Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 158 of 198
Found at i:49881246 original size:14 final size:14
Alignment explanation
Indices: 49881204--49881255 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
49881194 AAGAATAAAT
*
49881204 AAAAAGAAAGATAG
1 AAAAAGAAAGAAAG
*
49881218 AAATGAA-ACAGAAAG
1 AAA--AAGAAAGAAAG
49881233 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
*
49881247 AAAAGGAAA
1 AAAAAGAAA
49881256 AGGAAGGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 18 0.58
15 9 0.29
16 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:49883275 original size:43 final size:42
Alignment explanation
Indices: 49883210--49883317 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
49883200 TTTTAAAAAA
* * *
49883210 GCCGCTAAAAGTCATGATCTTTAGCGATGCCTCTCCCACAAAC
1 GCCGCTAAAA-TCATGACCTTTAGCGACGCCTCTACCACAAAC
* * *
49883253 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACGACAAAC
1 GCCGCTAAA-ATCATGACCTTTAGCGACGCCTCTACCACAAAC
* *
49883296 GCCGCTAAAAACATGACTTTTA
1 GCCGCTAAAATCATGACCTTTA
49883318 AAAAATATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 11 0.20
43 44 0.79
44 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (42 bp):
GCCGCTAAAATCATGACCTTTAGCGACGCCTCTACCACAAAC
Found at i:49885860 original size:26 final size:26
Alignment explanation
Indices: 49885824--49885882 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
49885814 GGGTCGCTCT
*
49885824 TAACGCGGTGGAGACCGAATCACAGC
1 TAACGCCGTGGAGACCGAATCACAGC
*
49885850 TAACGCCGTGGAGACCGAATCGCAGC
1 TAACGCCGTGGAGACCGAATCACAGC
49885876 --ACGCCGT
1 TAACGCCGT
49885883 TCTGAGCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 7 0.23
26 24 0.77
ACGTcount: A:0.27, C:0.31, G:0.31, T:0.12
Consensus pattern (26 bp):
TAACGCCGTGGAGACCGAATCACAGC
Found at i:49886516 original size:15 final size:15
Alignment explanation
Indices: 49886498--49886531 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49886488 TAATAAATGA
49886498 AATATATATAT-AATT
1 AATATATAT-TGAATT
49886513 AATATATATTGAATT
1 AATATATATTGAATT
49886528 AATA
1 AATA
49886532 ATAATACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATATATATTGAATT
Found at i:49887283 original size:21 final size:21
Alignment explanation
Indices: 49887232--49887288 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
49887222 CACTAGTTAA
*
49887232 TCTAAACCGTAAACCATAAAC
1 TCTAAACCTTAAACCATAAAC
*
49887253 -CTAAACCCTT-AACACATAACC
1 TCTAAA-CCTTAAAC-CATAAAC
49887274 TCTAAACCTTAAACC
1 TCTAAACCTTAAACC
49887289 CCAGTCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 8 0.27
21 14 0.47
22 8 0.27
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
TCTAAACCTTAAACCATAAAC
Found at i:49887801 original size:82 final size:82
Alignment explanation
Indices: 49887709--49887902 Score: 259
Period size: 82 Copynumber: 2.4 Consensus size: 82
49887699 TATTTTTTGT
** *
49887709 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTTGAA-CATTAGCGGCG-CTTATTTAAAAACGCTGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCC-CCAAGCATTAGCGGCGCCTT-TTCAAAAACGCTGC
*
49887772 TAAAGCCCTGA-GCATTAGC
64 TAAAGCCC-CATGCATTAGC
* *
49887791 GGCGCCTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCCTTTTCGAAAACGCTGCTA
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCCTTTTCAAAAACGCTGCTA
49887856 AAGCCCCATGCATTAGC
66 AAGCCCCATGCATTAGC
* * *
49887873 GACTCTTTTTCAAAAACGCCACTAAAGCCC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCC
49887903 AAAAAACTCA
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
81 3 0.03
82 93 0.94
83 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (82 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCCTTTTCAAAAACGCTGCTA
AAGCCCCATGCATTAGC
Found at i:49887902 original size:41 final size:41
Alignment explanation
Indices: 49887709--49887902 Score: 225
Period size: 41 Copynumber: 4.7 Consensus size: 41
49887699 TATTTTTTGT
*
49887709 GGCGCTTTTTCAAAAACGCCGCTAAAG--CCTTGAACATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCATG--CATTAGC
* *
49887750 GGCGCTTATTT-AAAAACGCTGCTAAAGCCCTGA-GCATTAGC
1 GGCGCTT-TTTCAAAAACGCCGCTAAAGCCC-CATGCATTAGC
* *
49887791 GGCGCCTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCATGCATTAGC
* * *
49887832 GGCGCCTTTTCGAAAACGCTGCTAAAGCCCCATGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCATGCATTAGC
* * *
49887873 GACTCTTTTTCAAAAACGCCACTAAAGCCC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCC
49887903 AAAAAACTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
40 4 0.03
41 123 0.93
42 3 0.02
43 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCATGCATTAGC
Found at i:49888010 original size:39 final size:39
Alignment explanation
Indices: 49887962--49888112 Score: 169
Period size: 39 Copynumber: 3.8 Consensus size: 39
49887952 TTCAGAAAAT
*
49887962 GCCGCTAATGCTCATTTTTAGCATCGTTTTTTGAAAAGC
1 GCCGCTAATGCTCATTTTTAGCGTCGTTTTTTGAAAAGC
* * * *
49888001 GCCGCTAATGCTAATTTTTAGCGGCGTATTCTGAAAAGC
1 GCCGCTAATGCTCATTTTTAGCGTCGTTTTTTGAAAAGC
* *
49888040 GCCGCTAATACTCAATTTTTAGCGGT-GTTTTTTTAAAAGC
1 GCCGCTAATGCTC-ATTTTTAGC-GTCGTTTTTTGAAAAGC
* * * *
49888080 GCCGCTAATGATTGATTTTTAGCGGCATTTTTT
1 GCCGCTAATG-CTCATTTTTAGCGTCGTTTTTT
49888113 TATCCAAATG
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 46 0.50
40 44 0.48
41 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (39 bp):
GCCGCTAATGCTCATTTTTAGCGTCGTTTTTTGAAAAGC
Found at i:49888114 original size:40 final size:39
Alignment explanation
Indices: 49887962--49888112 Score: 185
Period size: 40 Copynumber: 3.8 Consensus size: 39
49887952 TTCAGAAAAT
* **
49887962 GCCGCTAATGCTCATTTTTAGCATCGTTTTTTGAAAAGC
1 GCCGCTAATGCTAATTTTTAGCGGCGTTTTTTGAAAAGC
* *
49888001 GCCGCTAATGCTAATTTTTAGCGGCGTATTCTGAAAAGC
1 GCCGCTAATGCTAATTTTTAGCGGCGTTTTTTGAAAAGC
* * *
49888040 GCCGCTAATACTCAATTTTTAGCGGTGTTTTTTTAAAAGC
1 GCCGCTAATGCT-AATTTTTAGCGGCGTTTTTTGAAAAGC
* * *
49888080 GCCGCTAATGATTGATTTTTAGCGGCATTTTTT
1 GCCGCTAATG-CTAATTTTTAGCGGCGTTTTTT
49888113 TATCCAAATG
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 45 0.47
40 49 0.52
41 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (39 bp):
GCCGCTAATGCTAATTTTTAGCGGCGTTTTTTGAAAAGC
Found at i:49889104 original size:19 final size:19
Alignment explanation
Indices: 49889080--49889124 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
49889070 TCATAATCTA
49889080 AAAAATATTAAAAACCAAT
1 AAAAATATTAAAAACCAAT
**
49889099 AAAAATATTAAAAATTAAT
1 AAAAATATTAAAAACCAAT
49889118 AAAAATA
1 AAAAATA
49889125 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATATTAAAAACCAAT
Found at i:49892263 original size:25 final size:24
Alignment explanation
Indices: 49892218--49892266 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
49892208 ATATAGTTTT
49892218 TATATTATTTATAAAGGTTATAATA
1 TATATTATTTATAAA-GTTATAATA
49892243 TATATTATATTATAATA-TTATAAT
1 TATATTAT-TTATAA-AGTTATAAT
49892267 TAAACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 15 0.68
26 6 0.27
27 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TATATTATTTATAAAGTTATAATA
Found at i:49893180 original size:40 final size:41
Alignment explanation
Indices: 49893132--49893229 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
49893122 CTATATGATT
* *
49893132 AGCACTAAGTGTGCGAA-TTAAATGATGAGGTTGAATAA-A
1 AGCACTAAGTGTGCGAATTTAAATAATGAGGTTAAATAACA
*
49893171 GAGCACTAAGTGTGCGAATTTAAATAATGATGTTAAATAACA
1 -AGCACTAAGTGTGCGAATTTAAATAATGAGGTTAAATAACA
49893213 AGCACTAAGTGTGCGAA
1 AGCACTAAGTGTGCGAA
49893230 ACTGAGATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 17 0.32
41 35 0.66
42 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAATTTAAATAATGAGGTTAAATAACA
Found at i:49897429 original size:41 final size:40
Alignment explanation
Indices: 49897384--49897485 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 40
49897374 AGATTCAGGA
*
49897384 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATGTTT
1 CACCGGCA-TTAGCCTGCTAGACATAAAGTCTGAAATGTTT
*
49897425 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTGTTT
1 CACCGGCATT-AGCCTGCTAGACATAAAGTCTGAAATGTTT
* *
49897466 CACTGGCAATAGCCTGCTAG
1 CACCGGCATTAGCCTGCTAG
49897486 GTGCTAAGCC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 12 0.21
41 44 0.79
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATAAAGTCTGAAATGTTT
Found at i:49898275 original size:79 final size:82
Alignment explanation
Indices: 49898116--49898275 Score: 193
Period size: 81 Copynumber: 2.0 Consensus size: 82
49898106 ACAAATACAA
* * *
49898116 TATACATACCTTTAATCAAACCCAAAAGTTTATTCATATATATATATATATATATATTCGAGCCT
1 TATACATACCTTTAATCAAACCCAAAAGTTTATACATATATATACATATATATATATTCGAACCT
*
49898181 TATGTATACATATATAT
66 TATATATACATATATAT
* * * * *
49898198 TATACATACCTTTGATTAAA-CCAAGAA-TTTATACATGTATATACATATATGTAT-TT-GAATC
