Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 86 of 349
Found at i:25613323 original size:149 final size:151
Alignment explanation
Indices: 25613006--25613312 Score: 528
Period size: 149 Copynumber: 2.0 Consensus size: 151
25612996 TGGCTTCTTA
25613006 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCGAATATTATTGAGTTTGATT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCGAATATTATTGAGTTTGATT
* * *
25613071 ACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTCTTTTCTTTGTCTTCTAGAGTTGTTTATT
66 ACTCTTTAAAAGTTACAAGTGAGAAAATCTCAACTTCTTTTCCTTGTCTCCTAGAGTTGTTTATT
25613136 TTATTGCAAGTGCATAACGAC
131 TTATTGCAAGTGCATAACGAC
*
25613157 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCATATC-TTTTCGAATATTATTGAGTTTGATT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCGAATATTATTGAGTTTGATT
25613221 ACTCTTTAAAAGTTACAAGTGAG-AAATCTCAACTTCTTTTCCTTGTCTCCTAGAGTTGTTTATT
66 ACTCTTTAAAAGTTACAAGTGAGAAAATCTCAACTTCTTTTCCTTGTCTCCTAGAGTTGTTTATT
** * *
25613285 TTATTGTGAGTGCATAATGGC
131 TTATTGCAAGTGCATAACGAC
25613306 GAGCCTT
1 GAGCCTT
25613313 GGTTTTACTT
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
149 62 0.42
150 48 0.32
151 38 0.26
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (151 bp):
GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCGAATATTATTGAGTTTGATT
ACTCTTTAAAAGTTACAAGTGAGAAAATCTCAACTTCTTTTCCTTGTCTCCTAGAGTTGTTTATT
TTATTGCAAGTGCATAACGAC
Found at i:25616136 original size:26 final size:26
Alignment explanation
Indices: 25616102--25616189 Score: 151
Period size: 26 Copynumber: 3.4 Consensus size: 26
25616092 GAATTTTCTT
*
25616102 AAAATTTTACCAGGGGTAAAAAT-GTT
1 AAAATTTTACCAGGGGT-AAAATCGTC
25616128 AAAATTTTACCAGGGGTAAAATCGTC
1 AAAATTTTACCAGGGGTAAAATCGTC
25616154 AAAATTTTACCAGGGGTAAAATCGTC
1 AAAATTTTACCAGGGGTAAAATCGTC
25616180 AAAATTTTAC
1 AAAATTTTAC
25616190 TAGGCTAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 5 0.08
26 55 0.92
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAGGGGTAAAATCGTC
Found at i:25616690 original size:53 final size:53
Alignment explanation
Indices: 25616629--25616735 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
25616619 CCCTAAAAGG
*
25616629 AATGTTTTTTCTAGTTTTGTGTTTTGATTTAATTGGTTCGAACCCATACTTGA
1 AATGTTTTTTCTAGTTCTGTGTTTTGATTTAATTGGTTCGAACCCATACTTGA
25616682 AATGTTTTTTCTAGTTCTGTGTTTTGATTTAATTGGTTCGAACCCATACTTGA
1 AATGTTTTTTCTAGTTCTGTGTTTTGATTTAATTGGTTCGAACCCATACTTGA
25616735 A
1 A
25616736 GCAGTTTGTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (53 bp):
AATGTTTTTTCTAGTTCTGTGTTTTGATTTAATTGGTTCGAACCCATACTTGA
Found at i:25620329 original size:15 final size:13
Alignment explanation
Indices: 25620289--25620335 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 13
25620279 AATTTAGCCA
25620289 TTTTTATATTTATAT
1 TTTTTA-ATTTA-AT
25620304 TTTTTAATTTAAT
1 TTTTTAATTTAAT
25620317 TTTTTACATTTTAAT
1 TTTTTA-A-TTTAAT
25620332 TTTT
1 TTTT
25620336 CATTTGTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.27
14 6 0.20
15 16 0.53
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTAAT
Found at i:25620759 original size:20 final size:20
Alignment explanation
Indices: 25620727--25620766 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25620717 CCAAATACTC
*
25620727 ATTTGGCTAACTTTTTAGAT
1 ATTTGGCTAACTTTTAAGAT
25620747 ATTT-GCTACACTTTTAAGAT
1 ATTTGGCTA-ACTTTTAAGAT
25620767 TAATGGCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTTGGCTAACTTTTAAGAT
Found at i:25629460 original size:39 final size:39
Alignment explanation
Indices: 25629406--25629740 Score: 451
Period size: 39 Copynumber: 8.5 Consensus size: 39
25629396 TAATGGAGAA
* *
25629406 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCGGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
25629445 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
25629484 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
25629523 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
25629562 TTATATCCAGGTTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
25629601 TTATATCCGGGTTAAG-CCCAGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGGTG
* * *
25629640 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
25629679 TTATATCCGGGCTAAAGTCCTGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
25629718 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
25629741 CATGCTTTGT
Statistics
Matches: 278, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
38 3 0.01
39 255 0.92
40 17 0.06
41 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:25633834 original size:51 final size:51
Alignment explanation
Indices: 25633749--25633873 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 51
25633739 CGGATACTCG
* *
25633749 GTGGCCTGT-ACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTT-CAAAAA
1 GTGGCCT-TCACATAGTACCACACTTGTAGTCAAAGCTACATT-TTACAAAAA
* * * *
25633800 GTGGCCTTCACATAGTACCACATTTGT-GTCCAAAGCTATATTTTACACATA
1 GTGGCCTTCACATAGTACCACACTTGTAGT-CAAAGCTACATTTTACAAAAA
* *
25633851 GTGGCCTGCACTTAGTACCACAC
1 GTGGCCTTCACATAGTACCACAC
25633874 ATGTGATCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
50 5 0.08
51 57 0.92
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACATTTTACAAAAA
Found at i:25633887 original size:51 final size:51
Alignment explanation
Indices: 25633803--25633980 Score: 153
Period size: 51 Copynumber: 3.5 Consensus size: 51
25633793 TCAAAAAGTG
* * ** * ** *
25633803 GCCTTCACATAGTACCACATTTGTG-TCCAAAGCTATATTTTACACATAGTG
1 GCCTGCACTTAGTACCACACATGTGAT-CAAAGCTATCTGGTACACATAGTA
* * *
25633854 GCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTA
1 GCCTGCACTTAGTACCACACATGTGATCAAAGCTATCTGGTACACATAGTA
** * * * * *
25633905 GCCTGCACTTAGTATTACACATGCGACCTAA-CCATCTGGTACACGTAGTA
1 GCCTGCACTTAGTACCACACATGTGATCAAAGCTATCTGGTACACATAGTA
* *
25633955 GCCTGCACTTAGTACTACACACGTGA
1 GCCTGCACTTAGTACCACACATGTGA
25633981 CCTAAAACCA
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
50 38 0.37
51 64 0.62
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (51 bp):
GCCTGCACTTAGTACCACACATGTGATCAAAGCTATCTGGTACACATAGTA
Found at i:25633965 original size:50 final size:51
Alignment explanation
Indices: 25633843--25633985 Score: 180
Period size: 50 Copynumber: 2.8 Consensus size: 51
25633833 AGCTATATTT
* * * * *
25633843 TACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGG
* * * *
25633894 TACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAA-CCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGG
* *
25633944 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
25633986 AACCATTTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 43 0.55
51 35 0.45
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGG
Found at i:25634012 original size:52 final size:50
Alignment explanation
Indices: 25633844--25634014 Score: 144
Period size: 50 Copynumber: 3.4 Consensus size: 50
25633834 GCTATATTTT
* * * * * * * * **
25633844 ACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CCATCTGAA
* * * **
25633895 ACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAACCATCTGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGAA
* * * *
25633945 ACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACCATCTGAA
25633997 ACACATAGTAGCCTGCAC
1 ACACATAGTAGCCTGCAC
25634015 ATGTGTTCTC
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 41 0.41
51 34 0.34
52 24 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
ACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGAA
Found at i:25639780 original size:52 final size:50
Alignment explanation
Indices: 25639666--25639782 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
25639656 ATCGGGTATG
* **
25639666 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGAAACA
* * * * *
25639716 CGTAGTAGCCTGCACTTAGTACTGCACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACCATCTGAAACA
25639768 CATAGTAGCCTGCAC
1 CATAGTAGCCTGCAC
25639783 ATGTGTTCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 32 0.57
52 24 0.43
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGAAACA
Found at i:25642841 original size:29 final size:29
Alignment explanation
Indices: 25642748--25642842 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 29
25642738 TCAATTTTGC
**
25642748 CTTAAAGAGGCGAATTATATAAAGTCCAT
1 CTTAAAGAGATGAATTATATAAAGTCCAT
* **
25642777 TTTAAAGAGGCATG-ATTATCA-AATTTCC--
1 CTTAAAGA-G-ATGAATTAT-ATAAAGTCCAT
*
25642805 CTCAAAGAGATGAATTATATAAAGTCCAT
1 CTTAAAGAGATGAATTATATAAAGTCCAT
*
25642834 GTTAAAGAG
1 CTTAAAGAG
25642843 GTATGATTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
26 4 0.08
27 11 0.23
28 6 0.12
29 14 0.29
30 11 0.23
31 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (29 bp):
CTTAAAGAGATGAATTATATAAAGTCCAT
Found at i:25643045 original size:224 final size:221
Alignment explanation
Indices: 25642582--25643062 Score: 554
Period size: 224 Copynumber: 2.2 Consensus size: 221
25642572 CCACTTAAAA
* * *
25642582 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAGAAAGATGTGACTATCAGCTTTGCCTTAAAG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTA-AAAGATATGACTATCAGATTCGCCTTAAAG
