Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 184 of 313
Found at i:56900080 original size:396 final size:396
Alignment explanation
Indices: 56898861--56900082 Score: 1694
Period size: 396 Copynumber: 3.1 Consensus size: 396
56898851 CTGCATTGAC
*
56898861 AGTGGAGCAGATCGAAGACAAC-AAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGACGAA-TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
56898925 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGC
65 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * *
56898990 AGTAGTGGAACAGAACGAAGATGACGAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTAAGC
130 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
*
56899055 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAA
195 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
56899120 GCAGTAGTGGAACAGATCGAAGATGACGAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTG-
260 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA-TTGA
* **
56899184 AGCCACCAAACCTTGTCTCCTTGAGTAACAGCAGAGA-AGGTTGAAGATTATAGATCTTATCTCC
324 AGCCACCAAACCTTGTCTCCTTGAGCAACAGTGGA-ATAGGTTGAAGATTATAGATCTTATCTCC
*
56899248 CTAAGCAAT
388 CTAAGCAGT
*
56899257 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * * *
56899322 CAACCCTTGTCTCCCTGAGTAACAGCGGAAAAGGTTGAATATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* *
56899387 ATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
131 GTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
* * *
56899452 ACCAAGCCTTGTCTCACTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAG
196 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* *
56899517 CAGTAGTAGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
261 CAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAG
* * *
56899582 CCACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGAT-TCTATCTCCCT
326 CCACCAAACCTTGTCTCCTTGAGCAACAGTGGAATAGGTTGAAGATTATAGATCT-TATCTCCCT
56899646 AAGCAGT
390 AAGCAGT
*
56899653 AGTGGAGCAAATCGAAGAC-AGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGA-CGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* * * *
56899717 CCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCTTAAGC
65 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
*
56899782 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGC
130 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
* * * ** *
56899847 CACCAAACCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAATATTGTAGATCTTATCTCCCTAA
195 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *** * * *
56899912 GCAGTAGTGGAGCAGATCGAAGATGGC-AGATTTTACCTTTCTGTGGTTATAAT-GG-AGTACAT
260 GCAGTAGTGGAGCAGATCGAAGATGGCGA-ATCTTATCTTTC-CAAG--ATAGTGGGAAGCAGAT
* ** ** * * * *
56899974 TGAATCCAATAATTCTACT-TC-CCTGGA-CAACAGTGGAATAGATTAAAGATTACAGATCTTAT
321 TGAAGCCACCAAACCT--TGTCTCCTTGAGCAACAGTGGAATAGGTTGAAGATTATAGATCTTAT
*
56900036 CTCCCTAGGCAGT
384 CTCCCTAAGCAGT
*
56900049 AGTGGAGCAGATCGAAGATGAC-AAGTCTTATCTT
1 AGTGGAGCAGATCGAAGACGACGAA-TCTTATCTT
56900083 CCTGAAGTTG
Statistics
Matches: 733, Mismatches: 79, Indels: 28
0.87 0.09 0.03
Matches are distributed among these distances:
395 6 0.01
396 693 0.95
397 25 0.03
398 4 0.01
399 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (396 bp):
AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAG
CCACCAAACCTTGTCTCCTTGAGCAACAGTGGAATAGGTTGAAGATTATAGATCTTATCTCCCTA
AGCAGT
Found at i:56902127 original size:98 final size:98
Alignment explanation
Indices: 56902004--56902198 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
56901994 AAAAATCATG
*
56902004 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
56902069 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
56902102 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
56902167 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
56902199 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:56903489 original size:98 final size:98
Alignment explanation
Indices: 56903373--56903567 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
56903363 AAAAATCATG
* *
56903373 AAGGAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
56903438 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
56903471 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
56903536 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
56903568 TTTATTGTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:56907720 original size:16 final size:15
Alignment explanation
Indices: 56907699--56907734 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
56907689 CTAAATAACG
*
56907699 AAAATAAATAAACAA
1 AAAATAAACAAACAA
56907714 TAAAATAAACAAACAA
1 -AAAATAAACAAACAA
56907730 AAAAT
1 AAAAT
56907735 TCAATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATAAACAAACAA
Found at i:56910201 original size:133 final size:133
Alignment explanation
Indices: 56909963--56910229 Score: 525
Period size: 133 Copynumber: 2.0 Consensus size: 133
56909953 TTTTATACTT
56909963 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
1 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
56910028 AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
66 AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
56910093 TTC
131 TTC
56910096 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
1 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
*
56910161 AAACATCAAGTAAACAACATTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
66 AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
56910226 TTC
131 TTC
56910229 A
1 A
56910230 GTTGAGTTTC
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (133 bp):
ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
TTC
Found at i:56918836 original size:24 final size:24
Alignment explanation
Indices: 56918809--56918859 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
56918799 AATTCTAATT
*
56918809 AATGTAAAATATATTATGCTACTA
1 AATGTAAAATATATTATACTACTA
*
56918833 AATGTTAAATATATTATACTACTA
1 AATGTAAAATATATTATACTACTA
56918857 AAT
1 AAT
56918860 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (24 bp):
AATGTAAAATATATTATACTACTA
Found at i:56922448 original size:59 final size:61
Alignment explanation
Indices: 56922378--56922494 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
56922368 ATCATTTTAC
* * *
56922378 TATTAAATTAATATAATA-TATAT-CAAGAGAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTATATACAAGAGAAATATTAAATTAAATTTAAGATTAAATCT
* *
56922437 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAAGATTAA
1 TATTAAATTAATAGAATA-TTATATACAAGAGAAATATTAAATTAAATTTAAGATTAA
56922495 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 17 0.34
61 4 0.08
62 29 0.58
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.40
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTATATACAAGAGAAATATTAAATTAAATTTAAGATTAAATCT
Found at i:56924371 original size:21 final size:21
Alignment explanation
Indices: 56924347--56924387 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56924337 TAATCAATTT
56924347 TAAAT-TTTTATGATGTAAAAA
1 TAAATATTTTAT-ATGTAAAAA
*
56924368 TAAATATTTTATATTTAAAA
1 TAAATATTTTATATGTAAAA
56924388 TAGTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TAAATATTTTATATGTAAAAA
Found at i:56927819 original size:14 final size:14
Alignment explanation
Indices: 56927800--56927853 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 14
56927790 CCCCAAGCCC
56927800 TATTTTTATTTATT
1 TATTTTTATTTATT
*
56927814 TATTTTTTTATTTATA
1 TA--TTTTTATTTATT
*
56927830 CATTTTTATTT-TT
1 TATTTTTATTTATT
*
56927843 AATTTTTATTT
1 TATTTTTATTT
56927854 TCTAGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 11 0.32
14 11 0.32
16 12 0.35
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:56927835 original size:13 final size:13
Alignment explanation
Indices: 56927808--56927853 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
56927798 CCTATTTTTA
*
56927808 TTTATTTAT-TTT
1 TTTATTTATAATT
56927820 TTTATTTATACATT
1 TTTATTTATA-ATT
*
56927834 TTTATTTTTAATT
1 TTTATTTATAATT
56927847 TTTATTT
1 TTTATTT
56927854 TCTAGATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 9 0.30
13 10 0.33
14 11 0.37
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATAATT
Found at i:56927840 original size:36 final size:35
Alignment explanation
Indices: 56927800--56927886 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 35
56927790 CCCCAAGCCC
**
56927800 TATTTTTATTTATTTATTTT-TTTATTTATACATTTT
1 TATTTTTATTT-TTTATTTTCTAGATTTATACA-TTT
* *
56927836 TATTTTTAATTTTTATTTTCTAGATTTATATATTT
1 TATTTTTATTTTTTATTTTCTAGATTTATACATTT
56927871 TA-TTTTATTTTATTAT
1 TATTTTTATTTT-TTAT
56927887 GCATTTTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 8 0.18
35 17 0.39
36 19 0.43
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (35 bp):
TATTTTTATTTTTTATTTTCTAGATTTATACATTT
Found at i:56927862 original size:28 final size:27
Alignment explanation
Indices: 56927801--56927883 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
56927791 CCCAAGCCCT
*
56927801 ATTTTTATTTATTTATTTTTTTATTTATAC
1 ATTTTTA-TT-TTTATTTTTAT-TTTATAC
* *
56927831 ATTTTTATTTTTAATTTTTATTTTCTAG
1 ATTTTTATTTTT-ATTTTTATTTTATAC
*
56927859 ATTTATATATTTTA-TTTTATTTTAT
1 ATTTTTAT-TTTTATTTTTATTTTAT
56927884 TATGCATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 10 0.22
28 16 0.35
29 13 0.28
30 7 0.15
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (27 bp):
ATTTTTATTTTTATTTTTATTTTATAC
Found at i:56947084 original size:17 final size:17
