Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 170 of 328
Found at i:50062860 original size:81 final size:81
Alignment explanation
Indices: 50062694--50062845 Score: 259
Period size: 81 Copynumber: 1.9 Consensus size: 81
50062684 CATAAATCAA
* * * *
50062694 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTTGTAATTTTATAAACCAAGGGTATTTTAGT
1 GGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGT
50062759 AATTTTACAAACGAAG
66 AATTTTACAAACGAAG
*
50062775 GGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTCAGT
1 GGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGT
50062840 AATTTT
66 AATTTT
50062846 GTGAATCGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
GGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGT
AATTTTACAAACGAAG
Found at i:50062869 original size:27 final size:27
Alignment explanation
Indices: 50062838--50063147 Score: 331
Period size: 27 Copynumber: 11.6 Consensus size: 27
50062828 GGGTATTTCA
* *
50062838 GTAATTTTGTGAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
50062865 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* * ** *
50062892 GTAATTCTGTAAATCGAGCATAATACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
50062919 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
* **
50062946 GTAATTCTAT-AATCGA-GGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
50062971 GTAA-TTTATAAATCGAGCGTAAAACT
1 GTAATTTTATAAATCGAGGGTAAAACG
* **
50062997 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACG
* * *
50063024 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
50063051 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
*
50063078 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
* * *
50063105 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACG
50063132 GTAATTCTT-TAAATCG
1 GTAATT-TTATAAATCG
50063148 GTGCTACTTT
Statistics
Matches: 239, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
24 4 0.02
25 18 0.08
26 16 0.07
27 199 0.83
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAACG
Found at i:50062886 original size:81 final size:81
Alignment explanation
Indices: 50062720--50063126 Score: 275
Period size: 81 Copynumber: 5.1 Consensus size: 81
50062710 TACAAACCAG
* * * ** **
50062720 GGGTATTTTTGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAAGGGTAATTTG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCG-AGGGTAAAATG
* * *
50062784 GTAATTTTACAAA-CCA
65 GTAATTCTATAAATCGA
* * *
50062800 GGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTCAGTAATTTTGTGAATCGAGGGTAAAACG
1 -GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATG
*
50062865 ATAATTCTATAAATCGA
65 GTAATTCTATAAATCGA
**** * * * ** * * *
50062882 GGGTAAAACGGTAATTCTGTAAATCGAGCATAATACGGTAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGG
50062947 TAATTCTAT-AATCGA
66 TAATTCTATAAATCGA
*** * * * * * *** * *
50062962 -GGTAAAATAGTAA-TTTATAAATCGAGCGTAAAACTGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGG
*
50063025 TAATTCTATAAATTGA
66 TAATTCTATAAATCGA
*** * * * *** * *
50063041 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGG
* * *
50063106 TAATTTTGTAAATCAA
66 TAATTCTATAAATCGA
50063122 GGGTA
1 GGGTA
50063127 AAACAGTAAT
Statistics
Matches: 271, Mismatches: 50, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
78 53 0.20
79 16 0.06
80 18 0.07
81 180 0.66
82 4 0.01
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGG
TAATTCTATAAATCGA
Found at i:50063054 original size:159 final size:162
Alignment explanation
Indices: 50062838--50063147 Score: 448
Period size: 159 Copynumber: 1.9 Consensus size: 162
50062828 GGGTATTTCA
* * *
50062838 GTAATTTTGTGAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTGTAAATCGAGGGTAAAAAGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
* * * *
50062903 AATCGAGCATAATACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTAT-AATCGA-GGTA
66 AATCAAGCATAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTA
*
50062966 AAATAGTAATT-TATAAATCGAGCGTAAAACT
131 AAACAGTAATTCTATAAATCGAGCGTAAAACT
* *
50062997 GTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATTGAGGGTAAAATGGTAATTCTAT
1 GTAATTTTGTAAATCGAGGGTAAAA-AGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTAT
** * *
50063061 AAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGT
65 AAATCAAGCATAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGT
*
50063126 AAAACAGTAATTCTTTAAATCG
130 AAAACAGTAATTCTATAAATCG
50063148 GTGCTACTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
159 104 0.79
160 6 0.05
161 14 0.11
162 8 0.06
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (162 bp):
GTAATTTTGTAAATCGAGGGTAAAAAGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
AATCAAGCATAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTA
AAACAGTAATTCTATAAATCGAGCGTAAAACT
Found at i:50063248 original size:80 final size:82
Alignment explanation
Indices: 50063152--50063307 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 82
50063142 AAATCGGTGC
*
50063152 TACTTTGATAAATTTACAAGTCG-AGGATATTTCAATAATTTTAC-AATCGACAGTATTTTGGTA
1 TACTTTGATAAATTTACAAGTCGAAGG-TATTTCAATAATTTTACAAATCGACAGTATTTCGGTA
50063215 ATATTA-TAAACCGGGGG
65 ATATTAGTAAACCGGGGG
* * * **
50063232 TACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAA
1 TACTTTGATAAATTTACAAGTCGAAGGTATTTCAATAATTTTACAAATCGACAGTATTTCGGTAA
*
50063297 TTTTAGTAAAC
66 TATTAGTAAAC
50063308 TAAAGTATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 37 0.56
81 24 0.36
82 5 0.08
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (82 bp):
TACTTTGATAAATTTACAAGTCGAAGGTATTTCAATAATTTTACAAATCGACAGTATTTCGGTAA
TATTAGTAAACCGGGGG
Found at i:50063260 original size:27 final size:27
Alignment explanation
Indices: 50063164--50063301 Score: 113
Period size: 27 Copynumber: 5.1 Consensus size: 27
50063154 CTTTGATAAA
* **
50063164 TTTACAAGTCG-AGGATATTTCAATAAT
1 TTTACAAATCGAAGG-TATTTCGGTAAT
*
50063191 TTTAC-AATCGACA-GTATTTTGGTAAT
1 TTTACAAATCGA-AGGTATTTCGGTAAT
* * * **
50063217 ATTATAAACCGGGGGTACTTT-GGTAAT
1 TTTACAAATCGAAGGTA-TTTCGGTAAT
* *
50063244 TTTACAAGTCGAAGGTATTTCAGTAAT
1 TTTACAAATCGAAGGTATTTCGGTAAT
*
50063271 TTTACAAATCGAGGGTATTTCGGTAAT
1 TTTACAAATCGAAGGTATTTCGGTAAT
50063298 TTTA
1 TTTA
50063302 GTAAACTAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
26 19 0.22
27 63 0.73
28 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTACAAATCGAAGGTATTTCGGTAAT
Found at i:50063270 original size:54 final size:53
Alignment explanation
Indices: 50063173--50063301 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 53
50063163 ATTTACAAGT
* ** ** *
50063173 CGAGGATATTTCAATAATTTTACAATCGACAGTATTTTGGTAATATTATAAAC
1 CGAGGGTATTTCGGTAATTTTACAATCGACAGTATTTCAGTAATATTACAAAC
* * *
50063226 CGGGGGTACTTT-GGTAATTTTACAAGTCGA-AGGTATTTCAGTAATTTTACAAAT
1 CGAGGGTA-TTTCGGTAATTTTACAA-TCGACA-GTATTTCAGTAATATTACAAAC
50063280 CGAGGGTATTTCGGTAATTTTA
1 CGAGGGTATTTCGGTAATTTTA
50063302 GTAAACTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 21 0.34
54 41 0.66
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (53 bp):
CGAGGGTATTTCGGTAATTTTACAATCGACAGTATTTCAGTAATATTACAAAC
Found at i:50065704 original size:24 final size:25
Alignment explanation
Indices: 50065677--50065728 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
50065667 GCCTAGCCTC
*
50065677 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
*
50065701 TTTTGATAAACTGAGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
50065726 TTT
1 TTT
50065729 CGGTAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGAGGCAAAGCCCT
Found at i:50065712 original size:25 final size:25
Alignment explanation
Indices: 50065684--50065753 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
50065674 CTCTTTTAAT
*
50065684 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
50065709 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
** *
50065734 AACAAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50065754 AGCACTTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:50065986 original size:27 final size:27
Alignment explanation
Indices: 50065957--50066227 Score: 366
Period size: 27 Copynumber: 10.1 Consensus size: 27
50065947 GGGCAAAATG
* * * * *
50065957 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
50065984 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
50066010 GTAATTCTACCCTACA-GGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
50066036 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
50066063 GTAATTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
50066090 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
50066117 GTATTTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
50066144 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
50066171 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
50066198 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
50066225 GTA
1 GTA
50066228 TTTTACGAAT
Statistics
Matches: 218, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
25 8 0.04
26 32 0.15
27 178 0.82
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:50066299 original size:80 final size:80
Alignment explanation
Indices: 50066252--50066418 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 80
50066242 GGTTTTTCGA
