Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 54 of 126
Found at i:15725921 original size:15 final size:15
Alignment explanation
Indices: 15725901--15725938 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
15725891 AGGATTTGGT
15725901 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
15725916 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
*
15725931 TTATTTAT
1 TTGTTTAT
15725939 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTGTTTATTTTATTA
Found at i:15725958 original size:13 final size:13
Alignment explanation
Indices: 15725940--15725965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15725930 ATTATTTATC
15725940 ATTTAAATATATA
1 ATTTAAATATATA
15725953 ATTTAAATATATA
1 ATTTAAATATATA
15725966 TAAATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:15725966 original size:15 final size:14
Alignment explanation
Indices: 15725944--15725978 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
15725934 TTTATCATTT
*
15725944 AAATATATAATTTA
1 AAATATATAAATTA
15725958 AATATATATAAATTA
1 AA-ATATATAAATTA
15725973 AAATAT
1 AAATAT
15725979 TTTAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATATATAAATTA
Found at i:15725990 original size:11 final size:11
Alignment explanation
Indices: 15725970--15726000 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15725960 TATATATAAA
15725970 TTAA-AATATT
1 TTAATAATATT
15725980 TTAATAATATT
1 TTAATAATATT
15725991 TTAATAATAT
1 TTAATAATAT
15726001 AGAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAATAATATT
Found at i:15729935 original size:20 final size:19
Alignment explanation
Indices: 15729911--15729981 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
15729901 TGTAAATTTG
15729911 TAAAATTTTATAAAAAATA
1 TAAAATTTTATAAAAAATA
** *
15729930 GTAAAAAATTATAAAATATA
1 -TAAAATTTTATAAAAAATA
15729950 TAGAAA---TATAAAAAATTA
1 TA-AAATTTTATAAAAAA-TA
15729968 TAAAATTTTATAAA
1 TAAAATTTTATAAA
15729982 GTCGTAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 11 0.26
18 4 0.10
19 2 0.05
20 25 0.60
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAATTTTATAAAAAATA
Found at i:15729944 original size:10 final size:9
Alignment explanation
Indices: 15729919--15729972 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
15729909 TGTAAAATTT
15729919 TATAAAAAA
1 TATAAAAAA
15729928 TAGTAAAAAA
1 TA-TAAAAAA
*
15729938 T-TATAAAA
1 TATAAAAAA
*
15729946 TATATAGAAA
1 TATA-AAAAA
15729956 TATAAAAAA
1 TATAAAAAA
15729965 TTATAAAA
1 -TATAAAA
15729973 TTTTATAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.19
9 8 0.22
10 22 0.59
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (9 bp):
TATAAAAAA
Found at i:15730240 original size:28 final size:26
Alignment explanation
Indices: 15730183--15730240 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
15730173 TTATTAATTT
* * *
15730183 TTTTTATGATTTTTATAAAATTTTAT
1 TTTTTACGATTTTTATAAAATTCTAA
15730209 TTTTTACGATTTTTATAAAAAATTCTAA
1 TTTTTACGATTTTTAT--AAAATTCTAA
15730237 TTTT
1 TTTT
15730241 AAATAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 15 0.56
28 12 0.44
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTTTACGATTTTTATAAAATTCTAA
Found at i:15730280 original size:18 final size:20
Alignment explanation
Indices: 15730259--15730300 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15730249 TTTAAATTCT
15730259 TTTATAT-A-TTTATTAAAA
1 TTTATATAATTTTATTAAAA
*
15730277 TTTA-ATAATTTTTTTAAAA
1 TTTATATAATTTTATTAAAA
15730296 TTTAT
1 TTTAT
15730301 GAATTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 5 0.25
19 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATATAATTTTATTAAAA
Found at i:15730832 original size:21 final size:21
Alignment explanation
Indices: 15730808--15730857 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
15730798 TTTCGAATCG
*
15730808 AGTTGAGTAAAACGAAATTCA
1 AGTTAAGTAAAACGAAATTCA
* * *
15730829 AGTTAAGTGAAATGAAATTTA
1 AGTTAAGTAAAACGAAATTCA
15730850 AGTTAAGT
1 AGTTAAGT
15730858 CAAATCGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTTAAGTAAAACGAAATTCA
Found at i:15730862 original size:21 final size:21
Alignment explanation
Indices: 15730821--15730862 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15730811 TGAGTAAAAC
*
15730821 GAAATTCAAGTTAAGTGAAAT
1 GAAATTCAAGTTAAGTCAAAT
*
15730842 GAAATTTAAGTTAAGTCAAAT
1 GAAATTCAAGTTAAGTCAAAT
15730863 CGAGTGACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (21 bp):
GAAATTCAAGTTAAGTCAAAT
Found at i:15734538 original size:18 final size:18
Alignment explanation
Indices: 15734502--15734540 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15734492 GACTTTTGAC
*
15734502 AGACATAATCCCTAGTCT
1 AGACATAATCCATAGTCT
15734520 AGACATAATCACATA-TCT
1 AGACATAATC-CATAGTCT
15734538 AGA
1 AGA
15734541 GATATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (18 bp):
AGACATAATCCATAGTCT
Found at i:15738949 original size:263 final size:261
Alignment explanation
Indices: 15738484--15739005 Score: 839
Period size: 263 Copynumber: 2.0 Consensus size: 261
15738474 ACTTAGTCCG
* *
15738484 CCGAGTACTATCTAAGAGGAGGTTAGTGGCACCAATGAGTCTCTTAAATAATATGCTCTAAGAGT
1 CCGAGTACTATCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTAAATAATATGCTCCAAGAGT
* * * *
15738549 TTATATAAGGTGGGCTCGCACAATCCAGAAGATATATAAGGAAGATCTCCTGACATTATTTGTTA
66 TTATATAAGATGGGCTCGCACAATCCAGAAAATATATAAGGAAGATCTACTGACAGTATTTGTTA
* * * *
15738614 ATCCATTGCATCCTATGATTGGCGACACTTATCCAGACATCTCATATAGTTCCCTCACATCAAAT
131 ATCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCAAAT
* * * *
15738679 CCAATAATGTTCCTAGCTAACATTCACCACTCTACCCTTTGCACCTATGAAGTAGAGTGCTTGAC
196 CCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTACACCTATGAAGTAGAGTGCTTGAC
15738744 A
261 A
* *
15738745 CCGAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGT
1 CCGAGTACTATCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTAAATAATATGCTCCAAGAGT
*
15738810 TTATATAAGATGGGCTTGCACAATCCCTAGAAAATATATAAGGAAGATCTACTGATC-GTATTTG
66 TTATATAAGATGGGCTCGCACAAT-CC-AGAAAATATATAAGGAAGATCTACTGA-CAGTATTTG
15738874 TTAATCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCA
128 TTAATCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCA
* *
15738939 ACTCCAATAATGGTCCTAGCTAAAATTCACCACTTTACCCTCTACACCTATGAAGTAGAGTGCTT
193 AATCCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTACACCTATGAAGTAGAGTGCTT
15739004 GA
258 GA
15739006 TGGTTAGGGT
Statistics
Matches: 239, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
261 83 0.35
262 2 0.01
263 153 0.64
264 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (261 bp):
CCGAGTACTATCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTAAATAATATGCTCCAAGAGT
TTATATAAGATGGGCTCGCACAATCCAGAAAATATATAAGGAAGATCTACTGACAGTATTTGTTA
ATCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCAAAT
CCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTACACCTATGAAGTAGAGTGCTTGAC
A
Found at i:15754663 original size:97 final size:97
Alignment explanation
Indices: 15754497--15754684 Score: 331
Period size: 97 Copynumber: 1.9 Consensus size: 97
15754487 AGGAATTATT
* *
15754497 TGTATATGTGAAATTAAAATTTTAGGCTCCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTCCGAGCCTAAAAGGTTTATTAACAGTGAAGTAATCCA
15754562 GACATTACGTCTAGCACGCTTGATGTTTCACC
66 GACATTACGTCTAGCACGCTTGATGTTTCACC
* *
15754594 TGTATATATGAAATTAAAATTTTAGGCTTCGAGCCTAAAATGTTTATTAACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTCCGAGCCTAAAAGGTTTATTAACAGTGAAGTAATCCA
*
15754659 GACATTACGTCTAGCAGGCTTGATGT
66 GACATTACGTCTAGCACGCTTGATGT
15754685 CGTTGAAACA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (97 bp):
TGTATATATGAAATTAAAATTTTAGGCTCCGAGCCTAAAAGGTTTATTAACAGTGAAGTAATCCA
GACATTACGTCTAGCACGCTTGATGTTTCACC
Found at i:15754713 original size:41 final size:41
Alignment explanation
Indices: 15754656--15754879 Score: 358
Period size: 41 Copynumber: 5.5 Consensus size: 41
15754646 GTGAAGTAAT
* *
15754656 CCAGACATTACGTCTAGCAGGCTTGATGTCGTTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
15754697 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
15754738 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
15754779 CCAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAATCATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
15754820 CCAGACTTTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
15754861 TCAGACTTTATGTCTAGCA
1 CCAGACATTACGTCTAGCA
15754880 AGCTATGTGT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 172 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:15754911 original size:123 final size:123
Alignment explanation
Indices: 15754657--15754911 Score: 332
Period size: 123 Copynumber: 2.1 Consensus size: 123
15754647 TGAAGTAATC
* * * *
15754657 CAGACATTACGTCTAGCAGGCTTGATGTCGTTGAAACATACCAGACATTACGTCTAGCAGGCTTG
1 CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTG
* * * *
15754722 ATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATAC
66 ATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGATGCCGGTCAAACAAAA
* * *
15754780 CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAATCATACCAGACTTTACGTCTAGTAGGCTTG
1 CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTG
* * * * * *
15754845 ATGCCGGTGAAACATATCAGACTTTATGTCTAGCAAGCTATG-TGTCGGTCTACCAAAA
66 ATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCT-TGATGCCGGTCAAACAAAA
*
15754903 CAGGCTTTA
1 CAGACTTTA
15754912 AGCCTAGTAG
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
123 111 0.98
