Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 418 of 444
Found at i:121285301 original size:46 final size:46
Alignment explanation
Indices: 121285245--121285420 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
121285235 TGGTTGAGCA
*
121285245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
121285291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* **
121285338 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
121285384 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
121285421 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:121285401 original size:93 final size:93
Alignment explanation
Indices: 121285242--121285412 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
121285232 GGATGGTTGA
* ***
121285242 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
121285307 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
121285335 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
*
121285400 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
121285413 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:121288403 original size:15 final size:15
Alignment explanation
Indices: 121288365--121288408 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
121288355 CATAGTATCG
* *
121288365 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
121288380 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
121288395 TATCTTGGATTTCT
1 TATCTTGGATTTCT
121288409 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:121300831 original size:21 final size:21
Alignment explanation
Indices: 121300805--121300857 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
121300795 GTTTGATCGT
121300805 CACGGGTGTGAG-GCTTACACA
1 CACGGGTGTG-GTGCTTACACA
*
121300826 CACGGGTGTGGTGTTTACACA
1 CACGGGTGTGGTGCTTACACA
121300847 CACGGGTGTGG
1 CACGGGTGTGG
121300858 GAGAAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.23
Consensus pattern (21 bp):
CACGGGTGTGGTGCTTACACA
Found at i:121302768 original size:6 final size:6
Alignment explanation
Indices: 121302757--121302786 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
121302747 TTAAAACTAC
*
121302757 TTTTTA TTTTTA ATTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
121302787 GTAGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:121305933 original size:3 final size:3
Alignment explanation
Indices: 121305925--121305959 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
121305915 TTGCAATTTA
121305925 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
121305960 ATTTACTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:121309796 original size:21 final size:21
Alignment explanation
Indices: 121309770--121309809 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
121309760 AAAGTTGTTG
121309770 TTTACACTACCATTCCACCCT
1 TTTACACTACCATTCCACCCT
121309791 TTTACACTACCATTCCACC
1 TTTACACTACCATTCCACC
121309810 TTTCGCTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.42, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTACACTACCATTCCACCCT
Found at i:121317895 original size:20 final size:21
Alignment explanation
Indices: 121317870--121317927 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
121317860 GATAATAGTA
121317870 AAAAAATACGAAA-A-AAAAAG
1 AAAAAATA-GAAATAGAAAAAG
121317890 AAAAAATAGAAATAGAAAAA-
1 AAAAAATAGAAATAGAAAAAG
* *
121317910 TAAAAATAAAAATA-AAAA
1 AAAAAATAGAAATAGAAAA
121317928 TAATAAAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 8 0.24
20 21 0.62
21 5 0.15
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAAAATAGAAATAGAAAAAG
Found at i:121317902 original size:26 final size:26
Alignment explanation
Indices: 121317892--121317968 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 26
121317882 AAAAAAAGAA
*
121317892 AAAATAGAAATAGAAAAATAAAAATA
1 AAAATAAAAATAGAAAAATAAAAATA
*
121317918 AAAATAAAAATA-ATAAAAGT--ATATA
1 AAAATAAAAATAGA-AAAA-TAAAAATA
*
121317943 AAAATTAAAATATAAAAAAATAAAAA
1 AAAA-TAAAA-ATAGAAAAATAAAAA
121317969 ATATAAGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
25 9 0.22
26 21 0.51
27 8 0.20
28 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (26 bp):
AAAATAAAAATAGAAAAATAAAAATA
Found at i:121317910 original size:14 final size:13
Alignment explanation
Indices: 121317880--121317968 Score: 69
Period size: 12 Copynumber: 6.8 Consensus size: 13
121317870 AAAAAATACG
*
121317880 AAAA-AAAAAGAA
1 AAAATAAAAATAA
*
121317892 AAAATAGAAATAGA
1 AAAATAAAAATA-A
121317906 AAAATAAAAAT-A
1 AAAATAAAAATAA
121317918 AAAATAAAAATAA
1 AAAATAAAAATAA
*
121317931 TAAAAGT--ATATAA
1 -AAAA-TAAAAATAA
*
121317944 AAATTAAAATATAAA
1 AAAATAAAA-AT-AA
121317959 AAAATAAAAA
1 AAAATAAAAA
121317969 ATATAAGTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
11 1 0.02
12 19 0.31
13 12 0.20
14 18 0.30
15 11 0.18
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:121317914 original size:6 final size:6
Alignment explanation
Indices: 121317891--121318053 Score: 59
Period size: 6 Copynumber: 25.7 Consensus size: 6
121317881 AAAAAAAAGA
* * *
121317891 AAAAAT AGAAATAG AAAAAT AAAAAT AAAAAT AAAAAT AATAAA- AGTATAT
1 AAAAAT A-AAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT A-AAAAT
* ** *
121317942 AAAAATT AAAATAT AAAAA- AATAAA- AAATAT AAGTAT AAGAAT AATAAATT
1 AAAAA-T AAAA-AT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AA-AAA-T
* * *
121317993 AATTAAT -TAATT AGTAAAAT AAAAAT AAAAAT ATAACAATT AAAAAT
1 AA-AAAT AAAAAT A--AAAAT AAAAAT AAAAAT A-AA-AA-T AAAAAT
121318040 -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAA
121318054 TTGGGGTGAT
Statistics
Matches: 123, Mismatches: 16, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
5 16 0.13
6 61 0.50
7 27 0.22
8 17 0.14
9 2 0.02
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:121317944 original size:31 final size:30
Alignment explanation
Indices: 121317909--121318048 Score: 105
Period size: 31 Copynumber: 4.6 Consensus size: 30
121317899 AAATAGAAAA
121317909 ATAAAAATAAAAATAAAAATAATAAAAGTAT
1 ATAAAAATAAAAATAAAAATAATAAAA-TAT
*
121317940 ATAAAAATTAAAATATAAAAA-AATAAAAAAT
1 ATAAAAA-TAAAA-ATAAAAATAATAAAATAT
** *
121317971 ATAAGTATAAGAATAATAAATTAATTAATTAAT-T
1 ATAAAAATAAAAATAA-AAA-TAA-TAA--AATAT
*
121318005 AGT-AAAATAAAAATAAAAAT-ATAACA-AT
1 A-TAAAAATAAAAATAAAAATAATAAAATAT
121318033 -TAAAAAT-AAAATAAAA
1 ATAAAAATAAAAATAAAA
121318049 TAAAATTGGG
Statistics
Matches: 89, Mismatches: 9, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
26 10 0.11
27 5 0.06
28 2 0.02
29 4 0.04
30 10 0.11
31 15 0.17
32 15 0.17
33 13 0.15
34 12 0.13
35 3 0.03
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.26
Consensus pattern (30 bp):
ATAAAAATAAAAATAAAAATAATAAAATAT
Found at i:121317945 original size:10 final size:9
Alignment explanation
Indices: 121317905--121317990 Score: 56
Period size: 9 Copynumber: 9.3 Consensus size: 9
121317895 ATAGAAATAG
121317905 AAAAATAA-
1 AAAAATAAT
*
121317913 AAATAAAAAT
1 AAA-AATAAT
121317923 AAAAATAAT
1 AAAAATAAT
*
121317932 AAAAGTATAT
1 AAAAATA-AT
121317942 AAAAAT--T
1 AAAAATAAT
121317949 AAAATATAA-
1 AAAA-ATAAT
121317958 AAAAATAA-
1 AAAAATAAT
121317966 AAAATATAAGT
1 AAAA-ATAA-T
121317977 ATAAGAATAAT
1 A-AA-AATAAT
121317988 AAA
1 AAA
121317991 TTAATTAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
7 5 0.08
8 13 0.21
9 23 0.37
10 12 0.19
11 3 0.05
12 6 0.10
13 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAATAAT
Found at i:121317958 original size:39 final size:37
Alignment explanation
Indices: 121317882--121317979 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 37
121317872 AAAATACGAA
* * *
121317882 AAAAAAAGAAAAAATAGAA--ATAGAAAAATAAAAAT
1 AAAAAAATAAAAAATAAAAGTATATAAAAATAAAAAT
*
121317917 AAAAATAA-AAATAATAAAAGTATATAAAAATTAAAATAT
1 AAAAA-AATAAAAAATAAAAGTATATAAAAA-TAAAA-AT
*
121317956 AAAAAAATAAAAAATATAAGTATA
1 AAAAAAATAAAAAATAAAAGTATA
121317980 AGAATAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
35 14 0.27
36 2 0.04
37 8 0.15
38 7 0.13
39 21 0.40
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (37 bp):
AAAAAAATAAAAAATAAAAGTATATAAAAATAAAAAT
Found at i:121321163 original size:6 final size:6
Alignment explanation
Indices: 121321154--121321182 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
121321144 AAAAGTAAAC
121321154 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
121321183 GGCTAAAGTA
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:121326717 original size:40 final size:40
Alignment explanation
Indices: 121326611--121326794 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
121326601 TGCTGGAAAT
* * * * * **
121326611 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
121326651 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
121326691 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * * *
121326729 TGAAATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
