Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 50 of 120
Found at i:14595371 original size:30 final size:29
Alignment explanation
Indices: 14595052--14595363 Score: 351
Period size: 30 Copynumber: 10.5 Consensus size: 29
14595042 TTTTGAGGAA
* *
14595052 TTTAGGGTTAAAATGTAATTTTAGAAAAT
1 TTTAGGGTTAAAATGTAATTTTAGAGAAG
* *
14595081 TTTAGGGTTAAGATGTAATTTT-GGGAAAG
1 TTTAGGGTTAAAATGTAATTTTAGAG-AAG
*
14595110 TTTAGGGTTAAAAATGTAATTTTAGAGAAA
1 TTTAGGGTT-AAAATGTAATTTTAGAGAAG
*
14595140 TTTAAGGGTTAAAATATAATTTTAGAGAAG
1 TTT-AGGGTTAAAATGTAATTTTAGAGAAG
* *
14595170 TTTAAGGG-TAAAATGCAATTTTGGAGAAG
1 TTT-AGGGTTAAAATGTAATTTTAGAGAAG
*
14595199 TTTAGGGGTTAAACATGTAATTTTAGAGAAA
1 TTTA-GGGTTAAA-ATGTAATTTTAGAGAAG
* *
14595230 TTTGAGGGTTAAAGTGTAATTTTGGAGAAG
1 TTT-AGGGTTAAAATGTAATTTTAGAGAAG
14595260 TTTGAGGGTT-AAATGTAATTTTAGAGAAG
1 TTT-AGGGTTAAAATGTAATTTTAGAGAAG
* *
14595289 TTTATGGGTTAAAGTGTAATTTTAGAGAAA
1 TTTA-GGGTTAAAATGTAATTTTAGAGAAG
* * *
14595319 TTTGAGTGTGAAAATGTAATTTTGGAGAAG
1 TTT-AGGGTTAAAATGTAATTTTAGAGAAG
*
14595349 TTTCAGGGTCAAAAT
1 TTT-AGGGTTAAAAT
14595364 ATGATTTTTG
Statistics
Matches: 242, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.01
29 81 0.33
30 123 0.51
31 34 0.14
32 1 0.00
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (29 bp):
TTTAGGGTTAAAATGTAATTTTAGAGAAG
Found at i:14596798 original size:17 final size:16
Alignment explanation
Indices: 14596754--14596826 Score: 75
Period size: 17 Copynumber: 4.7 Consensus size: 16
14596744 AGGACATTAA
14596754 TAAATTTAAATAAATT
1 TAAATTTAAATAAATT
14596770 T-AATCTT---T-AATT
1 TAAAT-TTAAATAAATT
14596782 TAAATTTTAAATAAATT
1 TAAA-TTTAAATAAATT
*
14596799 TAAACTTAAAATAAATT
1 TAAA-TTTAAATAAATT
14596816 TAAATTTAAAT
1 TAAATTTAAAT
14596827 TCTGTTTGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
12 5 0.11
13 5 0.11
14 1 0.02
15 3 0.06
16 10 0.21
17 23 0.49
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATTTAAATAAATT
Found at i:14596802 original size:6 final size:6
Alignment explanation
Indices: 14596754--14596827 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
14596744 AGGACATTAA
*
14596754 TAAATT TAAA-- TAAATT T-AATCT TTAATT TAAATTT TAAA-- TAAATT
1 TAAATT TAAATT TAAATT TAAAT-T TAAATT TAAA-TT TAAATT TAAATT
* *
14596799 TAAACT TAAA-A TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
14596828 CTGTTTGGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 8 0.14
5 7 0.12
6 32 0.57
7 9 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
TAAATT
Found at i:14596827 original size:29 final size:28
Alignment explanation
Indices: 14596752--14596820 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
14596742 AAAGGACATT
*
14596752 AATAAATTTAAATAAATTTAATCTTTAA
1 AATAAATTTAAATAAATTTAAACTTTAA
**
14596780 TTTAAATTTTAAATAAATTTAAAC-TTAA
1 AATAAA-TTTAAATAAATTTAAACTTTAA
14596808 AATAAATTTAAAT
1 AATAAATTTAAAT
14596821 TTAAATTCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.20
28 12 0.34
29 16 0.46
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
AATAAATTTAAATAAATTTAAACTTTAA
Found at i:14597489 original size:39 final size:38
Alignment explanation
Indices: 14597414--14598128 Score: 284
Period size: 39 Copynumber: 18.3 Consensus size: 38
14597404 CCCTAAGCTT
* * * *
14597414 GGGGTAAGAGATTAGCTGATAGTTATCTG-CTCCAGGCTC
1 GGGGTAAAAGATT-GGTGATGGTGATCTGCCT-CAGGCTC
* * *
14597453 GGGGTAAGAGATTGGTTGATGGTGATTTACCTCAGGCTC
1 GGGGTAAAAGATTGG-TGATGGTGATCTGCCTCAGGCTC
* *
14597492 GGGGTAAAAGATCGG-G-TGGCTGCAATTTGTCCT-AGGCTC
1 GGGGTAAAAGATTGGTGATGG-TG--ATCTG-CCTCAGGCTC
* * * * *
14597531 GGGGTAAGAGATTGGCTAATGGTGATCTACCTCATGATC
1 GGGGTAAAAGATTGG-TGATGGTGATCTGCCTCAGGCTC
* * * *** *
14597570 AGGGTAAAAGATCAGATGACT-ACAATCTGCCTCAAGCTC
1 GGGGTAAAAGAT-TGGTGA-TGGTGATCTGCCTCAGGCTC
* *
14597609 GGGGTAAGAGATTGGCTGATGGTGATCTGCC-CTAAGCTC
1 GGGGTAAAAGATTGG-TGATGGTGATCTGCCTC-AGGCTC
* *
14597648 GGGGTAAAAGATTGG-G-TGGCTGCAATCTGCCCCAAGCTC
1 GGGGTAAAAGATTGGTGATGG-TG--ATCTGCCTCAGGCTC
* * *
14597687 GGGGTAAAAGATTGGTTGATGGTGATCTGGCTCATGATC
1 GGGGTAAAAGATTGG-TGATGGTGATCTGCCTCAGGCTC
* * *
14597726 GGGGTAAAAGA-TCG-GATGGCTACAATCTGCCTCAAGCTC
1 GGGGTAAAAGATTGGTGATGG-T--GATCTGCCTCAGGCTC
*
14597765 GGGGTAAGAGATTGGCTGATGGTGATCTGCC-CTAGGCTC
1 GGGGTAAAAGATTGG-TGATGGTGATCTGCCTC-AGGCTC
* * * *
14597804 GGGGTAAAAGATCGGGTAGCT-GTAATCTACCTCAGGCTC
1 GGGGTAAAAGAT-TGGT-GATGGTGATCTGCCTCAGGCTC
* * ** * *
14597843 GAGGTAAGAGATTAACTGATGGTGATCTGCCTCATGATC
1 GGGGTAAAAGATT-GGTGATGGTGATCTGCCTCAGGCTC
* ** *
14597882 AGGGTAAAAGA-TAAT-ATGGCTGTAAATCTGCC-CAAGGCTT
1 GGGGTAAAAGATTGGTGATGG-TG---ATCTGCCTC-AGGCTC
* * * * *
14597922 GGGGTAAGAGATTAGCTGATAGTGATCTGCCCCAAGCTC
1 GGGGTAAAAGATT-GGTGATGGTGATCTGCCTCAGGCTC
* * * * *
14597961 GGGGTAAAAGATCAGGT-CT-CTGCAATTTGCCCCAGGCAT-
1 GGGGTAAAAGAT-TGGTGATGGTG--ATCTGCCTCAGGC-TC
* * * * *
14598000 GGGGTAAGAGGTTGGCTGATGGTGATCTGCCCCAAGCTT
1 GGGGTAAAAGATTGG-TGATGGTGATCTGCCTCAGGCTC
* * * *
14598039 AGGGTAAAAGATT-G-GATGGCTGCAATCTACCCCAAGCTC
1 GGGGTAAAAGATTGGTGATGG-TG--ATCTGCCTCAGGCTC
* * * * *
14598078 AGGGTAAGAGATTTGTTGATGATGATCTACC-CTAGGCTC
1 GGGGTAAAAGA-TTGGTGATGGTGATCTGCCTC-AGGCTC
*
14598117 GAGGTAAAAGAT
1 GGGGTAAAAGAT
14598129 CAGATGAGTA
Statistics
Matches: 516, Mismatches: 102, Indels: 117
0.70 0.14 0.16
Matches are distributed among these distances:
36 20 0.04
37 15 0.03
38 20 0.04
39 390 0.76
40 39 0.08
41 11 0.02
42 18 0.03
43 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (38 bp):
GGGGTAAAAGATTGGTGATGGTGATCTGCCTCAGGCTC
Found at i:14597534 original size:78 final size:78
Alignment explanation
Indices: 14597438--14598134 Score: 638
Period size: 78 Copynumber: 8.9 Consensus size: 78
14597428 GCTGATAGTT
* * * *
14597438 ATCTGCTCC-AGGCTCGGGGTAAGAGATTGGTTGATGGTGATTTACCTCAGGCTCGGGGTAAAAG
1 ATCTGC-CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAG
*
14597502 ATCGGGTGGCTGCA
65 ATCGGATGGCTGCA
* * * * * * *
14597516 ATTTGTCCTAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTACCTCATGATCAGGGTAAAAGA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGA
* * *
14597581 TCAGATGACTACA
66 TCGGATGGCTGCA
*
14597594 ATCTG-CCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC-CTAAGCTCGGGGTAAAA
1 ATCTGCCCT-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AAGCTCGGGGTAAAA
* *
14597657 GATTGGGTGGCTGCA
64 GATCGGATGGCTGCA
* * * * * * *
14597672 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGTTGATGGTGATCTGGCTCATGATCGGGGTAAAAGA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGA
*
14597737 TCGGATGGCTACA
66 TCGGATGGCTGCA
* *
14597750 ATCTG-CCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC-CTAGGCTCGGGGTAAAA
1 ATCTGCCCT-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AAGCTCGGGGTAAAA
* * *
14597813 GATCGGGTAGCTGTA
64 GATCGGATGGCTGCA