124 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (123 bp):
CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTG
ATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGATGCCGGTCAAACAAAA
Found at i:15754919 original size:82 final size:82
Alignment explanation
Indices: 15754669--15754924 Score: 280
Period size: 82 Copynumber: 3.1 Consensus size: 82
15754659 GACATTACGT
* * * * * * *
15754669 CTAGCAGGCTTGATGTCGTTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTCAAC
* * * * *
15754734 CATACCAGACATTACGT
66 CAAAACAGACTTTAAGC
* * *
15754751 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAT
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTCAAC
* * * *
15754816 CATACCAGACTTTACGT
66 CAAAACAGACTTTAAGC
* * * *
15754833 CTAGTAGGCTTGATGCCGGTGAAACATATCAGACTTTATGTCTAGCAAGCTATG-TGTCGGTCTA
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCT-TGATGCCGGTCAA
*
15754897 CCAAAACAGGCTTTAAGC
65 CCAAAACAGACTTTAAGC
15754915 CTAGTAGGCT
1 CTAGTAGGCT
15754925 AAGTGCCGGT
Statistics
Matches: 155, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
82 153 0.99
83 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (82 bp):
CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTCAAC
CAAAACAGACTTTAAGC
Found at i:15762944 original size:41 final size:41
Alignment explanation
Indices: 15762897--15763083 Score: 266
Period size: 41 Copynumber: 4.6 Consensus size: 41
15762887 GTGAAGTAAT
15762897 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
15762938 CCAGACATTACGTCTAGTAGGCTTGATGCTGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
15762979 CCAGACTTTACGTCTTGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
15763020 CCAGACATTACGTCTAGCAGGGTTGATACCGGTGAAATATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * *
15763061 TCATACTTTATGTCTAGGAGGCT
1 CCAGACATTACGTCTAGCAGGCT
15763084 AAGTGCCGGT
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:15763093 original size:41 final size:41
Alignment explanation
Indices: 15763048--15763136 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 41
15763038 AGGGTTGATA
* * * * * *
15763048 CCGGTGAAATATATCATACTTTATGTCTAGGAGGCTAAGTG
1 CCGGTGAAATAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
* *
15763089 CCGGTGTACTAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
1 CCGGTGAAATAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
15763130 CCGGTGA
1 CCGGTGA
15763137 TATTGTTTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (41 bp):
CCGGTGAAATAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
Found at i:15763122 original size:123 final size:123
Alignment explanation
Indices: 15762897--15763124 Score: 271
Period size: 123 Copynumber: 1.9 Consensus size: 123
15762887 GTGAAGTAAT
* * *
15762897 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGTAGGCTT
1 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* * * * * * *
15762962 GATGCTGGTGAAACATACCAGACTTTACGTCTTGCAGGCTTGATGCCGGTGAAACATA
66 GATGCCGGTGAAACAAAACAAACTTTAAGCCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * * *
15763020 CCAGACATTACGTCTAGCAGGGTTGATACCGGTGAAATATATCATACTTTATGTCTAGGAGGCTA
1 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
*
15763085 -AGTGCCGGTG-TACTAAAACAAACTTTAAGCCTAGCAGGCT
66 GA-TGCCGGTGAAAC-AAAACAAACTTTAAGCCTAGCAGGCT
15763125 AAGTGCCGGT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
122 3 0.03
123 83 0.97
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (123 bp):
CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
GATGCCGGTGAAACAAAACAAACTTTAAGCCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:15767971 original size:37 final size:37
Alignment explanation
Indices: 15767915--15768047 Score: 144
Period size: 37 Copynumber: 3.6 Consensus size: 37
15767905 TAGGACATAG
*
15767915 GTTTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAA
1 GTTTAGCTCAGACGAGTAACCTAATGTTGTTTTAAAA
* * * * *
15767952 GTTTAGCTCAGACGGGTAACCTGAT-ATGTGTTAATA
1 GTTTAGCTCAGACGAGTAACCTAATGTTGTTTTAAAA
* *
15767988 TTATTAGCTC-GAACAAGTAACCTAATGTTGTTTTAAAA
1 GT-TTAGCTCAG-ACGAGTAACCTAATGTTGTTTTAAAA
* *
15768026 GTTTAGCTCGGATGAGTAACCT
1 GTTTAGCTCAGACGAGTAACCT
15768048 GATATGTGTT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
36 10 0.13
37 56 0.74
38 10 0.13
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (37 bp):
GTTTAGCTCAGACGAGTAACCTAATGTTGTTTTAAAA
Found at i:15768045 original size:74 final size:74
Alignment explanation
Indices: 15767917--15768074 Score: 253
Period size: 74 Copynumber: 2.1 Consensus size: 74
15767907 GGACATAGGT
* * *
15767917 TTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGGGTAACCTGATATGTG
1 TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTGATATGTG
15767982 TTAATATTA
66 TTAATATTA
* *
15767991 TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGATGAGTAACCTGATATGTG
1 TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTGATATGTG
*
15768056 TTTATATTA
66 TTAATATTA
*
15768065 TTAGATCGAA
1 TTAGCTCGAA
15768075 TAAGCAATTG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (74 bp):
TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTGATATGTG
TTAATATTA
Found at i:15772883 original size:46 final size:46
Alignment explanation
Indices: 15772816--15772908 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
15772806 AAATATACTT
15772816 AAATCTTTACAGCTACACAATTTTAAATATGAGTTTGATACAACGA
1 AAATCTTTACAGCTACACAATTTTAAATATGAGTTTGATACAACGA
15772862 AAATCTTTACAGCTACACAATTTTAAATATGAGTTTGATACAACGA
1 AAATCTTTACAGCTACACAATTTTAAATATGAGTTTGATACAACGA
15772908 A
1 A
15772909 CTAACCTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (46 bp):
AAATCTTTACAGCTACACAATTTTAAATATGAGTTTGATACAACGA
Found at i:15775931 original size:19 final size:19
Alignment explanation
Indices: 15775893--15775931 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15775883 AAATAGTGAG
*
15775893 AATTTATTTTCTGAGTATA
1 AATTTATTTTCTGAGAATA
15775912 AATTCTATTTTCTG-GAATA
1 AATT-TATTTTCTGAGAATA
15775931 A
1 A
15775932 CAATTCTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTGAGAATA
Found at i:15782932 original size:6 final size:6
Alignment explanation
Indices: 15782914--15782942 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15782904 AGAAAAACTT
15782914 TCTTTC T-TTTC TCTTTC TCTTTC TCTTTC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
15782943 ATGTTAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTTC
Found at i:15789318 original size:17 final size:17
Alignment explanation
Indices: 15789296--15789328 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15789286 CACTAACATG
*
15789296 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
15789313 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
15789329 GTGTCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:15789786 original size:18 final size:18
Alignment explanation
Indices: 15789754--15789792 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15789744 CATTTTTATT
** *
15789754 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
15789772 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
15789790 TTC
1 TTC
15789793 TGCAGTAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:15801240 original size:27 final size:28
Alignment explanation
Indices: 15801196--15801249 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
15801186 CTTGGAGTCA
** *
15801196 GTAGTCCACCGGGATAG-TAAACAAGGG
1 GTAGTCCACAAGGATAGTTAAAAAAGGG
*
15801223 GTAGTCCACAAGGTTAGTTAAAAAAGG
1 GTAGTCCACAAGGATAGTTAAAAAAGG
15801250 AAAATCACCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.19
Consensus pattern (28 bp):
GTAGTCCACAAGGATAGTTAAAAAAGGG
Found at i:15801922 original size:20 final size:18
Alignment explanation
Indices: 15801897--15801935 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15801887 TTACATGATT
*
15801897 TTCATGTATATTTATATTAA
1 TTCATGT-TAATT-TATTAA
15801917 TTCATGTTAATTTATTAA
1 TTCATGTTAATTTATTAA
15801935 T
1 T
15801936 GTTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTCATGTTAATTTATTAA
Found at i:15809293 original size:70 final size:70
Alignment explanation
Indices: 15809180--15809321 Score: 239
Period size: 70 Copynumber: 2.0 Consensus size: 70
15809170 GTAGGTACCA
* * **
15809180 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTGCTTACTCACGAAGAAAGATGCTAAATTG
1 AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCACGAAGAAAGATGCTAAACCG
15809245 AGGCT
66 AGGCT
*
15809250 AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCATGAAGAAAGATGCTAAACCG
1 AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCACGAAGAAAGATGCTAAACCG
15809315 AGGCT
66 AGGCT
15809320 AA
1 AA
15809322 TTCAATGGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (70 bp):
AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCACGAAGAAAGATGCTAAACCG
AGGCT
Found at i:15810932 original size:19 final size:19
Alignment explanation
Indices: 15810901--15810943 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15810891 AAAAAAAATT
* *
15810901 ATTTTTAGTTTTATTTTTC
1 ATTTTTAGTTTTATCTTTA
15810920 ATTTTTA-TCTTTATCTTTA
1 ATTTTTAGT-TTTATCTTTA
15810939 ATTTT
1 ATTTT
15810944 AATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTAGTTTTATCTTTA
Found at i:15810951 original size:11 final size:11
Alignment explanation
Indices: 15810935--15810972 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
15810925 TATCTTTATC
15810935 TTTAATTTTAA
1 TTTAATTTTAA
15810946 TTTAATTTTAA
1 TTTAATTTTAA
15810957 TCTTTAATTTTAA