* * * * * *
25642647 AAGTGAATTATTCCATCTTAAAGAGGTGTGACTATCAACTTCACCTTAAAGAGGTGAATTCTATA
65 AAGTGAATAAGTCCATCTTAAAGAGGTGAGACTATCAACTTCACCTTAAAAAGGTGAACTATATA
* * *
25642712 AAGTACATCTTAAAAAGGCGTGACTATCAATTTTGCCTTAAAGAGGCGAATTATATAAAGTCCAT
130 AAGTACATCTTAAAAAGGCATGACTATCAACTTTGCCTTAAAGAGGCGAATTATATAAAGTCCAA
* * *
25642777 TTTAAAGAGGCATGATTATCAAATTTC
195 GTTAAAGAGGCATGACTATCAAACTTC
* * * * *
25642804 CCTCAAAGAGATGAATTATATAAAGTCCATGTTAAAGAGGTATGATTATC-GATGTCGCCTTAAA
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AGATATGACTATCAGAT-TCGCCTTAAA
* * * * *
25642868 GAGGTGATATAAAGTCCATCTT-AAGGGGCTGAGATTATCAACTTTACTTTAAAAAGGTGAACTA
64 GAAGTGA-AT-AAGTCCATCTTAAAGAGG-TGAGACTATCAACTTCACCTTAAAAAGGTGAACTA
* * * *
25642932 TATAAAGTCCATCTTAAAGAGGCATGACTATCAACTTTGCCTTAAAGAGGTGAATTATATAGAGT
126 TATAAAGTACATCTTAAAAAGGCATGACTATCAACTTTGCCTTAAAGAGGCGAATTATATAAAGT
* ** * *
25642997 CCAAGTTAAAGATGTGTGACTAT-TAGCTTC
191 CCAAGTTAAAGAGGCATGACTATCAAACTTC
* *
25643027 ACTTTAAATAGGTGAATTATATAAAGTCCATCTTAA
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAA
25643063 GGAAGTGTGA
Statistics
Matches: 214, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
221 4 0.02
222 56 0.26
223 11 0.05
224 143 0.67
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (221 bp):
CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAAGATATGACTATCAGATTCGCCTTAAAGA
AGTGAATAAGTCCATCTTAAAGAGGTGAGACTATCAACTTCACCTTAAAAAGGTGAACTATATAA
AGTACATCTTAAAAAGGCATGACTATCAACTTTGCCTTAAAGAGGCGAATTATATAAAGTCCAAG
TTAAAGAGGCATGACTATCAAACTTC
Found at i:25643071 original size:57 final size:57
Alignment explanation
Indices: 25642582--25643095 Score: 455
Period size: 57 Copynumber: 9.2 Consensus size: 57
25642572 CCACTTAAAA
* * *
25642582 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAGAA-AGATGTGACTATCAGCTTTG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTA-AAGAGGTGTGACTATCAACTTCG
* *
25642639 CCTTAAAGAAGTGAA-T-TAT----TCCATCTTAAAGAGGTGTGACTATCAACTTCA
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTCG
* * * * * *
25642690 CCTTAAAGAGGTGAATTCTATAAAGTACATCTTAAAAAGGCGTGACTATCAATTTTG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTCG
* * ** * *
25642747 CCTTAAAGAGGCGAATTATATAAAGTCCATTTTAAAGAGGCATGATTATCAAATTTC-
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATC-AACTTCG
* * * * * *
25642804 CCTCAAAGAGATGAATTATATAAAGTCCATGTTAAAGAGGTATGATTATCGA-TGTCG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACT-TCG
* * * **
25642861 CCTTAAAGAGGTG----ATATAAAGTCCATCTT-AAGGGGCTGAGATTATCAACTTTA
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGG-TGTGACTATCAACTTCG
* * * ** *
25642914 CTTTAAAAAGGTGAACTATATAAAGTCCATCTTAAAGAGGCATGACTATCAACTTTG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTCG
* ** * * * *
25642971 CCTTAAAGAGGTGAATTATATAGAGTCCAAGTTAAAGATGTGTGACTATTAGCTTCA
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTCG
* * * * **
25643028 CTTTAAATAGGTGAATTATATAAAGTCCATCTTAAGGAAGTGTGAC-ATCATTTTCG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTCG
*
25643084 TCTTAAAGAGGT
1 CCTTAAAGAGGT
25643096 AAATCATCCT
Statistics
Matches: 370, Mismatches: 70, Indels: 35
0.78 0.15 0.07
Matches are distributed among these distances:
50 2 0.01
51 39 0.11
52 6 0.02
53 39 0.11
54 1 0.00
55 4 0.01
56 19 0.05
57 250 0.68
58 10 0.03
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (57 bp):
CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTCG
Found at i:25643922 original size:35 final size:35
Alignment explanation
Indices: 25643875--25643948 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
25643865 CTGGTTTTTC
25643875 GGGGTGACACCATGTAAATGATATACAGGTCCTTT
1 GGGGTGACACCATGTAAATGATATACAGGTCCTTT
* *
25643910 GGGGTGATACCATGTAAATGGTATACAGGTCCTTT
1 GGGGTGACACCATGTAAATGATATACAGGTCCTTT
25643945 GGGG
1 GGGG
25643949 CGAAATTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (35 bp):
GGGGTGACACCATGTAAATGATATACAGGTCCTTT
Found at i:25643961 original size:35 final size:35
Alignment explanation
Indices: 25643883--25643971 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
25643873 TCGGGGTGAC
* * *
25643883 ACCATGTAAATGATATACAGGTCCTTTGGGGTGAT
1 ACCATGTAAATGGTATACAGGTCCTTTGGGGCGAA
25643918 ACCATGTAAATGGTATACAGGTCCTTTGGGGCGAA
1 ACCATGTAAATGGTATACAGGTCCTTTGGGGCGAA
***
25643953 ATTGTGTAAATGGTATACA
1 ACCATGTAAATGGTATACA
25643972 TGTAAAATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (35 bp):
ACCATGTAAATGGTATACAGGTCCTTTGGGGCGAA
Found at i:25645630 original size:14 final size:14
Alignment explanation
Indices: 25645611--25645639 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25645601 ATAAGTCTAT
25645611 AATCAAGGATGTAC
1 AATCAAGGATGTAC
25645625 AATCAAGGATGTAC
1 AATCAAGGATGTAC
25645639 A
1 A
25645640 TACTCGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (14 bp):
AATCAAGGATGTAC
Found at i:25652628 original size:24 final size:24
Alignment explanation
Indices: 25652585--25652636 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
25652575 CACAAACGCA
*
25652585 GCTCTTCATAAGCGTCCTGATATAG
1 GCTCTTCATAAGCGTCCTGACAT-G
* *
25652610 GCTCTT-ATGAGCTTCCTGACATG
1 GCTCTTCATAAGCGTCCTGACATG
25652633 GCTC
1 GCTC
25652637 GCTTGAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (24 bp):
GCTCTTCATAAGCGTCCTGACATG
Found at i:25654428 original size:21 final size:21
Alignment explanation
Indices: 25654402--25654466 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
25654392 GTAGCTTGGT
* *
25654402 CACACGGGCATGTGTCTCTTC
1 CACACGGGCACGTGTCTCCTC
*
25654423 CACACGGGTACGTGTCTCCTC
1 CACACGGGCACGTGTCTCCTC
* **
25654444 TACACGGGTGCGTGTCTCCTC
1 CACACGGGCACGTGTCTCCTC
25654465 CA
1 CA
25654467 TATGGGCGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.14, C:0.35, G:0.25, T:0.26
Consensus pattern (21 bp):
CACACGGGCACGTGTCTCCTC
Found at i:25655056 original size:37 final size:37
Alignment explanation
Indices: 25654992--25655074 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 37
25654982 GACCCATTAC
*
25654992 GTGGTGTGTAGGGTGGATGTGTCTATCATGGTCCTAT-
1 GTGGTGTGTAGGGTGGATGTGTCTATCATAG-CCTATA
25655029 GTGGTGTGTAGGGTGGATAG-G-CTTATCATAGCCTATAA
1 GTGGTGTGTAGGGTGGAT-GTGTC-TATCATAGCCTAT-A
25655067 GTGGTGTG
1 GTGGTGTG
25655075 CAAGGTGATC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
36 6 0.15
37 26 0.63
38 9 0.22
ACGTcount: A:0.17, C:0.10, G:0.39, T:0.35
Consensus pattern (37 bp):
GTGGTGTGTAGGGTGGATGTGTCTATCATAGCCTATA
Found at i:25657348 original size:22 final size:22
Alignment explanation
Indices: 25657323--25657370 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
25657313 ATCGTGTATA
*
25657323 TAAATAT-AAGCAAATTAAAACT
1 TAAATATAAAACAAA-TAAAACT
*
25657345 TAAA-ATAAAACGAATAAAACT
1 TAAATATAAAACAAATAAAACT
25657366 TAAAT
1 TAAAT
25657371 CAAAATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (22 bp):
TAAATATAAAACAAATAAAACT
Found at i:25662161 original size:30 final size:30
Alignment explanation
Indices: 25662126--25662202 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 30
25662116 GTTATATTTT
25662126 GTCTTTTTATTTAAAATATAATAA-AAATTA
1 GTCTTTTTATTTAAAATA-AATAACAAATTA
* * * *
25662156 GTCTTTATAAGTTAGACTAAATAACAAATTA
1 GTCTTT-TTATTTAAAATAAATAACAAATTA
*
25662187 GT-TTTTTATTAAAAAT
1 GTCTTTTTATTTAAAAT
25662203 TTCATCTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
29 6 0.17
30 14 0.39
31 16 0.44
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (30 bp):
GTCTTTTTATTTAAAATAAATAACAAATTA
Found at i:25671672 original size:24 final size:24
Alignment explanation
Indices: 25671644--25671691 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
25671634 ATGATAACTT
25671644 ATCCAAGCTCTTTAGAACAATATG
1 ATCCAAGCTCTTTAGAACAATATG
*
25671668 ATCCAAGCTTTTTAGAACAATATG
1 ATCCAAGCTCTTTAGAACAATATG
25671692 TAATTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (24 bp):
ATCCAAGCTCTTTAGAACAATATG
Found at i:25673782 original size:49 final size:49
Alignment explanation
Indices: 25673710--25673809 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
25673700 ACAGTATGGG
25673710 AAAACATTCAATACCATGAAAGGAATCGTTCCGTTTGCATTAAGCTCTA
1 AAAACATTCAATACCATGAAAGGAATCGTTCCGTTTGCATTAAGCTCTA
* * *
25673759 AAAACATTCAATACCGTGAAAGGAATCGTTCTGTTTTCATTAAGCTCTA
1 AAAACATTCAATACCATGAAAGGAATCGTTCCGTTTGCATTAAGCTCTA
25673808 AA
1 AA
25673810 GTAACAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (49 bp):
AAAACATTCAATACCATGAAAGGAATCGTTCCGTTTGCATTAAGCTCTA
Found at i:25679248 original size:24 final size:24
Alignment explanation
Indices: 25679219--25679264 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
25679209 TTAATCTTTA
25679219 TTTATTTCTTTATTAATTATTTTC
1 TTTATTTCTTTATTAATTATTTTC
*
25679243 TTTATTTCTTTATTATTTATTT
1 TTTATTTCTTTATTAATTATTT
25679265 GTTATTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTATTTCTTTATTAATTATTTTC
Found at i:25679681 original size:21 final size:21
Alignment explanation
Indices: 25679657--25679704 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
25679647 TTGTCTTTTT
