Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 379 of 770
Found at i:116696497 original size:46 final size:46
Alignment explanation
Indices: 116696422--116696788 Score: 511
Period size: 46 Copynumber: 8.0 Consensus size: 46
116696412 TTATCTTCGA
* * * * * *
116696422 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** ***
116696468 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATATTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATAT
*** *
116696515 CATGTTGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
116696561 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
116696607 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
116696653 CATGTTGCCATGGTATCTTGCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
116696699 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
116696745 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
116696789 TTCAGAGAGC
Statistics
Matches: 295, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 255 0.86
47 39 0.13
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:116696648 original size:21 final size:21
Alignment explanation
Indices: 116696578--116696649 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
116696568 CCATGGTATC
116696578 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * * *
116696599 TTTCATATCATGTTGCCATAGTATC-
1 TTTCA-ACCATG--GTCTTA-CA-CA
116696624 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
116696645 TTTCA
1 TTTCA
116696650 TATCATGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 9 0.24
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:116697984 original size:29 final size:29
Alignment explanation
Indices: 116697942--116698000 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
116697932 ATTTTCCAAA
*
116697942 GTCAAAACAGGGGAACCTGAATTCATTCT
1 GTCAAAACAGGGGAACCCGAATTCATTCT
*
116697971 GTCAGAACAGGGGAACCCGAATTCATTCT
1 GTCAAAACAGGGGAACCCGAATTCATTCT
116698000 G
1 G
116698001 ACCTTGTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (29 bp):
GTCAAAACAGGGGAACCCGAATTCATTCT
Found at i:116699572 original size:18 final size:19
Alignment explanation
Indices: 116699523--116699572 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
116699513 TATAATATAA
116699523 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
116699543 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
116699563 TTATTTAATA
1 TTATTTAATA
116699573 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:116701901 original size:26 final size:26
Alignment explanation
Indices: 116701865--116701974 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
116701855 TGATACAAAT
116701865 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116701891 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116701917 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116701943 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116701969 TGATAA
1 TGATAA
116701975 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:116706849 original size:79 final size:81
Alignment explanation
Indices: 116706713--116706895 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
116706703 TCGAATGATG
* *
116706713 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
116706777 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
116706792 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
116706854 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
116706872 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
116706896 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:116706904 original size:40 final size:39
Alignment explanation
Indices: 116706714--116706897 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
116706704 CGAATGATGT
* * * *
116706714 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
116706754 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
116706794 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
116706832 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
116706873 CCAGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
116706898 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116706919 original size:79 final size:79
Alignment explanation
Indices: 116706766--116706920 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
116706756 GGACTAAGAT
* * **
116706766 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
116706831 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
116706845 CCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
116706908 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
116706921 ATTCCGAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:116712052 original size:40 final size:40
Alignment explanation
Indices: 116711990--116712196 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
116711980 GGATTGATAA
*
116711990 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
116712029 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* * *
116712070 -CGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
116712109 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
116712149 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
116712189 CC-GGCTAA
1 CCGGGCTAA
116712197 ACCCTGAAGG
Statistics
Matches: 152, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 19 0.12
40 131 0.86
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:116718276 original size:28 final size:29
Alignment explanation
Indices: 116718221--116718409 Score: 159
Period size: 29 Copynumber: 6.6 Consensus size: 29
116718211 GTGACGAGAT
116718221 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
116718250 TGGCACTAAGTGTG-GTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
116718278 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
116718307 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
116718336 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
116718365 TGGCACTGTGTGTGCGGGCT-TAAAT-TGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATAT--A
116718394 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
116718410 AAATCGAGTG
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
27 1 0.01
28 29 0.22
29 103 0.77
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:116720103 original size:29 final size:29
Alignment explanation
Indices: 116720075--116720173 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 29
116720065 CCTCCGAGCT
** * * *
116720075 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
116720104 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116720133 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116720162 CGCACACTTAGT
1 CGCACACTTAGT
116720174 TCCAATCTCG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:116723531 original size:24 final size:25
Alignment explanation
Indices: 116723500--116723546 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
116723490 TTATAATATG
* *
116723500 AAAATGACC-TTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
116723524 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116723547 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:116723615 original size:20 final size:20
Alignment explanation
Indices: 116723590--116723648 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
116723580 TAAATATGGT
116723590 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
** *
116723610 ATGTATGATACACACATGAT
1 ATGTATGATATGCACATGAA
116723630 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
116723649 GGTAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:116723728 original size:23 final size:24
Alignment explanation
Indices: 116723698--116723792 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
116723688 GAGGAAGTGA
116723698 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
116723721 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
116723745 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
116723769 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
116723793 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:116723766 original size:47 final size:49
Alignment explanation
Indices: 116723699--116723792 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
116723689 AGGAAGTGAA
*
116723699 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
116723746 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
116723793 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:116724035 original size:38 final size:38
Alignment explanation
Indices: 116723984--116724077 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
116723974 CGTTTACAGT
*
116723984 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACACGA
*
116724022 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACACGA
*
116724060 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
116724078 GCATGATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 39 0.75
39 13 0.25
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACACGA
Found at i:116730199 original size:25 final size:25
Alignment explanation
Indices: 116730170--116730217 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
116730160 TTATAATATG
* * *
116730170 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
116730195 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116730218 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:116730286 original size:20 final size:20
Alignment explanation
Indices: 116730261--116730319 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
116730251 TAAATATGGT
116730261 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
116730281 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
116730301 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
116730320 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:116730399 original size:23 final size:24
Alignment explanation
Indices: 116730369--116730463 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
116730359 GAGGAAGTGA
116730369 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
116730392 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
116730416 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
116730440 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
116730464 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:116730437 original size:47 final size:49
Alignment explanation
Indices: 116730370--116730463 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
116730360 AGGAAGTGAA
*
116730370 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
116730417 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
116730464 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:116730701 original size:36 final size:38
Alignment explanation
Indices: 116730654--116730745 Score: 143
Period size: 36 Copynumber: 2.4 Consensus size: 38
116730644 CGTTTACAGT
*
116730654 AAAGGCTTCGGCCCAGTA-TATGAAATATGAAA-ATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
116730690 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
*
116730728 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
116730746 GCATGATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
36 18 0.35
37 14 0.27
38 6 0.12
39 13 0.25
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
Found at i:116732468 original size:40 final size:40
Alignment explanation
Indices: 116732423--116732589 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116732413 CGGAATATAA
116732423 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116732463 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116732503 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
116732543 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116732582 CCGGATAT
1 CCGGATAT
116732590 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116742152 original size:40 final size:39
Alignment explanation
Indices: 116741984--116742154 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
116741974 AGAAATTGAA
* *
116741984 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
116742024 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
116742064 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
116742104 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
116742144 TGATATCCGGG
1 TGATATCCGGG
116742155 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:116749497 original size:24 final size:24
Alignment explanation
Indices: 116749465--116749647 Score: 276
Period size: 24 Copynumber: 7.6 Consensus size: 24
116749455 TATCTCAAAT
*
116749465 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
116749489 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
116749513 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
116749537 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
116749561 GCACTAAGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
116749585 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
116749609 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
116749633 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
116749648 ACATAATAAG
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 152 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:116749660 original size:48 final size:48
Alignment explanation
Indices: 116749465--116749669 Score: 216
Period size: 48 Copynumber: 4.3 Consensus size: 48
116749455 TATCTCAAAT
* * *
116749465 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTCACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACAT-AATATA
** * *
116749513 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
* * * ** *
116749561 GCACTAAGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
* ** * *
116749609 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATA
116749657 GCACTATGTGTGC
1 GCACTATGTGTGC
116749670 CACATTCGGT
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 135 0.95
49 7 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
Found at i:116749661 original size:72 final size:72
Alignment explanation
Indices: 116749465--116749669 Score: 236
Period size: 72 Copynumber: 2.8 Consensus size: 72
116749455 TATCTCAAAT
* *
116749465 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACT-AT-GGCACTATGTGTGCGA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAGGCACTATGTGTGCGA
*
116749528 TTCACTATG
64 TTCACTATA
* ** * *
116749537 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCG-ATTTACTATGGCACTAAGTGTGCGAT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-GGCACTATGTGTGCGAT
*
116749601 TTACTATA
65 TCACTATA
* * * * *
116749609 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGC
116749670 CACATTCGGT
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 103 0.94
73 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGCGATT
CACTATA
Found at i:116753133 original size:8 final size:8
Alignment explanation
Indices: 116753119--116753179 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 8
116753109 TCCAAAGGCT
116753119 GAAAAGCC
1 GAAAAGCC
*
116753127 AAAAAGCC
1 GAAAAGCC
* **
116753135 GAAAGGGT
1 GAAAAGCC
116753143 GAAAAGCC
1 GAAAAGCC
116753151 GAAAAGCC
1 GAAAAGCC
*
116753159 -AAAAGGCT
1 GAAAA-GCC
*
116753167 GAAAAGCT
1 GAAAAGCC
116753175 GAAAA
1 GAAAA
116753180 AGTGGGTAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
7 4 0.10
8 34 0.81
9 4 0.10
ACGTcount: A:0.52, C:0.16, G:0.26, T:0.05
Consensus pattern (8 bp):
GAAAAGCC
Found at i:116753170 original size:16 final size:16
Alignment explanation
Indices: 116753112--116753173 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
116753102 GTGAAATTCC
*
116753112 AAAGGCTGAAAAGCCA
1 AAAGGCCGAAAAGCCA
* * **
116753128 AAAAGCCGAAAGGGTGA
1 AAAGGCCGAAA-AGCCA
116753145 AAA-GCCGAAAAGCCA
1 AAAGGCCGAAAAGCCA
*
116753160 AAAGGCTGAAAAGC
1 AAAGGCCGAAAAGC
116753174 TGAAAAAGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 5 0.14
16 25 0.71
17 5 0.14
ACGTcount: A:0.50, C:0.18, G:0.27, T:0.05
Consensus pattern (16 bp):
AAAGGCCGAAAAGCCA
Found at i:116753178 original size:24 final size:24
Alignment explanation
Indices: 116753112--116753179 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
116753102 GTGAAATTCC
* *
116753112 AAAGGCTGAAAAGCCAAAAAGCCG
1 AAAGGCTGAAAAGCCGAAAAGCCA
*
116753136 AAAGGGTGAAAAGCCGAAAAGCCA
1 AAAGGCTGAAAAGCCGAAAAGCCA
*
116753160 AAAGGCTGAAAAGCTGAAAA
1 AAAGGCTGAAAAGCCGAAAA
116753180 AGTGGGTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.51, C:0.16, G:0.26, T:0.06
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCGAAAAGCCA
Found at i:116758075 original size:15 final size:15
Alignment explanation
Indices: 116758052--116758083 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
116758042 AAATAATAAT
116758052 TTATATATATTTATC
1 TTATATATATTTATC
*
116758067 TTATTTATATTTATC
1 TTATATATATTTATC
116758082 TT
1 TT
116758084 CTAAATTAAA
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:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:116759234 original size:154 final size:154
Alignment explanation
Indices: 116758943--116759234 Score: 345
Period size: 154 Copynumber: 1.9 Consensus size: 154
116758933 CACCGCTATT
* * * * * * * * *
116758943 TGCTTCACCTTTTGCGGCATTTTAGGAAGAACGCCGCTAATTCTTGATATATTGCGGCGTTTACT
1 TGCTTCACCTATTGCGGCATTTTAGAAAAAACACCGCTAATTCTCGATATATTGCAGCATTCACA
* * * **
116759008 GGAGGCGCCGCTAAAGGCTCTATAGCTCACCAATGCACGACATAGTATTTCTCAAAACTTTTGTG
66 GGAAGCGCCGCTAAAGCCTCTATAGCTCACCAATACACGACATAGTATTTCTCAAAACTTTTGCA
*
116759073 GCGTTTTTAAACAACCGCCACTAA