** * * * *
50066252 TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTGGTAATTTTATAAA
1 TAATTTCACAAACCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTATTTAGTAATTTTACAAA
50066317 CCAAGGGTATTTTAG
66 CCAAGGGTATTTTAG
* * * * **
50066332 TAATTTTACAAACCAAGGGTAATTTGGTAATTTTACGAACTAGGGGTATTTTGGTAATTTTTGTA
1 TAATTTCACAAACCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTA-TTTAGTAA-TTTTACA
50066397 AACCAAGGGT-TTTTAG
64 AACCAAGGGTATTTTAG
50066413 TAATTT
1 TAATTT
50066419 TGTAAATCAA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 41 0.53
81 20 0.26
82 16 0.21
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (80 bp):
TAATTTCACAAACCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTATTTAGTAATTTTACAAA
CCAAGGGTATTTTAG
Found at i:50066420 original size:26 final size:27
Alignment explanation
Indices: 50066268--50066433 Score: 192
Period size: 27 Copynumber: 6.2 Consensus size: 27
50066258 CACAAATTAG
*
50066268 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
50066295 GGGTA-TTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
50066321 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
50066348 GGGTAATTTGGTAATTTTACGAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
50066375 GGGTATTTTGGTAATTTTTGTAAACCAA
1 GGGTATTTTGGTAA-TTTTACAAACCAA
* ** *
50066403 GGGT-TTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
50066429 GGGTA
1 GGGTA
50066434 AAACGGTAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 40 0.34
27 67 0.56
28 12 0.10
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:50066442 original size:27 final size:27
Alignment explanation
Indices: 50066412--50066722 Score: 406
Period size: 27 Copynumber: 11.5 Consensus size: 27
50066402 AGGGTTTTTA
* * *
50066412 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
50066439 GTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* **
50066466 GTAATTCTGTAAATCGAGTATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
50066493 ATAATTTTGTAAATCGAGGGTAAAATT
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
50066520 GTATTTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
50066547 GTAATTTTATAAATCGAGGGTAAAACT
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
50066574 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
50066601 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
50066628 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
50066655 GTAATTCTATAAATAGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
50066682 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
50066709 GTAATTCTATAAAT
1 GTAATTCTATAAAT
50066723 TGGGGTTACT
Statistics
Matches: 247, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 247 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:50066757 original size:81 final size:81
Alignment explanation
Indices: 50066412--50066722 Score: 462
Period size: 81 Copynumber: 3.8 Consensus size: 81
50066402 AGGGTTTTTA
* * * *
50066412 GTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAACGGTAATTCTGTA
1 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
**
50066477 AATCGAGTATAAAAC-
66 AATCGAGGGTAAAACT
* * * *
50066492 GATAATTTTGTAAATCGAGGGTAAAATTGTATTTCTATAAATCGAGGGTAAAATGGTAATTTTAT
1 G-TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTAT
50066557 AAATCGAGGGTAAAACT
65 AAATCGAGGGTAAAACT
*
50066574 GTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
*
50066639 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACT
* * * *
50066655 GTAATTCTATAAATAGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
50066720 AAT
66 AAT
50066723 TGGGGTTACT
Statistics
Matches: 208, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
80 1 0.00
81 206 0.99
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAACT
Found at i:50066767 original size:27 final size:26
Alignment explanation
Indices: 50066737--50066878 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 26
50066727 GTTACTTTGA
* *
50066737 TAATTTTTCAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTC-G
*
50066764 TAATTTTAC-AATCGACGGTATTTCG
1 TAATTTTACAAATCGAGGGTATTTCG
* * *
50066789 ATAATTTTATAAACCGGGGGTATTTTCG
1 -TAATTTTACAAATCGAGGGTA-TTTCG
* * *
50066817 TAATTTAACAAGTCGAAGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTC-G
50066844 TAATTTTACAAATCGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTC-G
50066871 TAATTTTA
1 TAATTTTA
50066879 ATAAACTAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 25 0.27
27 63 0.67
28 5 0.05
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (26 bp):
TAATTTTACAAATCGAGGGTATTTCG
Found at i:50066893 original size:54 final size:53
Alignment explanation
Indices: 50066735--50066879 Score: 170
Period size: 54 Copynumber: 2.7 Consensus size: 53
50066725 GGGTTACTTT
* * *
50066735 GATAATTTTTCAAGTCGAGGGTATTTCAGTAATTTT-ACAATCGACGGTATTTC
1 GATAATTTTACAAATCGAGGGTATTTC-GTAATTTTAACAATCGAAGGTATTTC
* * *
50066788 GATAATTTTATAAACCGGGGGTATTTTCGTAA-TTTAACAAGTCGAAGGTATTTC
1 GATAATTTTACAAATCGAGGGTA-TTTCGTAATTTTAACAA-TCGAAGGTATTTC
50066842 -AGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTAA
1 GA-TAATTTTACAAATCGAGGGTATTTC-GTAATTTTAA
50066880 TAAACTAAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
52 3 0.04
53 31 0.40
54 38 0.49
55 5 0.06
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (53 bp):
GATAATTTTACAAATCGAGGGTATTTCGTAATTTTAACAATCGAAGGTATTTC
Found at i:50068595 original size:71 final size:71
Alignment explanation
Indices: 50068509--50068672 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50068499 CGATTTGTCT
50068509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50068574 CTTTCA
66 CTTTCA
50068580 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50068645 CTTTCA
66 CTTTCA
50068651 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50068673 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50068710 original size:71 final size:70
Alignment explanation
Indices: 50068509--50068706 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
50068499 CGATTTGTCT
* * * *
50068509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50068574 CTTTCA
65 CTTTCA
* * * *
50068580 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50068645 CTTTCA
65 CTTTCA
* *
50068651 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
50068707 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50076171 original size:71 final size:71
Alignment explanation
Indices: 50076085--50076248 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50076075 CGATTTGTCT
50076085 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50076150 CTTTCA
66 CTTTCA
50076156 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50076221 CTTTCA
66 CTTTCA
50076227 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50076249 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50076286 original size:71 final size:70
Alignment explanation
Indices: 50076085--50076282 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
50076075 CGATTTGTCT
* * * *
50076085 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50076150 CTTTCA
65 CTTTCA
* * * *
50076156 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50076221 CTTTCA
65 CTTTCA
* *
50076227 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
50076283 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50083054 original size:53 final size:54
Alignment explanation
Indices: 50082986--50083189 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
50082976 TTCCTTTTTA
* * *
50082986 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
50083039 AACTCACCATTGCCATGCCTTG-CATGGTCTTACATGGGAT-TTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
50083091 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
50083146 AACTTA-CAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
50083190 AAACCTAATG
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
51 9 0.07
52 17 0.14
53 69 0.56
54 19 0.15
55 9 0.07
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:50097287 original size:3 final size:3
Alignment explanation
Indices: 50097183--50097268 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
50097173 TCCTCCTATC
50097183 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
50097231 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50097269 TTCATTTCAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50100187 original size:13 final size:13
Alignment explanation
Indices: 50100169--50100197 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50100159 TTTAGTTTAA
50100169 TTAGTTAATTAGT
1 TTAGTTAATTAGT
50100182 TTAGTTAATTAGT
1 TTAGTTAATTAGT
50100195 TTA
1 TTA
50100198 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:50107720 original size:123 final size:123
Alignment explanation
Indices: 50107501--50107839 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
50107491 GAATTATGTG
50107501 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
50107566 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
50107624 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
50107689 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
50107747 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
50107812 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