Alignment explanation
Indices: 56946999--56947083 Score: 91
Period size: 17 Copynumber: 5.1 Consensus size: 17
56946989 TACAATGTAG
* *
56946999 TATT-AATGAATTATTA
1 TATTGAATGAACTGTTA
56947015 TATTGAATGAACTGTTA
1 TATTGAATGAACTGTTA
* * *
56947032 TATTGTACGAATTGTTA
1 TATTGAATGAACTGTTA
*
56947049 TATGGAATGAACTGTTA
1 TATTGAATGAACTGTTA
* *
56947066 TTTTGCATGAACTGTTA
1 TATTGAATGAACTGTTA
56947083 T
1 T
56947084 TCGAATATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
16 4 0.07
17 52 0.93
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (17 bp):
TATTGAATGAACTGTTA
Found at i:56948146 original size:15 final size:15
Alignment explanation
Indices: 56948126--56948159 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56948116 ATATTTAAAC
*
56948126 AAATAAAAATAATGA
1 AAATAAAAACAATGA
*
56948141 AAATAAAAACAATTA
1 AAATAAAAACAATGA
56948156 AAAT
1 AAAT
56948160 TAACACACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAAACAATGA
Found at i:56966559 original size:102 final size:99
Alignment explanation
Indices: 56966227--56966561 Score: 311
Period size: 97 Copynumber: 3.4 Consensus size: 99
56966217 TTTTGGTGCC
* * * * * * **
56966227 GCCTTTTCATGTGAAGGCACCAAAACCTGTAATAAAA-AATTTCTTAATGCCAACACCAAATGTC
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTAA-AAAATAACTCCTTGGTGCCAACACCAAATG-C
* *
56966291 GTGGCACCAATAATTTCTTTTTACTTTTTCGGTGTT
64 GCGGCACCAATAATTTTTTTTTACTTTTTCGGTGTT
* * * *
56966327 ACCTCTTAATGTGGAGGCACCAAAATCAGT--AAAATAACTCCTTGGAGCCAACTCCAAATATG-
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAATAACTCCTTGGTGCCAACACC-AA-ATGC
* * *
56966389 GCGACACCAATAA-TTTTTTTAAATTTTTCGGTGTT
64 GCGGCACCAATAATTTTTTTTTACTTTTTCGGTGTT
* * * * *
56966424 GCCTCTTCATGTGGAGGCACCCAAATCAATAAAAAATTATTTCTCTGGTGCCAACACCAAATGCG
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAATAACTCCT-TGGTGCCAACACCAAATGCG
* * **
56966489 ACGGCACCAATAATTTTTTTTTTACTTTCTGGGTGCC
65 -CGGCACCAATAA-TTTTTTTTTACTTTTTCGGTGTT
* * *
56966526 GCCTCTTCATGTAGAGGCACTAAAATTAGTAAAAAA
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAA
56966562 ATTTATTTTC
Statistics
Matches: 187, Mismatches: 38, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
97 49 0.26
98 28 0.15
99 14 0.07
100 49 0.26
102 47 0.25
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (99 bp):
GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAATAACTCCTTGGTGCCAACACCAAATGCGC
GGCACCAATAATTTTTTTTTACTTTTTCGGTGTT
Found at i:56971239 original size:22 final size:22
Alignment explanation
Indices: 56971200--56971284 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 22
56971190 CACATTTCTC
56971200 TTTCTATT-TTTTATTTCTATTCA
1 TTTCT-TTCTTTT-TTTCTATTCA
* * * *
56971223 TTTCTCTCTCTTTTTCTAATAA
1 TTTCTTTCTTTTTTTCTATTCA
56971245 TTTCTTTTTCTTTTCTTTCTATTCA
1 TTTC--TTTCTTTT-TTTCTATTCA
56971270 TTTCTTTCTTTTTTT
1 TTTCTTTCTTTTTTT
56971285 AATTCTTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
22 16 0.32
23 16 0.32
24 6 0.12
25 12 0.24
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCTTTCTTTTTTTCTATTCA
Found at i:56971249 original size:45 final size:45
Alignment explanation
Indices: 56971200--56971287 Score: 117
Period size: 47 Copynumber: 2.0 Consensus size: 45
56971190 CACATTTCTC
56971200 TTTC-TATT-TTTTATTTCTATTCATTTCTCTCTCTTTTTCTAATAA
1 TTTCTTATTCTTTTATTTCTATTCATTTCT-T-TCTTTTTCTAATAA
* * *
56971245 TTTCTTTTTCTTTTCTTTCTATTCATTTCTTTCTTTTTTTAAT
1 TTTCTTATTCTTTTATTTCTATTCATTTCTTTCTTTTTCTAAT
56971288 TCTTTTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 15 0.39
46 4 0.11
47 19 0.50
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (45 bp):
TTTCTTATTCTTTTATTTCTATTCATTTCTTTCTTTTTCTAATAA
Found at i:56971330 original size:7 final size:7
Alignment explanation
Indices: 56971318--56971342 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56971308 CTTTTATTCA
56971318 TTTCATT
1 TTTCATT
56971325 TTTCATT
1 TTTCATT
56971332 TTTCATT
1 TTTCATT
56971339 TTTC
1 TTTC
56971343 TTATCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCATT
Found at i:56973860 original size:18 final size:18
Alignment explanation
Indices: 56973837--56973874 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
56973827 ATCAACTCTT
56973837 TGCCTTAACCTCTACCTC
1 TGCCTTAACCTCTACCTC
* *
56973855 TGCCTTGACCTCTAGCTC
1 TGCCTTAACCTCTACCTC
56973873 TG
1 TG
56973875 TCTCAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.39, G:0.13, T:0.34
Consensus pattern (18 bp):
TGCCTTAACCTCTACCTC
Found at i:56980065 original size:24 final size:24
Alignment explanation
Indices: 56980037--56980088 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
56980027 TTAGTAGGTC
* *
56980037 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
56980061 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
56980085 AAAT
1 AAAT
56980089 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:56981906 original size:24 final size:24
Alignment explanation
Indices: 56981861--56981907 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
56981851 ATAAAAACTA
* *
56981861 AACCCTGAAAACCCAAAAACAAAG
1 AACCCTCAAAACACAAAAACAAAG
* *
56981885 AACCCTCAAAACATAAACACAAA
1 AACCCTCAAAACACAAAAACAAA
56981908 ATTCTCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.30, G:0.04, T:0.06
Consensus pattern (24 bp):
AACCCTCAAAACACAAAAACAAAG
Found at i:56984255 original size:94 final size:94
Alignment explanation
Indices: 56984094--56984284 Score: 355
Period size: 94 Copynumber: 2.0 Consensus size: 94
56984084 AATTAAAAAA
*
56984094 TTTCCAAAAATATATTTAAGATGTGTTTGGGTAAGGAATTTATAGGAGGGGTTTCAATTGTATCA
1 TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGGAGGGGTTTCAATTGTATCA
56984159 AGGTTTTTAAAATTCTAAAAATGAATTTG
66 AGGTTTTTAAAATTCTAAAAATGAATTTG
* *
56984188 TTTCCCAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGGAGGGGTTTCATTTGTATCA
1 TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGGAGGGGTTTCAATTGTATCA
56984253 AGGTTTTTAAAATTCTAAAAATGAATTTG
66 AGGTTTTTAAAATTCTAAAAATGAATTTG
56984282 TTT
1 TTT
56984285 GTTTGGGTAA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (94 bp):
TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGGAGGGGTTTCAATTGTATCA
AGGTTTTTAAAATTCTAAAAATGAATTTG
Found at i:57000324 original size:14 final size:15
Alignment explanation
Indices: 57000305--57000333 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57000295 TCACGAAACT
57000305 TTCACACAT-ATAAA
1 TTCACACATAATAAA
57000319 TTCACACATAATAAA
1 TTCACACATAATAAA
57000334 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:57000432 original size:3 final size:3
Alignment explanation
Indices: 57000424--57000482 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
57000414 GGCTGTTACA
57000424 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
57000472 CTT CTT CTT CT
1 CTT CTT CTT CT
57000483 CGTCTCTGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:57003242 original size:7 final size:7
Alignment explanation
Indices: 57003230--57003255 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57003220 CATATGATAG
57003230 AATTATT
1 AATTATT
57003237 AATTATT
1 AATTATT
57003244 AATTATT
1 AATTATT
57003251 AATTA
1 AATTA
57003256 AATAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTATT
Found at i:57003780 original size:18 final size:18
Alignment explanation
Indices: 57003757--57003791 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57003747 TCAAGTCTTT
* *
57003757 TATTTTGATTTTCTTATG
1 TATTTTAATTTTATTATG
57003775 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
57003792 CCACCTCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTTAATTTTATTATG
Found at i:57007888 original size:21 final size:21
Alignment explanation
Indices: 57007864--57007904 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57007854 TAAAAGAGTC
57007864 TATTTATAGGCTAAATTCATT
1 TATTTATAGGCTAAATTCATT
*
57007885 TATTTATAGGTTAAATTCAT
1 TATTTATAGGCTAAATTCAT
57007905 ATGTCAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (21 bp):
TATTTATAGGCTAAATTCATT
Found at i:57008964 original size:21 final size:21
Alignment explanation
Indices: 57008919--57008966 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
57008909 AAACTTCCTC
57008919 TCTT-CTTTTTTTTCTTCGTT
1 TCTTCCTTTTTTTTCTTCGTT
*
57008939 T-TTCCTTTTTCTTTCTT-TTT
1 TCTTCCTTTTT-TTTCTTCGTT
57008959 TCTTCCTT
1 TCTTCCTT
57008967 CCCTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (21 bp):
TCTTCCTTTTTTTTCTTCGTT
Found at i:57017726 original size:90 final size:91
Alignment explanation
Indices: 57017553--57017728 Score: 214
Period size: 91 Copynumber: 1.9 Consensus size: 91
57017543 ATGCACCAAG
* * ** *
57017553 CAGCTCTCAAAATACATGCACAATTGGGTGCATGTTCTTCATTAAATTAGCTTCATTGAATCTGG
1 CAGCTCTCAAAATACATGCACAATCGGGTGCATGCTCCACATTAAATTAGCTTCAATGAATCTGG
57017618 AAAATTCATGAATGTCCAGCTGCAAT
66 AAAATTCATGAATGTCCAGCTGCAAT
** * *
57017644 CAGCTCTCAATGTATATGCACAATCGGGTGCATGCTCCACATT-TATTAGCTTCAATGAAT-TGG
1 CAGCTCTCAAAATACATGCACAATCGGGTGCATGCTCCACATTAAATTAGCTTCAATGAATCTGG
* *
57017707 -CATTGTGCATGAATGTCCAGCT
66 AAAAT-T-CATGAATGTCCAGCT
57017729 ACATGCATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.03
89 4 0.06
90 30 0.42
91 36 0.50
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (91 bp):
CAGCTCTCAAAATACATGCACAATCGGGTGCATGCTCCACATTAAATTAGCTTCAATGAATCTGG
AAAATTCATGAATGTCCAGCTGCAAT
Found at i:57018865 original size:36 final size:36
Alignment explanation
Indices: 57018761--57018897 Score: 163
Period size: 37 Copynumber: 3.7 Consensus size: 36
