Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 75 of 198
Found at i:23445100 original size:43 final size:43
Alignment explanation
Indices: 23445010--23445104 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
23445000 AAGATAATTT
* * * * * *
23445010 TGGGTCGTTGAAAAATGAATTTAAAAAGAGGAGAAGATGATAT
1 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAAA
*
23445053 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGATAAGAT-AAACA
1 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAA-A
23445096 TGGGTTGTT
1 TGGGTTGTT
23445105 GGATTTACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (43 bp):
TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAAA
Found at i:23448072 original size:70 final size:70
Alignment explanation
Indices: 23447987--23448126 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
23447977 TGAAAATGGC
23447987 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
1 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
23448052 TACAT
66 TACAT
23448057 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
1 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
23448122 TACAT
66 TACAT
23448127 CCCCCCACAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.17
Consensus pattern (70 bp):
ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
TACAT
Found at i:23451147 original size:34 final size:34
Alignment explanation
Indices: 23451104--23451173 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
23451094 GAATATTGGT
*
23451104 TATAATACATAGGGAATTTGATTACAAGTATCAC
1 TATAATACATAGGGAATTTAATTACAAGTATCAC
23451138 TATAATACATAGGGAATTTAATTACAAGTATCAC
1 TATAATACATAGGGAATTTAATTACAAGTATCAC
23451172 TA
1 TA
23451174 AAATGATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (34 bp):
TATAATACATAGGGAATTTAATTACAAGTATCAC
Found at i:23452197 original size:27 final size:27
Alignment explanation
Indices: 23452158--23452230 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
23452148 GGTTTCTTTA
* *
23452158 TCATAAATAGCCACAAAGGCTTCATTT
1 TCATAGATCGCCACAAAGGCTTCATTT
*
23452185 TCATAGATCGCCACAAAGGCTTCTTTT
1 TCATAGATCGCCACAAAGGCTTCATTT
* * *
23452212 TTATAGATCACGACAAAGG
1 TCATAGATCGCCACAAAGG
23452231 TTTCCCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (27 bp):
TCATAGATCGCCACAAAGGCTTCATTT
Found at i:23452240 original size:27 final size:28
Alignment explanation
Indices: 23452168--23452240 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
23452158 TCATAAATAG
* *
23452168 CCACAAAGGCTT-CATTTTCATAGATCG
1 CCACAAAGGCTTCCCTTTTCATAGATCA
* *
23452195 CCACAAAGGCTT-CTTTTTTATAGATCA
1 CCACAAAGGCTTCCCTTTTCATAGATCA
* *
23452222 CGACAAAGGTTTCCCTTTT
1 CCACAAAGGCTTCCCTTTT
23452241 TGTAACGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (28 bp):
CCACAAAGGCTTCCCTTTTCATAGATCA
Found at i:23456388 original size:14 final size:15
Alignment explanation
Indices: 23456368--23456408 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
23456358 TTTGATTGCC
23456368 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
23456382 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
23456397 AG-AAAATGTTTT
1 AGTAAAATGTTTT
23456409 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:23464286 original size:15 final size:15
Alignment explanation
Indices: 23464266--23464296 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23464256 AAGGTTCTCT
23464266 TTATTTTCATATGCA
1 TTATTTTCATATGCA
23464281 TTATTTTCATATGCA
1 TTATTTTCATATGCA
23464296 T
1 T
23464297 GAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TTATTTTCATATGCA
Found at i:23478132 original size:25 final size:26
Alignment explanation
Indices: 23478090--23478143 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
23478080 TTCTCCTAAA
*
23478090 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
23478116 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
23478141 TTT
1 TTT
23478144 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:23478377 original size:27 final size:27
Alignment explanation
Indices: 23478339--23478393 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23478329 GCTGAAAGAA
23478339 AGCAACTATATTGATTTCATGGCGCGC
1 AGCAACTATATTGATTTCATGGCGCGC
23478366 AGCAACTATATTGATTTCATGGCGCGC
1 AGCAACTATATTGATTTCATGGCGCGC
23478393 A
1 A
23478394 TTCGACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (27 bp):
AGCAACTATATTGATTTCATGGCGCGC
Found at i:23481004 original size:13 final size:12
Alignment explanation
Indices: 23480968--23481004 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
23480958 ATTAACATGT
23480968 TTAATTTTA--A
1 TTAATTTTATTA
23480978 TTAATTTTATTA
1 TTAATTTTATTA
23480990 TTAATTTTGATTA
1 TTAATTTT-ATTA
23481003 TT
1 TT
23481005 TTCGACAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
12 9 0.38
13 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
TTAATTTTATTA
Found at i:23485478 original size:139 final size:139
Alignment explanation
Indices: 23485225--23485501 Score: 455
Period size: 139 Copynumber: 2.0 Consensus size: 139
23485215 TAACATGATT
23485225 TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
1 TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
* *
23485290 TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAGATTTAAAGGTGTTACCATAAATCAA
66 TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAAATCTAAAGGTGTTACCATAAATCAA
23485355 TTGAAAACA
131 TTGAAAACA
*
23485364 TAATAGAAATCTCACTTCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
1 TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
* * ** * * * *
23485429 TTTTGTAACACCCCATACTCGGCCTAGATGTTATGGCCAAATCTGAAGGTGTTACCGTAAATCAA
66 TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAAATCTAAAGGTGTTACCATAAATCAA
23485494 TTGAAAAC
131 TTGAAAAC
23485502 CTAGAATTCG
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 127 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (139 bp):
TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAAATCTAAAGGTGTTACCATAAATCAA
TTGAAAACA
Found at i:23489650 original size:43 final size:43
Alignment explanation
Indices: 23489543--23489812 Score: 427
Period size: 43 Copynumber: 6.3 Consensus size: 43
23489533 AGGTTATGTT
* * *
23489543 TTTAGCGGCGTTT-TTGCAAGAAGCGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGGTC
* *
23489585 TATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
23489628 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
23489671 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
23489714 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
23489757 TTTAGCGTCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
23489800 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
23489813 ATTTCTAAAA
Statistics
Matches: 211, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
42 28 0.13
43 183 0.87
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:23491843 original size:17 final size:17
Alignment explanation
Indices: 23491814--23491848 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23491804 TATCTTTTAC
23491814 ATATATAATTTATTTTT
1 ATATATAATTTATTTTT
23491831 ATATCATAA-TTATTTTT
1 ATAT-ATAATTTATTTTT
23491848 A
1 A
23491849 AACATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATAATTTATTTTT
Found at i:23493434 original size:3 final size:3
Alignment explanation
Indices: 23493428--23493474 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23493418 AACTAATTAG
23493428 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23493475 ATTTCTATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23493600 original size:3 final size:3
Alignment explanation
Indices: 23493592--23493631 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
23493582 TTTACTATTC
*
23493592 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23493632 CACTCATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23493694 original size:23 final size:23
Alignment explanation
Indices: 23493664--23493707 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
23493654 CATACTTTGT
*
23493664 TATATATATACATATATATTTTA
1 TATATATATACATACATATTTTA
23493687 TATATATATACATACATATTT
1 TATATATATACATACATATTT
23493708 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATATATACATACATATTTTA
Found at i:23493723 original size:27 final size:27
Alignment explanation
Indices: 23493664--23493717 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
23493654 CATACTTTGT
*
23493664 TATATATATACATATATATTTTATATA
1 TATATACATACATATATATTTTATATA
*
23493691 TATATACATACATATTTATTTT-TATA
1 TATATACATACATATATATTTTATATA
23493717 T
1 T
23493718 TTTATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (27 bp):
TATATACATACATATATATTTTATATA
Found at i:23494912 original size:13 final size:14
Alignment explanation
Indices: 23494894--23494933 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
23494884 AATTATTTTC
23494894 TGAAAAATA-AAAA
1 TGAAAAATAGAAAA
23494907 TG-AAAATAGAAAA
1 TGAAAAATAGAAAA
23494920 TG-AAAATAGAAAA
1 TGAAAAATAGAAAA
23494933 T
1 T
23494934 ATTTTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (14 bp):
TGAAAAATAGAAAA
Found at i:23494931 original size:7 final size:7
Alignment explanation
Indices: 23494897--23494934 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
