Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 89 of 425
Found at i:25662625 original size:25 final size:24
Alignment explanation
Indices: 25662578--25662625 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
25662568 ACATATTGGG
*
25662578 AGATAAATTTTTATTATTTTTTTA
1 AGATAAATTTTTATTATTCTTTTA
25662602 AGATAAATATTTTATT-TATCTTTT
1 AGATAAAT-TTTTATTAT-TCTTTT
25662626 CTATTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
AGATAAATTTTTATTATTCTTTTA
Found at i:25666404 original size:24 final size:24
Alignment explanation
Indices: 25666360--25666406 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25666350 GTTAAATGTC
*
25666360 TTATTGAATTTTATAGTTAAGTTT
1 TTATTGAATTTTATAGCTAAGTTT
*
25666384 TTATTTAATTTTAATA-CTAAGTT
1 TTATTGAATTTT-ATAGCTAAGTT
25666407 AATATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (24 bp):
TTATTGAATTTTATAGCTAAGTTT
Found at i:25669406 original size:63 final size:63
Alignment explanation
Indices: 25669329--25669459 Score: 255
Period size: 63 Copynumber: 2.1 Consensus size: 63
25669319 TAACTTTGCC
25669329 ATAG-TGTGATTTTTTGGACTGAATTGAGTAATGTGGTTCATAAATGAGTTAAATTTACTATT
1 ATAGATGTGATTTTTTGGACTGAATTGAGTAATGTGGTTCATAAATGAGTTAAATTTACTATT
25669391 ATAGATGTGATTTTTTGGACTGAATTGAGTAATGTGGTTCATAAATGAGTTAAATTTACTATT
1 ATAGATGTGATTTTTTGGACTGAATTGAGTAATGTGGTTCATAAATGAGTTAAATTTACTATT
25669454 ATAGAT
1 ATAGAT
25669460 CAAGAGAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 4 0.06
63 64 0.94
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.43
Consensus pattern (63 bp):
ATAGATGTGATTTTTTGGACTGAATTGAGTAATGTGGTTCATAAATGAGTTAAATTTACTATT
Found at i:25669768 original size:42 final size:42
Alignment explanation
Indices: 25669717--25669837 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
25669707 TTTGAGATTA
*
25669717 CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGA-CTT
1 CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGATC-C
* * * * *
25669759 TGTGTAAGACCATAGCTGGGCTGTTGACATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATATGGA-ATCGATATGAGATCC
* * *
25669802 CATGTAAGACCATATCTGGGATATGGCATTGATATG
1 CGTGTAAGACCATATCTGGGATATGGAATCGATATG
25669838 GTACTATGAG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGATCC
Found at i:25670106 original size:40 final size:35
Alignment explanation
Indices: 25670022--25670096 Score: 134
Period size: 34 Copynumber: 2.1 Consensus size: 35
25670012 TATGATTGTG
25670022 CAAGTTATGATATTAAGGTTTTAATAATATTCATGC
1 CAAG-TATGATATTAAGGTTTTAATAATATTCATGC
25670058 CAAGTATGATATTAA-GTTTTAATAATATTCATGC
1 CAAGTATGATATTAAGGTTTTAATAATATTCATGC
25670092 CAAGT
1 CAAGT
25670097 TGGACTATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 24 0.62
35 11 0.28
36 4 0.10
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (35 bp):
CAAGTATGATATTAAGGTTTTAATAATATTCATGC
Found at i:25673829 original size:29 final size:28
Alignment explanation
Indices: 25673763--25673921 Score: 140
Period size: 29 Copynumber: 5.5 Consensus size: 28
25673753 TGACGAGATC
25673763 GGCACTAAGTGTGCGTGCTGGAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAATAT
25673791 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAA-ATAT
** *
25673820 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGG-AAAATAT
** * ***
25673849 GGCACTGGGTGTGCGAGCTCGGAGGGTAT
1 GGCACTAAGTGTGCGTGCT-GGAAAATAT
** * * *
25673878 GGCACTGTGTGTGCGGGCT-TAAATTACGT
1 GGCACTAAGTGTGCGTGCTGGAAAATA--T
25673907 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
25673922 AAATCGAGTA
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.03
28 24 0.22
29 76 0.70
30 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (28 bp):
GGCACTAAGTGTGCGTGCTGGAAAATAT
Found at i:25681253 original size:29 final size:28
Alignment explanation
Indices: 25681187--25681345 Score: 140
Period size: 29 Copynumber: 5.5 Consensus size: 28
25681177 TGACGAGATC
25681187 GGCACTAAGTGTGCGTGCTGGAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAATAT
25681215 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAA-ATAT
** *
25681244 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGG-AAAATAT
** * ***
25681273 GGCACTGGGTGTGCGAGCTCGGAGGGTAT
1 GGCACTAAGTGTGCGTGCT-GGAAAATAT
** * * *
25681302 GGCACTGTGTGTGCGGGCT-TAAATTACGT
1 GGCACTAAGTGTGCGTGCTGGAAAATA--T
25681331 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
25681346 AAATCGAGTA
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.03
28 24 0.22
29 76 0.70
30 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (28 bp):
GGCACTAAGTGTGCGTGCTGGAAAATAT
Found at i:25687896 original size:30 final size:30
Alignment explanation
Indices: 25687860--25687921 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
25687850 CAGTCTGAAA
25687860 GAATGATTCAGGTATTCGAAGATATGCTCT
1 GAATGATTCAGGTATTCGAAGATATGCTCT
25687890 GAATGATTCAGGTATTCGAAGATATGCTCT
1 GAATGATTCAGGTATTCGAAGATATGCTCT
25687920 GA
1 GA
25687922 TGTTATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (30 bp):
GAATGATTCAGGTATTCGAAGATATGCTCT
Found at i:25690808 original size:21 final size:21
Alignment explanation
Indices: 25690784--25690823 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25690774 TTTGTGCATT
*
25690784 TTGATGTCTAATGGTAGATTA
1 TTGAAGTCTAATGGTAGATTA
* *
25690805 TTGAAGTTTAATGTTAGAT
1 TTGAAGTCTAATGGTAGAT
25690824 AAATAACTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
TTGAAGTCTAATGGTAGATTA
Found at i:25693509 original size:44 final size:43
Alignment explanation
Indices: 25693438--25693560 Score: 153
Period size: 44 Copynumber: 2.9 Consensus size: 43
25693428 GGATTCCAAT
* *
25693438 ATGTGCTT-CGTGTAAGACCACATCTGGGACGTTGGCATCGAT
1 ATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGAC
*
25693480 TTGTGATTTACGTGTAAGACC-CTATCTGGGACAG-TGGCATCGAC
1 ATGTGA-TTACGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGAC
* *
25693524 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATGTGATTACGTGTAAGACCACATCTGGGACGTTGGC
25693561 GTTGTGCGAG
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 5 0.07
43 28 0.41
44 35 0.51
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGAC
Found at i:25695712 original size:21 final size:21
Alignment explanation
Indices: 25695688--25695727 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25695678 TTTGTGCATT
*
25695688 TTGATGTCTAATGGTAGATTA
1 TTGAAGTCTAATGGTAGATTA
* *
25695709 TTGAAGTTTAATGTTAGAT
1 TTGAAGTCTAATGGTAGAT
25695728 AAACAACTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
TTGAAGTCTAATGGTAGATTA
Found at i:25697265 original size:42 final size:42
Alignment explanation
Indices: 25697191--25697290 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
25697181 AAATTACGTG
* *
25697191 TAAGACCATATCTAGGATATAGCATCAGTATGAGACTTCGTA
1 TAAGACCATATCTAGGATATAGCACCAGTATGAGACTTCATA
* * *
25697233 TAAGACCATATCTGAGGA-ATGGCACC-GATATGAGATTTCATG
1 TAAGACCATATCT-AGGATATAGCACCAG-TATGAGACTTCATA
*
25697275 TAAGACCATAGCTAGG
1 TAAGACCATATCTAGG
25697291 CTATTGGCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.08
42 42 0.84
43 4 0.08
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATAGCACCAGTATGAGACTTCATA
Found at i:25698953 original size:30 final size:30
Alignment explanation
Indices: 25698885--25698966 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
25698875 CAGAGACAAG
* *
25698885 GGCGTATGTCTCAGCCGTGTGAAGTACACA
1 GGCGTGTGTCTTAGCCGTGTGAAGTACACA
* * *
25698915 AGCATGTGTCTTAGCCGTGTGAAGTACAGA
1 GGCGTGTGTCTTAGCCGTGTGAAGTACACA
25698945 GGCGTGTGTCTT-GCCCGTGTGA
1 GGCGTGTGTCTTAG-CCGTGTGA
25698967 CTTCAATTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.27
Consensus pattern (30 bp):
GGCGTGTGTCTTAGCCGTGTGAAGTACACA
Found at i:25699639 original size:42 final size:41
Alignment explanation
Indices: 25699592--25699699 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 41
25699582 GGATACGTGC
*
25699592 AAGACCATATCTGGGATATGGCATCGATATGAGA-CTTCATGT
1 AAGACCATATCTGGGATATGGCATCGAT-TGAGATCCT-ATGT
* *
25699634 AAGACCATAGCTGGGCTATTGGCATCGATTGAGATCCTATGT
1 AAGACCATATCTGGGATA-TGGCATCGATTGAGATCCTATGT
*
25699676 AAGACCATATTTGGGATATGGCAT
1 AAGACCATATCTGGGATATGGCAT
25699700 TGGTATGGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 6 0.10
42 40 0.69
43 12 0.21
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
AAGACCATATCTGGGATATGGCATCGATTGAGATCCTATGT
Found at i:25701851 original size:29 final size:28
Alignment explanation