* * ** * * *
14597828 ATCT-ACCTCAGGCTCGAGGTAAGAGATTAACTGATGGTGATCTGCCTCATGATCAGGGTAAAAG
1 ATCTGCCCT-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAG
*** *
14597892 ATAATATGGCTGTAA
65 ATCGGATGGCTG-CA
* * * * *
14597907 ATCTGCCCAAGGCTTGGGGTAAGAGATTAGCTGATAGTGATCTGCCCCAAGCTCGGGGTAAAAGA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGA
**
14597972 TCAGG-TCTCTGCA
66 TC-GGATGGCTGCA
* * * * **
14597985 ATTTGCCCCAGGCAT-GGGGTAAGAGGTTGGCTGATGGTGATCTGCCCCAAGCTTAGGGTAAAAG
1 ATCTGCCCTAGGC-TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAG
*
14598049 ATTGGATGGCTGCA
65 ATCGGATGGCTGCA
* * * * * * * * * *
14598063 ATCTACCCCAAGCTCAGGGTAAGAGATTTGTTGATGATGATCTACC-CTAGGCTCGAGGTAAAAG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AAGCTCGGGGTAAAAG
*
14598127 ATCAGATG
65 ATCGGATG
14598135 AGTACGATTT
Statistics
Matches: 506, Mismatches: 97, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
77 13 0.03
78 428 0.85
79 63 0.12
80 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (78 bp):
ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGA
TCGGATGGCTGCA
Found at i:14597665 original size:156 final size:156
Alignment explanation
Indices: 14597449--14598129 Score: 830
Period size: 156 Copynumber: 4.4 Consensus size: 156
14597439 TCTGCTCCAG
* **
14597449 GCTCGGGGTAAGAGATTGGTTGATGGTGAT-TTACCTCAGGCTCGGGGTAAAAGATCGGGTGGCT
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCT-AGGCTCGGGGTAAAAGATCGGGTGGCT
* * * * *
14597513 GCAATTTGTCCTAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTACCTCATGATCAGGGTAAA
65 GCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGATCAGGGTAAA
*
14597578 AGATCAGATGACTACAATCTGCCTCAA
130 AGATCAGATGGCTACAATCTGCCTCAA
* *
14597605 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAAGCTCGGGGTAAAAGATTGGGTGGCTG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGGTGGCTG
* * * * *
14597670 CAATCTGCCCCAAGCTCGGGGTAAAAGATTGGTTGATGGTGATCTGGCTCATGATCGGGGTAAAA
66 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGATCAGGGTAAAA
*
14597735 GATCGGATGGCTACAATCTGCCTCAA
131 GATCAGATGGCTACAATCTGCCTCAA
*
14597761 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGGTAGCTG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGGTGGCTG
* * * * **
14597826 TAATCTACCTCAGGCTCGAGGTAAGAGATTAACTGATGGTGATCTGCCTCATGATCAGGGTAAAA
66 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGATCAGGGTAAAA
* *
14597891 GATAATATGGCTGTA-AATCTGCC-CAA
131 GATCAGATGGC--TACAATCTGCCTCAA
* * * * * * **
14597917 GGCTTGGGGTAAGAGATTAGCTGATAGTGATCTGCCCCAAGCTCGGGGTAAAAGATCAGGTCTCT
1 -GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGGTGGCT
* * * * * *
14597982 GCAATTTGCCCCAGGCAT-GGGGTAAGAGGTTGGCTGATGGTGATCTGCCCCAAGCTTAGGGTAA
65 GCAATCTGCCCCAGGC-TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGATCAGGGTAA
** * * *
14598046 AAGATTGGATGGCTGCAATCTACCCCAA
129 AAGATCAGATGGCTACAATCTGCCTCAA
* * * * * *
14598074 GCTCAGGGTAAGAGATTTGTTGATGATGATCTACCCTAGGCTCGAGGTAAAAGATC
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATC
14598130 AGATGAGTAC
Statistics
Matches: 449, Mismatches: 69, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
155 1 0.00
156 314 0.70
157 131 0.29
158 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (156 bp):
GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGGTGGCTG
CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGATCAGGGTAAAA
GATCAGATGGCTACAATCTGCCTCAA
Found at i:14609972 original size:29 final size:29
Alignment explanation
Indices: 14609939--14610013 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
14609929 GGTAATTTGG
*
14609939 GGTCAAAATATAATTTTGGAAAAGTTTAA
1 GGTCAAAATGTAATTTTGGAAAAGTTTAA
* *
14609968 GGTCAAGATGTAATTTTGGGAAAGTTTAA
1 GGTCAAAATGTAATTTTGGAAAAGTTTAA
14609997 GGTCAAAATGTAATTTT
1 GGTCAAAATGTAATTTT
14610014 AGAGTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (29 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTAA
Found at i:14610064 original size:29 final size:29
Alignment explanation
Indices: 14610018--14610197 Score: 180
Period size: 30 Copynumber: 6.1 Consensus size: 29
14610008 AATTTTAGAG
* * *
14610018 TTTAAAGAAGTTTGGGGTTAAAATGTAAT
1 TTTAGAGAAATTTAGGGTTAAAATGTAAT
*
14610047 TTTAGAGAAATTTAGGGTTAAGATGTAAT
1 TTTAGAGAAATTTAGGGTTAAAATGTAAT
*** * *
14610076 TTTAGAGAAATACGGGGGTCAAAGTGTAAT
1 TTTAGAGAAAT-TTAGGGTTAAAATGTAAT
*
14610106 TTTAGAGAAGTTTAAGGGTTAAAATGTAAT
1 TTTAGAGAAATTT-AGGGTTAAAATGTAAT
** * *
14610136 TTTAGCCAAGTTTGGGGTTAAAATGTAAT
1 TTTAGAGAAATTTAGGGTTAAAATGTAAT
* * *
14610165 TTTAGAAAAATTTAAAGGTGAAAATGTAAT
1 TTTAGAGAAATTT-AGGGTTAAAATGTAAT
14610195 TTT
1 TTT
14610198 GAAGAAGTGT
Statistics
Matches: 123, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
29 61 0.50
30 62 0.50
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTAGAGAAATTTAGGGTTAAAATGTAAT
Found at i:14610153 original size:59 final size:59
Alignment explanation
Indices: 14610025--14610197 Score: 222
Period size: 59 Copynumber: 2.9 Consensus size: 59
14610015 GAGTTTAAAG
* *
14610025 AAGTTTGGGGTTAAAATGTAATTTTAGAGAAATTT-AGGGTTAAGATGTAATTTTAGAG
1 AAGTTTGGGGTTAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATGTAATTTTAGAC
* ** * * * *
14610083 AAATACGGGGGTCAAAGTGTAATTTTAGAGAAGTTTAAGGGTTAAAATGTAATTTTAGCC
1 AAGT-TTGGGGTTAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATGTAATTTTAGAC
* * *
14610143 AAGTTTGGGGTTAAAATGTAATTTTAGAAAAATTTAAAGGTGAAAATGTAATTTT
1 AAGTTTGGGGTTAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATGTAATTTT
14610198 GAAGAAGTGT
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
58 3 0.03
59 69 0.73
60 23 0.24
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (59 bp):
AAGTTTGGGGTTAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATGTAATTTTAGAC
Found at i:14610193 original size:89 final size:88
Alignment explanation
Indices: 14610018--14610205 Score: 216
Period size: 89 Copynumber: 2.1 Consensus size: 88
14610008 AATTTTAGAG
* * * * *
14610018 TTTAAAGAAGTTTGGGGTTAAAATGTAATTTTAGAGAAATTTAGGGTTAAGATGTAATTTTAGAG
1 TTTAGAGAAGTTTAGGGTTAAAATGTAATTTTAGACAAATTTAGGGTTAAAATGTAATTTTAGAA
*** *
14610083 AAATACGGGGGTCAAAGTGTAAT
66 AAATACAAAGGTCAAAATGTAAT
* * *
14610106 TTTAGAGAAGTTTAAGGGTTAAAATGTAATTTTAGCCAAGTTTGGGGTTAAAATGTAATTTTAGA
1 TTTAGAGAAGTTT-AGGGTTAAAATGTAATTTTAGACAAATTTAGGGTTAAAATGTAATTTTAGA
** *
14610171 AAAATTTAAAGGTGAAAATGTAAT
65 AAAATACAAAGGTCAAAATGTAAT
14610195 TTT-GAAGAAGT
1 TTTAG-AGAAGT
14610206 GTGGGGGTCA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 13 0.16
89 70 0.84
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (88 bp):
TTTAGAGAAGTTTAGGGTTAAAATGTAATTTTAGACAAATTTAGGGTTAAAATGTAATTTTAGAA
AAATACAAAGGTCAAAATGTAAT
Found at i:14610219 original size:30 final size:29
Alignment explanation