1 --TTTAATTTTAA
15810970 TTT
1 TTT
15810973 GTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.56
13 11 0.44
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:15810964 original size:13 final size:13
Alignment explanation
Indices: 15810932--15810970 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
15810922 TTTTATCTTT
15810932 ATCTTTAATTTTA
1 ATCTTTAATTTTA
15810945 A--TTTAATTTTA
1 ATCTTTAATTTTA
15810956 ATCTTTAATTTTA
1 ATCTTTAATTTTA
15810969 AT
1 AT
15810971 TTGTTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.46
13 13 0.54
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (13 bp):
ATCTTTAATTTTA
Found at i:15810969 original size:6 final size:6
Alignment explanation
Indices: 15810903--15810972 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
15810893 AAAAAATTAT
* * * *
15810903 TTTTAG TTTTAT TTTTCA TTTTTA TCTTT-A TCTTTAA TTTTAA -TTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA T-TTTAA T-TTTAA TTTTAA TTTTAA
15810951 TTTTAA TCTTTAA TTTTAA TTT
1 TTTTAA T-TTTAA TTTTAA TTT
15810973 GTTTATGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.09
6 40 0.71
7 11 0.20
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:15814137 original size:50 final size:50
Alignment explanation
Indices: 15814066--15814230 Score: 208
Period size: 50 Copynumber: 3.3 Consensus size: 50
15814056 GGAATGAGAT
* *
15814066 CCCATGTAAGACCATGCCTGGGACATGGTGTTGGCACCGAGATGAGAGGC
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGC
* **
15814116 CCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACTAAGATGAGAGGTC
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG-C
* * * * *
15814167 CCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA-AC
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGC
15814215 TCCCATGTAAGACCAT
1 -CCCATGTAAGACCAT
15814231 ATCCGGGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 90 0.92
51 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGC
Found at i:15814517 original size:12 final size:12
Alignment explanation
Indices: 15814500--15814538 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15814490 ATGAGTTATT
15814500 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
15814512 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
15814524 TAAGTGAGTAAG
1 TAAGTAAGCAAG
15814536 TAA
1 TAA
15814539 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:15821651 original size:25 final size:25
Alignment explanation
Indices: 15821622--15821736 Score: 135
Period size: 25 Copynumber: 4.6 Consensus size: 25
15821612 TTCGCCATAC
15821622 AGGCTTTCCAGATAACATG-CTACAA
1 AGGCTTTCCAGATAACATGTC-ACAA
*
15821647 AGGCTTTCTAGATAACATG-CGACAA
1 AGGCTTTCCAGATAACATGTC-ACAA
*
15821672 AGGCTATCCAGATAACATGTCACAA
1 AGGCTTTCCAGATAACATGTCACAA
* * *
15821697 AGGTTTTCCGGATAATATGTCACAA
1 AGGCTTTCCAGATAACATGTCACAA
* *
15821722 ACGCTTTCCAAATAA
1 AGGCTTTCCAGATAA
15821737 TATGAGATAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 76 0.99
26 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (25 bp):
AGGCTTTCCAGATAACATGTCACAA
Found at i:15821737 original size:25 final size:25
Alignment explanation
Indices: 15821622--15821753 Score: 133
Period size: 25 Copynumber: 5.3 Consensus size: 25
15821612 TTCGCCATAC
*
15821622 AGGCTTTCCAGATAACATGCTACAA
1 AGGCTTTCCAGATAACATGCGACAA
*
15821647 AGGCTTTCTAGATAACATGCGACAA
1 AGGCTTTCCAGATAACATGCGACAA
*
15821672 AGGCTATCCAGATAACATGTC-ACAA
1 AGGCTTTCCAGATAACATG-CGACAA
* * *
15821697 AGGTTTTCCGGATAATATGTC-ACAA
1 AGGCTTTCCAGATAACATG-CGACAA
* * * * *
15821722 ACGCTTTCCAAATAATATGAGATAA
1 AGGCTTTCCAGATAACATGCGACAA
15821747 AGGCTTT
1 AGGCTTT
15821754 TTAGTTACCA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
25 89 0.99
26 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGATAACATGCGACAA
Found at i:15823753 original size:19 final size:20
Alignment explanation
Indices: 15823731--15823775 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15823721 TTAAAAAATG
*
15823731 GAATTTTTATAAA-TATTTT
1 GAATTTTTAAAAATTATTTT
15823750 GAA-TTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
15823769 -AATTTTT
1 GAATTTTT
15823776 TTTGTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:15823756 original size:18 final size:18
Alignment explanation
Indices: 15823735--15823774 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
15823725 AAAATGGAAT
*
15823735 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
15823753 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
15823771 TTTT
1 TTTT
15823775 TTTTGTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:15825141 original size:17 final size:17
Alignment explanation
Indices: 15825119--15825165 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
15825109 ATGAACCTGT
15825119 AGTTTATTACATGTATC
1 AGTTTATTACATGTATC
15825136 AGTTTATTACATGTATC
1 AGTTTATTACATGTATC
15825153 --TATTATTACATGT
1 AGT-TTATTACATGT
15825166 GAACCAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.03
16 11 0.38
17 17 0.59
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (17 bp):
AGTTTATTACATGTATC
Found at i:15825248 original size:15 final size:15
Alignment explanation
Indices: 15825228--15825257 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15825218 ACTTGTATTT
*
15825228 TATTACTTGCGAACC
1 TATTACATGCGAACC
15825243 TATTACATGCGAACC
1 TATTACATGCGAACC
15825258 CTAGGAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (15 bp):
TATTACATGCGAACC
Found at i:15825293 original size:34 final size:34
Alignment explanation
Indices: 15825249--15825348 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
15825239 AACCTATTAC
*
15825249 ATGCGAACCCTAGGAACATGCGAGACTATATGTT
1 ATGCAAACCCTAGGAACATGCGAGACTATATGTT
* * *
15825283 GTGCAAACCCTAGGAACATGGGAGTCTATATGTT
1 ATGCAAACCCTAGGAACATGCGAGACTATATGTT
* * *
15825317 ATGCGAACCCTAGGTACATGCGAGCCTATATG
1 ATGCAAACCCTAGGAACATGCGAGACTATATG
15825349 CGAACCTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (34 bp):
ATGCAAACCCTAGGAACATGCGAGACTATATGTT
Found at i:15828979 original size:43 final size:43
Alignment explanation
Indices: 15828923--15829113 Score: 265
Period size: 43 Copynumber: 4.4 Consensus size: 43
15828913 TTAGAAAAAA
* *
15828923 AAACGCCGCTAAAGACCAAGACATTTCGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * ** *
15828966 AAACGCCGTTAAAGACCAAAACCTTTAGCGGCGCTTTTATCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * **
15829009 AAACGCCGCGAAAGACCACGACCTTTAGCGGCATTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
15829052 ATACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
15829095 AAACGCCGCTAAAGACCAA
1 AAACGCCGCTAAAGACCAA
15829114 AACTAAAAGC
Statistics
Matches: 124, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:15829213 original size:42 final size:43
Alignment explanation
Indices: 15829118--15829217 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
15829108 GACCAAAACT
* * * * * *
15829118 AAAAGCGCCGCGAAAGACCAAGACCTTTAGCGACACTTTTATC
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCAACACTTCTAGC
* * *
15829161 ACAAATGCCGCTAAAGAACAA-ACCTTTAGCAACGCTTCTAGC
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCAACACTTCTAGC
15829203 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
15829218 AATAGAATCT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACAAGACCTTTAGCAACACTTCTAGC
Found at i:15830468 original size:12 final size:12
Alignment explanation
Indices: 15830451--15830475 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15830441 ATTTGATCTG
15830451 TATACTAAATGA
1 TATACTAAATGA
15830463 TATACTAAATGA
1 TATACTAAATGA
15830475 T
1 T
15830476 GCCAGTATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TATACTAAATGA
Found at i:15831127 original size:13 final size:13
Alignment explanation
Indices: 15831106--15831145 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
15831096 ACTAACCTGG
*
15831106 TTTAGAATAATTA
1 TTTAAAATAATTA
15831119 TTTAAAATACTATTA
1 TTTAAAATA--ATTA
15831134 TTTAAAATAATT
1 TTTAAAATAATT
15831146 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTAAAATAATTA
Found at i:15835064 original size:133 final size:132
Alignment explanation
Indices: 15834822--15835080 Score: 353
Period size: 133 Copynumber: 2.0 Consensus size: 132
15834812 AATAACTTAA
* * * *
15834822 TTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCCTAACTCGACCCCGAATCTC
1 TTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAACTCAACACCGAATCTC
* * *
15834887 TAAATCCTAAATCACTAACTCTTAACATCTAATCTCTAACCCCTAACCCCTAACCCTTAAACTTT
66 TAAATCCTAAATCACTAACTCTTAACATCTAACCCCTAACCCCTAACCCCTAACCCCTAAACTTT
15834952 AT
131 AT
15834954 TTAATATATAAATTAAAAAAACACTAATTAATCTAAACCATAAACCCTAAC-CTAACACCGAATC
1 TTAATATATAAATT-AAAAAACACTAATTAATCTAAACCATAAACCCTAACTC-AACACCGAATC
* ** * *
15835018 -CATAAATCCTAAATCCCTAACTCTTAATC-TCTAACCCCTAGGCCCTAGCCCCTGACCCCTAAA
64 TC-TAAATCCTAAATCACTAACTCTTAA-CATCTAACCCCTAACCCCTAACCCCTAACCCCTAAA
15835081 TCACAACTCT
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
132 16 0.14
133 94 0.85
134 1 0.01
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.27
Consensus pattern (132 bp):
TTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAACTCAACACCGAATCTC
TAAATCCTAAATCACTAACTCTTAACATCTAACCCCTAACCCCTAACCCCTAACCCCTAAACTTT
AT
Found at i:15835121 original size:14 final size:15
Alignment explanation
Indices: 15835099--15835131 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15835089 CTTAAACCAG
*
15835099 AATCTCTAA-TCCAT
1 AATCCCTAATTCCAT