Indices: 25701819--25701892 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
25701809 GATTTAAGCC
*
25701819 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTCCAAACT
* * *
25701848 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACAC-TAGTGCCATACAGTCCAAACT
25701877 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
25701893 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.22
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTCCAAACT
Found at i:25702344 original size:2 final size:2
Alignment explanation
Indices: 25702337--25702362 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25702327 GGCATACTTG
25702337 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25702363 CACCTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25710025 original size:23 final size:24
Alignment explanation
Indices: 25709982--25710031 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
25709972 ATGTTTAGTT
* *
25709982 TCATCTCTCGAATAAATCAAAATA
1 TCATCTATCGAATAAATCAAAAAA
25710006 TCATCTAT-GAATACAA-CAAAAAA
1 TCATCTATCGAATA-AATCAAAAAA
25710029 TCA
1 TCA
25710032 ATTTAGGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (24 bp):
TCATCTATCGAATAAATCAAAAAA
Found at i:25713055 original size:13 final size:13
Alignment explanation
Indices: 25713037--25713067 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25713027 ACCATGTGTC
25713037 GCACATGGCTGAG
1 GCACATGGCTGAG
25713050 GCACATGGCTGAG
1 GCACATGGCTGAG
*
25713063 ACACA
1 GCACA
25713068 CGACTGTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.32, T:0.13
Consensus pattern (13 bp):
GCACATGGCTGAG
Found at i:25721203 original size:29 final size:29
Alignment explanation
Indices: 25721170--25721301 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
25721160 GTGACGAGAT
*
25721170 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
25721199 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
25721228 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
25721257 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
25721286 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25721302 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:25728935 original size:28 final size:29
Alignment explanation
Indices: 25728904--25729034 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
25728894 GTGACGAGAT
25728904 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
25728932 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ****
25728961 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
25728990 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
25729019 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25729035 AAATCGAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.30
29 61 0.70
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:25728971 original size:29 final size:28
Alignment explanation
Indices: 25728904--25728975 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
25728894 GTGACGAGAT
*
25728904 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAATA
25728932 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAA-ATA
25728961 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
25728976 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCATGCTGGAAAATA
Found at i:25734085 original size:49 final size:49
Alignment explanation
Indices: 25733927--25734100 Score: 149
Period size: 49 Copynumber: 3.6 Consensus size: 49
25733917 GATAAGATAC
* * * * * * *
25733927 CGATGCCATGTCCCTGACATGGTCTTACACT-A-GCTAACACATCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTAACTCTCATATATCGAGGT
* *
25733975 CGATGCCATGTCCCAGATAGGTCTTACACTAACTTTCATATATCGAGG-
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAGGT
* ** ** * *
25734023 CTAATGCTGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTG-GTGT
1 C-GATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAG-GT
25734073 CGATGCCATGTCCCAGACAGGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
25734101 TTGACACACA
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
47 11 0.11
48 20 0.20
49 68 0.68
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAGGT
Found at i:25735842 original size:18 final size:19
Alignment explanation
Indices: 25735821--25735856 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25735811 AATAAAGAAA
*
25735821 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
25735839 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
25735857 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:25737242 original size:29 final size:29
Alignment explanation
Indices: 25737200--25737331 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
25737190 AAAATTGTAC
25737200 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
25737229 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
25737258 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
25737288 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
25737317 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25737332 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:25737296 original size:59 final size:58
Alignment explanation
Indices: 25737200--25737331 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
25737190 AAAATTGTAC
25737200 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
25737258 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
25737317 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25737332 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:25737320 original size:88 final size:89
Alignment explanation
Indices: 25737170--25737331 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
25737160 GACAAGATTG
* * *
25737170 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
25737235 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
25737259 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
25737323 AAGTGTGCG
66 AAGTGTGCG
25737332 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:25743584 original size:18 final size:19
Alignment explanation
Indices: 25743563--25743598 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25743553 AATAAAGAAA
*
25743563 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
25743581 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
25743599 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:25744986 original size:29 final size:29
Alignment explanation
Indices: 25744944--25745075 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
25744934 AAAATTGTAC
25744944 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
25744973 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
25745002 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
25745032 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
25745061 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25745076 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:25745040 original size:59 final size:58
Alignment explanation
Indices: 25744944--25745075 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
25744934 AAAATTGTAC
25744944 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
25745002 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
25745061 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25745076 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:25745064 original size:88 final size:89
Alignment explanation
Indices: 25744914--25745075 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
25744904 GACAAGATTG
* * *
25744914 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
25744979 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
25745003 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
25745067 AAGTGTGCG
66 AAGTGTGCG
25745076 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:25746784 original size:68 final size:68
Alignment explanation
Indices: 25746712--25746863 Score: 186
Period size: 67 Copynumber: 2.2 Consensus size: 68
25746702 CATCATGTGT
** * *
25746712 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCA
25746775 TGTAG
64 TGTAG
* * *
25746780 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCATGGTTCTAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCATGATACTA-GTGAAGGACACCAT
25746843 GTAG
65 GTAG
25746847 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
25746864 TAAACTGGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCATG
TAG
Found at i:25756896 original size:13 final size:13
Alignment explanation