25679657 TTTTTCTTTATTTGACCACTA
1 TTTTTCTTTATTTGACCACTA
*
25679678 TTTTTCTTTGTTTGACCACTA
1 TTTTTCTTTATTTGACCACTA
25679699 TTTTTC
1 TTTTTC
25679705 AGGCATACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTTTCTTTATTTGACCACTA
Found at i:25680966 original size:6 final size:6
Alignment explanation
Indices: 25680951--25681013 Score: 92
Period size: 6 Copynumber: 10.7 Consensus size: 6
25680941 CCATTTATCA
* *
25680951 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATG TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
25680998 TTTATT ATTATT TTTA
1 TTTATT TTTATT TTTA
25681014 GACTTCTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 4 0.08
6 49 0.92
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:25681406 original size:17 final size:17
Alignment explanation
Indices: 25681373--25681406 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25681363 ATTAAAATGA
*
25681373 ATTTTTATCGATTTGTT
1 ATTTTTATCGATATGTT
*
25681390 ATTTTTATTGATATGTT
1 ATTTTTATCGATATGTT
25681407 TTAGATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (17 bp):
ATTTTTATCGATATGTT
Found at i:25682885 original size:17 final size:16
Alignment explanation
Indices: 25682855--25682889 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
25682845 CCACACGGGC
*
25682855 TGAGCACATGCCCATG
1 TGAGCACATACCCATG
25682871 TGAGCCACATACCCATG
1 TGAG-CACATACCCATG
25682888 TG
1 TG
25682890 CCAGCCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (16 bp):
TGAGCACATACCCATG
Found at i:25700861 original size:26 final size:27
Alignment explanation
Indices: 25700832--25700898 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
25700822 TTAATAAAAA
* *
25700832 TAATAATAAATAAT-TTAATTATATTT
1 TAATAATAAATAATATTAAATATAATT
* *
25700858 TAAT-ATAATTATTATTAAATATAATT
1 TAATAATAAATAATATTAAATATAATT
25700884 TAATAA-AAATAATAT
1 TAATAATAAATAATAT
25700899 ATAATTTAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 7 0.21
26 25 0.76
27 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATAATAAATAATATTAAATATAATT
Found at i:25700868 original size:61 final size:58
Alignment explanation
Indices: 25700788--25700927 Score: 190
Period size: 61 Copynumber: 2.3 Consensus size: 58
25700778 GATTATTTTT
* ** *
25700788 ATTAAATTTTAATCGAATTATTATTAAATATGATTTAATAAAAATAATAATAAATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAT-AT--ATAATTTA
25700849 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
* *
25700907 GTAATATTCTTAATATAATTA
1 ATTATATT-TTAATATAATTA
25700928 CTTTTATATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 14 0.19
59 12 0.17
60 2 0.03
61 44 0.61
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (58 bp):
ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
Found at i:25700878 original size:16 final size:16
Alignment explanation
Indices: 25700803--25700883 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
25700793 ATTTTAATCG
25700803 AATTATTATTAAATAT
1 AATTATTATTAAATAT
* * *
25700819 GA-T-TTAATAAAAAT
1 AATTATTATTAAATAT
* * * *
25700833 AATAATAAAT-AATTT
1 AATTATTATTAAATAT
*
25700848 AATTA-TATTTTAATAT
1 AATTATTA-TTAAATAT
25700864 AATTATTATTAAATAT
1 AATTATTATTAAATAT
25700880 AATT
1 AATT
25700884 TAATAAAAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
14 11 0.23
15 9 0.19
16 25 0.53
17 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
AATTATTATTAAATAT
Found at i:25700954 original size:32 final size:31
Alignment explanation
Indices: 25700918--25700985 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 31
25700908 TAATATTCTT
*
25700918 AATATAATTACTTTTATATTAAATTATATTAA
1 AATATAATTACTTTTATATTAAAATAT-TTAA
** *
25700950 AATATTTTTATTTTTATATTAAAATATTTAA
1 AATATAATTACTTTTATATTAAAATATTTAA
25700981 AATAT
1 AATAT
25700986 TTTATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
AATATAATTACTTTTATATTAAAATATTTAA
Found at i:25700989 original size:30 final size:32
Alignment explanation
Indices: 25700929--25700992 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
25700919 ATATAATTAC
*
25700929 TTTTATATTAAATTATATTAAAATATTTTTAT
1 TTTTATATTAAAATATATTAAAATATTTTTAT
25700961 TTTTATATTAAAATAT-TTAAAATA-TTTTAT
1 TTTTATATTAAAATATATTAAAATATTTTTAT
25700991 TT
1 TT
25700993 AATACATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 8 0.26
31 8 0.26
32 15 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTATATTAAAATATATTAAAATATTTTTAT
Found at i:25701004 original size:24 final size:24
Alignment explanation
Indices: 25700941--25701008 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 24
25700931 TTATATTAAA
**
25700941 TTATATTAAAATATTT-TTAT-TT
1 TTATATTAAAATATTTAAAATATT
25700963 TTATATTAAAATATTTAAAATATT
1 TTATATTAAAATATTTAAAATATT
25700987 TTAT-TTAATACATA-TTAAAATA
1 TTATATTAA-A-ATATTTAAAATA
25701009 ATGAAATATC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
22 16 0.40
23 6 0.15
24 15 0.38
25 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATATTAAAATATTTAAAATATT
Found at i:25704970 original size:43 final size:43
Alignment explanation
Indices: 25704902--25705065 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
25704892 AAAGCTCGTA
* *
25704902 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
* *
25704945 CAATGCC-ACTGTCCTAGACAG-GGTCTTACACGAAATCAAAT-G
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATAT
* * * * * *
25704987 CGATGCCGATGTCCCCA-ACATGGTCTTACACTTAAATCTCAA-AT
1 CAATGCCAACGT-CCCAGACGTGGTCTTACAC-GAAATC-AAATAT
* *
25705031 CGATGCCAACGTCCCAGACGTGGTCTTACAAGAAA
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAA
25705066 ACACATATTG
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 22 0.23
43 49 0.51
44 25 0.26
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
Found at i:25708128 original size:35 final size:37
Alignment explanation
Indices: 25708056--25708140 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 37
25708046 AGATTTTTAA
* *
25708056 AATTTTAATAATTTTTTAATTCTATAATTATTCTTTT
1 AATTTTTAGAATTTTTTAATTCTATAATTATTCTTTT
*
25708093 ATATTTTTA-AATTTTTT-ATT-TATAATGT-TTTTTTT
1 A-ATTTTTAGAATTTTTTAATTCTATAAT-TATTCTTTT
25708128 AATTTTTAGAATT
1 AATTTTTAGAATT
25708141 AGGATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
34 7 0.16
35 17 0.40
36 4 0.09
37 9 0.21
38 6 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (37 bp):
AATTTTTAGAATTTTTTAATTCTATAATTATTCTTTT
Found at i:25723233 original size:31 final size:31
Alignment explanation
Indices: 25723198--25723257 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
25723188 AAAAAAAATT
*
25723198 AATAGACTAGTGATTTAAAAAAAAACTTTTG
1 AATAGACTAGTGAATTAAAAAAAAACTTTTG
** *
25723229 AATAGTTTAGTGAATTAAATAAAAACTTT
1 AATAGACTAGTGAATTAAAAAAAAACTTT
25723258 CAAATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (31 bp):
AATAGACTAGTGAATTAAAAAAAAACTTTTG
Found at i:25723269 original size:31 final size:31
Alignment explanation
Indices: 25723205--25723270 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
25723195 ATTAATAGAC
* ** *
25723205 TAGTGATTTAAAAAAAAACTTTTGAATAGTT
1 TAGTGAATTAAAAAAAAACTTTCAAATAATT
*
25723236 TAGTGAATTAAATAAAAACTTTCAAATAATT
1 TAGTGAATTAAAAAAAAACTTTCAAATAATT
25723267 TAGT
1 TAGT
25723271 AATCATTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.38
Consensus pattern (31 bp):
TAGTGAATTAAAAAAAAACTTTCAAATAATT
Found at i:25723431 original size:33 final size:33
Alignment explanation
Indices: 25723389--25723451 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
25723379 GTCACTTAAC
25723389 AATTAGATTTAGGTTTAATTGTTTGTAATTACA
1 AATTAGATTTAGGTTTAATTGTTTGTAATTACA
* *
25723422 AATTAGATTTGGGTTTACTTGTTTGTAATT
1 AATTAGATTTAGGTTTAATTGTTTGTAATT
25723452 GAAAGATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (33 bp):
AATTAGATTTAGGTTTAATTGTTTGTAATTACA
Found at i:25752841 original size:13 final size:13
Alignment explanation
Indices: 25752819--25752851 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25752809 AAGGATTTGT
25752819 TTAT-TAAACTAA
1 TTATCTAAACTAA
25752831 TTATCTAAACTAA
1 TTATCTAAACTAA
*
25752844 TTAACTAA
1 TTATCTAA
25752852 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:25755831 original size:25 final size:25
Alignment explanation
Indices: 25755738--25755829 Score: 75
Period size: 26 Copynumber: 3.7 Consensus size: 25
25755728 TATGTTTTTC
* * *
25755738 AAAATAAAATAATAAAATTGAAA-TG
1 AAAATAAAATAAAAAAAAT-AAAGTA
* *
25755763 AAAATAAAAATCAAAAGAA-AAAG-A
1 AAAAT-AAAATAAAAAAAATAAAGTA
25755787 AAAAT-AAATAAAATAAAATAAAGTA
1 AAAATAAAATAAAA-AAAATAAAGTA
25755812 AAAATAAGAATAAAAAAA
1 AAAATAA-AATAAAAAAA
25755830 TAGGAGGATT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
22 7 0.13
23 3 0.06
24 12 0.23
25 11 0.21
26 13 0.25
27 7 0.13
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (25 bp):
AAAATAAAATAAAAAAAATAAAGTA
Found at i:25760557 original size:29 final size:29
Alignment explanation
Indices: 25760510--25760702 Score: 149
Period size: 29 Copynumber: 6.5 Consensus size: 29
25760500 CATGAGATTG
*
25760510 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATA
* * *
25760539 GCACTAAGTGTGCAAGTTTGATTATATAGCAGATTG