121326770 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
121326795 GTTTGAACGA
Statistics
Matches: 113, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 28 0.25
40 84 0.74
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:121331290 original size:32 final size:32
Alignment explanation
Indices: 121331238--121331405 Score: 133
Period size: 32 Copynumber: 5.2 Consensus size: 32
121331228 GTGTGCGTTT
* * **
121331238 CTTTTTGAGTGGTACACACAAAGTATACCTTTC
1 CTTTTCGAGT-GTACACACAAAGTATACATAAC
* *
121331271 CTTTTCGAGTGTACACACAAAGTGTATATAAC
1 CTTTTCGAGTGTACACACAAAGTATACATAAC
* *
121331303 CTTTTCAAGTGTACACACAAAGTGT-CAATAAC
1 CTTTTCGAGTGTACACACAAAGTATAC-ATAAC
* * * * *
121331335 CTTTTCAAGTGTACACACAAACTGTGCATAAA
1 CTTTTCGAGTGTACACACAAAGTATACATAAC
* * *
121331367 ATTTTC-ATGTGGTATACACAAAGTATACCTAAC
1 CTTTTCGA-GT-GTACACACAAAGTATACATAAC
*
121331400 CCTTTC
1 CTTTTC
121331406 ACATTCGATA
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
31 1 0.01
32 81 0.72
33 30 0.27
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (32 bp):
CTTTTCGAGTGTACACACAAAGTATACATAAC
Found at i:121331372 original size:64 final size:65
Alignment explanation
Indices: 121331270--121331390 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 65
121331260 GTATACCTTT
* * * **
121331270 CCTTTTCGAGTGTACACACAAAGTGTATATAACCTTTTCAAGT-GTACACACAAAGTGTCAATAA
1 CCTTTTCAAGTGTACACACAAACTGTACATAAAATTTTCAAGTGGTACACACAAAGTGTCAATAA
* * *
121331334 CCTTTTCAAGTGTACACACAAACTGTGCATAAAATTTTCATGTGGTATACACAAAGT
1 CCTTTTCAAGTGTACACACAAACTGTACATAAAATTTTCAAGTGGTACACACAAAGT
121331391 ATACCTAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
64 36 0.75
65 12 0.25
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (65 bp):
CCTTTTCAAGTGTACACACAAACTGTACATAAAATTTTCAAGTGGTACACACAAAGTGTCAATAA
Found at i:121331440 original size:29 final size:29
Alignment explanation
Indices: 121331402--121331530 Score: 168
Period size: 29 Copynumber: 4.3 Consensus size: 29
121331392 TACCTAACCC
121331402 TTTCACATTCGATAGCCAAAGCTATCCCT
1 TTTCACATTCGATAGCCAAAGCTATCCCT
*
121331431 TTTCACATTCGATAGCCGAAGCTATCCCT
1 TTTCACATTCGATAGCCAAAGCTATCCCT
* * *
121331460 TTTCACATTCGATAGTCGAAGCTATCCTTTTTTT
1 TTTCACATTCGATAGCCAAAGCTATCC-----CT
*
121331494 TTTTACATTCGATAGCCAAAGCTATCCCT
1 TTTCACATTCGATAGCCAAAGCTATCCCT
121331523 TTTCACAT
1 TTTCACAT
121331531 AGTACACACA
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
29 62 0.71
34 25 0.29
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (29 bp):
TTTCACATTCGATAGCCAAAGCTATCCCT
Found at i:121334256 original size:33 final size:33
Alignment explanation
Indices: 121334133--121334262 Score: 136
Period size: 33 Copynumber: 4.0 Consensus size: 33
121334123 TTCTTTCTGA
* **
121334133 GTGGTACACACAAAGTATACTTTTCCTTTTCAT
1 GTGGTACACACAAAGTATACATAACCTTTTCAT
* * ** *
121334166 ATGGTATACACAAAGTATACATTTCCTTTTCAA
1 GTGGTACACACAAAGTATACATAACCTTTTCAT
* *
121334199 GT-GTACACACAAAGTGTACGTAACCTTTTCAT
1 GTGGTACACACAAAGTATACATAACCTTTTCAT
* * *
121334231 GTGGTATACAAAAAGTATACCTAACCTTTTCA
1 GTGGTACACACAAAGTATACATAACCTTTTCA
121334263 CATTCAATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
32 26 0.32
33 55 0.68
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (33 bp):
GTGGTACACACAAAGTATACATAACCTTTTCAT
Found at i:121334259 original size:65 final size:65
Alignment explanation
Indices: 121334136--121334262 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
121334126 TTTCTGAGTG
* ** * **
121334136 GTACACACAAAGTATACTTTTCCTTTTCATATGGTATACACAAAGTATACATTTCCTTTTCAAGT
1 GTACACACAAAGTATACGTAACCTTTTCATATGGTATACAAAAAGTATACATAACCTTTTCAAGT
* * *
121334201 GTACACACAAAGTGTACGTAACCTTTTCATGTGGTATACAAAAAGTATACCTAACCTTTTCA
1 GTACACACAAAGTATACGTAACCTTTTCATATGGTATACAAAAAGTATACATAACCTTTTCA
121334263 CATTCAATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (65 bp):
GTACACACAAAGTATACGTAACCTTTTCATATGGTATACAAAAAGTATACATAACCTTTTCAAGT
Found at i:121334308 original size:29 final size:29
Alignment explanation
Indices: 121334255--121334381 Score: 173
Period size: 29 Copynumber: 4.4 Consensus size: 29
121334245 GTATACCTAA
* * *
121334255 CCTTTTCACATTCAATATCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
121334284 CCTTTTCACATTCGATAGCTGAAGCTAGC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
121334313 CGTTTTCACATTCGATACCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
121334342 CTTTTTTACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
121334371 CCTTTTCACAT
1 CCTTTTCACAT
121334382 GGTACACACA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:121338383 original size:18 final size:18
Alignment explanation
Indices: 121338360--121338395 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
121338350 TCAAAGTTTC
121338360 AAACATTCCAAGTTGAGA
1 AAACATTCCAAGTTGAGA
121338378 AAACATTCCAAGTTGAGA
1 AAACATTCCAAGTTGAGA
121338396 TCCCCTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
AAACATTCCAAGTTGAGA
Found at i:121348302 original size:21 final size:21
Alignment explanation
Indices: 121348276--121348323 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
121348266 AGAACAACTG
121348276 ACTCTAGATTGATTAATTGAA
1 ACTCTAGATTGATTAATTGAA
121348297 ACTCTAGATTGATTAATTGAA
1 ACTCTAGATTGATTAATTGAA
121348318 ATCTCT
1 A-CTCT
121348324 TTCTAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTCTAGATTGATTAATTGAA
Found at i:121348963 original size:30 final size:30
Alignment explanation
Indices: 121348905--121348963 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
121348895 ACACAGGCTA
* *
121348905 TCACATGGGCGTGTGGCCAGCCCGTGTGGC
1 TCACATGGGCATGTGGCCAGCCCATGTGGC
*
121348935 TCACATGGGCATGT-GCTCTGCCCATGTGG
1 TCACATGGGCATGTGGC-CAGCCCATGTGG
121348964 AAGTAGTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.12, C:0.29, G:0.36, T:0.24
Consensus pattern (30 bp):
TCACATGGGCATGTGGCCAGCCCATGTGGC
Found at i:121349829 original size:13 final size:12
Alignment explanation
Indices: 121349811--121349862 Score: 68
Period size: 13 Copynumber: 4.1 Consensus size: 12
121349801 AAATATTATA
*
121349811 TTTTTTTCTTCT
1 TTTTTTTCTTTT
121349823 TTTTTTTCTTTCT
1 TTTTTTTCTTT-T
121349836 TTTTTTTCTTTTT
1 TTTTTTTC-TTTT
121349849 TCTTTTTTCTTTT
1 T-TTTTTTCTTTT
121349862 T
1 T
121349863 GACTGAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
12 10 0.28
13 16 0.44
14 10 0.28
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:121349831 original size:9 final size:9
Alignment explanation
Indices: 121349812--121349856 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
121349802 AATATTATAT
121349812 TTTTTTCTTC
1 TTTTTT-TTC
121349822 TTTTTTTTC
1 TTTTTTTTC
*
121349831 TTTCTTTTTT
1 TTT-TTTTTC
121349841 TTCTTTTTTC
1 TT-TTTTTTC
121349851 TTTTTT
1 TTTTTT
121349857 CTTTTTGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 10 0.32
10 20 0.65
11 1 0.03
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:121349849 original size:7 final size:7
Alignment explanation
Indices: 121349812--121349862 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
121349802 AATATTATAT
121349812 TTTTTTC
1 TTTTTTC
*
121349819 -TTCTT-
1 TTTTTTC
121349824 TTTTTTC
1 TTTTTTC
*
121349831 TTTCTT-
1 TTTTTTC
121349837 TTTTTTC
1 TTTTTTC
121349844 TTTTTTC
1 TTTTTTC
121349851 TTTTTTC
1 TTTTTTC
121349858 TTTTT
1 TTTTT
121349863 GACTGAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 13 0.35
7 24 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:121349849 original size:20 final size:20
Alignment explanation
Indices: 121349812--121349862 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
121349802 AATATTATAT
*
121349812 TTTTTTCTTCTT-TTTTTTC
1 TTTTTTCTTTTTCTTTTTTC
121349831 TTTCTTT-TTTTTCTTTTTTC
1 TTT-TTTCTTTTTCTTTTTTC
121349851 TTTTTTCTTTTT
1 TTTTTTCTTTTT
121349863 GACTGAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTCTTTTTCTTTTTTC
Found at i:121350834 original size:6 final size:6
Alignment explanation
Indices: 121350823--121350879 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
121350813 CATAATAGAC
* * *
121350823 ATAAAA ATAAAA ATAAAA A-AAAA ATAAAA ATAAAA GTAAAC ATAAAC
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
121350870 GTAAAA ATAA
1 ATAAAA ATAA
121350880 TCGGACTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:121350845 original size:17 final size:17
Alignment explanation
Indices: 121350825--121350857 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
121350815 TAATAGACAT
121350825 AAAAATAAAAATAAAAA
1 AAAAATAAAAATAAAAA
121350842 AAAAATAAAAATAAAA
1 AAAAATAAAAATAAAA
121350858 GTAAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAATAAAAATAAAAA
Found at i:121352997 original size:21 final size:22
Alignment explanation
Indices: 121352973--121353013 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
121352963 AGAGAAGGGA
*
121352973 AAAAGAGAAGGAA-AAGGAAAG
1 AAAAGAGAAGAAATAAGGAAAG
*
121352994 AAAAGGGAAGAAATAAGGAA
1 AAAAGAGAAGAAATAAGGAA