15835113 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
15835128 AATC
1 AATC
15835132 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:15835655 original size:41 final size:41
Alignment explanation
Indices: 15835536--15835886 Score: 557
Period size: 41 Copynumber: 8.7 Consensus size: 41
15835526 AATATTTTTA
* *
15835536 CGGCGCATTCTCAAAAACGCCGCTAAAAGTCTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
* *
15835577 TGGCGCTTT-TCAAAAACACCGCT-AAAGCCTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
*
15835616 CGGCGCTTTCTCAAAAATGCCGCTAAAAGCCTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
*
15835657 CGGCGCTTTCTCAAAAACGTCGCT-AAAGCCTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
*
15835697 CGGTGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
* *
15835738 CGGCGCTTTTTCAAAAACGCCGCTAAAAGCTTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
*
15835779 CGGCGCTTTCTC-AAAACGCCGTTAAAAGCCTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
* *
15835819 CGGCGCTTTCTAAAAAACGCCGCTAAAAGCTTGAGCATTAG
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
*
15835860 CGGCGCTTTTTCAAAAACGCCGCTAAA
1 CGGCGCTTTCTCAAAAACGCCGCTAAA
15835887 GCCCCAAAAT
Statistics
Matches: 284, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 23 0.08
40 100 0.35
41 161 0.57
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
Found at i:15835709 original size:81 final size:82
Alignment explanation
Indices: 15835536--15835886 Score: 557
Period size: 81 Copynumber: 4.3 Consensus size: 82
15835526 AATATTTTTA
* * * *
15835536 CGGCGCATTCTCAAAAACGCCGCTAAAAGTCTGAGCATTAGTGGCGCTTT-TCAAAAACACCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
15835600 -AAAGCCTGAGCATTAG
66 AAAAGCCTGAGCATTAG
* *
15835616 CGGCGCTTTCTCAAAAATGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGTCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
15835681 -AAAGCCTGAGCATTAG
66 AAAAGCCTGAGCATTAG
* *
15835697 CGGTGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
*
15835762 AAAAGCTTGAGCATTAG
66 AAAAGCCTGAGCATTAG
* *
15835779 CGGCGCTTTCTC-AAAACGCCGTTAAAAGCCTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
*
15835843 AAAAGCTTGAGCATTAG
66 AAAAGCCTGAGCATTAG
*
15835860 CGGCGCTTTTTCAAAAACGCCGCTAAA
1 CGGCGCTTTCTCAAAAACGCCGCTAAA
15835887 GCCCCAAAAT
Statistics
Matches: 251, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
80 46 0.18
81 166 0.66
82 39 0.16
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (82 bp):
CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
AAAAGCCTGAGCATTAG
Found at i:15835764 original size:122 final size:123
Alignment explanation
Indices: 15835536--15835886 Score: 566
Period size: 122 Copynumber: 2.9 Consensus size: 123
15835526 AATATTTTTA
* * * *
15835536 CGGCGCATTCTCAAAAACGCCGCTAAAAGTCTGAGCATTAGTGGCGCTTT-TCAAAAACACCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
* *
15835600 -AAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAATGCCGCTAAAAGCCTGAGCATTAG
66 AAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
* *
15835657 CGGCGCTTTCTCAAAAACGTCGCT-AAAGCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
*
15835721 AAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCTTGAGCATTAG
66 AAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
* *
15835779 CGGCGCTTTCTC-AAAACGCCGTTAAAAGCCTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCT
1 CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
*
15835843 AAAAGCTTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
66 AAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
15835887 GCCCCAAAAT
Statistics
Matches: 213, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
120 22 0.10
121 44 0.21
122 147 0.69
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (123 bp):
CGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCT
AAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAG
Found at i:15840120 original size:16 final size:16
Alignment explanation
Indices: 15840099--15840130 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15840089 ATTAAATACA
15840099 AAATTTTAAACTTTTT
1 AAATTTTAAACTTTTT
*
15840115 AAATTTTAAAGTTTTT
1 AAATTTTAAACTTTTT
15840131 GACTAAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
AAATTTTAAACTTTTT
Found at i:15841481 original size:18 final size:18
Alignment explanation
Indices: 15841454--15841510 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
15841444 TACGACCGTT
15841454 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
15841472 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
15841490 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
15841508 TAC
1 TAC
15841511 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:15849361 original size:12 final size:12
Alignment explanation
Indices: 15849338--15849366 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15849328 ATTTTTTGTT
15849338 ATTTTTTTTCTC
1 ATTTTTTTTCTC
15849350 ATTTTTTTTCTC
1 ATTTTTTTTCTC
15849362 -TTTTT
1 ATTTTT
15849367 AGACCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTTTTCTC
Found at i:15855575 original size:44 final size:44
Alignment explanation
Indices: 15855527--15855648 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
15855517 CATCATTTTG
*
15855527 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTAT-TGCTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTA
* *
15855571 ATCCGTTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
** * * * *
15855615 ATCTACCCCACTGCAACCTCAGGGAAATAAGATT
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
15855649 TGTCATCCTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 3 0.05
44 63 0.95
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
Found at i:15855816 original size:44 final size:44
Alignment explanation
Indices: 15855758--15855866 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
15855748 CACTCTACTG
** * *
15855758 CAACTTCAAAGAGATAAGATCTA-CTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGAT-TATCGACTTCAATCCGCTCCACTA
* * * *
15855802 CAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTATCGACTTCAATCCGCTCCACTA
* *
15855846 CAACCTCAGGGAGATGAGATT
1 CAACTTCAGGGAGATAAGATT
15855867 CGCCATCTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 2 0.04
44 51 0.96
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTATCGACTTCAATCCGCTCCACTA
Found at i:15855819 original size:218 final size:218
Alignment explanation
Indices: 15855526--15855921 Score: 614
Period size: 218 Copynumber: 1.8 Consensus size: 218
15855516 CCATCATTTT
* ** * * * *
15855526 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTGCTTTAATCCGTTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
* * *
15855591 AGGGAGATAGGATTATCGGCTTTAATCTACCCCACTGCAACCTCAGGGAAATAAGATTTGTCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
*
15855656 CTCGATTTGTCCCACTGCAACTTCAGGGG-GATAAGACCTGCTTACTCAGTCTGCTTCGTTGCAA
131 CTCGATCTGTCCCACTGCAACTTC-GGGGAGATAAGACCTGCTTACTCAGTCTGCTTCGTTGCAA
15855720 CCTCAGGGAAATAAGATTTGATGC
195 CCTCAGGGAAATAAGATTTGATGC
*
15855744 GATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
* * * *
15855809 AGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATGAGATTCGCCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
* *
15855874 TTCGATCTGTCCCACTGTAACTTCGGGGAGATAAGACCTGCTTACTCA
131 CTCGATCTGTCCCACTGCAACTTCGGGGAGATAAGACCTGCTTACTCA
15855922 TTGATTTGTT
Statistics
Matches: 159, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
217 4 0.03
218 155 0.97
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (218 bp):
GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
AGGGAGATAGGATTATCGGCTTCAATCTACCCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
CTCGATCTGTCCCACTGCAACTTCGGGGAGATAAGACCTGCTTACTCAGTCTGCTTCGTTGCAAC
CTCAGGGAAATAAGATTTGATGC
Found at i:15857071 original size:58 final size:58
Alignment explanation
Indices: 15857007--15857148 Score: 275
Period size: 58 Copynumber: 2.4 Consensus size: 58
15856997 AGGTCTCAAG
15857007 GCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCAAATCCCTTTTTTTTAGGAAGCAAA
1 GCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCAAATCCCTTTTTTTTAGGAAGCAAA
15857065 GCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCAAATCCCTTTTTTTTAGGAAGCAAA
1 GCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCAAATCCCTTTTTTTTAGGAAGCAAA
*
15857123 GCGCCCTTTGCGGGTTTTCACTTTGG
1 GCGCCCTTTGCGGGTTTTCACCTTGG
15857149 TTCCCTTTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (58 bp):
GCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCAAATCCCTTTTTTTTAGGAAGCAAA
Found at i:15869890 original size:14 final size:14
Alignment explanation
Indices: 15869871--15869900 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15869861 ACATCAAAGT
15869871 AAAATAGGACTAAC
1 AAAATAGGACTAAC
15869885 AAAATAGGACTAAC
1 AAAATAGGACTAAC
15869899 AA
1 AA
15869901 GTTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATAGGACTAAC
Found at i:15874815 original size:30 final size:30
Alignment explanation
Indices: 15874754--15874815 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
15874744 TATCTTCACC
* * **
15874754 TCAACCGTCGTCTTCATTTTCATCTTTATT
1 TCAACCGTCATCTTCATCTTCATCTCCATT
* *
15874784 TCAATCGTCATCTTCATCTTCGTCTCCATT
1 TCAACCGTCATCTTCATCTTCATCTCCATT
15874814 TC
1 TC
15874816 CTTCCTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.31, G:0.06, T:0.47
Consensus pattern (30 bp):
TCAACCGTCATCTTCATCTTCATCTCCATT