57018751 CCTTAGATGT
57018761 GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAG
1 GTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAG
57018798 GTCTATCCTC-ACACTTTTTAAAGGTTGCCTTAGACAAG
1 GTCTATCC-CAAC-CTTTTTAAAGGTTGCCTTAGAC-AG
* *
57018836 GTCTATCCCAACCATTTT-AAGGTTGCCTTAGA-TG
1 GTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAG
* *
57018870 GATTTATCCCAACCTTTTTTAAATGTTG
1 G-TCTATCCCAACC-TTTTTAAAGGTTG
57018898 GCATTGACTA
Statistics
Matches: 88, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
34 2 0.02
35 11 0.12
36 18 0.20
37 43 0.49
38 14 0.16
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (36 bp):
GTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAG
Found at i:57021308 original size:39 final size:41
Alignment explanation
Indices: 57021265--57021354 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
57021255 TCAATTTATA
* * * *
57021265 TTTAATATAATAAAATATTTATTATA-TT-TATTTGTGTTT
1 TTTAATATAATAAAACATTTATTATACTTAGAGTAGTGTTT
57021304 TTTAATATAATAAAACATTTATTATACTTAGAGTAGTGTTT
1 TTTAATATAATAAAACATTTATTATACTTAGAGTAGTGTTT
57021345 TTTAATATAA
1 TTTAATATAA
57021355 ATATTTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 25 0.56
40 2 0.04
41 18 0.40
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (41 bp):
TTTAATATAATAAAACATTTATTATACTTAGAGTAGTGTTT
Found at i:57026046 original size:19 final size:21
Alignment explanation
Indices: 57026008--57026046 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57025998 CCTTTTTTAA
*
57026008 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
57026029 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
57026047 CAGTAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:57026247 original size:25 final size:22
Alignment explanation
Indices: 57026219--57026276 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 22
57026209 AAATTAAATC
57026219 TCTAAGATTACAAAATCATATCATA
1 TCTAAGATTAC--AAT-ATATCATA
*
57026244 TCTAAGATTGC-ATATATCATA
1 TCTAAGATTACAATATATCATA
57026265 TCTAAGATTACA
1 TCTAAGATTACA
57026277 TATCCTCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 18 0.60
22 2 0.07
25 10 0.33
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (22 bp):
TCTAAGATTACAATATATCATA
Found at i:57026261 original size:21 final size:21
Alignment explanation
Indices: 57026236--57026279 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
57026226 TTACAAAATC
*
57026236 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTACAT
57026257 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTACAT
57026278 AT
1 AT
57026280 CCTCGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTACAT
Found at i:57026778 original size:20 final size:20
Alignment explanation
Indices: 57026753--57026808 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
57026743 TTCTAACGTG
57026753 TATTAAAATTTAG-AATTAAA
1 TATTAAAATTT-GTAATTAAA
57026773 TATTAAAATTTGTAATTAAA
1 TATTAAAATTTGTAATTAAA
* * *
57026793 TTTTAAGATTTCTAAT
1 TATTAAAATTTGTAAT
57026809 GTAGTACCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTAAAATTTGTAATTAAA
Found at i:57027009 original size:20 final size:19
Alignment explanation
Indices: 57026978--57027052 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
57026968 TTTTTTACGG
57026978 ATACTAAAATTTCTAACTAA
1 ATAC-AAAATTTCTAACTAA
*
57026998 ATACAAATATTTC-AGA-TGA
1 ATACAAA-ATTTCTA-ACTAA
57027017 ATACCAAAATTTCTAACTAA
1 ATA-CAAAATTTCTAACTAA
57027037 ATACATAAATTTCTAA
1 ATACA-AAATTTCTAA
57027053 TGGATGCCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 17 0.36
20 30 0.64
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (19 bp):
ATACAAAATTTCTAACTAA
Found at i:57027088 original size:25 final size:25
Alignment explanation
Indices: 57027043--57027090 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57027033 CTAAATACAT
* **
57027043 AAATTTCTAATGGATGCCAAAATCA
1 AAATTTATAATGGATAACAAAATCA
57027068 AAATTTATAATGGATAACAAAAT
1 AAATTTATAATGGATAACAAAAT
57027091 TATATAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (25 bp):
AAATTTATAATGGATAACAAAATCA
Found at i:57029394 original size:14 final size:15
Alignment explanation
Indices: 57029377--57029410 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
57029367 GAGTAAGGTA
57029377 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
57029391 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
*
57029406 TAATA
1 AAATA
57029411 ATAGTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:57030346 original size:3 final size:3
Alignment explanation
Indices: 57030324--57030361 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
57030314 CACTTCACCT
*
57030324 GAA GGA GAA GAAA GAA -AA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GA
57030362 GGGCAGTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57030400 original size:20 final size:20
Alignment explanation
Indices: 57030377--57030433 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
57030367 GTGACGGAAA
57030377 AAAGAAA-AGAAAAAAGAGAG
1 AAAGAAAGAGAAAAAAG-GAG
* *
57030397 AAAGAGAATAG-AGAAAGGAG
1 AAAGA-AAGAGAAAAAAGGAG
57030417 AAAGAAAGAGAAGAAAA
1 AAAGAAAGAGAA-AAAA
57030434 AAAATAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 10 0.33
22 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAGAAAAAAGGAG
Found at i:57030442 original size:24 final size:24
Alignment explanation
Indices: 57030378--57030443 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
57030368 TGACGGAAAA
*
57030378 AAGAAAAGAAAAAAGAGAGAAAGAG
1 AAGAAAA-AAAAAAGAAAGAAAGAG
* * * **
57030403 AATAGAGAAAGGAGAAAGAAAGAG
1 AAGAAAAAAAAAAGAAAGAAAGAG
*
57030427 AAGAAAAAAAATAGAAA
1 AAGAAAAAAAAAAGAAA
57030444 AAATAAGGTA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (24 bp):
AAGAAAAAAAAAAGAAAGAAAGAG
Found at i:57030577 original size:22 final size:22
Alignment explanation
Indices: 57030549--57030613 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 22
57030539 AACCGTAATT
57030549 ATTATTTTAGTATTTTTGTATA
1 ATTATTTTAGTATTTTTGTATA
*
57030571 ATTATTTTAG----TTAGTATA
1 ATTATTTTAGTATTTTTGTATA
*
57030589 ACTATTGTTAGTTATTTTTGTATA
1 ATTATT-TTAG-TATTTTTGTATA
57030613 A
1 A
57030614 GTTTAGTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 12 0.35
19 4 0.12
22 10 0.29
24 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (22 bp):
ATTATTTTAGTATTTTTGTATA
Found at i:57030748 original size:148 final size:150
Alignment explanation
Indices: 57030571--57030861 Score: 358
Period size: 154 Copynumber: 1.9 Consensus size: 150
57030561 TTTTTGTATA
* *
57030571 ATTATTTTAGTTAGTATAACTATTGTTAGTTATTT-TTGTATAAGT-TTAGTTATTATTGTTAG-
1 ATTATTTTAGTTAGTAT-A-GATTGTTAGTT-TTTATTATATAAGTGTTAGTTATTATTGTTAGA
* * *
57030633 TTAA-TAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATAATATTATTATTGTTAGTT
63 ATAACTAATTATTATT-CTTAGTATTATTGTTAGTAAAAAACTAATAATATTATT-GTGTTAGTT
57030697 ATTAGGATTAGTAAAAACCCTAATT
126 ATTAGGATTAGTAAAAACCCTAATT
* * *
57030722 ATTATTTTAGTTAGTAT-GATTGTTAGTTTTTACATTATATTATTGTTAGTTATTATTTTTAGAA
1 ATTATTTTAGTTAGTATAGATTGTTAGTTTTT--ATTATATAAGTGTTAGTTATTATTGTTAGAA
* * * *
57030786 TAACTCTAATTATTATTGTTAGTATTATTTTTAGTAAAAAACTATTATTATTATTGTGTTAGTTA
64 TAA--CTAATTATTATTCTTAGTATTATTGTTAGTAAAAAACTAATAATATTATTGTGTTAGTTA
57030851 TTAGGATTAGT
127 TTAGGATTAGT
57030862 GGTTAAATGT
Statistics
Matches: 120, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
147 3 0.03
148 10 0.08
150 7 0.06
151 33 0.28
152 3 0.03
153 20 0.17
154 34 0.28
155 10 0.08
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (150 bp):
ATTATTTTAGTTAGTATAGATTGTTAGTTTTTATTATATAAGTGTTAGTTATTATTGTTAGAATA
ACTAATTATTATTCTTAGTATTATTGTTAGTAAAAAACTAATAATATTATTGTGTTAGTTATTAG
GATTAGTAAAAACCCTAATT
Found at i:57030807 original size:37 final size:38
Alignment explanation
Indices: 57030636--57030853 Score: 124
Period size: 38 Copynumber: 5.6 Consensus size: 38
57030626 TTGTTAGTTA
* * *
57030636 ATAATTATTGTTACTTAG-TATTATTGTTAGTAAAAAACT
1 ATAATTATTATT-GTTAGTTATTATTTTTAG-AAAAAACT
*** * *
57030675 AATAATATTATTATTGTTAGTTATTAGGATTAGTAAAAACC
1 -AT-A-ATTATTATTGTTAGTTATTATTTTTAGAAAAAACT
* * *****
57030716 CTAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTAC-
1 ATAATTATTATTGTTAGTTA-T-T-ATTTTTAGAAAAAACT
* *
57030755 ATTA-TATTATTGTTAGTTATTATTTTTAG-AATAACT
1 ATAATTATTATTGTTAGTTATTATTTTTAGAAAAAACT
*
57030791 CTAATTATTATTGTTAG-TATTATTTTTAGTAAAAAACT
1 ATAATTATTATTGTTAGTTATTATTTTTAG-AAAAAACT
*
57030829 ATTATTATTATTGTGTTAGTTATTA
1 ATAATTATTA-T-TGTTAGTTATTA
57030854 GGATTAGTGG
Statistics
Matches: 138, Mismatches: 26, Indels: 27
0.72 0.14 0.14
Matches are distributed among these distances:
35 3 0.02
36 21 0.15
37 20 0.14
38 32 0.23
39 12 0.09
40 17 0.12
41 16 0.12
42 17 0.12
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (38 bp):
ATAATTATTATTGTTAGTTATTATTTTTAGAAAAAACT
Found at i:57034683 original size:158 final size:159
Alignment explanation
Indices: 57033826--57035041 Score: 2021
Period size: 159 Copynumber: 7.6 Consensus size: 159
57033816 ACTTCAAAAC
* * *
57033826 AAATTTAGTAAAAAACCCTTAGTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCCAGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
*
57033891 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATAATATTTTAGTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
57033956 AATGTATTAATTTAGTGTGTTTTTTTATAT
131 AATGTATTAATTTAGTGTG-TTTTTTATAT
*
57033986 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTTGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