1 GCACTAAGTGTGCGAGTTT-A--A-ATTGC--A-TA
*
25760575 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATA
* * **
25760604 GCACTAAGTGTGCAAGTTT-GATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATA
* * *
25760632 GCACTAAGTGTGCGAGTTTGATTATGTA-A
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATA
* **
25760661 GCACTAAGTGTGCGAGTTT-GATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATA
*
25760689 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
25760703 GACTTACTAT
Statistics
Matches: 133, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.02
28 39 0.29
29 56 0.42
30 5 0.04
32 5 0.04
33 5 0.04
35 2 0.02
36 18 0.14
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATA
Found at i:25760585 original size:65 final size:65
Alignment explanation
Indices: 25760504--25760634 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
25760494 TATGATCATG
25760504 AGATTGGCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGC
1 AGATTGGCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGC
25760569 AGATTGGCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGC
1 AGATTGGCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGC
25760634 A
1 A
25760635 CTAAGTGTGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (65 bp):
AGATTGGCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGC
Found at i:25760641 original size:28 final size:28
Alignment explanation
Indices: 25760575--25760702 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
25760565 TAGCAGATTG
* * **
25760575 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
25760604 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25760632 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
25760661 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25760689 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
25760703 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25760664 original size:57 final size:57
Alignment explanation
Indices: 25760575--25760702 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
25760565 TAGCAGATTG
*
25760575 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
25760632 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
25760689 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
25760703 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:25770880 original size:21 final size:21
Alignment explanation
Indices: 25770835--25770884 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
25770825 GGGTCTATAA
*
25770835 GCCCATGTGAAGGCTACACAC
1 GCCCATGTGAAGGCGACACAC
* * *
25770856 GCCCATGTGAAGGGGAGACAT
1 GCCCATGTGAAGGCGACACAC
25770877 GCCCATGT
1 GCCCATGT
25770885 AACTCACTGT
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:0.26, C:0.28, G:0.30, T:0.16
Consensus pattern (21 bp):
GCCCATGTGAAGGCGACACAC
Found at i:25771160 original size:17 final size:17
Alignment explanation
Indices: 25771138--25771173 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25771128 TCGAAATGAT
25771138 CCCTAACCATTGGTGAC
1 CCCTAACCATTGGTGAC
25771155 CCCTAACCATTGGTGAC
1 CCCTAACCATTGGTGAC
25771172 CC
1 CC
25771174 AGAATTATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (17 bp):
CCCTAACCATTGGTGAC
Found at i:25775295 original size:17 final size:16
Alignment explanation
Indices: 25775259--25775294 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
25775249 CTTTTAAAAC
25775259 AAAAATAATATAATAT
1 AAAAATAATATAATAT
25775275 AAAAATAA-ATAATAT
1 AAAAATAATATAATAT
25775290 AAAAA
1 AAAAA
25775295 ACGCTCATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATAATATAATAT
Found at i:25783491 original size:30 final size:30
Alignment explanation
Indices: 25783455--25783512 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
25783445 AAACTTTTTA
* *
25783455 TTTTCCCCCTAAATTTTTACTCCCTTCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCAC
*
25783485 TTTTCCCCCAAAACTTTTACTTCCTTCC
1 TTTTCCCCCAAAACTTTTACTCCCTTCC
25783513 CATCCCACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCAC
Found at i:25784084 original size:19 final size:19
Alignment explanation
Indices: 25784060--25784096 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25784050 AGGTAATAAA
*
25784060 AAATTTGATTACGGTGGGC
1 AAATTTGATTACGATGGGC
*
25784079 AAATTTTATTACGATGGG
1 AAATTTGATTACGATGGG
25784097 TGACAGTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
AAATTTGATTACGATGGGC
Found at i:25799975 original size:32 final size:32
Alignment explanation
Indices: 25799939--25800000 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
25799929 AGCTTTTGGT
25799939 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
* *
25799971 TTTTTCGTGTTGTCAAATAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
25800001 AAAATAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:25800811 original size:46 final size:44
Alignment explanation
Indices: 25800761--25800874 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
25800751 GACCAGAGCT
25800761 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGA-GATGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGG-CTAC-ATGATGT--GCC
* * *
25800807 AGTGTAAAACATGTCTGGGACATGCATTGGCTACATGATGTGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCTACATGATGTGCC
25800851 AGTGTAAGACCATGTTTGGGACAT
1 AGTGTAAGA-CATGTTTGGGACAT
25800875 TACATCGACC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 11 0.18
45 16 0.27
46 33 0.55
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCTACATGATGTGCC
Found at i:25806187 original size:40 final size:40
Alignment explanation
Indices: 25806125--25806381 Score: 328
Period size: 40 Copynumber: 6.5 Consensus size: 40
25806115 AAGCCAAGTA
* * * *
25806125 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
25806164 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACCAAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-CAAATG
25806204 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
*
25806244 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
25806284 CCTTCGGGACTTTGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
25806324 CCTTCGAGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
25806363 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25806382 TTATCATCCA
Statistics
Matches: 196, Mismatches: 14, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 52 0.27
40 138 0.70
41 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25807375 original size:47 final size:47
Alignment explanation
Indices: 25807307--25807469 Score: 142
Period size: 47 Copynumber: 3.5 Consensus size: 47
25807297 TTTCTGTGCT
* * * *
25807307 AGTGTATGACATGTCTAGGACATACATCGGCCACATT-ACGAGAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTGACGAGAGCA
* *
25807353 AGTGTAAGACCATGTCCGGGACATGGCAT---CAACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAACATT--GACGAGAGCA
* * * *
25807401 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA-TGATGTG-TC-
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTGACGAGAGCA
25807445 AGTGTAAGATCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
25807470 GCGTCGACTT
Statistics
Matches: 97, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.09
45 22 0.23
46 16 0.16
47 25 0.26
48 21 0.22
49 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTGACGAGAGCA
Found at i:25807506 original size:92 final size:93
Alignment explanation
Indices: 25807353--25807523 Score: 231
Period size: 92 Copynumber: 1.8 Consensus size: 93
25807343 TACGAGAGCA
* *
25807353 AGTGTAAGACCATGTCCGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCCGGGACATGGCATCAACATTGAGACGAGAGCCAATGTAAGACATGTCTG
25807418 GGACAT-GCATCGGCTACATGATGTGTC
66 GGACATGGCATCGGCTACATGATGTGTC
* * * * **
25807445 AGTGTAAGATCATGTCTGGGACATGGCGTCGAC-TT-AGTGTGAGAGCCAATGTAAGACCATGTC
1 AGTGTAAGACCATGTCCGGGACATGGCATCAACATTGAG-ACGAGAGCCAATGTAAGA-CATGTC
25807508 TGGGACATGGCATCGG
64 TGGGACATGGCATCGG
25807524 TATTATACCC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
90 2 0.03
91 16 0.24
92 43 0.63
93 7 0.10
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACCATGTCCGGGACATGGCATCAACATTGAGACGAGAGCCAATGTAAGACATGTCTG
GGACATGGCATCGGCTACATGATGTGTC
Found at i:25814088 original size:23 final size:23
Alignment explanation
Indices: 25814062--25814108 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25814052 CATTCTCTTG
*
25814062 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
25814085 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
25814108 T
1 T
25814109 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:25830942 original size:13 final size:13
Alignment explanation
Indices: 25830902--25830942 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
25830892 AAAGCACGAT
25830902 TCACACGGGCATG
1 TCACACGGGCATG
* *
25830915 TAACACAGGCATG
1 TCACACGGGCATG
*
25830928 TCACACGGGCGTG
1 TCACACGGGCATG
25830941 TC
1 TC
25830943 CCTGCCGAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.17
Consensus pattern (13 bp):
TCACACGGGCATG
Found at i:25837361 original size:93 final size:93
Alignment explanation