Indices: 14610022--14610219 Score: 134
Period size: 30 Copynumber: 6.7 Consensus size: 29
14610012 TTAGAGTTTA
*
14610022 AAGAAGTTT-GGGGTTAAAATGTAATTTT
1 AAGAAGTTTAGGGGTCAAAATGTAATTTT
* * *
14610050 AGAGAAATTTA-GGGTTAAGATGTAATTTT
1 A-AGAAGTTTAGGGGTCAAAATGTAATTTT
* *** *
14610079 AGAGAAATACGGGGGTCAAAGTGTAATTTT
1 A-AGAAGTTTAGGGGTCAAAATGTAATTTT
* *
14610109 AGAGAAGTTTAAGGGTTAAAATGTAATTTT
1 A-AGAAGTTTAGGGGTCAAAATGTAATTTT
*
14610139 -AGCCAAGTTT-GGGGTTAAAATGTAATTTT
1 AAG--AAGTTTAGGGGTCAAAATGTAATTTT
* * ** *
14610168 AGAAAAATTTAAAGGTGAAAATGTAATTTT
1 A-AGAAGTTTAGGGGTCAAAATGTAATTTT
* *
14610198 GAAGAAGTGTGGGGGTCAAAAT
1 -AAGAAGTTTAGGGGTCAAAAT
14610220 ATGATTTTTG
Statistics
Matches: 133, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
28 3 0.02
29 55 0.41
30 73 0.55
31 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (29 bp):
AAGAAGTTTAGGGGTCAAAATGTAATTTT
Found at i:14611889 original size:6 final size:6
Alignment explanation
Indices: 14611851--14611914 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
14611841 GGGACATTAA
* * *
14611851 TAAATT TAAACTT T-AATT TCAATT TCAAA-- TAAATT TAAACT TAAA-A
1 TAAATT TAAA-TT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT
14611897 TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT
14611915 CTGTTTGGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 3 0.06
5 8 0.17
6 32 0.67
7 5 0.10
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:14611897 original size:17 final size:17
Alignment explanation
Indices: 14611877--14611912 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
14611867 TTTCAATTTC
14611877 AAATAAATTTAAACTTA
1 AAATAAATTTAAACTTA
*
14611894 AAATAAATTTAAATTTA
1 AAATAAATTTAAACTTA
14611911 AA
1 AA
14611913 TTCTGTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAATTTAAACTTA
Found at i:14618335 original size:37 final size:37
Alignment explanation
Indices: 14618283--14618564 Score: 348
Period size: 37 Copynumber: 7.6 Consensus size: 37
14618273 GGCATAAAGT
*
14618283 CTGCTAGGCACATAGCCCGAATACATCGGCACGAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
* * * * *
14618320 CTGCTAGGCATATAGCCTGAATACACCAGTACTAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
* * * * *
14618357 CTGCTAAGCACATAGGCCGAATGCACAGGCACAAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
* * * *
14618394 CTACTAGGTACACAGCCTGAATACACCGGCACGAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
*
14618431 CTGCTAGGTACATAGCCCGAATACACCGGCACGAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
* *
14618468 CTGCTAGGCACATAGCCTGAATACACCGGCACAAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
* * * *
14618505 TTACTAGGCACACAGCCCGAATACATCGGCACGAAGC
1 CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
* *
14618542 CTGCTAGGCACACAGCCTGAATA
1 CTGCTAGGCACATAGCCCGAATA
14618565 TTGTGCAACC
Statistics
Matches: 206, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 206 1.00
ACGTcount: A:0.32, C:0.31, G:0.22, T:0.15
Consensus pattern (37 bp):
CTGCTAGGCACATAGCCCGAATACACCGGCACGAAGC
Found at i:14618411 original size:74 final size:74
Alignment explanation
Indices: 14618273--14618564 Score: 388
Period size: 74 Copynumber: 3.9 Consensus size: 74
14618263 TTGGATCACT
* * * *
14618273 GGCATAAAGTCTGCTAGGCACATAGCCCGAATACATCGGCACGAAGCCTGCTAGGCATATAGCCT
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACACAGCCT
14618338 GAATACACC
66 GAATACACC
* * * * * * * * *
14618347 AGTACTAAGCCTGCTAAGCACATAGGCCGAATGCA-CAGGCACAAAGCCTACTAGGTACACAGCC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATACATC-GGCACGAAGCCTGCTAGGCACACAGCC
14618411 TGAATACACC
65 TGAATACACC
* * * *
14618421 GGCACGAAGCCTGCTAGGTACATAGCCCGAATACACCGGCACGAAGCCTGCTAGGCACATAGCCT
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACACAGCCT
14618486 GAATACACC
66 GAATACACC
* * *
14618495 GGCACAAAGCTTACTAGGCACACAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACACAGCCT
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACACAGCCT
14618560 GAATA
66 GAATA
14618565 TTGTGCAACC
Statistics
Matches: 185, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
73 1 0.01
74 183 0.99
75 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (74 bp):
GGCACAAAGCCTGCTAGGCACATAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACACAGCCT
GAATACACC
Found at i:14618480 original size:111 final size:111
Alignment explanation
Indices: 14618286--14618564 Score: 407
Period size: 111 Copynumber: 2.5 Consensus size: 111
14618276 ATAAAGTCTG
* * *
14618286 CTAGGCACATAGCCCGAATACATCGGCACGAAGCCTGCTAGGCATATAGCCTGAATACACCAGTA
1 CTAGGCACACAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACATAGCCTGAATACACCAGCA
* *
14618351 CTAAGCCTGCTAAGCACATAGGCC-GAATGCACAGGCACAAAGCCTA
66 CGAAGCCTGCTAAGCACATA-GCCTGAATACACAGGCACAAAGCCTA
* * * * * *
14618397 CTAGGTACACAGCCTGAATACACCGGCACGAAGCCTGCTAGGTACATAGCCCGAATACACCGGCA
1 CTAGGCACACAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACATAGCCTGAATACACCAGCA
* * *
14618462 CGAAGCCTGCTAGGCACATAGCCTGAATACACCGGCACAAAGCTTA
66 CGAAGCCTGCTAAGCACATAGCCTGAATACACAGGCACAAAGCCTA
*
14618508 CTAGGCACACAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACACAGCCTGAATA
1 CTAGGCACACAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACATAGCCTGAATA
14618565 TTGTGCAACC
Statistics
Matches: 147, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
110 3 0.02
111 144 0.98
ACGTcount: A:0.32, C:0.31, G:0.22, T:0.14
Consensus pattern (111 bp):
CTAGGCACACAGCCCGAATACATCGGCACGAAGCCTGCTAGGCACATAGCCTGAATACACCAGCA
CGAAGCCTGCTAAGCACATAGCCTGAATACACAGGCACAAAGCCTA
Found at i:14621023 original size:9 final size:9
Alignment explanation
Indices: 14621009--14621042 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
14620999 GTTTTCGAAT
*
14621009 TCGAATAAC
1 TCGAATAAA
*
14621018 TCGAATAAT
1 TCGAATAAA
14621027 TCGAATAAA
1 TCGAATAAA
14621036 TCGAATA
1 TCGAATA
14621043 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:14621027 original size:18 final size:18
Alignment explanation
Indices: 14621006--14621042 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14620996 TGAGTTTTCG
*
14621006 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
14621024 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
14621042 A
1 A
14621043 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:14621124 original size:30 final size:30
Alignment explanation
Indices: 14621090--14621149 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
14621080 CAAACCTTTT
*
14621090 TACTTTTCCC-CAAAAACTTTTACTCCTTCC
1 TACTTTTCCCAC-AAAACTTTTACCCCTTCC
*
14621120 TACTTTTCTCACAAAACTTTTACCCCTTCC
1 TACTTTTCCCACAAAACTTTTACCCCTTCC
14621150 ATCCCACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (30 bp):
TACTTTTCCCACAAAACTTTTACCCCTTCC