23494887 TATTTTCTGA
23494897 AAAATA-
1 AAAATAG
23494903 AAAAT-G
1 AAAATAG
23494909 AAAATAG
1 AAAATAG
23494916 AAAAT-G
1 AAAATAG
23494922 AAAATAG
1 AAAATAG
23494929 AAAATA
1 AAAATA
23494935 TTTTCATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (7 bp):
AAAATAG
Found at i:23497780 original size:43 final size:43
Alignment explanation
Indices: 23497713--23497978 Score: 278
Period size: 43 Copynumber: 6.2 Consensus size: 43
23497703 ACGTCGCTAA
*
23497713 CTTTTGCGGCGCTTACA-GAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGC-TA-AGGAAATAAACGCCGCTAAAGATCATGTT
* * *
23497757 CTTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATCCTATT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* * *
23497800 ATTTAGCGGCGCTTATGAAA-AAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* *
23497842 CTTTAGCAGCGCTAAGGAAATAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* * *
23497885 ATTTAGCGGCGCTTA-GAAATAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTAAGGAAAT-AAACGCCGCTAAAGA-TCATGTT
* * *
23497928 CTGTAGCGGCGCT-TGGTCAA-AAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTAAGG-AAATAAACGCCGCTAAAGA-TCA-TGTT
23497970 CTTTAGCGG
1 CTTTAGCGG
23497979 TGCTTATTTC
Statistics
Matches: 190, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 70 0.37
43 106 0.56
44 13 0.07
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
Found at i:23497958 original size:128 final size:128
Alignment explanation
Indices: 23497730--23497976 Score: 315
Period size: 128 Copynumber: 1.9 Consensus size: 128
23497720 GGCGCTTACA
* * *
23497730 GAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATC
1 GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATA
* *
23497795 CTATTATTTAGCGGCGCTTATGAAAAAACGCCGCT-AAAGATCA-TGTTCTTTAGCAGCGCTAAG
66 ATATTATGTAGCGGCGCTTATGAAAAAACGCCGCTAAAAG-T-AGTGTTCTTTAGCAGCGCTAAG
* *
23497858 GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTTA-GAAATAAAACGCCGCTAAA-AG
1 GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTAAGGAAAT-AAACACCGCTAAAGA-
* * * *
23497921 TAATGTTCTGTAGCGGCGCTT-GGTCAAAAACGCCGCTAAAAGTAGTGTTCTTTAGC
64 TAATATTATGTAGCGGCGCTTATG-AAAAAACGCCGCTAAAAGTAGTGTTCTTTAGC
23497977 GGTGCTTATT
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
127 8 0.08
128 91 0.88
129 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (128 bp):
GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATA
ATATTATGTAGCGGCGCTTATGAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCAGCGCTAAG
Found at i:23497960 original size:85 final size:86
Alignment explanation
Indices: 23497718--23497940 Score: 337
Period size: 85 Copynumber: 2.6 Consensus size: 86
23497708 GCTAACTTTT
23497718 GCGGCGCTTACAGAAAT-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAAC
1 GCGGCGCTT--AGAAATAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAAC
*
23497782 ACCGCTAAAGATCCTATTATTTA
64 ACCGCTAAAGATCATATTATTTA
*
23497805 GCGGCGCTTATG-AA-AAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTAAGGAAATAAACA
1 GCGGCGCTTA-GAAATAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACA
*
23497868 CCGCTAAAGATCATGTTATTTA
65 CCGCTAAAGATCATATTATTTA
* *
23497890 GCGGCGCTTAGAAATAAAACGCCGCTAAA-AGTAATGTTCTGTAGCGGCGCT
1 GCGGCGCTTAGAAATAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCT
23497941 TGGTCAAAAA
Statistics
Matches: 125, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
84 1 0.01
85 83 0.66
86 32 0.26
87 9 0.07
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (86 bp):
GCGGCGCTTAGAAATAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACAC
CGCTAAAGATCATATTATTTA
Found at i:23498456 original size:21 final size:21
Alignment explanation
Indices: 23498432--23498489 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
23498422 GCTTCTATCG
*
23498432 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
23498453 CTGCTTCTCTTGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
23498474 CTGCTTCCCTCACTGC
1 CTGCTTCTCTCGCTGC
23498490 CGCATCTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:23504025 original size:25 final size:26
Alignment explanation
Indices: 23503996--23504290 Score: 207
Period size: 25 Copynumber: 11.5 Consensus size: 26
23503986 GTATTAAGTA
23503996 AATTATGTAAGTTATGTAAGTTATGT
1 AATTATGTAAGTTATGTAAGTTATGT
* * *
23504022 -ATTAAGTAAGCTATGTAAGTTGTGT
1 AATTATGTAAGTTATGTAAGTTATGT
** * **
23504047 -ATTATGTATTTTA-AT-AGTTATCA
1 AATTATGTAAGTTATGTAAGTTATGT
* *
23504070 AAGTAATGTATGTTATGTAAG-T-TGT
1 AA-TTATGTAAGTTATGTAAGTTATGT
** *
23504095 AAGTTATGTATTTTATGTAACTTATGT
1 AA-TTATGTAAGTTATGTAAGTTATGT
** * *
23504122 AAGTTATCAAAGTAATGTATGTTATGT
1 AA-TTATGTAAGTTATGTAAGTTATGT
* *
23504149 AAGT-TGTAAGTTAT-TATGTATTATGT
1 AATTATGTAAGTTATGTAAG--TTATGT
*
23504175 AAGTTAGGTAAGTTATGTAAGTTATGT
1 AA-TTATGTAAGTTATGTAAGTTATGT
* *
23504202 -ATTATGTAGGTTATGTAAGTTGTGT
1 AATTATGTAAGTTATGTAAGTTATGT
* * *
23504227 AAGATATTTAAGTTATGTAAGTTTTGT
1 AA-TTATGTAAGTTATGTAAGTTATGT
* *
23504254 -ATTATGTAAGTTATGTATGCTATGT
1 AATTATGTAAGTTATGTAAGTTATGT
23504279 -ATTATGTAAGTT
1 AATTATGTAAGTT
23504291 GTTATGTTAT
Statistics
Matches: 211, Mismatches: 45, Indels: 27
0.75 0.16 0.10
Matches are distributed among these distances:
23 5 0.02
24 6 0.03
25 119 0.56
26 15 0.07
27 54 0.26
28 9 0.04
29 3 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (26 bp):
AATTATGTAAGTTATGTAAGTTATGT
Found at i:23504039 original size:9 final size:9
Alignment explanation
Indices: 23503993--23504319 Score: 222
Period size: 9 Copynumber: 37.8 Consensus size: 9
23503983 TATGTATTAA
*
23503993 GTAAATTAT
1 GTAAGTTAT
23504002 GTAAGTTAT
1 GTAAGTTAT
23504011 GTAAGTTAT
1 GTAAGTTAT
*
23504020 GT-A-TTAA
1 GTAAGTTAT
*
23504027 GTAAGCTAT
1 GTAAGTTAT
*
23504036 GTAAGTTGT
1 GTAAGTTAT
23504045 GT-A-TTAT
1 GTAAGTTAT
**
23504052 GTATTTTA-
1 GTAAGTTAT
*
23504060 AT-AGTTAT
1 GTAAGTTAT
** *
23504068 CAAAGTAAT
1 GTAAGTTAT
*
23504077 GTATGTTAT
1 GTAAGTTAT
23504086 GTAAG-T-T
1 GTAAGTTAT
23504093 GTAAGTTAT
1 GTAAGTTAT
**
23504102 GTATTTTAT
1 GTAAGTTAT
*
23504111 GTAACTTAT
1 GTAAGTTAT
23504120 GTAAGTTAT
1 GTAAGTTAT
** *
23504129 CAAAGTAAT
1 GTAAGTTAT
*
23504138 GTATGTTAT
1 GTAAGTTAT
23504147 GTAAG-T-T
1 GTAAGTTAT
23504154 GTAAGTTAT
1 GTAAGTTAT
*
23504163 -TATGTATTAT
1 GTAAG--TTAT
*
23504173 GTAAGTTAG
1 GTAAGTTAT
23504182 GTAAGTTAT
1 GTAAGTTAT
23504191 GTAAGTTAT
1 GTAAGTTAT
23504200 GT-A-TTAT
1 GTAAGTTAT
*
23504207 GTAGGTTAT
1 GTAAGTTAT
*
23504216 GTAAGTTGT
1 GTAAGTTAT
*
23504225 GTAAGATAT
1 GTAAGTTAT
*
23504234 TTAAGTTAT
1 GTAAGTTAT
*
23504243 GTAAGTTTT
1 GTAAGTTAT
23504252 GT-A-TTAT
1 GTAAGTTAT
23504259 GTAAGTTAT
1 GTAAGTTAT
* *
23504268 GTATGCTAT
1 GTAAGTTAT
23504277 GT-A-TTAT
1 GTAAGTTAT
23504284 GTAAGTTGTTAT
1 GTAA---GTTAT
*
23504296 GTTA-TTAT
1 GTAAGTTAT
23504304 GTAAGTTAT
1 GTAAGTTAT
*
23504313 GCAAGTT
1 GTAAGTT
23504320 TAAATATAAG
Statistics
Matches: 242, Mismatches: 53, Indels: 46
0.71 0.16 0.13
Matches are distributed among these distances:
7 41 0.17
8 22 0.09
9 165 0.68
10 4 0.02
11 3 0.01
12 7 0.03
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:23504137 original size:61 final size:62
Alignment explanation
Indices: 23504062--23504190 Score: 217
Period size: 61 Copynumber: 2.1 Consensus size: 62
23504052 GTATTTTAAT
*
23504062 AGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATGTAT-T-TTATGTAACTTATGTA
1 AGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTAT-TATGTATTATGTAACTTAGGTA
*
23504123 AGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTAGGTA
1 AGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAACTTAGGTA
23504185 AGTTAT
1 AGTTAT
23504191 GTAAGTTATG
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
60 3 0.05
61 41 0.64
62 20 0.31
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.45
Consensus pattern (62 bp):
AGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAACTTAGGTA
Found at i:23504278 original size:34 final size:34
Alignment explanation
Indices: 23503998--23504290 Score: 174
Period size: 34 Copynumber: 8.3 Consensus size: 34
23503988 ATTAAGTAAA
*
23503998 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
* *
23504032 CTATGTAAGTTGTGT-A-TTATGTATTTTAATAGTTATCAAAG
1 TTATGTAAGTTATGTAAGTTATGTA--TT-AT-G---T--AAG
* * **
23504073 TAATGTATGTTATGTAAG-T-TGTAAGTTATGTATT
1 TTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAG
* ** * *
23504107 TTATGTAACTTATGTAAGTTATCAAAGTAATGTATG
1 TTATGTAAGTTATGTAAGTTAT-GTA-TTATGTAAG
23504143 TTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAG
1 TTATGTAAGTTATGTAAG---TTATGTATTATGTAAG
* *
23504178 TTAGGTAAGTTATGTAAGTTATGTATTATGTAGG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
* * *
23504212 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAG
*
23504248 TTTTGT-A-TTATGTAAGTTATGTATGCTATGT-A-
1 TTATGTAAGTTATGTAAGTTATGTAT--TATGTAAG
23504280 TTATGTAAGTT
1 TTATGTAAGTT
23504291 GTTATGTTAT
Statistics
Matches: 199, Mismatches: 34, Indels: 52
0.70 0.12 0.18
Matches are distributed among these distances:
32 13 0.07
33 4 0.02
34 91 0.46
35 20 0.10
36 35 0.18
37 10 0.05
39 2 0.01
40 2 0.01
41 19 0.10
42 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:23504427 original size:13 final size:13
Alignment explanation