131 GCATTTTTAAACAACCGCCACTAA
* *
116759097 TGCTTCACCTATTGTGGCATTTTAGAAAAAACACCGCTAATTCTCGATATATTGCAGCATTCGCA
1 TGCTTCACCTATTGCGGCATTTTAGAAAAAACACCGCTAATTCTCGATATATTGCAGCATTCACA
* * ** * *
116759162 GGAAGCGCTGCTAATGCCTCTATAGCTTTCCAATACACGACGTCA-T-TTTCCTCAACACTTTTG
66 GGAAGCGCCGCTAAAGCCTCTATAGCTCACCAATACACGACAT-AGTATTT-CTCAAAACTTTTG
116759225 CAGCATTTTT
129 CAGCATTTTT
116759235 TCAAAATTGC
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
153 3 0.03
154 109 0.96
155 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (154 bp):
TGCTTCACCTATTGCGGCATTTTAGAAAAAACACCGCTAATTCTCGATATATTGCAGCATTCACA
GGAAGCGCCGCTAAAGCCTCTATAGCTCACCAATACACGACATAGTATTTCTCAAAACTTTTGCA
GCATTTTTAAACAACCGCCACTAA
Found at i:116764118 original size:40 final size:40
Alignment explanation
Indices: 116764052--116764218 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
116764042 AAATTGAATG
* * *
116764052 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
116764091 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
116764131 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
116764171 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
116764211 ATATCCGG
1 ATATCCGG
116764219 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:116772193 original size:40 final size:39
Alignment explanation
Indices: 116772070--116772197 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
116772060 AAATTGAATG
* * * *
116772070 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTG--ATT
* **
116772110 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGATT
*
116772150 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGATT
116772190 ATATCCGG
1 ATATCCGG
116772198 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGATT
Found at i:116781915 original size:38 final size:38
Alignment explanation
Indices: 116781870--116782007 Score: 213
Period size: 38 Copynumber: 3.6 Consensus size: 38
116781860 GGACTAAGAT
*
116781870 CCGAAGGCGTTCGTGCGAGTTAATAAATCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCGGGTTAAGC
*
116781908 CCGAAGGCATTTGTGCGAGTTAATAAATCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCGGGTTAAGC
* * *
116781946 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAA-TCGGGTTAAG-C
116781986 CCGAAGGCATTCGTGCGAGTTA
1 CCGAAGGCATTCGTGCGAGTTA
116782008 CTATAACCGG
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 62 0.67
39 9 0.10
40 22 0.24
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCGGGTTAAGC
Found at i:116782002 original size:40 final size:38
Alignment explanation
Indices: 116781870--116782035 Score: 208
Period size: 38 Copynumber: 4.3 Consensus size: 38
116781860 GGACTAAGAT
* *
116781870 CCGAAGGCGTTCGTGCGAGTTAATAAATCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGC
* *
116781908 CCGAAGGCATTTGTGCGAGTTAATAAATCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGC
* *
116781946 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAA-CCGGGTTAAG-C
* * *
116781986 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGT
1 CCGAAGGCATTCGTGCGAGTTAATA-AACC-GGGTTAAGC
116782025 CCGAAGGCATT
1 CCGAAGGCATT
116782036 TGAGCTAGTC
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
38 62 0.53
39 20 0.17
40 28 0.24
41 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGC
Found at i:116782060 original size:78 final size:78
Alignment explanation
Indices: 116781898--116782045 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 78
116781888 GTTAATAAAT
* * *
116781898 CGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATCGGGTTAAGCCCGAAGGCATTTGTGC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGCCCGAAGGCATTTGAGC
*
116781962 GAGTTACTAAACC
66 GAGTCACTAAACC
* * *
116781975 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTCCGAAGGCATTTGA
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AACC-GGGTTAAGCCCGAAGGCATTTGA
*
116782039 GCTAGTC
64 GCGAGTC
116782046 GTTATATCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
77 9 0.15
78 24 0.40
79 22 0.37
80 5 0.08
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (78 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGCCCGAAGGCATTTGAGC
GAGTCACTAAACC
Found at i:116789988 original size:39 final size:39
Alignment explanation
Indices: 116789945--116790084 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
116789935 TGACTAAGAT
*
116789945 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
*
116789984 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
* * *
116790023 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAG-C
116790063 CCGAAGGCATTCGTGCGAGTTA
1 CCGAAGGCATTCGTGCGAGTTA
116790085 CTATAACCGG
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 73 0.77
40 22 0.23
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
Found at i:116790079 original size:40 final size:39
Alignment explanation
Indices: 116789945--116790113 Score: 223
Period size: 39 Copynumber: 4.3 Consensus size: 39
116789935 TGACTAAGAT
* *
116789945 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
* *
116789984 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
* *
116790023 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAG-C
* * *
116790063 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGTTAAG-C
116790103 CCGAAGGCATT
1 CCGAAGGCATT
116790114 TGAGCTAGTC
Statistics
Matches: 121, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 73 0.60
40 39 0.32
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
Found at i:116793368 original size:27 final size:28
Alignment explanation
Indices: 116793335--116793404 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
116793325 ATAGTGATTC
116793335 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
116793362 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
116793390 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
116793405 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:116794884 original size:27 final size:28
Alignment explanation
Indices: 116794854--116794923 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
116794844 ATAGTGAATC
*
116794854 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
116794881 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
116794909 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
116794924 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:116794995 original size:42 final size:42
Alignment explanation
Indices: 116794931--116795037 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
116794921 GCTGTACAAT
* *
116794931 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
116794973 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
116795015 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
116795038 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:116802115 original size:27 final size:28
Alignment explanation
Indices: 116802085--116802154 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
116802075 ATAGTGAATC
*
116802085 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
116802112 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
116802140 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
116802155 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:116802226 original size:42 final size:42
Alignment explanation
Indices: 116802162--116802268 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
116802152 GCTGTACAAT
* *
116802162 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
116802204 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
116802246 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
116802269 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:116809342 original size:27 final size:28
Alignment explanation
Indices: 116809312--116809381 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
116809302 ATAGTGAATC
*
116809312 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
116809339 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
116809367 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
116809382 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:116809453 original size:42 final size:42
Alignment explanation
Indices: 116809389--116809495 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
116809379 GCTGTACAAT
* *
116809389 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
116809431 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
116809473 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
116809496 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:116816967 original size:29 final size:28
Alignment explanation
Indices: 116816934--116817025 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
116816924 TGACGAGATT
*