Found at i:14621285 original size:19 final size:20
Alignment explanation
Indices: 14621246--14621285 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14621236 TCCCCAAAAA
*
14621246 CCCTCAAAACTTTTTATTTC
1 CCCTCAAAACTTTTTACTTC
14621266 CCCTCAAAAC-TTTTACTTC
1 CCCTCAAAACTTTTTACTTC
14621285 C
1 C
14621286 TCCCACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (20 bp):
CCCTCAAAACTTTTTACTTC
Found at i:14624827 original size:6 final size:6
Alignment explanation
Indices: 14624816--14624846 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
14624806 CTTTGATTTG
14624816 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA A
1 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA A
14624847 CTGTGTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCTCA
Found at i:14628932 original size:18 final size:17
Alignment explanation
Indices: 14628905--14628938 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14628895 TTGATTTTTG
*
14628905 ATTTTTAATTTTTTATA
1 ATTTTTAATTATTTATA
14628922 ATTTTTAAATTATTTAT
1 ATTTTT-AATTATTTAT
14628939 TGATGTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTAATTATTTATA
Found at i:14629985 original size:21 final size:21
Alignment explanation
Indices: 14629959--14630010 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
14629949 TAACTTCTTT
14629959 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
14629980 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
14630001 TCTTTTTGTC
1 TCTTTTTGTC
14630011 TAACTCACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:14636421 original size:61 final size:62
Alignment explanation
Indices: 14636349--14636477 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 62
14636339 ATATAGTAGG
* * * *
14636349 ATTATTATTAAATGTAATTTAATAAAAATCATAATAAATAATTTAATCATATT-TTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAATAAATAATTTAATAACATTCTTAATATA
*
14636410 ATTATTATTAAATATAATTTAATAAAAATAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAATAAATAATTTAATAACATTCTTAATATA
14636472 ATTATT
1 ATTATT
14636478 TTTATATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
61 48 0.77
62 14 0.23
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (62 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAATAAATAATTTAATAACATTCTTAATATA
Found at i:14636434 original size:24 final size:23
Alignment explanation
Indices: 14636413--14636474 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
14636403 TAATATAATT
14636413 ATTATTAAATATAATTTAATAAA
1 ATTATTAAATATAATTTAATAAA
* * *
14636436 AATAATAATATATAATTTAATAAC
1 ATTATTAA-ATATAATTTAATAAA
*
14636460 ATTCTT-AATATAATT
1 ATTATTAAATATAATT
14636475 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 8 0.25
23 7 0.22
24 17 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATTAAATATAATTTAATAAA
Found at i:14636500 original size:62 final size:61
Alignment explanation
Indices: 14636349--14636501 Score: 191
Period size: 61 Copynumber: 2.5 Consensus size: 61
14636339 ATATAGTAGG
* * * * *
14636349 ATTATTATTAAATGTAATTTAATAAAAATCATAATAAATAATTTAATCATATTTTAATATA
1 ATTATTATTAAATATAAATTAATAAAAATAATAATAAATAATTTAATAACATTTTAATATA
* *
14636410 ATTATTATTAAATATAATTTAATAAAAATAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAAATTAATAAAAATAATAATAAATAATTTAATAACATT-TTAATATA
* * *
14636472 ATTATTTTTATAT-TAAATTATATTAAAATA
1 ATTATTATTAAATATAAATTA-ATAAAAATA
14636502 TTTCAAAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
61 54 0.67
62 27 0.33
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (61 bp):
ATTATTATTAAATATAAATTAATAAAAATAATAATAAATAATTTAATAACATTTTAATATA
Found at i:14637334 original size:16 final size:17
Alignment explanation
Indices: 14637312--14637350 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
14637302 ATACAAATAT
14637312 TTAAAA-TTAACATTAAA
1 TTAAAATTTAA-ATTAAA
14637329 -TAAAATTTAAATTAAA
1 TTAAAATTTAAATTAAA
14637345 TTAAAA
1 TTAAAA
14637351 ATAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAATTTAAATTAAA
Found at i:14637355 original size:16 final size:16
Alignment explanation
Indices: 14637312--14637355 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
14637302 ATACAAATAT
14637312 TTAAAATTAACATTAAA
1 TTAAAATTAA-ATTAAA
14637329 -TAAAATTTAAATTAAA
1 TTAAAA-TTAAATTAAA
*
14637345 TTAAAAATAAA
1 TTAAAATTAAA
14637356 AATTTCATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAATTAAATTAAA
Found at i:14640335 original size:31 final size:31
Alignment explanation
Indices: 14640268--14640338 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
14640258 AAAACCTTAA
* *
14640268 CAGTTCAATGATTTTAATAAAAATTTTGGAT
1 CAGTTCAATGATTTTAATAAAAATTTCGAAT
*
14640299 CAGTTCAGTGA-TTTAGATAAAAACTTTCGAAT
1 CAGTTCAATGATTTTA-ATAAAAA-TTTCGAAT
14640331 -AGTTCAAT
1 CAGTTCAAT
14640339 AATCATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 4 0.12
31 24 0.71
32 6 0.18
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (31 bp):
CAGTTCAATGATTTTAATAAAAATTTCGAAT
Found at i:14649227 original size:9 final size:8
Alignment explanation
Indices: 14649198--14649227 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
14649188 CAAACTATAA
14649198 AAATATTT
1 AAATATTT
14649206 AAATATTT
1 AAATATTT
14649214 AAATATTAT
1 AAATATT-T
14649223 AAATA
1 AAATA
14649228 AAAACATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATATTT
Found at i:14652407 original size:15 final size:15
Alignment explanation
Indices: 14652387--14652416 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14652377 TAGAAAGCAT
14652387 ATTCAAGACAACTAC
1 ATTCAAGACAACTAC
14652402 ATTCAAGACAACTAC
1 ATTCAAGACAACTAC
14652417 CAAGAACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (15 bp):
ATTCAAGACAACTAC
Found at i:14652506 original size:2 final size:2
Alignment explanation
Indices: 14652499--14652532 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14652489 AATGAATTTA
*
14652499 AT AT AT AT AT AT AT AA 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
14652533 TTGTTTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14653048 original size:23 final size:23
Alignment explanation
Indices: 14652999--14653049 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
14652989 TGTTTTCTTA
* *
14652999 CACTTCGATGCCTATGTTTCTAC
1 CACTTCGATGCCTATGCTACTAC
* * *
14653022 CACTTCGATGTCTGTGCTACTAG
1 CACTTCGATGCCTATGCTACTAC
14653045 CACTT
1 CACTT
14653050 ATGCGCTCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (23 bp):
CACTTCGATGCCTATGCTACTAC
Found at i:14653650 original size:21 final size:21
Alignment explanation
Indices: 14653624--14653663 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14653614 TTAGATCAAC
*
14653624 ATCAATCAATGTCGATCAATG
1 ATCAATCAATGTCAATCAATG
*
14653645 ATCAATCAATTTCAATCAA
1 ATCAATCAATGTCAATCAA