1 TATACATACCTTTAATCAAACCCAA-AAGTTTATACATATATATACATATATATATATTCGAACC
*
49898259 TTGTATATACATATATA
65 TTATATATACATATATA
49898276 ACCCTCATAC
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 18 0.27
80 2 0.03
81 27 0.40
82 20 0.30
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (82 bp):
TATACATACCTTTAATCAAACCCAAAAGTTTATACATATATATACATATATATATATTCGAACCT
TATATATACATATATAT
Found at i:49901668 original size:13 final size:12
Alignment explanation
Indices: 49901642--49901682 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
49901632 TAGGAAAAAG
49901642 AAAA-AAAATGA
1 AAAAGAAAATGA
49901653 AAAAGAAAATGA
1 AAAAGAAAATGA
*
49901665 AAAAGAAGAAGGA
1 AAAAGAA-AATGA
49901678 AAAAG
1 AAAAG
49901683 CTGCAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 4 0.15
12 14 0.52
13 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:49905177 original size:18 final size:20
Alignment explanation
Indices: 49905150--49905191 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
49905140 CCTTATAATT
*
49905150 TTTTATAAA-TAGTTTG-AA
1 TTTTAAAAATTAGTTTGAAA
*
49905168 TTTTAAAAATTATTTTGAAA
1 TTTTAAAAATTAGTTTGAAA
49905188 TTTT
1 TTTT
49905192 TGTTGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTAAAAATTAGTTTGAAA
Found at i:49909710 original size:21 final size:21
Alignment explanation
Indices: 49909684--49909726 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49909674 ATATTTAATT
49909684 TCGAAA-AATTGAATAATTAAA
1 TCGAAATAATT-AATAATTAAA
*
49909705 TCGAAATAATTAATAGTTAAA
1 TCGAAATAATTAATAATTAAA
49909726 T
1 T
49909727 GACCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (21 bp):
TCGAAATAATTAATAATTAAA
Found at i:49910524 original size:13 final size:13
Alignment explanation
Indices: 49910503--49910532 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49910493 AGCCCAAACT
*
49910503 CAATTACCCAACC
1 CAATCACCCAACC
49910516 CAATCACCCAACC
1 CAATCACCCAACC
49910529 CAAT
1 CAAT
49910533 AAAACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.13
Consensus pattern (13 bp):
CAATCACCCAACC
Found at i:49910683 original size:9 final size:9
Alignment explanation
Indices: 49910671--49910720 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
49910661 AAAATAAAAA
49910671 AATTCGGGT
1 AATTCGGGT
49910680 AATTCGGGT
1 AATTCGGGT
*
49910689 ATTTTTC-GGT
1 A--ATTCGGGT
*
49910699 AATTCGGTT
1 AATTCGGGT
49910708 AATTCGGGT
1 AATTCGGGT
49910717 AATT
1 AATT
49910721 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 3 0.09
9 24 0.71
10 4 0.12
11 3 0.09
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:49913364 original size:21 final size:21
Alignment explanation
Indices: 49913331--49913370 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
49913321 CAGTTATCAC
49913331 AAAATCAATCCTTTTCAAGTG
1 AAAATCAATCCTTTTCAAGTG
49913352 AAAATGCAA-CCTTTTCAAG
1 AAAAT-CAATCCTTTTCAAG
49913371 GCTAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAATCAATCCTTTTCAAGTG
Found at i:49929344 original size:5 final size:5
Alignment explanation
Indices: 49929336--49929366 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
49929326 TTATTATATT
49929336 CGGGC CGGGC CGGGC CGGGC CGGGC TCGGGC
1 CGGGC CGGGC CGGGC CGGGC CGGGC -CGGGC
49929367 TAAAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.39, G:0.58, T:0.03
Consensus pattern (5 bp):
CGGGC
Found at i:49930588 original size:15 final size:15
Alignment explanation
Indices: 49930551--49930581 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49930541 ACAAAATTTG
49930551 AAAGAAAAAGAAAGA
1 AAAGAAAAAGAAAGA
49930566 AAAGAAAAAGAAAGA
1 AAAGAAAAAGAAAGA
49930581 A
1 A
49930582 GAAAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAAGA
Found at i:49931956 original size:19 final size:21
Alignment explanation
Indices: 49931932--49931974 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49931922 GCACCTAGGA
*
49931932 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATATTT
49931951 TGATTGTATTTGATCATATTT
1 TGATTGTATTTGATCATATTT
49931972 TGA
1 TGA
49931975 ATTGGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATATTT
Found at i:49939012 original size:101 final size:102
Alignment explanation
Indices: 49938890--49939074 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
49938880 AAAGTGATGG
* *
49938890 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATCTGTAGT
49938953 ACTATGTGCAGGCTACTATGAGTACCTGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGAGTACCTGATAGCTTCGA
* *
49938991 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATCTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATCTGTAGTA
*
49939056 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
49939075 TGAATCGGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATCTGTAGTA
CTATGTGCAGGCTACTATGAGTACCTGATAGCTTCGA
Found at i:49939082 original size:51 final size:52
Alignment explanation
Indices: 49938882--49939072 Score: 223
Period size: 51 Copynumber: 3.8 Consensus size: 52
49938872 TGAAAGTGAA
* *
49938882 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
49938932 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGAGTACCTGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
49938983 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* *
49939034 AGTGAT-GGTCACATCTGTAGTACTATGTGTAGGCTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
49939073 TGTGAATCGG
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 41 0.35
51 71 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:49939346 original size:37 final size:38
Alignment explanation
Indices: 49939277--49939349 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
49939267 ATGTGTGGAA
* *
49939277 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGGAAAAGTGAATT
*
49939315 TTGAATTGAATAGTGA-TTGAAAGTGGAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGGAAAAGTGAA
49939350 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGGAAAAGTGAATT
Found at i:49941991 original size:37 final size:37
Alignment explanation
Indices: 49941934--49942123 Score: 206
Period size: 37 Copynumber: 4.9 Consensus size: 37
49941924 TATGATCACT
*
49941934 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
49941969 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
49942006 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC--CACC
49942045 TATCAC-TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
49942089 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
49942124 GAAGCTATCA
Statistics
Matches: 131, Mismatches: 12, Indels: 18
0.81 0.07 0.11
Matches are distributed among these distances:
35 6 0.05
36 4 0.03
37 54 0.41
38 26 0.20
39 7 0.05
41 1 0.01
42 1 0.01
44 1 0.01
45 6 0.05
46 25 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:49942104 original size:46 final size:46
Alignment explanation
Indices: 49942045--49942400 Score: 489
Period size: 46 Copynumber: 7.5 Consensus size: 46
49942035 TAGCTAAAGC
* * **
49942045 TATCAC-TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
49942090 TATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
49942136 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49942188 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49942234 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
49942280 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* ** *
49942326 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49942378 TATCACTTTGTCACTTGATCAGA
1 TATCACTTTGTCACTTGATCAGA
49942401 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 14, Indels: 25
0.88 0.04 0.08
Matches are distributed among these distances:
45 6 0.02
46 192 0.68
48 1 0.00
49 2 0.01
50 1 0.00
52 82 0.29
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:49942170 original size:98 final size:98
Alignment explanation
Indices: 49942047--49942400 Score: 585
Period size: 98 Copynumber: 3.7 Consensus size: 98
49942037 GCTAAAGCTA
* *
49942047 TCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAG
1 TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
49942112 ATAAGTATAGCCGAAGCTATCACTTATCACTTT
66 ATAAGTATAGCCGAAGCTATCACTTATCACTTT
*
49942145 TCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAG
1 TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
49942210 ATAAGTATAGCCGAAGCTATCACTTATCAC---
66 ATAAGTATAGCCGAAGCTATCACTTATCACTTT
* **
49942240 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAG
1 TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
*
49942302 ATAAGTATAGCCGAAGCTATTACTTATCACTTT
66 ATAAGTATAGCCGAAGCTATCACTTATCACTTT
* *
49942335 CCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAG
1 TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
49942400 A
66 A
49942401 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 11, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