116816934 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
116816963 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * * * *
116816991 GACACTATGTGTGCAAGCTGAAAAAATAC
1 GGCACTAAGTGTGCATGCTG-GAAAATAA
116817020 GGCACT
1 GGCACT
116817026 GGGTGTGCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 20 0.37
29 34 0.63
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:116817005 original size:28 final size:28
Alignment explanation
Indices: 116816936--116817015 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
116816926 ACGAGATTGG
* *
116816936 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
116816965 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* * *
116816993 CACTATGTGTGCAAGCTGAAAAA
1 CACTAAGTGTGCATGCTGGAAAA
116817016 ATACGGCACT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:116825038 original size:29 final size:29
Alignment explanation
Indices: 116825005--116825097 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
116824995 TGACGAGATT
* *
116825005 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
116825034 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * * *
116825063 GACACTATGTGTGCAAGCTGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
116825092 GGCACT
1 GGCACT
116825098 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:116825103 original size:29 final size:29
Alignment explanation
Indices: 116825036--116825110 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
116825026 AAATATAAGG
* * * *
116825036 CACTAAGTGTGCATGCTGGAAAAATATGA
1 CACTAGGTGTGCAAGCTGAAAAAATACGA
* *
116825065 CACTATGTGTGCAAGCTGAAAAAATACGG
1 CACTAGGTGTGCAAGCTGAAAAAATACGA
* *
116825094 CACTGGGTGTGCGAGCT
1 CACTAGGTGTGCAAGCT
116825111 CGGAAGGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
CACTAGGTGTGCAAGCTGAAAAAATACGA
Found at i:116826856 original size:20 final size:20
Alignment explanation
Indices: 116826810--116826858 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
116826800 TTAACCATCG
116826810 ATCTGGTATTGATATATTTT
1 ATCTGGTATTGATATATTTT
*
116826830 ATTTGGTATTGATA-ATTTT
1 ATCTGGTATTGATATATTTT
116826849 ATCCTGGTAT
1 AT-CTGGTAT
116826859 CGATTTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.53
Consensus pattern (20 bp):
ATCTGGTATTGATATATTTT
Found at i:116828280 original size:14 final size:16
Alignment explanation
Indices: 116828251--116828284 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
116828241 AATGAAGGGA
116828251 TTGAGTAAGAAAAAAG
1 TTGAGTAAGAAAAAAG
*
116828267 TTGAG-AAGAAAAAGG
1 TTGAGTAAGAAAAAAG
116828282 TTG
1 TTG
116828285 GTGTTACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (16 bp):
TTGAGTAAGAAAAAAG
Found at i:116831760 original size:51 final size:51
Alignment explanation
Indices: 116831684--116831830 Score: 224
Period size: 51 Copynumber: 2.9 Consensus size: 51
116831674 AGATACACGG
*
116831684 TGGCCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAAAA
1 TGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAAA
* * *
116831735 TGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAAA
* *
116831786 TGGCCTTCACATGGTACCACACTTCT-GTCCAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTATTTTATTC
116831831 TTAAGGTTCA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAAA
Found at i:116832527 original size:21 final size:20
Alignment explanation
Indices: 116832498--116832537 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
116832488 CTTTGAAACA
*
116832498 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGAGTGGAT
116832518 GGGCAACACGCCCGAGTGGA
1 GGGC-ACACGCCCGAGTGGA
116832538 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (20 bp):
GGGCACACGCCCGAGTGGAT
Found at i:116833940 original size:46 final size:46
Alignment explanation
Indices: 116833846--116834015 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
116833836 TATCCGTGTT
*
116833846 GATGCCATGTCCCAGACATGGTCTTACACT-GAC-CCATCTCGTAA-CC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAG-CTTCATCTCG-AAGCC
116833892 GATG-CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAAGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAAGCC
* * *
116833938 GATG-CATTTCCCAAACATGTCTTACACTAGCTCTCATCTC-AATGTC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCT-TCATCTCGAA-GCC
*
116833984 GATGCCATGTCCTA-AGCATGTCTTACACTAGC
1 GATGCCATGTCCCAGA-CATGTCTTACACTAGC
116834016 ACACAAATAA
Statistics
Matches: 110, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
44 11 0.10
45 19 0.17
46 56 0.51
47 24 0.22
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAAGCC
Found at i:116841600 original size:46 final size:46
Alignment explanation
Indices: 116841519--116841680 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 46
116841509 AGGCCGACGC
* *
116841519 CATGTCCCAAACATGGTCGTACACTGAC--ACATCTCGTAGCCGATG
1 CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGTAGCCGATG
**
116841564 CATGTCCCAAACATGTCTTACACTGGCTTACATCTCG-AGGGTGATG
1 CATGTCCCAAACATGTCTTACACTGGCTTACATCTCGTA-GCCGATG
* * * *
116841610 CATATCCCAGACATGTCTTACACTAGCTCT-CATCTCAATA-CCGATG
1 CATGTCCCAAACATGTCTTACACTGGCT-TACATCTC-GTAGCCGATG
*
116841656 CCATGTCCCAGACATGTCTTACACT
1 -CATGTCCCAAACATGTCTTACACT
116841681 AGCACACAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 48 0.48
47 24 0.24
48 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGGCTTACATCTCGTAGCCGATG
Found at i:116841683 original size:47 final size:47
Alignment explanation
Indices: 116841412--116841680 Score: 162
Period size: 47 Copynumber: 5.8 Consensus size: 47
116841402 TATAGGGTAT
* *
116841412 AATACCGATGCCATGTCCCAGACATAGTCTTACACTG-GCTCATCCATC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCAT-C-TC
* * * * * ** *
116841460 AA-GCAGATGTCATGTCCCAGGCATGGTCTTACACTGACTGTCGAAATT
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-ATCTC
* ** * * * * *
116841508 GAGGCCGACGCCATGTCCCAAACATGGTCGTACACTG-ACACATCTC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTC
* *
116841554 -GTAGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTC
1 AATA-CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCT-CATCTC
* **** *
116841600 GAGGGTGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCATCTC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCTC
116841646 AATACCGATGCCATGTCCCAGACAT-GTCTTACACT
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACT
116841681 AGCACACAAA
Statistics
Matches: 166, Mismatches: 44, Indels: 23
0.71 0.19 0.10
Matches are distributed among these distances:
44 9 0.05
45 15 0.09
46 53 0.32
47 54 0.33
48 4 0.02
49 30 0.18
50 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (47 bp):
AATACCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTC
Found at i:116858843 original size:42 final size:43
Alignment explanation
Indices: 116858717--116858878 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 43
116858707 GTGAACATCG
*
116858717 ATCTGAGTTATCGTGTAAGA-CAGTGTCTGGGACACAGGCCTCGAT
1 ATCTGA-TT-TCGTGTAAGACCA-TGTCTGGGACACAGGCATCGAT
* ** *
116858762 TTGAGATTTACGTGTAAGACCATGTCTGAGACATC-GGCATC-AT
1 ATCTGATTT-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGAT
* * *
116858805 ATCTGATTTCGTGTAAGACCATGTCTGGGATAGAGGCATCGAG
1 ATCTGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
* * *
116858848 AT-TGAATTACATGTAAGACCACGTCTGGGAC
1 ATCTG-ATTTCGTGTAAGACCATGTCTGGGAC
116858879 GTCGGCTTTG
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 29 0.31
43 34 0.36
44 26 0.27
45 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
ATCTGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
Found at i:116860473 original size:13 final size:13
Alignment explanation
Indices: 116860455--116860479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116860445 CCTGGCAGAC
116860455 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
116860468 GCCCGTGTCCTT
1 GCCCGTGTCCTT
116860480 CACACGGCCA
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:0.00, C:0.40, G:0.24, T:0.36
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:116861601 original size:46 final size:45
Alignment explanation
Indices: 116861546--116861712 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
116861536 TCTCGTAGCT
116861546 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTGAGGCC
* * * ** *
116861592 GATGCATGTCCTAGACATGTCTT-CACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTTGAGGCC
* * ** *
116861637 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAGGCC
*
116861685 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
116861713 AGCTCACACA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 19 0.19
46 47 0.47
47 17 0.17
48 16 0.16
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAGGCC
Found at i:116861688 original size:93 final size:92
Alignment explanation
