCAAACT
*
67465746 AAAAAAATATATATAAAATTAAC
1 AAAAAAATAAATATAAAATTAAC
67465769 AAAAAATATAAATATCAATAATTAA
1 AAAAAA-ATAAATAT-AA-AATTAA
67465794 ATTTATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 2 0.10
26 6 0.29
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAAAATAAATATAAAATTAAC
Found at i:67468960 original size:30 final size:30
Alignment explanation
Indices: 67468926--67468985 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
67468916 ACTTAACAAG
67468926 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
67468956 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
67468986 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:67469877 original size:14 final size:15
Alignment explanation
Indices: 67469842--67469882 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
67469832 GATTAGTCTC
67469842 TAATTATAATAAACA
1 TAATTATAATAAACA
*
67469857 TAA-TATAATAAATA
1 TAATTATAATAAACA
*
67469871 -AATTATAGTAAA
1 TAATTATAATAAA
67469883 ATATACCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
TAATTATAATAAACA
Found at i:67470841 original size:23 final size:22
Alignment explanation
Indices: 67470799--67470842 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
67470789 TTTATTTATA
*
67470799 GAGATATGCTTTTGAAAAGATT
1 GAGATATGCTTTTAAAAAGATT
67470821 GAGATATG-TCTTTAAATAAGAT
1 GAGATATGCT-TTTAAA-AAGAT
67470843 AGACTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 13 0.68
23 5 0.26
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (22 bp):
GAGATATGCTTTTAAAAAGATT
Found at i:67472829 original size:44 final size:42
Alignment explanation
Indices: 67472687--67472845 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
67472677 AGCTCGTACA
* *
67472687 ATGCCAACGTCCCAGACTTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACTTCCCAGACGTGGTCTTACATGTAAATC-AA-ATCG
* **
67472730 ATGCC-ACTGTCCCAAACAG-GGTCTTACA-CAAAATCAAATACG
1 ATGCCAACT-TCCCAGAC-GTGGTCTTACATGTAAATCAAAT-CG
*
67472772 ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAACTTCCCAGACGTGGTCTTACATGTAAATCA-AA-TCG
*
67472816 ATTCCAACTTCCCAGACGTGGTCTTACATG
1 ATGCCAACTTCCCAGACGTGGTCTTACATG
67472846 AAAACACATA
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 33 0.34
44 32 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAACTTCCCAGACGTGGTCTTACATGTAAATCAAATCG
Found at i:67473508 original size:12 final size:13
Alignment explanation
Indices: 67473481--67473505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67473471 TTGACATTTT
67473481 TATAACATCAAAA
1 TATAACATCAAAA
67473494 TATAACATCAAA
1 TATAACATCAAA
67473506 TATTCATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TATAACATCAAAA
Found at i:67477774 original size:42 final size:42
Alignment explanation
Indices: 67477715--67477876 Score: 200
Period size: 42 Copynumber: 3.8 Consensus size: 42
67477705 AGGGTTACTA
* *
67477715 AGACTATGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * *
67477757 AGACTACGTTTAAGACCATATTTGAGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * *
67477799 AGACTTCGTGTAAGACCATAGT-TGGGCTATTGACATCGATATG
1 AGACTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGATATG
* * *
67477842 AGATTACATGTAAGACCATAACTGGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
67477877 TGGTACGGTA
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 65 0.64
43 36 0.36
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:67477861 original size:85 final size:84
Alignment explanation
Indices: 67477722--67477876 Score: 204
Period size: 85 Copynumber: 1.8 Consensus size: 84
67477712 CTAAGACTAT
* * * **
67477722 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTTTAAGACCATATTTGAGATAT
1 GTGTAAGACCATATCTGGGATATGACATCAATATGAGACTACATGTAAGACCATAACTGAGATAT
67477787 GGCATCGATATGAGACTTC
66 GGCATCGATATGAGACTTC
* * * *
67477806 GTGTAAGACCATAGT-TGGGCTATTGACATCGATATGAGATTACATGTAAGACCATAACTGGGAT
1 GTGTAAGACCATA-TCTGGGATA-TGACATCAATATGAGACTACATGTAAGACCATAACTGAGAT
67477870 ATGGCAT
64 ATGGCAT
67477877 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
84 19 0.32
85 41 0.68
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCATATCTGGGATATGACATCAATATGAGACTACATGTAAGACCATAACTGAGATAT
GGCATCGATATGAGACTTC
Found at i:67477895 original size:85 final size:84
Alignment explanation
Indices: 67477715--67477895 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 84
67477705 AGGGTTACTA
* * * **
67477715 AGACTATGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTTTAAGACCATATTT
1 AGACTATGTGTAAGACCATATCTGGGATATGACATCAATATGAGACTACATGTAAGACCATAACT
*
67477780 GAGATATGGCATCGATATG
66 GAGATATGGCATCGATACG
* * *
67477799 AGACT-TCGTGTAAGACCATAGT-TGGGCTATTGACATCGATATGAGATTACATGTAAGACCATA
1 AGACTAT-GTGTAAGACCATA-TCTGGGATA-TGACATCAATATGAGACTACATGTAAGACCATA
* * *