92 88 0.37
95 1 0.00
98 150 0.63
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
ATAAGTATAGCCGAAGCTATCACTTATCACTTT
Found at i:49942262 original size:144 final size:142
Alignment explanation
Indices: 49942002--49942400 Score: 525
Period size: 144 Copynumber: 2.8 Consensus size: 142
49941992 TAAGTGTAGC
* * *
49942002 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCT-AA---A-GC-TATCAC-TTGTCTCTT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATACTTATCACTTTGTCACTT
*
49942060 GATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCG
64 GATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
49942125 AAGCTATCACTTAT
129 AAGCTATCACTTAT
49942139 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTT
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT-ACTTATCACTTTGTCACTT
* **
49942204 GATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
64 GATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
49942269 AAGCTATCACTTAT
129 AAGCTATCACTTAT
* *
49942283 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA-TACTTATCAC--T----TTGT
*
49942343 CACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
59 CACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
49942401 AGTACTCAAA
Statistics
Matches: 233, Mismatches: 13, Indels: 25
0.86 0.05 0.09
Matches are distributed among these distances:
136 26 0.11
137 9 0.04
138 43 0.18
139 1 0.00
140 2 0.01
141 1 0.00
142 1 0.00
143 6 0.03
144 144 0.62
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (142 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATACTTATCACTTTGTCACTTGA
TCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAA
GCTATCACTTAT
Found at i:49944434 original size:4 final size:4
Alignment explanation
Indices: 49944425--49944584 Score: 293
Period size: 4 Copynumber: 39.8 Consensus size: 4
49944415 ATATATGTGA
49944425 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
49944473 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
49944521 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
49944569 ATGC ATGT AATGT ATG
1 ATGT ATGT -ATGT ATG
49944585 CTGCCCTTAC
Statistics
Matches: 153, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
4 149 0.97
5 4 0.03
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:49950228 original size:41 final size:41
Alignment explanation
Indices: 49950171--49950252 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
49950161 CAATGTAATG
49950171 ATAGAAAAAGAGGGAAATGATACTATTAGGACTTGTAGCAA
1 ATAGAAAAAGAGGGAAATGATACTATTAGGACTTGTAGCAA
49950212 ATAGAAAAAGAGGGAAATGATACTATTAGGACTTGTAGCAA
1 ATAGAAAAAGAGGGAAATGATACTATTAGGACTTGTAGCAA
49950253 CAACTATCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.22
Consensus pattern (41 bp):
ATAGAAAAAGAGGGAAATGATACTATTAGGACTTGTAGCAA
Found at i:49953322 original size:40 final size:40
Alignment explanation
Indices: 49953273--49953409 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
49953263 CGTTTGGATA
*
49953273 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGC-TTTAC
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAC
* * *
49953312 GTAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTC
1 -AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAC
* * * **
49953353 AAAAACACCGCTAAAAA-GGAGCATTAGCGGCGATTTTTGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-CTTTTAC
*
49953393 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
49953410 CCCTAAGCCC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 14 0.17
40 64 0.78
41 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAC
Found at i:49953514 original size:41 final size:41
Alignment explanation
Indices: 49953446--49953760 Score: 441
Period size: 41 Copynumber: 7.6 Consensus size: 41
49953436 ACTTTCAGGG
** *
49953446 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAATGCTCAGTT
* * *
49953488 CTTTAGCGGCTTTTTTGGAAAAGCGCCACTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
* * * *
49953529 CTTTAGTGGCGTTTATGGAGAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
*
49953570 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
* *
49953611 CTTTAGCGGCGTTTTTTGTAAAAGCGCCGCTAATGCTTAGTT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCAGTT
* * *
49953653 CTTTAACGGCGTTTTTGTAAAAGCGCCGCTAATGTTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
* * *
49953694 CTTTAGCGGCGTTTTTGTAACAGCGCCGCTAATACTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
49953735 CTTTAGCGGCGTTTTTGGAAAAGCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGC
49953761 TGCAAAAACA
Statistics
Matches: 248, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
41 196 0.79
42 52 0.21
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
Found at i:49953666 original size:124 final size:123
Alignment explanation
Indices: 49953446--49953760 Score: 436
Period size: 124 Copynumber: 2.5 Consensus size: 123
49953436 ACTTTCAGGG
* *
49953446 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGC-TTTTTTGGAAAA
1 CTTTAGCGGCGTTTTT--GAAAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTTTGGAAAA
** *
49953510 GCGCCACTAATGCTCAGATCTTTAGTGGCGTTTATGGAGAAGCGCCGCTAATGCTCAGAT
64 GCGCCACTAATGCTCAGATCTTTAACGGCGTTTATGGAAAAGCGCCGCTAATGCTCAGAT
* *
49953570 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTTTGTAAAAG
1 CTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTTTGGAAAAG
* * * * * * *
49953635 CGCCGCTAATGCTTAGTTCTTTAACGGCGTTTTTGTAAAAGCGCCGCTAATGTTCAGTT
65 CGCCACTAATGCTCAGATCTTTAACGGCGTTTATGGAAAAGCGCCGCTAATGCTCAGAT
* *
49953694 CTTTAGCGGCGTTTTTGTAACAGCGCCGCTAATACTCAGTTCTTTAGCGGCG-TTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTTTGGAAAAG
49953758 CGC
65 CGC
49953761 TGCAAAAACA
Statistics
Matches: 170, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
123 46 0.27
124 124 0.73
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTTTGGAAAAGC
GCCACTAATGCTCAGATCTTTAACGGCGTTTATGGAAAAGCGCCGCTAATGCTCAGAT
Found at i:49953721 original size:165 final size:165
Alignment explanation
Indices: 49953446--49953760 Score: 461
Period size: 165 Copynumber: 1.9 Consensus size: 165
49953436 ACTTTCAGGG
* *
49953446 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCTTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGATCTTTAACGGCGTTTTTGGAAAAG
* *
49953511 CGCCACTAATGCTCAGATCTTTAGTGGCGTTTATGGAGAAGCGCCGCTAATGCTCAGATCTTTAG
66 CGCCACTAATGCTCAGATCTTTAGCGGCGTTTATGGAGAAGCGCCGCTAATACTCAGATCTTTAG
*
49953576 CGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGTT
131 CGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
*** * * *
49953611 CTTTAGCGGCGTTTTTTGTAAAAGCGCCGCTAATGCTTAGTTCTTTAACGGCGTTTTTGTAAAAG
1 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGATCTTTAACGGCGTTTTTGGAAAAG
* * * * * *
49953676 CGCCGCTAATGTTCAGTTCTTTAGCGGCGTTTTTGTA-ACAGCGCCGCTAATACTCAGTTCTTTA
66 CGCCACTAATGCTCAGATCTTTAGCGGCGTTTATGGAGA-AGCGCCGCTAATACTCAGATCTTTA
49953740 GCGGCGTTTTTGGAAAAGCGC
130 GCGGCGTTTTTGGAAAAGCGC
49953761 TGCAAAAACA
Statistics
Matches: 132, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
164 1 0.01
165 131 0.99
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (165 bp):
CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGATCTTTAACGGCGTTTTTGGAAAAG
CGCCACTAATGCTCAGATCTTTAGCGGCGTTTATGGAGAAGCGCCGCTAATACTCAGATCTTTAG
CGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
Found at i:49953894 original size:89 final size:89
Alignment explanation
Indices: 49953787--49953966 Score: 333
Period size: 89 Copynumber: 2.0 Consensus size: 89
49953777 CTGTCTATTT
49953787 ACTATTTAATTAATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
1 ACTATTTAATTAATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
49953852 AATAGATAAATTTGAAATAATGAC
66 AATAGATAAATTTGAAATAATGAC
**
49953876 ACTATTTAATTTGTTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
1 ACTATTTAATTAATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
*
49953941 AATGGATAAATTTGAAATAATGAC
66 AATAGATAAATTTGAAATAATGAC
49953965 AC
1 AC
49953967 GTAGAAATAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (89 bp):
ACTATTTAATTAATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
AATAGATAAATTTGAAATAATGAC
Found at i:49953997 original size:26 final size:26
Alignment explanation
Indices: 49953949--49953999 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
49953939 AAAATGGATA
** *
49953949 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACGTAGAAAT
*
49953975 AATTTGAAATAAAAAAACTTAGAAA
1 AATTTGAAATAAAAAAACGTAGAAA
49954000 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACGTAGAAAT
Found at i:49954287 original size:14 final size:15
Alignment explanation
Indices: 49954259--49954291 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
49954249 AAGGTTTATA