Indices: 116861450--116861715 Score: 267
Period size: 93 Copynumber: 2.9 Consensus size: 92
116861440 GTCAGGTGCT
** * * *
116861450 GATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAACATATTTGTGCCGATGCCATGTCCTAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATGTG-GCCGATG-CATGTCCTAA
* * *
116861515 ACAAGGTCTTACACTAACACATCTCGTAGCT
63 AC-ATGTCTTACACTAGCACATCTCGTAGCC
* * * *
116861546 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTTGAGGCCGATGCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCTAAAC
116861608 ATGTCTT-CACTAGCAC-TCGTC-TCAATGCC
65 ATGTCTTACACTAGCACATC-TCGT--A-GCC
* *
116861637 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCTAAAC
116861701 ATGTCTTACACTAGC
65 ATGTCTTACACTAGC
116861716 TCACACAAGT
Statistics
Matches: 143, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
88 3 0.02
89 10 0.07
90 7 0.05
91 17 0.12
92 23 0.16
93 46 0.32
94 19 0.13
95 14 0.10
96 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTCCTAAACA
TGTCTTACACTAGCACATCTCGTAGCC
Found at i:116880117 original size:39 final size:39
Alignment explanation
Indices: 116880053--116880196 Score: 209
Period size: 39 Copynumber: 3.7 Consensus size: 39
116880043 CCGCACAAAG
* *
116880053 GCCTTTGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * * *
116880093 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACGATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
116880132 GCCTTCGGGCTTAGCCCAGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCC-GGATATCACAATTTGCACAATT
116880171 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
116880197 TCGAACATTC
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.02
39 80 0.87
40 10 0.11
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:116882767 original size:40 final size:40
Alignment explanation
Indices: 116882722--116882889 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116882712 CGGAATACAA
116882722 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116882762 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116882802 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
116882842 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
116882882 CCGGATAT
1 CCGGATAT
116882890 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116887889 original size:40 final size:40
Alignment explanation
Indices: 116887782--116888044 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
116887772 CTCGACGATG
*
116887782 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116887822 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116887861 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
116887901 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116887941 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116887981 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116888021 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
116888045 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:116888771 original size:40 final size:40
Alignment explanation
Indices: 116888706--116888807 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
116888696 CGAATGGTAT
* ** * *
116888706 CGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATC
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-C
*
116888746 CGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAAC
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
*
116888786 CGGGCT-ATGTCCCGAAGACAAT
1 CGGGCTAAT-TCCCGAAGGCAAT
116888808 CGCGAGTCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 49 0.92
41 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
Found at i:116891559 original size:46 final size:46
Alignment explanation
Indices: 116891508--116891724 Score: 330
Period size: 46 Copynumber: 5.0 Consensus size: 46
116891498 AGTTAAATAT
116891508 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116891554 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTA--TG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116891598 ---TA----TGGTAAAGCCAAATGGCTAGTGTGAAATATGTA-GTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
116891636 ATATA-GTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
116891681 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
116891725 AGATGTATAT
Statistics
Matches: 159, Mismatches: 3, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
37 33 0.21
38 2 0.01
41 4 0.03
44 35 0.22
45 7 0.04
46 78 0.49
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:116891605 original size:37 final size:37
Alignment explanation
Indices: 116891557--116891678 Score: 172
Period size: 37 Copynumber: 3.1 Consensus size: 37
116891547 GTATGTGATA
*
116891557 TATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATG
1 TATGTATGGTAAAGCCAAATGGCTAGTGTGAAATATG
116891594 TATGTATGGTAAAGCCAAATGGCTAGTGTGAAATATG
1 TATGTATGGTAAAGCCAAATGGCTAGTGTGAAATATG
116891631 TAGTGATATAGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATG
1 TA-TG---TA---TGGTAAAGCCAAATGGCTAGTGTGAAATATG
116891675 TATG
1 TATG
116891679 AGATATATGT
Statistics
Matches: 77, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
37 38 0.49
38 2 0.03
41 2 0.03
43 2 0.03
44 33 0.43
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (37 bp):
TATGTATGGTAAAGCCAAATGGCTAGTGTGAAATATG
Found at i:116891788 original size:47 final size:47
Alignment explanation
Indices: 116891728--116891838 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
116891718 ATGTATGAGA
* * * *
116891728 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
116891775 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
116891822 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
116891839 TCCCGAGGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:116894452 original size:40 final size:40
Alignment explanation
Indices: 116894394--116894657 Score: 438
Period size: 40 Copynumber: 6.6 Consensus size: 40
116894384 CTCGACGATG
*
116894394 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116894434 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116894474 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
116894514 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116894554 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116894594 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116894634 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
116894658 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:116895385 original size:40 final size:40
Alignment explanation
Indices: 116895321--116895421 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
116895311 AATGGTATCT
* ** * *
116895321 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
*
116895361 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
*
116895401 GGGCT-ATGTCCCGAAGACAAT
1 GGGCTAAT-TCCCGAAGGCAAT
116895422 CGAGTGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 48 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
Found at i:116895437 original size:40 final size:40
Alignment explanation
Indices: 116895359--116895455 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
116895349 GTTACTAAAT
* * *
116895359 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
* * *
116895399 CCGGGCT-ATGTCCCGAAGACAATCGAGTGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGTGAATCACTATAA
* *
116895439 CC-GGTTAAATCCCGAAG
1 CCGGGCTAATTCCCGAAG
116895456 GTACGTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
Found at i:116898155 original size:22 final size:22
Alignment explanation
Indices: 116898130--116898200 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
116898120 ATATATATAT
116898130 GTGTGGTAAAGCCAAATGGCTA
1 GTGTGGTAAAGCCAAATGGCTA
***** *
116898152 GTGT-G-AAATATGTATGTGATA
1 GTGTGGTAAAGCCAAATG-GCTA
116898173 TGTGTGGTAAAGCCAAATGGCTA
1 -GTGTGGTAAAGCCAAATGGCTA
116898196 GTGTG
1 GTGTG
116898201 AAATATGTAT
Statistics
Matches: 33, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 13 0.39
23 4 0.12
24 6 0.18
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (22 bp):
GTGTGGTAAAGCCAAATGGCTA
Found at i:116898353 original size:46 final size:46
Alignment explanation
Indices: 116898124--116898349 Score: 411
Period size: 46 Copynumber: 5.0 Consensus size: 46
116898114 AGTTAAATAT
116898124 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116898170 --ATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116898214 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
116898260 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
116898306 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
116898350 AGATGTATAT
Statistics
Matches: 175, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
44 44 0.25
46 131 0.75