121353014 GGGGGAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (22 bp):
AAAAGAGAAGAAATAAGGAAAG
Found at i:121356449 original size:22 final size:22
Alignment explanation
Indices: 121356424--121356467 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
121356414 GATAAGTTAG
121356424 TAAATT-ATAATAAAAATAAAAA
1 TAAATTGAT-ATAAAAATAAAAA
*
121356446 TAAATTGCTATAAAAATAAAAA
1 TAAATTGATATAAAAATAAAAA
121356468 AATGGCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTGATATAAAAATAAAAA
Found at i:121356475 original size:20 final size:22
Alignment explanation
Indices: 121356433--121356488 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
121356423 GTAAATTATA
*
121356433 ATAAAAATAAAAATAAATTGCT
1 ATAAAAATAAAAATAAATGGCT
121356455 ATAAAAAT-AAAA-AAATGGCT
1 ATAAAAATAAAAATAAATGGCT
*
121356475 A-AAGTAATAAAAAT
1 ATAA-AAATAAAAAT
121356489 TAAGCGTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 11 0.38
21 8 0.28
22 8 0.28
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.23
Consensus pattern (22 bp):
ATAAAAATAAAAATAAATGGCT
Found at i:121358430 original size:49 final size:50
Alignment explanation
Indices: 121358366--121358463 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
121358356 TTAAAAAACA
*
121358366 AATAATAATAAAAAAAAGAG-AAACACAAATCAAATTAAAAGAAATGACC
1 AATAATAATAAAAAAAAAAGCAAACACAAATCAAATTAAAAGAAATGACC
*** *
121358415 AATAATAA-ACAAAAAAAAAGCGGGCACAAATGAAATTAAAAGAAATGAC
1 AATAATAATA-AAAAAAAAAGCAAACACAAATCAAATTAAAAGAAATGAC
121358464 TGTGGCAGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.02
49 17 0.40
50 24 0.57
ACGTcount: A:0.65, C:0.10, G:0.11, T:0.13
Consensus pattern (50 bp):
AATAATAATAAAAAAAAAAGCAAACACAAATCAAATTAAAAGAAATGACC
Found at i:121361695 original size:16 final size:17
Alignment explanation
Indices: 121361663--121361709 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
121361653 GTGGGCTTGC
*
121361663 CCAAGACTGCGAGCTCA
1 CCAAGACTGCAAGCTCA
121361680 CCAAGACT-CAAGCTCA
1 CCAAGACTGCAAGCTCA
* *
121361696 TCAAGATTGCAAGC
1 CCAAGACTGCAAGC
121361710 CCTCTAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (17 bp):
CCAAGACTGCAAGCTCA
Found at i:121364845 original size:16 final size:17
Alignment explanation
Indices: 121364818--121364850 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
121364808 CAAAATCGAG
*
121364818 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
121364835 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
121364851 ATAATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:121367264 original size:50 final size:51
Alignment explanation
Indices: 121367162--121367267 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 51
121367152 AACAACAGCA
* * *
121367162 CATAAATACTTACCTATATAACCGAAAATATATAAGATACAATATATCATCT
1 CATAAAAACTTACCTATATAACC-AAAATACACAAGATACAATATATCATCT
* * * * *
121367214 CATAAAAACTTACCTATATAGCC-AAATACACAAGGTTCATTATATTATCT
1 CATAAAAACTTACCTATATAACCAAAATACACAAGATACAATATATCATCT
121367264 CATA
1 CATA
121367268 TGGCCGAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 25 0.54
52 21 0.46
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (51 bp):
CATAAAAACTTACCTATATAACCAAAATACACAAGATACAATATATCATCT
Found at i:121367371 original size:33 final size:34
Alignment explanation
Indices: 121367332--121367438 Score: 99
Period size: 35 Copynumber: 3.1 Consensus size: 34
121367322 AATAAAATAT
121367332 CTCATATG-GCCGAATATACAAATTCAATATAAC
1 CTCATATGAGCCGAATATACAAATTCAATATAAC
** * *
121367365 CTCATATGAAATCAAATATACAAGTTCAATATAAC
1 CTCATATG-AGCCGAATATACAAATTCAATATAAC
* * * * * *
121367400 TTCACAAGCAGCCGAATAAACAAACTCAATATGAC
1 CTCATATG-AGCCGAATATACAAATTCAATATAAC
121367435 CTCA
1 CTCA
121367439 CATGTACATA
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
33 8 0.14
35 48 0.86
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (34 bp):
CTCATATGAGCCGAATATACAAATTCAATATAAC
Found at i:121367392 original size:70 final size:70
Alignment explanation
Indices: 121367235--121367395 Score: 162
Period size: 70 Copynumber: 2.3 Consensus size: 70
121367225 ACCTATATAG
* * * * * * *
121367235 CCAAATACACAAGGTTCATTATATTATCTCATATGGCCGAATATATAAGTTCAAATTATCATCAC
1 CCAAATATACAA-GTTCAATAAAATATCTCATATGGCCGAATATACAAATTCAAATTAACATCAC
*
121367300 ATGTAA
65 ATGAAA
* * * * * *
121367306 CCTAATGTTCACGTTCAATAAAATATCTCATATGGCCGAATATACAAATTC-AATATAACCTCAT
1 CCAAATATACAAGTTCAATAAAATATCTCATATGGCCGAATATACAAATTCAAAT-TAACATCAC
121367370 ATGAAA
65 ATGAAA
*
121367376 TCAAATATACAAGTTCAATA
1 CCAAATATACAAGTTCAATA
121367396 TAACTTCACA
Statistics
Matches: 70, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
69 3 0.04
70 60 0.86
71 7 0.10
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (70 bp):
CCAAATATACAAGTTCAATAAAATATCTCATATGGCCGAATATACAAATTCAAATTAACATCACA
TGAAA
Found at i:121375197 original size:35 final size:35
Alignment explanation
Indices: 121375119--121375219 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 35
121375109 ATCTTATATG
* *
121375119 GCCGAATATACAAATTCAATATAACCTCATATGAA
1 GCCGAATATACAAATTCAATATAACCTCACAAGAA
** * * * *
121375154 ATCAAATATACAAGTTCAATATAACTTCACAAGCA
1 GCCGAATATACAAATTCAATATAACCTCACAAGAA
* *
121375189 GCCGAATATACAAACTCAATATGACCTCACA
1 GCCGAATATACAAATTCAATATAACCTCACA
121375220 TGTACATACT
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.24
Consensus pattern (35 bp):
GCCGAATATACAAATTCAATATAACCTCACAAGAA
Found at i:121386262 original size:20 final size:19
Alignment explanation
Indices: 121386216--121386253 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
121386206 CATCCAAACA
121386216 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
121386235 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
121386254 TCTGGAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:121390050 original size:27 final size:27
Alignment explanation
Indices: 121390012--121390115 Score: 138
Period size: 27 Copynumber: 3.9 Consensus size: 27
121390002 AGTGGATAAG
* * **
121390012 TTGTAGAATTACTAAAATACCCCTGTT
1 TTGTAAAATTACCAAAATACCCCTGAC
*
121390039 TTGTAAAATTACCAAAATACCCTTGAC
1 TTGTAAAATTACCAAAATACCCCTGAC
121390066 TTGTAAAATTACCAAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GAC
*
121390093 TTGTAAAATTACCAAAGTACCCC
1 TTGTAAAATTACCAAAATACCCC
121390116 CGATTTACAG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.04
27 62 0.91
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAC
Found at i:121390097 original size:54 final size:53
Alignment explanation
Indices: 121390012--121390171 Score: 153
Period size: 54 Copynumber: 3.0 Consensus size: 53
121390002 AGTGGATAAG
* * *
121390012 TTGTAGAATTACTAAAATACCC-CTGTTTTGTAAAATTACCAAAATACCCTTGA
1 TTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTTGA
* * **
121390065 CTTGTAAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGA
1 -TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
*** ** *
121390119 TT-TACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTG
1 TTGTA-A-AATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
121390172 TAGGGTAGAA
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 3 0.03
54 80 0.93
55 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
Found at i:121390129 original size:27 final size:25
Alignment explanation
Indices: 121390044--121390169 Score: 103
Period size: 27 Copynumber: 4.7 Consensus size: 25
121390034 CTGTTTTGTA
*
121390044 AAATTACCAAAATACCCTTGACTTGTA-
1 AAATTACC-AAATACCCTCGA-TT-TAC
121390071 AAATTACCAAAATACCCTCGACTTGTA-
1 AAATTACC-AAATACCCTCGA-TT-TAC
*
121390098 AAATTACCAAAGTACCCCCGATTTAC
1 AAATTACCAAA-TACCCTCGATTTAC
**
121390124 AGAATTACCATTTTACCCTCGATTTAC
1 A-AATTACCA-AATACCCTCGATTTAC
121390151 AAAATTACCGAAATACCCT
1 -AAATTACC-AAATACCCT
121390170 TGTAGGGTAG
Statistics
Matches: 86, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.02
26 6 0.07
27 76 0.88
28 2 0.02
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (25 bp):
AAATTACCAAATACCCTCGATTTAC
Found at i:121390213 original size:27 final size:27
Alignment explanation
Indices: 121390156--121390224 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
121390146 TTTACAAAAT
* * *
121390156 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAAGATAGAAA
* *
121390183 TACCGAAATACCCCTGTAAGATAGGAC
1 TACCGAAATACCCCTGTAAGATAGAAA
**
121390210 TACCGATTTACCCCT
1 TACCGAAATACCCCT
121390225 AGAGGGTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAAGATAGAAA
Found at i:121390250 original size:27 final size:27
Alignment explanation
Indices: 121390220--121390276 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
121390210 TACCGATTTA
121390220 CCCCTAGAGG-GTAAAATGACCATTTTG
1 CCCCTAG-GGTGTAAAATGACCATTTTG
* *
121390247 CCCCTAGGGTGTTAAATGACTATTTTG
1 CCCCTAGGGTGTAAAATGACCATTTTG
121390274 CCC
1 CCC
121390277 TTCGTGCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (27 bp):
CCCCTAGGGTGTAAAATGACCATTTTG