Indices: 23504409--23504486 Score: 61
Period size: 13 Copynumber: 6.8 Consensus size: 13
23504399 AAGTTATGTA
23504409 TTATGTATGTAAG
1 TTATGTATGTAAG
*
23504422 TTATGTATGTATG
1 TTATGTATGTAAG
23504435 TTAT-TA--TAAG
1 TTATGTATGTAAG
*
23504445 TT-TG-ATTTAAG
1 TTATGTATGTAAG
23504456 ---T-TATGT-A-
1 TTATGTATGTAAG
23504463 TTATGTATGTAAG
1 TTATGTATGTAAG
23504476 TTATGTATGTA
1 TTATGTATGTA
23504487 TGTAATTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
8 1 0.02
9 6 0.12
10 6 0.12
11 9 0.17
12 3 0.06
13 27 0.52
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.51
Consensus pattern (13 bp):
TTATGTATGTAAG
Found at i:23504534 original size:96 final size:97
Alignment explanation
Indices: 23504418--23504605 Score: 260
Period size: 97 Copynumber: 1.9 Consensus size: 97
23504408 ATTATGTATG
* *
23504418 TAAGTTATGTATGTATGTTAT-TATAAGTTTGAT-T-TAAGTTATGT-A-TTATGTATGTAAGTT
1 TAAGTTATGTATGTAAGTTATATATAAGTTT-ATATATAACTTATGTAAGTTAT-TATGTAAGTT
*
23504478 ATGTATGTATGTAATTTTTATATAAAAATTTTGGTT
64 ATGTAT-TATGTAA-GTTTATATAAAAATTTTGGTT
23504514 TAAGTTATGTATGTAAGTTATATATAAGTTTATATATAACTTATGTAAGTTATTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTATATATAAGTTTATATATAACTTATGTAAGTTATTATGTAAGTTAT
* *
23504579 GTGTTGTGTAAGTTTATATAAAAATTT
66 GTATTATGTAAGTTTATATAAAAATTT
23504606 ATATATTTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
96 22 0.27
97 25 0.30
98 15 0.18
99 16 0.20
100 4 0.05
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.50
Consensus pattern (97 bp):
TAAGTTATGTATGTAAGTTATATATAAGTTTATATATAACTTATGTAAGTTATTATGTAAGTTAT
GTATTATGTAAGTTTATATAAAAATTTTGGTT
Found at i:23504578 original size:21 final size:22
Alignment explanation
Indices: 23504514--23504580 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
23504504 AATTTTGGTT
* *
23504514 TAAGTTATGTATGTAAGTTATATA
1 TAAGTTATATATGTAAG-T-TATG
* *
23504538 TAAGTT-TATATATAACTTATG
1 TAAGTTATATATGTAAGTTATG
23504559 TAAGTTAT-TATGTAAGTTATG
1 TAAGTTATATATGTAAGTTATG
23504580 T
1 T
23504581 GTTGTGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
21 21 0.58
22 2 0.06
23 7 0.19
24 6 0.17
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (22 bp):
TAAGTTATATATGTAAGTTATG
Found at i:23504675 original size:21 final size:22
Alignment explanation
Indices: 23504651--23504703 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
23504641 CAAGCTTTTC
* *
23504651 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAACTGTATAT
23504672 AAATATAT-TAAAACTGTATAT
1 AAATATATATAAAACTGTATAT
23504693 AAATATATATA
1 AAATATATATA
23504704 TCAAAGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATATAAAACTGTATAT
Found at i:23504677 original size:19 final size:20
Alignment explanation
Indices: 23504655--23504701 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23504645 CTTTTCAAAT
* *
23504655 ATATATAAAATTTTA-ATAA
1 ATATATAAAACTGTATATAA
23504674 ATATATTAAAACTGTATATAA
1 ATATA-TAAAACTGTATATAA
23504695 ATATATA
1 ATATATA
23504702 TATCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATAAAACTGTATATAA
Found at i:23505200 original size:13 final size:13
Alignment explanation
Indices: 23505182--23505206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23505172 TGGTAATTAA
23505182 AACTAAAATATAC
1 AACTAAAATATAC
23505195 AACTAAAATATA
1 AACTAAAATATA
23505207 ACAAAAAAAA
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:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
AACTAAAATATAC
Found at i:23508838 original size:14 final size:14
Alignment explanation
Indices: 23508819--23508886 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
23508809 ATGACCGTTG
23508819 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
23508833 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
23508848 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
23508861 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
23508874 AAACCTTAAATCT
1 AAACCCTAAATCT
23508887 ATACCACGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:23508842 original size:15 final size:15
Alignment explanation
Indices: 23508822--23508859 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
23508812 ACCGTTGAAA
23508822 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
23508837 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
23508852 CCCTAAAT
1 CCCTAAAT
23508860 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:23509456 original size:41 final size:40
Alignment explanation
Indices: 23509388--23509609 Score: 129
Period size: 41 Copynumber: 5.5 Consensus size: 40
23509378 GACGCTTCGG
* * ** * *
23509388 CAAAAACACCGCTAAAGGTAAATGCATTAGCGACGCTTACA
1 CAAAAACGCCACTAAAGGCCAA-GCATTAGCGGCGCTTAAA
* * **
23509429 CAAAAGCGCCTCTAAAGGCCACAGCATTAGCGGCGCACAAA
1 CAAAAACGCCACTAAAGGCCA-AGCATTAGCGGCGCTTAAA
* * **
23509470 CAAAAATGCCACTAAAGGCCAACCATTAGCGGCGCTTAGT
1 CAAAAACGCCACTAAAGGCCAAGCATTAGCGGCGCTTAAA
* ** * * ** *
23509510 TAAAAACGCCGTTAAAGGCTAGAGAATTAGCGGCGCCCAGA
1 CAAAAACGCCACTAAAGGCCA-AGCATTAGCGGCGCTTAAA
* * * * * * **
23509551 TAGAAACGCCGCTAAAGATCCGAGCATTAGCGTCGCTTTTA
1 CAAAAACGCCACTAAAG-GCCAAGCATTAGCGGCGCTTAAA
*
23509592 CAAAAACGCCGCTAAAGG
1 CAAAAACGCCACTAAAGG
23509610 GCGCTTTATA
Statistics
Matches: 137, Mismatches: 41, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
40 30 0.22
41 105 0.77
42 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (40 bp):
CAAAAACGCCACTAAAGGCCAAGCATTAGCGGCGCTTAAA
Found at i:23510100 original size:17 final size:17
Alignment explanation
Indices: 23510078--23510110 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23510068 TAGTAAAAAT
23510078 ATAATTT-TATTATTTAA
1 ATAATTTATATT-TTTAA
23510095 ATAATTTATATTTTTA
1 ATAATTTATATTTTTA
23510111 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTTATATTTTTAA
Found at i:23511121 original size:6 final size:6
Alignment explanation
Indices: 23511110--23511139 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
23511100 CAGAATTGTA
23511110 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
1 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
23511140 GCTGGTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
TGCCAT
Found at i:23512605 original size:24 final size:24
Alignment explanation
Indices: 23512576--23512629 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
23512566 TATGATTTAA
*
23512576 TCAAAGAATTTTAATTGATACTAT
1 TCAAAGAAATTTAATTGATACTAT
*
23512600 TTAAAGAAATTTAATTGATACTAT
1 TCAAAGAAATTTAATTGATACTAT
23512624 TCAAAG
1 TCAAAG
23512630 TATAATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (24 bp):
TCAAAGAAATTTAATTGATACTAT
Found at i:23514445 original size:33 final size:32
Alignment explanation
Indices: 23514401--23514462 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
23514391 AAATGAAGAT
23514401 ATAATTAATAATAAATACTTGAAAT-TAGTATAA
1 ATAATTAATAATAAATA-TT-AAATATAGTATAA
*
23514434 ATAATTTATAATAAATATTAAATATAGTA
1 ATAATTAATAATAAATATTAAATATAGTA
23514463 GGTCTTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 7 0.26
33 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAATTAATAATAAATATTAAATATAGTATAA
Found at i:23519196 original size:26 final size:27
Alignment explanation
Indices: 23519135--23519198 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
23519125 TTTACTCTAG
* * *
23519135 TAAAATTTTGACGATTTTGTCCTCTGA
1 TAAAATTTTGACGATTTTGACCCCCGA
*
23519162 TAAAATTTTGATGATTTT-ACCCCCGA
1 TAAAATTTTGACGATTTTGACCCCCGA
23519188 TAAAATTTTGA
1 TAAAATTTTGA
23519199 GAAAATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (27 bp):
TAAAATTTTGACGATTTTGACCCCCGA
Found at i:23519365 original size:18 final size:18
Alignment explanation
Indices: 23519339--23519374 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23519329 AGATTGCAAG
*
23519339 TTTCCATTTTCATTTTCA
1 TTTCCATTTCCATTTTCA
*
23519357 TTTCTATTTCCATTTTCA
1 TTTCCATTTCCATTTTCA
23519375 AAAACCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTCCATTTCCATTTTCA
Found at i:23520899 original size:25 final size:25
Alignment explanation
Indices: 23520860--23520907 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
23520850 TTGAAAATAA
23520860 GAAAAATATCTTTAGA-AATTTTTT
1 GAAAAATATCTTTAGAGAATTTTTT
*
23520884 GAAATAATTTCTTTAGAGAATTTT
1 GAAA-AATATCTTTAGAGAATTTT
23520908 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTTT
Found at i:23521140 original size:31 final size:29
Alignment explanation
Indices: 23521084--23521141 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
23521074 ATTTATCAAC
23521084 AAGATAAACTTTAAATTAAATTTAATATT
1 AAGATAAACTTTAAATTAAATTTAATATT
23521113 AAGATAATCACTTTAATATTAAA-TTAATA
1 AAGATAA--ACTTTAA-ATTAAATTTAATA
23521142 AAATACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 13 0.50
32 6 0.23
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (29 bp):
AAGATAAACTTTAAATTAAATTTAATATT
Found at i:23524604 original size:24 final size:24
Alignment explanation
Indices: 23524577--23524624 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
23524567 TTTACTGCAA
*
23524577 TATTGAGTGGTTTGGGCACAACGT
1 TATTGAGTGGTTTGGCCACAACGT
*
23524601 TATTGAGTGGTTTGTCCACAACGT
1 TATTGAGTGGTTTGGCCACAACGT
23524625 ACAGCTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (24 bp):
TATTGAGTGGTTTGGCCACAACGT