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:116898413 original size:47 final size:47
Alignment explanation
Indices: 116898353--116898463 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
116898343 ATGTATGAGA
* * * *
116898353 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
116898400 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
116898447 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
116898464 TCCCGAGGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:116901127 original size:40 final size:40
Alignment explanation
Indices: 116901020--116901282 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
116901010 CTCGACGATG
*
116901020 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116901060 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116901099 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
116901139 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116901179 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116901219 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116901259 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
116901283 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:116902009 original size:40 final size:40
Alignment explanation
Indices: 116901944--116902080 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 40
116901934 CGAATGGTAT
* ** *
116901944 CGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAATC
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATC
* *
116901984 CGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA-C
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-AATC
* * * * *
116902024 CGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATC
1 CGGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAAATC
* *
116902064 C-GGTTAAATCCCGAAGG
1 CGGGCTAATTCCCGAAGG
116902081 TACGTGATTC
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 14 0.18
40 61 0.79
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATC
Found at i:116904792 original size:46 final size:46
Alignment explanation
Indices: 116904741--116904922 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
116904731 AGTTAAATAT
116904741 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116904787 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
116904833 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
116904879 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
116904923 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:116904986 original size:46 final size:47
Alignment explanation
Indices: 116904926--116905035 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 47
116904916 ATGTATGAGA
* * * *
116904926 TGTATATATGTGATAAGG-CGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
116904972 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
116905019 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
116905036 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
46 19 0.33
47 38 0.67
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:116907701 original size:40 final size:40
Alignment explanation
Indices: 116907594--116907856 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
116907584 CTCGACGATG
*
116907594 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116907634 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116907673 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
116907713 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116907753 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116907793 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116907833 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
116907857 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:116908584 original size:40 final size:40
Alignment explanation
Indices: 116908516--116908655 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
116908506 TTCGAATGGT
* ** *
116908516 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAA
* *
116908556 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-A
* * * * *
116908597 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAA
* *
116908636 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGCTAATTCCCGAAGG
116908656 TACGTGATTC
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
39 14 0.17
40 64 0.80
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAA
Found at i:116911372 original size:46 final size:46
Alignment explanation
Indices: 116911321--116911502 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
116911311 AGTTAAATAT
116911321 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116911367 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
116911413 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
116911459 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
116911503 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:116911560 original size:47 final size:47
Alignment explanation
Indices: 116911506--116911616 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
116911496 ATGTATGAGA
* * *
116911506 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
116911553 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
116911600 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
116911617 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:116914283 original size:40 final size:40
Alignment explanation
Indices: 116914176--116914438 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
116914166 CTCGACGATG
*
116914176 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116914216 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
116914255 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
116914295 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116914335 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116914375 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
116914415 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
116914439 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:116915184 original size:40 final size:42
Alignment explanation
Indices: 116915098--116915202 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 42
116915088 TTCGAATGGT
* * *
116915098 ATCCGGGCTAAGTCCCGAAGGC--TTTTGTGCAAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGCAAGTCACTAA
116915138 ATCCGGGCTAATTCCCGAAGGCAATTGTGTG-AA-TCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGCAAGTCACTA-A
*
116915179 A-CCGGGCT-ATGTCCCGAAGACAAT
1 ATCCGGGCTAAT-TCCCGAAGGCAAT
116915203 CGAGCGAGTC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
39 2 0.04
40 45 0.79
41 4 0.07
42 6 0.11
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (42 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGTGCAAGTCACTAA
Found at i:116917955 original size:46 final size:46
Alignment explanation
Indices: 116917904--116918085 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
116917894 AGTTAAATAT
116917904 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
116917950 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
116917996 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
116918042 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
116918086 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:116918143 original size:47 final size:47
Alignment explanation
Indices: 116918089--116918199 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
116918079 ATGTATGAGA
* * *
116918089 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
116918136 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
116918183 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
116918200 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:116925993 original size:43 final size:44
Alignment explanation
Indices: 116925945--116926158 Score: 249
Period size: 43 Copynumber: 5.0 Consensus size: 44
116925935 GATTATCGAG
116925945 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
116925989 -TGTGATTACATGTAAGATCATGTCTAGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
116926032 -TGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
** * * * * * *
116926074 ATACGATTACGTGTAAAACCCTGACTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
116926117 ATGTGATAACATGTAAGACCATATCTTGGACA-TGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
116926159 CGAGATTTAT
Statistics
Matches: 143, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
42 8 0.06
43 135 0.94
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:116927428 original size:14 final size:15
Alignment explanation
Indices: 116927409--116927438 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
116927399 ATATTTGACT
116927409 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