Found at i:15878010 original size:24 final size:24
Alignment explanation
Indices: 15877982--15878033 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15877972 TTAGTAGGTC
* *
15877982 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15878006 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15878030 AAAT
1 AAAT
15878034 TTTCTAGAAA
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:15884204 original size:12 final size:11
Alignment explanation
Indices: 15884176--15884205 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
15884166 ATATATTATT
15884176 TATTTTTAAAA
1 TATTTTTAAAA
15884187 TATTTTTAAAA
1 TATTTTTAAAA
15884198 TACTTTTT
1 TA-TTTTT
15884206 TTTTATTTTT
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:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:15894242 original size:19 final size:19
Alignment explanation
Indices: 15894173--15894243 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
15894163 TAAAAATGAA
* *
15894173 AAAAATACAAATAATTATA
1 AAAAATACAAAAAATTATT
*
15894192 AAAAATACAAAATA-T-TT
1 AAAAATACAAAAAATTATT
*
15894209 AAAATTTACAAAAAATTATT
1 AAAA-ATACAAAAAATTATT
*
15894229 AAAAATAGAAAAAAT
1 AAAAATACAAAAAAT
15894244 ACTAACATCT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 22 0.52
20 6 0.14
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (19 bp):
AAAAATACAAAAAATTATT
Found at i:15895224 original size:88 final size:91
Alignment explanation
Indices: 15895105--15895334 Score: 258
Period size: 88 Copynumber: 2.6 Consensus size: 91
15895095 AGTTCTTATT
* * * * ** * * * **
15895105 TTTTTTTTACATTCAATTGGGTATTTGAACTTTCAAAATATATCAAAAAGGCCCTCAAACTT-TT
1 TTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTACA
** *
15895169 TCAAA-AA-AAGCAATTAAGCCTCTA
66 AAAAAGAAGAAGCAATTAAGCCCCTA
15895193 TTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTACA
1 TTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTACA
15895258 AAAAAGAAGAAGCAATTAAGCCCCTA
66 AAAAAGAAGAAGCAATTAAGCCCCTA
* * *
15895284 ---TTTTTGCACTCGATTGGGTACTTAAAATGTCAAAATGCATCAAAAA-ACCCT
1 TTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCT
15895335 TTAACCGTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
87 5 0.04
88 96 0.79
89 3 0.02
90 2 0.02
91 16 0.13
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (91 bp):
TTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAAATTACA
AAAAAGAAGAAGCAATTAAGCCCCTA
Found at i:15895481 original size:28 final size:28
Alignment explanation
Indices: 15895434--15895510 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
15895424 ACATGTTACA
15895434 AAAAAATGATAAAAA-A-TAAAAATCAAT
1 AAAAAAT-ATAAAAATATTAAAAATCAAT
* * * ** *
15895461 AAAAATTATTAAATTATTAAATTTTAAT
1 AAAAAATATAAAAATATTAAAAATCAAT
15895489 AAAAAATATAAAAATATTAAAA
1 AAAAAATATAAAAATATTAAAA
15895511 TATTAAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
26 5 0.13
27 7 0.18
28 26 0.68
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAAAATATAAAAATATTAAAAATCAAT
Found at i:15895501 original size:8 final size:8
Alignment explanation
Indices: 15895486--15895597 Score: 52
Period size: 8 Copynumber: 13.2 Consensus size: 8
15895476 ATTAAATTTT
15895486 AATA-AAA
1 AATATAAA
15895493 AATATAAA
1 AATATAAA
*
15895501 AATATTAA
1 AATATAAA
*
15895509 AATATTAA
1 AATATAAA
*
15895517 AAT-TAGA
1 AATATAAA
15895524 AA-A-AAA
1 AATATAAA
*
15895530 ATTATAAA
1 AATATAAA
*
15895538 AATCGTAAAAA
1 AA---TATAAA
15895549 AACTATAAAA
1 AA-TAT-AAA
15895559 AATTATAAA
1 AA-TATAAA
15895568 AATCATAAAA
1 AAT-AT-AAA
15895578 AAGTATAAA
1 AA-TATAAA
*
15895587 ATGTATAAA
1 A-ATATAAA
15895596 AA
1 AA
15895598 AAACCTTTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
6 3 0.04
7 9 0.11
8 26 0.32
9 20 0.25
10 15 0.19
11 8 0.10
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (8 bp):
AATATAAA
Found at i:15895501 original size:9 final size:9
Alignment explanation
Indices: 15895487--15895598 Score: 59
Period size: 9 Copynumber: 11.9 Consensus size: 9
15895477 TTAAATTTTA
15895487 ATAAAAAAT
1 ATAAAAAAT
15895496 AT-AAAAAT
1 ATAAAAAAT
*
15895504 AT-TAAAAT
1 ATAAAAAAT
* *
15895512 ATTAAAATT
1 ATAAAAAAT
* *
15895521 AGAAAAAAA
1 ATAAAAAAT
15895530 ATTATAAAAAT
1 A-TA-AAAAAT
*
15895541 CGTAAAAAAACT
1 -AT-AAAAAA-T
15895553 ATAAAAAAT
1 ATAAAAAAT
15895562 -TATAAAAAT
1 ATA-AAAAAT
15895571 CATAAAAAAGT
1 -ATAAAAAA-T
**
15895582 ATAAAATGT
1 ATAAAAAAT
15895591 ATAAAAAA
1 ATAAAAAA
15895599 AACCTTTTAA
Statistics
Matches: 78, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
8 17 0.22
9 26 0.33
10 18 0.23
11 15 0.19
12 2 0.03
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:15895503 original size:37 final size:38
Alignment explanation
Indices: 15895459--15895540 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 38
15895449 ATAAAAATCA
* * *
15895459 ATAAAAATTATTAAATTATTAAATTTTA-ATAAAAAA-T
1 ATAAAAATTATTAAAATATTAAA-ATTAGAAAAAAAATT
15895496 ATAAAAA-TATTAAAATATTAAAATTAGAAAAAAAATT
1 ATAAAAATTATTAAAATATTAAAATTAGAAAAAAAATT
15895533 ATAAAAAT
1 ATAAAAAT
15895541 CGTAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
35 3 0.08
36 21 0.54
37 15 0.38
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (38 bp):
ATAAAAATTATTAAAATATTAAAATTAGAAAAAAAATT
Found at i:15895537 original size:20 final size:20
Alignment explanation
Indices: 15895514--15895559 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15895504 ATTAAAATAT
* *
15895514 TAAAATTAGAAAAAAAATTA
1 TAAAAATAGAAAAAAAACTA
* *
15895534 TAAAAATCGTAAAAAAACTA
1 TAAAAATAGAAAAAAAACTA
15895554 TAAAAA
1 TAAAAA
15895560 ATTATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
TAAAAATAGAAAAAAAACTA
Found at i:15895538 original size:10 final size:10
Alignment explanation
Indices: 15895525--15895587 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
15895515 AAAATTAGAA
15895525 AAAAAATTAT
1 AAAAAATTAT
15895535 -AAAAATCGTA-
1 AAAAAAT--TAT
*
15895545 AAAAAACTAT
1 AAAAAATTAT
15895555 AAAAAATTAT
1 AAAAAATTAT
*
15895565 -AAAAATCAT
1 AAAAAATTAT
*
15895574 AAAAAAGTAT
1 AAAAAATTAT
15895584 AAAA
1 AAAA
15895588 TGTATAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.37
10 20 0.47
11 7 0.16
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:15895561 original size:30 final size:29
Alignment explanation
Indices: 15895525--15895587 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
15895515 AAAATTAGAA
*
15895525 AAAAAATTATAAAAATCGTAAAAAAACTAT
1 AAAAAATTATAAAAATCAT-AAAAAACTAT
*
15895555 AAAAAATTATAAAAATCATAAAAAAGTAT
1 AAAAAATTATAAAAATCATAAAAAACTAT
15895584 AAAA
1 AAAA
15895588 TGTATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAAAATTATAAAAATCATAAAAAACTAT
Found at i:15895598 original size:19 final size:19
Alignment explanation
Indices: 15895526--15895598 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
15895516 AAATTAGAAA
* *
15895526 AAAAATTATAAAAATCGTAA
1 AAAAATTATAAAAA-AGTAT
* *
15895546 AAAAACTATAAAAAATTAT
1 AAAAATTATAAAAAAGTAT
*
15895565 AAAAATCATAAAAAAGTAT
1 AAAAATTATAAAAAAGTAT
15895584 -AAAATGTATAAAAAA
1 AAAAAT-TATAAAAAA
15895599 AACCTTTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 5 0.11
19 26 0.59
20 13 0.30
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAAATTATAAAAAAGTAT
Found at i:15897555 original size:19 final size:19
Alignment explanation
Indices: 15897531--15897602 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
15897521 TTCTATATAG
15897531 TTTATAATTTTTTACGATT
1 TTTATAATTTTTTACGATT
** *
15897550 TTTATAAAATTTTACAATTTTT
1 TTTATAATTTTTTACGA---TT
* *
15897572 TTTATAATTTTTTATGAGT
1 TTTATAATTTTTTACGATT
15897591 TTTAT-ATTTTTT
1 TTTATAATTTTTT
15897603 TTCTAATTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
18 7 0.17
19 20 0.48
22 15 0.36
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTTTACGATT
Found at i:15897563 original size:29 final size:28
Alignment explanation
Indices: 15897472--15897572 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
15897462 TCTTTACATT
**
15897472 TTTTATAATTTTCTTACAACTTTATAAAA
1 TTTTATAATTTT-TTACATTTTTATAAAA
* * *
15897501 TTTTATAATTTTTGCTATATTTCTAT-ATA
1 TTTTATAATTTTT--TACATTTTTATAAAA
*
15897530 GTTTATAATTTTTTACGATTTTTATAAAA
1 TTTTATAATTTTTTAC-ATTTTTATAAAA
*
15897559 TTTTACAATTTTTT
1 TTTTATAATTTTTT
15897573 TTATAATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
27 2 0.04
28 8 0.14
29 40 0.70
30 7 0.12
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTATAATTTTTTACATTTTTATAAAA
Found at i:15897662 original size:9 final size:9
Alignment explanation
Indices: 15897648--15897686 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
15897638 TTAAAATTTA
15897648 ATAATTTTT
1 ATAATTTTT
15897657 ATAATTTTT
1 ATAATTTTT
*
15897666 ATAACTTTT
1 ATAATTTTT
*
15897675 ATTTATTTTT
1 A-TAATTTTT
15897685 AT
1 AT
15897687 TTTTATCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
ATAATTTTT
Found at i:15897674 original size:18 final size:19
Alignment explanation
Indices: 15897633--15897686 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
15897623 TAAATATATA
* * *
15897633 TTTTATTAAAATTTAATAAT
1 TTTTATT-AATTTTTATAAC
15897653 TTTTA-TAATTTTTATAAC
1 TTTTATTAATTTTTATAAC
*
15897671 TTTTATTTATTTTTAT
1 TTTTATTAATTTTTAT
15897687 TTTTATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 14 0.48
19 10 0.34
20 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATTAATTTTTATAAC
Found at i:15900542 original size:39 final size:39
Alignment explanation