Found at i:23531059 original size:23 final size:24
Alignment explanation
Indices: 23531033--23531086 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
23531023 CATGTTCGTA
* *
23531033 TAGTGTTT-GGGAAAAGGTTTGTT
1 TAGTGTTTCAGGAAAAGGCTTGTT
* *
23531056 TAGTGTTTCAGGAACATGCTTGTT
1 TAGTGTTTCAGGAAAAGGCTTGTT
23531080 TAGTGTT
1 TAGTGTT
23531087 CATAACGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.20, C:0.06, G:0.30, T:0.44
Consensus pattern (24 bp):
TAGTGTTTCAGGAAAAGGCTTGTT
Found at i:23531226 original size:11 final size:10
Alignment explanation
Indices: 23531206--23531259 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
23531196 GTTACAATTT
23531206 TAAACAAACA
1 TAAACAAACA
23531216 TAAACCAAACA
1 TAAA-CAAACA
* *
23531227 TGAAC-AACT
1 TAAACAAACA
23531236 TAAACAAAC-
1 TAAACAAACA
23531245 -AAACAAACA
1 TAAACAAACA
*
23531254 CAAACA
1 TAAACA
23531260 TGTGGTTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 8 0.22
9 7 0.19
10 13 0.35
11 9 0.24
ACGTcount: A:0.65, C:0.24, G:0.02, T:0.09
Consensus pattern (10 bp):
TAAACAAACA
Found at i:23532875 original size:18 final size:18
Alignment explanation
Indices: 23532852--23532926 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 18
23532842 TATTTAAATT
23532852 ATTATAGAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
*
23532870 ATTATAAAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
** ***
23532888 ATTATA-AAAATG-ATTT
1 ATTATAGAACGTGTAAAA
23532904 ATTATAGAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
23532922 ATTAT
1 ATTAT
23532927 TATGAAAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
16 7 0.16
17 8 0.18
18 29 0.66
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (18 bp):
ATTATAGAACGTGTAAAA
Found at i:23532907 original size:52 final size:49
Alignment explanation
Indices: 23532847--23532983 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 49
23532837 CCCTTTATTT
* * *
23532847 AAATTATTATAGAACGTGTAAAAATTATAAAACGTGTAAAAATTA-TAAA
1 AAATTATTATAGAACGTGTAAAAATTATAAAAAGTATAAAAAATACT-AA
* *
23532896 AATGATTTATTATAGAACGTGTAAAAATTATTATGAAAATTATAAAAAATACTAT
1 AA--A-TTATTATAGAACGTGTAAAAATTA-TA--AAAAGTATAAAAAATACTAA
23532951 AAATTATTATAGAACGTGTAAAAATTATAAAAA
1 AAATTATTATAGAACGTGTAAAAATTATAAAAA
23532984 TAATTTAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
49 6 0.08
51 3 0.04
52 48 0.63
53 3 0.04
55 15 0.20
56 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (49 bp):
AAATTATTATAGAACGTGTAAAAATTATAAAAAGTATAAAAAATACTAA
Found at i:23532984 original size:49 final size:51
Alignment explanation
Indices: 23532846--23533002 Score: 148
Period size: 52 Copynumber: 3.1 Consensus size: 51
23532836 ACCCTTTATT
* * *
23532846 TAAATTATTATAGAACGTGTAAAAATTA-TA-AAACGT--GTAAAAATTATAA
1 TAAATTATTATAGAACGTGTAAAAATTATTAGAAA-ATAATTAAAAAATAT-A
* *
23532895 AAATGATTTATTATAGAACGTGTAAAAATTATTATGAAAATTA-TAAAAAATACTA
1 TAA--A-TTATTATAGAACGTGTAAAAATTATTA-GAAAATAATTAAAAAATA-TA
*
23532950 TAAATTATTATAGAACGTGTAAAAATTA-TA-AAAATAATTTAAAAATATA
1 TAAATTATTATAGAACGTGTAAAAATTATTAGAAAATAATTAAAAAATATA
23532999 TAAA
1 TAAA
23533003 AAAATTTATT
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
49 14 0.15
50 8 0.09
51 3 0.03
52 48 0.52
53 3 0.03
54 1 0.01
55 14 0.15
56 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (51 bp):
TAAATTATTATAGAACGTGTAAAAATTATTAGAAAATAATTAAAAAATATA
Found at i:23532994 original size:21 final size:20
Alignment explanation
Indices: 23532969--23533010 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
23532959 ATAGAACGTG
23532969 TAAAAAT-TATAAAAATAATT
1 TAAAAATATATAAAAA-AATT
23532989 TAAAAATATATAAAAAAATT
1 TAAAAATATATAAAAAAATT
23533009 TA
1 TA
23533011 TTTCATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATATATAAAAAAATT
Found at i:23535629 original size:15 final size:14
Alignment explanation
Indices: 23535608--23535643 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
23535598 ATAATCCTTA
*
23535608 ATAATTATCTTAAT
1 ATAATTATCCTAAT
23535622 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
23535637 ATAATTA
1 ATAATTA
23535644 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:23536247 original size:17 final size:16
Alignment explanation
Indices: 23536207--23536253 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
23536197 TTTTTTTCTT
*
23536207 TTTTATTTATTT-TGA
1 TTTTATTTATTTATTA
23536222 TTTTGATTTATTTATTA
1 TTTT-ATTTATTTATTA
*
23536239 TTTATATTTTTTTAT
1 TTT-TATTTATTTAT
23536254 GCTTTAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 14 0.52
18 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTATTTATTTATTA
Found at i:23537314 original size:12 final size:13
Alignment explanation
Indices: 23537297--23537342 Score: 71
Period size: 12 Copynumber: 3.8 Consensus size: 13
23537287 CCAAATAAGT
23537297 AATAAA-TAATAA
1 AATAAAGTAATAA
23537309 AATAAAGTAAT-A
1 AATAAAGTAATAA
23537321 AATAAAGTAAT-A
1 AATAAAGTAATAA
23537333 AATAAAGTAA
1 AATAAAGTAA
23537343 AGAAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 29 0.88
13 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AATAAAGTAATAA
Found at i:23537318 original size:20 final size:21
Alignment explanation
Indices: 23537289--23537369 Score: 80
Period size: 20 Copynumber: 3.9 Consensus size: 21
23537279 ATTAATATCC
23537289 AAAT-AAGTAATAAATAAT-A
1 AAATAAAGTAATAAATAATAA
23537308 AAATAAAGTAATAAATAAAGTAA
1 AAATAAAGTAATAAAT-AA-TAA
* *
23537331 TAAATAAAGTAAAGAAAAAATAA
1 -AAATAAAGT-AATAAATAATAA
23537354 AAATAAA-TAA-AAATAA
1 AAATAAAGTAATAAATAA
23537370 AAATTGGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.17
20 13 0.25
21 3 0.06
22 8 0.15
23 4 0.08
24 11 0.21
25 5 0.09
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (21 bp):
AAATAAAGTAATAAATAATAA
Found at i:23537365 original size:16 final size:17
Alignment explanation
Indices: 23537297--23537373 Score: 70
Period size: 17 Copynumber: 4.5 Consensus size: 17
23537287 CCAAATAAGT
*
23537297 AATAAATAATAAAAT-AA
1 AATAAA-AATAAAGTAAA
*
23537314 AGTAATAAATAAAGTAATA
1 AATAA-AAATAAAGTAA-A
* *
23537333 AAT-AAAGTAAAGAAAA
1 AATAAAAATAAAGTAAA
23537349 AATAAAAATAAA-TAAA
1 AATAAAAATAAAGTAAA
23537365 AATAAAAAT
1 AATAAAAAT
23537374 TGGGTTGCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
16 16 0.33
17 27 0.55
18 3 0.06
19 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAAGTAAA
Found at i:23543562 original size:15 final size:14
Alignment explanation
Indices: 23543541--23543576 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
23543531 ATAATCATTA
*
23543541 ATAATTATCTTAAT
1 ATAATTATCCTAAT
23543555 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
23543570 ATAATTA
1 ATAATTA
23543577 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:23551847 original size:15 final size:17
Alignment explanation
Indices: 23551817--23551848 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23551807 GAGAGTTTGA
23551817 AAATGAGATCGAAAAAG
1 AAATGAGATCGAAAAAG
23551834 AAATGAG-T-GAAAAAG
1 AAATGAGATCGAAAAAG
23551849 TCGAAAGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.25, T:0.12
Consensus pattern (17 bp):
AAATGAGATCGAAAAAG
Found at i:23556909 original size:49 final size:49
Alignment explanation
Indices: 23556826--23556922 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
23556816 ATCTATTTAT
* *
23556826 AGGTTGAAAAACCTTATTCTAATCAATCATAAATAGATAC-AGTATAGTA
1 AGGTTGAAAAACCTTAATCTAATCAATCATAAATA-AAACAAGTATAGTA
23556875 AGGTTGAAAAACCTTAATCTAATCAAT-ATAAAATAAAACAAGTATAGT
1 AGGTTGAAAAACCTTAATCTAATCAATCAT-AAATAAAACAAGTATAGT
23556923 TCTATATAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 5 0.11
49 39 0.89
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (49 bp):
AGGTTGAAAAACCTTAATCTAATCAATCATAAATAAAACAAGTATAGTA
Found at i:23559876 original size:17 final size:17
Alignment explanation
Indices: 23559850--23559893 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
23559840 ATAGGTCTCC
*
23559850 AACGAACTTCCAACCCA
1 AACGAGCTTCCAACCCA
23559867 AACGAGCTTCCAACCCA
1 AACGAGCTTCCAACCCA
23559884 AACGAGCTTC
1 AACGAGCTTC
23559894 TGAGTAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.39, G:0.11, T:0.14
Consensus pattern (17 bp):
AACGAGCTTCCAACCCA
Found at i:23560284 original size:30 final size:30
Alignment explanation
Indices: 23560248--23560526 Score: 201
Period size: 30 Copynumber: 9.4 Consensus size: 30
23560238 GTTTGTCACC
*
23560248 ATCCCTTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* ** * * *
23560278 ATCCCTTTTCCTAGTTCAATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * * *
23560308 ATCCCTTTTCATTG-CTGATAGTCGTCATC-
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * * *
23560337 ATCCATTTTCATAATTCGATAGTCAAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* ** *
23560367 ATCTCTTTTCATTTTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* *
23560397 ATCTCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* * * * *
23560427 ATCCTTTTTCATAATTTGATGGTCGTTA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * *
23560457 ATCCCTTTTCATTG-TTGATGGTCGTCA-CT
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* *
23560486 ATCCCTTTTCATATTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
23560516 ATCCCTTTTCA
1 ATCCCTTTTCA
23560527 CTGGTCGATG