50107840 AATTATATCC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:50108005 original size:40 final size:40
Alignment explanation
Indices: 50107808--50108011 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 40
50107798 TGAATGATAC
* * * * **
50107808 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
50107848 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
50107888 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
50107928 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* **
50107968 CCGGGCTAAGACCC-AAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAA-GGCATTTGTGCAAGTGGTTATAT
50108008 CCGG
1 CCGG
50108012 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 2 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:50118523 original size:123 final size:123
Alignment explanation
Indices: 50118241--50118578 Score: 579
Period size: 123 Copynumber: 2.8 Consensus size: 123
50118231 GAATTATGTG
50118241 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
50118306 GCTAAGTCCCGAAGGCAA-TATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* *
50118363 AAATGAAATATGGATGTGTAATGATTATTGATATATGTATGTATAAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
50118428 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
50118486 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
50118551 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
50118579 AATTATATCC
Statistics
Matches: 203, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
122 81 0.40
123 122 0.60
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:50118744 original size:40 final size:40
Alignment explanation
Indices: 50118547--50118748 Score: 226
Period size: 40 Copynumber: 5.0 Consensus size: 40
50118537 TGAATGATAC
* * * * **
50118547 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
50118587 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
50118627 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
50118667 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* **
50118707 CCGGGCTAAGACCC-AAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAA-GGCATTTGTGCAAGTGGTTATAT
50118747 CC
1 CC
50118749 AGTTGTATTC
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 2 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:50127014 original size:17 final size:17
Alignment explanation
Indices: 50126975--50127017 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
50126965 CTATGATTGT
**
50126975 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
50126991 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
50127008 ATTGACATTT
1 ATTGACATTT
50127018 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:50127292 original size:43 final size:43
Alignment explanation
Indices: 50127253--50127351 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
50127243 GAAAAGGGTT
* * *
50127253 TAGCCCGGACGGGTAATTCGTTGATCTCAATTTAGAAAGGATC
1 TAGCCCGAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
*
50127296 TAGCCCAAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
1 TAGCCCGAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
50127339 TAGCCCGAACGGG
1 TAGCCCGAACGGG
50127352 GTTCCTTAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (43 bp):
TAGCCCGAACGGGTAATCCGTTGATCTCAATATAGAAAGGATC
Found at i:50146297 original size:28 final size:28
Alignment explanation
Indices: 50146266--50146336 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
50146256 TATGGTACTC
* *
50146266 AGTGTACGAAATATTGAGAATGGCACCT
1 AGTGTGCGAAATATTGAGAATGACACCT
* *
50146294 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACCT
*
50146322 AGTGTGCAAAATATT
1 AGTGTGCGAAATATT
50146337 AAATGATTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACCT
Found at i:50153186 original size:28 final size:28
Alignment explanation
Indices: 50153155--50153224 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
50153145 TATGGTACTC
* *
50153155 AGTGTACGAAATATTGAGAATGGCACCT
1 AGTGTGCGAAATATTGAGAATGACACCT
* *
50153183 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACCT
*
50153211 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
50153225 CAAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACCT
Found at i:50153487 original size:41 final size:43
Alignment explanation
Indices: 50153397--50153491 Score: 108
Period size: 41 Copynumber: 2.3 Consensus size: 43
50153387 CGGGCTTCGG
* * *
50153397 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCGAGATTTAA
50153440 GCCTAGCAGGCGA-AATGCCGGTG-AATGAGT-TC-AGATTTAAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCGAGATTT-AA
*
50153481 GTCTAGCAGGC
1 GCCTAGCAGGC
50153492 TTCGTGCCGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 4 0.09
41 19 0.41
42 11 0.24
43 12 0.26
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
GCCTAGCAGGCGATAATGCCGGTGAAATGATATCGAGATTTAA
Found at i:50166148 original size:9 final size:9
Alignment explanation
Indices: 50166134--50166182 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
50166124 AACTAAAATG
50166134 TTGAGAGAA
1 TTGAGAGAA
50166143 TTGAGAGAA
1 TTGAGAGAA
50166152 -TGA-ATGAA
1 TTGAGA-GAA
50166160 TTGAGAGAA
1 TTGAGAGAA
50166169 TT-AGGAGAA
1 TTGA-GAGAA
50166178 -TGAGA
1 TTGAGA
50166183 TTTGAATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 1 0.03
8 10 0.29
9 23 0.66
10 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:50168640 original size:29 final size:29
Alignment explanation
Indices: 50168579--50168677 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
50168569 AATGAGATTG
50168579 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
50168607 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
50168636 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
50168664 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50168678 GACTACTGTA
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:50172955 original size:40 final size:40
Alignment explanation
Indices: 50172909--50173173 Score: 262
Period size: 40 Copynumber: 6.6 Consensus size: 40
50172899 CTCGCACAAG
*
50172909 GCCTTCGGGTCTCAGCCCGGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-TCACTAGCATAAAT
* * *
50172949 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * * * * *
50172989 GCCTTCAGGTTTTGGCCCAGATATAGTAACTCGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * * *
50173029 GCCTTCGGATCTTAGTCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * * * *
50173069 GCCTTCGGGTTTTGGCCTGGATATAGTAACTCGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * * * * *
50173109 GCCTTCGGATCTTAGTCCGGATATAGTTACTTAACACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCATAAAT
* *
50173150 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
50173174 CATTCGAATA
Statistics
Matches: 177, Mismatches: 46, Indels: 3
0.78 0.20 0.01
Matches are distributed among these distances:
40 150 0.85
41 27 0.15
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:50173025 original size:80 final size:80
Alignment explanation
Indices: 50172941--50173135 Score: 338
Period size: 80 Copynumber: 2.4 Consensus size: 80
50172931 ATGATCACTA
*
50172941 GCATAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCAGGTTTTGGC
1 GCATAAATGCCTTC-GGATCTTAGTCCGGATATAGTCGCTAGCACAAATGCCTTCAGGTTTTGGC
50173005 CCAGATATAGTAACTC
65 CCAGATATAGTAACTC
*
50173021 GCATAAATGCCTTCGGATCTTAGTCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTGGCC
1 GCATAAATGCCTTCGGATCTTAGTCCGGATATAGTCGCTAGCACAAATGCCTTCAGGTTTTGGCC
**
50173086 TGGATATAGTAACTC
66 CAGATATAGTAACTC
50173101 GCATAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 GCATAAATGCCTTCGGATCTTAGTCCGGATATAGT
50173136 TACTTAACAC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
79 3 0.03
80 107 0.97
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (80 bp):
GCATAAATGCCTTCGGATCTTAGTCCGGATATAGTCGCTAGCACAAATGCCTTCAGGTTTTGGCC
CAGATATAGTAACTC
Found at i:50179612 original size:21 final size:21
Alignment explanation
Indices: 50179588--50179631 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
50179578 TAGCCGAGTT
50179588 AGAACCGTTTTACCCAACACA
1 AGAACCGTTTTACCCAACACA
50179609 AGAACCGTTTTACCCAACACA
1 AGAACCGTTTTACCCAACACA
50179630 AG
1 AG
50179632 GTAAGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (21 bp):
AGAACCGTTTTACCCAACACA
Found at i:50179886 original size:29 final size:29
Alignment explanation
Indices: 50179825--50179923 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
50179815 AATGAGATTG
50179825 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
50179853 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
50179882 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
50179910 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50179924 GACCTACTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:50189035 original size:24 final size:24
Alignment explanation
Indices: 50189003--50189055 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
50188993 AAGTCTGTCA
50189003 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
50189027 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
50189051 GGAGA
1 GGAGA
50189056 ACAGTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:50190508 original size:27 final size:26