49954259 GATTATGGAATTAGG
1 GATTATGGAATTAGG
49954274 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
49954288 GATT
1 GATT
49954292 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:49954510 original size:82 final size:82
Alignment explanation
Indices: 49954385--49954535 Score: 275
Period size: 82 Copynumber: 1.8 Consensus size: 82
49954375 TTCAGTGACA
* *
49954385 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGG
49954450 TTAGAGATTCGGGGTCG
66 TTAGAGATTCGGGGTCG
*
49954467 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGG
49954532 TTAG
66 TTAG
49954536 TTGTCAGGGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (82 bp):
GGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGAGATTCGGGGTCG
Found at i:49954802 original size:7 final size:7
Alignment explanation
Indices: 49954786--49954824 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
49954776 AGATTATGGT
49954786 TTAGGGG
1 TTAGGGG
*
49954793 TTAGGAG
1 TTAGGGG
49954800 TTAGGGG
1 TTAGGGG
49954807 TTAGGGG
1 TTAGGGG
* *
49954814 CTAGGAG
1 TTAGGGG
49954821 TTAG
1 TTAG
49954825 ATTAATTAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.28
Consensus pattern (7 bp):
TTAGGGG
Found at i:49959973 original size:20 final size:20
Alignment explanation
Indices: 49959937--49959981 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
49959927 AATAAAACAT
49959937 AATATAATATTTATGATAAA
1 AATATAATATTTATGATAAA
* *
49959957 AATA-AATATTATTTGATTAA
1 AATATAATATT-TATGATAAA
49959977 AATAT
1 AATAT
49959982 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AATATAATATTTATGATAAA
Found at i:49960071 original size:43 final size:43
Alignment explanation
Indices: 49960006--49960098 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
49959996 TATTTTTAGT
* * * * *
49960006 GGCGTTTTTGTGAGAAGTGCCGCTAAAG-CTCATGAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGAC-CATGACCTATAGC
* *
49960049 GGCGTTTGTGGGAAAAGCGCCGCTAAAGACCCTGACCTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGACCTATAGC
49960092 GGCGTTT
1 GGCGTTT
49960099 ATTTCAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGACCTATAGC
Found at i:49960223 original size:22 final size:21
Alignment explanation
Indices: 49960190--49960234 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
49960180 TTTAGTGGCG
*
49960190 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
49960211 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
49960233 CT
1 CT
49960235 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:49965187 original size:24 final size:25
Alignment explanation
Indices: 49965130--49965185 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
49965120 ATATATGATT
49965130 TAATAAAATTTAAAATAATTATAAC
1 TAATAAAATTTAAAATAATTATAAC
49965155 T-ATAAAATTTAAAATAATTATAAC
1 TAATAAAATTTAAAATAATTATAAC
49965179 TAATAAA
1 TAATAAA
49965186 TTATCTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TAATAAAATTTAAAATAATTATAAC
Found at i:49965233 original size:26 final size:28
Alignment explanation
Indices: 49965204--49965264 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
49965194 TATGAATTTG
*
49965204 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
49965230 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
49965258 TAAAATT
1 TATAATT
49965265 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:49965252 original size:18 final size:18
Alignment explanation
Indices: 49965229--49965348 Score: 58
Period size: 18 Copynumber: 6.8 Consensus size: 18
49965219 TTATTATTAC
49965229 ATATAATTTAATAATAAT
1 ATATAATTTAATAATAAT
*
49965247 ATATAATTTCATAA-AATT
1 ATATAATTTAATAATAA-T
* * **
49965265 ATTGATAA-TAAAT-TTTCT
1 A-T-ATAATTTAATAATAAT
49965283 ATATGAA-TTAATACATTAA-
1 ATAT-AATTTAATA-A-TAAT
*
49965302 A-ATAA-TTAATATTAA-
1 ATATAATTTAATAATAAT
*
49965317 ATATAATTTAATAATGAT
1 ATATAATTTAATAATAAT
*
49965335 ATATAATTTCATAA
1 ATATAATTTAATAA
49965349 ATTTCTTAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
15 4 0.05
16 6 0.08
17 25 0.32
18 32 0.42
19 5 0.06
20 5 0.06
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAATAAT
Found at i:49965267 original size:44 final size:43
Alignment explanation
Indices: 49965204--49965343 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 43
49965194 TATGAATTTG
49965204 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAATAATA
* **
49965248 TATAATTTCATAA-AATTATTGA-TAATA-AATTTTCTATATGAAT-
1 TATAATTT-AAAATAATTATT-ATTAATATAATTTAATA-AT-AATA
* *
49965291 TAATACA-TTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 T-ATA-ATTTAAAATAATTATTATT-AATATAATTTAATAATAATA
49965336 TATAATTT
1 TATAATTT
49965344 CATAAATTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
42 7 0.09
43 11 0.14
44 39 0.51
45 12 0.16
46 7 0.09
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATAATA
Found at i:49965310 original size:17 final size:17
Alignment explanation
Indices: 49965283--49965342 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
49965273 TAAATTTTCT
49965283 ATATGAATTAATACATTAA
1 ATAT-AATTAATA-ATTAA
49965302 A-ATAATTAAT-ATTAA
1 ATATAATTAATAATTAA
* *
49965317 ATATAATTTAATAATGAT
1 ATATAA-TTAATAATTAA
49965335 ATATAATT
1 ATATAATT
49965343 TCATAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 6 0.17
16 4 0.11
17 14 0.39
18 11 0.31
19 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (17 bp):
ATATAATTAATAATTAA
Found at i:49965324 original size:88 final size:90
Alignment explanation
Indices: 49965170--49965381 Score: 279
Period size: 88 Copynumber: 2.4 Consensus size: 90
49965160 AATTTAAAAT
* * * *
49965170 AATTA-TAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATA
1 AATTATTAA-TAATAAATTTTCTTATATGAA-TTGAATAATTTAAAATAATTAATATTAAATATA
49965234 ATTTAATAATAATATATAATTTCATAA
64 ATTTAATAATAATATATAATTTCATAA
*
49965261 AATTATTGATAATAAATTTTC-TATATGAATT-AATACA-TTAAAATAATTAATATTAAATATAA
1 AATTATTAATAATAAATTTTCTTATATGAATTGAATA-ATTTAAAATAATTAATATTAAATATAA
*
49965323 TTTAATAATGATATATAATTTCATAA
65 TTTAATAATAATATATAATTTCATAA
* * *
49965349 ATTTCTTAATAATAAAATGTTCTTATATGAATT
1 AATTATTAATAAT-AAATTTTCTTATATGAATT
49965382 TACTAAAATC
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
88 61 0.57
89 10 0.09
90 18 0.17
91 16 0.15
92 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (90 bp):
AATTATTAATAATAAATTTTCTTATATGAATTGAATAATTTAAAATAATTAATATTAAATATAAT
TTAATAATAATATATAATTTCATAA
Found at i:49968391 original size:12 final size:12
Alignment explanation
Indices: 49968342--49968397 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
49968332 ATCACCCAAA
49968342 AAAGTATATATT
1 AAAGTATATATT
49968354 AAA-TGATAT-TT
1 AAAGT-ATATATT
* *
49968365 AAA-TACATTTT
1 AAAGTATATATT
49968376 AAAGTATATATT
1 AAAGTATATATT
49968388 AAAGGTATAT
1 AAA-GTATAT
49968398 GTAGTTTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.08
11 12 0.32
12 16 0.43
13 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (12 bp):
AAAGTATATATT
Found at i:49969357 original size:8 final size:8
Alignment explanation
Indices: 49969344--49969383 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
49969334 GTAATGAGCA
49969344 ATACAAAC
1 ATACAAAC
49969352 ATACAAAC
1 ATACAAAC
*
49969360 A-A-AACC
1 ATACAAAC
49969366 ATACAAAC
1 ATACAAAC
49969374 ATACAAAC
1 ATACAAAC
49969382 AT
1 AT
49969384 GCAATCGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
8 22 0.79
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
ATACAAAC
Found at i:49971865 original size:3 final size:3
Alignment explanation
Indices: 49971859--49971897 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
49971849 AACATTAGGG
49971859 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49971898 AGTTCACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49974459 original size:13 final size:13
Alignment explanation
Indices: 49974441--49974465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49974431 ACCATATCAA
49974441 TAAAACACATAAT
1 TAAAACACATAAT
49974454 TAAAACACATAA
1 TAAAACACATAA
49974466 CTAATTTAAA
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:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAACACATAAT
Found at i:49975311 original size:100 final size:99
Alignment explanation
Indices: 49975191--49975373 Score: 287
Period size: 100 Copynumber: 1.8 Consensus size: 99
49975181 TGATTTGTAC
*
49975191 AAAAAATGGACAGCATTTAAGCACCAATTTGGACAAG-ATTAATGTACTAAAAAATGGACAACAA
1 AAAAAATGGACAGCATTTAAGCACCAATTTGGAC-AGCATTAATATACTAAAAAATGGACAACAA
*
49975255 TTAAGCATCAATTTGGACAACATTAATATGCTCAA
65 TTAAGCACCAATTTGGACAACATTAATATGCTCAA
* * * *
49975290 AAAAATATGGACAGCATTTAAGCACTAATTTGGACAGCATTAATATGCTCAAAAATGGACAGCAA
1 AAAAA-ATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAACAA
49975355 TTAAGCACCAATTTGGACA
65 TTAAGCACCAATTTGGACA