Statistics
Matches: 193, Mismatches: 49, Indels: 14
0.75 0.19 0.05
Matches are distributed among these distances:
29 48 0.25
30 143 0.74
31 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTGATAGTCGAAGCT
Found at i:23560477 original size:29 final size:29
Alignment explanation
Indices: 23560442--23560497 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
23560432 TTTTCATAAT
*
23560442 TTGATGGTCGTTACCATCCCTTTTCATTG
1 TTGATGGTCGTCACCATCCCTTTTCATTG
*
23560471 TTGATGGTCGTCACTATCCCTTTTCAT
1 TTGATGGTCGTCACCATCCCTTTTCAT
23560498 ATTTTGATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.45
Consensus pattern (29 bp):
TTGATGGTCGTCACCATCCCTTTTCATTG
Found at i:23560524 original size:149 final size:149
Alignment explanation
Indices: 23560252--23560526 Score: 390
Period size: 149 Copynumber: 1.8 Consensus size: 149
23560242 GTCACCATCC
* * *
23560252 CTTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTCCTAGTTCAATGGTCGTCACCATCCCTTTT
1 CTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTT
* *
23560317 CATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGTCAAAGCTATCTCTTTTCATTTT
66 CATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATTTT
23560382 TTGATAGCCGAAGCTATCT
131 TTGATAGCCGAAGCTATCT
* * ** *
23560401 CTTTTCATAGTTCGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCGTTACCATCCCTTTT
1 CTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTT
* * * * * *
23560466 CATTGTTGATGGTCGTCA-CTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCA
66 CATTGCTGATAGTCGTCATC-ATCCATTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCA
23560527 CTGGTCGATG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
148 1 0.01
149 108 0.99
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (149 bp):
CTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTT
CATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATTTT
TTGATAGCCGAAGCTATCT
Found at i:23560535 original size:119 final size:120
Alignment explanation
Indices: 23560242--23560528 Score: 316
Period size: 119 Copynumber: 2.4 Consensus size: 120
23560232 CACAATGTTT
* * * * *
23560242 GTCACCATCCCTTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTC-CTAGTTCAATGGTCGTCA
1 GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTTCGATAGTCGTAA
*
23560306 CCATCCCTTTTCATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGTC
66 CCATCCCTTTTCATTGCTGATAGTCGTCACCATCCATTTTCATAATTCGATAGTC
** * * *
23560361 -AAAGCTATCTCTTTTCATTTTTTGATAGCCGAAGCTATCTCTTTTCA-TAGTTCGATAGTCG-A
1 GTCA-CTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTTCGATAGTCGTA
* * * * * * ** *
23560423 AGCTATCCTTTTTCATAAT-TTGATGGTCGTTACCATCCCTTTTCATTGTT-GATGGTC
65 A-CCATCCCTTTTCAT--TGCTGATAGTCGTCACCATCCATTTTCATAATTCGATAGTC
23560480 GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACT
1 GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACT
23560529 GGTCGATGAT
Statistics
Matches: 136, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
118 2 0.01
119 107 0.79
120 26 0.19
121 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (120 bp):
GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTTCGATAGTCGTAA
CCATCCCTTTTCATTGCTGATAGTCGTCACCATCCATTTTCATAATTCGATAGTC
Found at i:23564580 original size:3 final size:3
Alignment explanation
Indices: 23564574--23564622 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
23564564 ATATAGTAAT
* *
23564574 GAG GAG GAG GAG GAG AAG AAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
23564622 G
1 G
23564623 TGGTGGCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:23566580 original size:24 final size:24
Alignment explanation
Indices: 23566548--23566597 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23566538 TAATTTGGAG
23566548 TTCTGTACCATAAGGTATAAATAA
1 TTCTGTACCATAAGGTATAAATAA
23566572 TTCTGTACCATAAGGTATAAATAA
1 TTCTGTACCATAAGGTATAAATAA
23566596 TT
1 TT
23566598 TAGTGACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (24 bp):
TTCTGTACCATAAGGTATAAATAA
Found at i:23576463 original size:21 final size:21
Alignment explanation
Indices: 23576437--23576495 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
23576427 AGCAACAGAA
*
23576437 TTCTACCGATAGAACT-GGGAG
1 TTCTACCGATACAACTCGGG-G
* *
23576458 TTCTACCGAGACAACTCTGGG
1 TTCTACCGATACAACTCGGGG
23576479 TTCTACCGATACAACTC
1 TTCTACCGATACAACTC
23576496 AAACTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (21 bp):
TTCTACCGATACAACTCGGGG
Found at i:23576817 original size:122 final size:122
Alignment explanation
Indices: 23576592--23576819 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
23576582 GTTATACATA
* * *
23576592 TACCTTGAGGACTTCTACTGAAATAAGTCAAAACAGTAGCCAAAGTTCAGCCCCTCCTGCATTTC
1 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCCCCTCCTGCACTTC
* ** ** * * **
23576657 TATCGGTACTCTGTTGGGTTCTACCGATACCAGTTGAAACCACCAGAGTTCTACCGC
66 TACCAATACTCTGACGAGCTCTACCGATACCACATGAAACCACCAGAGTTCTACCGC
23576714 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCCTCC-CCTGCACTT
1 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCC-CCTCCTGCACTT
* * *
23576778 CTACCAATACTTTGACGAGCTCTATCGATACTACATGAAACC
65 CTACCAATACTCTGACGAGCTCTACCGATACCACATGAAACC
23576820 CTCAAAGTTG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
122 88 0.98
123 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (122 bp):
TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCCCCTCCTGCACTTC
TACCAATACTCTGACGAGCTCTACCGATACCACATGAAACCACCAGAGTTCTACCGC
Found at i:23580682 original size:33 final size:33
Alignment explanation
Indices: 23580645--23580709 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
23580635 ATAATGTTAG
*
23580645 CGGATTTGAAGTGTGTAGAATATTTTTTTTAAA
1 CGGATTTGAAGTGTGTAGAACATTTTTTTTAAA
*
23580678 CGGATTTGAAGTGTGTAGCACATTTTTTTTAA
1 CGGATTTGAAGTGTGTAGAACATTTTTTTTAA
23580710 GGTTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.45
Consensus pattern (33 bp):
CGGATTTGAAGTGTGTAGAACATTTTTTTTAAA
Found at i:23583888 original size:47 final size:47
Alignment explanation
Indices: 23583834--23583928 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
23583824 ATCAATGATG
*
23583834 TAAATGGATACGACACATGTGTTTAGGGTCTAATTGTGAAAATAGAC
1 TAAATGGATACGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
*
23583881 TAAATGGATATGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
1 TAAATGGATACGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
23583928 T
1 T
23583929 CATTTTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (47 bp):
TAAATGGATACGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
Found at i:23589839 original size:21 final size:21
Alignment explanation
Indices: 23589810--23589864 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
23589800 CACGGTTGGA
* * *
23589810 CACACGGGCATGTGGGGTAGT
1 CACATGGGCATGTGGGATAGC
*
23589831 CACATGGGCGTGTGGGATAGC
1 CACATGGGCATGTGGGATAGC
* *
23589852 CACCTGGCCATGT
1 CACATGGGCATGT
23589865 TTGGAGCCAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.20
Consensus pattern (21 bp):
CACATGGGCATGTGGGATAGC
Found at i:23589990 original size:36 final size:36
Alignment explanation
Indices: 23589950--23590021 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
23589940 TGATTTGTTC
23589950 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
1 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
23589986 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
1 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
23590022 GGCCACGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.44
Consensus pattern (36 bp):
TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
Found at i:23595258 original size:61 final size:61
Alignment explanation
Indices: 23595186--23595301 Score: 223
Period size: 61 Copynumber: 1.9 Consensus size: 61
23595176 CACAAACTCT
*
23595186 ACCTCTAAATAGTAAGTAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTCCACAAA
1 ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTCCACAAA
23595247 ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTC
1 ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTC
23595302 ATTTCATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (61 bp):
ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTCCACAAA
Found at i:23598356 original size:20 final size:19
Alignment explanation
Indices: 23598330--23598469 Score: 111
Period size: 20 Copynumber: 7.1 Consensus size: 19
23598320 ATAAATACAT
23598330 AACAGAGGCACCGAAGTGC
1 AACAGAGGCACCGAAGTGC
* **
23598349 AGACAGAGGCACGGTTGTGC
1 A-ACAGAGGCACCGAAGTGC
*
23598369 AATCAGAGGCACCAAAGTGC
1 AA-CAGAGGCACCGAAGTGC
* * *
23598389 AAACAAAGACACCGAAGTGT
1 -AACAGAGGCACCGAAGTGC
* *
23598409 AATAGAGGCACC-AGATTGC
1 AACAGAGGCACCGA-AGTGC
** *
23598428 AAGCAGAGGTGCCAAAGTGC
1 AA-CAGAGGCACCGAAGTGC
23598448 AAACAGAGGCACCGAAGTGC
1 -AACAGAGGCACCGAAGTGC
23598468 AA
1 AA
23598470 TCCCGTACAA
Statistics
Matches: 91, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.01
19 18 0.20
20 67 0.74
21 5 0.05
ACGTcount: A:0.39, C:0.22, G:0.29, T:0.10
Consensus pattern (19 bp):
AACAGAGGCACCGAAGTGC
Found at i:23604570 original size:50 final size:50
Alignment explanation
Indices: 23604435--23604826 Score: 347
Period size: 50 Copynumber: 7.9 Consensus size: 50