Found at i:121390915 original size:2 final size:2
Alignment explanation
Indices: 121390908--121390949 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
121390898 GCTTCGTCAC
121390908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121390950 CTGTTCTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121396468 original size:26 final size:27
Alignment explanation
Indices: 121396441--121396537 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
121396431 AGTGGATAAG
* *
121396441 TTGTAAAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCTCGA-C
*
121396468 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAC
121396495 TTGTAAAATTACCAAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAC
*
121396522 TTGTAAAATTATCAAA
1 TTGTAAAATTACCAAA
121396538 GTATCCCCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 62 0.97
28 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAC
Found at i:121396620 original size:27 final size:27
Alignment explanation
Indices: 121396585--121396665 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
121396575 TTTACAAAAT
* *
121396585 TACCGAAATATCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
121396612 TACCGAAATACCCCTGTAGGGTAGGAC
1 TACCGAAATACCCCTGTAGGGTAGAAA
**
121396639 TACCGATTTACCCCTAG-AGGGTA-AAA
1 TACCGAAATACCCCT-GTAGGGTAGAAA
121396665 T
1 T
121396666 GACTATTTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
26 2 0.04
27 42 0.93
28 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:121396679 original size:27 final size:27
Alignment explanation
Indices: 121396649--121396704 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
121396639 TACCGATTTA
121396649 CCCCTAGAGG-GTAAAATGACTATTTTG
1 CCCCTAG-GGTGTAAAATGACTATTTTG
*
121396676 CCCCTAGGGTGTTAAATGACTATTTTG
1 CCCCTAGGGTGTAAAATGACTATTTTG
121396703 CC
1 CC
121396705 TTTCGTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (27 bp):
CCCCTAGGGTGTAAAATGACTATTTTG
Found at i:121397364 original size:27 final size:26
Alignment explanation
Indices: 121397320--121397371 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
121397310 CTCGCTGCAA
*
121397320 TCTGGTGGCCTCGCCACACATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
121397347 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
121397372 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:121397460 original size:27 final size:26
Alignment explanation
Indices: 121397408--121397467 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
121397398 CGCCATATAT
*
121397408 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
121397434 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
121397461 ATATCTG
1 ATATCTG
121397468 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:121405872 original size:14 final size:13
Alignment explanation
Indices: 121405848--121405887 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
121405838 CTAACCTCTA
121405848 TTTTATATTTTAT
1 TTTTATATTTTAT
121405861 TTTTATTATTTTA-
1 TTTTA-TATTTTAT
121405874 TTTTAT-TTTTAT
1 TTTTATATTTTAT
121405886 TT
1 TT
121405888 GTTTTCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.20
12 3 0.12
13 10 0.40
14 7 0.28
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATATTTTAT
Found at i:121406298 original size:22 final size:22
Alignment explanation
Indices: 121406276--121406326 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
121406266 AACCCCTAAC
121406276 CCTTAAACTA-TAA-TACATAAA
1 CCTTAAACTAGTAACT-CATAAA
*
121406297 CCTTAAAATAGTAACTCATAAA
1 CCTTAAACTAGTAACTCATAAA
121406319 CCTTAAAC
1 CCTTAAAC
121406327 CCTTAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 16 0.62
23 1 0.04
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (22 bp):
CCTTAAACTAGTAACTCATAAA
Found at i:121406559 original size:50 final size:51
Alignment explanation
Indices: 121406467--121406565 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 51
121406457 AACTAAACCC
* * *
121406467 TAAACTCTTAATCCTTAATCTCTAGACCCTAAATACTAAATCC-TAAAATA
1 TAAACTCTTAATCCTAAACCCCTAGACCCTAAATACTAAATCCATAAAATA
*
121406517 TAAACTCTTAATCCTAAACCCCTA-ACCCCTAAA-CCTATAATCCATAAAA
1 TAAACTCTTAATCCTAAACCCCTAGA-CCCTAAATACTA-AATCCATAAAA
121406566 CTTAAAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 4 0.10
50 33 0.79
51 5 0.12
ACGTcount: A:0.42, C:0.28, G:0.01, T:0.28
Consensus pattern (51 bp):
TAAACTCTTAATCCTAAACCCCTAGACCCTAAATACTAAATCCATAAAATA
Found at i:121410471 original size:41 final size:40
Alignment explanation
Indices: 121410414--121410605 Score: 195
Period size: 41 Copynumber: 4.7 Consensus size: 40
121410404 GGGTGTTACA
121410414 GCTAATGCTCTGGCTTTTAGCGGCGTTTTACCAAAAGCGCC
1 GCTAATGCTCT-GCTTTTAGCGGCGTTTTACCAAAAGCGCC
* **
121410455 GCTAATGCTTTGGCTTTTAGAAGCGTTTTACCAAAAGCGCC
1 GCTAATGCTCT-GCTTTTAGCGGCGTTTTACCAAAAGCGCC
* * **
121410496 GCTAATGCTCTGTTTTTAGCGGCGTTTTAACAAAAAATGCC
1 GCTAATGCTCTGCTTTTAGCGGCGTTTT-ACCAAAAGCGCC
* * * * * * *
121410537 GCTATTGCTTTGTTTTTAGCGCCGTTTTAACAAAAAACACC
1 GCTAATGCTCTGCTTTTAGCGGCGTTTT-ACCAAAAGCGCC
* * *
121410578 GTTATTGCTCTGTTTTTAGCGGCGTTTT
1 GCTAATGCTCTGCTTTTAGCGGCGTTTT
121410606 TGGTCAAACG
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 14 0.11
41 118 0.89
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
GCTAATGCTCTGCTTTTAGCGGCGTTTTACCAAAAGCGCC
Found at i:121410554 original size:81 final size:82
Alignment explanation
Indices: 121410414--121410605 Score: 228
Period size: 82 Copynumber: 2.3 Consensus size: 82
121410404 GGGTGTTACA
* * *
121410414 GCTAATGCTCTGGCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTGGCTTTTAGAAG-
1 GCTAATGCTCT-GTTTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTTTGGCTTTTAG-AGC
* * *
121410478 CGTTTT-ACCAAAAGCGCC
64 CGTTTTAACAAAAAACACC
* * * *
121410496 GCTAATGCTCTGTTTTTAGCGGCGTTTTAACAAAAAATGCCGCTATTGCTTT-GTTTTTAGCGCC
1 GCTAATGCTCTGTTTTTAGCGGCGTTTT-ACAAAAAACGCCGCTAATGCTTTGGCTTTTAGAGCC
121410560 GTTTTAACAAAAAACACC
65 GTTTTAACAAAAAACACC
* *
121410578 GTTATTGCTCTGTTTTTAGCGGCGTTTT
1 GCTAATGCTCTGTTTTTAGCGGCGTTTT
121410606 TGGTCAAACG
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 29 0.31
82 65 0.68
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (82 bp):
GCTAATGCTCTGTTTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTTTGGCTTTTAGAGCCG
TTTTAACAAAAAACACC
Found at i:121410744 original size:20 final size:20
Alignment explanation
Indices: 121410721--121410758 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
121410711 TTTGGTATGA
121410721 TATTAAAAATTTTAATATAG
1 TATTAAAAATTTTAATATAG
*
121410741 TATTAGAAATTTTAATAT
1 TATTAAAAATTTTAATAT
121410759 CACCTTAAAA
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:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTAAAAATTTTAATATAG
Found at i:121410791 original size:20 final size:20
Alignment explanation
Indices: 121410722--121410791 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
121410712 TTGGTATGAT
* * **
121410722 ATTAAAAATTTTAATATAGT
1 ATTAGAAATTTCAATATAAC
* *
121410742 ATTAGAAATTTTAATATCAC
1 ATTAGAAATTTCAATATAAC
* *
121410762 CTTA-AAATTTCGATATAAC
1 ATTAGAAATTTCAATATAAC
121410781 ATTAGAAATTT
1 ATTAGAAATTT
121410792 TACATTAGTC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (20 bp):
ATTAGAAATTTCAATATAAC
Found at i:121413514 original size:31 final size:31
Alignment explanation
Indices: 121413440--121413514 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
121413430 TTTTTGATCC
* *
121413440 AATTTAGTACCTAAACATGACATTTTTTTTT
1 AATTTGGTACCTAAACATGACATTTTTTCTT
** *
121413471 AATTTGACACCTAAACTTGAC-TCTTTTTCTT
1 AATTTGGTACCTAAACATGACAT-TTTTTCTT
121413502 AATTTGGTACCTA
1 AATTTGGTACCTA
121413515 CTATCTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.45
Consensus pattern (31 bp):
AATTTGGTACCTAAACATGACATTTTTTCTT
Found at i:121423526 original size:20 final size:20
Alignment explanation
Indices: 121423501--121423547 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
121423491 TAATATATAT
121423501 TTAATTATAAAAGATATTTA
1 TTAATTATAAAAGATATTTA
121423521 TTAATTATAAAAGATATTTA
1 TTAATTATAAAAGATATTTA
121423541 TTAATTA
1 TTAATTA
121423548 AATAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TTAATTATAAAAGATATTTA
Found at i:121423699 original size:3 final size:3
Alignment explanation
Indices: 121423691--121423748 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
121423681 TAATAAGTTG
121423691 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
121423739 TTA TTA TTA T
1 TTA TTA TTA T
121423749 ATATAAAGCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:121424522 original size:41 final size:41
Alignment explanation
Indices: 121424471--121424587 Score: 116
Period size: 41 Copynumber: 3.0 Consensus size: 41
121424461 TATTTTGACC
*
121424471 TAGAGTCGATGAGACACTGGGTGTCACTATATTTCTTCGGA
1 TAGAGTCGATGAGACACTGGGTGTCACTATATTACTTCGGA
* ** ** *
121424512 TAGATTCGATGAGGTACTGGGTACCAC--T-TTACTTCGGT