14653664 AGTTAACGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (21 bp):
ATCAATCAATGTCAATCAATG
Found at i:14654121 original size:3 final size:3
Alignment explanation
Indices: 14654113--14654145 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14654103 CACATTTACA
14654113 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14654146 GAGTGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14655544 original size:35 final size:34
Alignment explanation
Indices: 14655505--14655588 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 34
14655495 GATATCAATA
14655505 TTGATTGTGATTTTCAATTTAGGGTTTATTCTATT
1 TTGATT-TGATTTTCAATTTAGGGTTTATTCTATT
* ** * *
14655540 TTGATTTTTATTTTTGATTTAGGGTTTTTTTTATT
1 TTGA-TTTGATTTTCAATTTAGGGTTTATTCTATT
14655575 TTGATTTGGATTTT
1 TTGATTT-GATTTT
14655589 GATTGCTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.07
35 36 0.88
36 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.64
Consensus pattern (34 bp):
TTGATTTGATTTTCAATTTAGGGTTTATTCTATT
Found at i:14656223 original size:33 final size:33
Alignment explanation
Indices: 14656186--14656248 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
14656176 GCATGTGTTG
* *
14656186 TATTAAATGTTTGTTTCTGGTCTGATAGTGATT
1 TATTAAAAGTTTGTTTCTGGTCTAATAGTGATT
*
14656219 TATTAAAAGTTTGTTTTTGGTCTAATAGTG
1 TATTAAAAGTTTGTTTCTGGTCTAATAGTG
14656249 TTGAGTAATT
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:0.24, C:0.05, G:0.21, T:0.51
Consensus pattern (33 bp):
TATTAAAAGTTTGTTTCTGGTCTAATAGTGATT
Found at i:14658806 original size:21 final size:21
Alignment explanation
Indices: 14658780--14658860 Score: 99
Period size: 21 Copynumber: 3.9 Consensus size: 21
14658770 TCACTATCAT
* * *
14658780 GTGAGCATCCCAACTCAACAA
1 GTGAGCAACACAACTCAGCAA
*
14658801 GTGAGCAACAAAACTCAGCAA
1 GTGAGCAACACAACTCAGCAA
* *
14658822 GTGAGCACCCCAACTCAGCAA
1 GTGAGCAACACAACTCAGCAA
*
14658843 GTGAGCAGCACAACTCAG
1 GTGAGCAACACAACTCAG
14658861 TTACAAATGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.38, C:0.31, G:0.20, T:0.11
Consensus pattern (21 bp):
GTGAGCAACACAACTCAGCAA
Found at i:14658844 original size:42 final size:42
Alignment explanation
Indices: 14658780--14658860 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
14658770 TCACTATCAT
*
14658780 GTGAGCATCCCAACTCAACAAGTGAGCAACAAAACTCAGCAA
1 GTGAGCACCCCAACTCAACAAGTGAGCAACAAAACTCAGCAA
* * *
14658822 GTGAGCACCCCAACTCAGCAAGTGAGCAGCACAACTCAG
1 GTGAGCACCCCAACTCAACAAGTGAGCAACAAAACTCAG
14658861 TTACAAATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.31, G:0.20, T:0.11
Consensus pattern (42 bp):
GTGAGCACCCCAACTCAACAAGTGAGCAACAAAACTCAGCAA
Found at i:14659165 original size:27 final size:27
Alignment explanation
Indices: 14659135--14659192 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
14659125 TTGGCAATAG
* *
14659135 TTTGCCATCCTTTTATTTTGTAAACAA
1 TTTGCCATCCCTATATTTTGTAAACAA
* *
14659162 TTTGCCATCCCTATCTTTTGTAAACAT
1 TTTGCCATCCCTATATTTTGTAAACAA
14659189 TTTG
1 TTTG
14659193 GCCTTTGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (27 bp):
TTTGCCATCCCTATATTTTGTAAACAA
Found at i:14660519 original size:28 final size:28
Alignment explanation
Indices: 14660479--14660534 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14660469 CTTAATCTAA
14660479 GATAAAAGATTTACATTAAAAATATGAG
1 GATAAAAGATTTACATTAAAAATATGAG
14660507 GATAAAAGATTTACATTAAAAATATGAG
1 GATAAAAGATTTACATTAAAAATATGAG
14660535 AATTCATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.29
Consensus pattern (28 bp):
GATAAAAGATTTACATTAAAAATATGAG
Found at i:14662081 original size:25 final size:25
Alignment explanation
Indices: 14662030--14662087 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
14662020 GATTTTACAT
*
14662030 ATTTATTTTTGTAATCTATTAAATA
1 ATTTATTTTTGTAATCTAATAAATA
* *
14662055 ATTTATTTTT-TATTTTAATAAATTA
1 ATTTATTTTTGTAATCTAATAAA-TA
14662080 ATATTATT
1 AT-TTATT
14662088 CTAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.32
25 14 0.50
26 5 0.18
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTATTTTTGTAATCTAATAAATA
Found at i:14669446 original size:52 final size:52
Alignment explanation
Indices: 14669381--14669559 Score: 286
Period size: 52 Copynumber: 3.4 Consensus size: 52
14669371 TAATACTTAT
* * * *
14669381 GATGACATATAGTCACCGGACCTCATAATCCGTAAAAGATTCATATACTCAC
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCAC
* *
14669433 GATGACACATAGTCATCGGACCTCATAATCCTTAAAGGATTCATATACTCAT
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCAC
*
14669485 GATGACACATAGTCATCAGACCTCATAATCCATAAAGGATTCATATACTCAC
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCAC
*
14669537 GATGACATATAGTCATCGGACCT
1 GATGACACATAGTCATCGGACCT
14669560 TTTTCATTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCAC
Found at i:14669535 original size:26 final size:26
Alignment explanation
Indices: 14669454--14669535 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
14669444 GTCATCGGAC
*
14669454 CTCATAATCCTTAAAGGATTCATATA
1 CTCATAATCCATAAAGGATTCATATA
* * * * *
14669480 CTCATGATGACACATA-G--TCATCAGA
1 CTCATAAT-CCATAAAGGATTCAT-ATA
14669505 CCTCATAATCCATAAAGGATTCATATA
1 -CTCATAATCCATAAAGGATTCATATA
14669532 CTCA
1 CTCA
14669536 CGATGACATA
Statistics
Matches: 39, Mismatches: 11, Indels: 12
0.63 0.18 0.19
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 20 0.51
27 5 0.13
28 4 0.10
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (26 bp):
CTCATAATCCATAAAGGATTCATATA
Found at i:14671240 original size:40 final size:40
Alignment explanation
Indices: 14671176--14671289 Score: 167
Period size: 40 Copynumber: 2.9 Consensus size: 40
14671166 TTTGGAAAGA
* * * *
14671176 AAACACCGTAAAAAGTAAATCAATAGCGGTGTTTTT-TGAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGTGTTTTTAT-AT
14671216 AAACGCCGCAAAAGGTAAAGCAATAGCGGTGTTTTTATAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGTGTTTTTATAT
*
14671256 AAACGCCGCAAAAGGTAAAGCAATAGCGATGTTT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGTGTTT
14671290 ATAGAAAAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 67 0.99
41 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (40 bp):
AAACGCCGCAAAAGGTAAAGCAATAGCGGTGTTTTTATAT
Found at i:14671349 original size:41 final size:41
Alignment explanation
Indices: 14671304--14671405 Score: 195
Period size: 41 Copynumber: 2.5 Consensus size: 41
14671294 AAAAAGCGCT
14671304 GCTAAAGGTCAGGGCATTAGCGGTGATTTCCCACAAGCACC
1 GCTAAAGGTCAGGGCATTAGCGGTGATTTCCCACAAGCACC
*
14671345 GCTAAAGGTCAGGGCATTAGCGGTGATTTCGCACAAGCACC
1 GCTAAAGGTCAGGGCATTAGCGGTGATTTCCCACAAGCACC
14671386 GCTAAAGGTCAGGGCATTAG
1 GCTAAAGGTCAGGGCATTAG
14671406 AAGCACTTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (41 bp):
GCTAAAGGTCAGGGCATTAGCGGTGATTTCCCACAAGCACC