23604425 TGGATCTATT
* * * * * * ** * *
23604435 TGCCAGGTAAGTAAGATTCACTATCGTAGCTTTAATCTATTTAAATACAA
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * *
23604485 TGTCGGGGAAGCAAGATTCGC-GTTGTAGCTTCAATCTGTTCCACTGCAC
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * **
23604534 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAA
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* ** * *
23604584 TGTCAGGGAAGCAAGATTTTCTGTTGTAGCTTCAATCTGTTCCACTGCAT
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * ** *
23604634 TGCCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTACAA
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * * * *
23604684 TGTCGGGGAAGCAAGATTCTCTGTTGTAGCCTCAATTTATTCCACTGCAC
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * ** *
23604734 CGCCGGGGAAGTC-AGATTTGCTGTTGTAGCTTCAATCTATTTAACTACAA
1 TGCCAGGGAAG-CAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * * *
23604784 TGTCGGGGAAGCAAGATTCACTGTTATAGCTTCAATCTGTTCC
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCC
23604827 GCTGTAACGT
Statistics
Matches: 268, Mismatches: 71, Indels: 6
0.78 0.21 0.02
Matches are distributed among these distances:
49 36 0.13
50 231 0.86
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (50 bp):
TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
Found at i:23604659 original size:100 final size:100
Alignment explanation
Indices: 23604436--23604826 Score: 577
Period size: 100 Copynumber: 3.9 Consensus size: 100
23604426 GGATCTATTT
* * * * *
23604436 GCCAGGTAAGTAAGATTCACTATCGTAGCTTTAATCTATTTAAATACAATGTCGGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
*
23604501 TTCGC-GTTGTAGCTTCAATCTGTTCCACTGCACC
66 TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
* *
23604535 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
* **
23604600 TTTTCTGTTGTAGCTTCAATCTGTTCCACTGCATT
66 TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
**
23604635 GCCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
* * *
23604700 TTCTCTGTTGTAGCCTCAATTTATTCCACTGCACC
66 TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
* * **
23604735 GCCGGGGAAGTCAGATTTGCTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
* *
23604800 TTCACTGTTATAGCTTCAATCTGTTCC
66 TTCTCTGTTGTAGCTTCAATCTGTTCC
23604827 GCTGTAACGT
Statistics
Matches: 261, Mismatches: 30, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
99 61 0.23
100 200 0.77
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (100 bp):
GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
Found at i:23605513 original size:38 final size:37
Alignment explanation
Indices: 23605457--23605529 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 37
23605447 TGAATGAATT
23605457 AATCAAGATAGCAAATTTTGCCAAAAATACAAAATGGG
1 AATCAAGATAGCAAATTTTGCC-AAAATACAAAATGGG
**
23605495 AATCAAGATAGCGTATTTTGCCAAAATACAAAATG
1 AATCAAGATAGCAAATTTTGCCAAAATACAAAATG
23605530 AATGAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 13 0.39
38 20 0.61
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (37 bp):
AATCAAGATAGCAAATTTTGCCAAAATACAAAATGGG
Found at i:23609781 original size:18 final size:18
Alignment explanation
Indices: 23609760--23609795 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23609750 TGCCTTTCGC
23609760 CTCTATTACCTCTTTTCT
1 CTCTATTACCTCTTTTCT
23609778 CTCTATTACCTCTTTTCT
1 CTCTATTACCTCTTTTCT
23609796 AACTCTTTCC
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:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (18 bp):
CTCTATTACCTCTTTTCT
Found at i:23617647 original size:14 final size:14
Alignment explanation
Indices: 23617628--23617678 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
23617618 TCCTTTGTCC
23617628 TTTTCTTTTTTGTT
1 TTTTCTTTTTTGTT
*
23617642 TTTTCTTTTCTGTT
1 TTTTCTTTTTTGTT
*
23617656 TGTTGCTTTCTTTTGTT
1 T-TTTC-TT-TTTTGTT
23617673 TTTTCT
1 TTTTCT
23617679 CTTGTTGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 5 0.17
17 7 0.23
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTTTGTT
Found at i:23617651 original size:19 final size:20
Alignment explanation
Indices: 23617627--23617676 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
23617617 TTCCTTTGTC
*
23617627 CTTTTCTTTTTTGTT-TTTT
1 CTTTTCTTTTTTGTTGCTTT
*
23617646 CTTTTC-TGTTTGTTGCTTT
1 CTTTTCTTTTTTGTTGCTTT
*
23617665 CTTTTGTTTTTT
1 CTTTTCTTTTTT
23617677 CTCTTGTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
20 4 0.16
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (20 bp):
CTTTTCTTTTTTGTTGCTTT
Found at i:23618017 original size:28 final size:28
Alignment explanation
Indices: 23617982--23618038 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23617972 AGTTCAGGGA
23617982 AAAATTTAAAATTTTCAAAATAAGGGTC
1 AAAATTTAAAATTTTCAAAATAAGGGTC
*
23618010 AAAATTTAAAATTTTTAAAATAAGGGTC
1 AAAATTTAAAATTTTCAAAATAAGGGTC
23618038 A
1 A
23618039 CACGTCCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (28 bp):
AAAATTTAAAATTTTCAAAATAAGGGTC
Found at i:23618893 original size:41 final size:41
Alignment explanation
Indices: 23618847--23618930 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
23618837 TCACTAGCAC
* * *
23618847 AAAGCCTGCTAGGCTCAAGG-TCAGATACAATACACCGGCAT
1 AAAGCCTGCTAGGCCCAAGGCCCA-ATACAATACACCGCCAT
23618888 AAAGCCTGCTAGGCCCAAGGCCCAATACAATACACCGCCAT
1 AAAGCCTGCTAGGCCCAAGGCCCAATACAATACACCGCCAT
23618929 AA
1 AA
23618931 CAACTCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (41 bp):
AAAGCCTGCTAGGCCCAAGGCCCAATACAATACACCGCCAT
Found at i:23630966 original size:27 final size:27
Alignment explanation
Indices: 23630928--23631112 Score: 230
Period size: 27 Copynumber: 6.8 Consensus size: 27
23630918 AAAACGCCAA
23630928 GAAATGGAAGCCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* *
23630955 GAAATAGAAGCCTTTGTGGCGATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* * *
23630982 GAAATGAAATCCTTTATGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
*
23631009 GAAATGGAAGTCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
*
23631036 GAAAGGGAAGCCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* * *
23631063 GAAATAGAAGCCCTTT-TGGCGATCTAAG
1 GAAATGGAAG-CCTTTGTGGCAATCT-AT
*
23631091 GAAA-GGAAAGCCCTTGTGGCAA
1 GAAATGG-AAGCCTTTGTGGCAA
23631113 ATGGAGAAAG
Statistics
Matches: 134, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
27 116 0.87
28 18 0.13
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (27 bp):
GAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:23635808 original size:19 final size:19
Alignment explanation
Indices: 23635784--23635823 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23635774 AAATTAATTT
*
23635784 AATTAA-CTAACTGCAAGTG
1 AATTAACCTAAATGCAA-TG
23635803 AATTAACCTAAATGCAATG
1 AATTAACCTAAATGCAATG
23635822 AA
1 AA
23635824 ATGGTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (19 bp):
AATTAACCTAAATGCAATG
Found at i:23639468 original size:23 final size:23
Alignment explanation
Indices: 23639437--23639489 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
23639427 ACCTACTTTC
* *
23639437 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
23639460 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
23639483 TTACAGT
1 TTACAGT
23639490 CAATCCCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:23641581 original size:20 final size:20
Alignment explanation
Indices: 23641556--23641599 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23641546 AAATCTGAAA
23641556 TTTTAA-AGGAATTTATTTAT
1 TTTTAACAGGAATTT-TTTAT
**
23641576 TTTTAACATTAATTTTTTAT
1 TTTTAACAGGAATTTTTTAT
23641596 TTTT
1 TTTT
23641600 TTGAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTAACAGGAATTTTTTAT
Found at i:23645034 original size:120 final size:119
Alignment explanation
Indices: 23644780--23645052 Score: 282
Period size: 119 Copynumber: 2.3 Consensus size: 119
23644770 CTGCTCAAAT
* *
23644780 ATAGTAGTAATCCATAACTTCTAAGTCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
1 ATAGTAGTAATCCATAACTTCTTAGCCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
* * * * * * * * *
23644845 ATCGAATTGGTATATACTGCACATGTGAGTAGATATACCTGCTCCAAATATGGG
66 ATCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
* * * * * * *
23644899 ACAGTAGTAATCCATAATTTCTTGGCCCAAGAAC-AATTTCTTATTTACGGA-TTCGCAGATTCA
1 ATAGTAGTAATCCATAACTTCTTAGCCCAA-AACAAATATCTTATTCACAGAGTT-GCAAATTCA
* *
23644962 TCATCGAATTGATAAAAAACTGAACATGTAAGAACATACACCTGCTCGAGATATAAGG
64 TCATCGAATTGAT-AAAAACTGAACATGTAAGAACATACACCTGCTCCAAATAT-AGG
* *
23645020 -TAGTAGTAATCCATAAGTTCTTAGTCCTAAAAC
1 ATAGTAGTAATCCATAACTTCTTAG-CCCAAAAC
23645053 GATGTCTTAT
Statistics
Matches: 125, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
118 2 0.02
119 59 0.47
120 58 0.46
121 6 0.05
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (119 bp):
ATAGTAGTAATCCATAACTTCTTAGCCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
ATCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
Found at i:23645061 original size:120 final size:118
Alignment explanation
Indices: 23644780--23645067 Score: 301
Period size: 120 Copynumber: 2.4 Consensus size: 118
23644770 CTGCTCAAAT
* *
23644780 ATAGTAGTAATCCATAACTTCTAAGTCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