1 TAGAGTCGATGAGACACTGGGTGTCACTATATTACTTCGGA
* * *
121424550 TAG-GCCGATGAGACACTGGCTGTCACTATATTGCTTCG
1 TAGAGTCGATGAGACACTGGGTGTCACTATATTACTTCG
121424588 AACTATCTGA
Statistics
Matches: 58, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
37 16 0.28
38 11 0.19
39 2 0.03
40 7 0.12
41 22 0.38
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (41 bp):
TAGAGTCGATGAGACACTGGGTGTCACTATATTACTTCGGA
Found at i:121430468 original size:13 final size:14
Alignment explanation
Indices: 121430445--121430488 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
121430435 TTATTCAAAC
121430445 ATAATTAAATATTA
1 ATAATTAAATATTA
*
121430459 ATCA-TAAATATT-
1 ATAATTAAATATTA
121430471 ATAATTAAATATTA
1 ATAATTAAATATTA
121430485 ATAA
1 ATAA
121430489 CTCTCGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 3 0.12
13 16 0.62
14 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTAAATATTA
Found at i:121431083 original size:6 final size:6
Alignment explanation
Indices: 121431074--121431100 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
121431064 TATTTTTATT
121431074 TTTCTC TTTCTC TTTCTC TTTCTC TTT
1 TTTCTC TTTCTC TTTCTC TTTCTC TTT
121431101 TATGAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCTC
Found at i:121433089 original size:14 final size:14
Alignment explanation
Indices: 121433048--121433117 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 14
121433038 CCCTATTGTT
*
121433048 TTTTTTTCCTTTTA
1 TTTTTTTCTTTTTA
* *
121433062 CATTTCTTCATTTTTA
1 -TTTTTTTC-TTTTTA
*
121433078 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTA
*
121433092 TTCTTTTCTTTATCTA
1 TTTTTTTCTTT-T-TA
121433108 TTTTTTTCTT
1 TTTTTTTCTT
121433118 AGCAAGTCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 15 0.35
15 13 0.30
16 15 0.35
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTCTTTTTA
Found at i:121439452 original size:5 final size:5
Alignment explanation
Indices: 121439442--121439471 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
121439432 GTAATTATTT
121439442 TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA
121439472 ATAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:121440165 original size:13 final size:13
Alignment explanation
Indices: 121440147--121440171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121440137 TAAATGTTAT
121440147 GGTAAGTAAATAA
1 GGTAAGTAAATAA
121440160 GGTAAGTAAATA
1 GGTAAGTAAATA
121440172 TCATGATGGC
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:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (13 bp):
GGTAAGTAAATAA
Found at i:121443391 original size:5 final size:5
Alignment explanation
Indices: 121443381--121443460 Score: 160
Period size: 5 Copynumber: 16.0 Consensus size: 5
121443371 TTTAAGTAAT
121443381 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
121443431 TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
121443461 GTTTAATAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 75 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:121444741 original size:28 final size:28
Alignment explanation
Indices: 121444693--121444789 Score: 160
Period size: 28 Copynumber: 3.5 Consensus size: 28
121444683 CTTAAAACCC
* *
121444693 TAGGGGT-ATATCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
121444720 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
121444748 TAGGGGTAATTTCGGTAATTTTGTTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
121444776 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
121444790 TGATCTACGC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 7 0.11
28 59 0.89
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:121446441 original size:20 final size:20
Alignment explanation
Indices: 121446418--121446455 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121446408 CACATCCAAA
*
121446418 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
121446438 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
121446456 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:121452776 original size:28 final size:28
Alignment explanation
Indices: 121452730--121452798 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
121452720 TTTAAAACCC
*
121452730 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
121452757 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
121452785 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
121452799 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:121454448 original size:20 final size:20
Alignment explanation
Indices: 121454425--121454462 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121454415 CACATCCAAA
*
121454425 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
121454445 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
121454463 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:121459220 original size:35 final size:35
Alignment explanation
Indices: 121459169--121459244 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
121459159 GACCATGTCT
*
121459169 AAGAGTAAAATTATCATAATTGGAGATTGGGTGAC
1 AAGATTAAAATTATCATAATTGGAGATTGGGTGAC
121459204 AAGATTAAAATTATCATAATTGGAGATTGGGTGAC
1 AAGATTAAAATTATCATAATTGGAGATTGGGTGAC
121459239 AAGATT
1 AAGATT
121459245 TTGTCAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.30
Consensus pattern (35 bp):
AAGATTAAAATTATCATAATTGGAGATTGGGTGAC
Found at i:121465437 original size:13 final size:13
Alignment explanation
Indices: 121465421--121465473 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
121465411 TTTAAATTAA
121465421 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
121465434 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
121465447 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
121465460 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
121465473 A
1 A
121465474 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:121471552 original size:24 final size:24
Alignment explanation
Indices: 121471520--121471660 Score: 158
Period size: 24 Copynumber: 5.9 Consensus size: 24
121471510 GAAATGACAT
**
121471520 TGGCACTATGTGTATGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
121471544 TGGCACTATGTGTGCAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
121471568 TGACACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
121471592 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
** * *
121471617 -GGCACTATGTGTGCGGGCTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
121471640 TGGCACTATGTGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
121471661 CCTTGACCGA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
23 1 0.01
24 94 0.97
25 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:121471647 original size:72 final size:72
Alignment explanation
Indices: 121471520--121471660 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 72
121471510 GAAATGACAT
* * * * *
121471520 TGGCACTATGTGTATGGATTTGAATGGCACTATGTGTGCAGATTTGAATGACACTATGTGTGCGG
1 TGGCACTACGTGTATGGATTAGAATGGCACTATGTGTGCAGACTAGAATGACACTATGTGTGCGA
121471585 ATTTGAA
66 ATTTGAA
* * * * *
121471592 TGGCACTACGTGTGTGGATTAGCAA-GGCACTATGTGTGCGGGCTAGCATGGCACTATGTGTGCG
1 TGGCACTACGTGTATGGATTAG-AATGGCACTATGTGTGCAGACTAGAATGACACTATGTGTGCG
121471656 AATTT
65 AATTT
121471661 CCTTGACCGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 56 0.97
73 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (72 bp):
TGGCACTACGTGTATGGATTAGAATGGCACTATGTGTGCAGACTAGAATGACACTATGTGTGCGA
ATTTGAA
Found at i:121481991 original size:25 final size:26
Alignment explanation
Indices: 121481963--121482012 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
121481953 GAAAGCTTTG
121481963 GAAAG-CCATTAATCGAGAAGCTCAT
1 GAAAGACCATTAATCGAGAAGCTCAT
**
121481988 GAAAGAACTTTTAATCGAGAAGCTC
1 GAAAG-ACCATTAATCGAGAAGCTC
121482013 CGAAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
27 16 0.76
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
GAAAGACCATTAATCGAGAAGCTCAT
Found at i:121482361 original size:21 final size:22
Alignment explanation
Indices: 121482321--121482362 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
121482311 TACACAATTC
*
121482321 ACATATACAACATTCAATTTAA
1 ACATATACAACATACAATTTAA
*
121482343 ACATATA-AATATACAATTTA
1 ACATATACAACATACAATTTA
121482363 GTTACATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
ACATATACAACATACAATTTAA
Found at i:121486395 original size:20 final size:21
Alignment explanation
Indices: 121486370--121486408 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
121486360 CCCAAGTATC
121486370 GAGCCACAC-GGCCTGCGATA
1 GAGCCACACAGGCCTGCGATA
*
121486390 GAGCCACACAGGCGTGCGA
1 GAGCCACACAGGCCTGCGA
121486409 CACAGCCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.33, G:0.33, T:0.08
Consensus pattern (21 bp):
GAGCCACACAGGCCTGCGATA
Found at i:121486415 original size:21 final size:20
Alignment explanation
Indices: 121486371--121486415 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