Alignment explanation
Indices: 50190468--50190578 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
50190458 AGGAATCATC
*
50190468 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
50190495 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
50190522 CTGGTGGCTCTGCAACGATTATCT-ATT
1 CTGGTGGCTCTGCCAC-ATTATCTGA-T
* * * *
50190549 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
50190575 CTGG
1 CTGG
50190579 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
26 13 0.19
27 55 0.79
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:50190560 original size:54 final size:53
Alignment explanation
Indices: 50190468--50190578 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
50190458 AGGAATCATC
* * *
50190468 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCAACAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * *
50190522 CTGGTGGCTCTGCAACGATTATCT-ATTCTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCAACAATTATCTGA-TCTAGTGACTCTGCCACATTATCTGTT
50190575 CTGG
1 CTGG
50190579 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 13 0.26
54 37 0.74
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCAACAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:50196856 original size:24 final size:24
Alignment explanation
Indices: 50196824--50196872 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50196814 CTGTCAGGAA
50196824 AGGATTTAGGAGCTGATAAGGGAG
1 AGGATTTAGGAGCTGATAAGGGAG
*
50196848 AGGATTTAGGAGCTGATTAGGGAG
1 AGGATTTAGGAGCTGATAAGGGAG
50196872 A
1 A
50196873 ACAATGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (24 bp):
AGGATTTAGGAGCTGATAAGGGAG
Found at i:50198323 original size:27 final size:26
Alignment explanation
Indices: 50198283--50198393 Score: 159
Period size: 27 Copynumber: 4.2 Consensus size: 26
50198273 AGGAAGCGTC
* *
50198283 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
50198310 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
50198337 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
50198364 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
50198390 CTGG
1 CTGG
50198394 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:50198367 original size:54 final size:53
Alignment explanation
Indices: 50198283--50198393 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
50198273 AGGAAGCGTC
*
50198283 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
50198337 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
50198390 CTGG
1 CTGG
50198394 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:50203568 original size:13 final size:13
Alignment explanation
Indices: 50203550--50203574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50203540 CTATGACAAG
50203550 ATTACTTCAAAAC
1 ATTACTTCAAAAC
50203563 ATTACTTCAAAA
1 ATTACTTCAAAA
50203575 GGATGTTAAG
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTACTTCAAAAC
Found at i:50210722 original size:48 final size:48
Alignment explanation
Indices: 50210646--50210742 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
50210636 ATCGCTGATA
*
50210646 CCTTTTCTATCTTTGATGTTACTGTGAATGCATTAATTGACCCTGGGT
1 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
50210694 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
1 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
50210742 C
1 C
50210743 AACACAACCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (48 bp):
CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
Found at i:50216404 original size:85 final size:85
Alignment explanation
Indices: 50216280--50216440 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 85
50216270 AGGATTTTCG
* * *
50216280 ATATGTGATTTCGTGTAAGACAACTTCTAAGACATTGGCATCGAT-TTGAGATATACATGTAAGA
1 ATATGTGATTTCGTGTAAGACAACTTCTAAGACAGTGGCATCAATATT-ACAT-TACATGTAAGA
*
50216344 CCATGTCTGGGACATCGGCATC
64 CCACGTCTGGGACATCGGCATC
* * * *
50216366 ATATTTGATTTCGT-TAAGAC-CCTGTCTGAGACAGTGGCATCAATATTTCATTACATGTAAGAC
1 ATATGTGATTTCGTGTAAGACAACT-TCTAAGACAGTGGCATCAATATTACATTACATGTAAGAC
50216429 CACGTCTGGGAC
65 CACGTCTGGGAC
50216441 TTGGCATTGT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
84 25 0.38
85 25 0.38
86 15 0.23
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (85 bp):
ATATGTGATTTCGTGTAAGACAACTTCTAAGACAGTGGCATCAATATTACATTACATGTAAGACC
ACGTCTGGGACATCGGCATC
Found at i:50216446 original size:42 final size:42
Alignment explanation
Indices: 50216333--50216447 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 42
50216323 ATTTGAGATA
* * *
50216333 TACATGTAAGACCATGTCTGGGACATCGGCATCATATTTGAT
1 TACATGTAAGACCACGTCTGGGACATTGGCATCATATTTCAT
* * * *
50216375 TTCGT-TAAGACC-CTGTCTGAGACAGTGGCATCAATATTTCAT
1 TACATGTAAGACCAC-GTCTGGGACATTGGCATC-ATATTTCAT
50216417 TACATGTAAGACCACGTCTGGGAC-TTGGCAT
1 TACATGTAAGACCACGTCTGGGACATTGGCAT
50216448 TGTACGAGTT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
41 22 0.38
42 20 0.34
43 15 0.26
44 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
TACATGTAAGACCACGTCTGGGACATTGGCATCATATTTCAT
Found at i:50222257 original size:30 final size:30
Alignment explanation
Indices: 50222223--50222283 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50222213 TCCTTAACTC
50222223 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
50222253 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
50222283 A
1 A
50222284 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:50223144 original size:5 final size:5
Alignment explanation
Indices: 50223106--50223134 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
50223096 ATACTCCGTG
50223106 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
50223135 ATGTTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:50225120 original size:40 final size:40
Alignment explanation
Indices: 50225076--50225185 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
50225066 TTCACAATTT
* *
50225076 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
50225116 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
50225156 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
50225186 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:50229245 original size:23 final size:23
Alignment explanation
Indices: 50229218--50229264 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50229208 GTAAGCGTAA
50229218 GTTTTTTATTGCCAAGGTTATGT
1 GTTTTTTATTGCCAAGGTTATGT
50229241 GTTTTTTATTGCCAAGGTTATGT
1 GTTTTTTATTGCCAAGGTTATGT
50229264 G
1 G
50229265 AGGCCCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.09, G:0.23, T:0.51
Consensus pattern (23 bp):
GTTTTTTATTGCCAAGGTTATGT
Found at i:50239765 original size:27 final size:28
Alignment explanation
Indices: 50239709--50239778 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
50239699 AAATTTGTAC
*
50239709 AGCACTAAGTGTACGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
50239737 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
50239764 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
50239779 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:50239789 original size:27 final size:27
Alignment explanation
Indices: 50239733--50239790 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
50239723 GAGTTTGATC
* * *
50239733 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
50239760 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
50239787 ATAT
1 ATAT
50239791 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:50250705 original size:46 final size:48
Alignment explanation
Indices: 50250583--50250712 Score: 162
Period size: 46 Copynumber: 2.8 Consensus size: 48
50250573 TGTAACCCGC
*
50250583 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * * *
50250633 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
50250676 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50250713 TGCCCAAATA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 31 0.45
47 29 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:50250731 original size:46 final size:45
Alignment explanation
Indices: 50250588--50250731 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
50250578 CCCGCCCATA
* *
50250588 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
50250636 A-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
50250681 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
50250727 AGTGA
1 AGTGA
50250732 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.47
47 30 0.39
48 5 0.07
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:50254006 original size:12 final size:11
Alignment explanation
Indices: 50253983--50254016 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
50253973 CTTCATTTCT
50253983 TACCCAAAACC
1 TACCCAAAACC
50253994 TACCCATAAACC
1 TACCCA-AAACC
50254006 TACACCAAAAC
1 TAC-CCAAAAC
50254017 ATACATTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 12 0.57
13 3 0.14
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (11 bp):
TACCCAAAACC
Found at i:50254203 original size:2 final size:2
Alignment explanation
Indices: 50254191--50254220 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
50254181 AATAATCTTA
*
50254191 AT AT GT 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
50254221 CAATACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50258572 original size:21 final size:20