1 ATAGTAGTAATCCATAACTTCTTAGTCCAAAAC-AATATCTTATTTACAGAGTTGCAAATTCATC
* * * * * * * * *
23644845 ATCGAATTGGTATATACTGCACATGTGAGTAGATATACCTGCTCCAAATATGGG
65 ATCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
* * * * * * *
23644899 ACAGTAGTAATCCATAATTTCTTGGCCCAAGAACAATTTCTTATTTACGGA-TTCGCAGATTCAT
1 ATAGTAGTAATCCATAACTTCTTAGTCCAA-AACAATATCTTATTTACAGAGTT-GCAAATTCAT
* *
23644963 CATCGAATTGATAAAAAACTGAACATGTAAGAACATACACCTGCTCGAGATATAAGG
64 CATCGAATTGAT-AAAAACTGAACATGTAAGAACATACACCTGCTCCAAATAT-AGG
* * *
23645020 -TAGTAGTAATCCATAAGTTCTTAGTCCTAAAACGATGTCTTATTTACA
1 ATAGTAGTAATCCATAACTTCTTAGTCC-AAAACAATATCTTATTTACA
23645068 TATATCATCT
Statistics
Matches: 137, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
118 2 0.01
119 59 0.43
120 72 0.53
121 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (118 bp):
ATAGTAGTAATCCATAACTTCTTAGTCCAAAACAATATCTTATTTACAGAGTTGCAAATTCATCA
TCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
Found at i:23646824 original size:19 final size:19
Alignment explanation
Indices: 23646796--23646833 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23646786 TCTCTTCATC
*
23646796 GCTGGTTCTTTGTTCCTCT
1 GCTGGGTCTTTGTTCCTCT
23646815 GCTGGGTCTTTGTTCCTCT
1 GCTGGGTCTTTGTTCCTCT
23646834 TCTCCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.24, T:0.50
Consensus pattern (19 bp):
GCTGGGTCTTTGTTCCTCT
Found at i:23647232 original size:14 final size:14
Alignment explanation
Indices: 23647194--23647226 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23647184 GCCAAACAAT
*
23647194 TTCTGGCATTTTAG
1 TTCTAGCATTTTAG
23647208 TTCTAGCATTTTAG
1 TTCTAGCATTTTAG
23647222 TTCTA
1 TTCTA
23647227 CAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TTCTAGCATTTTAG
Found at i:23649346 original size:13 final size:13
Alignment explanation
Indices: 23649322--23649386 Score: 78
Period size: 13 Copynumber: 4.9 Consensus size: 13
23649312 CACTCAATTT
23649322 TTTTCAAAAAGCA-
1 TTTTC-AAAAGCAC
23649335 TTTCTCAAAAGCAC
1 TTT-TCAAAAGCAC
* **
23649349 TTTTCCACGGCAC
1 TTTTCAAAAGCAC
23649362 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
23649375 TTTTCAAAAGCA
1 TTTTCAAAAGCA
23649387 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
13 39 0.89
14 5 0.11
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:23661762 original size:30 final size:30
Alignment explanation
Indices: 23661728--23661790 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
23661718 ATGGGCTATC
23661728 ACATGG-CTGTGTGACACACACGGCCTGGCT
1 ACATGGTC-GTGTGACACACACGGCCTGGCT
23661758 ACATGGTCGTGTGACACACACGGCCTGGCT
1 ACATGGTCGTGTGACACACACGGCCTGGCT
23661788 ACA
1 ACA
23661791 CCGTTGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (30 bp):
ACATGGTCGTGTGACACACACGGCCTGGCT
Found at i:23661800 original size:30 final size:30
Alignment explanation
Indices: 23661735--23661800 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
23661725 ATCACATGGC
**
23661735 TGTGTGACACACACGGCCTGGCTACATGGT
1 TGTGTGACACACACGGCCTGGCTACACCGT
*
23661765 CGTGTGACACACACGGCCTGGCTACACCGT
1 TGTGTGACACACACGGCCTGGCTACACCGT
23661795 TGTGTG
1 TGTGTG
23661801 GCAACTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.29, G:0.30, T:0.23
Consensus pattern (30 bp):
TGTGTGACACACACGGCCTGGCTACACCGT
Found at i:23669309 original size:23 final size:22
Alignment explanation
Indices: 23669250--23669316 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
23669240 ATAAAATTGT
*
23669250 GGTGTATTTGAATGGATGAATTA
1 GGTGTATTTGAATGGATG-TTTA
23669273 GGATG--TTTGAAATGGTATGTTTA
1 GG-TGTATTTG-AATGG-ATGTTTA
23669296 GGTGTATTTGAAT-GATGTTTA
1 GGTGTATTTGAATGGATGTTTA
23669317 AATCCCTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
21 7 0.18
22 7 0.18
23 15 0.39
24 9 0.24
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (22 bp):
GGTGTATTTGAATGGATGTTTA
Found at i:23677858 original size:26 final size:26
Alignment explanation
Indices: 23677806--23677858 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23677796 AAAATTATTT
*
23677806 TAAAATTTTAAAATTTATTAAAAATA
1 TAAAATTTTAAAATTTATCAAAAATA
* *
23677832 TAAATTTTTTAAATTT-TCAAAAGATA
1 TAAAATTTTAAAATTTATCAAAA-ATA
23677858 T
1 T
23677859 GATAGTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAATTTTAAAATTTATCAAAAATA
Found at i:23682426 original size:12 final size:12
Alignment explanation
Indices: 23682409--23682433 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23682399 CATAAGTTTT
23682409 TAAATTTAAATA
1 TAAATTTAAATA
23682421 TAAATTTAAATA
1 TAAATTTAAATA
23682433 T
1 T
23682434 TCTCTTGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:23683341 original size:90 final size:90
Alignment explanation
Indices: 23683190--23683393 Score: 299
Period size: 90 Copynumber: 2.3 Consensus size: 90
23683180 AATTTTTAAT
* *
23683190 AAAAGCAGGGGCTTAATTGC-TTTTTTTGAAAAAGTTTGAGGGTCTTTTCGATGCATTTTGAAAG
1 AAAAACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTCGATGCATTTTGAAAG
*
23683254 TTCAAGTACCCAATTGAGTG-AAAA
66 TTCAAGTACCCAAATGAGTGTAAAA
** * * *
23683278 AAAAGGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTTAGGGCCTTTTTGATGCATTTTGAAA
1 AAAA-ACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTCGATGCATTTTGAAA
23683343 GTTCAAGTACCCAAATGAGTGTAAAA
65 GTTCAAGTACCCAAATGAGTGTAAAA
23683369 AAAAACAGGGGCTTAATT--TTTTTTT
1 AAAAACAGGGGCTTAATTGCTTTTTTT
23683394 AAATTTGAGG
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
88 11 0.10
89 15 0.14
90 71 0.68
91 8 0.08
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (90 bp):
AAAAACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTCGATGCATTTTGAAAG
TTCAAGTACCCAAATGAGTGTAAAA
Found at i:23683863 original size:33 final size:33
Alignment explanation
Indices: 23683820--23683882 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
23683810 AGTCTCATTT
* *
23683820 CCCTTGTTTTCTTAAGTAATGTGAGATATGAGA
1 CCCTTATTTTCTTAAATAATGTGAGATATGAGA
*
23683853 CCCTTATTTTCTTAAATAATGTGGGATATG
1 CCCTTATTTTCTTAAATAATGTGAGATATG
23683883 GGATATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (33 bp):
CCCTTATTTTCTTAAATAATGTGAGATATGAGA
Found at i:23685558 original size:13 final size:13
Alignment explanation
Indices: 23685540--23685564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23685530 TGTCATCTGA
23685540 TACACATAGTACC
1 TACACATAGTACC
23685553 TACACATAGTAC
1 TACACATAGTAC
23685565 TACGCACGTG
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:23685667 original size:51 final size:51
Alignment explanation
Indices: 23685503--23685726 Score: 190
Period size: 51 Copynumber: 4.4 Consensus size: 51
23685493 TTCGGTGGTT
* * * * * *
23685503 TGCACATAGTACCACCCATGTGACCATTGTCATCTGATACACATAGTA-CC
1 TGCACATAGTACTACACACGTGACCAATGCCATTTGATACACATAGTAGCC
* * * * * * *
23685553 TACACATAGTACTACGCACGTGATCAA-G-C-TTTCCAGTTCACGTAATAGCC
1 TGCACATAGTACTACACACGTGACCAATGCCATTT-GA-TACACATAGTAGCC
*
23685603 TGCACATAGTACTACACACGTGACCAATGCCATTTGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCAATGCCATTTGATACACATAGTAGCC
* * ** *
23685654 TGCACATAGTACTACACATGTGACCATTAT-CTA-ACGATACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCA--ATGCCATTTGATACACATAGTAGCC
*
23685705 TGCACTTAGTACTACACACGTG
1 TGCACATAGTACTACACACGTG
23685727 TTCATAGGTA
Statistics
Matches: 139, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 9 0.06
50 47 0.34
51 71 0.51
52 3 0.02
53 5 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TGCACATAGTACTACACACGTGACCAATGCCATTTGATACACATAGTAGCC
Found at i:23693217 original size:51 final size:52
Alignment explanation
Indices: 23693155--23693379 Score: 208
Period size: 51 Copynumber: 4.4 Consensus size: 52
23693145 TTCGGTGGTT
* * *
23693155 TGCACATAGTACCACCCATGTGACCATTGTC-ATCCGATACACGGAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* * * * * * *
23693206 TACACATAGTACTACACACGTGATCA-AG-CTTTCTGGTTCACGGAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* * * * * **
23693256 TGCACATAGTACTACACACGTGACCA-AGGCCATCTGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* * * *
23693307 TGCACATAGTACTACACATGTGACCATTATCTAT-CGATACGCGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* *
23693358 TGCACTTAGTACTACGCACGTG
1 TGCACATAGTACTACACACGTG
23693380 TTCATAGGTA
Statistics
Matches: 142, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 43 0.30
51 95 0.67
52 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (52 bp):
TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
Found at i:23707962 original size:27 final size:26
Alignment explanation
Indices: 23707839--23707992 Score: 146
Period size: 27 Copynumber: 5.7 Consensus size: 26
23707829 AACATGTCAA
* *
23707839 AAAAGAATAGCCTTTATGACGTATTGC
1 AAAAGAATAGCCTTTGTGGCGTATT-C
* **
23707866 AAAAGAATATCCTTTGTGATGTATTAC
1 AAAAGAATAGCCTTTGTGGCGTATT-C
** *
23707893 AAAAGAATAGCCTTTGTGGCAAAGTTT
1 AAAAGAATAGCCTTTGTGGCGTA-TTC
*
23707920 AAAATAATAGCCTTTGTGGCGTATTAC
1 AAAAGAATAGCCTTTGTGGCGTATT-C
* * * *
23707947 AAAAGACTAGCCTTTGTGGAGAAGTC
1 AAAAGAATAGCCTTTGTGGCGTATTC
23707973 TAAAAGAATAGCCTTTGTGG
1 -AAAAGAATAGCCTTTGTGG
23707993 GGAACTTTAG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.03
27 99 0.95
28 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAAGAATAGCCTTTGTGGCGTATTC