Found at i:14671429 original size:41 final size:41
Alignment explanation
Indices: 14671304--14671431 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 41
14671294 AAAAAGCGCT
** * * *
14671304 GCTAAAGGTCAGGGCATTAGCGGTGATTTCCCACAAGCACC
1 GCTAAAGGTCAGGGCATTAGAAGTCATTTCGCACAAACACC
** * *
14671345 GCTAAAGGTCAGGGCATTAGCGGTGATTTCGCACAAGCACC
1 GCTAAAGGTCAGGGCATTAGAAGTCATTTCGCACAAACACC
* * *
14671386 GCTAAAGGTCAGGGCATTAGAAG-CACTTTCTCATAAACGCC
1 GCTAAAGGTCAGGGCATTAGAAGTCA-TTTCGCACAAACACC
14671427 GCTAA
1 GCTAA
14671432 TGCTCTGACT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 77 0.99
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (41 bp):
GCTAAAGGTCAGGGCATTAGAAGTCATTTCGCACAAACACC
Found at i:14671515 original size:42 final size:42
Alignment explanation
Indices: 14671420--14671515 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
14671410 ACTTTCTCAT
* * *
14671420 AAACGCCGCTAATGCTCTGACTTTTAGCGGCGTTTATTGTAG
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTTATTGTAA
* * * *
14671462 AAGCGCCGCTAATGCTCTGACCTTTAGTGGCGTTTATTTTAA
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTTATTGTAA
*
14671504 AAACACTGCTAA
1 AAACACCGCTAA
14671516 AGGTTAAGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTTATTGTAA
Found at i:14672366 original size:168 final size:168
Alignment explanation
Indices: 14672088--14672421 Score: 517
Period size: 168 Copynumber: 2.0 Consensus size: 168
14672078 CAGCTGGAAT
*** *
14672088 AGTAACAATGAAAATGGTGCCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATATG
1 AGTAACAATGAAAATGACACCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATACG
* *
14672153 TTATTGCTATGGGCGCTTGTACAATTGCAGGAGGGATGTTCAGTACTAATTCTTATAGTACTGTT
66 TTATTGCTATGGGCGCGTGTACAATTACAGGAGGGATGTTCAGTACTAATTCTTATAGTACTGTT
**
14672218 C-GAGGGGTCGACAAGCTAATTCCCGTGGATGTCTATAC
131 CTG-GGAATCGACAAGCTAATTCCCGTGGATGTCTATAC
*
14672256 AGTAACAATGAAAATGACACCCTCTTTAGTGAGATTATATGAACAAATGCCTGAACCTAAATACG
1 AGTAACAATGAAAATGACACCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATACG
* * *
14672321 TTATTGTTATGGGCGCGTGTACAATTATAGGAGGGATGTTCAGTACTGATTCTTATAGTACTGTT
66 TTATTGCTATGGGCGCGTGTACAATTACAGGAGGGATGTTCAGTACTAATTCTTATAGTACTGTT
* * *
14672386 CTGGGAATGGATAAGCTAATTCTCGTGGATGTCTAT
131 CTGGGAATCGACAAGCTAATTCCCGTGGATGTCTAT
14672422 TTGTCGAGTT
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
168 149 0.99
169 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (168 bp):
AGTAACAATGAAAATGACACCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATACG
TTATTGCTATGGGCGCGTGTACAATTACAGGAGGGATGTTCAGTACTAATTCTTATAGTACTGTT
CTGGGAATCGACAAGCTAATTCCCGTGGATGTCTATAC
Found at i:14672545 original size:28 final size:29
Alignment explanation
Indices: 14672454--14672575 Score: 87
Period size: 27 Copynumber: 4.4 Consensus size: 29
14672444 CCGAGACAGT
*
14672454 TATAAATAA-ATTCTAAATAG-AGT-A-AA
1 TATAAATAATATT-TAAATAGAAATAACAA
* **
14672480 TGTAAATAATAACTAAATAGAAATAACAA
1 TATAAATAATATTTAAATAGAAATAACAA
* *
14672509 TTTAAATAATATTTAAAT-GAAATAATAA
1 TATAAATAATATTTAAATAGAAATAACAA
* * * *
14672537 TATATATAATA-ATAGATAG-AATAATAA
1 TATAAATAATATTTAAATAGAAATAACAA
*
14672564 AATAAATAATAT
1 TATAAATAATAT
14672576 AGAAATATAG
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
26 15 0.20
27 24 0.32
28 20 0.26
29 17 0.22
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (29 bp):
TATAAATAATATTTAAATAGAAATAACAA
Found at i:14672547 original size:12 final size:12
Alignment explanation
Indices: 14672530--14672576 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
14672520 TTTAAATGAA
14672530 ATAATAATATAT
1 ATAATAATATAT
*
14672542 ATAATAATAGAT
1 ATAATAATATAT
* *
14672554 AGAATAATA-AA
1 ATAATAATATAT
14672565 ATAAATAATATA
1 AT-AATAATATA
14672577 GAAATATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 2 0.07
12 26 0.90
13 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:14672549 original size:15 final size:14
Alignment explanation
Indices: 14672529--14672574 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
14672519 ATTTAAATGA
*
14672529 AATAATAATATATAT
1 AATAATAATAGA-AT
14672544 AATAATAGATAGAAT
1 AATAATA-ATAGAAT
14672559 AATAA-AATA-AAT
1 AATAATAATAGAAT
14672571 AATA
1 AATA
14672575 TAGAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 1 0.03
15 14 0.48
16 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AATAATAATAGAAT
Found at i:14672640 original size:29 final size:29
Alignment explanation
Indices: 14672598--14672731 Score: 103
Period size: 29 Copynumber: 4.4 Consensus size: 29
14672588 TTCTAAATCG
14672598 AAATATATTAATATAAATATAAAAATATAT
1 AAAT-TATTAATATAAATATAAAAATATAT
*
14672628 TAATTATTAATATAAATATAATATTAATATA-
1 AAATTATTAATATAAATATAA-A--AATATAT
* *
14672659 AATATTATTAATTACTTAATATAAAGAT-TAT
1 AA-ATTATTAA-TA-TAAATATAAAAATATAT
* * *
14672690 TAATTACTTAATATTAATA-ACAAATAATAT
1 AAATTA-TTAATATAAATATAAAAAT-ATAT
*
14672720 AAATTAATAATA
1 AAATTATTAATA
14672732 ATTGATAATT
Statistics
Matches: 85, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
28 4 0.05
29 28 0.33
30 20 0.24
31 8 0.09
32 14 0.16
33 3 0.04
34 8 0.09
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (29 bp):
AAATTATTAATATAAATATAAAAATATAT
Found at i:14672643 original size:23 final size:23
Alignment explanation
Indices: 14672598--14672703 Score: 95
Period size: 23 Copynumber: 4.9 Consensus size: 23
14672588 TTCTAAATCG
*
14672598 AAATATATTAA-TATAAATATAA
1 AAATATATTAATTATTAATATAA
14672620 AAATATATTAATTATTAATAT--
1 AAATATATTAATTATTAATATAA
14672641 -AA-ATA-TAA-TATTAATATAA
1 AAATATATTAATTATTAATATAA
* *
14672660 ATATT-ATTAATTACTTAATATAA
1 AAATATATTAATTA-TTAATATAA
*
14672683 AGAT-TATTAATTACTTAATAT
1 AAATATATTAATTA-TTAATAT
14672704 TAATAACAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 17
0.77 0.04 0.18
Matches are distributed among these distances:
17 9 0.13
18 3 0.04
19 3 0.04
20 4 0.06
21 3 0.04
22 13 0.18
23 36 0.51
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
AAATATATTAATTATTAATATAA
Found at i:14672654 original size:17 final size:17
Alignment explanation
Indices: 14672602--14672663 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
14672592 AAATCGAAAT
14672602 ATATTAATATAAATATA
1 ATATTAATATAAATATA
14672619 A-A--AATAT--AT-TA
1 ATATTAATATAAATATA
14672630 ATTATTAATATAAATATA
1 A-TATTAATATAAATATA
14672648 ATATTAATATAAATAT
1 ATATTAATATAAATAT
14672664 TATTAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
11 3 0.08
12 2 0.05
13 1 0.03
14 5 0.13
15 5 0.13
16 1 0.03
17 18 0.47
18 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATTAATATAAATATA
Found at i:14672708 original size:6 final size:6
Alignment explanation
Indices: 14672602--14672665 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
14672592 AAATCGAAAT
* * * *