49975374 GAATCTTATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 7 0.09
100 69 0.91
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (99 bp):
AAAAAATGGACAGCATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAACAAT
TAAGCACCAATTTGGACAACATTAATATGCTCAA
Found at i:49975322 original size:52 final size:49
Alignment explanation
Indices: 49975168--49975373 Score: 247
Period size: 48 Copynumber: 4.2 Consensus size: 49
49975158 CAGTAACAAC
* * * *
49975168 ATTTAGACAACATTGATTTG-TACAAAAAATGGACAGCATTTAAGCACCA
1 ATTTGGACAACATTAATATGCT-CAAAAAATGGACAGCAATTAAGCACCA
* * * * *
49975217 ATTTGGACAAGATTAATGTACT-AAAAAATGGACAACAATTAAGCATCA
1 ATTTGGACAACATTAATATGCTCAAAAAATGGACAGCAATTAAGCACCA
* *
49975265 ATTTGGACAACATTAATATGCTCAAAAAAATATGGACAGCATTTAAGCACTA
1 ATTTGGACAACATTAATATGCTC--AAAAA-ATGGACAGCAATTAAGCACCA
*
49975317 ATTTGGACAGCATTAATATGCTC-AAAAATGGACAGCAATTAAGCACCA
1 ATTTGGACAACATTAATATGCTCAAAAAATGGACAGCAATTAAGCACCA
49975365 ATTTGGACA
1 ATTTGGACA
49975374 GAATCTTATC
Statistics
Matches: 134, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
48 70 0.52
49 19 0.14
50 1 0.01
51 5 0.04
52 39 0.29
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (49 bp):
ATTTGGACAACATTAATATGCTCAAAAAATGGACAGCAATTAAGCACCA
Found at i:49975327 original size:23 final size:23
Alignment explanation
Indices: 49975292--49975374 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
49975282 ATGCTCAAAA
*
49975292 AAATATGGACAGCATTTAAGCAC
1 AAATTTGGACAGCATTTAAGCAC
* * *
49975315 TAATTTGGACAGCATTAATATGCTC
1 AAATTTGGACAGCATT--TAAGCAC
** *
49975340 AAAAATGGACAGCAATTAAGCAC
1 AAATTTGGACAGCATTTAAGCAC
*
49975363 CAATTTGGACAG
1 AAATTTGGACAG
49975375 AATCTTATCA
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
23 28 0.62
25 17 0.38
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (23 bp):
AAATTTGGACAGCATTTAAGCAC
Found at i:49979468 original size:48 final size:48
Alignment explanation
Indices: 49979397--49979494 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
49979387 TCATTCATCA
* *
49979397 TCATTTATCCATACTTCATTGTCATCTTCCAAGCCTTTAATTGTATTT
1 TCATTTATCCATACTCCATTGTCATCTTCCAAACCTTTAATTGTATTT
49979445 TCATTTATCCATACTCCATTGTCATCTTCCAAACCTTTAATTGTATTT
1 TCATTTATCCATACTCCATTGTCATCTTCCAAACCTTTAATTGTATTT
49979493 TC
1 TC
49979495 TTTTTCTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.23, C:0.24, G:0.05, T:0.47
Consensus pattern (48 bp):
TCATTTATCCATACTCCATTGTCATCTTCCAAACCTTTAATTGTATTT
Found at i:50004412 original size:80 final size:80
Alignment explanation
Indices: 50004279--50004432 Score: 299
Period size: 80 Copynumber: 1.9 Consensus size: 80
50004269 TAAACGTACC
50004279 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
1 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
*
50004344 ATACACACACACACA
66 ACACACACACACACA
50004359 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
1 AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
50004424 ACACACACA
66 ACACACACA
50004433 ACAGCCTTCT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.31
Consensus pattern (80 bp):
AACAACTGACTCAATCTAAATGCACCCACAAATGGCCTTCTTCTCCTTTTAACTTTATTATATAT
ACACACACACACACA
Found at i:50008980 original size:2 final size:2
Alignment explanation
Indices: 50008973--50008997 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50008963 TATCAAACTA
50008973 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50008998 AATGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50030252 original size:14 final size:14
Alignment explanation
Indices: 50030219--50030276 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
50030209 TTGAGGATCC
*
50030219 AAGGTTTCAAGATAT
1 AAGGTTT-AAGATTT
*
50030234 AAGGTTTAAAATTT
1 AAGGTTTAAGATTT
*
50030248 AAGGTTTGAGATTT
1 AAGGTTTAAGATTT
*
50030262 AAGGTTCAAGATTT
1 AAGGTTTAAGATTT
50030276 A
1 A
50030277 GGTAAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 30 0.81
15 7 0.19
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (14 bp):
AAGGTTTAAGATTT
Found at i:50033293 original size:2 final size:2
Alignment explanation
Indices: 50033286--50033313 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50033276 ATGGGAAAGG
50033286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50033314 GCATGGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50038845 original size:18 final size:18
Alignment explanation
Indices: 50038824--50038859 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50038814 TTGTTGGTTT
*
50038824 TGATGATGTTGTTGATGA
1 TGATGATGCTGTTGATGA
50038842 TGATGATGCTGTTGATGA
1 TGATGATGCTGTTGATGA
50038860 AACTGTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (18 bp):
TGATGATGCTGTTGATGA
Found at i:50043539 original size:31 final size:31
Alignment explanation
Indices: 50043496--50043587 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 31
50043486 CCCCAAAATT
50043496 AAAAT-TTTTGAAAATTTTAATTAGACCCCA
1 AAAATGTTTTGAAAATTTTAATTAGACCCCA
* ** * * *
50043526 AAAATGTTTTGAAAATTCTCGTTAAATCACA
1 AAAATGTTTTGAAAATTTTAATTAGACCCCA
*
50043557 AAAA-G-TTTGAAAATTTTAATTGGACCCCA
1 AAAATGTTTTGAAAATTTTAATTAGACCCCA
50043586 AA
1 AA
50043588 TCTTGAAAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 19 0.40
30 6 0.12
31 23 0.48
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (31 bp):
AAAATGTTTTGAAAATTTTAATTAGACCCCA
Found at i:50053835 original size:20 final size:19
Alignment explanation
Indices: 50053799--50053837 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
50053789 TAATATTCTT
50053799 TTAGAAATTTTAAAAAAAA
1 TTAGAAATTTTAAAAAAAA
50053818 TTAGAAATTTTAAAAAAAA
1 TTAGAAATTTTAAAAAAAA
50053837 T
1 T
50053838 AATTAAATGT
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:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TTAGAAATTTTAAAAAAAA
Found at i:50060035 original size:19 final size:19
Alignment explanation
Indices: 50059991--50060037 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
50059981 CGTTTTTTTT
* *
50059991 AATTATAATTTTTTAATATC
1 AATTA-AATTTTTTAAAAAC
*
50060011 ATTTAAATTTTTTAAAAAC
1 AATTAAATTTTTTAAAAAC
50060030 AATTAAAT
1 AATTAAAT
50060038 GCTTATGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAAATTTTTTAAAAAC
Found at i:50060718 original size:23 final size:23
Alignment explanation
Indices: 50060690--50060735 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50060680 CATTTTACCC
50060690 TTGTATATATAACTATTAAAAGG
1 TTGTATATATAACTATTAAAAGG
50060713 TTGTATATATAACTATTAAAAGG
1 TTGTATATATAACTATTAAAAGG
50060736 GTAAAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
TTGTATATATAACTATTAAAAGG
Found at i:50066892 original size:60 final size:60
Alignment explanation
Indices: 50066766--50066892 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 60
50066756 GAGGCCTGAA
* * * **
50066766 TTTTTTTTTGTCCAAGTTAGGCTCTACACTTGACAATTGTTTTCACATTGGGGTTTAAAT
1 TTTTTTTTTGTCCAAATTAGGCTCTACACTTGACAAATGTTTTCACATAGGGACTTAAAT
* *
50066826 TCTTTTTTTT-TCCAAATTAGG-TCCTGA-ACTTGGCAAATGTTTTCACATAGGGACTTCAAT
1 T-TTTTTTTTGTCCAAATTAGGCT-CT-ACACTTGACAAATGTTTTCACATAGGGACTTAAAT
50066886 TTTTTTT
1 TTTTTTT
50066893 ATCCAAGTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 7 0.12
60 41 0.72
61 9 0.16
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (60 bp):
TTTTTTTTTGTCCAAATTAGGCTCTACACTTGACAAATGTTTTCACATAGGGACTTAAAT
Found at i:50068442 original size:29 final size:29
Alignment explanation
Indices: 50068400--50068529 Score: 100
Period size: 29 Copynumber: 4.3 Consensus size: 29
50068390 ATGGGGAGAG
50068400 TTTAGATTAAATATCTCATATTTAAT-TTAA
1 TTTA-ATTAAATATCTCATA-TTAATATTAA
* *
50068430 TTTAATTTAATATTTCATATTAATATTAA
1 TTTAATTAAATATCTCATATTAATATTAA
* * * * *
50068459 ATTAATAAAATACTATCTAGATAAATATTAAA
1 TTTAATTAAATA-TCTC-ATATTAATATT-AA
* * *
50068491 TTAAATTCAATATTTCATATTAATATTAA
1 TTTAATTAAATATCTCATATTAATATTAA
* *
50068520 ATTCATTAAA
1 TTTAATTAAA
50068530 AAAATATTAT
Statistics
Matches: 77, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
28 5 0.06
29 34 0.44
30 16 0.21
31 12 0.16
32 10 0.13
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (29 bp):
TTTAATTAAATATCTCATATTAATATTAA
Found at i:50068463 original size:24 final size:22
Alignment explanation
Indices: 50068417--50068465 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
50068407 TAAATATCTC
*
50068417 ATATTTAATTTAATTTAATTTA
1 ATATTTAATTTAATTTAAATTA
*
50068439 ATATTTCATATTAATATTAAATTA
1 ATATTTAAT-TTAAT-TTAAATTA
50068463 ATA
1 ATA
50068466 AAATACTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTAATTTAATTTAAATTA
Found at i:50070792 original size:19 final size:19
Alignment explanation
Indices: 50070742--50070792 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
50070732 TTTTGTATTT
* *
50070742 TATTTTTGGGAATTTTATA
1 TATTTTTGAGATTTTTATA
**
50070761 TATTTTTCTGATTTTTA-A
1 TATTTTTGAGATTTTTATA
50070779 TAATTTTTGAGATT