Indices: 25756878--25756902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25756868 ACTATCTGAC
25756878 TTAGGTCACACAG
1 TTAGGTCACACAG
25756891 TTAGGTCACACA
1 TTAGGTCACACA
25756903 CTTGTATGCT
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
TTAGGTCACACAG
Found at i:25758714 original size:51 final size:49
Alignment explanation
Indices: 25758591--25758730 Score: 156
Period size: 51 Copynumber: 2.8 Consensus size: 49
25758581 AAGCTATCTG
* * * *
25758591 GTACGCATAGTAGCTTGCACTTAGTACTACATATGCGACCAATTATTCG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTCA
* * * * *
25758640 GTACACGTAGTAGGCTGCACTTAGTACTACACACGTGATCGAAGTTA-TCAA
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATTC-A
*
25758691 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
25758731 TCACAATATA
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
49 31 0.42
50 6 0.08
51 36 0.49
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (49 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTCA
Found at i:25762029 original size:17 final size:16
Alignment explanation
Indices: 25761998--25762031 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
25761988 AAATATTATG
25761998 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
25762014 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
25762031 A
1 A
25762032 TGCCATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:25775676 original size:41 final size:41
Alignment explanation
Indices: 25775631--25775748 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
25775621 TGAAAGATAA
25775631 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
25775672 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
25775702 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
25775743 ATGTAG
1 ATGTAG
25775749 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:25775687 original size:71 final size:71
Alignment explanation
Indices: 25775599--25775762 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
25775589 CGAGATGTAT
25775599 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
25775664 AGGACA
66 AGGACA
25775670 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
25775735 AGGACA
66 AGGACA
25775741 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
25775763 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:25779727 original size:27 final size:26
Alignment explanation
Indices: 25779679--25779738 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
25779669 GCGAGGCTGC
*
25779679 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
25779706 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
25779732 CAAATAT
1 CAGATAT
25779739 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25781732 original size:29 final size:30
Alignment explanation
Indices: 25781688--25781747 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
25781678 TTCCTGAGCC
25781688 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
25781718 TAGGGG-AAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
25781747 T
1 T
25781748 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:25783090 original size:95 final size:94
Alignment explanation
Indices: 25782923--25783117 Score: 381
Period size: 95 Copynumber: 2.1 Consensus size: 94
25782913 GTGGTGAAAA
25782923 TGATTTGTGATATGTATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGGGTGAATTAGCAA
1 TGATTTGTGATATGTATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGGGTGAATTAGCAA
25782988 TAAAACTATTTTGGACAGTATCAGTGACG
66 TAAAACTATTTTGGACAGTATCAGTGACG
25783017 TGATATTGTGATATGTATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGGGTGAATTAGCA
1 TGAT-TTGTGATATGTATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGGGTGAATTAGCA
25783082 ATAAAACTATTTTGGACAGTATCAGTGACG
65 ATAAAACTATTTTGGACAGTATCAGTGACG
25783112 TGATTT
1 TGATTT
25783118 TGAAAAAATC
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 6 0.06
95 94 0.94
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (94 bp):
TGATTTGTGATATGTATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGGGTGAATTAGCAA
TAAAACTATTTTGGACAGTATCAGTGACG
Found at i:25800327 original size:81 final size:81
Alignment explanation
Indices: 25800188--25800373 Score: 345
Period size: 81 Copynumber: 2.3 Consensus size: 81
25800178 ATATTCTATC
* *
25800188 ATCTTATTCATTCATACTTATGTATTGATAGAATTTAAGATTTAGGATTTGAATCATGATGCTGG
1 ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
25800253 TTTTGATGAAGTTGCA
66 TTTTGATGAAGTTGCA
25800269 ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
1 ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
25800334 TTTTGATGAAGTTGCA
66 TTTTGATGAAGTTGCA
*
25800350 ATCTTATTCATTCATACTAATGTA
1 ATCTTATTCATTCATACTTATGTA
25800374 CTGTCAATAT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (81 bp):
ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
TTTTGATGAAGTTGCA
Found at i:25802906 original size:37 final size:37
Alignment explanation
Indices: 25802848--25803029 Score: 310
Period size: 37 Copynumber: 4.9 Consensus size: 37
25802838 GCTCAGACGA
* * * *
25802848 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25802885 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25802922 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
25802959 AATCTCCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
25802996 AATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25803030 ATATATTTCC
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 138 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:25803243 original size:46 final size:46
Alignment explanation
Indices: 25803175--25803408 Score: 137
Period size: 47 Copynumber: 5.0 Consensus size: 46
25803165 TATATGTACA
* * *
25803175 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
25803221 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * * *
25803266 -AT-TCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
25803316 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
25803362 GCATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 -CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATAT
25803409 ATATATACAG
Statistics
Matches: 162, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 4 0.02
46 40 0.25
47 102 0.63
48 2 0.01
49 6 0.04
51 2 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:25803301 original size:47 final size:47
Alignment explanation
Indices: 25803239--25803627 Score: 535
Period size: 47 Copynumber: 8.1 Consensus size: 47
25803229 ACACGTTTCG
* * * **
25803239 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
25803286 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25803333 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
** *
25803380 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAC------ATACGCATGTTCACATTCATCA
** **
25803433 CATTGGCCATTCGGCCTTATCACACACATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACAC--ATACGCATGTTCACATTCATCA
*
25803484 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25803531 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
25803578 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25803625 CAT
1 CAT
25803628 AAAATCCTAA
Statistics
Matches: 316, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
47 224 0.71
49 5 0.02
51 43 0.14
53 39 0.12
55 5 0.02
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:25803572 original size:198 final size:194
Alignment explanation
Indices: 25803239--25803605 Score: 626
Period size: 198 Copynumber: 1.9 Consensus size: 194
25803229 ACACGTTTCG
* *
25803239 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
25803304 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
25803369 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
* *
25803433 CATTGGCCATTCGGCCTTATCACACACATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTAGCCATTCGGCC-T-T-AC-CACATATATACAGGTTCACATTCATCACATTGGCCATTCGG
25803498 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
62 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
25803563 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
127 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
25803606 CGCATGTTCA
Statistics
Matches: 161, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
194 15 0.09
195 1 0.01
196 1 0.01
197 2 0.01
198 142 0.88
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (194 bp):
CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