67477862 ACTGGGATATGGCATTGGTACG
63 ACTGAGATATGGCATCGATACG
67477884 -GTACTATGTGTA
1 AG-ACTATGTGTA
67477896 TGAGATCTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
83 1 0.01
84 25 0.31
85 53 0.66
86 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (84 bp):
AGACTATGTGTAAGACCATATCTGGGATATGACATCAATATGAGACTACATGTAAGACCATAACT
GAGATATGGCATCGATACG
Found at i:67485329 original size:42 final size:42
Alignment explanation
Indices: 67485270--67485379 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
67485260 AGGGTTACTA
* *
67485270 AGACTATGTATAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* ** *
67485312 AGACTACGTGTAAGACCATATGTAAGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* *
67485354 AGACTTCGTGTAAGACCATAGCTGGG
1 AGACTACGTGTAAGACCATATCTGGG
67485380 TTGTTGGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:67486576 original size:20 final size:20
Alignment explanation
Indices: 67486560--67486598 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
67486550 CATGGGCGTG
67486560 TCCCAAGCCACACGGGCATA
1 TCCCAAGCCACACGGGCATA
*
67486580 TCCCAAGCCACACAGGCAT
1 TCCCAAGCCACACGGGCAT
67486599 GTGGCTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.41, G:0.18, T:0.10
Consensus pattern (20 bp):
TCCCAAGCCACACGGGCATA
Found at i:67489094 original size:55 final size:55
Alignment explanation
Indices: 67489034--67489145 Score: 172
Period size: 55 Copynumber: 2.0 Consensus size: 55
67489024 TAAAGTTGTA
*
67489034 CACGGGTAGGCCA-CACGGGTGTGTGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGG-CAGCACGGGTGTGTGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
* * *
67489089 CACGGGCAGGCAGCACGGGTGTGTGCCATGGCCGTGTTAATAAGTCAGTGTTGTC
1 CACGGGCAGGCAGCACGGGTGTGTGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
67489144 CA
1 CA
67489146 AGGTTGAAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 2 0.04
55 50 0.96
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (55 bp):
CACGGGCAGGCAGCACGGGTGTGTGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
Found at i:67490958 original size:46 final size:45
Alignment explanation
Indices: 67490900--67491218 Score: 224
Period size: 46 Copynumber: 6.8 Consensus size: 45
67490890 TCATTTGTGT
* *
67490900 GAGCTAGTGTAAGA-CATGTCTGGGACATGTATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-C-CATGATGA
*
67490946 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCA-TGATGA
* *
67490991 CGAGTGCTAGTGTAAGA-CATGTTTGGGACATGCATCAGCC-TCGGGATGTA
1 -GA--GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCAT---GATG-A
* * *
67491041 -AGCCAGTATAAGA-CATGTCTGGGACATGCATCGGCTATGA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCATGATGA
* * *
67491083 TGTGTTAGTGCAAGACCATGTCTGGGACATGGCATCGGCACGGTTATG-TGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-C----ATGATGA
* *
67491134 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGTCCTCGAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCG-GC-C-ATGATGA
* * *
67491183 TAGCCAGTGTAAAACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCG
67491219 ATATTTTACC
Statistics
Matches: 221, Mismatches: 27, Indels: 47
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 10 0.05
45 19 0.09
46 61 0.28
47 29 0.13
48 22 0.10
49 37 0.17
50 34 0.15
51 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCATGATGA
Found at i:67493400 original size:243 final size:243
Alignment explanation
Indices: 67492972--67493461 Score: 944
Period size: 243 Copynumber: 2.0 Consensus size: 243
67492962 GTAGAACATA
67492972 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
1 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
*
67493037 ACCATGGATAAAACCGAAATAAGATATGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
66 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
* *
67493102 ATTACACTTGTATGATTGATGTATGAAATAGAAACCAGAAGTTCACTAGTGTTGGAATGACTGGT
131 ATTACACTTGTATGATTGATGTATAAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
67493167 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
196 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
67493215 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
1 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
67493280 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
66 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
67493345 ATTACACTTGTATGATTGATGTATAAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
131 ATTACACTTGTATGATTGATGTATAAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
*
67493410 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGGTGATAATTT
196 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
67493458 ATAT
1 ATAT
67493462 GAATTTTTAT
Statistics
Matches: 243, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 243 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (243 bp):
ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
ATTACACTTGTATGATTGATGTATAAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
Found at i:67495277 original size:35 final size:35
Alignment explanation
Indices: 67495206--67495277 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
67495196 TTGAATTAAG
**
67495206 AATTTTCTTGAAAAATTAATTTGGAAAAGTTCAAT
1 AATTTTCTTGAAAAATTAATTTGGAAAAGTAAAAT
* * *
67495241 AATTTT-TTGGAAAATTAATTTTGATCAAGTAAAAT
1 AATTTTCTTGAAAAATTAATTTGGA-AAAGTAAAAT
67495276 AA
1 AA
67495278 AATTAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (35 bp):
AATTTTCTTGAAAAATTAATTTGGAAAAGTAAAAT
Found at i:67495990 original size:13 final size:14
Alignment explanation
Indices: 67495969--67496003 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
67495959 AGTTGTAGAG
67495969 AAAAAATTATTT-A
1 AAAAAATTATTTCA
*
67495982 AAGAAATTATTTCA
1 AAAAAATTATTTCA
67495996 AAAAAATT
1 AAAAAATT
67496004 TTAGAGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAAATTATTTCA
Found at i:67496023 original size:30 final size:30
Alignment explanation
Indices: 67495987--67496052 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
67495977 ATTTAAAGAA
67495987 ATTATTTCAAAAAAATTTTAGAGATATTTT
1 ATTATTTCAAAAAAATTTTAGAGATATTTT
67496017 ATTATTTCAAAAAAATTTTAGAGATATTTT
1 ATTATTTCAAAAAAATTTTAGAGATATTTT
67496047 -TTATTT
1 ATTATTT
67496053 ACAATTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.17
30 30 0.83
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
ATTATTTCAAAAAAATTTTAGAGATATTTT
Found at i:67498361 original size:47 final size:47
Alignment explanation
Indices: 67498286--67498418 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 47
67498276 TGGGTAAGGT
67498286 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCGAA
* * * * *
67498333 GTCGATGCCATATCCTAGACATGTTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCA-CATCTCGAA
*
67498381 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCAC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCAC
67498419 GCAAGTAACC
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
46 14 0.19
47 51 0.71
48 7 0.10
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAA
Found at i:67500898 original size:2 final size:2
Alignment explanation
Indices: 67500891--67500920 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67500881 ACTCACCTTT
67500891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67500921 CTTACCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67501549 original size:16 final size:17
Alignment explanation
Indices: 67501515--67501553 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
67501505 GACCTTGCGT
67501515 TTCTTTCTCCTCTTCTC
1 TTCTTTCTCCTCTTCTC
* *
67501532 TTCTTTCT-TTCTTTTC
1 TTCTTTCTCCTCTTCTC
67501548 TTCTTT
1 TTCTTT
67501554 TAATTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTTTCTCCTCTTCTC
Found at i:67527014 original size:79 final size:80
Alignment explanation
Indices: 67526913--67527096 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
67526903 ACGACTCGCT
** * *
67526913 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCT
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACC-
* *
67526976 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* **
67526993 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCGGA
*
67527057 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
67527072 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
67527097 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 23 0.26
79 51 0.57
80 16 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCGGA
TATAGTAACTTAGCA
Found at i:67527038 original size:39 final size:39
Alignment explanation
Indices: 67526906--67527095 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
67526896 GGATATAACG
* ** *
67526906 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* * *
67526946 ACTCGCACGAATGCCTTCGGGACTTAACCTGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCC-CGGTTTAGTA
* *
67526986 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* * * * *
67527025 ACTCGCACGAATGCCTTC-GGATCCTAG-TCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTA
*
67527064 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
67527096 ACATCATTCG
Statistics
Matches: 120, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 4 0.03
39 48 0.40
40 64 0.53
41 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:67529651 original size:40 final size:40
Alignment explanation
Indices: 67529595--67529690 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
67529585 ATGGGCCTGC
67529595 TCACACAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
1 TCACA-AAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