Indices: 15900474--15900548 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
15900464 GAGGTATATT
** *
15900474 AGAATTAGTGGCGCTTATGAAAACACGCCGCTAAATCAC
1 AGAATTAGCAGCGCTTATGAAAACACGCCGCAAAATCAC
15900513 AGAATTAGCAGCGCATTAT-AAAA-AGCGCCGCAAAAT
1 AGAATTAGCAGCGC-TTATGAAAACA-CGCCGCAAAAT
15900549 ATCTTAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 1 0.03
39 26 0.84
40 4 0.13
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (39 bp):
AGAATTAGCAGCGCTTATGAAAACACGCCGCAAAATCAC
Found at i:15900551 original size:114 final size:113
Alignment explanation
Indices: 15900421--15900839 Score: 651
Period size: 114 Copynumber: 3.7 Consensus size: 113
15900411 GTTTATTTGT
* *
15900421 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
15900486 GCTTATGAAAACACGCCGCTAAATCACAGAATTAGCAGCGCATTATAAA
66 GCTTATGAAAA-ACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
15900535 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
15900600 GCTTATGGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
66 GCTTAT-GAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
* * * *
15900649 AAGCGCCGCAAAATATCTTAACTAAAATGCAGCGTATGGTCTTGAGGTATATTAGAATTAGTGGT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * * *
15900714 GCTTATGAAAAAACGCCGCTAAAGCACAGCATTAACGGTGCAATAGAAA
66 GCTTATG-AAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
* * *
15900763 AAGCGCCACAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAACTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
15900828 GCATTAT-AAAAA
66 GC-TTATGAAAAA
15900840 GCGCTGCAAA
Statistics
Matches: 284, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
113 6 0.02
114 269 0.95
115 9 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (113 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
Found at i:15901600 original size:7 final size:7
Alignment explanation
Indices: 15901588--15901640 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
15901578 GGTGGTTGTT
15901588 GTTTATG
1 GTTTATG
15901595 GTTTATGG
1 GTTTAT-G
15901603 GTTTAAT-
1 GTTT-ATG
15901610 GTTTATG
1 GTTTATG
*
15901617 GTTTAGG
1 GTTTATG
*
15901624 GTTTAAG
1 GTTTATG
*
15901631 ATTTATG
1 GTTTATG
15901638 GTT
1 GTT
15901641 AATGTTTACG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 2 0.05
7 29 0.76
8 5 0.13
9 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (7 bp):
GTTTATG
Found at i:15901627 original size:21 final size:20
Alignment explanation
Indices: 15901554--15901640 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 20
15901544 TTTGGCTAGT
*
15901554 TTTAGGGTTTAGAGTTTATGA
1 TTTAGGGTTTA-AGTTTATGG
* *
15901575 TTTGGTGGTTGT-TGTTTATGG
1 TTTAG-GGTT-TAAGTTTATGG
15901596 TTTATGGGTTTAATGTTTATGG
1 TTTA-GGGTTTAA-GTTTATGG
15901618 TTTAGGGTTTAAGATTTATGG
1 TTTAGGGTTTAAG-TTTATGG
15901639 TT
1 TT
15901641 AATGTTTACG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.04
21 35 0.64
22 17 0.31
23 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (20 bp):
TTTAGGGTTTAAGTTTATGG
Found at i:15901754 original size:21 final size:21
Alignment explanation
Indices: 15901730--15901769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15901720 ATAGTTTGGG
* *
15901730 GTTTGGGGTTTAAGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
15901751 GTTTAGGGTTTAAGATTTA
1 GTTTAGGGTTTAAGATTTA
15901770 CGGTTAAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:15901769 original size:14 final size:14
Alignment explanation
Indices: 15901711--15901762 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
15901701 AATTGACATG
15901711 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
* ***
15901725 TTGGGGTTTGGGGT
1 TTAGGGTTTATAGT
*
15901739 TTAAGGTTTATAGT
1 TTAGGGTTTATAGT
15901753 TTAGGGTTTA
1 TTAGGGTTTA
15901763 AGATTTACGG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:15902179 original size:21 final size:20
Alignment explanation
Indices: 15902139--15902176 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15902129 AATATATTGA
*
15902139 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
15902159 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
15902177 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:15902833 original size:17 final size:15
Alignment explanation
Indices: 15902799--15902827 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15902789 AAATTTGAAT
15902799 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
15902814 ATTGATAGTATTTA
1 ATTGATAGTATTTA
15902828 TAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:15902843 original size:16 final size:16
Alignment explanation
Indices: 15902781--15902850 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
15902771 CGCCGCAAAC
15902781 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
15902797 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
15902819 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
15902837 ATATTTAGAAATTT
1 ATATTTATAAATTT
15902851 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:15902873 original size:25 final size:24
Alignment explanation
Indices: 15902823--15902873 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
15902813 AATTGATAGT
* *
15902823 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
15902847 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
15902872 AT
1 AT
15902874 AATATCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:15904704 original size:21 final size:19
Alignment explanation
Indices: 15904678--15904729 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
15904668 TTTTTGTTAT
15904678 AAACTTACATAACTTATATA
1 AAACTTACATAACTTAT-TA
*
15904698 ATAACTTACATAACTTATTT
1 A-AACTTACATAACTTATTA
15904718 AAACTTACATAA
1 AAACTTACATAA
15904730 TACAAAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 11 0.37
20 3 0.10
21 16 0.53
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (19 bp):
AAACTTACATAACTTATTA
Found at i:15905090 original size:25 final size:23
Alignment explanation
Indices: 15905033--15905100 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 23
15905023 CGATGGATGA
*
15905033 ACCAGCTTGCATAACTTACATAAT
1 ACCA-CTTACATAACTTACATAAT
*
15905057 A--ACTCACATAACTTACATAAT
1 ACCACTTACATAACTTACATAAT
15905078 ACACCACTTACATAACTTACATA
1 --ACCACTTACATAACTTACATA
15905101 GCTTACATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 17 0.46
22 1 0.03
23 1 0.03
24 1 0.03
25 17 0.46
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (23 bp):
ACCACTTACATAACTTACATAAT
Found at i:15905095 original size:9 final size:9
Alignment explanation
Indices: 15905055--15905246 Score: 115
Period size: 9 Copynumber: 22.9 Consensus size: 9
15905045 AACTTACATA
*
15905055 ATAACTCAC
1 ATAACTTAC
15905064 ATAACTTAC
1 ATAACTTAC
15905073 ATAA--TAC
1 ATAACTTAC
**
15905080 ACCACTTAC
1 ATAACTTAC
15905089 ATAACTTAC
1 ATAACTTAC
*
15905098 ATAGCTTAC
1 ATAACTTAC
*
15905107 AT-TC-TAC
1 ATAACTTAC
*
15905114 ACAACTTAC
1 ATAACTTAC
*
15905123 ATAACATAC
1 ATAACTTAC
15905132 ATAA--TAC
1 ATAACTTAC
*
15905139 AGAACTTAC
1 ATAACTTAC
**
15905148 ATAAAATA-
1 ATAACTTAC
15905156 A-AACTTAC
1 ATAACTTAC
*
15905164 ATATCTTAC
1 ATAACTTAC
15905173 ATAA--TAC
1 ATAACTTAC
15905180 ATAACTTAC
1 ATAACTTAC
15905189 ATAA--TAC
1 ATAACTTAC
** *
15905196 AGCACTTGC
1 ATAACTTAC
* *
15905205 ACAACTTAA
1 ATAACTTAC
*
15905214 ATAACTTGC
1 ATAACTTAC
15905223 ATAA--TAC
1 ATAACTTAC
* *
15905230 ATAGCCTAC
1 ATAACTTAC
15905239 ATAACTTA
1 ATAACTTA
15905247 TATAGCTATT
Statistics
Matches: 136, Mismatches: 33, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
7 36 0.26
8 4 0.03
9 96 0.71
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:15905100 original size:34 final size:34
Alignment explanation
Indices: 15905055--15905192 Score: 122
Period size: 34 Copynumber: 4.1 Consensus size: 34
15905045 AACTTACATA
* *
15905055 ATAACTCACATAACTTACATAATACACCACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
* **
15905089 ATAACTTACATAGCTTACATTCTACACAACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
* * * **
15905123 ATAACATACATAA--TACAGAACTTACATAAAATA-
1 ATAACTTACATAACTTACATAA--TACACAACTTAC
* *
15905156 A-AACTTACATATCTTACATAATACATAACTTAC
1 ATAACTTACATAACTTACATAATACACAACTTAC
15905189 ATAA
1 ATAA
15905193 TACAGCACTT
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
32 22 0.28
33 2 0.03
34 56 0.70
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.29
Consensus pattern (34 bp):
ATAACTTACATAACTTACATAATACACAACTTAC
Found at i:15905114 original size:25 final size:25
Alignment explanation
Indices: 15905086--15905151 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
15905076 ATACACCACT
* * * **
15905086 TACATAACTTACATAGCTTACATTC
1 TACACAACTTACATAACATACATAA
15905111 TACACAACTTACATAACATACATAA
1 TACACAACTTACATAACATACATAA
*
15905136 TACAGAACTTACATAA
1 TACACAACTTACATAA
15905152 AATAAAACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (25 bp):
TACACAACTTACATAACATACATAA
Found at i:15905139 original size:16 final size:16
Alignment explanation
Indices: 15905062--15905242 Score: 82
Period size: 16 Copynumber: 10.9 Consensus size: 16
15905052 ATAATAACTC
15905062 ACATAACTTACATAAT
1 ACATAACTTACATAAT
**
15905078 ACACCACTTACATAACTT
1 ACATAACTTACATAA--T
* **
15905096 ACATAGCTTACATTCT
1 ACATAACTTACATAAT
*
15905112 ACACAACTTACATAACAT
1 ACATAACTTACAT-A-AT
*
15905130 ACATAA--TACAGAACTT
1 ACATAACTTACATAA--T
**
15905146 ACATAAAATA-A-AACTT
1 ACATAACTTACATAA--T
*
15905162 ACATATCTTACATAAT
1 ACATAACTTACATAAT
15905178 ACATAACTTACATAAT
1 ACATAACTTACATAAT