Found at i:25811689 original size:29 final size:27
Alignment explanation
Indices: 25811656--25811726 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
25811646 ATAGTGAATC
*
25811656 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA--TAATCAACT
25811685 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
25811712 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25811727 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 23 0.56
29 18 0.44
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:25819656 original size:28 final size:28
Alignment explanation
Indices: 25819589--25819660 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
25819579 ATAGTGAATC
*
25819589 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
25819618 CGCACACTTAGTGCTATA-TAATCAAGCT
1 CGCACACTTAGTGCTATAGTAATCAA-CT
25819646 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25819661 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 6 0.15
28 17 0.41
29 18 0.44
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:25822486 original size:20 final size:20
Alignment explanation
Indices: 25822433--25822515 Score: 94
Period size: 20 Copynumber: 4.0 Consensus size: 20
25822423 TCGAAATGCT
*
25822433 AACAGAGGCACTGTAGTGCAA
1 AACAGAGGCACTGAAGTGC-A
* *
25822454 ATATAGAGACACTGAAGTGCA
1 A-ACAGAGGCACTGAAGTGCA
* *
25822475 AACAGAGGCACTAAAATGCA
1 AACAGAGGCACTGAAGTGCA
*
25822495 AACAAAGGCACTGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
25822515 A
1 A
25822516 TCCTGTACAA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
20 33 0.65
21 3 0.06
22 15 0.29
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (20 bp):
AACAGAGGCACTGAAGTGCA
Found at i:25822495 original size:42 final size:40
Alignment explanation
Indices: 25822433--25822515 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
25822423 TCGAAATGCT
** * *
25822433 AACAGAGGCACTGTAGTGCAAATATAGAGACACTGAAGTGCA
1 AACAGAGGCACTAAAATGCAAACA-A-AGACACTGAAGTGCA
*
25822475 AACAGAGGCACTAAAATGCAAACAAAGGCACTGAAGTGCA
1 AACAGAGGCACTAAAATGCAAACAAAGACACTGAAGTGCA
25822515 A
1 A
25822516 TCCTGTACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 15 0.42
41 1 0.03
42 20 0.56
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (40 bp):
AACAGAGGCACTAAAATGCAAACAAAGACACTGAAGTGCA
Found at i:25830692 original size:69 final size:70
Alignment explanation
Indices: 25830560--25830692 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
25830550 TAGTTTATTA
* * * *
25830560 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCCGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCCGTCCAAATTAGGACAAAATCATGGTA
25830625 CTTAG
66 CTTAG
*
25830630 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCCGTCCAAATTAGGACAAAATCATGGT
25830693 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCCGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:25831893 original size:48 final size:48
Alignment explanation
Indices: 25831822--25832015 Score: 307
Period size: 48 Copynumber: 4.0 Consensus size: 48
25831812 CAAGATAAAT
* *
25831822 ATATGTATATGTGGTAAGGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25831870 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
25831918 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTTAAATACGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
25831966 ATACGTATACGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25832014 AT
1 AT
25832016 GTGTGTATAT
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25832264 original size:37 final size:37
Alignment explanation
Indices: 25832156--25832264 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
25832146 GGAAATATAT
*
25832156 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
25832193 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
25832230 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
25832265 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:25841637 original size:29 final size:28
Alignment explanation
Indices: 25841602--25841704 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
25841592 GTGACGAGAT
* *
25841602 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
*
25841631 GGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
25841660 TGGCACTAAGTGTCCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
25841689 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25841705 TGATCGATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:25850696 original size:43 final size:43
Alignment explanation
Indices: 25850631--25850781 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
25850621 TCTGTGACAT
* *
25850631 CGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-ATTTA
* **
25850674 CGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-AATTT-
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTAT-TGAATTTA
* * *
25850716 CGTGTAAGACCCTTTCTGGGACAGAGGCATCGATATTGAA-TTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTTA
* *
25850759 CATGTAAGACCACGTCTGGGACA
1 CGTGTAAGACCATGTCTGGGACA
25850782 TCGGCATTGT
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 30 0.34
43 55 0.62
44 3 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTTA
Found at i:25850734 original size:42 final size:42
Alignment explanation
Indices: 25850630--25850797 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
25850620 GTCTGTGACA
* * *
25850630 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCGTATTGA-ATT
* * *
25850672 TACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-AATT
1 T-CGTGTAAGACCCTGTCTGGGACATAGGCATCGTAT-TGAATT
* *
25850715 TCGTGTAAGACCCTTTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCG-TATTGAATT
* * * *
25850758 ACATGTAAGACCAC-GTCTGGGACATCGGCATTGTACTTGA
1 TCGTGTAAGACC-CTGTCTGGGACATAGGCATCGTA-TTGA
25850798 TTATGAGCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
42 31 0.30
43 67 0.65
44 4 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCCTGTCTGGGACATAGGCATCGTATTGAATT
Found at i:25850776 original size:85 final size:85
Alignment explanation
Indices: 25850630--25850788 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 85
25850620 GTCTGTGACA
* * * *
25850630 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
*
25850695 CATTGGCATCGTATCTAATT
66 CATCGGCATCGTATCTAATT
* * *
25850715 TCGTGTAAGACCCTTTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTGG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCTGG
25850778 GACATCGGCAT
64 GACATCGGCAT
25850789 TGTACTTGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 58 0.91
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGGCATCGTATCTAATT
Found at i:25856002 original size:16 final size:15
Alignment explanation
Indices: 25855976--25856005 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25855966 GCTAGATCGG
25855976 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
25855991 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
25856006 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:25856287 original size:28 final size:28
Alignment explanation
Indices: 25856255--25856319 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
25856245 ATGTACTAGA
*
25856255 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
25856283 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
25856311 ATACCCCTA
1 ATACCCCTA
25856320 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:25856466 original size:28 final size:27
Alignment explanation
Indices: 25856425--25856514 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
25856415 AGGAAGCATC
25856425 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
25856453 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
25856480 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
25856509 CTGGTG
1 CTGGTG
25856515 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:25856483 original size:27 final size:28
Alignment explanation
Indices: 25856437--25856514 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
25856427 GGTGGCTATG
* * *
25856437 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGGCACTA
**
25856465 CCAC-GTATATCTGTTCTGGTGGCACTA
1 CCACAAAATATCTGTTCTGGTGGCACTA
25856492 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
25856515 ACTCTGTCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 22 0.54
28 12 0.29
29 7 0.17
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTA
Found at i:25864121 original size:28 final size:28