* * *
57034051 ACTTTTAAAAAATATATTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
*
57034116 AATGTATTAATTTAGTATGTTTTTTTTATAT
131 AATGTATTAATTTAG--TGTGTTTTTTATAT
* * *
57034147 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTAGTTCTCTTTTTTCTCGGATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTAT
*
57034212 TACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATATTTG
65 TACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTG
*
57034277 AAATGTATTAATTTAGTGTGCTTTTTATAT
130 AAATGTATTAATTTAGTGTGTTTTTTATAT
* * *
57034307 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTAGTTCTCTTTTTTCTCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
*
57034372 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATATTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
*
57034437 AATGTATTAATTTAGTGTGCTTTTTATAT
131 AATGTATTAATTTAGTGTGTTTTTTATAT
* * *
57034466 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTAGTTCTCTTTTTTCTCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
*
57034531 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
57034596 AATGTATTAATTTAGTGTG-TTTTTATAT
131 AATGTATTAATTTAGTGTGTTTTTTATAT
*
57034624 AAATTTAGTAAAAAACTCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
*
57034689 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
*
57034754 AATGTATTAATTTAGTGTG-TTGTTATAT
131 AATGTATTAATTTAGTGTGTTTTTTATAT
* *
57034782 AAGTTTAGTAAAAAACTCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
*
57034847 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
57034912 AATGTATTAATTTAGTGTGTTTTTTATAT
131 AATGTATTAATTTAGTGTGTTTTTTATAT
* * *
57034941 AAATTTAGTAAAAAAATCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTT--CGAATTTTA
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTT-TTTTCCCGGATTTTA
** *
57035004 TTACTTTCAGTAAATATACTATTTTTGT-TTTT-TTATTT
64 TTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
57035042 CTTTTCGTAT
Statistics
Matches: 1014, Mismatches: 36, Indels: 15
0.95 0.03 0.01
Matches are distributed among these distances:
157 6 0.01
158 314 0.31
159 346 0.34
160 194 0.19
161 23 0.02
162 131 0.13
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
AATGTATTAATTTAGTGTGTTTTTTATAT
Found at i:57035445 original size:27 final size:27
Alignment explanation
Indices: 57035397--57035459 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
57035387 TTATAATGGG
* ** * *
57035397 TGGTGCCGCCTGTGGTAGTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTC
57035424 TGGTGCCGCCTCTGCCACTGGCACCTC
1 TGGTGCCGCCTCTGCCACTGGCACCTC
57035451 TGGTGCCGC
1 TGGTGCCGC
57035460 TTGTGGCAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.06, C:0.35, G:0.33, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACCTC
Found at i:57035908 original size:29 final size:29
Alignment explanation
Indices: 57035848--57035910 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
57035838 TAAAGGTTTA
**
57035848 TTTTAGTAAATTTTAAAAAAATGGTCTAT
1 TTTTAGTAAATTTTAAAAAAATGACCTAT
57035877 TTTTA-TAATATTTTAAAAAAATTGACCT-T
1 TTTTAGTAA-ATTTTAAAAAAA-TGACCTAT
57035906 TTTTA
1 TTTTA
57035911 AAAACTTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 23 0.77
30 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (29 bp):
TTTTAGTAAATTTTAAAAAAATGACCTAT
Found at i:57037377 original size:3 final size:3
Alignment explanation
Indices: 57037369--57037408 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
57037359 TAATCTAATA
57037369 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
57037409 GTGTTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:57041270 original size:13 final size:13
Alignment explanation
Indices: 57041252--57041276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57041242 TATGTTACTA
57041252 AATTATAATATTT
1 AATTATAATATTT
57041265 AATTATAATATT
1 AATTATAATATT
57041277 AAAATTTTCT
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:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATAATATTT
Found at i:57041381 original size:10 final size:10
Alignment explanation
Indices: 57041368--57041443 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
57041358 AAAAAAATAT
57041368 TATTAAATTA
1 TATTAAATTA
*
57041378 TATTTAA-TA
1 TATTAAATTA
57041387 -A-T-AATTA
1 TATTAAATTA
*
57041394 TATTAAAATA
1 TATTAAATTA
57041404 TGATTAAATTA
1 T-ATTAAATTA
*
57041415 T-TTATTATTTA
1 TATTA--AATTA
57041426 TATTAAATTA
1 TATTAAATTA
*
57041436 AATTAAAT
1 TATTAAAT
57041444 AATAATCTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 2 0.04
9 6 0.12
10 22 0.42
11 14 0.27
12 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (10 bp):
TATTAAATTA
Found at i:57041397 original size:26 final size:26
Alignment explanation
Indices: 57041368--57041458 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
57041358 AAAAAAATAT
*
57041368 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTAAATAATAATTA
* *
57041394 TATTAAAATATGATTAAATTATTTATTATTTA
1 TATTAAATTAT-ATTAAA-TA---A-TAATTA
*
57041426 TATTAAATTAAATTAAATAATAATCT-
1 TATTAAATTATATTAAATAATAAT-TA
57041452 TATTAAA
1 TATTAAA
57041459 ATTTAATAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
26 20 0.38
27 7 0.13
28 2 0.04
30 2 0.04
31 7 0.13
32 14 0.27
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
TATTAAATTATATTAAATAATAATTA
Found at i:57041436 original size:37 final size:37
Alignment explanation
Indices: 57041361--57041437 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
57041351 GAATAATAAA
* *
57041361 AAAATATTATTAAATTATATTTAATAATAATTATATT
1 AAAATATGATTAAATTATATTTAATAATAATTAAATT
* * *
57041398 AAAATATGATTAAATTATTTATTATTTAT-ATTAAATT
1 AAAATATGATTAAATTATAT-TTAATAATAATTAAATT
57041435 AAA
1 AAA
57041438 TTAAATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 28 0.82
38 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (37 bp):
AAAATATGATTAAATTATATTTAATAATAATTAAATT
Found at i:57042780 original size:16 final size:16
Alignment explanation
Indices: 57042759--57042827 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
57042749 TTGGTTTGCT
57042759 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
57042775 GTAATGGAATAGAGCC
1 GTAATGGAATAGAGGC
*
57042791 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
57042807 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
57042823 GTAAT
1 GTAAT
57042828 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:57042896 original size:44 final size:46
Alignment explanation
Indices: 57042809--57042901 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
57042799 ATAGATGCGT
57042809 AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTGAATGG
* *
57042855 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTGAATGG
57042899 AAT
1 AAT
57042902 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTGAATGG
Found at i:57042897 original size:39 final size:44
Alignment explanation
Indices: 57042809--57042914 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 44
57042799 ATAGATGCGT
57042809 AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTT--ATGG
* *
57042855 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTATGG
*
57042894 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
57042915 CATAAGTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 19 0.34
40 2 0.04
43 1 0.02
44 12 0.21
45 3 0.05
46 19 0.34
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTATATTTGGTTATGG
Found at i:57043113 original size:18 final size:17
Alignment explanation
Indices: 57043061--57043113 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
57043051 TTTTTATTAA
57043061 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
57043079 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
57043096 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
57043114 CATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57043170 original size:26 final size:26
Alignment explanation
Indices: 57043152--57043352 Score: 163
Period size: 26 Copynumber: 7.1 Consensus size: 26
57043142 TTAAAAGTCT
57043152 TATTATTAAATATAATTTAATAAAAA
1 TATTATTAAATATAATTTAATAAAAA
57043178 TATTATTAAATATAATTTAATAAAAA
1 TATTATTAAATATAATTTAATAAAAA
** * *
57043204 TATATAATTTGATAAAATTCTAGTATTAAAA
1 TAT-T-ATTAAATATAATT-TA--ATAAAAA
*
57043235 TATTATT--ATATGAATTTACTAAAATCA
1 TATTATTAAATAT-AATTTAATAAAA--A
* *
57043262 TAATATATAATACTATAAATTATAATTTAAAA
1 TATTAT-TAA-A-TAT-AATT-TAA-TAAAAA
57043294 TAATTATTATTAAATATAATTTAATAAAAA
1 ----TATTATTAAATATAATTTAATAAAAA
57043324 TATTATTAAATATAATTTAATAAAAA
1 TATTATTAAATATAATTTAATAAAAA
57043350 TAT
1 TAT
57043353 ATAATTTGAT
Statistics
Matches: 143, Mismatches: 13, Indels: 38
0.74 0.07 0.20
Matches are distributed among these distances:
25 4 0.03
26 58 0.41
27 12 0.08
28 15 0.10
29 5 0.03
30 6 0.04
31 13 0.09
32 12 0.08
33 5 0.03
34 5 0.03
35 3 0.02
36 5 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (26 bp):
TATTATTAAATATAATTTAATAAAAA
Found at i:57043180 original size:16 final size:15
Alignment explanation
Indices: 57043159--57043221 Score: 53
Period size: 18 Copynumber: 4.3 Consensus size: 15
57043149 TCTTATTATT
57043159 AAATATAATTTAATA
1 AAATATAATTTAATA
*
57043174 AAA-AT-A-TT-ATT
1 AAATATAATTTAATA
57043185 AAATATAATTTAATAAA
1 AAATATAATTTAAT--A
*
57043202 AATATATAATTTGATA
1 AA-ATATAATTTAATA
57043218 AAAT
1 AAAT
57043222 TCTAGTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
11 5 0.13
12 4 0.11
13 2 0.05
14 4 0.11
15 7 0.18
16 3 0.08
17 2 0.05