1 T-ATTTTTGAGATT
50070793 CTTTGAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (19 bp):
TATTTTTGAGATTTTTATA
Found at i:50072004 original size:22 final size:22
Alignment explanation
Indices: 50071979--50072026 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
50071969 TAAACAAATT
50071979 CTTTAAAAAGAATAAATATTCC
1 CTTTAAAAAGAATAAATATTCC
**
50072001 CTTTTTAAAGAATAAATATTCC
1 CTTTAAAAAGAATAAATATTCC
50072023 CTTT
1 CTTT
50072027 TTTTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (22 bp):
CTTTAAAAAGAATAAATATTCC
Found at i:50072032 original size:26 final size:22
Alignment explanation
Indices: 50071985--50072028 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50071975 AATTCTTTAA
50071985 AAAGAATAAATATTCCCTTTTT
1 AAAGAATAAATATTCCCTTTTT
50072007 AAAGAATAAATATTCCCTTTTT
1 AAAGAATAAATATTCCCTTTTT
50072029 TTTTTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
AAAGAATAAATATTCCCTTTTT
Found at i:50076815 original size:18 final size:19
Alignment explanation
Indices: 50076792--50076827 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50076782 GGATGATACA
*
50076792 TTAAAATTTAA-TTAATTT
1 TTAAAATTAAATTTAATTT
50076810 TTAAAATTAAATTTAATT
1 TTAAAATTAAATTTAATT
50076828 AAAAGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATTAAATTTAATTT
Found at i:50078847 original size:6 final size:6
Alignment explanation
Indices: 50078836--50078863 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50078826 AAGGTAAAAG
50078836 ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATAT
50078864 AAAGTGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:50078933 original size:12 final size:12
Alignment explanation
Indices: 50078899--50078938 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
50078889 TGCAAGTATG
50078899 TATATATGAAAAA
1 TATATAT-AAAAA
50078912 T-TA-A-AAAAA
1 TATATATAAAAA
50078921 TATATATAAAAA
1 TATATATAAAAA
50078933 TATATA
1 TATATA
50078939 AGGTATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 2 0.08
12 13 0.54
13 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
TATATATAAAAA
Found at i:50081438 original size:3 final size:3
Alignment explanation
Indices: 50081430--50081479 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
50081420 TAGAATTTGT
50081430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50081478 TT
1 TT
50081480 CCTTACTACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50081533 original size:18 final size:18
Alignment explanation
Indices: 50081506--50081540 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50081496 TTAGAGTTTG
*
50081506 TTTATGTATTTTTATTTA
1 TTTATCTATTTTTATTTA
50081524 TTTATCTATTTTTATTT
1 TTTATCTATTTTTATTT
50081541 TTTGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATCTATTTTTATTTA
Found at i:50082427 original size:22 final size:23
Alignment explanation
Indices: 50082393--50082435 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50082383 TATGTAAACT
*
50082393 AAATTTTAAATA-TTAAAATATA
1 AAATATTAAATATTTAAAATATA
*
50082415 AAATATTATATATTTAAAATA
1 AAATATTAAATATTTAAAATA
50082436 AATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATTAAATATTTAAAATATA
Found at i:50085561 original size:25 final size:24
Alignment explanation
Indices: 50085515--50085612 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 24
50085505 TGCAAACATG
* *
50085515 TAAACGAGAAGCTC-TTTCGAGCCA
1 TAAACGGGAAGCTCATGT-GAGCCA
50085539 TAAAACGGGAAGCTCATGTGAGCCA
1 T-AAACGGGAAGCTCATGTGAGCCA
* ** *
50085564 TGTAACGGGAAGCTCATAAGAGCCG
1 T-AAACGGGAAGCTCATGTGAGCCA
* * *
50085589 TAATCGGGAAGTTCAAGTGAGCCA
1 TAAACGGGAAGCTCATGTGAGCCA
50085613 ATATCTGGAA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
24 17 0.29
25 39 0.67
26 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (24 bp):
TAAACGGGAAGCTCATGTGAGCCA
Found at i:50085610 original size:24 final size:24
Alignment explanation
Indices: 50085542--50085626 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
50085532 CGAGCCATAA
*
50085542 AACGGGAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCAAGTGAGCCA-GT
*
50085567 AACGGGAAGCTCATA-AGAGCC-GT
1 AACGGGAAGCTCA-AGTGAGCCAGT
* *
50085590 AATCGGGAAGTTCAAGTGAGCCAAT
1 AA-CGGGAAGCTCAAGTGAGCCAGT
* *
50085615 ATCTGGAAGCTC
1 AACGGGAAGCTC
50085627 CGGAGAGCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
23 5 0.10
24 23 0.48
25 20 0.42
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (24 bp):
AACGGGAAGCTCAAGTGAGCCAGT
Found at i:50085658 original size:25 final size:25
Alignment explanation
Indices: 50085533--50085659 Score: 91
Period size: 25 Copynumber: 5.2 Consensus size: 25
50085523 AAGCTCTTTC
* * **
50085533 GAGCCATAAAACGGGAAGCTCATGT
1 GAGCCATTAATCGGGAAGCTCATAA
50085558 GAGCCATGTAA-CGGGAAGCTCATAA
1 GAGCCAT-TAATCGGGAAGCTCATAA
* * *
50085583 GAGCC-GTAATCGGGAAGTTCA-AGT
1 GAGCCATTAATCGGGAAGCTCATA-A
* * ***
50085607 GAGCCAAT-ATCTGGAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCATAA
*
50085631 GAGCCATTAATCGGGATGCTCATAA
1 GAGCCATTAATCGGGAAGCTCATAA
50085656 GAGC
1 GAGC
50085660 TGCGGTGTGT
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
23 4 0.05
24 32 0.41
25 40 0.51
26 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.18
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCATAA
Found at i:50088873 original size:2 final size:2
Alignment explanation
Indices: 50088866--50088897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50088856 ACCTAAACTA
50088866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50088898 GTAAATAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50089519 original size:12 final size:12
Alignment explanation
Indices: 50089502--50089536 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
50089492 AAAGTAACTT
50089502 TAATAATAATGA
1 TAATAATAATGA
*
50089514 TAATAATAAAGA
1 TAATAATAATGA
50089526 TAATAA-AATGA
1 TAATAATAATGA
50089537 AAAACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (12 bp):
TAATAATAATGA
Found at i:50090767 original size:43 final size:43
Alignment explanation
Indices: 50090703--50090788 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
50090693 TATGTGATTG
50090703 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
* *
50090746 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
50090789 TAAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:50090770 original size:16 final size:16
Alignment explanation
Indices: 50090708--50090773 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
50090698 GATTGATATT
*
50090708 GAAATGACAAAGATGA
1 GAAATGACAAATATGA
50090724 GAAATG---AATATGA
1 GAAATGACAAATATGA
* *
50090737 G--ATGAGAAAATAT-T
1 GAAATGA-CAAATATGA
50090751 GAAATGACAAATATGA
1 GAAATGACAAATATGA
50090767 GAAATGA
1 GAAATGA
50090774 TTATGAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
11 3 0.08
13 7 0.18
14 1 0.03
15 11 0.28
16 17 0.44
ACGTcount: A:0.55, C:0.03, G:0.23, T:0.20
Consensus pattern (16 bp):
GAAATGACAAATATGA
Found at i:50096978 original size:31 final size:31
Alignment explanation
Indices: 50096942--50097005 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
50096932 AAAATAATAG
* * * *
50096942 TTGAGTTACCAAAATAGAACTAAAGGTATAA
1 TTGAGTGACCAAAATAAAACCAAAGGCATAA
*
50096973 TTGAGTGACTAAAATAAAACCAAAGGCATAA
1 TTGAGTGACCAAAATAAAACCAAAGGCATAA
50097004 TT
1 TT
50097006 AGGTGAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (31 bp):
TTGAGTGACCAAAATAAAACCAAAGGCATAA
Found at i:50107521 original size:3 final size:3
Alignment explanation
Indices: 50107513--50107543 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
50107503 TAAATGAATA
50107513 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
50107544 TATTCATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:50114272 original size:29 final size:29
Alignment explanation
Indices: 50114237--50114345 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 29
50114227 AGTTTATATC
50114237 TTTATAATTTTTAAAAGGTTAATTAAATT
1 TTTATAATTTTTAAAAGGTTAATTAAATT
** * *
50114266 TTTATAATTATTATAAAATTTTTTATAATAGTCTATATC
1 TTTATAATT-TT-TAAAA---GGT-T-A-A-T-TAAATT
*
50114305 TTTATAATTTTT-AAAGGTTAATCAAATT
1 TTTATAATTTTTAAAAGGTTAATTAAATT
50114333 TTTATAATTTTTA
1 TTTATAATTTTTA
50114346 GAGGTCAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
28 15 0.25
29 10 0.17
30 3 0.05
31 6 0.10
32 1 0.02
33 1 0.02
34 1 0.02
35 1 0.02
36 4 0.07
37 2 0.03
38 3 0.05
39 13 0.22
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTATAATTTTTAAAAGGTTAATTAAATT
Found at i:50115649 original size:31 final size:28
Alignment explanation
Indices: 50115574--50115650 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 28
50115564 CAAATGTCTC
*
50115574 TAAAATAGTAGCAAAATTAACAATAAAA
1 TAAAATAGTAGCAATATTAACAATAAAA
*
50115602 TCAAGAGTTA-TA-CAATATTCAAACAATAACAA
1 T-AA-A-ATAGTAGCAATATT--AACAATAA-AA