121486361 CCAAGTATCG
* *
121486371 AGCCACACGGCCTGCGATAG
1 AGCCACACGGCCTGCGACAC
*
121486391 AGCCACACAGGCGTGCGACAC
1 AGCCACAC-GGCCTGCGACAC
121486412 AGCC
1 AGCC
121486416 TGGACACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.27, C:0.38, G:0.29, T:0.07
Consensus pattern (20 bp):
AGCCACACGGCCTGCGACAC
Found at i:121487195 original size:5 final size:5
Alignment explanation
Indices: 121487171--121487222 Score: 70
Period size: 5 Copynumber: 10.0 Consensus size: 5
121487161 AACATGTTAC
121487171 TTTT- TTTTA TTTTAA GTTTTA TTTTA TTTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTT-A -TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
121487218 TTTTA
1 TTTTA
121487223 CTTATTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:121487195 original size:21 final size:20
Alignment explanation
Indices: 121487171--121487222 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 20
121487161 AACATGTTAC
121487171 TTTTTTTTATTTTAAGTTTTAT
1 TTTTTTTTATTTT-A-TTTTAT
121487193 TTTATTTTTATTTTATTTTAT
1 TTT-TTTTTATTTTATTTTAT
*
121487214 TTTATTTTA
1 TTTTTTTTA
121487223 CTTATTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.18
21 9 0.32
22 4 0.14
23 10 0.36
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTTATTTTATTTTAT
Found at i:121487203 original size:11 final size:11
Alignment explanation
Indices: 121487174--121487221 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
121487164 ATGTTACTTT
121487174 TTTTTATTTTAA
1 TTTTTATTTT-A
*
121487186 GTTTTATTTTA
1 TTTTTATTTTA
121487197 TTTTTATTTTA
1 TTTTTATTTTA
121487208 -TTTTATTTTA
1 TTTTTATTTTA
121487218 TTTT
1 TTTT
121487222 ACTTATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 10 0.30
11 14 0.42
12 9 0.27
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:121487206 original size:16 final size:16
Alignment explanation
Indices: 121487171--121487222 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
121487161 AACATGTTAC
*
121487171 TTTT-TTTTATTTTAA
1 TTTTATTTTATTTTTA
121487186 GTTTTATTTTATTTTTA
1 -TTTTATTTTATTTTTA
121487203 TTTTATTTTA-TTTTA
1 TTTTATTTTATTTTTA
121487218 TTTTA
1 TTTTA
121487223 CTTATTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 10 0.29
16 14 0.41
17 10 0.29
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:121488915 original size:6 final size:6
Alignment explanation
Indices: 121488885--121488914 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
121488875 GTATTATTAC
121488885 TAATTT TAATTT TAATTT TAATTT T-ATTT T
1 TAATTT TAATTT TAATTT TAATTT TAATTT T
121488915 TCTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TAATTT
Found at i:121491265 original size:5 final size:5
Alignment explanation
Indices: 121491255--121491279 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
121491245 TAAAAACTAT
121491255 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
121491280 GTTATGACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:121493488 original size:27 final size:28
Alignment explanation
Indices: 121493458--121493557 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 28
121493448 TTTAATTTAC
*
121493458 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
121493485 TAAAACTACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
121493512 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
121493539 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
121493558 CCGATTTACA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 54 0.86
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTCGATTTG
Found at i:121493583 original size:27 final size:27
Alignment explanation
Indices: 121493553--121493789 Score: 293
Period size: 27 Copynumber: 8.8 Consensus size: 27
121493543 ATTACCAAAG
*
121493553 TACCCCCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
121493580 TACCC-CGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
121493606 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
121493633 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
121493660 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
121493687 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
121493714 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
121493741 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
121493768 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
121493790 AGAGATACCC
Statistics
Matches: 186, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 26 0.14
27 158 0.85
28 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:121493707 original size:81 final size:81
Alignment explanation
Indices: 121493553--121493817 Score: 320
Period size: 81 Copynumber: 3.3 Consensus size: 81
121493543 ATTACCAAAG
* * * * * *
121493553 TACCCCCGATTTACAGAATTATCGTTTTACCC-CGATTTACATAATTA-TCGTTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACT-GTTTTACCCTCGAT
*
121493616 TTACAGAATTACTGTTT
65 TTACAAAATTACTGTTT
*
121493633 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
121493698 TACAAAATTA-TCGTTT
66 TACAAAATTACT-GTTT
* * ** *
121493714 TACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
* ***
121493779 TACAAAATTACAGAGA
66 TACAAAATTACTGTTT
* *
121493795 TACCCTCAATTTGTAAAATTACC
1 TACCCTCGATTTATAAAATTACC
121493818 AAAATACCCC
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
80 29 0.18
81 128 0.81
82 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:121493824 original size:27 final size:27
Alignment explanation
Indices: 121493768--121493907 Score: 133
Period size: 27 Copynumber: 5.2 Consensus size: 27
121493758 ATTACTATTT
* ** *
121493768 TACCCTCGATTTACAAAATTA-CAGAGA
1 TACCCTCAATTTGTAAAATTACCA-AAA
121493795 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* *
121493822 TACCC-CTAGTTTGTAAAACTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAA
** * *
121493849 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCAATTTGTAAAATTACCAAAA
*
121493876 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
121493903 TACCC
1 TACCC
121493908 CTGATTTACA
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.03
27 87 0.94
28 3 0.03
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:121493985 original size:27 final size:27
Alignment explanation
Indices: 121493946--121493997 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
121493936 TGACTTTCTA
121493946 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
121493973 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
121493998 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:121494081 original size:27 final size:27
Alignment explanation
Indices: 121494050--121494141 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
121494040 TACCCCTATT
*
121494050 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
121494077 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
121494104 AGGTAAAGTGACCATAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
121494131 TGGTAAAATGA
1 AGGTAAAATGA
121494142 TGAATATACC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:121495403 original size:9 final size:9
Alignment explanation
Indices: 121495391--121495447 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
121495381 TTTGATAAAC
121495391 ATGATATGT
1 ATGATATGT
*
121495400 ATGATATGCAC
1 ATGATATG--T
*
121495411 ATGACATGT
1 ATGATATGT
*
121495420 ATGATATGCAC
1 ATGATATG--T
121495431 ATGATATGT
1 ATGATATGT
121495440 ATGATATG
1 ATGATATG
121495448 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:121495414 original size:20 final size:20
Alignment explanation
Indices: 121495389--121495451 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
121495379 ATTTTGATAA
121495389 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
121495409 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
121495429 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
121495449 ACA
1 ACA
121495452 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:121495533 original size:24 final size:23
Alignment explanation
Indices: 121495506--121495792 Score: 398
Period size: 24 Copynumber: 12.0 Consensus size: 23
121495496 GAGGAAGTGA
*
121495506 AAAAAGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
121495529 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
121495553 AAGAAGGGCTTATGCCCCAGTTAT
1 AA-AAGGGCTTATGCCCCAGTTAT
121495577 AAGAAGGGCTTATGCCCCAGTTAT
1 AA-AAGGGCTTATGCCCCAGTTAT
121495601 CAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
121495626 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
121495649 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
121495672 GATAAAGGGCTTATGCCCCAGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
*
121495697 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
121495720 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
121495744 AAAAAAGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