Alignment explanation
Indices: 25864089--25864153 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
25864079 ATGTACTAGA
*
25864089 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
25864117 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
25864145 ATACCCCTA
1 ATACCCCTA
25864154 GGGTTAATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:25864300 original size:28 final size:27
Alignment explanation
Indices: 25864259--25864348 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
25864249 AGGAAGTGTC
25864259 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
25864287 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
25864314 CTGATGGCACTGCCACAAAATATCTGTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
25864343 CTGGTG
1 CTGGTG
25864349 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:25864359 original size:29 final size:28
Alignment explanation
Indices: 25864269--25864359 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
25864259 CTGGTGGCTA
* * * *
25864269 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGATGACAC
** *
25864297 TGCCAC-GTATATCTGTTCTGATGGCAC
1 TGCCACAAAATATCTGTTCTGATGACAC
* *
25864324 TGCCACAAAATATCTGTGTCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGATGACAC
*
25864353 TGTCACA
1 TGCCACA
25864360 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 14 0.28
29 14 0.28
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGATGACAC
Found at i:25872659 original size:21 final size:21
Alignment explanation
Indices: 25872633--25872679 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
25872623 TCACACGCCT
*
25872633 GTGTGACTTTGGGACATGCCC
1 GTGTGACTTTAGGACATGCCC
25872654 GTGTGACTTTAGGACATGCCC
1 GTGTGACTTTAGGACATGCCC
25872675 GTGTG
1 GTGTG
25872680 GGTAGGTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGTGACTTTAGGACATGCCC
Found at i:25883700 original size:25 final size:25
Alignment explanation
Indices: 25883671--25883721 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25883661 AAATTTATAC
25883671 ATGCTTGATATGGTGAAAAAGTTCT
1 ATGCTTGATATGGTGAAAAAGTTCT
25883696 ATGCTTGATATGGTGAAAAAGTTCT
1 ATGCTTGATATGGTGAAAAAGTTCT
25883721 A
1 A
25883722 AGTCCCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (25 bp):
ATGCTTGATATGGTGAAAAAGTTCT
Found at i:25892731 original size:19 final size:19
Alignment explanation
Indices: 25892707--25892746 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
25892697 AGCTAGCTGA
25892707 GTTGTATATTTTTGATATT
1 GTTGTATATTTTTGATATT
25892726 GTTGTATATTTTTGATATT
1 GTTGTATATTTTTGATATT
25892745 GT
1 GT
25892747 GAGATTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.62
Consensus pattern (19 bp):
GTTGTATATTTTTGATATT
Found at i:25894834 original size:32 final size:32
Alignment explanation
Indices: 25894798--25894866 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
25894788 TTGGAGTAAA
25894798 GTATGATAATATGTTAATATCTGAAAAACTCT
1 GTATGATAATATGTTAATATCTGAAAAACTCT
25894830 GTATGATAATATGTTAATATCTGAAAAACTCT
1 GTATGATAATATGTTAATATCTGAAAAACTCT
25894862 GTATG
1 GTATG
25894867 TTCCTAAGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (32 bp):
GTATGATAATATGTTAATATCTGAAAAACTCT
Found at i:25895003 original size:42 final size:42
Alignment explanation
Indices: 25894899--25895044 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 42
25894889 GTCTGTGACA
* *
25894899 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
* **
25894941 TACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-A-ATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-AT-TGAGATT
* * * *
25894984 TCGTGTAAGACCCTTTCTGGGACAGAGGCGTCGATATTGA-ATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG--ATTGAGATT
* * *
25895027 ACATGTAAGACCACGTCT
1 TCGTGTAAGACCATGTCT
25895045 AGAACGTCGG
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.34
43 51 0.61
44 3 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
Found at i:25895057 original size:85 final size:85
Alignment explanation
Indices: 25894899--25895057 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
25894889 GTCTGTGACA
* * * * *
25894899 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCACGTCTAGAA
*
25894964 CATTGGCATCGTATCTAATT
66 CATCGGCATCGTATCTAATT
* * * *
25894984 TCGTGTAAGACCCTTTCTGGGACAGAGGCGTCGATATTGA-A-TTACATGTAAGACCACGTCTAG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCCTCG--ATTGAGATTTACATATAAGACCACGTCTAG
*
25895047 AACGTCGGCAT
64 AACATCGGCAT
25895058 TGTACTTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCACGTCTAGAA
CATCGGCATCGTATCTAATT
Found at i:25909387 original size:18 final size:19
Alignment explanation
Indices: 25909352--25909389 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25909342 TAAAGTAGAG
25909352 ATAGAATCCCCCCTTTTTA
1 ATAGAATCCCCCCTTTTTA
25909371 ATAGAATCCCCCCTTTTTA
1 ATAGAATCCCCCCTTTTTA
25909390 TTTATTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
ATAGAATCCCCCCTTTTTA
Found at i:25911026 original size:16 final size:16
Alignment explanation
Indices: 25911001--25911032 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25910991 AAGATAACTT
*
25911001 ACAATTTAATCACAAA
1 ACAATCTAATCACAAA
25911017 ACAATCTAATCACAAA
1 ACAATCTAATCACAAA
25911033 TCAGGTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (16 bp):
ACAATCTAATCACAAA
Found at i:25911418 original size:25 final size:25
Alignment explanation
Indices: 25911390--25911446 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
25911380 TGTTTACACA
* *
25911390 AGCTGTGAATCGGTATGCTATCATG
1 AGCTGTGAATCAGTATGCTATCACG
* *
25911415 AGCTGTAAATCAGTATGCTCTCACG
1 AGCTGTGAATCAGTATGCTATCACG
25911440 AGCTGTG
1 AGCTGTG
25911447 GGCCAGAACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (25 bp):
AGCTGTGAATCAGTATGCTATCACG
Found at i:25927559 original size:40 final size:40
Alignment explanation
Indices: 25927514--25927681 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
25927504 CGGAATATAA
25927514 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25927554 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
25927594 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25927634 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
25927674 CCGGATAT
1 CCGGATAT
25927682 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25935573 original size:40 final size:40
Alignment explanation
Indices: 25935528--25935695 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
25935518 CGGAATATAA
25935528 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25935568 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25935608 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25935648 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
25935688 CCGGATAT
1 CCGGATAT
25935696 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25935678 original size:80 final size:80
Alignment explanation
Indices: 25935544--25935693 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
25935534 ATAATCACGT
*
25935544 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
25935608 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
25935624 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
25935687 CCCGGAT
64 CCCGGAT
25935694 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:25950778 original size:39 final size:39
Alignment explanation
Indices: 25950720--25950981 Score: 332
Period size: 39 Copynumber: 6.7 Consensus size: 39
25950710 TTCCAACACA
25950720 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
25950759 AATACCTTCGGGAGTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * * *
25950798 AATACCTTAGCGATTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
25950837 AATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
** * * *
25950876 AATGCCTTCAAGACTTAGCCCAGACATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
25950915 AATGCCTTCGGGACATAGCCCGGATATAA-ATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAACA-C-CAGCACG
* * * *
25950953 AAGGCCTGCGGGTCTTAGCCCGGTTATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
25950982 TCCTCAATAT
Statistics
Matches: 195, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
38 25 0.13
39 168 0.86
40 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:25958843 original size:39 final size:39
Alignment explanation
Indices: 25958782--25958962 Score: 281
Period size: 39 Copynumber: 4.6 Consensus size: 39
25958772 AACACAAATG