116927423 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
116927438 T
1 T
116927439 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:116929509 original size:46 final size:45
Alignment explanation
Indices: 116929336--116929508 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
116929326 TGTAACCCGC
*
116929336 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
116929380 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
116929426 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
116929473 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
116929509 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 17 0.16
45 21 0.19
46 33 0.30
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:116929509 original size:93 final size:91
Alignment explanation
Indices: 116929344--116929512 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 91
116929334 GCCCATAAGT
*
116929344 GAACTCGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
116929409 AGCTCGGATGCCTAGTTACATCTCTC
66 AGCTCGGATGCCTAGTTACATCTCTC
*
116929435 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
116929500 CGAGTTCGGATGC
64 CGAGCTCGGATGC
116929513 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 6 0.08
92 20 0.27
93 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTC
Found at i:116929528 original size:46 final size:46
Alignment explanation
Indices: 116929341--116929528 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
116929331 CCCGCCCATA
* * *
116929341 AGTGAACTC-GACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
116929384 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
116929434 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
116929478 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
116929524 AGTGA
1 AGTGA
116929529 CATGTCACTT
Statistics
Matches: 115, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 18 0.16
45 22 0.19
46 34 0.30
47 30 0.26
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:116941813 original size:40 final size:40
Alignment explanation
Indices: 116941739--116941884 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
116941729 CCACACCAAG
* * * * * *
116941739 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
116941779 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
116941819 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
116941859 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
116941885 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:116941899 original size:40 final size:40
Alignment explanation
Indices: 116941771--116941922 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
116941761 ATCACGATTT
* * * * *
116941771 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
116941811 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
116941851 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
116941891 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
116941923 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:116948213 original size:21 final size:21
Alignment explanation
Indices: 116948189--116948231 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
116948179 TAATTCTACT
*
116948189 TAGATTTTTCTAATATACCAA
1 TAGATTTTTCTAACATACCAA
116948210 TAGATTTTTCTAACATACCAA
1 TAGATTTTTCTAACATACCAA
116948231 T
1 T
116948232 GAGCCATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (21 bp):
TAGATTTTTCTAACATACCAA
Found at i:116952088 original size:39 final size:39
Alignment explanation
Indices: 116952034--116952163 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
116952024 TATGAGACTA
*
116952034 GAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
116952073 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTA
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* * **
116952112 GAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
116952151 GAAAAATATCCGG
1 GAAATATATCCGG
116952164 GTTAAAGACC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:116952177 original size:78 final size:77
Alignment explanation
Indices: 116952031--116952199 Score: 196
Period size: 78 Copynumber: 2.2 Consensus size: 77
116952021 ATGTATGAGA
* * * * * **
116952031 CTAGAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTGGAAATATATCCGGACATGAGGTC
1 CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACC
116952096 CGCAGGCTATATG
66 CGCAGGCT-TATG
* * **
116952109 CTAGAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGAC
1 CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGAC
116952173 CCGCAGGCTTATG
65 CCGCAGGCTTATG
* *
116952186 CTAGTAATGTATTC
1 CTAGAAATATATTC
116952200 CAAGCTCTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
77 17 0.22
78 60 0.78
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (77 bp):
CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACC
CGCAGGCTTATG
Found at i:116958695 original size:25 final size:25
Alignment explanation
Indices: 116958648--116958710 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
116958638 GCTATTATGT
116958648 TCGCACACATAGT-GCCATAGTAAA
1 TCGCACACATAGTGGCCATAGTAAA
116958672 TCGCACACATAGTGGCCATAGTAAA
1 TCGCACACATAGTGGCCATAGTAAA
*
116958697 TAGCACACATAGTG
1 TCGCACACATAGTG
116958711 CATTTGAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 13 0.35
25 24 0.65
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (25 bp):
TCGCACACATAGTGGCCATAGTAAA
Found at i:116961524 original size:29 final size:29
Alignment explanation
Indices: 116961434--116961593 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
116961424 ACTCGATTTC
* * **
116961434 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
116961463 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
116961491 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
116961521 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
116961550 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
116961579 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
116961594 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:116969607 original size:29 final size:29
Alignment explanation
Indices: 116969575--116969647 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
116969565 CTTCGAGCTC
* *
116969575 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTGCCAGCAT
**
116969604 GCACACTTAGTGCCATATATTGCCAGCAT
1 GCACACCCAGTGCCATATATTGCCAGCAT
**
116969633 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
116969648 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTGCCAGCAT
Found at i:116972936 original size:14 final size:15
Alignment explanation
Indices: 116972919--116972947 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
116972909 GCATGAAAAT
116972919 TTCACACA-AATAAA
1 TTCACACATAATAAA
116972933 TTCACACATAATAAA
1 TTCACACATAATAAA
116972948 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:116974692 original size:29 final size:28
Alignment explanation
Indices: 116974626--116974708 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
116974616 GTGCCATGTG
* *
116974626 ATTTAAGCCCGCACACATAGTGCCATACA
1 ATTTCAGCTCGCACAC-TAGTGCCATACA
* *
116974655 ATTTGAGCTCGCACACTCAGTGCCATA-T
1 ATTTCAGCTCGCACACT-AGTGCCATACA
*
116974683 ATTTCCAGCTTGCACACTTAGTGCCA
1 ATTT-CAGCTCGCACAC-TAGTGCCA
116974709 ATCTCGTCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 5 0.11
29 40 0.87
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (28 bp):
ATTTCAGCTCGCACACTAGTGCCATACA
Found at i:116977617 original size:93 final size:93
Alignment explanation
Indices: 116977504--116977675 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
116977494 CGCCCATACG
* *
116977504 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
116977569 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
116977597 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
116977662 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
116977676 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:116977672 original size:46 final size:46
Alignment explanation
Indices: 116977505--116977672 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
116977495 GCCCATACGC
* * *
116977505 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * *
116977551 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
116977598 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
*
116977644 GAACTCGGACTCAACTCAATGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
116977673 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 55 0.53
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:116980046 original size:42 final size:43
Alignment explanation
Indices: 116979966--116980046 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
116979956 CCCAAACATC
*