121495768 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
121495792 A
1 A
121495793 TGATAAAGCA
Statistics
Matches: 245, Mismatches: 8, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
23 74 0.30
24 131 0.53
25 40 0.16
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:121496019 original size:31 final size:31
Alignment explanation
Indices: 121495984--121496047 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
121495974 CGTTTACAGT
*
121495984 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
121496015 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
121496046 AA
1 AA
121496048 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:121498863 original size:27 final size:28
Alignment explanation
Indices: 121498832--121498931 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 28
121498822 CTTTATTTAC
*
121498832 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
121498859 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
121498886 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
121498913 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
121498932 CCGATTTACA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 54 0.86
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTCGATTTG
Found at i:121498946 original size:27 final size:27
Alignment explanation
Indices: 121498927--121499160 Score: 233
Period size: 27 Copynumber: 8.8 Consensus size: 27
121498917 ATTACCAAAG
*
121498927 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
121498954 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
121498981 TACCCTCGATTTACAGAATTACTG-TT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
121499007 TACCCTCGATTTATA-AATTA-CGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * *
121499032 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
121499059 TACCCTCGATTTACA-AATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
121499085 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
** **
121499112 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
121499139 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
121499161 AGAATACCCT
Statistics
Matches: 180, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.01
25 21 0.12
26 43 0.24
27 115 0.64
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:121499169 original size:53 final size:52
Alignment explanation
Indices: 121498927--121499176 Score: 263
Period size: 53 Copynumber: 4.7 Consensus size: 52
121498917 ATTACCAAAG
* * *
121498927 TACCCCCGATTTACAGAATTATC-GTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CAG-TTTACCCTCGATTTACA-AATTACTGTTT
* *
121498981 TACCCTCGATTTACAGAATTACTGTTTACCCTCGATTTATAAATTAC-GTTT
1 TACCCTCGATTTACAGAATTACAGTTTACCCTCGATTTACAAATTACTGTTT
* * *
121499032 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACAG-TTTACCCTCGATTTACAAATTACT-GTTT
* * * * *
121499085 TACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-AGTTTACCCTCGATTTACA-AATTACTGTTT
* ** *
121499139 TACCCTCGATTTACAAAATTACAGAATACCCTCAATTT
1 TACCCTCGATTTACAGAATTACAGTTTACCCTCGATTT
121499177 GTAAAATTAC
Statistics
Matches: 169, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
51 26 0.15
52 27 0.16
53 67 0.40
54 48 0.28
55 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (52 bp):
TACCCTCGATTTACAGAATTACAGTTTACCCTCGATTTACAAATTACTGTTT
Found at i:121499176 original size:26 final size:27
Alignment explanation
Indices: 121499139--121499305 Score: 110
Period size: 27 Copynumber: 6.2 Consensus size: 27
121499129 ATTACTATTT
* *
121499139 TACCCTCGATTTACAAAATTA-CAGAA
1 TACCCTCAATTTACAAAATTACCAAAA
**
121499165 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
121499192 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
** *** *
121499219 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCAATTTACAAAATTACCAAAA
**
121499246 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* *
121499273 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
121499300 TACCCT
1 TACCCT
121499306 TGACTTTCTA
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
26 24 0.21
27 92 0.79
28 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:121499196 original size:80 final size:80
Alignment explanation
Indices: 121498961--121499287 Score: 211
Period size: 80 Copynumber: 4.1 Consensus size: 80
121498951 TTTTACCCCC
* * * ** *
121498961 GATTTACATAATTACCGTTTTACCCTCGATTTACAGAATTACTG-TTTACCCTCGATTTAT-AAA
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GAAATACCCTCAATTTATAAAA
****
121499024 TTA-CGTTTTACCCTT
65 TTACCAAAATACCCTT
* ** *** * * *
121499039 GATTTATAGAATTACTGTTTTACCCTCGATTTAC-AAATTATCGTTTTACCGTCGATTTATAGAA
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CGAAATACCCTCAATTTATAAAA
* ***
121499103 TTACTATTTTACCCTT
65 TTACCAAAATACCCTT
* *
121499119 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC-AGAATACCCTCAATTTGTAAAA
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACGA-AATACCCTCAATTTATAAAA
*
121499183 TTACCAAAATACCCCTA
65 TTACCAAAATA-CCCTT
* *** * *** *
121499200 GTTTGTA-A-AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 GATT-TACAGAATTACCATTTTACC-CTCGATTTACAAAATTA-CGAAATACCCTCAATTTATAA
*
121499262 AATTACCAAAATACCCCT
63 AATTACCAAAATACCCTT
121499280 GATTTACA
1 GATTTACA
121499288 AAGTTACAGA
Statistics
Matches: 203, Mismatches: 34, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
77 6 0.03
78 47 0.23
79 7 0.03
80 92 0.45
81 48 0.24
82 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (80 bp):
GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACGAAATACCCTCAATTTATAAAAT
TACCAAAATACCCTT
Found at i:121499204 original size:27 final size:28
Alignment explanation
Indices: 121499153--121499279 Score: 156
Period size: 27 Copynumber: 4.7 Consensus size: 28
121499143 CTCGATTTAC
*
121499153 AAAATTA-CAGAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCTCAATTTGT
*
121499179 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTCAATTTGT
* **
121499206 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACCAAAATACCCCTCAATTTGT
* *
121499233 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCTCAATTTGT
121499260 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
121499280 GATTTACAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.12
27 68 0.79
28 8 0.09
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCTCAATTTGT
Found at i:121499300 original size:54 final size:54
Alignment explanation
Indices: 121499180--121499305 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 54
121499170 TCAATTTGTA
* * **
121499180 AAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGATTTGAC
* *
121499234 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-AC
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGAC
121499287 AAAGTTACAGAAATACCCT
1 AAA-TTACAGAAATACCCT
121499306 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
53 4 0.06
54 57 0.92
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGAC
Found at i:121499355 original size:27 final size:27
Alignment explanation
Indices: 121499316--121499367 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
121499306 TGACTTTCTA
121499316 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
121499343 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
121499368 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:121499485 original size:27 final size:27
Alignment explanation
Indices: 121499408--121499485 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
121499398 AAATGACTAA
* *
121499408 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
121499435 AA-AGCCCCTGTAAGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
121499462 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
121499486 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:121500736 original size:9 final size:9
Alignment explanation
Indices: 121500724--121500780 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
121500714 TTTGATAAAC
121500724 ATGATATGT
1 ATGATATGT
*
121500733 ATGATATGCAC
1 ATGATATG--T
*
121500744 ATGACATGT
1 ATGATATGT
*
121500753 ATGATATGCAC
1 ATGATATG--T
121500764 ATGATATGT
1 ATGATATGT
121500773 ATGATATG
1 ATGATATG
121500781 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:121500747 original size:20 final size:20
Alignment explanation
Indices: 121500722--121500784 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
121500712 ATTTTGATAA
121500722 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
121500742 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
121500762 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
121500782 ACA
1 ACA
121500785 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:121500869 original size:23 final size:23
Alignment explanation
Indices: 121500842--121501100 Score: 412
Period size: 23 Copynumber: 11.0 Consensus size: 23