* *
25958782 CCTTCGGGACATAGCCCAGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
25958821 CCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
25958860 CCTTCTGGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * * *
25958899 CCTTCGGGACTTAGCCCGGACATAACACTAGCATGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
25958938 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
25958963 ATCTCACACA
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:25967592 original size:40 final size:40
Alignment explanation
Indices: 25967547--25967714 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
25967537 CGGAATATAA
25967547 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25967587 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25967627 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
25967667 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25967707 CCGGATAT
1 CCGGATAT
25967715 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25974373 original size:36 final size:35
Alignment explanation
Indices: 25974250--25974391 Score: 167
Period size: 35 Copynumber: 4.0 Consensus size: 35
25974240 ACTCTTTGTT
* *
25974250 TTGGTGTGTTTCAGTTGAACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
* * * * *
25974285 TTAGTGTGTTTCGGAGGGATTAGCTCTTTTGAGCA
1 TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
* * * *
25974320 CTGGTGTGTTTCGGATGGATTAGCTCTTATGACCA
1 TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
*
25974355 TTTGGTATGTTTCAGATGGACTAGCTCTTATGAGCA
1 -TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
25974391 T
1 T
25974392 CCGTTGTGTT
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 59 0.66
36 30 0.34
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
Found at i:25974580 original size:3 final size:3
Alignment explanation
Indices: 25974572--25974596 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25974562 TTCATGGTTG
25974572 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
25974597 TGATTCGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25977482 original size:40 final size:40
Alignment explanation
Indices: 25977398--25977615 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
25977388 TGGATGATAA
* *
25977398 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-TTTGCGCGAGTTACTA-TAT
* * *
25977439 CCGGGCTAAGTCCCGAAGGCATTTGCACGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
25977479 CCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
25977519 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
25977559 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
* *
25977598 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25977616 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 15 0.09
39 16 0.10
40 106 0.67
41 21 0.13
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:25987522 original size:17 final size:18
Alignment explanation
Indices: 25987490--25987523 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25987480 AAGGAATGTC
*
25987490 TTTTTTTCTTTATTTAAT
1 TTTTTTTATTTATTTAAT
25987508 TTTTTTTATTT-TTTAA
1 TTTTTTTATTTATTTAA
25987524 AATTTACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTATTTATTTAAT
Found at i:25996554 original size:22 final size:20
Alignment explanation
Indices: 25996528--25996580 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
25996518 AGCTACCAAA
25996528 CTTCTCTTCTTCTTTTTCCCTT
1 CTTCTCTTCTTC-TTTT-CCTT
*
25996550 CTTCTCCGTTTTTCTTTTCCTT
1 CTTCT-C-TTCTTCTTTTCCTT
25996572 CATTCTCTT
1 C-TTCTCTT
25996581 ATTTTTCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 2 0.07
22 11 0.41
23 9 0.33
24 5 0.19
ACGTcount: A:0.02, C:0.34, G:0.02, T:0.62
Consensus pattern (20 bp):
CTTCTCTTCTTCTTTTCCTT
Found at i:25997663 original size:40 final size:40
Alignment explanation
Indices: 25997603--25997680 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
25997593 GGTACTTTAT
* *
25997603 GGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATATAC
1 GGTGTGCAGGGATGGATGGGTCGATTATATCCCCATATAC
* *
25997643 GGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCATAT
1 GGTGTGCAGGGATGGATGGGTCGATTATATCCCCATAT
25997681 GGTGTGTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (40 bp):
GGTGTGCAGGGATGGATGGGTCGATTATATCCCCATATAC
Found at i:26012526 original size:19 final size:19
Alignment explanation
Indices: 26012479--26012517 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26012469 ACTCGAAAGT
26012479 ATTCAGAATTTATTTTTTA
1 ATTCAGAATTTATTTTTTA
26012498 ATTCAGAATTTATTTTTTA
1 ATTCAGAATTTATTTTTTA
26012517 A
1 A
26012518 GTATAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTCAGAATTTATTTTTTA
Found at i:26018931 original size:42 final size:43
Alignment explanation
Indices: 26018874--26018956 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
26018864 TATGATTTAT
*
26018874 GTGTAAGACGATGTCTAGGACA-TCCGCATC-ATATTTGATTTC
1 GTGTAAGACGATGTCTAGGACAGT-AGCATCGATATTTGATTTC
*
26018916 GTGTAAGATCG-TGTCTGGGACAGTAGCATCGATATTTGATT
1 GTGTAAGA-CGATGTCTAGGACAGTAGCATCGATATTTGATT
26018957 ACATGTTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 23 0.64
43 13 0.36
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
GTGTAAGACGATGTCTAGGACAGTAGCATCGATATTTGATTTC
Found at i:26020137 original size:40 final size:40
Alignment explanation
Indices: 26020078--26020325 Score: 257
Period size: 40 Copynumber: 6.2 Consensus size: 40
26020068 CAATTGAATG
* * * * **
26020078 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * *
26020118 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
* *
26020158 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * *
26020198 AAATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * *
26020238 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * *
26020278 CTATTCGGGCTAAGACCCGAAGGCATTCGTGC-ATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTTGTT
26020318 ATATCCGG
1 ATATCCGG
26020326 TCGTATTCCG
Statistics
Matches: 176, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 173 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:26020296 original size:120 final size:119
Alignment explanation
Indices: 26020083--26020309 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 119
26020073 GAATGATATC
* * * * *
26020083 CGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGT
1 CGGGCTAAGACCCGAAGACATTCATGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAATTGT
*
26020148 GCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATT
66 GCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATT
* * ** * *
26020203 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGACATTCATGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAATTGT
* *
26020268 GCAAGTCGTTCT-ATTCGGGCTAAGACCCGAAGGCATTCGTGC
66 GCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGC
26020310 ATGTGGTTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
120 88 0.97
121 1 0.01
122 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
CGGGCTAAGACCCGAAGACATTCATGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAATTGT
GCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATT
Found at i:26027463 original size:40 final size:40
Alignment explanation
Indices: 26027231--26027475 Score: 267
Period size: 40 Copynumber: 6.1 Consensus size: 40
26027221 CAATTGAATG
* * * ** **
26027231 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
* * *
26027271 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGTCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGT-T
* * * *
26027311 ACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
* * *
26027351 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
* * *
26027391 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
* * *
26027431 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
26027471 ATATC
1 ATATC
26027476 TGGTCGTATT
Statistics
Matches: 177, Mismatches: 26, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 173 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
Found at i:26029280 original size:28 final size:28
Alignment explanation
Indices: 26029248--26029306 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
26029238 CAATTTGCTA
26029248 AGTTTTGGTATTATTTAATTGAGAAATT
1 AGTTTTGGTATTATTTAATTGAGAAATT
*
26029276 AGTTTTGGTATTGTTTAATTGAGAAATT
1 AGTTTTGGTATTATTTAATTGAGAAATT
26029304 AGT
1 AGT
26029307 AAGATTATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (28 bp):