116979966 GTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGAGAGG
1 GTCTTACATGAAATCAAATATCGATGCCACTGTCCTAGAGAGG
*
116980009 GTCTTACATGAAATCATATAT-GATGCCGA-TGTCCTAGA
1 GTCTTACATGAAATCAAATATCGATGCC-ACTGTCCTAGA
116980047 CATGGTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (43 bp):
GTCTTACATGAAATCAAATATCGATGCCACTGTCCTAGAGAGG
Found at i:116992526 original size:27 final size:27
Alignment explanation
Indices: 116992474--116992563 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
116992464 GTGACAGAGT
116992474 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
116992503 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
116992530 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
116992558 CACCAG
1 CACCAG
116992564 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:117000080 original size:6 final size:6
Alignment explanation
Indices: 117000069--117000098 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
117000059 TCAAACCACA
117000069 GAGATT GAGATT GAGATT GAGATT GAGATT
1 GAGATT GAGATT GAGATT GAGATT GAGATT
117000099 CAGCCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
GAGATT
Found at i:117001891 original size:30 final size:30
Alignment explanation
Indices: 117001855--117002014 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
117001845 GACAAGATTG
* * * * *
117001855 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
117001885 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
117001913 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117001942 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117001972 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117002001 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
117002015 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:117001982 original size:59 final size:57
Alignment explanation
Indices: 117001855--117002014 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
117001845 GACAAGATTG
* * * * * *
117001855 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
117001913 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
117001972 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
117002015 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:117009799 original size:30 final size:30
Alignment explanation
Indices: 117009763--117009922 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
117009753 GACAAGATTG
* * * * *
117009763 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
117009793 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
117009821 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117009850 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117009880 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117009909 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
117009923 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:117009890 original size:59 final size:57
Alignment explanation
Indices: 117009763--117009922 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
117009753 GACAAGATTG
* * * * * *
117009763 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
117009821 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
117009880 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
117009923 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:117011603 original size:27 final size:27
Alignment explanation
Indices: 117011552--117011641 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
117011542 GTGACAGAGT
*
117011552 CACCAGATACAAATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
117011581 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
117011608 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
117011636 CACCAG
1 CACCAG
117011642 GATGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 24 0.44
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:117013940 original size:40 final size:40
Alignment explanation
Indices: 117013895--117014062 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
117013885 CGGAATATAA
117013895 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * * *
117013935 CCGGATAGAATGTCTCGCGCGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
117013975 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* *** * * * * *
117014015 CCGGAAATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
117014055 CCGGATAT
1 CCGGATAT
117014063 CATTCAATTT
Statistics
Matches: 98, Mismatches: 29, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
39 1 0.01
40 97 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:117017642 original size:20 final size:19
Alignment explanation
Indices: 117017619--117017660 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
117017609 TTTAAAACAC
117017619 TTTTACAC-TTTTATCGCATA
1 TTTTACACATTTT-TCGCA-A
*
117017639 TTTTTCACATTTTTCGCAA
1 TTTTACACATTTTTCGCAA
117017658 TTT
1 TTT
117017661 AGTCCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.21, C:0.19, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTACACATTTTTCGCAA
Found at i:117018982 original size:13 final size:13
Alignment explanation
Indices: 117018964--117018998 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
117018954 GATGTCCTAA
117018964 TAGGGCAAACTGT
1 TAGGGCAAACTGT
117018977 TAGGGCAAACTGT
1 TAGGGCAAACTGT
*
117018990 TAGTGCAAA
1 TAGGGCAAA
117018999 AGAAAGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (13 bp):
TAGGGCAAACTGT
Found at i:117030677 original size:20 final size:20
Alignment explanation
Indices: 117030652--117030689 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117030642 GTTTATTCGC
*
117030652 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
117030672 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
117030690 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:117031530 original size:23 final size:24
Alignment explanation
Indices: 117031500--117031549 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
117031490 GGCTTGTAGC
117031500 CGAAACTACAAGACTTT-GGGAAT
1 CGAAACTACAAGACTTTGGGGAAT
117031523 CGAAACTACAAGACTTTGGGGAAT
1 CGAAACTACAAGACTTTGGGGAAT
117031547 CGA
1 CGA
117031550 GTTCTACCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
CGAAACTACAAGACTTTGGGGAAT
Found at i:117039521 original size:40 final size:40
Alignment explanation
Indices: 117039429--117039577 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
117039419 AATTGAATGA
* * *
117039429 TATCCGGGCTAAGCCCCGAAGACAATTGCTG-GA--AATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTG-TGCGAGTCA-TAC
* *
117039467 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
117039508 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
117039547 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
117039578 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
37 2 0.02
38 27 0.29
39 5 0.05
40 56 0.61
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:117039591 original size:40 final size:40
Alignment explanation
Indices: 117039464--117039593 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
117039454 TTGCTGGAAA
* * *
117039464 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
117039504 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
117039544 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
117039584 TTATATCCGG
1 TTATATCCGG
117039594 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:117042931 original size:7 final size:7
Alignment explanation
Indices: 117042919--117042957 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
117042909 ACATTTCTAA
117042919 TCATCCC
1 TCATCCC
117042926 TCATCCC
1 TCATCCC
117042933 TCATCCC
1 TCATCCC
117042940 TCATCCC
1 TCATCCC
117042947 TCATCCC
1 TCATCCC
117042954 TCAT
1 TCAT
117042958 TCATCATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:117042964 original size:14 final size:14
Alignment explanation
Indices: 117042918--117042965 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
117042908 CACATTTCTA
117042918 ATCATCCCTCATCC
1 ATCATCCCTCATCC
*
117042932 CTCATCCCTCATCC
1 ATCATCCCTCATCC
* *
117042946 CTCATCCCTCATTC
1 ATCATCCCTCATCC
117042960 ATCATC
1 ATCATC
117042966 TCTTAGCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.00, T:0.31
Consensus pattern (14 bp):
ATCATCCCTCATCC
Found at i:117042964 original size:21 final size:21
Alignment explanation
Indices: 117042918--117042965 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
117042908 CACATTTCTA
117042918 ATCATCCCTCATCCCTCATCC
1 ATCATCCCTCATCCCTCATCC
* *
117042939 CTCATCCCTCATCCCTCATTC
1 ATCATCCCTCATCCCTCATCC
117042960 ATCATC
1 ATCATC
117042966 TCTTAGCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.50, G:0.00, T:0.31
Consensus pattern (21 bp):
ATCATCCCTCATCCCTCATCC
Done.