Alignment explanation
Indices: 50258544--50258582 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50258534 TCTCTTTGGG
*
50258544 ATAATATATGTTCTCTCAAT
1 ATAATATATGTTATCTCAAT
*
50258564 ATAATTATATTTTATCTCA
1 ATAA-TATATGTTATCTCA
50258583 TGGTAACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
ATAATATATGTTATCTCAAT
Found at i:50260566 original size:18 final size:18
Alignment explanation
Indices: 50260539--50260591 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
50260529 TTACAATTCA
*
50260539 AAAAAATATAAAAAGTCT
1 AAAAAATATAAAAAATCT
* *
50260557 AAAGAATATATAAAGAATTT
1 AAA-AA-ATATAAAAAATCT
50260577 AAAAAATATAAAAAA
1 AAAAAATATAAAAAA
50260592 AACCCTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAAATATAAAAAATCT
Found at i:50260588 original size:9 final size:9
Alignment explanation
Indices: 50260539--50260591 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
50260529 TTACAATTCA
50260539 AAAAAATAT
1 AAAAAATAT
* *
50260548 AAAAAGTCT
1 AAAAAATAT
50260557 AAAGAATATAT
1 AAA-AA-ATAT
* *
50260568 AAAGAATTT
1 AAAAAATAT
50260577 AAAAAATAT
1 AAAAAATAT
50260586 AAAAAA
1 AAAAAA
50260592 AACCCTAAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 26 0.76
10 3 0.09
11 5 0.15
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:50260820 original size:17 final size:16
Alignment explanation
Indices: 50260798--50260829 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
50260788 ACTTTACTCT
50260798 ATAATTTAAATATAATC
1 ATAATTTAAAT-TAATC
50260815 ATAATTTAAATTAAT
1 ATAATTTAAATTAAT
50260830 AAAACTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTAAATTAATC
Found at i:50267917 original size:5 final size:6
Alignment explanation
Indices: 50267900--50267929 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
50267890 ATAATATCTC
50267900 TCTTTT TCTTTT TCTTTT TC-TTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
50267930 AAATTACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:50267923 original size:11 final size:12
Alignment explanation
Indices: 50267900--50267929 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
50267890 ATAATATCTC
50267900 TCTTTTTCTTTT
1 TCTTTTTCTTTT
50267912 TCTTTTTC-TTT
1 TCTTTTTCTTTT
50267923 TCTTTTT
1 TCTTTTT
50267930 AAATTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:50275086 original size:46 final size:46
Alignment explanation
Indices: 50274974--50275191 Score: 203
Period size: 46 Copynumber: 4.6 Consensus size: 46
50274964 CTTCGAGGAC
* * *
50274974 GATGCCATGTCACAGACATGGTCTTACACTAGCTCTCGTATATACGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTC-TATA-ATGTGCT
* *
50275024 GATGCATTTCCTAGACATGTCTTACACTAGCACT-TATAATGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCTATAATGT-GCT
* * *
50275070 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAA--TGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTC-TAT-AATGTGCT
* * *
50275116 GATGCCATGTCCCATACATGGTCTTACACTGGCTA-TC-ATAATGTGGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCTATAATGT-GCT
50275164 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
50275192 GGTGCACAAA
Statistics
Matches: 141, Mismatches: 17, Indels: 24
0.77 0.09 0.13
Matches are distributed among these distances:
45 5 0.04
46 55 0.39
47 28 0.20
48 36 0.26
49 13 0.09
50 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCTATAATGTGCT
Found at i:50275106 original size:94 final size:94
Alignment explanation
Indices: 50274923--50275191 Score: 296
Period size: 94 Copynumber: 2.8 Consensus size: 94
50274913 GGATAAGTTA
* * ** * *
50274923 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGAC-GATGCCATGTCAC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAAT-GTGG-CTGATG-CATGTCCC
*
50274987 AGACATGGTCTTACACTAGCTCTCGTAT-ATACGTG
63 AGACAT-GTCTTACACTAGCCCTCGTATCA-A--TG
* * * *
50275022 CTGATG-CATTTCCTAGACAT-GTCTTACACTAGC-ACTTATAATGTGGCTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATAATGTGGCTGATGCATGTCCCAG
*
50275084 ACATGTCTTACACTAGCCCTCGTCTCAATG
65 ACATGTCTTACACTAGCCCTCGTATCAATG
* * *
50275114 CCGATGCCATGTCCCATACATGGTCTTACACTGGCTATCATAATGTGGTTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATGCATGTCCCAGA
50275179 CATGTCTTACACT
66 CATGTCTTACACT
50275192 GGTGCACAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
92 7 0.05
93 11 0.08
94 71 0.49
95 16 0.11
96 8 0.06
97 16 0.11
98 12 0.08
99 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCCTCGTATCAATG
Found at i:50278823 original size:57 final size:57
Alignment explanation
Indices: 50278735--50278848 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
50278725 ACCTGTAAAG
50278735 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
50278792 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
50278849 GATAACAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (57 bp):
AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
Found at i:50278900 original size:15 final size:17
Alignment explanation
Indices: 50278860--50278901 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
50278850 ATAACAAAAT
*
50278860 AAATAAATAATTATAAA
1 AAATAAAAAATTATAAA
*
50278877 AAATTAAAAATTA-AAA
1 AAATAAAAAATTATAAA
50278893 AAA-AAAAAA
1 AAATAAAAAA
50278902 ACAAAGTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 6 0.27
17 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAAAATTATAAA
Found at i:50285035 original size:19 final size:19
Alignment explanation
Indices: 50284989--50285059 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
50284979 CATCACTGGA
* *
50284989 ACACAAAGTGCATACTAGA
1 ACACAAAGTGCATCCTAGC
**
50285008 ACATGAAGTGCATCCTAGC
1 ACACAAAGTGCATCCTAGC
* * *
50285027 ACACAAAGTCCATTCTGGC
1 ACACAAAGTGCATCCTAGC
* *
50285046 ACACGAGGTGCATC
1 ACACAAAGTGCATC
50285060 TTGATGCATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (19 bp):
ACACAAAGTGCATCCTAGC
Found at i:50286441 original size:16 final size:17
Alignment explanation
Indices: 50286420--50286455 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
50286410 TTTATAGTGA
50286420 TTTTATCATTTTA-TTT
1 TTTTATCATTTTAGTTT
50286436 TTTTATCATTTTAGTTT
1 TTTTATCATTTTAGTTT
50286453 TTT
1 TTT
50286456 CTAGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATCATTTTAGTTT
Found at i:50287935 original size:2 final size:2
Alignment explanation
Indices: 50287928--50287972 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
50287918 AAATAAAGAA
50287928 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50287970 AG A
1 AG A
50287973 AAGTAATAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50297555 original size:46 final size:45
Alignment explanation
Indices: 50297504--50297678 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
50297494 TGGTTGAGTA
50297504 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
50297550 TCCGAACTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
50297596 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
50297642 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50297679 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 8 0.07
46 85 0.78
47 8 0.07
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:50300602 original size:15 final size:15
Alignment explanation
Indices: 50300582--50300637 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
50300572 GTATCTTGGG
50300582 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
50300597 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
50300612 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
50300627 TTTCTTTATTC
1 TTTCTTTATTC
50300638 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:50303085 original size:46 final size:46
Alignment explanation
Indices: 50303028--50303201 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
50303018 TGGTTGAGCA
*
50303028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * * * * *
50303074 TCCAAACTCGTTGAGTTGAGTTCGAGTT--C-GAGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAA--ATG
* * *
50303119 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * *
50303167 CCCGAGCTCGTTG-GTTTGATTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAG-TTGAGTCCGAGTTCACTTAT
50303202 GGGCGGGTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 3 0.03
46 57 0.55
47 25 0.24
48 2 0.02
49 1 0.01
50 7 0.07
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
Found at i:50303193 original size:93 final size:93
Alignment explanation
Indices: 50303025--50303195 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
50303015 GGATGGTTGA
* * *
50303025 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCAAACTCGTTGAGT
50303090 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTTCGAGTTCGAGAGATGTAACTAG
* * * *
50303118 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTG-GT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCAAACTCGTTGAG-
50303182 TTGA-TTCCGAGTTC
65 TTGAGTT-CGAGTTC
50303196 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 3 0.04
93 66 0.96
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCAAACTCGTTGAGT
TGAGTTCGAGTTCGAGAGATGTAACTAG
Found at i:50306324 original size:41 final size:41
Alignment explanation
Indices: 50306210--50306367 Score: 156
Period size: 41 Copynumber: 3.8 Consensus size: 41