50115634 TAAAATAGTAGCAATAT
1 TAAAATAGTAGCAATAT
50115651 AATAGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
28 1 0.03
29 10 0.26
30 6 0.16
31 18 0.47
32 3 0.08
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.25
Consensus pattern (28 bp):
TAAAATAGTAGCAATATTAACAATAAAA
Found at i:50116105 original size:16 final size:15
Alignment explanation
Indices: 50116073--50116104 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50116063 GGTCCGCCCG
50116073 TATTAAATTTTGTTA
1 TATTAAATTTTGTTA
50116088 TATTAAATTTT-TTA
1 TATTAAATTTTGTTA
50116102 TAT
1 TAT
50116105 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTAAATTTTGTTA
Found at i:50118872 original size:107 final size:109
Alignment explanation
Indices: 50118667--50118957 Score: 453
Period size: 107 Copynumber: 2.7 Consensus size: 109
50118657 AAAACAAAAA
* *
50118667 AAAAATTATAAATAAGGTAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
1 AAAAATTTTAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
* *
50118732 GTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCC-TTTT
66 GTGTCGATTTTTCTCATTCAACCAAATGACTTAATATCCTTTTT
50118775 AAAAATTTTAAAT-AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
1 AAAAATTTTAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
50118839 GTGTCGATTTTTCTCATTCAACCAAATGACTTAATATCCTTTTT
66 GTGTCGATTTTTCTCATTCAACCAAATGACTTAATATCCTTTTT
* * ** * *
50118883 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GGACGTGCCCTAGGGTGCTG
1 AAAAATTT-TAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
50118947 GGTTTCGATTT
65 GGTGTCGATTT
50118958 ATCGTTTAAC
Statistics
Matches: 169, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
107 87 0.51
108 24 0.14
109 30 0.18
110 28 0.17
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
GTGTCGATTTTTCTCATTCAACCAAATGACTTAATATCCTTTTT
Found at i:50122807 original size:10 final size:10
Alignment explanation
Indices: 50122792--50122835 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
50122782 CCGAAGTCAA
*
50122792 AAAAAAGGAG
1 AAAAAAGAAG
50122802 AAAAAAGAAG
1 AAAAAAGAAG
50122812 AAAAAAGAA-
1 AAAAAAGAAG
50122821 AAATAAA-AAG
1 AAA-AAAGAAG
50122831 AAAAA
1 AAAAA
50122836 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:50122840 original size:5 final size:6
Alignment explanation
Indices: 50122813--50122847 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
50122803 AAAAAGAAGA
* *
50122813 AAAAAG AAAAAT AAAAAG AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
50122848 GGAGAGGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (6 bp):
AAAAAT
Found at i:50122840 original size:18 final size:18
Alignment explanation
Indices: 50122813--50122848 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50122803 AAAAAGAAGA
50122813 AAAAAGAAAAATAAAAAG
1 AAAAAGAAAAATAAAAAG
*
50122831 AAAAATAAAAATAAAAAG
1 AAAAAGAAAAATAAAAAG
50122849 GAGAGGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (18 bp):
AAAAAGAAAAATAAAAAG
Found at i:50123678 original size:7 final size:8
Alignment explanation
Indices: 50123650--50123686 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
50123640 AGTCCAAAAA
50123650 AAAAAGATG
1 AAAAA-ATG
50123659 AAAAAATG
1 AAAAAATG
50123667 AAAAAATG
1 AAAAAATG
50123675 -AAAAATG
1 AAAAAATG
50123682 AAAAA
1 AAAAA
50123687 GTAAAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.26
8 15 0.56
9 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:50123678 original size:15 final size:15
Alignment explanation
Indices: 50123650--50123695 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
50123640 AGTCCAAAAA
50123650 AAAAAGATGAAAAAATG
1 AAAAA-ATG-AAAAATG
50123667 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
*
50123682 AAAAAGT-AAAAATG
1 AAAAAATGAAAAATG
50123696 GAGAGGCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 7 0.25
15 13 0.46
16 3 0.11
17 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:50125271 original size:25 final size:25
Alignment explanation
Indices: 50125225--50125274 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
50125215 CAGTTAAAAA
* * *
50125225 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
50125250 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
50125275 ACGCCCCAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:50125501 original size:25 final size:25
Alignment explanation
Indices: 50125473--50125522 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
50125463 CAGTTAAAAA
* *
50125473 GATTAAAGCCACATCAGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
50125498 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
50125523 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:50125622 original size:125 final size:125
Alignment explanation
Indices: 50124976--50125610 Score: 1089
Period size: 124 Copynumber: 5.1 Consensus size: 125
50124966 CAATTCAAAC
* *
50124976 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
50125041 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACATTGCTGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
50125101 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCAAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
50125166 CAGTGGAACAGGATTAAAGCCAAA-TGGTGAATC-TGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATA-GATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
50125225 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC-AGCGGTG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
50125289 CAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTACAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
50125349 TATTAAAGCCACATCGGTGAATTTTGATTAAAGCTACAACAGCAAATCTTACG-CCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
50125413 CAATGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
50125473 GATTAAAGCCACATCAGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
50125538 CAGTGGAATAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
50125598 GATTAAAGCCACA
1 GATTAAAGCCACA
50125611 ATGACGAATC
Statistics
Matches: 480, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
122 13 0.03
123 26 0.05
124 267 0.56
125 161 0.34
126 13 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:50128158 original size:107 final size:109
Alignment explanation
Indices: 50127958--50128248 Score: 462
Period size: 107 Copynumber: 2.7 Consensus size: 109
50127948 AAAACAAAAA
* *
50127958 AAAAATTATAAATAAGGTAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
1 AAAAATTTTAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
*
50128023 GTGTCGATTTTTCTCGTTCAACCAAATGGTTTAATATCC-TTTT
66 GTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
50128066 AAAAATTTTAAAT-AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
1 AAAAATTTTAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
50128130 GTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
66 GTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
* * * ** *
50128174 AAAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAG-GGACGTGCCCTAAGGTGCTG
1 AAAAATTT-TAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
50128238 GGTTTCGATTT
65 GGTGTCGATTT
50128249 ATCGTTTAAC
Statistics
Matches: 170, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
107 88 0.52
108 24 0.14
109 31 0.18
110 27 0.16
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (109 bp):
AAAAATTTTAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
GTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
Found at i:50129535 original size:10 final size:9
Alignment explanation
Indices: 50129522--50129560 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
50129512 TTCATATATC
50129522 ATTATATTAA
1 ATTA-ATTAA
50129532 ATTAATTAA
1 ATTAATTAA
50129541 ATATAATTTAA
1 AT-TAA-TTAA
50129552 ATTAATTAA
1 ATTAATTAA
50129561 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 11 0.41
10 10 0.37
11 6 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTAATTAA
Found at i:50129558 original size:24 final size:24
Alignment explanation
Indices: 50129464--50129562 Score: 76
Period size: 24 Copynumber: 4.1 Consensus size: 24
50129454 ATCATTAGTT
*
50129464 TTAAAAATAATTTAAATTAATTAC
1 TTAAAAATAATTTAAATTAATTAA
* * *
50129488 TTAAAAATTATTTAAAATTTA-TAT
1 TTAAAAATAATTT-AAATTAATTAA
* * * *
50129512 TTCATATATCA-TTATATTAAATTAA
1 TT-AAAAATAATTTAAATT-AATTAA
*
50129537 TTAAATATAATTTAAATTAATTAA
1 TTAAAAATAATTTAAATTAATTAA
50129561 TT
1 TT
50129563 TTTAAAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.07
24 33 0.57
25 21 0.36
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAAAAATAATTTAAATTAATTAA
Found at i:50129568 original size:16 final size:19
Alignment explanation
Indices: 50129524--50129560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50129514 CATATATCAT