Indices: 25837249--25837419 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25837239 GCCCATAAGT
* *
25837249 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25837314 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
25837342 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25837407 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25837420 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25837416 original size:46 final size:46
Alignment explanation
Indices: 25837243--25837416 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
25837233 TAACCCGCCC
* * *
25837243 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
*
25837289 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCT
* * *
25837339 CT---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
*
25837382 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25837417 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.06
44 1 0.01
46 63 0.58
47 28 0.26
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
Found at i:25852950 original size:25 final size:25
Alignment explanation
Indices: 25852922--25852970 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
25852912 TGGGATAGAG
*
25852922 TTCCTGTTCTATTTGAGTCTCTAAT
1 TTCCTGGTCTATTTGAGTCTCTAAT
25852947 TTCCTGGTCTATTTGAGTCTCTAA
1 TTCCTGGTCTATTTGAGTCTCTAA
25852971 CTCACTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.49
Consensus pattern (25 bp):
TTCCTGGTCTATTTGAGTCTCTAAT
Found at i:25855917 original size:20 final size:20
Alignment explanation
Indices: 25855892--25855932 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25855882 AAGAATTAAG
*
25855892 AATGACGGTGTTCGTAAGAT
1 AATGACGGTGTCCGTAAGAT
25855912 AATGACGGTGTCCGTAAGAT
1 AATGACGGTGTCCGTAAGAT
25855932 A
1 A
25855933 TTTTGTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (20 bp):
AATGACGGTGTCCGTAAGAT
Found at i:25866567 original size:3 final size:3
Alignment explanation
Indices: 25866559--25866599 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25866549 ACAAGCTTTA
25866559 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25866600 AGAGTAATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25867040 original size:7 final size:7
Alignment explanation
Indices: 25867028--25867052 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25867018 GCATGACGAC
25867028 GTTGTTT
1 GTTGTTT
25867035 GTTGTTT
1 GTTGTTT
25867042 GTTGTTT
1 GTTGTTT
25867049 GTTG
1 GTTG
25867053 ATCAATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (7 bp):
GTTGTTT
Found at i:25871145 original size:16 final size:16
Alignment explanation
Indices: 25871107--25871182 Score: 89
Period size: 16 Copynumber: 4.4 Consensus size: 16
25871097 GATTAAACAT
*
25871107 AATTACTTTAATATTA
1 AATTAATTTAATATTA
25871123 AATTTAATTTAATATTA
1 AA-TTAATTTAATATTA
25871140 AATTAATTTAATATTA
1 AATTAATTTAATATTA
*
25871156 AGATAATCATTTTAATATTA
1 A-AT--T-AATTTAATATTA
25871176 AATTAAT
1 AATTAAT
25871183 AAAATACTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
16 19 0.37
17 18 0.35
19 3 0.06
20 12 0.23
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (16 bp):
AATTAATTTAATATTA
Found at i:25871181 original size:11 final size:11
Alignment explanation
Indices: 25871114--25871183 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
25871104 CATAATTACT
25871114 TTAATATTAAA
1 TTAATATTAAA
25871125 TTTAAT-TTAATA
1 -TTAATATTAA-A
*
25871137 TTAA-ATTAAT
1 TTAATATTAAA
25871147 TTAATATTAAGA
1 TTAATATTAA-A
25871159 -TAATCATT---
1 TTAAT-ATTAAA
25871167 TTAATATTAAA
1 TTAATATTAAA
25871178 TTAATA
1 TTAATA
25871184 AAATACTATC
Statistics
Matches: 47, Mismatches: 2, Indels: 19
0.69 0.03 0.28
Matches are distributed among these distances:
8 3 0.06
9 4 0.09
10 4 0.09
11 27 0.57
12 9 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:25879470 original size:40 final size:40
Alignment explanation
Indices: 25879417--25879565 Score: 194
Period size: 40 Copynumber: 3.7 Consensus size: 40
25879407 GCTACTCGCT
25879417 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
25879457 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * * *
25879497 CAAATGCCTTCGGGGCTTAGCCTGG-AATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CA
* *
25879537 CAAATGCCGTCGGGGCTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
25879566 CATCCGAATA
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 94 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:25879516 original size:80 final size:80
Alignment explanation
Indices: 25879384--25879561 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 80
25879374 CAACCAAGTA
* * *
25879384 CCTTCGGGATTTAG-CCGGACATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
25879447 GTAACTCA-CACAAATG
65 GTAACT-AGCACAAATG
* * *
25879463 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGGCTTAGCCTGGAATTA
1 CCTTCGGGACTTAGCCCGGACATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
25879527 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
* *
25879543 CCGTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25879562 TTATCATCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 15 0.17
80 70 0.81
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:25883749 original size:55 final size:55
Alignment explanation
Indices: 25883654--25883772 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 55
25883644 CTTAAACTTT
* * * * * *
25883654 TAAA-TCAATATTGTCCACGGTTAGGGCACACGGACGTGTGTCATCGCCGTG-TC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACACGGACATGTGTCATCGCCGTGCCC
* *
25883707 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCATGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACACGGACATGTGTCATCGCCGTGCCC
25883763 TAAAGTCAGT
1 TAAAGTCAGT
25883773 GTCTCACACT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.87
56 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACACGGACATGTGTCATCGCCGTGCCC
Found at i:25897324 original size:46 final size:44
Alignment explanation
Indices: 25897272--25897390 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 44
25897262 TATGTGTGCT
*
25897272 AGTGTAAGACATG-CTTGGGACATGCATTGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTC-TGGGACATGCATTGG--A-ATTGACGAGAGCC
*
25897318 AGTGTAAGACATGTCTGGGACATGCATTGGAATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGAATT--GACGAGAGCC
25897364 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
25897391 CGACCTCGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
46 62 0.93
47 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGAATTGACGAGAGCC
Found at i:25897466 original size:49 final size:49
Alignment explanation
Indices: 25897309--25897541 Score: 196
Period size: 49 Copynumber: 4.8 Consensus size: 49
25897299 TGGCCACATT
* * *
25897309 ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATTGGA----ATTGAG
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCA-TCGACCTCAAT-AG
* * * *
25897355 ACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGATAT
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTC-A-ATAG
* *
25897405 A-CA-AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAG
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAG
* * * ** *
25897452 ATGAGAGCCAGTGTAAGACCTGTTTGGGACACGGCATCGTCCTTGATAT
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAG
* * *
25897501 ATGAAAGTCAGTGTAAGACCTGTCTGGGACATGACATCGAC
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
25897542 TTTGATGTGT
Statistics
Matches: 154, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 33 0.21
47 4 0.03
48 29 0.19
49 80 0.52
50 4 0.03
51 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAG
Found at i:25897526 original size:98 final size:97
Alignment explanation
Indices: 25897357--25897541 Score: 257
Period size: 98 Copynumber: 1.9 Consensus size: 97
25897347 GAATTGAGAC
* *
25897357 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACAGGCATCGACCTCGAGATATACAAGCTAGTGTAAGAC
*
25897422 CTGTCTGGGACATGGCATCGACACCAATAGAT
66 CTGTCTGGGACATGACATCGACACCAATAGAT
* * * * *
25897454 GAGAGCCAGTGTAAGACCTGTTTGGGACACGGCATCGTCCTTGATATATGA-AAG-TCAGTGTAA
1 GAGAGCCAGTGTAAGACATGTCTGGGACA-GGCATCGACCTCGAGATAT-ACAAGCT-AGTGTAA
25897517 GACCTGTCTGGGACATGACATCGAC
63 GACCTGTCTGGGACATGACATCGAC
25897542 TTTGATGTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
97 27 0.35
98 49 0.64
99 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (97 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACAGGCATCGACCTCGAGATATACAAGCTAGTGTAAGAC
CTGTCTGGGACATGACATCGACACCAATAGAT
Found at i:25897547 original size:49 final size:48
Alignment explanation
Indices: 25897364--25897541 Score: 200
Period size: 49 Copynumber: 3.7 Consensus size: 48
25897354 GACGAGAGCT
* *
25897364 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGATAT-ACAAGC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGA-AAGC
* * *
25897411 TAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAGAGCC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGAAAG-C
* * * *
25897461 AGTGTAAGACCTGTTTGGGACACGGCATCGTCCTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAG-C