AGTTTTGGTATTATTTAATTGAGAAATT
Found at i:26033223 original size:13 final size:14
Alignment explanation
Indices: 26033204--26033243 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
26033194 GTAGTCTTAA
26033204 AATAAACTAAAAGT
1 AATAAACTAAAAGT
26033218 AA-AAACATAAAA-T
1 AATAAAC-TAAAAGT
26033231 AATAAA-TAAAAGT
1 AATAAACTAAAAGT
26033244 TTTTAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 5 0.22
13 8 0.35
14 10 0.43
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (14 bp):
AATAAACTAAAAGT
Found at i:26036814 original size:27 final size:28
Alignment explanation
Indices: 26036754--26036826 Score: 121
Period size: 27 Copynumber: 2.6 Consensus size: 28
26036744 TTAAAATTTG
**
26036754 TATAGCACTAAGTGTGCGAATTTGATTA
1 TATAGCACTAAGTGTGCGAAGCTGATTA
26036782 TATAGCACTAAGTGTGCG-AGCTGATTA
1 TATAGCACTAAGTGTGCGAAGCTGATTA
26036809 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
26036827 GACTCACTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAAGCTGATTA
Found at i:26040905 original size:20 final size:20
Alignment explanation
Indices: 26040873--26040920 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
26040863 ATGTAGTTAC
*
26040873 ACACGCCCGTGTGGCTTGGG
1 ACACGCTCGTGTGGCTTGGG
*
26040893 ACATGCTCGTGTGGCTTGGG
1 ACACGCTCGTGTGGCTTGGG
26040913 ACACGCTC
1 ACACGCTC
26040921 ATGTCCTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.29, G:0.35, T:0.23
Consensus pattern (20 bp):
ACACGCTCGTGTGGCTTGGG
Found at i:26044408 original size:65 final size:65
Alignment explanation
Indices: 26044304--26044431 Score: 238
Period size: 65 Copynumber: 2.0 Consensus size: 65
26044294 CCCATGCATA
* *
26044304 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTTAGGTCAACCTTATC
1 AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATC
26044369 AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
1 AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
26044432 ACCCTAGGGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (65 bp):
AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATC
Found at i:26048521 original size:65 final size:65
Alignment explanation
Indices: 26048417--26048544 Score: 238
Period size: 65 Copynumber: 2.0 Consensus size: 65
26048407 CCCATGCATA
*
26048417 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTATC
1 AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTATC
*
26048482 AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
1 AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTA
26048545 ACCCTAGGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (65 bp):
AGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTATC
Found at i:26048603 original size:27 final size:26
Alignment explanation
Indices: 26048547--26048603 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
26048537 CAACCTTAAC
* * *
26048547 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
26048573 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
26048600 CCTA
1 CCTA
26048604 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:26048868 original size:11 final size:11
Alignment explanation
Indices: 26048852--26048877 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26048842 TTACTGCCTA
26048852 TTTTTTATTAT
1 TTTTTTATTAT
26048863 TTTTTTATTAT
1 TTTTTTATTAT
26048874 TTTT
1 TTTT
26048878 ATTTATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:26054960 original size:40 final size:40
Alignment explanation
Indices: 26054905--26055086 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
26054895 TATTCGAATG
26054905 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
26054945 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
26054985 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
26055025 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
26055065 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
26055087 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.11
40 114 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:26062140 original size:25 final size:25
Alignment explanation
Indices: 26062098--26062146 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
26062088 CTTTATTATT
* *
26062098 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
26062123 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
26062147 GGTCCTCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:26068956 original size:40 final size:41
Alignment explanation
Indices: 26068893--26068986 Score: 140
Period size: 40 Copynumber: 2.3 Consensus size: 41
26068883 CTATGTTCGG
*
26068893 CACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTATAA-ATGA
1 CACTAAGTGTGCGAGATCGAAATAGCTTCGGCTATAAGA-GA
*
26068933 CACTAAGTGTGCGAGAT-GGAATAGCTTCGGCTATAAGAGA
1 CACTAAGTGTGCGAGATCGAAATAGCTTCGGCTATAAGAGA
26068973 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
26068987 TACTGAGATA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 47 0.94
41 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (41 bp):
CACTAAGTGTGCGAGATCGAAATAGCTTCGGCTATAAGAGA
Found at i:26071196 original size:27 final size:27
Alignment explanation
Indices: 26071161--26071273 Score: 124
Period size: 27 Copynumber: 4.1 Consensus size: 27
26071151 AGCATGGCTG
* *
26071161 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
**
26071187 CTGGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
26071215 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
26071242 CCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
26071270 CCAG
1 CCAG
26071274 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 4 0.05
27 39 0.53
28 31 0.42
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:26071269 original size:55 final size:54
Alignment explanation
Indices: 26071161--26071273 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
26071151 AGCATGGCTG
* **
26071161 CCAGAACAGATAATGTGACAGAGTCACTGGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
26071215 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAGCCA
26071270 CCAG
1 CCAG
26071274 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:26076017 original size:34 final size:35
Alignment explanation
Indices: 26075958--26076026 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
26075948 TCGGCTATGG
* *
26075958 AGAAAAGAAGAGGAGAAGGTAGATGG-AGAGAAAA
1 AGAAAAGAAGAGAAGAAGGAAGATGGCAGAGAAAA
26075992 AGAAAAGAA-AGAAGAAGGAAGGATGGTCAGAGAAA
1 AGAAAAGAAGAGAAGAAGGAA-GATGG-CAGAGAAA
26076027 CGGCACAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 9 0.30
34 14 0.47
36 7 0.23
ACGTcount: A:0.57, C:0.01, G:0.36, T:0.06
Consensus pattern (35 bp):
AGAAAAGAAGAGAAGAAGGAAGATGGCAGAGAAAA
Found at i:26078579 original size:39 final size:39
Alignment explanation
Indices: 26078525--26078631 Score: 180
Period size: 39 Copynumber: 2.7 Consensus size: 39
26078515 TGTTCGGGTA
*
26078525 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
26078564 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
26078603 ATATCCGGGTTAAGTCCCGAAGGC-ATTGT
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGT
26078632 ACGGGCTACC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 56 0.86
40 9 0.14
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:26085807 original size:27 final size:27
Alignment explanation
Indices: 26085772--26085884 Score: 124
Period size: 27 Copynumber: 4.1 Consensus size: 27
26085762 AGCATGGCTG
* *
26085772 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
**
26085798 CTGGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
26085826 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
26085853 CCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
26085881 CCAG
1 CCAG
26085885 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 4 0.05
27 39 0.53
28 31 0.42
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:26085880 original size:55 final size:54
Alignment explanation
Indices: 26085772--26085884 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
26085762 AGCATGGCTG
* **
26085772 CCAGAACAGATAATGTGACAGAGTCACTGGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
26085826 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAGCCA
26085881 CCAG
1 CCAG
26085885 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:26087175 original size:34 final size:35
Alignment explanation
Indices: 26087116--26087184 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