18 11 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAATATAATTTAATA
Found at i:57043279 original size:146 final size:146
Alignment explanation
Indices: 57043095--57043461 Score: 675
Period size: 146 Copynumber: 2.5 Consensus size: 146
57043085 TTTAATAAAA
* *
57043095 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATATTTTAAAAGT-CTTATTATT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAA-TAATTATTATT
*
57043159 AAATATAATTTAATAAAAATATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTC
65 AAATATAATTTAATAAAAATATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTA
57043224 TAGTATTAAAATATTAT
130 TAGTATTAAAATATTAT
*
57043241 TATATGAATTTACTAAAATCATAATATATAATACTATAAATTATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
57043306 AATATAATTTAATAAAAATATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTAT
66 AATATAATTTAATAAAAATATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTAT
57043371 AGTATTAAAATATTAT
131 AGTATTAAAATATTAT
57043387 TATATGAATTTACTAAAATCATAATATATAATACTAT-AAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
57043451 AATATAATTTA
66 AATATAATTTA
57043462 TAATCTATTT
Statistics
Matches: 215, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
145 38 0.18
146 177 0.82
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (146 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAATAAAAATATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTAT
AGTATTAAAATATTAT
Found at i:57043295 original size:22 final size:21
Alignment explanation
Indices: 57043251--57043295 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
57043241 TATATGAATT
*
57043251 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
* *
57043272 TACTATAAATTATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
57043294 TA
1 TA
57043296 ATTATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:57043300 original size:16 final size:17
Alignment explanation
Indices: 57043279--57043318 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
57043269 TAATACTATA
57043279 AATTATAATTTAAA-AT
1 AATTATAATTTAAATAT
*
57043295 AATTATTA-TTAAATAT
1 AATTATAATTTAAATAT
57043311 AATT-TAAT
1 AATTATAAT
57043319 AAAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTATAATTTAAATAT
Found at i:57043324 original size:16 final size:15
Alignment explanation
Indices: 57043305--57043367 Score: 53
Period size: 18 Copynumber: 4.3 Consensus size: 15
57043295 AATTATTATT
57043305 AAATATAATTTAATA
1 AAATATAATTTAATA
*
57043320 AAA-AT-A-TT-ATT
1 AAATATAATTTAATA
57043331 AAATATAATTTAATAAA
1 AAATATAATTTAAT--A
*
57043348 AATATATAATTTGATA
1 AA-ATATAATTTAATA
57043364 AAAT
1 AAAT
57043368 TATAGTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
11 5 0.13
12 4 0.11
13 2 0.05
14 4 0.11
15 7 0.18
16 3 0.08
17 2 0.05
18 11 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAATATAATTTAATA
Found at i:57043354 original size:18 final size:18
Alignment explanation
Indices: 57043333--57043371 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
57043323 ATATTATTAA
57043333 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
* *
57043351 ATATAATTTGATAAAATT
1 ATATAATTTAATAAAAAT
57043369 ATA
1 ATA
57043372 GTATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:57043440 original size:21 final size:21
Alignment explanation
Indices: 57043397--57043440 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57043387 TATATGAATT
*
57043397 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
57043418 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
57043439 TA
1 TA
57043441 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:57047370 original size:24 final size:27
Alignment explanation
Indices: 57047319--57047371 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
57047309 TATATGTAAT
*
57047319 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
57047346 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
57047370 AT
1 AT
57047372 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:57050053 original size:13 final size:13
Alignment explanation
Indices: 57050035--57050061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57050025 AGCTTTTAAG
57050035 CAATGGTAATATC
1 CAATGGTAATATC
57050048 CAATGGTAATATC
1 CAATGGTAATATC
57050061 C
1 C
57050062 TTAAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAATGGTAATATC
Found at i:57055609 original size:8 final size:8
Alignment explanation
Indices: 57055596--57055628 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
57055586 AAGAAAACGC
57055596 AAGAAAAT
1 AAGAAAAT
57055604 AAGAAAAT
1 AAGAAAAT
57055612 AA-AAAAT
1 AAGAAAAT
*
57055619 AAAAAAAT
1 AAGAAAAT
57055627 AA
1 AA
57055629 AACCAAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (8 bp):
AAGAAAAT
Found at i:57055619 original size:15 final size:15
Alignment explanation
Indices: 57055599--57055630 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57055589 AAAACGCAAG
*
57055599 AAAATAAGAAAATAA
1 AAAATAAAAAAATAA
57055614 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
57055629 AA
1 AA
57055631 CCAAGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:57060411 original size:26 final size:24
Alignment explanation
Indices: 57060356--57060422 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
57060346 TTTCAATATG
*
57060356 TTTTATTAATTTTATAATTTATTA
1 TTTTATTAATTTTATAAATTATTA
* * *
57060380 TATTATTAGATTTTTTAAAATTATTT
1 TTTTATTA-ATTTTAT-AAATTATTA
*
57060406 TTTTA-TAAATTTATAAA
1 TTTTATTAATTTTATAAA
57060423 AATAATATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.09
24 12 0.35
25 8 0.24
26 11 0.32
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
TTTTATTAATTTTATAAATTATTA
Found at i:57060476 original size:20 final size:20
Alignment explanation
Indices: 57060423--57060482 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
57060413 AATTTATAAA
*
57060423 AATAATATTTA-AAATATTT
1 AATAATTTTTATAAATATTT
*
57060442 AATAATTTTTGTAAATATTT
1 AATAATTTTTATAAATATTT
57060462 -ATAATTTTTCATAAATTATTT
1 AATAATTTTT-ATAAA-TATTT
57060483 GATTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 18 0.51
20 12 0.34
21 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AATAATTTTTATAAATATTT
Found at i:57070671 original size:43 final size:43
Alignment explanation
Indices: 57070620--57070735 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
57070610 ATGTGTTTTT
* *
57070620 CATGTAAGACCACATCAGGGACATTGGCATCGACT-TGTGTTTA
1 CATGTAAGACCACGTCAGGGACATTGGCATCGA-TATGTGATTA
* ** ** *
57070663 CGTGTAAGACCTTGTTTGGGACAGTGGCATCGATATGTGATTA
1 CATGTAAGACCACGTCAGGGACATTGGCATCGATATGTGATTA
*
57070706 CATGTAAGACCACGTCTA-GGACGTTGGCAT
1 CATGTAAGACCACGTC-AGGGACATTGGCAT
57070736 TGTATGAGCT
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACGTCAGGGACATTGGCATCGATATGTGATTA
Found at i:57083905 original size:21 final size:22
Alignment explanation
Indices: 57083880--57083924 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
57083870 TATTTAACCC
*
57083880 AAAATTAATTGGATTAT-AATT
1 AAAATTAATTAGATTATAAATT
*
57083901 AAAATTAATTATATTATAAATT
1 AAAATTAATTAGATTATAAATT
57083923 AA
1 AA
57083925 TATTCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAATTAATTAGATTATAAATT
Found at i:57083913 original size:16 final size:16
Alignment explanation
Indices: 57083892--57083925 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
57083882 AATTAATTGG
57083892 ATTATAATTA-AAATTA
1 ATTAT-ATTATAAATTA
57083908 ATTATATTATAAATTA
1 ATTATATTATAAATTA
57083924 AT
1 AT
57083926 ATTCATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATATTATAAATTA
Found at i:57086759 original size:15 final size:16
Alignment explanation
Indices: 57086735--57086767 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57086725 TTTTTAAATT
57086735 AAAAATTTAAGTACTG
1 AAAAATTTAAGTACTG
*
57086751 AAAAA-TTAAGTATTG
1 AAAAATTTAAGTACTG
57086766 AA
1 AA
57086768 TTTATATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (16 bp):
AAAAATTTAAGTACTG
Found at i:57086978 original size:26 final size:25
Alignment explanation
Indices: 57086940--57087007 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 25
57086930 AAGTATATTA
* *
57086940 ATTTGAATATTTTTTAAAATATAATTT
1 ATTT-AAT-TTTTTTAAAATAAAATTG
*
57086967 ATTTCAATTTTTAATAAAATAAAATTG
1 ATTT-AATTTTT-TTAAAATAAAATTG
*
57086994 AGTTAATTTTTTTA
1 ATTTAATTTTTTTA
57087008 CATTAAGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.06
26 11 0.32
27 21 0.62
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTTAATTTTTTTAAAATAAAATTG
Found at i:57092182 original size:342 final size:336
Alignment explanation
Indices: 57091557--57092235 Score: 1304
Period size: 342 Copynumber: 2.0 Consensus size: 336
57091547 AACAACAAAT
57091557 TTTGTCTCATTCAAGTTCTAGTTCAACTCCAAGTCAGAGTGGCGATGGACCCGATGGTGGTGGTT
1 TTTGTCTCATTCAAGTTCTAGTTCAACTCCAAGTCAGAGTGGCGATGGACCCGATGGTGGTGGTT
57091622 TAAGTCCTATTGATGAGGATGATGGATATAGTGGTGATAGATGTGAAATTAGGTCTTCTAGTCAG
66 TAAGTCCTATTGATGAGGATGATGGATATAGTGGTGATAGATGTGAAATTAGGTCTTCTAGTCAG
57091687 TATGGAGGAGAATATGGGGTTGGTACCACTGATGGACATTTTCGTGACAAATCAGAGTTTGATGG
131 TATGGAGGAGAATATGGGGTTGGTACCACTGATGGACATTTTCGTGACAAATCAGAGTTTGATGG
57091752 AAATATGTTTCCTAAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAGGGAAAAGGCA
196 AAATATGTTTCCTAAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAGGGAAAAGGCA
57091817 AGAAGCATACTTCTATAGGCTCTTCATCTGGTAGTGGTAGGAGATCGAGTTCTAGTAACCTTGGG
261 AGAAGCATACTTCTATAGGCTCTTCATC------TGGTAGGAGATCGAGTTCTAGTAACCTTGGG
57091882 TATAGTGATTCATCTAC