*
25897510 AGTGTAAGACCTGTCTGGGACATGACATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
25897542 TTTGATGTGT
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
48 23 0.21
49 82 0.76
50 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGC
Found at i:25904103 original size:21 final size:22
Alignment explanation
Indices: 25904055--25904104 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
25904045 TTTTCATCAT
25904055 ATTATTA-AATTAATTTTAAAA
1 ATTATTATAATTAATTTTAAAA
*
25904076 ATAATTATAATTTAA-TTT-AAA
1 ATTATTATAA-TTAATTTTAAAA
25904097 ATTATTAT
1 ATTATTAT
25904105 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 16 0.64
22 5 0.20
23 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTATTATAATTAATTTTAAAA
Found at i:25905286 original size:30 final size:30
Alignment explanation
Indices: 25905241--25905313 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
25905231 GAGTTTTTTT
*
25905241 TTTTTAAAAAA-TTAACTCTT-ATTTGAACA
1 TTTTAAAAAAATTTAACT-TTCATTTGAACA
*
25905270 TTTTAAAAAAATTTAACTTTCATTTGAGCA
1 TTTTAAAAAAATTTAACTTTCATTTGAACA
*
25905300 TTTTATAAAAATTT
1 TTTTAAAAAAATTT
25905314 GACCCAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.31
30 27 0.69
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTTAAAAAAATTTAACTTTCATTTGAACA
Found at i:25910000 original size:30 final size:30
Alignment explanation
Indices: 25909977--25910035 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
25909967 GTCTATCTCG
25909977 TTTGGGTCACATGGGCATGTGTCTAGCCCA
1 TTTGGGTCACATGGGCATGTGTCTAGCCCA
*
25910007 TTTGGGTCACATGGGCATGTGCCTAGCCC
1 TTTGGGTCACATGGGCATGTGTCTAGCCC
25910036 GTGTGGCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.29
Consensus pattern (30 bp):
TTTGGGTCACATGGGCATGTGTCTAGCCCA
Found at i:25912684 original size:25 final size:24
Alignment explanation
Indices: 25912635--25912691 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
25912625 CAAAAAAAGG
* *
25912635 AAAAAAATGAAACTAAATAATAAT
1 AAAAAAATGAAAATAAATAAGAAT
25912659 AAAAAAAT-AAAATAAAATAAAGAAT
1 AAAAAAATGAAAAT-AAAT-AAGAAT
*
25912684 AAAGAAAT
1 AAAAAAAT
25912692 CGAGGAGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 12 0.43
25 12 0.43
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (24 bp):
AAAAAAATGAAAATAAATAAGAAT
Found at i:25917637 original size:19 final size:18
Alignment explanation
Indices: 25917615--25917668 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
25917605 AACAAAAGAG
25917615 AAATTAGAAAGTAAAAAT-T
1 AAATTA-AAA-TAAAAATAT
*
25917634 AAATTAAAAACAAAAATAT
1 AAATT-AAAATAAAAATAT
*
25917653 AAAATAAAATAAAAAT
1 AAATTAAAATAAAAAT
25917669 GGCTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 16 0.53
19 13 0.43
20 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATTAAAATAAAAATAT
Found at i:25919820 original size:40 final size:40
Alignment explanation
Indices: 25919741--25919908 Score: 239
Period size: 40 Copynumber: 4.2 Consensus size: 40
25919731 CGGATGATAA
* * *
25919741 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * *
25919781 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
25919821 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
25919861 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
25919901 CC-GGCTAA
1 CCGGGCTAA
25919909 ATCCTGAAGA
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 6 0.05
40 106 0.95
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:25920173 original size:22 final size:22
Alignment explanation
Indices: 25920148--25920192 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
25920138 GAATGTGCAT
*
25920148 ATATGAA-GTTATTCATTTAGTC
1 ATATGAATGTTATAC-TTTAGTC
25920170 ATATGAATGTTATACTTTAGTC
1 ATATGAATGTTATACTTTAGTC
25920192 A
1 A
25920193 AAACTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (22 bp):
ATATGAATGTTATACTTTAGTC
Found at i:25925273 original size:16 final size:18
Alignment explanation
Indices: 25925252--25925292 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
25925242 TTAGTCACCT
25925252 TTTTCTATTT-TT-TTTC
1 TTTTCTATTTATTGTTTC
*
25925268 TTTTCTTTTTATTGTTTC
1 TTTTCTATTTATTGTTTC
25925286 TTCTTCT
1 TT-TTCT
25925293 GTTCTTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 6 0.29
19 4 0.19
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTCTATTTATTGTTTC
Found at i:25928930 original size:47 final size:46
Alignment explanation
Indices: 25928727--25929045 Score: 196
Period size: 49 Copynumber: 6.7 Consensus size: 46
25928717 GGGATATGTT
* * * *
25928727 GCCGATGTCATGTCCCGGACATGATCTTATACTGGCTATCATCATTGAG
1 GCCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTATCATC-TCGAG
* * * * * ** **
25928776 GCTGATAACATGTCCCAGACATGGTCTTATACTAGCTCTTGTCTATACG
1 GCCGAT-GCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTCGA-G
** * * * * *
25928825 CGTTGATGCATGTCCCAGATATGTCTTACACTAGC-A-CAACTCTTA-
1 -GCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCATCTC-GAG
* *
25928870 GCCGATGCGTGTCCTAGACAGGTCTTACACTGGCTATCATCGTCGAG
1 GCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCATC-TCGAG
* * * *
25928917 GTCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATTCTCTAT
1 GCCGATGCATGTCCCAGACAGGTCTTACACTGGCTA-TCA-TCTCGAG
* * *
25928964 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTG
1 GCCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTATCATCTCGAG
* * * *
25929012 GCTGGTGCATGTCCCAGACATGTTTTACACTGGC
1 GCCGATGCATGTCCCAGACAGGTCTTACACTGGC
25929046 ACACAAGTAA
Statistics
Matches: 211, Mismatches: 46, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
44 27 0.13
45 1 0.00
46 19 0.09
47 59 0.28
48 36 0.17
49 63 0.30
50 6 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCATCTCGAG
Found at i:25928931 original size:91 final size:94
Alignment explanation
Indices: 25928828--25929048 Score: 281
Period size: 95 Copynumber: 2.4 Consensus size: 94
25928818 CTATACGCGT
* * * *
25928828 TGATGCATGTCCCAGATATGTCTTACACTAGCACAACTCT-TA-GCCGATG-CGTGTCCTAGACA
1 TGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTCTATGCCGATGCCATGTCCCAGACA
*
25928890 -GGTCTTACACTGGCTATCATCGTCGAGG-
66 TGGTCTTACACTGGCTATCAT-ATCGAGGC
* *
25928918 TCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTCTCTATGCCGATGCCATGTCCCAGA
1 T-GATGCATGTCCCAGACATGTCTTACACTGGCAC-AACTCTCTATGCCGATGCCATGTCCCAGA
* *
25928983 CATGGTCTTACACTGGCTATCATATTGTGGC
64 CATGGTCTTACACTGGCTATCATATCGAGGC
* *
25929014 TGGTGCATGTCCCAGACATGTTTTACACTGGCACA
1 TGATGCATGTCCCAGACATGTCTTACACTGGCACA
25929049 CAAGTAATCC
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
90 1 0.01
91 31 0.28
92 4 0.04
93 2 0.02
94 7 0.06
95 46 0.41
96 21 0.19
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
TGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTCTATGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTATCATATCGAGGC
Found at i:25936531 original size:55 final size:55
Alignment explanation
Indices: 25936472--25936578 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
25936462 TTAATTTGAC
** * *
25936472 AGGTTCGCCCACGGGTGTTAGACACGGGCGTGTCGCACGCCCGTGCTGTTTTAAT
1 AGGTTCGCCCACGGGTCCTAGACACGAGCGTGTCGCACGCCCATGCTGTTTTAAT
* * ** *
25936527 AGGTTCGTCCACGGTTCCTCTACACGAGCGTGTCGCACGCCCATGTTGTTTT
1 AGGTTCGCCCACGGGTCCTAGACACGAGCGTGTCGCACGCCCATGCTGTTTT
25936579 GGCAGGCTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.28
Consensus pattern (55 bp):
AGGTTCGCCCACGGGTCCTAGACACGAGCGTGTCGCACGCCCATGCTGTTTTAAT
Found at i:25939562 original size:30 final size:30
Alignment explanation
Indices: 25939504--25939562 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
25939494 AAGAGAAAGA
* *
25939504 AAAAGTAAATTAATTAGTAATAATAATAAT
1 AAAAGTAAATTAATTAGTAAGAAAAATAAT
*
25939534 AAAATTAAATTAAATT-GTAAGAAAAATAA
1 AAAAGTAAATT-AATTAGTAAGAAAAATAA
25939563 ATGGCTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (30 bp):
AAAAGTAAATTAATTAGTAAGAAAAATAAT
Found at i:25944322 original size:15 final size:15
Alignment explanation
Indices: 25944302--25944330 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25944292 GTATTGTTGC
25944302 TTGATAACATGGTGA
1 TTGATAACATGGTGA
25944317 TTGATAACATGGTG
1 TTGATAACATGGTG
25944331 TGCGACGCAT
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:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:25955138 original size:30 final size:30
Alignment explanation
Indices: 25955102--25955158 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
25955092 TCACTTCATC
25955102 CCAAAACGACTTTGGTAAACAAGCATTCGA
1 CCAAAACGACTTTGGTAAACAAGCATTCGA
* *
25955132 CCAAAACGACTTTGGTTAATAAGCATT
1 CCAAAACGACTTTGGTAAACAAGCATT
25955159 TGACAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (30 bp):
CCAAAACGACTTTGGTAAACAAGCATTCGA
Found at i:25957317 original size:49 final size:49
Alignment explanation
Indices: 25957228--25957322 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
25957218 CTATTTATAA
* * * * *
25957228 GTTGAAAAACCTTATTCTAATCAATGTCAAATAGATGAAGTGTAGTAAG
1 GTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTAAG
25957277 GTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 GTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
25957323 TCTATATAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (49 bp):
GTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTAAG
Found at i:25959240 original size:18 final size:18
Alignment explanation
Indices: 25959209--25959243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25959199 TTGGATATGT
**
25959209 AATTATTTTTATATTATA
1 AATTATTTAAATATTATA
25959227 AATTATTTAAATATTAT
1 AATTATTTAAATATTAT
25959244 TTAAATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTATTTAAATATTATA
Found at i:25972343 original size:16 final size:16
Alignment explanation
Indices: 25972322--25972353 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25972312 GCCCAATAAC
*
25972322 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
25972338 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
25972354 TTACACAAAA
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:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:25972914 original size:22 final size:23
Alignment explanation
Indices: 25972870--25972917 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
25972860 AAAATACGAC
* * *
25972870 AAATATATGAAAATATAATATAA
1 AAATATAAGAAAATAAAAAATAA
25972893 AAATATAAG-AAATAAAAAATAA
1 AAATATAAGAAAATAAAAAATAA
25972915 AAA
1 AAA
25972918 AAATTAGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
AAATATAAGAAAATAAAAAATAA
Found at i:25973565 original size:19 final size:18
Alignment explanation
Indices: 25973538--25973575 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
25973528 ATTATATTGT
25973538 TTATTTTCA-CTATTATTA
1 TTATTTTCATC-ATTATTA
25973556 TTATTATTCATCATTATTA
1 TTATT-TTCATCATTATTA
25973575 T
1 T
25973576 ACATATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 12 0.67
20 1 0.06
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTTTCATCATTATTA
Found at i:25986052 original size:69 final size:70
Alignment explanation
Indices: 25985932--25986105 Score: 212
Period size: 69 Copynumber: 2.5 Consensus size: 70
25985922 CTTTCCAAGG
**
25985932 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
25985995 T-TTTT
65 TGTTTT
** * *
25986000 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
25986065 TGTTTT
65 TGTTTT
** * *
25986071 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
25986106 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
69 85 0.92
70 3 0.03
71 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:25986242 original size:74 final size:74
Alignment explanation
Indices: 25986123--25986457 Score: 446
Period size: 74 Copynumber: 4.5 Consensus size: 74
25986113 TTTGTTTTTC
*
25986123 AAAATCAACTCATATTGCTAG-AGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT-AATTTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
25986186 GTTGTTAAAA
66 GTT-TTAAAA
*
25986196 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
25986261 GTTTT--CA
66 GTTTTAAAA
* * * * * *
25986268 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
25986333 GTTTTCAAA
66 GTTTTAAAA
* * * *
25986342 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
25986406 TCTGTTTTTAAAA
63 TCTG-TTTTAAAA
* *
25986419 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
25986458 ATTACCTACT
Statistics
Matches: 235, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
72 66 0.28
73 21 0.09
74 71 0.30
75 10 0.04
76 24 0.10
77 42 0.18
78 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:25986372 original size:146 final size:146
Alignment explanation
Indices: 25986109--25986452 Score: 453
Period size: 146 Copynumber: 2.3 Consensus size: 146
25986099 TAAGCCTTTT
* * *
25986109 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAG-AGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGG
25986173 TAATTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-A
66 TAATTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGTA
25986237 CACGCTGAGGTAATTTC
130 CACGCTGAGGTAATTTC
* * *
25986254 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGTTTTTCAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAG
* * * **
25986318 GTATTTTCAATTTCTGTT-TTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGT
65 GTAATTT-AATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGG-
* *
25986382 TCACATGCTGAGGTATTTTC
128 T-ACACGCTGAGGTAATTTC
* *
25986402 AATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTGTTTTT---CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
25986453 TTCAGATTAC
Statistics
Matches: 172, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
144 9 0.05
145 24 0.14
146 70 0.41
147 10 0.06
148 24 0.14
149 4 0.02
151 27 0.16
152 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (146 bp):
AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGTAC
ACGCTGAGGTAATTTC
Found at i:25986655 original size:127 final size:127
Alignment explanation
Indices: 25986342--25986706 Score: 364
Period size: 127 Copynumber: 2.8 Consensus size: 127
25986332 TGTTTTCAAA
* * *
25986342 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
25986407 CTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTCAGATTACCTACTGTG
64 CTG-TTTT----AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACCTACTGT-
25986471 GTATT
123 GTATT
**** * * * *
25986476 TTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * *
25986541 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA-ATT-TCTACT-T-T-T
66 GTTT-T-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTCAGATTACCTACTGTGTAT
25986601 T
127 T
* * * *
25986602 CAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
**
25986667 TGCGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 T--GTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
25986707 GCCTCAGGAC
Statistics
Matches: 193, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
126 29 0.15
127 56 0.29
128 1 0.01
129 7 0.04
130 33 0.17
131 8 0.04
132 27 0.14
134 32 0.17
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (127 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACCTACTGTGTATT
Found at i:25986871 original size:88 final size:87
Alignment explanation
Indices: 25986679--25986924 Score: 298
Period size: 88 Copynumber: 2.8 Consensus size: 87
25986669 CGTTTTAATT
*
25986679 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TCT
* * *
25986743 CTTTTGATTTCTGTTTTTTAAAAAAA
62 GTTTTCATTTATGTTTTTTAAAAAAA
* *
25986769 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
* *
25986834 TCATTATTATG-TTTTTGAAAGAA
66 TCA-T-TTATGTTTTTTAAAAAAA
** * ** *
25986857 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
25986922 TCA
66 TCA
25986925 AAATTCAACT
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 87 0.64
89 4 0.03
90 40 0.29
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (87 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
TCATTTATGTTTTTTAAAAAAA
Found at i:25986974 original size:72 final size:72
Alignment explanation
Indices: 25986857--25987108 Score: 400
Period size: 72 Copynumber: 3.5 Consensus size: 72
25986847 TTTGAAAGAA
*
25986857 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
25986922 TCAAAAT
66 TCAAAAT
25986929 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
25986993 TTCAAAAT
65 TTCAAAAT
** * *
25987001 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
25987066 TCAAAAAAA
66 TC--AAAAT
25987075 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
25987109 GTTCACATGT
Statistics
Matches: 168, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
71 13 0.08
72 106 0.63
73 16 0.10
74 33 0.20
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:25987847 original size:16 final size:16
Alignment explanation
Indices: 25987826--25987857 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25987816 GCCCAATAAC
*
25987826 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
25987842 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
25987858 TTACACAAAA
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:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:25988421 original size:22 final size:23
Alignment explanation
Indices: 25988377--25988424 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
25988367 AAAATACGAC
* * *
25988377 AAATATACGAAAATATAATATAA
1 AAATATAAGAAAATAAAAAATAA
25988400 AAATATAAG-AAATAAAAAATAA
1 AAATATAAGAAAATAAAAAATAA
25988422 AAA
1 AAA
25988425 AAAATTAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (23 bp):
AAATATAAGAAAATAAAAAATAA
Found at i:25989053 original size:21 final size:21
Alignment explanation
Indices: 25989040--25989079 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
25989030 ATTATATTGT
25989040 TTATTTTCACTATTATTATTA
1 TTATTTTCACTATTATTATTA
25989061 TTATTTTCA-TCATTATTAT
1 TTATTTTCACT-ATTATTAT
25989080 ACATATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTCACTATTATTATTA
Found at i:25989077 original size:24 final size:24
Alignment explanation
Indices: 25989027--25989079 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 24
25989017 TATTATATTT
*