** * *
15905194 ACAGCACTTGCACAACTT
1 ACATAACTTACATAA--T
* *
15905212 AAATAACTTGCATAAT
1 ACATAACTTACATAAT
* *
15905228 ACATAGCCTACATAA
1 ACATAACTTACATAA
15905243 CTTATATAGC
Statistics
Matches: 124, Mismatches: 29, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
14 1 0.01
15 1 0.01
16 87 0.70
17 2 0.02
18 33 0.27
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:15905171 original size:25 final size:25
Alignment explanation
Indices: 15905143--15905191 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15905133 TAATACAGAA
*
15905143 CTTACATAAAATAAAACTTACATAT
1 CTTACATAAAACAAAACTTACATAT
* *
15905168 CTTACATAATACATAACTTACATA
1 CTTACATAAAACAAAACTTACATA
15905192 ATACAGCACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (25 bp):
CTTACATAAAACAAAACTTACATAT
Found at i:15905394 original size:9 final size:9
Alignment explanation
Indices: 15905349--15905515 Score: 63
Period size: 9 Copynumber: 19.2 Consensus size: 9
15905339 CCTAAAATAC
15905349 AACTTACAT
1 AACTTACAT
**
15905358 ATTTTACAT
1 AACTTACAT
*
15905367 AAAACTTATAT
1 --AACTTACAT
15905378 AA--TACAT
1 AACTTACAT
15905385 AACTTACAT
1 AACTTACAT
15905394 AAC--ACA-
1 AACTTACAT
* *
15905400 ACACTTGCAC
1 A-ACTTACAT
*
15905410 AACTTAAAT
1 AACTTACAT
*
15905419 AACTTGCAT
1 AACTTACAT
15905428 AA--TACAT
1 AACTTACAT
* *
15905435 AGCCTACAT
1 AACTTACAT
*
15905444 AACTTATAT
1 AACTTACAT
15905453 AACTTTTACA-
1 AAC--TTACAT
*
15905463 AA-ATAC--
1 AACTTACAT
15905469 AACTTACAT
1 AACTTACAT
*
15905478 ATCTTACAT
1 AACTTACAT
*
15905487 AAAACTTATAT
1 --AACTTACAT
15905498 AA--TACAT
1 AACTTACAT
15905505 AACTTACAT
1 AACTTACAT
15905514 AA
1 AA
15905516 TACCGTGAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
6 3 0.03
7 28 0.24
9 64 0.56
10 3 0.03
11 17 0.15
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:15911405 original size:44 final size:43
Alignment explanation
Indices: 15911309--15911451 Score: 166
Period size: 43 Copynumber: 3.3 Consensus size: 43
15911299 AATCCCAAAA
* * *
15911309 TTAGCGGCGTTTGTGG--AAAATTGCTGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGGAAAAAAATGCCGCTAAAGAACATGA-CT
* * *
15911351 TTATCAGCGTTTGTGGAAAAAAATGCCGCTAAAGAACATTACTT
1 TTAGCGGCGTTTGTGGAAAAAAATGCCGCTAAAGAACATGAC-T
* *
15911395 TTAGCGGCGTTTGT-GAATAAAGTGCCGCTAAAGAACATGAGCT
1 TTAGCGGCGTTTGTGGAAAAAAATGCCGCTAAAGAACATGA-CT
15911438 TTAGCGGCGTTTGT
1 TTAGCGGCGTTTGT
15911452 TGGTAGGCGC
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
42 14 0.16
43 39 0.45
44 33 0.38
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGAAAAAAATGCCGCTAAAGAACATGACT
Found at i:15911524 original size:42 final size:41
Alignment explanation
Indices: 15911375--15911616 Score: 126
Period size: 42 Copynumber: 5.8 Consensus size: 41
15911365 GGAAAAAAAT
* * ** *
15911375 GCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGT
1 GCCGCTAAAGAACATGACCTTTAGCGGCG-TT-TGAAGGAAGA
* ** * *
15911418 GCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTTGGTAGGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGAAGG-AAGA
* ** ** *
15911460 GCCGCTATAGGTCATGTTCTTTAGCGGTGTTTCCG-AGGAAGA
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTT--GAAGGAAGA
** **** *
15911502 GCCGCTAAAGAACATGACCTTTATTGGCGTTTTTTTTGAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCG-TTTGAAGGAAGA
* * ***** *
15911544 GTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGAAGGAAGA
* *
15911585 GCTGCTAAAGAACATGACCTTTAGCTGCGTTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTT
15911617 ATTTCTTTAA
Statistics
Matches: 155, Mismatches: 39, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
41 41 0.26
42 82 0.53
43 31 0.20
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (41 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGAAGGAAGA
Found at i:15911550 original size:84 final size:84
Alignment explanation
Indices: 15911375--15911616 Score: 202
Period size: 84 Copynumber: 2.9 Consensus size: 84
15911365 GGAAAAAAAT
* ** ** * *
15911375 GCCGCTAAAGAACATTA-CTTTTAGCGGCGTTTGTGAATAAAGTGCCGCTAAAGAACATGAGCTT
1 GCCGCTAAAGAACATGATC-TTTAGCGGCGTTTCCG-AGGAAGAGCCGCTAAAGAACATGACCTT
*
15911439 TAGCGGCGTTTGTTGGTAGGC
64 TAGCGGCGTTTGTTGGTAAGC
* ** * *
15911460 GCCGCTATAGGTCATGTTCTTTAGCGGTGTTTCCGAGGAAGAGCCGCTAAAGAACATGACCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTCCGAGGAAGAGCCGCTAAAGAACATGACCTTTA
** **
15911525 TTGGCGTTT-TTTTTGAAGC
66 GCGGCGTTTGTTGGT-AAGC
* ***** * *
15911544 GTCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTTAAGCGCTGCTAAAGAACATGACCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTCCGAGGAAGAGCCGCTAAAGAACATGACCTTTA
*
15911608 GCTGCGTTT
66 GCGGCGTTT
15911617 ATTTCTTTAA
Statistics
Matches: 122, Mismatches: 33, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
83 34 0.28
84 62 0.51
85 25 0.20
86 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (84 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGTTTCCGAGGAAGAGCCGCTAAAGAACATGACCTTTA
GCGGCGTTTGTTGGTAAGC
Found at i:15911592 original size:41 final size:42
Alignment explanation
Indices: 15911504--15911616 Score: 167
Period size: 41 Copynumber: 2.7 Consensus size: 42
15911494 GAGGAAGAGC
**
15911504 CGCTAAAGAACATGACCTTTATTGGCGTTTTTTTTGAAGCGT
1 CGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTGAAGCGT
*
15911546 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT-AAGCG-
1 CGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTGAAGCGT
*
15911586 CTGCTAAAGAACATGACCTTTAGCTGCGTTT
1 C-GCTAAAGAACATGACCTTTAGCGGCGTTT
15911617 ATTTCTTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.02
41 32 0.49
42 32 0.49
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTGAAGCGT
Found at i:15913603 original size:20 final size:21
Alignment explanation
Indices: 15913562--15913599 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15913552 ATATTCTATC
15913562 TAGTTGAAAAAAATCTTTACT
1 TAGTTGAAAAAAATCTTTACT
*
15913583 TAGTT-AAAATAAT-TTTA
1 TAGTTGAAAAAAATCTTTA
15913600 ACTTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 7 0.44
21 5 0.31
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (21 bp):
TAGTTGAAAAAAATCTTTACT
Found at i:15913978 original size:10 final size:10
Alignment explanation
Indices: 15913963--15913992 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15913953 AATATCAATC
15913963 AATTTACCTT
1 AATTTACCTT
*
15913973 AATTTACCTC
1 AATTTACCTT
15913983 AATTTACCTT
1 AATTTACCTT
15913993 TTCTTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTTACCTT
Found at i:15915432 original size:20 final size:20
Alignment explanation
Indices: 15915368--15915436 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
15915358 AAGTCCTGAG
* * **
15915368 GTATTGATATTTTTTTACTA
1 GTATCGATATTTTTATAAAA
*
15915388 GTATCGACATTTTTATAAAA
1 GTATCGATATTTTTATAAAA
*
15915408 GTATCGATATTTTT-TAAAT
1 GTATCGATATTTTTATAAAA
15915427 GATATCGATA
1 G-TATCGATA
15915437 CCAAATTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 5 0.12
20 36 0.88
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (20 bp):
GTATCGATATTTTTATAAAA
Found at i:15921142 original size:21 final size:21
Alignment explanation
Indices: 15921113--15921159 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15921103 CTGAAATATA
*
15921113 GATACTAGGAAAATTTTTATC
1 GATACTAGGAAAAATTTTATC
*
15921134 GATATTAGGAAAAATTTTATC
1 GATACTAGGAAAAATTTTATC
15921155 GATAC
1 GATAC
15921160 CGGATCGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (21 bp):
GATACTAGGAAAAATTTTATC
Found at i:15922370 original size:9 final size:9
Alignment explanation
Indices: 15922358--15922396 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
15922348 CTTCAATTAC
15922358 ATAAATTGA
1 ATAAATTGA
*
15922367 AT-AATTGC
1 ATAAATTGA
15922375 ATAAATTGA
1 ATAAATTGA
*
15922384 ATAAATTTA
1 ATAAATTGA
15922393 ATAA
1 ATAA
15922397 TTGCTAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (9 bp):
ATAAATTGA
Found at i:15922377 original size:17 final size:17
Alignment explanation
Indices: 15922352--15922387 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15922342 AACCAACTTC
15922352 AATTACATAAATTGAAT
1 AATTACATAAATTGAAT
*
15922369 AATTGCATAAATTGAAT
1 AATTACATAAATTGAAT
15922386 AA
1 AA
15922388 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
AATTACATAAATTGAAT
Found at i:15928088 original size:46 final size:46
Alignment explanation
Indices: 15927989--15928149 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 46
15927979 GAGGGTGTCG
* * * *
15927989 TAGTGTCTTTTAACCATAGTCTTATTTATTCT-CGACTTGATGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
15928034 TAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
15928080 TAGTGTCTTTCAACTATGGTCTTATTTATTCTCCGTCTTGTTTCCG
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
** * *
15928126 TAACGTCTTTCAGCTATGGTCTTA
1 TAGTGTCTTTCAACCATGGTCTTA
15928150 ATCGATAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 28 0.28
46 71 0.72
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (46 bp):
TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
Found at i:15928188 original size:45 final size:45
Alignment explanation
Indices: 15928126--15928288 Score: 238
Period size: 45 Copynumber: 3.6 Consensus size: 45
15928116 CTTGTTTCCG
*
15928126 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
* **
15928171 TAACGCCTTTCCA-CTATGGTCTTACTCGATAGAATTTTGATGCCA
1 TAACGTCTTT-CAGCTATGGTCTTACTCGATAGAATCATGATGCCA
* * *
15928216 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