320 TATAGTGATTCATCTAC
57091899 TTTGTCTCATTCAAGTTCTAGTTCAACTCCAAGTCAGAGTGGCGATGGACCCGATGGTGGTGGTT
1 TTTGTCTCATTCAAGTTCTAGTTCAACTCCAAGTCAGAGTGGCGATGGACCCGATGGTGGTGGTT
57091964 TAAGTCCTATTGATGAGGATGATGGATATAGTGGTGATAGATGTGAAATTAGGTCTTCTAGTCAG
66 TAAGTCCTATTGATGAGGATGATGGATATAGTGGTGATAGATGTGAAATTAGGTCTTCTAGTCAG
57092029 TATGGAGGAGAATATGGGGTTGGTACCACTGATGGACATTTTCGTGACAAATCAGAGTTTGATGG
131 TATGGAGGAGAATATGGGGTTGGTACCACTGATGGACATTTTCGTGACAAATCAGAGTTTGATGG
57092094 AAATATGTTTCCTAAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAGGGAAAAGGCA
196 AAATATGTTTCCTAAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAGGGAAAAGGCA
57092159 AGAAGCATACTTCTATAGGCTCTTCATCTGGTAGGAGATCGAGTTCTAGTAACCTTGGGTATAGT
261 AGAAGCATACTTCTATAGGCTCTTCATCTGGTAGGAGATCGAGTTCTAGTAACCTTGGGTATAGT
57092224 GATTCATCTAC
326 GATTCATCTAC
57092235 T
1 T
57092236 AGCACTCAAG
Statistics
Matches: 337, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
336 49 0.15
342 288 0.85
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (336 bp):
TTTGTCTCATTCAAGTTCTAGTTCAACTCCAAGTCAGAGTGGCGATGGACCCGATGGTGGTGGTT
TAAGTCCTATTGATGAGGATGATGGATATAGTGGTGATAGATGTGAAATTAGGTCTTCTAGTCAG
TATGGAGGAGAATATGGGGTTGGTACCACTGATGGACATTTTCGTGACAAATCAGAGTTTGATGG
AAATATGTTTCCTAAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAGGGAAAAGGCA
AGAAGCATACTTCTATAGGCTCTTCATCTGGTAGGAGATCGAGTTCTAGTAACCTTGGGTATAGT
GATTCATCTAC
Found at i:57096305 original size:31 final size:31
Alignment explanation
Indices: 57096269--57096327 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
57096259 ACATGGACAT
*
57096269 TGAACTATTCGAA-AGTTTTCATTTAAGTCAC
1 TGAACTACTC-AATAGTTTTCATTTAAGTCAC
*
57096300 TGAACTACTCAATAGTTTTTATTTAAGT
1 TGAACTACTCAATAGTTTTCATTTAAGT
57096328 TACCAAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (31 bp):
TGAACTACTCAATAGTTTTCATTTAAGTCAC
Found at i:57097902 original size:21 final size:21
Alignment explanation
Indices: 57097855--57097937 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 21
57097845 CTTTCCGTTT
* * *
57097855 AGCTCTTTCGAGCTTCAGTTT
1 AGCTCTTACGAGCTTCTGTTC
57097876 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* * *
57097897 AACTCTTATGAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* **
57097918 GGCTCTTTTGAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
57097938 GTAGTATCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:57101965 original size:34 final size:34
Alignment explanation
Indices: 57101926--57101997 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
57101916 ATATATAAAG
*
57101926 TATAAAGTATAAAATATATAAGTACGTACATATA
1 TATAAAGTAAAAAATATATAAGTACGTACATATA
* * * **
57101960 TATAAATTAAAAAATATGTAAGTATGTGTATATA
1 TATAAAGTAAAAAATATATAAGTACGTACATATA
57101994 TATA
1 TATA
57101998 TATAAAACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (34 bp):
TATAAAGTAAAAAATATATAAGTACGTACATATA
Found at i:57103916 original size:87 final size:87
Alignment explanation
Indices: 57103812--57104322 Score: 541
Period size: 87 Copynumber: 5.9 Consensus size: 87
57103802 ACCATCTTTG
* * *
57103812 ATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCTTCGACCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTC-ACCGTCTTCGATCTGCTCCACTACTGCTTA
57103876 GGGAGATAGGACTGGTGGCTTAA
65 GGGAGATAGGACTGGTGGCTTAA
* * *
57103899 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT-GAATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTCACCGTCTTCG-ATCTGCTCCACTACTGCTTA
***** **
57103963 GGGAGATAGGATCTACCATCTTTG
65 GGGAGATAGGA-CTGGTGGCTTAA
* * ** * ** *
57103987 ATCTGCTCCACTACTGCTTAGGGAGATAGGACT-AGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* * *** * **
57104051 GAAGAT-GAGATTCACCGTCTTCG
66 GGAGATAG-GACT-GGTGGCTTAA
* ** * *
57104074 ATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACTATCTTTGACCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTC-ACCGTCTTCGATCTGCTCCACTACTGCTTA
57104138 GGGAGATAGGACTGGTGGCTTAA
65 GGGAGATAGGACTGGTGGCTTAA
*
57104161 ATCTGCTTCACTACTGCTTAGGAAGAT-GAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAG-GATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
57104225 GGGAGATAGGACTGGTGGCTTAA
65 GGGAGATAGGACTGGTGGCTTAA
* * * *
57104248 ATCTGCTTCACTACTACTTAGGAAGAT-GAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAG-GATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
*
57104312 AGGAGATAGGA
65 GGGAGATAGGA
57104323 TCTAACATCT
Statistics
Matches: 361, Mismatches: 52, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
86 5 0.01
87 285 0.79
88 70 0.19
89 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAGGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAGGACTGGTGGCTTAA
Found at i:57104025 original size:131 final size:131
Alignment explanation
Indices: 57103806--57104235 Score: 781
Period size: 131 Copynumber: 3.3 Consensus size: 131
57103796 GGATCTACCA
* *
57103806 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACT
* *
57103871 GCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCC
66 GCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACC
57103936 G
131 G
*
57103937 TCTT-GAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGATCTGCTCCACTAC
1 TCTTCG-ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTAC
*
57104001 TGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCAC
65 TGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCAC
57104066 CG
130 CG
*
57104068 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACTATCTTTGACCTGCTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACT
57104133 GCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACC
66 GCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACC
57104198 G
131 G
57104199 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA
57104236 CTGGTGGCTT
Statistics
Matches: 289, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
130 1 0.00
131 287 0.99
132 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACT
GCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACC
G
Found at i:57104175 original size:218 final size:219
Alignment explanation
Indices: 57103812--57104347 Score: 726
Period size: 218 Copynumber: 2.5 Consensus size: 219
57103802 ACCATCTTTG
* * * *
57103812 ATCTGCTCCACTACTGCTTAGGGAGAT-AGGA-TCTACCATCTTCGACCTGCTCCACTACTGCTT
1 ATCTGCTTCACTACTGCTTAGGAAGATGA-GATTC-ACCGTCTTCGATCTGCTCCACTACTGCTT
** ** ** * * * *
57103875 AGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTC
64 AGGGAGATAGGATCTACTATCTTTGACCTGCTCCACTACTGCTTAGGAAGATAAGACTCGCCGGC
* * *
57103939 TTGAATCTGCTCCACTACTGCTTAGGGAGAT-AGGA-TCTACCATCTTTGATCTGCTCCACTACT
129 TTAAATCTGCTCCACTACTGCTTAGGAAGATGA-GATTC-ACCATCTTCGATCTGCTCCACTACT
57104002 GCTTAGGGAGATAGGACTAGTGGCTTAA
192 GCTTAGGGAGATAGGACTAGTGGCTTAA
57104030 ATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* * **
57104095 GGAGATAGGATCTACTATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTT
66 GGAGATAGGATCTACTATCTTTGACCTGCTCCACTACTGCTTAGGAAGATAAGACTCGCCGGCTT
* *
57104159 AAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTT
131 AAATCTGCTCCACTACTGCTTAGGAAGATGAGATTCACCATCTTCGATCTGCTCCACTACTGCTT
*
57104224 AGGGAGATAGGACTGGTGGCTTAA
196 AGGGAGATAGGACTAGTGGCTTAA
* * * *
57104248 ATCTGCTTCACTACTACTTAGGAAGATGAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAA
1 ATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
57104313 GGAGATAGGATCTAAC-ATCTTTGACCTGCTCCACT
66 GGAGATAGGATCT-ACTATCTTTGACCTGCTCCACT
57104348 GCAACCGATG
Statistics
Matches: 284, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
218 242 0.85
219 42 0.15
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (219 bp):
ATCTGCTTCACTACTGCTTAGGAAGATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAGGATCTACTATCTTTGACCTGCTCCACTACTGCTTAGGAAGATAAGACTCGCCGGCTT
AAATCTGCTCCACTACTGCTTAGGAAGATGAGATTCACCATCTTCGATCTGCTCCACTACTGCTT
AGGGAGATAGGACTAGTGGCTTAA
Found at i:57114660 original size:34 final size:34
Alignment explanation
Indices: 57114622--57114693 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
57114612 ATATATAAAG
*
57114622 TATAAAGTATAAAATATATAAGTACGTACATATA
1 TATAAAGTAAAAAATATATAAGTACGTACATATA
* * * **
57114656 TATAAATTAAAAAATATGTAAGTATGTGTATATA
1 TATAAAGTAAAAAATATATAAGTACGTACATATA
57114690 TATA
1 TATA
57114694 TAACAAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (34 bp):
TATAAAGTAAAAAATATATAAGTACGTACATATA
Found at i:57121516 original size:22 final size:22
Alignment explanation
Indices: 57121490--57121535 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
57121480 AAGCTACCCC
*
57121490 TTTTATTTTATTT-TATTTTATT
1 TTTTATATTATTTAT-TTTTATT
57121512 TTTTATATTATTTATTTTTATT
1 TTTTATATTATTTATTTTTATT
57121534 TT
1 TT
57121536 CCTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATATTATTTATTTTTATT
Found at i:57121525 original size:16 final size:17
Alignment explanation
Indices: 57121495--57121530 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
57121485 ACCCCTTTTA
*
57121495 TTTTATTTTATTTTATT
1 TTTTATATTATTTTATT
57121512 TTTTATATTA-TTTATT
1 TTTTATATTATTTTATT
57121528 TTT
1 TTT
57121531 ATTTTCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATATTATTTTATT
Found at i:57121547 original size:22 final size:22
Alignment explanation
Indices: 57121500--57121556 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
57121490 TTTTATTTTA
*
57121500 TTTTA-TTTTATTTTTTATATT
1 TTTTATTTTTATTTTCTATATT
*
57121521 ATTTATTTTTATTTTCCTA-ATT
1 TTTTATTTTTATTTT-CTATATT
57121543 TTTTATTTATTATT