25989027 ATTATTA-TATTGTTTATTTTCAC
1 ATTATTATTATTGATTATTTTCAC
25989050 --TATTATTATT-ATTATTTTCATC
1 ATTATTATTATTGATTATTTTCA-C
25989072 ATTATTAT
1 ATTATTAT
25989080 ACATATATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.56
22 5 0.20
24 6 0.24
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTATTATTATTGATTATTTTCAC
Found at i:25994250 original size:32 final size:33
Alignment explanation
Indices: 25994197--25994263 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
25994187 ATATTATAGT
*
25994197 AAAATAAATAAGTTCAATCATTT-T-TTTAAAA
1 AAAATAAATAAATTCAATCATTTATATTTAAAA
25994228 AAAATAAAATAAATT-AATTCATTTATATTTAAAA
1 AAAAT-AAATAAATTCAA-TCATTTATATTTAAAA
25994262 AA
1 AA
25994264 TAATTGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 7 0.23
32 14 0.45
33 1 0.03
34 9 0.29
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (33 bp):
AAAATAAATAAATTCAATCATTTATATTTAAAA
Found at i:25995461 original size:5 final size:5
Alignment explanation
Indices: 25995451--25995478 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
25995441 ACTAAAAATT
25995451 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
25995479 TATCAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:25997204 original size:19 final size:20
Alignment explanation
Indices: 25997167--25997204 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25997157 TATAATAAAA
*
25997167 ATATTTCTTTTAATTATTTC
1 ATATTTCTTTTAATCATTTC
*
25997187 ATATTT-TTTTTATCATTT
1 ATATTTCTTTTAATCATTT
25997205 TTAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
ATATTTCTTTTAATCATTTC
Found at i:26002127 original size:12 final size:12
Alignment explanation
Indices: 26002108--26002142 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
26002098 TTGTAACTAA
26002108 TTTT-ATTTTAT
1 TTTTAATTTTAT
26002119 TTTTAATTTTAT
1 TTTTAATTTTAT
26002131 TTTTATATTTTA
1 TTTTA-ATTTTA
26002143 GTTAGATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.18
12 12 0.55
13 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTAATTTTAT
Found at i:26007164 original size:17 final size:17
Alignment explanation
Indices: 26007142--26007194 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
26007132 TAAAATTATA
26007142 AAAAATATTCAAAAAAT
1 AAAAATATTCAAAAAAT
*
26007159 AAAAATAAATTC-AAAATT
1 AAAAAT--ATTCAAAAAAT
*
26007177 ATAAAATGTTCAAAAAAT
1 A-AAAATATTCAAAAAAT
26007195 TAGTATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 9 0.31
18 11 0.38
19 9 0.31
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAAATATTCAAAAAAT
Found at i:26007182 original size:19 final size:19
Alignment explanation
Indices: 26007128--26007183 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
26007118 ATTAATAAGC
*
26007128 AATTTAAAATTATAAAA-A
1 AATTCAAAATTATAAAATA
*
26007146 ATATTCAAAA-AATAAAAATA
1 A-ATTCAAAATTAT-AAAATA
26007166 AATTCAAAATTATAAAAT
1 AATTCAAAATTATAAAAT
26007184 GTTCAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.10
19 24 0.77
20 4 0.13
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTCAAAATTATAAAATA
Found at i:26009928 original size:2 final size:2
Alignment explanation
Indices: 26009923--26009956 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26009913 GCACACATGC
26009923 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
26009957 TAATTGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26012947 original size:16 final size:17
Alignment explanation
Indices: 26012915--26012948 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26012905 CCACGCAAGA
26012915 ATTATAATAAGCTTCAT
1 ATTATAATAAGCTTCAT
*
26012932 ATTATATTAA-CTTCAT
1 ATTATAATAAGCTTCAT
26012948 A
1 A
26012949 GCCCCCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTATAATAAGCTTCAT
Found at i:26017966 original size:3 final size:3
Alignment explanation
Indices: 26017958--26017997 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
26017948 CTATTAGCTT
26017958 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26017998 AAAACCCCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26019739 original size:21 final size:22
Alignment explanation
Indices: 26019713--26019755 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26019703 CACTTCACAT
26019713 AGGGGC-ACACGTCT-GTGTGAG
1 AGGGGCAACAC-TCTCGTGTGAG
26019734 AGGGGCAACACTCTCGTGTGAG
1 AGGGGCAACACTCTCGTGTGAG
26019756 CATTCTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.21, C:0.21, G:0.40, T:0.19
Consensus pattern (22 bp):
AGGGGCAACACTCTCGTGTGAG
Found at i:26020903 original size:47 final size:49
Alignment explanation
Indices: 26020830--26021101 Score: 239
Period size: 47 Copynumber: 5.8 Consensus size: 49
26020820 AGGGTAAGGT
* *
26020830 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * *
26020877 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * *
26020925 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTA-CGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * *
26020971 GCCGATG-CATGCCCCAGACAT-GTCTTACACTAGC-CCTCGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * **
26021016 TACCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAA
* *
26021065 GCCGATG-CATGTCTCAGACAT-GTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
26021102 CACACGAATA
Statistics
Matches: 185, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 77 0.42
47 78 0.42
48 27 0.15
49 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
Found at i:26021713 original size:18 final size:18
Alignment explanation
Indices: 26021690--26021728 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
26021680 CATTTTCTTC
26021690 CATAAGAACTTAAAAAAA
1 CATAAGAACTTAAAAAAA
26021708 CATAAGAACTTAAAAAAA
1 CATAAGAACTTAAAAAAA
26021726 CAT
1 CAT
26021729 CACAAATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (18 bp):
CATAAGAACTTAAAAAAA
Found at i:26029789 original size:79 final size:79
Alignment explanation
Indices: 26029690--26029909 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
26029680 CTCGTTCAAG
* * ** * *
26029690 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
26029754 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
26029769 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
26029834 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
26029848 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
26029910 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:26029869 original size:40 final size:40
Alignment explanation
Indices: 26029727--26029909 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
26029717 TAACTCATTC
* *
26029727 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
26029767 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
26029806 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
26029846 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
26029887 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26029910 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:26037690 original size:79 final size:79
Alignment explanation
Indices: 26037591--26037810 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
26037581 CTCGTTCAAG
* * ** * *
26037591 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
26037655 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
26037670 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
26037735 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
26037749 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
26037811 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:26037770 original size:40 final size:40
Alignment explanation
Indices: 26037628--26037810 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
26037618 TAACTCATTC
* *
26037628 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
26037668 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
26037707 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
26037747 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
26037788 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26037811 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:26039708 original size:61 final size:61
Alignment explanation
Indices: 26039613--26039739 Score: 245
Period size: 61 Copynumber: 2.1 Consensus size: 61
26039603 ATATAATTAT
*
26039613 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTGTGAA
1 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
26039674 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
1 ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
26039735 ATATT
1 ATATT
26039740 TACAAAATGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (61 bp):
ATATTAATAATTATCATCTTCTTTTTAAACTAAAAACATTTATTCTAGAAGCCTTTATGAA
Found at i:26047746 original size:21 final size:20
Alignment explanation
Indices: 26047717--26047762 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
26047707 CGAAACGCAA
26047717 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
26047738 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
26047758 T-AACC
1 TCAACC
26047763 ATCCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Done.