*
15928261 TAACGTCTTTTAGCTATGGTCTTACTCG
1 TAACGTCTTTCAGCTATGGTCTTACTCG
15928289 TTTTTAGTAT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 2 0.02
45 100 0.96
46 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (45 bp):
TAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCA
Found at i:15928305 original size:90 final size:90
Alignment explanation
Indices: 15928126--15928325 Score: 240
Period size: 90 Copynumber: 2.2 Consensus size: 90
15928116 CTTGTTTCCG
15928126 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCACTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCACTATGGT
* *
15928191 CTTACTCGATAGAATTTTGATGCCA
66 CTTACTCGATAGAAGTATGATGCCA
* * * * * *
15928216 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCATAACGTCTTT-TAGCTATGG
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCA-CTATGG
* *** *
15928280 TCTTACTCGTTTTTAGTATGGTGCCA
65 TCTTACTCGATAGAAGTATGATGCCA
** *
15928306 TAGTGTCTTTCAACTATGGT
1 TAACGTCTTTCAGCTATGGT
15928326 ATTATCTATT
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 1 0.01
90 91 0.99
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (90 bp):
TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCACTATGGT
CTTACTCGATAGAAGTATGATGCCA
Found at i:15928983 original size:21 final size:20
Alignment explanation
Indices: 15928959--15928998 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15928949 CAAAAACATT
* *
15928959 GGAAACATTTGAAAAGTTTGA
1 GGAAAAATTAGAAAA-TTTGA
15928980 GGAAAAATTAGAAAATTTG
1 GGAAAAATTAGAAAATTTG
15928999 GACTATAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.28
Consensus pattern (20 bp):
GGAAAAATTAGAAAATTTGA
Found at i:15934580 original size:22 final size:21
Alignment explanation
Indices: 15934552--15934593 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15934542 CTTGAGATAT
15934552 CTTTAGGGGTATGTCGTGACAA
1 CTTTA-GGGTATGTCGTGACAA
* *
15934574 CTTTAGGTTATTTCGTGACA
1 CTTTAGGGTATGTCGTGACA
15934594 TCGAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
CTTTAGGGTATGTCGTGACAA
Found at i:15934956 original size:25 final size:26
Alignment explanation
Indices: 15934928--15935086 Score: 136
Period size: 25 Copynumber: 6.3 Consensus size: 26
15934918 AATATGTCAT
15934928 AAAGGCTTTTCACAAGATTA-GCCAC
1 AAAGGCTTTTCACAAGATTACGCCAC
15934953 AAAGGC-TTTC-C-AGATAATACGCCAC
1 AAAGGCTTTTCACAAGAT--TACGCCAC
* * *
15934978 AAATGTTTTTCACAAGATCA-GCCAC
1 AAAGGCTTTTCACAAGATTACGCCAC
* * *
15935003 AAAGGCTTTTCA-AATAATACACCAC
1 AAAGGCTTTTCACAAGATTACGCCAC
* * *
15935028 AAAGGCTTTTCA-AATAATACACCAC
1 AAAGGCTTTTCACAAGATTACGCCAC
* * *
15935053 AAAGGCTTTTCAAAATATTA-GTCAC
1 AAAGGCTTTTCACAAGATTACGCCAC
15935078 AAAGGCTTT
1 AAAGGCTTT
15935087 CCAAGTAAAC
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
22 4 0.04
23 1 0.01
24 10 0.09
25 83 0.73
26 11 0.10
27 1 0.01
28 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (26 bp):
AAAGGCTTTTCACAAGATTACGCCAC
Found at i:15934988 original size:50 final size:50
Alignment explanation
Indices: 15934850--15935066 Score: 222
Period size: 50 Copynumber: 4.3 Consensus size: 50
15934840 CAAATCATGG
* * * *
15934850 CACAAAGGCTTTACAAATAATACACCACCAAGGCTTTTCAAAATG-TTAGG
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAA-GATTAGC
* * *** *
15934900 GACAAAGGCTTTCCATATAATATGTCATAAAGGCTTTTCACAAGATTAGC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
* * * * *
15934950 CACAAAGGCTTTCCAGATAATACGCCACAAATGTTTTTCACAAGATCAGC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
* * * *
15935000 CACAAAGGCTTTTCAAATAATACACCACAAAGGCTTTTCA-AATAATACAC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTA-GC
*
15935050 CACAAAGGCTTTTCAAA
1 CACAAAGGCTTTCCAAA
15935067 ATATTAGTCA
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 5 0.04
50 133 0.96
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (50 bp):
CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
Found at i:15935007 original size:75 final size:75
Alignment explanation
Indices: 15934928--15935086 Score: 194
Period size: 75 Copynumber: 2.1 Consensus size: 75
15934918 AATATGTCAT
* * * * * * *
15934928 AAAGGCTTTTCACAAGATTA-GCCACAAAGGCTTTCCAGATAATACGCCACAAATGTTTTTCACA
1 AAAGGCTTTTCA-AAGAATACACCACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCAAA
15934992 AGATCAGCCAC
65 AGATCAGCCAC
* *
15935003 AAAGGCTTTTCAAATAATACACCACAAAGGCTTTTCAAATAATACACCACAAAGGCTTTTCAAAA
1 AAAGGCTTTTCAAAGAATACACCACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCAAAA
* * *
15935068 TATTAGTCAC
66 GATCAGCCAC
15935078 AAAGGCTTT
1 AAAGGCTTT
15935087 CCAAGTAAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 5 0.07
75 66 0.93
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (75 bp):
AAAGGCTTTTCAAAGAATACACCACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCAAAA
GATCAGCCAC
Found at i:15948869 original size:122 final size:122
Alignment explanation
Indices: 15948652--15948897 Score: 492
Period size: 122 Copynumber: 2.0 Consensus size: 122
15948642 CATAAGTGGG
15948652 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
1 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
15948717 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
66 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
15948774 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
1 TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
15948839 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
66 CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
15948896 TA
1 TA
15948898 TAGTAGTGAC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 124 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.17
Consensus pattern (122 bp):
TAGGGAACCAAGTAGGACCTTCAAATCAATGAAACCAAAATGCTAACCCTCTAAAGCCCAATGCA
CCATTCCAATATCCATTACCTTTTAGAGCACCCCAAGACCCAAAGAGGAAGCCAACC
Found at i:15952740 original size:25 final size:25
Alignment explanation
Indices: 15952694--15952741 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15952684 TGCACATAAG
*
15952694 TTTTTATGTGTATTTAATTTTTTTA
1 TTTTTATGTGTATTTAAGTTTTTTA
* * *
15952719 TTTTTGTGTTTATTTTAGTTTTT
1 TTTTTATGTGTATTTAAGTTTTT
15952742 ATGCATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (25 bp):
TTTTTATGTGTATTTAAGTTTTTTA
Found at i:15956941 original size:16 final size:16
Alignment explanation
Indices: 15956920--15956950 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15956910 AAGGCGCCTC
15956920 CACAATATCGTTTCAG
1 CACAATATCGTTTCAG
15956936 CACAATATCGTTTCA
1 CACAATATCGTTTCA
15956951 ATCTTTGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (16 bp):
CACAATATCGTTTCAG
Found at i:15980840 original size:50 final size:50
Alignment explanation
Indices: 15980767--15980954 Score: 189
Period size: 50 Copynumber: 3.6 Consensus size: 50
15980757 TCTTGTACTA
* * * * **
15980767 CCAATTCCATATCCCAGATATGGTCCTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTG
* * * *
15980817 CCCATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGA-GACCTCTCATATAGGTG
* * *
15980867 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T--A-GGTG
15980923 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
15980955 GGATCTCTTT
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 74 0.66
51 1 0.01
53 1 0.01
56 34 0.30
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTG
Found at i:15980926 original size:56 final size:50
Alignment explanation
Indices: 15980822--15980962 Score: 176
Period size: 56 Copynumber: 2.7 Consensus size: 50
15980812 AGGTGCCCAT
* *
15980822 GCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTTGATGCCAAC
*
15980872 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TGATGCCAAC
*
15980928 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15980963 TTACCCAAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
50 33 0.41
51 1 0.01
53 4 0.05
56 42 0.52
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCCAAC
Found at i:15989827 original size:24 final size:25
Alignment explanation
Indices: 15989779--15989837 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
15989769 ATGTATGCCA
* * *
15989779 ATACGAGCTCTGAATCGGTATGCTC
1 ATACGAGCTGTGAAACGGTAAGCTC
*
15989804 TTACGAGCTGT-AAACGGTAAGCTC
1 ATACGAGCTGTGAAACGGTAAGCTC
*
15989828 ATACAAGCTG
1 ATACGAGCTG
15989838 AATATTGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (25 bp):
ATACGAGCTGTGAAACGGTAAGCTC
Found at i:15989851 original size:25 final size:25
Alignment explanation
Indices: 15989818--15989902 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
15989808 GAGCTGTAAA
*
15989818 CGGTAAGCTCATACAAGCTGAATAT
1 CGGTAAGCTCATGCAAGCTGAATAT
*
15989843 TGGTAAGCTCATGCAAGCTGAATAT
1 CGGTAAGCTCATGCAAGCTGAATAT
* **
15989868 CGGTAAGCTCATGCGATTTGAATAT
1 CGGTAAGCTCATGCAAGCTGAATAT
15989893 CGGTAAGCTC
1 CGGTAAGCTC
15989903 TCTCGATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
CGGTAAGCTCATGCAAGCTGAATAT
Found at i:15992605 original size:56 final size:56
Alignment explanation
Indices: 15992544--15992656 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
15992534 AATTGTACTT
15992544 AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
1 AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
* *
15992600 AAATTATTAACATATTTAATTTTAATTAATTTTATAATAAATTTTCATAAATTTTG
1 AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
15992656 A
1 A
15992657 TTTATTTTCG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (56 bp):
AAATTATTAACATATTGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
Done.