Found at i:23707979 original size:81 final size:81
Alignment explanation
Indices: 23707839--23707992 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
23707829 AACATGTCAA
* * * *
23707839 AAAAGAATAGCCTTTATGACGTATTGCAAAAGAATATCCTTTGTGATGTATTACAAAAGAATAGC
1 AAAAGAATAGCCTTTATGACGTATTACAAAAGAATAGCCTTTGTGATGAAGTACAAAAGAATAGC
23707904 CTTTGTGGCAAAGTTT
66 CTTTGTGGCAAAGTTT
* * * *
23707920 AAAATAATAGCCTTTGTGGCGTATTACAAAAGACTAGCCTTTGTGGA-GAAGT-CTAAAAGAATA
1 AAAAGAATAGCCTTTATGACGTATTACAAAAGAATAGCCTTTGT-GATGAAGTAC-AAAAGAATA
23707983 GCCTTTGTGG
64 GCCTTTGTGG
23707993 GGAACTTTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.95
82 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (81 bp):
AAAAGAATAGCCTTTATGACGTATTACAAAAGAATAGCCTTTGTGATGAAGTACAAAAGAATAGC
CTTTGTGGCAAAGTTT
Found at i:23707992 original size:54 final size:54
Alignment explanation
Indices: 23707866--23707992 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
23707856 GACGTATTGC
* ** *
23707866 AAAAGAATATCCTTTGTGATGTATTACAAAAGAATAGCCTTTGTGGCAAAGTTT
1 AAAAGAATAGCCTTTGTGGCGTATTACAAAAGAATAGCCTTTGTGGCAAAGTCT
* *
23707920 AAAATAATAGCCTTTGTGGCGTATTACAAAAGACTAGCCTTTGTGG-AGAAGTCT
1 AAAAGAATAGCCTTTGTGGCGTATTACAAAAGAATAGCCTTTGTGGCA-AAGTCT
23707974 AAAAGAATAGCCTTTGTGG
1 AAAAGAATAGCCTTTGTGG
23707993 GGAACTTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (54 bp):
AAAAGAATAGCCTTTGTGGCGTATTACAAAAGAATAGCCTTTGTGGCAAAGTCT
Found at i:23711286 original size:5 final size:5
Alignment explanation
Indices: 23711276--23711316 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
23711266 GATCAAAATC
23711276 TTTCT TTTCT TTTCT TTTCTT TTTCTT TTTCTT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTC-T TTTC-T TTTC-T TTTCT TTT
23711317 TATTTTCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTCT
Found at i:23711301 original size:6 final size:6
Alignment explanation
Indices: 23711276--23711322 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
23711266 GATCAAAATC
*
23711276 TTTC-T TTTC-T TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TTTATT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
23711321 TT
1 TT
23711323 CCTCTCTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
5 14 0.35
6 26 0.65
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:23712107 original size:25 final size:25
Alignment explanation
Indices: 23712051--23712107 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
23712041 TCTCATGCTC
*** *
23712051 GTGATATGTGATGAATTGCTTATGT
1 GTGATATGTGATGAATTAAATATAT
* *
23712076 GTTATATGTGATGATTTAAATATAT
1 GTGATATGTGATGAATTAAATATAT
23712101 GTGATAT
1 GTGATAT
23712108 ATATGTATAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.46
Consensus pattern (25 bp):
GTGATATGTGATGAATTAAATATAT
Found at i:23712765 original size:29 final size:29
Alignment explanation
Indices: 23712732--23712790 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
23712722 TTTTATGGCT
23712732 ATGGACTATTT-TATTATTTTGGGACTTTC
1 ATGGACT-TTTATATTATTTTGGGACTTTC
*
23712761 ATGGACTTTTAAATTTTATTTTGGGACTTT
1 ATGGACTTTT--ATATTATTTTGGGACTTT
23712791 AATTTGTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 7 0.27
31 16 0.62
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (29 bp):
ATGGACTTTTATATTATTTTGGGACTTTC
Found at i:23714050 original size:22 final size:21
Alignment explanation
Indices: 23714034--23714083 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
23714024 GTGGTTTAAT
*
23714034 GGTGGTGATATGTTGGTTGTTG
1 GGTGGTGATATGATGGTT-TTG
23714056 GGTGGTGATATGATGGTTTTTG
1 GGTGGTGATATGATGG-TTTTG
23714078 GGTGGT
1 GGTGGT
23714084 ATTTCGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.10, C:0.00, G:0.46, T:0.44
Consensus pattern (21 bp):
GGTGGTGATATGATGGTTTTG
Found at i:23717506 original size:31 final size:33
Alignment explanation
Indices: 23717462--23717529 Score: 106
Period size: 31 Copynumber: 2.1 Consensus size: 33
23717452 GTTAAAGTTG
23717462 AATTCAATGTATTAAAAATA-AGTAATATTAATT
1 AATTCAATGTATTAAAAATAGA-TAATATTAATT
23717495 AATT-AAT-TATTAAAAATAGATAATATTAATT
1 AATTCAATGTATTAAAAATAGATAATATTAATT
23717526 AATT
1 AATT
23717530 TTTAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 26 0.76
32 4 0.12
33 4 0.12
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (33 bp):
AATTCAATGTATTAAAAATAGATAATATTAATT
Found at i:23717524 original size:27 final size:27
Alignment explanation
Indices: 23717492--23717544 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
23717482 AGTAATATTA
23717492 ATTAATTAATTATTAAAAATAGATAAT
1 ATTAATTAATTATTAAAAATAGATAAT
* *
23717519 ATTAATTAATTTTTAATAATAGATAA
1 ATTAATTAATTATTAAAAATAGATAA
23717545 AATCATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTAATTAATTATTAAAAATAGATAAT
Found at i:23719415 original size:41 final size:41
Alignment explanation
Indices: 23719365--23719442 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
23719355 AATAAAAAGA
23719365 ATACATAAAATTTATTCAATTGTTAGTTGAACCAATTTTTT
1 ATACATAAAATTTATTCAATTGTTAGTTGAACCAATTTTTT
* *
23719406 ATACTTAAAATTTATTTAATTGTTAGTTGAACCAATT
1 ATACATAAAATTTATTCAATTGTTAGTTGAACCAATT
23719443 CTTTGTTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (41 bp):
ATACATAAAATTTATTCAATTGTTAGTTGAACCAATTTTTT
Found at i:23722481 original size:25 final size:25
Alignment explanation
Indices: 23722427--23722500 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
23722417 ATTATTCATA
* *
23722427 GTTGACTAATTGACAGCTTAGCACT
1 GTTGACTAATTGATAGCCTAGCACT
* * *
23722452 CTTGACTAATAGATAGCCTAGTACT
1 GTTGACTAATTGATAGCCTAGCACT
23722477 GTTGACTAATTGATAGCCTAGCAC
1 GTTGACTAATTGATAGCCTAGCAC
23722501 AATCTTGCTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (25 bp):
GTTGACTAATTGATAGCCTAGCACT
Found at i:23733552 original size:15 final size:15
Alignment explanation
Indices: 23733528--23733565 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
23733518 TTAATTTAAT
*
23733528 TCAC-ATTCTCGTGC
1 TCACGATTCTCATGC
*
23733542 TCACGATTCTCATGT
1 TCACGATTCTCATGC
23733557 TCACGATTC
1 TCACGATTC
23733566 AATTCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (15 bp):
TCACGATTCTCATGC
Found at i:23737150 original size:22 final size:22
Alignment explanation
Indices: 23737122--23737166 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23737112 ATATGAAAGA
23737122 TAACTTCCAACTTCAATACCTT
1 TAACTTCCAACTTCAATACCTT
23737144 TAACTTCCAACTTCAATACCTT
1 TAACTTCCAACTTCAATACCTT
23737166 T
1 T
23737167 CCGATGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (22 bp):
TAACTTCCAACTTCAATACCTT
Found at i:23740801 original size:45 final size:45
Alignment explanation
Indices: 23740737--23740822 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
23740727 CTCGGTAGAT
* *
23740737 TCAGCACATAGCAACCACCTTATTAATCATTGATGTCCAGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCAGTGGAA
*
23740782 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCAGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCAGT
23740823 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCAGTGGAA
Found at i:23741468 original size:51 final size:51
Alignment explanation
Indices: 23741336--23741535 Score: 226
Period size: 51 Copynumber: 3.9 Consensus size: 51
23741326 TAAAAGTGAA
* *
23741336 AGTAATGGTCACGTGTGTAGTACTATGTGCAGGTTACTACGTGTACCGGA-
1 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
23741386 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
23741437 AGT-TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * * *
23741488 GGTAATGGTCACATGTATAATACTATGTGCAGGCTACTATGTGAACCG
1 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
23741536 AACATCATTG
Statistics
Matches: 123, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.02
50 40 0.33
51 78 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:23741600 original size:45 final size:45
Alignment explanation
Indices: 23741531--23741617 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
23741521 CTACTATGTG
*
23741531 AACCGAACATCATTGAGTAGTAAGGTGGTTGCTATGTGCTGATTC
1 AACCGAACATCATTGAGTAATAAGGTGGTTGCTATGTGCTGATTC
* *
23741576 AACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGA
1 AACCGAACATCATTGAGTAATAAGGTGGTTGCTATGTGCTGA
23741618 ATCCACTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
AACCGAACATCATTGAGTAATAAGGTGGTTGCTATGTGCTGATTC
Found at i:23743656 original size:21 final size:21
Alignment explanation
Indices: 23743630--23743703 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
23743620 TCGCATACGT
*
23743630 CCGTGTGAAAATTTCACACGC
1 CCGTGTGAAAATCTCACACGC
23743651 CCGTGTGAAAATCTCACACGC
1 CCGTGTGAAAATCTCACACGC
*
23743672 CCGTGTGGAAATCTCACACGC
1 CCGTGTGAAAATCTCACACGC
23743693 CCGTGTGAAAA
1 CCGTGTGAAAA
23743704 CACTGCACCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (21 bp):
CCGTGTGAAAATCTCACACGC
Found at i:23744003 original size:15 final size:15
Alignment explanation
Indices: 23743983--23744011 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23743973 ATGCCTCACA
23743983 CATCGTGTTATCAAT
1 CATCGTGTTATCAAT
23743998 CATCGTGTTATCAA
1 CATCGTGTTATCAA
23744012 GCAACAATAC
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:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
CATCGTGTTATCAAT
Done.