14672602 ATATTA ATATAA ATA-TA AAAAT- ATATTA ATTATTA ATATAA ATA-TA
1 ATATTA ATATTA ATATTA ATATTA ATATTA A-TATTA ATATTA ATATTA
*
14672648 ATATTA ATATAA ATATTA
1 ATATTA ATATTA ATATTA
14672666 TTAATTACTT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
5 10 0.22
6 29 0.64
7 6 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
ATATTA
Found at i:14672839 original size:21 final size:21
Alignment explanation
Indices: 14672811--14672882 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
14672801 CAATCCCCAA
*
14672811 TCTCTTCTTCACGCAAGCCCT
1 TCTCTTCTTCACGCACGCCCT
* *
14672832 TTTCTTCTTCACGCACGCCCC
1 TCTCTTCTTCACGCACGCCCT
*
14672853 TCTCTGCTTCACGCACGCCCT
1 TCTCTTCTTCACGCACGCCCT
14672874 TCTCTTCTT
1 TCTCTTCTT
14672883 TAGTCTTATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.10, C:0.44, G:0.10, T:0.36
Consensus pattern (21 bp):
TCTCTTCTTCACGCACGCCCT
Found at i:14673710 original size:336 final size:338
Alignment explanation
Indices: 14673076--14673731 Score: 1147
Period size: 336 Copynumber: 1.9 Consensus size: 338
14673066 GTTTAATTTT
* * *
14673076 AATATTATTGAAATTAAAGCACACACATAGAGAGTCTACCTTCAGTTTCTTCTTCATTGATGTCA
1 AATATTATTGAAATTAAA-CACACACACACAGAGTCTACCTTCAGTGTCTTCTTCATTGATGTCA
14673141 TTGGTACTGCCTTGATTGTGTTCTCCACTGGTATCTTCTTGGTTATTTCCCTCCATTGGATCCTT
65 TTGGTACTGCCTTGATTGTGTTCTCCACTGGTATCTTCTTGGTTATTTCCCTCCATTGGATCCTT
* * *
14673206 CACCGTCTTCGTGGGTGTTACCTACATTGGATTCTTCACTGTTTATATAATTAGCTGGTTAATAT
130 CACCATCTTCGTGGGTGTTACCTACATTGGATTCTTCACTGGTTATATAATTACCTGGTTAATAT
* *
14673271 GATACAAATTTACTACTTCATTTCATTCTAATTATAGGTTTTTAAAACTTGTTTTCCTGCATTAA
195 GACACAAATTTACTACTTCATTCCATTCTAATTATAGGTTTTTAAAACTTGTTTTCCTGCATTAA
* *
14673336 CTCTGAAATCTGAATCTGGGTTTTTACTTTCTAGATCTCTAGAAAAAAAGGTTCTCTACAAAAGC
260 CTCTAAAATCTGAATCTGGGTTTTTACTTTCTAGATCTCCAGAAAAAAAGGTTCTCTACAAAAGC
14673401 CATAAGAACAACAA
325 CATAAGAACAACAA
14673415 AATATTATTGAAATTAAA-ACACACACACAGAGTCTACCTTCAGTGTCTTCTTCATTGATGTCAT
1 AATATTATTGAAATTAAACACACACACACAGAGTCTACCTTCAGTGTCTTCTTCATTGATGTCAT
14673479 TGGTACTGCCTTGATTGTGTTCTCCACTGGTATCTTCTTGGTTA-TTCCCTCCATTGGATCCTTC
66 TGGTACTGCCTTGATTGTGTTCTCCACTGGTATCTTCTTGGTTATTTCCCTCCATTGGATCCTTC
*
14673543 ACCATCTTCGTGGGTGTTACCTACATTGGGTTCTTCACTGGTTATATAATTACCTGGTTAATATG
131 ACCATCTTCGTGGGTGTTACCTACATTGGATTCTTCACTGGTTATATAATTACCTGGTTAATATG
* * *
14673608 GCACAAATTTACTACTTCATTCCATTTTAATTATAGGTTTTTAAAACTTGTTTTCTTGCATTAAC
196 ACACAAATTTACTACTTCATTCCATTCTAATTATAGGTTTTTAAAACTTGTTTTCCTGCATTAAC
14673673 TCTAAAATCTGAAGT-TGGGTTTTTACTTTCTAGATCTCCAGAAAAAAAGGTTCTCTACA
261 TCTAAAATCTGAA-TCTGGGTTTTTACTTTCTAGATCTCCAGAAAAAAAGGTTCTCTACA
14673732 GATTTACTTT
Statistics
Matches: 302, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
336 196 0.65
337 88 0.29
339 18 0.06
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (338 bp):
AATATTATTGAAATTAAACACACACACACAGAGTCTACCTTCAGTGTCTTCTTCATTGATGTCAT
TGGTACTGCCTTGATTGTGTTCTCCACTGGTATCTTCTTGGTTATTTCCCTCCATTGGATCCTTC
ACCATCTTCGTGGGTGTTACCTACATTGGATTCTTCACTGGTTATATAATTACCTGGTTAATATG
ACACAAATTTACTACTTCATTCCATTCTAATTATAGGTTTTTAAAACTTGTTTTCCTGCATTAAC
TCTAAAATCTGAATCTGGGTTTTTACTTTCTAGATCTCCAGAAAAAAAGGTTCTCTACAAAAGCC
ATAAGAACAACAA
Found at i:14675493 original size:4 final size:4
Alignment explanation
Indices: 14675481--14675571 Score: 66
Period size: 4 Copynumber: 23.0 Consensus size: 4
14675471 TATATATAAT
* * *
14675481 ATTA GTTA ATTA AAT- ATTA ATTTAA AATA ATTA ATTA ATT- A-TA ATTA
1 ATTA ATTA ATTA ATTA ATTA A-TT-A ATTA ATTA ATTA ATTA ATTA ATTA
* *
14675528 ATTA ATTA ATT- A-TA ATTA ATTA AATA TTTA ATTA TATTTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA -A-TTA ATTA
14675572 TAAAAAACAA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
2 2 0.03
3 6 0.09
4 50 0.74
5 5 0.07
6 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:14675519 original size:18 final size:19
Alignment explanation
Indices: 14675496--14675550 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
14675486 TTAATTAAAT
14675496 ATTAATTTA-AAATAATTA
1 ATTAATTTATAAATAATTA
*
14675514 ATTAA-TTATAATTAATTA
1 ATTAATTTATAAATAATTA
*
14675532 ATTAA-TTATAATTAATTA
1 ATTAATTTATAAATAATTA
14675550 A
1 A
14675551 ATATTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 3 0.09
18 32 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATTTATAAATAATTA
Found at i:14675525 original size:10 final size:10
Alignment explanation
Indices: 14675512--14675574 Score: 76
Period size: 10 Copynumber: 6.3 Consensus size: 10
14675502 TTAAAATAAT
14675512 TAATTAATTA
1 TAATTAATTA
14675522 TAATTAA-T-
1 TAATTAATTA
14675530 TAATTAATTA
1 TAATTAATTA
14675540 TAATTAATTAAA
1 TAATTAATT--A
*
14675552 TATTTAATTA
1 TAATTAATTA
*
14675562 TATTTAATTA
1 TAATTAATTA
14675572 TAA
1 TAA
14675575 AAAACAACCC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
8 7 0.15
9 2 0.04
10 29 0.62
12 9 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TAATTAATTA
Found at i:14675568 original size:18 final size:18
Alignment explanation
Indices: 14675512--14675568 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
14675502 TTAAAATAAT
* *
14675512 TAATTAATTATAATTAAT
1 TAATTAATTATATTTAAA
14675530 TAATTAATTATAATTAATTAAA
1 TAATTAATTAT-A-T--TTAAA
*
14675552 TATTTAATTATATTTAA
1 TAATTAATTATATTTAA
14675569 TTATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 15 0.47
19 1 0.03
20 1 0.03
21 1 0.03
22 14 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTATATTTAAA
Found at i:14675609 original size:18 final size:18
Alignment explanation
Indices: 14675588--14675626 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14675578 ACAACCCAAA
14675588 TATACCCAAATATTTAAT
1 TATACCCAAATATTTAAT
***
14675606 TATATTTAAATATTTAAT
1 TATACCCAAATATTTAAT
14675624 TAT
1 TAT
14675627 TTAATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
TATACCCAAATATTTAAT
Found at i:14675639 original size:8 final size:8
Alignment explanation
Indices: 14675598--14675641 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
14675588 TATACCCAAA
14675598 TATTTAATT
1 TATTTAA-T
*
14675607 ATATTTAAA
1 -TATTTAAT
14675616 TATTTAAT
1 TATTTAAT
14675624 TATTTAAT
1 TATTTAAT
14675632 TATTTAAT
1 TATTTAAT
14675640 TA
1 TA
14675642 ATAAAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTAAT
Found at i:14681215 original size:21 final size:21
Alignment explanation
Indices: 14681189--14681235 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
14681179 TTACAACTTA
14681189 AAGCGGAGGCAGCAGCGAGG-G
1 AAGCGGAGGCAGCAGCG-GGAG
14681210 AAGCGGAGGCAGCAGCGGGAG
1 AAGCGGAGGCAGCAGCGGGAG
14681231 AAGCG
1 AAGCG
14681236 ATGGAAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.30, C:0.19, G:0.51, T:0.00
Consensus pattern (21 bp):
AAGCGGAGGCAGCAGCGGGAG
Found at i:14681244 original size:21 final size:21