50306200 TGCATGGCGA
* * * *
50306210 AGATTAATTTTGA-TTTTTCAATACCAACATGACGAGGTGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
* * * *
50306250 TGATTAATTTTGATTTATTTTTCAACATCAACATGGCGAGGTGG
1 AGATCAATTTT-A-AT-TTTTTCAACACCAACATGGCGAGGTGG
* * *
50306294 AGATCAATTTTAATTTTTTCAACATCAACATGGTGAGGGGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
* * *
50306335 AGATCAACTCTGATTTTTTCAACACCAACATGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGG
50306368 TGAGACAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
40 10 0.10
41 54 0.55
42 1 0.01
43 1 0.01
44 33 0.33
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (41 bp):
AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
Found at i:50306391 original size:40 final size:41
Alignment explanation
Indices: 50306306--50306411 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
50306296 ATCAATTTTA
* ****
50306306 ATTTTTTCAACATCAACATGGTGAGGGGGAGATCAACTCTG
1 ATTTTTTCAACACCAACATGGTGAGACAAAGATCAACTCTG
**
50306347 ATTTTTTCAACACCAACATGGTGAGACAAAGATCAGTTCT-
1 ATTTTTTCAACACCAACATGGTGAGACAAAGATCAACTCTG
* * *
50306387 ATTTTTTTACCACCAATATGGTGAG
1 ATTTTTTCAACACCAACATGGTGAG
50306412 GCAAGTGGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 22 0.40
41 33 0.60
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (41 bp):
ATTTTTTCAACACCAACATGGTGAGACAAAGATCAACTCTG
Found at i:50311812 original size:43 final size:43
Alignment explanation
Indices: 50311755--50311840 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
50311745 AAAAGTATAA
*
50311755 TTTTGCCAAAATGTGTAAATTGTGTTAAATTGAATGAATTAAT
1 TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
*
50311798 TTTTGCCAAAATGTGTAAATTTTATTAAATTGAATGAATTAAT
1 TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
50311841 GATTAAGTAA
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:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (43 bp):
TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
Found at i:50312205 original size:28 final size:28
Alignment explanation
Indices: 50312174--50312252 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
50312164 GACATCAAAT
*
50312174 ATGACACTTAGTGTGTGAAATATTGAGG
1 ATGACACTTAGTGTGTGAAATATTGAGA
* *
50312202 ATGACACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTGTGAAATATTGAGA
50312230 ATGACACTTAGTGTGTGAAATAT
1 ATGACACTTAGTGTGTGAAATAT
50312253 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.32
Consensus pattern (28 bp):
ATGACACTTAGTGTGTGAAATATTGAGA
Found at i:50316666 original size:15 final size:15
Alignment explanation
Indices: 50316646--50316675 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50316636 ACTGAGTCTA
50316646 GGGCTAATGCTTATT
1 GGGCTAATGCTTATT
50316661 GGGCTAATGCTTATT
1 GGGCTAATGCTTATT
50316676 ATCTCTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
GGGCTAATGCTTATT
Found at i:50320615 original size:40 final size:40
Alignment explanation
Indices: 50320566--50320752 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
50320556 TTGATGACAA
* * *
50320566 TTCGACTATGTATGCCACTTAGTGTATGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
*
50320606 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
* * *
50320646 TTCAGCAATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
* * * *
50320686 TTTGGCTATGTAAGGCACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTAC--GATTCAAGATAGC
* *
50320727 TTTGGCTATGTATTGACACTTAGTGT
1 TTCGGCTATGTA-TGGCACTTAGTGT
50320753 GTGAGAATTT
Statistics
Matches: 131, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
40 97 0.74
41 19 0.15
42 15 0.11
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
Found at i:50323325 original size:41 final size:41
Alignment explanation
Indices: 50323272--50323514 Score: 344
Period size: 41 Copynumber: 5.9 Consensus size: 41
50323262 TTGTAAAACA
* * * * *
50323272 CAGAGCAATAGCGGTGTTTTTTGTTAAAACGCCGCTAAA-AA
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
*
50323313 CAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
** *
50323354 CAGAGCATTAGCTACGCTTTTGTTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
50323395 CAGAGCACTAGCGGCGCTTTTGGTAAAATGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
*
50323436 CAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
50323477 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
50323515 AGTTATATAA
Statistics
Matches: 180, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 19 0.11
41 161 0.89
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:50323958 original size:24 final size:24
Alignment explanation
Indices: 50323931--50323979 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50323921 CGTATATTTG
50323931 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
50323955 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
50323979 T
1 T
50323980 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:50324585 original size:18 final size:19
Alignment explanation
Indices: 50324562--50324600 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50324552 AGATCTTTTT
50324562 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
50324580 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
50324599 TA
1 TA
50324601 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:50328995 original size:43 final size:43
Alignment explanation
Indices: 50328934--50329042 Score: 168
Period size: 43 Copynumber: 2.5 Consensus size: 43
50328924 TTTTTTAATT
50328934 TCATGA-CTTTTAGCGGCGTTTTT-GAGAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTTTGGA-AAAAGCGCCGCTAAAGG
*
50328977 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTTTGGAAAAAGCGCCGCTAAAGG
*
50329020 TCATGATCTTTAGTGGCGTTTTT
1 TCATGATCTTTAGCGGCGTTTTT
50329043 TCAAATAAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
43 58 0.95
44 3 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTTTGGAAAAAGCGCCGCTAAAGG
Found at i:50331112 original size:2 final size:2
Alignment explanation
Indices: 50331105--50331141 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
50331095 ACTACTTAAC
50331105 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
50331142 GCTGCTATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50333771 original size:46 final size:46
Alignment explanation
Indices: 50333668--50333793 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
50333658 GGGTTATTAT
* * *
50333668 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCTGCATCTAGACGA
1 GAGCCAGTGTAGGA-CATGTCTGGGACAT-GCATCGGCATCTAGACGA
* *
50333716 GAGCTAGTGTAGGACATGTCTGGGACATGCATCGGCCTCTAGACGTA
1 GAGCCAGTGTAGGACATGTCTGGGACATGCATCGGCATCTAGACG-A
50333763 -AGCCAGTGTAGGACATGTCTGGGACATGCAT
1 GAGCCAGTGTAGGACATGTCTGGGACATGCAT
50333794 TGGGTACGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 45 0.63
47 14 0.20
48 12 0.17
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAGGACATGTCTGGGACATGCATCGGCATCTAGACGA
Found at i:50333933 original size:49 final size:49
Alignment explanation
Indices: 50333672--50333939 Score: 160
Period size: 46 Copynumber: 5.6 Consensus size: 49
50333662 TATTATGAGC
* * *
50333672 CAGTGTAAGACCATGTTTGGGACATGGCATCTGCATC-TAGA--CGAGAG-
1 CAGTGTAAGACCATGTCT-GGACATGGCATCGGCA-CGTAGATGTGAGAGT
* * * *
50333719 CTAGTGTAGGA-CATGTCTGGGACAT-GCATCGGC-CTCTAGACGT-A-AGC
1 C-AGTGTAAGACCATGTCT-GGACATGGCATCGGCAC-GTAGATGTGAGAGT
* * *
50333766 CAGTGTAGGA-CATGTCTGGGACAT-GCATTGGGTACG-AGATGT----GT
1 CAGTGTAAGACCATGTCT-GGACATGGCA-TCGGCACGTAGATGTGAGAGT
* *
50333810 CAGTGTAAGACCATGTCTGGGACATGACATCGGCACGTATATGTGAGAG-
1 CAGTGTAAGACCATGTCT-GGACATGGCATCGGCACGTAGATGTGAGAGT
* * *
50333859 CTAGTGTAAGACCATGTCTGAGACATGGCGTCGGC-C-TCGATGATGATAGT
1 C-AGTGTAAGACCATGTCTG-GACATGGCATCGGCACGTAGATG-TGAGAGT
50333909 CAGTGTAAGACCATGTCTAGGACATGGCATC
1 CAGTGTAAGACCATGTCT-GGACATGGCATC
50333940 AACTCGAGAC
Statistics
Matches: 181, Mismatches: 20, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
44 11 0.06
45 20 0.11
46 51 0.28
47 19 0.10
48 13 0.07
49 35 0.19
50 32 0.18
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGACATGGCATCGGCACGTAGATGTGAGAGT
Found at i:50337795 original size:18 final size:18
Alignment explanation
Indices: 50337772--50337806 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
50337762 AGCTGCAGGT
50337772 AAGAATCGTAAGTTACAG
1 AAGAATCGTAAGTTACAG
50337790 AAGAATCGTAAGTTACA
1 AAGAATCGTAAGTTACA
50337807 TATTCAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (18 bp):
AAGAATCGTAAGTTACAG
Found at i:50341133 original size:17 final size:17
Alignment explanation
Indices: 50341108--50341143 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50341098 ATTTGCTTAT
50341108 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
* *
50341125 AAATGAATAAATTAATA
1 AAATAAATAAATAAATA
50341142 AA
1 AA
50341144 GGCTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:50348677 original size:20 final size:20
Alignment explanation
Indices: 50348652--50348689 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50348642 GTCACATATA
50348652 TCATGAACTCAGACCACACC
1 TCATGAACTCAGACCACACC
* *
50348672 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
50348690 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACACC
Found at i:50348816 original size:25 final size:25
Alignment explanation