121500832 AAGTGAAAAA
*
121500842 GGCTTATGCCCCAGTTATCAAAG
1 GGCTTATGCCCCAGTTATTAAAG
*
121500865 GGCTTATGCCCCAGTTATAAAAG
1 GGCTTATGCCCCAGTTATTAAAG
*
121500888 GGCTTATGCCCCAGTTATCAAAAG
1 GGCTTATGCCCCAGTTAT-TAAAG
121500912 GGCTTATGCCCCAGTTATTAAAAG
1 GGCTTATGCCCCAGTTATT-AAAG
121500936 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
121500959 GGCTTATGCCCCAGTTATGATAAAG
1 GGCTTATGCCCCAGTTAT--TAAAG
121500984 GGCTTATGCCCCAGTTATGATAAAG
1 GGCTTATGCCCCAGTTAT--TAAAG
121501009 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
121501032 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
121501055 GGCTTATGCCCCAGTTATTAAAAAG
1 GGCTTATGCCCCAGTTATT--AAAG
121501080 GGCTT-TGCCCCAGTTATTAAA
1 GGCTTATGCCCCAGTTATTAAA
121501101 AGAGGCTAGG
Statistics
Matches: 228, Mismatches: 2, Indels: 13
0.94 0.01 0.05
Matches are distributed among these distances:
22 3 0.01
23 109 0.48
24 59 0.26
25 57 0.25
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
GGCTTATGCCCCAGTTATTAAAG
Found at i:121500951 original size:48 final size:47
Alignment explanation
Indices: 121500837--121501121 Score: 416
Period size: 48 Copynumber: 6.0 Consensus size: 47
121500827 GGAGGAAGTG
* *
121500837 AAAAAGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
121500883 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
121500931 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
121500978 ATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTAT-A-AAAGGGCTTATGCCCCAGTTATT
*
121501028 -AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
121501074 AAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
121501122 ATGATAAAGC
Statistics
Matches: 220, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
46 45 0.20
47 55 0.25
48 87 0.40
49 11 0.05
50 22 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:121501349 original size:31 final size:31
Alignment explanation
Indices: 121501314--121501377 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
121501304 CGTTTACAGT
*
121501314 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
121501345 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
121501376 AA
1 AA
121501378 TATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:121501376 original size:7 final size:7
Alignment explanation
Indices: 121501364--121501391 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
121501354 GGCCCAGTGT
121501364 TATGAAA
1 TATGAAA
121501371 TATGAAA
1 TATGAAA
121501378 TATGAAA
1 TATGAAA
121501385 TATGAAA
1 TATGAAA
121501392 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:121504209 original size:27 final size:28
Alignment explanation
Indices: 121504179--121504278 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 28
121504169 TTTAATTTAC
*
121504179 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
121504206 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
121504233 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
121504260 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
121504279 CCGATTTACA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 54 0.86
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTCGATTTG
Found at i:121504321 original size:54 final size:54
Alignment explanation
Indices: 121504274--121504511 Score: 316
Period size: 54 Copynumber: 4.4 Consensus size: 54
121504264 ATTACCAAAG
* * *
121504274 TACCCCCGATTTACAGAATTA-TCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACCGTTT
* *
121504328 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
* * *
121504382 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
* * * * * **
121504436 TACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
*
121504490 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
121504512 AGAGATACCC
Statistics
Matches: 162, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 161 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTT
Found at i:121504348 original size:81 final size:81
Alignment explanation
Indices: 121504274--121504511 Score: 334
Period size: 81 Copynumber: 2.9 Consensus size: 81
121504264 ATTACCAAAG
* * ** * *
121504274 TACCCCCGATTTACAGAATTA-TCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTATAGAATTACT-GTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGAT
* *
121504338 TTACAGAATTACTGTTT
65 TTACAAAATTACCGTTT
* *
121504355 TACCCTCGATTTATAAAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
*
121504420 TACAAAATTATCGTTT
66 TACAAAATTACCGTTT
* * *
121504436 TACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
121504501 TACAAAATTAC
66 TACAAAATTAC
121504512 AGAGATACCC
Statistics
Matches: 139, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 138 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:121504523 original size:27 final size:27
Alignment explanation
Indices: 121504274--121504513 Score: 254
Period size: 27 Copynumber: 8.9 Consensus size: 27
121504264 ATTACCAAAG
* *
121504274 TACCCCCGATTTACAGAATTATC-GTTT
1 TACCCTCGATTTACAAAATTA-CAGTTT
* * *
121504301 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACAGTTT
* *
121504328 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACAGTTT
* *
121504355 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACAGTTT
* * * *
121504382 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACAGTTT
121504409 TACCCTCGATTTACAAAATTATC-GTTT
1 TACCCTCGATTTACAAAATTA-CAGTTT
* * *
121504436 TACCGTCGATTTATAGAATTACTA-TTT
1 TACCCTCGATTTACAAAATTAC-AGTTT
* *
121504463 TACCCTTGATTTACAGAATTACTA-TTT
1 TACCCTCGATTTACAAAATTAC-AGTTT
121504490 TACCCTCGATTTACAAAATTACAG
1 TACCCTCGATTTACAAAATTACAG
121504514 AGATACCCTC
Statistics
Matches: 189, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 185 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACAGTTT
Found at i:121504537 original size:81 final size:80
Alignment explanation
Indices: 121504298--121504538 Score: 320
Period size: 81 Copynumber: 3.0 Consensus size: 80
121504288 AGAATTATCG
** * * *
121504298 TTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCG
1 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC-GTTTTACCCTCG
*
121504363 ATTTATAAAATTACTG
65 ATTTATAAAATTACTA
* *
121504379 TTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCG
1 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA-CGTTTTACCCTCG
*
121504444 ATTTATAGAATTACTA
65 ATTTATAAAATTACTA
* *** *
121504460 TTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAGATACCCTCA
1 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC-GTTTTACCCTCG
*
121504525 ATTTGTAAAATTAC
65 ATTTATAAAATTAC
121504539 CAAAATACCC
Statistics
Matches: 140, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 138 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (80 bp):
TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACGTTTTACCCTCGA
TTTATAAAATTACTA
Found at i:121504546 original size:27 final size:27
Alignment explanation
Indices: 121504490--121504629 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
121504480 ATTACTATTT
* ** *
121504490 TACCCTCGATTTACAAAATTA-CAGAGA
1 TACCCTCAATTTGTAAAATTACCA-AAA
121504517 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
121504544 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAA
** * *
121504571 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCAATTTGTAAAATTACCAAAA
121504598 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
121504625 TACCC
1 TACCC
121504630 CTGATTTACA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:121504548 original size:81 final size:80
Alignment explanation
Indices: 121504308--121504639 Score: 238
Period size: 81 Copynumber: 4.1 Consensus size: 80
121504298 TTTTACCCCC
* * * * * *
121504308 GATTTACATAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAA
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GATATACCCTCAATTTATAAAA
*****
121504373 TTACTGTTTTACCCTT
65 TTACCAAAATACCCTT
* ** * * * * *
121504389 GATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAA
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CGATATACCCTCAATTTATAAAA
* ***
121504454 TTACTATTTTACCCTT
65 TTACCAAAATACCCTT
* * *
121504470 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAGATACCCTCAATTTGTAAAA
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GATATACCCTCAATTTATAAAA
*
121504535 TTACCAAAATACCCCTA
65 TTACCAAAATA-CCCTT
* *** * *** * *
121504552 GTTTGTA-A-AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 GATT-TACAGAATTACCATTTTACC-CTCGATTTACAAAATTA-CGATATACCCTCAATTTATAA
*
121504614 AATTACCAAAATACCCCT
63 AATTACCAAAATACCCTT
121504632 GATTTACA
1 GATTTACA
121504640 AAGTTACAGA
Statistics
Matches: 210, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.01
80 8 0.04
81 186 0.89
82 12 0.06
83 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (80 bp):
GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACGATATACCCTCAATTTATAAAAT
TACCAAAATACCCTT
Done.