1 TTTTATTT-TTATT
57121557 CTAATACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTTTATTTTCTATATT
Found at i:57121597 original size:17 final size:18
Alignment explanation
Indices: 57121577--57121610 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57121567 GATTTTAAAT
57121577 TTATTTTAATT-TTTCTA
1 TTATTTTAATTATTTCTA
*
57121594 TTATTTTTATTATTTCT
1 TTATTTTAATTATTTCT
57121611 TTTTTACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTTAATTATTTCTA
Found at i:57121743 original size:27 final size:25
Alignment explanation
Indices: 57121708--57121759 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
57121698 TTTTAGTTGC
* *
57121708 TTTATTTATTTATTTTCTTAAACTTAT
1 TTTAATTA-TTATTTT-TTAAAATTAT
57121735 TTTAATTATTATTTTTTAAAATTAT
1 TTTAATTATTATTTTTTAAAATTAT
57121760 ATTTTATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 7 0.30
27 7 0.30
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTAATTATTATTTTTTAAAATTAT
Found at i:57124396 original size:19 final size:19
Alignment explanation
Indices: 57124372--57124410 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57124362 GTCTCATGCC
57124372 ACAAT-CTATAAAAATTATT
1 ACAATCCTA-AAAAATTATT
*
57124391 ACAATCCTAGAAAATTATT
1 ACAATCCTAAAAAATTATT
57124410 A
1 A
57124411 AAATAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (19 bp):
ACAATCCTAAAAAATTATT
Found at i:57124838 original size:60 final size:59
Alignment explanation
Indices: 57124745--57124938 Score: 192
Period size: 60 Copynumber: 3.2 Consensus size: 59
57124735 GCACATCAAT
* ** * * *
57124745 TTGTGGACAAGCCACCAGTATTTTAGGTAAACTGCCA-AAATTGCAAACAAGCTGCCAGTA
1 TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCCAGAAAGTG--AACAAGCTACCAGTA
* * * *
57124805 TTGTGGACAAGCCACCAGTAATGCATATAAACTGCTAGTAAAGTGGACTAGCTACCAGTA
1 TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCCAG-AAAGTGAACAAGCTACCAGTA
* * * * *
57124865 ATGTGAACAAGCCACCAGTAATGCAGATAAACTGCTAGTAATGTGAACTAGCTACCAGTA
1 TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCCAG-AAAGTGAACAAGCTACCAGTA
* *
57124925 ATGTGAACAAGCCA
1 TTGTGGACAAGCCA
57124939 TCAAAATTGC
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
60 112 0.96
62 5 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (59 bp):
TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCCAGAAAGTGAACAAGCTACCAGTA
Found at i:57124864 original size:20 final size:20
Alignment explanation
Indices: 57124841--57124885 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
57124831 ATAAACTGCT
* * *
57124841 AGTAAAGTGGACTAGCTACC
1 AGTAAAGTGAACAAGCCACC
*
57124861 AGTAATGTGAACAAGCCACC
1 AGTAAAGTGAACAAGCCACC
57124881 AGTAA
1 AGTAA
57124886 TGCAGATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AGTAAAGTGAACAAGCCACC
Found at i:57124886 original size:20 final size:20
Alignment explanation
Indices: 57124858--57124938 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
57124848 TGGACTAGCT
57124858 ACCAGTAATGTGAACAAGCC
1 ACCAGTAATGTGAACAAGCC
* *
57124878 ACCAGTAATGCAGATA-AA-CT
1 ACCAGTAATG-TGA-ACAAGCC
* * * *
57124898 GCTAGTAATGTGAACTAGCT
1 ACCAGTAATGTGAACAAGCC
57124918 ACCAGTAATGTGAACAAGCC
1 ACCAGTAATGTGAACAAGCC
57124938 A
1 A
57124939 TCAAAATTGC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
18 1 0.02
19 3 0.06
20 38 0.81
21 4 0.09
22 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (20 bp):
ACCAGTAATGTGAACAAGCC
Found at i:57124950 original size:60 final size:60
Alignment explanation
Indices: 57124794--57124964 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
57124784 ATTGCAAACA
* * * * *
57124794 AGCTGCCAGTATTGTGGACAAGCCACCAGTAATGCATATAAACTGCTAGTAAAGTGGACT
1 AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAGATAAACTGCTAGTAAAGTGAACT
*
57124854 AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAGATAAACTGCTAGTAATGTGAACT
1 AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAGATAAACTGCTAGTAAAGTGAACT
* * * *
57124914 AGCTACCAGTAATGTGAACAAGCCATCA-AAATTGCAGACAAGCTGCTAGTA
1 AGCTACCAGTAATGTGAACAAGCCACCAGTAA-TGCAGATAAACTGCTAGTA
57124965 CTTCATTCGT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
59 2 0.02
60 98 0.98
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (60 bp):
AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAGATAAACTGCTAGTAAAGTGAACT
Found at i:57130229 original size:37 final size:39
Alignment explanation
Indices: 57130170--57130244 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 39
57130160 CATGTTAACA
* *
57130170 TTTAATTGATTTTTAAAATTTAAAAA-TATTTTTTATAT
1 TTTAATTGAATTTTAAAATTTAAAAACAATTTTTTATAT
**
57130208 TTTAA-TGAATTTTAATTTTTAAAAACAATTTTTTATA
1 TTTAATTGAATTTTAAAATTTAAAAACAATTTTTTATA
57130245 ATTGTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (39 bp):
TTTAATTGAATTTTAAAATTTAAAAACAATTTTTTATAT
Found at i:57136576 original size:18 final size:18
Alignment explanation
Indices: 57136537--57136578 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
57136527 ATTTCGAATT
*
57136537 TTTTATAATTATTAAGTA
1 TTTTATAATTATTAAGGA
*
57136555 TTTTA-AATTATTTAGGA
1 TTTTATAATTATTAAGGA
57136572 GTTTTAT
1 -TTTTAT
57136579 GTTAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTATAATTATTAAGGA
Found at i:57143890 original size:25 final size:25
Alignment explanation
Indices: 57143862--57143913 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 25
57143852 TTTAGATCTT
57143862 TGTTC-TT-TTATTTTGTTCATTTTTA
1 TGTTCATTCTTATTTTGTT--TTTTTA
57143887 TGTTCATTTCTTATTTTGTTTTTTTA
1 TGTTCA-TTCTTATTTTGTTTTTTTA
57143913 T
1 T
57143914 AGAACTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.21
26 7 0.29
27 2 0.08
28 10 0.42
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (25 bp):
TGTTCATTCTTATTTTGTTTTTTTA
Found at i:57157334 original size:100 final size:100
Alignment explanation
Indices: 57157161--57157361 Score: 249
Period size: 100 Copynumber: 2.0 Consensus size: 100
57157151 TACCCCTGAG
* * * * * *
57157161 GTTGCAATTTAAAAGATTAAAGCCACAATAGCAGATTTTACTTTCCTGACTGTGTAGTGGAATAG
1 GTTGCAATTAAAAAGATTAAAGCCACAATAGCAGATCTTACTTTCCTGACGGTGCAGTAGAACAG
** *
57157226 ATTGAAGCTACAACAGCGGATCTTGCTTCCCCGAC
66 ATTGAAGCTACAACAGCAAATCTTACTTCCCCGAC
* * * ** * *
57157261 GTTGCAGTTAAAAAGATTGAAGCCACAATGGTGGATCTTACTTTCTTGGCGGTGCAGTAGAACAG
1 GTTGCAATTAAAAAGATTAAAGCCACAATAGCAGATCTTACTTTCCTGACGGTGCAGTAGAACAG
*
57157326 ATTGAAGCTACAACAGCAAATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCAAATCTTACTTCCCCGAC
57157361 G
1 G
57157362 AACCTTATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (100 bp):
GTTGCAATTAAAAAGATTAAAGCCACAATAGCAGATCTTACTTTCCTGACGGTGCAGTAGAACAG
ATTGAAGCTACAACAGCAAATCTTACTTCCCCGAC
Found at i:57159638 original size:70 final size:70
Alignment explanation
Indices: 57159520--57159650 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 70
57159510 TCTTTTCAAA
*
57159520 CTCACGTTTTAAACGACCCCGGGAATTAAGAAGAAATCATGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGACCCCGGGAATTAAGAAGAAATCATGTCCTAACTTACTGGGCATGATCCT
57159585 TTTTT
66 TTTTT
* * *
57159590 CTCAAGTTTTAAACGATCTCGGGAATTAAGAA-AAGATCGTGTCCTAACTTACTGGGCATGA
1 CTCAAGTTTTAAACGACCCCGGGAATTAAGAAGAA-ATCATGTCCTAACTTACTGGGCATGA
57159651 CCCCTTTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
69 2 0.04
70 54 0.96
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (70 bp):
CTCAAGTTTTAAACGACCCCGGGAATTAAGAAGAAATCATGTCCTAACTTACTGGGCATGATCCT
TTTTT
Found at i:57160819 original size:11 final size:10
Alignment explanation
Indices: 57160774--57160833 Score: 54
Period size: 9 Copynumber: 6.1 Consensus size: 10
57160764 TGATTTAGAA
57160774 TATTAAAAA-
1 TATTAAAAAT
57160783 TATTAAAAA-
1 TATTAAAAAT
**
57160792 TGGTAAAGAAT
1 TATTAAA-AAT
57160803 TATTAAAAAT
1 TATTAAAAAT
57160813 TATTTAAAAAT
1 TA-TTAAAAAT
*
57160824 T-CTAAAAAT
1 TATTAAAAAT
57160833 T
1 T
57160834 CTAAATTCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 22 0.51
10 7 0.16
11 14 0.33
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:57162477 original size:25 final size:25
Alignment explanation
Indices: 57162382--57162465 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
57162372 AATGGTAAGA
* * *
57162382 TACTTTGATGTTTATAATGATGAAT
1 TACTTTGATTTTTGTAATGAGGAAT
** *
57162407 TACTTTGATTCTTCTACGTTTTTAGGAAT
1 TACTTTGATT-TT-T--GTAATGAGGAAT
57162436 TACTTTGATTTTTGTAATGAGGAAT
1 TACTTTGATTTTTGTAATGAGGAAT
57162461 TACTT
1 TACTT
57162466 GTTTAGTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
25 23 0.50
26 2 0.04
27 2 0.04
28 2 0.04
29 17 0.37
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.50
Consensus pattern (25 bp):
TACTTTGATTTTTGTAATGAGGAAT
Found at i:57163812 original size:55 final size:57
Alignment explanation
Indices: 57163691--57163838 Score: 198
Period size: 55 Copynumber: 2.6 Consensus size: 57
57163681 ATTATGATTT
57163691 TTATT-AATTCATATTTTAATAATAATTATATTAAAAATGTTATTAAATTATATATTATA
1 TTATTAAATT-ATA-TTTAATAATAATTATATTAAAAATG-TATTAAATTATATATTATA
* *
57163750 TTATTAAATTATATTTAATAATAATTATGTTAAAATATG-ATTAAATTATTTA-T-TA
1 TTATTAAATTATATTTAATAATAATTATATTAAAA-ATGTATTAAATTATATATTATA
*
57163805 TTATTAAATTATATTTAATAATAACT-TATTAAAA
1 TTATTAAATTATATTTAATAATAATTATATTAAAA
57163839 TTTAATAATA
Statistics
Matches: 83, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
54 7 0.08
55 27 0.33
56 1 0.01
57 12 0.14
58 21 0.25
59 11 0.13
60 4 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (57 bp):
TTATTAAATTATATTTAATAATAATTATATTAAAAATGTATTAAATTATATATTATA
Found at i:57163821 original size:20 final size:19
Alignment explanation