Indices: 50348788--50348836 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
50348778 CCAGAGGACC
*
50348788 AATCATATAACTCATAATAATGATT
1 AATCACATAACTCATAATAATGATT
* * *
50348813 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATAATAATGAT
50348837 AATAATAAAG
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:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATAATAATGATT
Found at i:50355747 original size:25 final size:25
Alignment explanation
Indices: 50355719--50355813 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
50355709 CTCTTTTAAT
*
50355719 AACTGGGACAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
50355744 AACTGGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTT-GGTA
*
50355769 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
50355794 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50355814 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
24 7 0.11
25 52 0.80
26 6 0.09
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:50356207 original size:54 final size:54
Alignment explanation
Indices: 50356061--50356255 Score: 207
Period size: 54 Copynumber: 3.6 Consensus size: 54
50356051 TCTACCCTAC
* * * * ** * *
50356061 AGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTTGACAATTTCACAAATT
1 AGGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTACAAACT
* *
50356114 AGGGGTATTTTGGTAATTTTAC-AAGCCAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACTAATCGA-GGGTATTTTGGTAATTTTACAAACT
** *
50356168 AGGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTACAAACT
* * *
50356222 AAGGGTATTTTAGTAATTTT-TTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACT-AATCGAGGGTA
50356256 AAACGGTAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 17 0.14
54 100 0.83
55 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTACAAACT
Found at i:50356343 original size:27 final size:27
Alignment explanation
Indices: 50356075--50356366 Score: 187
Period size: 27 Copynumber: 10.8 Consensus size: 27
50356065 GTATTTCGAT
* * **
50356075 ATTTTACAAATCGAGAGTATTTTGACA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* * *
50356102 ATTTCACAAAT-TAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTA
* * *
50356129 ATTTTA-CAAGCCAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTA
* *
50356156 ATTTTACAAA-CTAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTA
50356183 ATTTTACT-AATCGAGGGTATTTTGGTA
1 ATTTTA-TAAATCGAGGGTATTTTGGTA
* * * *
50356210 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* ****
50356237 ATTTTTTAAATCGAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* * ****
50356264 ATTCTGTAAATCGAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* ***
50356291 ATTCTATAAATCGAGGGTAAAATGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* *
50356318 ATTCTATAAATCGAGGGTACTTTGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* * * *
50356345 TTTTTACAAATTGAGGGCATTT
1 ATTTTATAAATCGAGGGTATTT
50356367 CAATAATTTG
Statistics
Matches: 221, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.02
27 213 0.96
28 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTTTATAAATCGAGGGTATTTTGGTA
Found at i:50366458 original size:40 final size:40
Alignment explanation
Indices: 50366403--50366610 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
50366393 CGAATGATAC
*
50366403 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
50366443 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
50366483 CCGGGCTAAGACTCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
50366523 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
50366563 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
50366603 CC-GGCTAA
1 CCGGGCTAA
50366611 ATTCTGAAGA
Statistics
Matches: 142, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 6 0.04
40 134 0.94
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:50371736 original size:28 final size:28
Alignment explanation
Indices: 50371689--50371742 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
50371679 CGGCCATGAC
* *
50371689 ACACGGGCATGTGGCCTACCTGTGTGTA
1 ACACGGGCATGTGGACTACCAGTGTGTA
*
50371717 ACACGGGCATGTGGATTACCAGTGTG
1 ACACGGGCATGTGGACTACCAGTGTG
50371743 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.24
Consensus pattern (28 bp):
ACACGGGCATGTGGACTACCAGTGTGTA
Found at i:50376618 original size:29 final size:29
Alignment explanation
Indices: 50376584--50376715 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 29
50376574 TACTCGATTT
* * *
50376584 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
50376613 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* ** *
50376642 CGCACACTTAGTGCCATA-TATTTCCGGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *
50376671 TGCACACTTAGTGCCATA-TATTTCCAA-CA
1 CGCACACTTAGTGCCATACCA-TT-CAAGCC
50376700 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50376716 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
29 83 0.99
30 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:50380012 original size:23 final size:23
Alignment explanation
Indices: 50379988--50380279 Score: 270
Period size: 23 Copynumber: 12.5 Consensus size: 23
50379978 AATATAGTCA
* *
50379988 AAGCTATCACTATATTGTAGCCA
1 AAGCTACCACTATATTGTAGCCG
* *
50380011 AAGCTACCACTGTATTATAGCCG
1 AAGCTACCACTATATTGTAGCCG
* * *
50380034 AAGCTACCATTGAGA-TGTAGCCA
1 AAGCTACCACT-ATATTGTAGCCG
*
50380057 AAGCTACCACTGTATTGTAGCCG
1 AAGCTACCACTATATTGTAGCCG
*
50380080 AAGCTACCACTGAGA-TGTAGCCG
1 AAGCTACCACT-ATATTGTAGCCG
*
50380103 AAGCTACCACTATATTGCAGCCG
1 AAGCTACCACTATATTGTAGCCG
* *
50380126 AAGCTACCACTGAGA-TGTAGGCG
1 AAGCTACCACT-ATATTGTAGCCG
50380149 AAGCTACCACTATATTGTAGCCG
1 AAGCTACCACTATATTGTAGCCG
* *
50380172 AAGTTACCACTGTATTGTAGCCG
1 AAGCTACCACTATATTGTAGCCG
*
50380195 AAGCTACCACTGAGA-TGTAGCCAAAG
1 AAGCTACCACT-ATATTGTAGCC---G
* * *
50380221 CTAAGCTACCATTGAGA-TGTAGCCA
1 --AAGCTACCACT-ATATTGTAGCCG
*
50380246 AAGCTACCACTATATTGTAGTCG
1 AAGCTACCACTATATTGTAGCCG
* *
50380269 AAACTATCACT
1 AAGCTACCACT
50380280 GAGATGTAGC
Statistics
Matches: 221, Mismatches: 35, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
22 7 0.03
23 187 0.85
24 5 0.02
26 1 0.00
28 21 0.10
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
AAGCTACCACTATATTGTAGCCG
Found at i:50380030 original size:46 final size:46
Alignment explanation
Indices: 50380003--50380290 Score: 346
Period size: 46 Copynumber: 6.2 Consensus size: 46
50379993 ATCACTATAT
* * *
50380003 TGTAGCCAAAGCTACCACTGTATTATAGCCGAAGCTACCATTGAGA
1 TGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA
*
50380049 TGTAGCCAAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA
1 TGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA
* *
50380095 TGTAGCCGAAGCTACCACTATATTGCAGCCGAAGCTACCACTGAGA
1 TGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA
* * * *
50380141 TGTAGGCGAAGCTACCACTATATTGTAGCCGAAGTTACCACTGTA-T
1 TGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTG-AGA
* *
50380187 TGTAGCCGAAGCTACCACTG-AGATGTAGCCAAAGCTAAGCTACCATTGAGA
1 TGTAGCCGAAGCTACCACTGTA-TTGTAGCC---G--AAGCTACCACTGAGA
* * * * *
50380238 TGTAGCCAAAGCTACCACTATATTGTAGTCGAAACTATCACTGAGA
1 TGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA
50380284 TGTAGCC
1 TGTAGCC
50380291 TATAGATTCC
Statistics
Matches: 211, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.00
46 171 0.81
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 34 0.16
52 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (46 bp):
TGTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA
Found at i:50380262 original size:28 final size:28
Alignment explanation
Indices: 50380195--50380251 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
50380185 ATTGTAGCCG
*
50380195 AAGCTACCACTGAGATGTAGCCAAAGCT
1 AAGCTACCATTGAGATGTAGCCAAAGCT
50380223 AAGCTACCATTGAGATGTAGCCAAAGCT
1 AAGCTACCATTGAGATGTAGCCAAAGCT
50380251 A
1 A
50380252 CCACTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (28 bp):
AAGCTACCATTGAGATGTAGCCAAAGCT
Found at i:50381234 original size:14 final size:14
Alignment explanation
Indices: 50381215--50381243 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50381205 GAAAATTTCA
50381215 AAAGCATGGGGAAG
1 AAAGCATGGGGAAG
50381229 AAAGCATGGGGAAG
1 AAAGCATGGGGAAG
50381243 A
1 A
50381244 GAATGAGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.41, T:0.07
Consensus pattern (14 bp):
AAAGCATGGGGAAG
Found at i:50382905 original size:6 final size:6
Alignment explanation
Indices: 50382883--50382940 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
50382873 TCTTTAAAAT
* *
50382883 AAATACA AAATAC AAATAA AAATAA AAAT-A AAGTGAA AAATAA AAGATAAA
1 AAATA-A AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AA-AT-AA
50382934 AAATAA A
1 AAATAA A
50382941 TGGACTCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.09
6 22 0.51
7 13 0.30
8 4 0.09
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:50382912 original size:18 final size:18
Alignment explanation
Indices: 50382883--50382934 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
50382873 TCTTTAAAAT
50382883 AAATACAAAATACAAAT-AA
1 AAATA-AAAATA-AAATGAA
*
50382902 AAATAAAAATAAAGTGAA
1 AAATAAAAATAAAATGAA
50382920 AAATAAAAGATAAAA
1 AAATAAAA-ATAAAA