* * * *
67529636 TTACAAAGCTGTCAGTCAGGACGTAGCTACATAGTGCTGC
1 TCACAAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
67529676 TCACAAAGCTATCAG
1 TCACAAAGCTATCAG
67529691 GTATCGGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 45 0.92
41 4 0.08
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (40 bp):
TCACAAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
Found at i:67536023 original size:27 final size:27
Alignment explanation
Indices: 67535993--67536048 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
67535983 ACTTAGTTAG
*
67535993 TCCAACGTTAATGTATAGTTAGGCAAA
1 TCCAACGTCAATGTATAGTTAGGCAAA
67536020 TCCAACGTCAATGTATAGTTAGGCAAA
1 TCCAACGTCAATGTATAGTTAGGCAAA
67536047 TC
1 TC
67536049 ACTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (27 bp):
TCCAACGTCAATGTATAGTTAGGCAAA
Found at i:67541829 original size:27 final size:27
Alignment explanation
Indices: 67541767--67541877 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
67541757 AGCATGGTTG
* *
67541767 CCAAAACAGATAA-CGTGACAGAGTCA
1 CCAAAACAGATAATCGTGGCAGAGCCA
* * *
67541793 CTAGATACAGATAATCGTGGCACAGCCA
1 CCA-AAACAGATAATCGTGGCAGAGCCA
*
67541821 CCAAAACAGA-AATATGTGGCAGAGCCA
1 CCAAAACAGATAAT-CGTGGCAGAGCCA
* * * *
67541848 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAAAACAGATAATCGTGGCAGAGCCA
67541875 CCA
1 CCA
67541878 GGACACTTCC
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.07
27 49 0.71
28 15 0.22
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (27 bp):
CCAAAACAGATAATCGTGGCAGAGCCA
Found at i:67542028 original size:25 final size:25
Alignment explanation
Indices: 67541981--67542028 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
67541971 ACAAAATTAA
*
67541981 CCCTAGGGGCATATCGGTCATTTAC
1 CCCTAGGGGCATATCGGTAATTTAC
*
67542006 CCCTAGGGGTATCAT-GGTAATTT
1 CCCTAGGGGCAT-ATCGGTAATTT
67542029 TCCACACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (25 bp):
CCCTAGGGGCATATCGGTAATTTAC
Found at i:67549645 original size:27 final size:27
Alignment explanation
Indices: 67549583--67549694 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
67549573 AGCATGGCTG
** *
67549583 CCAGAACAGATAA-TGTGATAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
67549609 CTAGATACAGATAATCGTGGCACAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
67549637 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
67549664 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
67549691 CCAG
1 CCAG
67549695 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.68
28 15 0.22
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:67549674 original size:54 final size:54
Alignment explanation
Indices: 67549583--67549694 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
67549573 AGCATGGCTG
* * *
67549583 CCAGAACAGATAATGTGATAGAGTCACTAGATACAGATAATCGTGGCACAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACTAGATACAGATAATCGTGGCACAGCCA
* * *
67549637 CCAGAACAGAAATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACTAGATACAGATAATCGTGGCACAGCCA
67549691 CCAG
1 CCAG
67549695 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACTAGATACAGATAATCGTGGCACAGCCA
Found at i:67549844 original size:25 final size:24
Alignment explanation
Indices: 67549791--67549844 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
67549781 TTTCAGACAA
*
67549791 AATTAACCCTAGGGGCATATCGGT
1 AATTTACCCTAGGGGCATATCGGT
* *
67549815 CATTTACCCTTAGGGGTATCAT-GGT
1 AATTTACCC-TAGGGGCAT-ATCGGT
67549840 AATTT
1 AATTT
67549845 TCCACACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 7 0.29
25 15 0.62
26 2 0.08
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (24 bp):
AATTTACCCTAGGGGCATATCGGT
Found at i:67551806 original size:55 final size:55
Alignment explanation
Indices: 67551746--67551858 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
67551736 TCCAGAGAAA
*
67551746 ACACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAATTTCATT
1 ACACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATT
* *
67551801 ACACAACCTCAACTACAATTTAAATAAATAATTTATACATATTACTAAGTTCATT
1 ACACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATT
67551856 ACA
1 ACA
67551859 TCATCACAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (55 bp):
ACACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATT
Found at i:67552649 original size:15 final size:14
Alignment explanation
Indices: 67552629--67552685 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 14
67552619 TAGATTATAT
67552629 AATTAAATAATTAGG
1 AATTAAATAATTA-G
* *
67552644 AATTAAATAAATAAA
1 AATTAAAT-AATTAG
67552659 ATATTATAATAATTAG
1 A-ATTA-AATAATTAG
67552675 AATT-AATAATT
1 AATTAAATAATT
67552686 TTAGTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.20