Indices: 57163730--57163821 Score: 77
Period size: 20 Copynumber: 4.9 Consensus size: 19
57163720 ATTAAAAATG
57163730 TTATTAAATTATATATTATA
1 TTATTAAATTATAT-TTATA
57163750 TTATTAAATTATATTTA-A
1 TTATTAAATTATATTTATA
* * *
57163768 -TAAT-AATTATGTTAAAATA
1 TTATTAAATTATATT--TATA
*
57163787 TGATTAAA-T-TATTTATTA
1 TTATTAAATTATATTTA-TA
57163805 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
57163822 ATAATAACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
16 8 0.14
17 4 0.07
18 11 0.20
19 8 0.14
20 23 0.41
21 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATTAAATTATATTTATA
Found at i:57169829 original size:32 final size:33
Alignment explanation
Indices: 57169779--57169854 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 33
57169769 AAATAAACAC
* * *
57169779 TAAAAAAAATTTAGAAAATTAAAAAAAGTATTT
1 TAAAAATATTTTAGAAAATAAAAAAAAGTATTT
57169812 TAAAAATATTTTA-AAAATAAAAAAAAGTATTT
1 TAAAAATATTTTAGAAAATAAAAAAAAGTATTT
57169844 T-AAAATATTTT
1 TAAAAATATTTT
57169855 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 10 0.25
32 19 0.47
33 11 0.28
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (33 bp):
TAAAAATATTTTAGAAAATAAAAAAAAGTATTT
Found at i:57169848 original size:11 final size:11
Alignment explanation
Indices: 57169801--57169830 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
57169791 AGAAAATTAA
57169801 AAAAAGTATTTT
1 AAAAA-TATTTT
57169813 AAAAATATTTT
1 AAAAATATTTT
57169824 AAAAATA
1 AAAAATA
57169831 AAAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:57173230 original size:16 final size:17
Alignment explanation
Indices: 57173211--57173244 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57173201 GAATAATTTT
*
57173211 ATTTTTAT-TAATTTAA
1 ATTTTTATAAAATTTAA
57173227 ATTTTTATAAAATTTAA
1 ATTTTTATAAAATTTAA
57173244 A
1 A
57173245 AAGTATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTATAAAATTTAA
Found at i:57174675 original size:32 final size:32
Alignment explanation
Indices: 57174597--57174701 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
57174587 TGGTTCTGTG
* ** * * *
57174597 AAATAATAACAAATATCAAAATTTCATGTTGTG
1 AAATGATAACAAATATC-AACGTTAATTTTGTA
*
57174630 AAATCATAACAAAT-TACAACGTTAATTTTGTA
1 AAATGATAACAAATAT-CAACGTTAATTTTGTA
* * * *
57174662 AAATGATAACAAATATCAACTTTCATTTTCTT
1 AAATGATAACAAATATCAACGTTAATTTTGTA
57174694 AAATGATA
1 AAATGATA
57174702 CAACGTTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
32 44 0.75
33 15 0.25
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (32 bp):
AAATGATAACAAATATCAACGTTAATTTTGTA
Found at i:57177306 original size:42 final size:42
Alignment explanation
Indices: 57177191--57177312 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
57177181 GTTTCTGTTT
* * *
57177191 AACCCTAATGGGTTTCCT-TTCAGCTCTTTTAAGCTTCAGTTT
1 AACCCTAATGGGTTT-CTGTTCAGCTCTTATATGCTTCAGTTC
* *
57177233 AACCCTTATGGGTTTCTGTTCAGCTCTTATATGCTTCCGTTC
1 AACCCTAATGGGTTTCTGTTCAGCTCTTATATGCTTCAGTTC
* * *
57177275 AACCCTCATGGGTTTCTGTTTAGCACTTATATGTCTTC
1 AACCCTAATGGGTTTCTGTTCAGCTCTTATATG-CTTC
57177313 TGAAAACGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 64 0.91
43 4 0.06
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
AACCCTAATGGGTTTCTGTTCAGCTCTTATATGCTTCAGTTC
Found at i:57179555 original size:91 final size:92
Alignment explanation
Indices: 57179328--57179540 Score: 286
Period size: 92 Copynumber: 2.3 Consensus size: 92
57179318 TGAACACTCC
* * * *
57179328 AGTTTATGGATAAACCACAAGTATTTGCAGGTTAATACACTGCCAGTAGGTTGTGAATGCACAAC
1 AGTTTATGGATAAACCACCAGTATTTGCAGGTTAATAAACTGCCACTAGGTTGTAAATGCACAAC
57179393 ATGTTTGACAAATAAAAGTTGCCAGTA
66 ATGTTTGACAAATAAAAGTTGCCAGTA
* * *
57179420 AGTTTATGGATGAACCACCAGTGTTTGCAGGTTAATAAGCTGCCACTAGGTTGTAAATGCACAAC
1 AGTTTATGGATAAACCACCAGTATTTGCAGGTTAATAAACTGCCACTAGGTTGTAAATGCACAAC
* * * *
57179485 GTGTTTG-TAGATAAAAGCTT-CTAGTA
66 ATGTTTGACAAATAAAAG-TTGCCAGTA
* *
57179511 AGTTTGTGGATAAATCACCAGTATTTGCAG
1 AGTTTATGGATAAACCACCAGTATTTGCAG
57179541 ACTATTAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
91 39 0.37
92 66 0.63
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (92 bp):
AGTTTATGGATAAACCACCAGTATTTGCAGGTTAATAAACTGCCACTAGGTTGTAAATGCACAAC
ATGTTTGACAAATAAAAGTTGCCAGTA
Found at i:57179749 original size:38 final size:38
Alignment explanation
Indices: 57179618--57179750 Score: 135
Period size: 38 Copynumber: 3.5 Consensus size: 38
57179608 ATAGTACAAT
* **
57179618 ACAGAAACAGTGAA-CATGCTTAACATGTATTTGGTTCA
1 ACAGTAACAGT-AAGCATGCTTAACATGTATTCAGTTCA
* ** * *
57179656 ACACTAGTAGT-AGACATGCTTAACATGTATTCAATTTA
1 ACAGTAACAGTAAG-CATGCTTAACATGTATTCAGTTCA
* * *
57179694 ACAGCAACAGTAGGCATGTTTAACATGTATTCAGTTCA
1 ACAGTAACAGTAAGCATGCTTAACATGTATTCAGTTCA
57179732 ACAGTAACAGTAAGCATGC
1 ACAGTAACAGTAAGCATGC
57179751 AACCAGTAAC
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
36 1 0.01
38 71 0.97
39 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (38 bp):
ACAGTAACAGTAAGCATGCTTAACATGTATTCAGTTCA
Found at i:57182265 original size:13 final size:13
Alignment explanation
Indices: 57182249--57182273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57182239 AAATCTTAAA
57182249 ATTATTATTATTT
1 ATTATTATTATTT
57182262 ATTATTATTATT
1 ATTATTATTATT
57182274 ATTGCCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:57182564 original size:14 final size:13
Alignment explanation
Indices: 57182545--57182575 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
57182535 TTCTCTTCCC
57182545 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
57182558 ATTTTTCTTTTCTT
1 -TTTTTCTTTTCTT
57182572 TTTT
1 TTTT
57182576 CTAGGCCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:57187660 original size:7 final size:7
Alignment explanation
Indices: 57187637--57187661 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57187627 TCAGTTGTCA
57187637 GTTAGTT
1 GTTAGTT
57187644 GTTAGTT
1 GTTAGTT
57187651 GTTAGTT
1 GTTAGTT
57187658 GTTA
1 GTTA
57187662 AGTCAGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (7 bp):
GTTAGTT
Found at i:57190296 original size:17 final size:16
Alignment explanation
Indices: 57190247--57190298 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 16
57190237 ATGCAGGCCC
57190247 AGAAAAAGAAAAGAAA
1 AGAAAAAGAAAAGAAA
*
57190263 AGAAAAAGGGAAGAGAAA
1 AGAAAAA--GAAAAGAAA
*
57190281 GGAAAATAGAAAAGAAA
1 AGAAAA-AGAAAAGAAA
57190298 A
1 A
57190299 ATGAGGCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 7 0.24
17 8 0.28
18 13 0.45
19 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (16 bp):
AGAAAAAGAAAAGAAA
Found at i:57191096 original size:20 final size:20
Alignment explanation
Indices: 57191071--57191119 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
57191061 TAATTATTTA
* *
57191071 GATAAAGTTTGTATTTCATT
1 GATAAAATTTCTATTTCATT
* *
57191091 GATAAAATTTCTGTTTCCTT
1 GATAAAATTTCTATTTCATT
57191111 GATAAAATT
1 GATAAAATT
57191120 CAACGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (20 bp):
GATAAAATTTCTATTTCATT
Found at i:57195940 original size:14 final size:14
Alignment explanation
Indices: 57195921--57195951 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57195911 ATGATTGTTT
*
57195921 TAATCTAAATTTAC
1 TAATCTAAATTAAC
57195935 TAATCTAAATTAAC
1 TAATCTAAATTAAC
57195949 TAA
1 TAA
57195952 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:57196920 original size:22 final size:22
Alignment explanation
Indices: 57196891--57196958 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
57196881 TGCACTGATG
57196891 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* * * *
57196913 TACAGAGAGTACAGATGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
57196935 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
57196957 AA
1 AA
57196959 TATCAGAGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:57198095 original size:5 final size:5
Alignment explanation
Indices: 57198085--57198157 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
57198075 TATATACATA
* * *
57198085 ATAAT ATAAT AAAAT ATTAT AATAAT ATAAT ATAAT A-ACAT ACTTAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATA-AT A-TAAT
* *
57198132 -TAAT TTAGT A-AAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
57198158 TATTTTAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
4 7 0.13
5 40 0.75
6 6 0.11
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:57198105 original size:13 final size:13
Alignment explanation
Indices: 57198084--57198122 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
57198074 ATATATACAT
57198084 AATAATATAATAA
1 AATAATATAATAA
*
57198097 AATATTATAATAA
1 AATAATATAATAA
*
57198110 TATAATATAATAA
1 AATAATATAATAA
57198123 CATACTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATATAATAA
Found at i:57198106 original size:21 final size:21
Alignment explanation
Indices: 57198082--57198121 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57198072 TTATATATAC
57198082 ATAATAATATAATAAAATATT
1 ATAATAATATAATAAAATATT
*
57198103 ATAATAATATAATATAATA
1 ATAATAATATAATAAAATA
57198122 ACATACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAATATAATAAAATATT
Found at i:57200073 original size:9 final size:8
Alignment explanation
Indices: 57200057--57200081 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57200047 TCAATATATA
57200057 TGTTTTTT
1 TGTTTTTT
57200065 TGTTTTTT
1 TGTTTTTT
57200073 TGTTTTTT
1 TGTTTTTT
57200081 T
1 T
57200082 ATTTGAGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TGTTTTTT
Done.