50382935 AATAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 16 0.55
19 10 0.34
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATAAAAATAAAATGAA
Found at i:50384575 original size:4 final size:4
Alignment explanation
Indices: 50384566--50384590 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50384556 GAAGACTAAT
50384566 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
50384591 TTGACTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:50384608 original size:16 final size:17
Alignment explanation
Indices: 50384589--50384621 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50384579 ATAAATAAAT
*
50384589 AATTGACTAA-AATTAA
1 AATTGAATAACAATTAA
50384605 AATTGAATAACAATTAA
1 AATTGAATAACAATTAA
50384622 GTAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AATTGAATAACAATTAA
Found at i:50385203 original size:20 final size:20
Alignment explanation
Indices: 50385153--50385203 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
50385143 TGTGGTCTCC
**
50385153 CACACGCCCAAGTGTCCGAA
1 CACACGCCCGTGTGTCCGAA
*
50385173 CACACGCCCGTGTGTTCGAA
1 CACACGCCCGTGTGTCCGAA
*
50385193 CACACGGCCGT
1 CACACGCCCGT
50385204 ATGGTTCACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.14
Consensus pattern (20 bp):
CACACGCCCGTGTGTCCGAA
Found at i:50389869 original size:50 final size:50
Alignment explanation
Indices: 50389754--50389932 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 50
50389744 ACATTTGGGT
* * *
50389754 TATTTGTGTGCTAGTGTAAGA-CATGTTTGGGACA-TGCATCGGCTAC-GA
1 TATTTGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATCGGC-ACAGA
* * *
50389802 GA--TG-TATC-AGTGTAAGACCATGTCTGGGACATTGCATCGGCACAGA
1 TATTTGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATCGGCACAGA
* *
50389848 TATTTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-A
1 TATTTGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATCGG-CACAGA
* * *
50389898 T-TTCGATAG-TCAGTGTAAGACCATGTCTAGGACAT
1 TATTTGAGAGCT-AGTGTAAGACCATGTCTGGGACAT
50389933 GACATTGGCA
Statistics
Matches: 109, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
44 9 0.08
45 15 0.14
46 14 0.13
48 4 0.04
49 31 0.28
50 33 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
TATTTGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATCGGCACAGA
Found at i:50389925 original size:99 final size:94
Alignment explanation
Indices: 50389754--50389932 Score: 234
Period size: 99 Copynumber: 1.9 Consensus size: 94
50389744 ACATTTGGGT
* * * *
50389754 TATTTGTGTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTATCAGTGTAAGA
1 TATTTGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTATCAGTGTAAGA
*
50389819 CCATGTCTGGGACATTGCATCGGCACAGA
66 CCATGTCTAGGACATTGCATCGGCACAGA
**
50389848 TATTTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CAATTTCGATAGTCAGT
1 TATTTGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACAAGAT-G-TA-TCAGT
50389912 GTAAGACCATGTCTAGGACAT
60 GTAAGACCATGTCTAGGACAT
50389933 GACATTGGCA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 19 0.26
95 13 0.18
96 10 0.14
97 3 0.04
98 2 0.03
99 25 0.35
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (94 bp):
TATTTGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTATCAGTGTAAGA
CCATGTCTAGGACATTGCATCGGCACAGA
Found at i:50389932 original size:49 final size:50
Alignment explanation
Indices: 50389808--50389942 Score: 168
Period size: 49 Copynumber: 2.7 Consensus size: 50
50389798 ACGAGATGTA
* *
50389808 TCAGTGTAAGACCATGTCTGGGACATTGCATCGGCACAGATATTTGAGAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATTCGAGAG
* *
50389858 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-AT-TTCGATAG
1 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGATATTCGAGAG
* * *
50389907 TCAGTGTAAGACCATGTCTAGGACATGACATTGGCA
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
50389943 TTATACCCTA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.01
49 36 0.49
50 34 0.46
51 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (50 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATTCGAGAG
Found at i:50397343 original size:27 final size:26
Alignment explanation
Indices: 50397189--50397345 Score: 136
Period size: 27 Copynumber: 5.8 Consensus size: 26
50397179 ACACGTCAAT
* *
50397189 AAAGGAACACCTTTGTGGCATAATATG
1 AAAGGAACGCCTTTGTGGC-GAATATG
* * *
50397216 AAAGGAAAGCCTTTGTGACAAATTATG
1 AAAGGAACGCCTTTGTGGCGAA-TATG
* * *
50397243 AAAGGAACGTCTTTATGGTGCAATATG
1 AAAGGAACGCCTTTGTGGCG-AATATG
* ** *
50397270 AAAGTAACAACTTTGTGCCGAAATATG
1 AAAGGAACGCCTTTGTGGCG-AATATG
50397297 AAAGGAACGCCTTTGTGGCGAATCATG
1 AAAGGAACGCCTTTGTGGCGAAT-ATG
*
50397324 AAGGGATA-GCCTTTGTGGCGAA
1 AAAGGA-ACGCCTTTGTGGCGAA
50397346 CCCTACAATG
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 5 0.05
27 96 0.92
28 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (26 bp):
AAAGGAACGCCTTTGTGGCGAATATG
Found at i:50402295 original size:66 final size:68
Alignment explanation
Indices: 50402217--50402403 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
50402207 TAGTACCACT
*
50402217 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
50402279 CACG
65 CACG
50402283 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
50402348 ATCACG
63 ATCACG
50402354 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
50402404 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:50402328 original size:71 final size:71
Alignment explanation
Indices: 50402240--50402403 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50402230 CGATTTGTCT
50402240 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50402305 CTTTCA
66 CTTTCA
50402311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50402376 CTTTCA
66 CTTTCA
50402382 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50402404 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50402441 original size:71 final size:70
Alignment explanation
Indices: 50402240--50402437 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
50402230 CGATTTGTCT
* * * *
50402240 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50402305 CTTTCA
65 CTTTCA
* * * *
50402311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50402376 CTTTCA
65 CTTTCA
* *
50402382 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
50402438 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50406648 original size:46 final size:46
Alignment explanation
Indices: 50406595--50406770 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50406585 TATTTGGGCA
50406595 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50406641 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
50406688 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
50406734 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50406771 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:50406750 original size:93 final size:93
Alignment explanation
Indices: 50406591--50406762 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50406581 GGGATATTTG
* *
50406591 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50406656 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
50406684 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50406749 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50406763 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:50409737 original size:15 final size:15
Alignment explanation
Indices: 50409717--50409785 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
50409707 GTATCTTGGG
50409717 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
50409732 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
50409747 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
50409762 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
50409777 TTTCTTTAT
1 TTTCTTTAT
50409786 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:50409786 original size:30 final size:30
Alignment explanation
Indices: 50409708--50409795 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
50409698 CATAGTATCG
* * * *
50409708 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
50409738 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
50409768 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
50409796 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:50412234 original size:46 final size:46
Alignment explanation
Indices: 50412181--50412356 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50412171 TATTTGGGCA
50412181 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50412227 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
50412274 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
50412320 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50412357 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:50412336 original size:93 final size:93
Alignment explanation
Indices: 50412177--50412348 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50412167 GGGATATTTG
* *
50412177 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50412242 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
50412270 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50412335 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50412349 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Done.