50129524 TATA-TTAAATTAATTAAA
1 TATATTTAAATTAATTAAA
50129542 TATAATTTAAATTAATTAA
1 TAT-ATTTAAATTAATTAA
50129561 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 1 0.06
20 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATTTAAATTAATTAAA
Found at i:50139057 original size:18 final size:18
Alignment explanation
Indices: 50139034--50139068 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50139024 GCCAGGTGCA
*
50139034 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
50139052 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
50139069 ATTTCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:50139355 original size:21 final size:21
Alignment explanation
Indices: 50139315--50139355 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50139305 TCAACACCCA
**
50139315 CAACCACAACCCCCGTCGGAG
1 CAACCACAACCCCCACCGGAG
50139336 CAACCACAACCCCCACCGGA
1 CAACCACAACCCCCACCGGA
50139356 AGCTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.51, G:0.15, T:0.02
Consensus pattern (21 bp):
CAACCACAACCCCCACCGGAG
Found at i:50142783 original size:127 final size:123
Alignment explanation
Indices: 50142608--50142875 Score: 342
Period size: 127 Copynumber: 2.1 Consensus size: 123
50142598 GGCTAAACAG
* * *
50142608 GAACTATTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTCCAATAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCCAATAATTTTGCTGACAGTGCATC
* ** * *
50142673 TTACTTGAAGTGTTTT-TGACACT-ATTTGTTCAGAACCGTCTTCTCAAAATTTATTTTTTCAA
66 CTACTTGAAGCATTTTAT-A-A-TAACTT-TTCAAAACCGTCTTCTCAAAA-TTATTTTTTC-A
* *
50142735 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCCAATAATTTTGCTGACAGTGCATC
* *
50142800 CTGCTTGAAGCATTTTATAATAACTTTTCAAAACTGTCTTCTCAAAATTATTTTTTCA
66 CTACTTGAAGCATTTTATAATAACTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCA
*
50142858 GAAACTACTATAAAAAAA
1 G-AACTACTATAGAAAAA
50142876 ACAAAAGTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
123 2 0.02
124 25 0.20
125 20 0.16
126 4 0.03
127 73 0.58
128 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (123 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCCAATAATTTTGCTGACAGTGCATC
CTACTTGAAGCATTTTATAATAACTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCA
Found at i:50145305 original size:14 final size:15
Alignment explanation
Indices: 50145254--50145308 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 15
50145244 TATATTTGGT
*
50145254 TTAAATCTTAATTAA
1 TTAAACCTTAATTAA
**
50145269 -TAAAAATTAATTAA
1 TTAAACCTTAATTAA
*
50145283 TTAAACCTTAATTAC
1 TTAAACCTTAATTAA
50145298 TT-AACCTTAAT
1 TTAAACCTTAAT
50145309 CACAATTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAACCTTAATTAA
Found at i:50145654 original size:15 final size:15
Alignment explanation
Indices: 50145634--50145665 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50145624 CTTTTCACTA
*
50145634 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
50145649 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
50145664 TT
1 TT
50145666 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:50147350 original size:56 final size:50
Alignment explanation
Indices: 50147132--50147380 Score: 327
Period size: 50 Copynumber: 4.8 Consensus size: 50
50147122 GATAATAACA
* ** * *
50147132 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
50147183 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
50147233 TGCCAATGCCATGACCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
50147283 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
50147338 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
50147381 TTACCCAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
50 96 0.55
51 33 0.19
53 3 0.02
54 1 0.01
55 2 0.01
56 40 0.23
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:50147496 original size:13 final size:13
Alignment explanation
Indices: 50147475--50147506 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50147465 GCTTGGATCA
*
50147475 TCATCAAATAAAT
1 TCATAAAATAAAT
50147488 TCATAAAATAAAT
1 TCATAAAATAAAT
50147501 TCATAA
1 TCATAA
50147507 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:50150552 original size:13 final size:13
Alignment explanation
Indices: 50150534--50150558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50150524 AATTTTAATA
50150534 TTATTTTGTGTGT
1 TTATTTTGTGTGT
50150547 TTATTTTGTGTG
1 TTATTTTGTGTG
50150559 CATTTGATTC
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:50150697 original size:44 final size:44
Alignment explanation
Indices: 50150649--50150739 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
50150639 TGAAAATTTA
50150649 GGGGTTAATTATAAAAGCACCTAATTGTTGATGTCTTTTTAAAT
1 GGGGTTAATTATAAAAGCACCTAATTGTTGATGTCTTTTTAAAT
50150693 GGGGTTAATTATAAAAGCACCTAATTGTTGATGTCTTTTTAAAT
1 GGGGTTAATTATAAAAGCACCTAATTGTTGATGTCTTTTTAAAT
50150737 GGG
1 GGG
50150740 AGGATTTATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (44 bp):
GGGGTTAATTATAAAAGCACCTAATTGTTGATGTCTTTTTAAAT
Found at i:50157542 original size:24 final size:23
Alignment explanation
Indices: 50157495--50157538 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50157485 GCACGTAAAT
*
50157495 TATTTAAAATATAAATATTATAA
1 TATTTAAAATAAAAATATTATAA
50157518 TATTTAATAATAAAAAT-TTAT
1 TATTTAA-AATAAAAATATTAT
50157539 TAATGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTTAAAATAAAAATATTATAA
Found at i:50157666 original size:2 final size:2
Alignment explanation
Indices: 50157659--50157686 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50157649 TGATATTTAA
50157659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50157687 TCATCACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50163460 original size:26 final size:28
Alignment explanation
Indices: 50163395--50163466 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
50163385 ATAAGAAAAT
* *
50163395 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
50163425 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
50163452 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
50163467 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:50163615 original size:66 final size:63
Alignment explanation
Indices: 50163545--50163743 Score: 175
Period size: 66 Copynumber: 3.2 Consensus size: 63
50163535 AAATATATTT
50163545 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATT-ATATAA
50163610 G
63 G
* * * * * **
50163611 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-TATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTATATAAG
* *
50163665 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAA-TTATATAA
50163730 G
63 G
*
50163731 AATATTGATTATT
1 AATATTAATTATT
50163744 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 8 0.08
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:50163631 original size:120 final size:120
Alignment explanation
Indices: 50163507--50163804 Score: 508
Period size: 120 Copynumber: 2.5 Consensus size: 120
50163497 AATTATTTTA
* * *
50163507 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
50163571 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
50163627 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
50163692 ATAGTATCATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50163747 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
50163805 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 160 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50163647 original size:61 final size:60
Alignment explanation
Indices: 50163577--50163767 Score: 187
Period size: 61 Copynumber: 3.2 Consensus size: 60
50163567 CTTTTATAGT
50163577 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTGAGTAAATT-ATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
50163638 ATTATATATT-TTAATT-A-T-AATATATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGT
1 ATCATATATTATGATTTGAGTAAAT-TATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-A
*
50163697 ATCATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTGAGTAAA-TTATATAAGAATATTAATTATTAAGAATTTTATTAA
50163758 ATCATATATT
1 ATCATATATT
50163768 TTAATTATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.18
60 16 0.16
61 28 0.28
62 6 0.06
63 11 0.11
64 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (60 bp):
ATCATATATTATGATTTGAGTAAATTATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:50163667 original size:15 final size:15
Alignment explanation
Indices: 50163632--50163683 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50163622 TTAAGAATTT
*
50163632 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50163646 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50163660 TATTTAATAATAAT-
1 TATTTAATTATAATA
50163674 TATGTTAATT
1 TAT-TTAATT
50163684 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.