26087106 TCGGCTATGG
* *
26087116 AGAAAAGAAGAGGAGAAGGTAGATGG-AGAGAAAA
1 AGAAAAGAAGAGAAGAAGGAAGATGGCAGAGAAAA
26087150 AGAAAAGAA-AGAAGAAGGAAGGATGGTCAGAGAAA
1 AGAAAAGAAGAGAAGAAGGAA-GATGG-CAGAGAAA
26087185 TGGCACAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 9 0.30
34 14 0.47
36 7 0.23
ACGTcount: A:0.57, C:0.01, G:0.36, T:0.06
Consensus pattern (35 bp):
AGAAAAGAAGAGAAGAAGGAAGATGGCAGAGAAAA
Found at i:26089472 original size:25 final size:25
Alignment explanation
Indices: 26089430--26089478 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
26089420 CTTTATTATT
* *
26089430 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
26089455 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
26089479 GGTCCTCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:26099492 original size:26 final size:26
Alignment explanation
Indices: 26099463--26099512 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
26099453 TTCACTTCTT
26099463 ATTTCAATATC-TCAATTTCA-TTTCAC
1 ATTTCAAT-TCAT-AATTTCACTTTCAC
26099489 ATTTCAATTCATAATTTCACTTTC
1 ATTTCAATTCATAATTTCACTTTC
26099513 TCATACTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTCAATTCATAATTTCACTTTCAC
Found at i:26099898 original size:42 final size:42
Alignment explanation
Indices: 26099843--26099965 Score: 212
Period size: 42 Copynumber: 3.0 Consensus size: 42
26099833 TCAGTATACA
* *
26099843 ACACAT-AAGTGCCTGAAATGACACACGAGGTGCCTGAAACG
1 ACACATGAGGTGCCTGATATGACACACGAGGTGCCTGAAACG
*
26099884 ACACATGAGGTGCCTGATATGACACACGAGGTGCCTGATACG
1 ACACATGAGGTGCCTGATATGACACACGAGGTGCCTGAAACG
26099926 ACACATGAGGTGCCTGATATGACACACGAGGTGCCTGAAA
1 ACACATGAGGTGCCTGATATGACACACGAGGTGCCTGAAA
26099966 TATGACACAT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 6 0.08
42 71 0.92
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.17
Consensus pattern (42 bp):
ACACATGAGGTGCCTGATATGACACACGAGGTGCCTGAAACG
Found at i:26099989 original size:21 final size:21
Alignment explanation
Indices: 26099843--26100010 Score: 176
Period size: 21 Copynumber: 7.9 Consensus size: 21
26099833 TCAGTATACA
* *
26099843 ACACAT-AAGTGCCTGAAATG
1 ACACATGAGGTGCCTGATATG
* * *
26099863 ACACACGAGGTGCCTGAAACG
1 ACACATGAGGTGCCTGATATG
26099884 ACACATGAGGTGCCTGATATG
1 ACACATGAGGTGCCTGATATG
* *
26099905 ACACACGAGGTGCCTGATACG
1 ACACATGAGGTGCCTGATATG
26099926 ACACATGAGGTGCCTGATATG
1 ACACATGAGGTGCCTGATATG
*
26099947 ACACACGAGGTGCCTGAAATATG
1 ACACATGAGGTGCCTG--ATATG
* * *
26099970 ACACATAAAGTGTCTGATATACG
1 ACACATGAGGTGCCTGATAT--G
* *
26099993 ACACATAAAGTGCCTGAT
1 ACACATGAGGTGCCTGAT
26100011 CAGCAAAGCT
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
20 5 0.04
21 87 0.69
23 35 0.28
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
ACACATGAGGTGCCTGATATG
Found at i:26101406 original size:2 final size:2
Alignment explanation
Indices: 26101399--26101437 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26101389 TTATGTCTTT
26101399 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26101438 TAGTTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26101465 original size:12 final size:12
Alignment explanation
Indices: 26101450--26101477 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26101440 GTTAATAATG
26101450 ATAATAATTATA
1 ATAATAATTATA
26101462 ATAATAATTATA
1 ATAATAATTATA
26101474 ATAA
1 ATAA
26101478 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:26105384 original size:42 final size:42
Alignment explanation
Indices: 26105318--26105428 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
26105308 TAAGATTCCG
* * * * * *
26105318 TATAAGACCATATCCGAGATATGGCCTCGGTAT-GTGATTTCA
1 TATAAGACCATATCGGGGACATGGCATCGATATCAT-ATTTCA
* *
26105360 TATAAGACCATGTTGGGGACATGGCATCGATATCATATTTCA
1 TATAAGACCATATCGGGGACATGGCATCGATATCATATTTCA
* *
26105402 TGTAAGACCATATCGGGGATATGGCAT
1 TATAAGACCATATCGGGGACATGGCAT
26105429 TGAAACGATA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TATAAGACCATATCGGGGACATGGCATCGATATCATATTTCA
Found at i:26109664 original size:21 final size:21
Alignment explanation
Indices: 26109638--26109692 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
26109628 ATAGCCCGAC
*
26109638 CACACGGGCGTGTCTCTAAAT
1 CACACGGGCGTGTCCCTAAAT
* * *
26109659 CACACGGGGGTGGCCCTAGAT
1 CACACGGGCGTGTCCCTAAAT
26109680 CACACGGGCGTGT
1 CACACGGGCGTGT
26109693 GGGCACAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (21 bp):
CACACGGGCGTGTCCCTAAAT
Found at i:26112053 original size:55 final size:54
Alignment explanation
Indices: 26111902--26112115 Score: 189
Period size: 54 Copynumber: 4.0 Consensus size: 54
26111892 TTACTCGGGA
* * * * * * **
26111902 ACCTTTTCCTTTTTGAACTTATCATTACCATGTCTTGACATGGTCTTATGTGGT
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGGT
* * * * * * * *
26111956 ATCATTGCCTTAT-TAACTCACCAATGCCATGCCATGGCATGGTCTTACATGGG
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGGT
* * * *
26112009 ACCTTTTCCTTATAGTACCTTATCAATGCCATGTCTTGACATGGTCTTACATGATT
1 ACCTTTGCCTTATAG-AACTTATCAATGCCATGCCTTGACATGGTCTTACATG-GT
* * *
26112065 TCC-GTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATG
26112116 ATATCTTATC
Statistics
Matches: 124, Mismatches: 33, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
53 39 0.31
54 43 0.35
55 40 0.32
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGGT
Found at i:26112108 original size:54 final size:56
Alignment explanation
Indices: 26111961--26112117 Score: 180
Period size: 55 Copynumber: 2.9 Consensus size: 56
26111951 GTGGTATCAT
* * * * *
26111961 TGCCTTAT--TAACTCACCAATGCCATGCCATGGCATGGTCTTACATG-GGACCTT
1 TGCCTTATAGTAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATGACCTG
* * * * **
26112014 TTCCTTATAGTACCTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC-G
1 TGCCTTATAGTAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATGACCTG
26112069 TGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGAT
1 TGCCTTATAGTAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGAT
26112118 ATCTTATCTT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 7 0.08
54 36 0.42
55 41 0.48
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (56 bp):
TGCCTTATAGTAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATGACCTG
Found at i:26112378 original size:44 final size:44
Alignment explanation
Indices: 26112311--26112397 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
26112301 ATATCCTTAA
** * *
26112311 CCGTCAATTCCTCTTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCGTAAATGCCATGGTA-CAACCATGGACTTTT
* *
26112355 CCGTCAATTCTTCCGTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCGTAAATGCCATGGTACAACCATGGACTTT
26112398 GAGATATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCGTAAATGCCATGGTACAACCATGGACTTTT
Found at i:26113334 original size:20 final size:20
Alignment explanation
Indices: 26113311--26113355 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
26113301 AAAAACATAA
26113311 AGAACATTAAAAAAGAGGCT
1 AGAACATTAAAAAAGAGGCT
*
26113331 AGAACATTAAAAAGGAGGCT
1 AGAACATTAAAAAAGAGGCT
26113351 AGAAC
1 AGAAC
26113356 GGACTTACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.11, G:0.22, T:0.13
Consensus pattern (20 bp):
AGAACATTAAAAAAGAGGCT
Found at i:26119643 original size:29 final size:29
Alignment explanation
Indices: 26119611--26119713 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
26119601 GTGACGAGAT
* *
26119611 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * * *
26119640 TGGCACTAAGTGTGTGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
26119669 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
26119698 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
26119714 TGATCGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:26121863 original size:53 final size:54
Alignment explanation
Indices: 26121795--26122002 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 54
26121785 TTTCCTTTTT
* * * * * *
26121795 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTCCCTTATA
* ** *
26121848 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTCCCTTATA
* * * * * *
26121902 GTAACTCATCGATGTCATGTCTTGACATGGTCTTCCATGATTTCCTTCCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTCCCTTATA
* * *
26121957 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
26122003 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 39 0.31
55 41 0.32
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTCCCTTATA
Done.