15 12 0.34
16 13 0.37
17 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
AATTAAATAATTAG
Found at i:67552653 original size:23 final size:21
Alignment explanation
Indices: 67552615--67552658 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
67552605 CTGAAAATCT
* *
67552615 TAATTAGATTATATAATTAAA
1 TAATTAGATTAAATAAATAAA
67552636 TAATTAGGAATTAAATAAATAAA
1 TAATTA-G-ATTAAATAAATAAA
67552659 ATATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (21 bp):
TAATTAGATTAAATAAATAAA
Found at i:67556902 original size:42 final size:43
Alignment explanation
Indices: 67556762--67556921 Score: 198
Period size: 43 Copynumber: 3.7 Consensus size: 43
67556752 TATCGAGATG
* * *
67556762 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATTA
* *
67556805 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATTA
* * * *
67556848 TGATTTCGTGTAAGACCCTATCTGGGAC-GTGGCATCG-ATATA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT-TA
* *
67556890 TGATAACATGTAAGACCATATCTGGGATATTG
1 TGATTACATGTAAGACCATATCTGGGACATTG
67556922 TATTGTGCGA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.02
42 33 0.32
43 67 0.66
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATTA
Found at i:67563343 original size:40 final size:41
Alignment explanation
Indices: 67563299--67563399 Score: 129
Period size: 40 Copynumber: 2.5 Consensus size: 41
67563289 GAAATTATAA
* *
67563299 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATACTAT
*
67563339 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTAT
67563379 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
67563400 TTTGGCAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 48 0.89
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.19
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTAT
Found at i:67570573 original size:40 final size:39
Alignment explanation
Indices: 67570408--67570591 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
67570398 AAATTGAATG
* * *
67570408 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
67570448 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
67570488 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
67570528 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
67570567 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
67570592 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:67570616 original size:80 final size:81
Alignment explanation
Indices: 67570448--67570636 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
67570438 GCTGGAAATT
* * * *
67570448 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
67570513 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
67570529 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
67570592 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
67570608 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
67570637 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:67577059 original size:30 final size:30
Alignment explanation
Indices: 67577007--67577071 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
67576997 AAATTAGATC
* *
67577007 CACATGGCCGTGCAACACGGCCTTGTGAAG
1 CACACGGCCGTACAACACGGCCTTGTGAAG
** *
67577037 CACACGGCCGTACAACGTGGCCTTGTGGAG
1 CACACGGCCGTACAACACGGCCTTGTGAAG
67577067 CACAC
1 CACAC
67577072 AGCCTGGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.15
Consensus pattern (30 bp):
CACACGGCCGTACAACACGGCCTTGTGAAG
Found at i:67577532 original size:18 final size:19
Alignment explanation
Indices: 67577509--67577551 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
67577499 CTTTCCCTTA
67577509 TCTTTCTTTCCTT-CTCTT
1 TCTTTCTTTCCTTCCTCTT
* *
67577527 TTTTTCTTTCTTTCCTCTT
1 TCTTTCTTTCCTTCCTCTT
67577546 TCTTTC
1 TCTTTC
67577552 ACTTTCTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTCTTTCCTTCCTCTT
Found at i:67577796 original size:21 final size:21
Alignment explanation
Indices: 67577770--67577822 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
67577760 CTTTTACATC
*
67577770 ATTTTAATTA-AATTATTATT
1 ATTTTTATTAGAATTATTATT
*
67577790 ATTTTTATTAGTATTATTATT
1 ATTTTTATTAGAATTATTATT
67577811 AGTTCTTTATTA
1 A-TT-TTTATTA
67577823 CTATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.32
21 10 0.36
22 2 0.07
23 7 0.25
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTTTATTAGAATTATTATT
Found at i:67577799 original size:12 final size:12
Alignment explanation
Indices: 67577782--67577829 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
67577772 TTTAATTAAA
*
67577782 TTATTATTATTT
1 TTATTAGTATTT
*
67577794 TTATTAGTATTA
1 TTATTAGTATTT
*
67577806 TTATTAGT-TCT
1 TTATTAGTATTT
*
67577817 TTATTACTATTT
1 TTATTAGTATTT
67577829 T
1 T
67577830 ATTTTGCGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATTAGTATTT
Done.