Alignment explanation
Indices: 14681189--14681245 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
14681179 TTACAACTTA
*
14681189 AAGCGGAGGCAGCAGCGAGGG
1 AAGCGGAGGAAGCAGCGAGGG
*
14681210 AAGCGGAGGCAGCAGCG-GGAG
1 AAGCGGAGGAAGCAGCGAGG-G
14681231 AAGC-GATGGAAGCAG
1 AAGCGGA-GGAAGCAG
14681246 AGGCAACAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.32, C:0.18, G:0.49, T:0.02
Consensus pattern (21 bp):
AAGCGGAGGAAGCAGCGAGGG
Found at i:14681795 original size:42 final size:42
Alignment explanation
Indices: 14681671--14681943 Score: 285
Period size: 42 Copynumber: 6.5 Consensus size: 42
14681661 GCGGCGTTTG
* * * * *
14681671 ATGTTTTTTAGCAGCATTTGTGAGAGAAGCGCCGCTAAATACC
1 ATGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGACC
14681714 ATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACC
1 ATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGACC
* * * * * *
14681757 ATGTTTTTTAGTGGCATTTTTGGAAAAACGCTGCTAAAGACC
1 ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACC
*
14681799 ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAAC
1 ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACC
** * * * *
14681841 ATGTTCTTTAGAAGCGTTTATGGGAAAGGGCTGCTAAAGACC
1 ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACC
* * * * * * * *
14681883 ATATTCTATATCGGCGTTTATGGGAAAGCGCTGCTAATGCCC
1 ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACC
*
14681925 ATGTTCTATAGCGGCGTTT
1 ATGTTCTTTAGCGGCGTTT
14681944 TTCCTTATAA
Statistics
Matches: 194, Mismatches: 35, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
42 140 0.72
43 53 0.27
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACC
Found at i:14687107 original size:21 final size:21
Alignment explanation
Indices: 14687081--14687122 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14687071 TTCTTGTATA
14687081 TTTTTATGTAACTTTAAATTT
1 TTTTTATGTAACTTTAAATTT
*
14687102 TTTTTATGTAACTTTTAATTT
1 TTTTTATGTAACTTTAAATTT
14687123 GTTAGGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTTTATGTAACTTTAAATTT
Found at i:14692654 original size:75 final size:75
Alignment explanation
Indices: 14692568--14692708 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 75
14692558 TTATTTACTA
* ** *
14692568 ATTTAAATATTTATCCTTTAATTATTT-TTTTTCAAGTCCCATCAATGTTTTTTTATTTTTAATT
1 ATTTAAATATTTATCCTTTAATTATTTCTTTTTAAAGTCCCATCAATGTCCTTTT-TTTTAAATT
14692632 AATACCTATTT
65 AATACCTATTT
* *
14692643 ATTTAAATATTTATTCTTTAATTATTTCTTTTTAAAGTCCTATCAATGTCCTTTTTTTTAAATTA
1 ATTTAAATATTTATCCTTTAATTATTTCTTTTTAAAGTCCCATCAATGTCCTTTTTTTTAAATTA
14692708 A
66 A
14692709 AATCTATTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 36 0.61
76 23 0.39
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (75 bp):
ATTTAAATATTTATCCTTTAATTATTTCTTTTTAAAGTCCCATCAATGTCCTTTTTTTTAAATTA
ATACCTATTT
Found at i:14692723 original size:75 final size:75
Alignment explanation
Indices: 14692568--14692724 Score: 208
Period size: 75 Copynumber: 2.1 Consensus size: 75
14692558 TTATTTACTA
* ** *
14692568 ATTTAAATATTTATCCTTTAATTATTTTTTTTCAAGTCCCATCAATGTTTTTTTATTTTTAATTA
1 ATTTAAATATTTATCCTTTAATTATTTTTTTTAAAGTCCCATCAATGTCCTTTTATTTTAAATTA
* *
14692633 ATACCTATTT
66 AAACCTATTC
* *
14692643 ATTTAAATATTTATTCTTTAATTATTTCTTTTTAAAGTCCTATCAATGTCCTTTT-TTTTAAATT
1 ATTTAAATATTTATCCTTTAATTATTT-TTTTTAAAGTCCCATCAATGTCCTTTTATTTTAAATT
*
14692707 AAAATCTATTC
65 AAAACCTATTC
*
14692718 CTTTAAA
1 ATTTAAA
14692725 ATATGTCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 48 0.68
76 23 0.32
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (75 bp):
ATTTAAATATTTATCCTTTAATTATTTTTTTTAAAGTCCCATCAATGTCCTTTTATTTTAAATTA
AAACCTATTC
Found at i:14694623 original size:30 final size:30
Alignment explanation
Indices: 14694588--14694786 Score: 142
Period size: 30 Copynumber: 6.7 Consensus size: 30
14694578 GGCCAAAACA
*
14694588 TAATTTTGGAAAAGTGTAAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* ** * *
14694618 CAATTTTGGAAAAGTTTGGGGGTCAACATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
14694648 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* * * *
14694678 TAATTTTAGG-GAAGTTT-GGGGGTCAAATG
1 TAATTTT-GGAAAAGTTTAAGGGTTAAAATG
* *** *
14694707 TAATTTT--AAAAGTTTGA-GGACCAAATT
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
*
14694734 TGAATTTT-TAGAAAGTTTAAAGGGTTAAAATG
1 T-AATTTTGGA-AAAGTTT-AAGGGTTAAAATG
* *
14694766 TGATTTT-TAGAAAGTTTAAGG
1 TAATTTTGGA-AAAGTTTAAGG
14694787 ACTTTTTAGG
Statistics
Matches: 135, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
27 14 0.10
28 6 0.04
29 17 0.13
30 73 0.54
31 18 0.13
32 7 0.05
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTAAGGGTTAAAATG
Found at i:14694653 original size:60 final size:59
Alignment explanation
Indices: 14694588--14694713 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 59
14694578 GGCCAAAACA
14694588 TAATTTTGGAAAAGTGTAAGGGTTAAAATGCAATTTT-GGAAAAGTTTGGGGGTCAACATG
1 TAATTTTGGAAAAGTGTAAGGGTTAAAATGCAATTTTAGG-AAAGTTTGGGGGTCAA-ATG
* * *
14694648 TAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTAGGGAAGTTTGGGGGTCAAATG
1 TAATTTTGGAAAAGTGTAAGGGTTAAAATGCAATTTTAGGAAAGTTTGGGGGTCAAATG
14694707 TAATTTT
1 TAATTTT
14694714 AAAAGTTTGA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
59 10 0.16
60 50 0.81
61 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (59 bp):
TAATTTTGGAAAAGTGTAAGGGTTAAAATGCAATTTTAGGAAAGTTTGGGGGTCAAATG
Found at i:14696541 original size:85 final size:85
Alignment explanation
Indices: 14696398--14696555 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
14696388 CTTTTGGTCT
* * * * * * *
14696398 ACTTCTCTGCATCTCATCAGGAAGATGATCACTTCATTGTTTTAATCCACTTCTTTGTATCTCAT
1 ACTTCTCTACATCTCATCAAGAAAATGAACACTTCATTGCTTCAACCCACTTCTTTGTATCTCAT
*
14696463 TAGGAAGACGAATTTGATTC
66 CAGGAAGACGAATTTGATTC
* *
14696483 ACTTCTCTACATCTCGTCAAGAAAATGAACACTTTATTGCTTCAACCCAC-TCTTTTGTATCTCA
1 ACTTCTCTACATCTCATCAAGAAAATGAACACTTCATTGCTTCAACCCACTTC-TTTGTATCTCA
14696547 TCAGGAAGA
65 TCAGGAAGA
14696556 TGGGGTTTGG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 2 0.03
85 60 0.97
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (85 bp):
ACTTCTCTACATCTCATCAAGAAAATGAACACTTCATTGCTTCAACCCACTTCTTTGTATCTCAT
CAGGAAGACGAATTTGATTC
Found at i:14696754 original size:209 final size:207
Alignment explanation
Indices: 14696394--14697131 Score: 853
Period size: 208 Copynumber: 3.6 Consensus size: 207
14696384 TCATCTTTTG
* * * * * *
14696394 GTCTACTTCTCTGCATCTCATCAGGAAGATGATCACTTCATTGTTTTAATCCACTTCTTTGTATC
1 GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTCATTATTTTAATCCACTTCTCTGTATC
* * * *
14696459 TCATTAGGAAGACGAATTTGATTCACTTCTCTACATCTCGTCAAGAAA-ATGAACACTTTATTGC
66 TCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTC-AGAAAGATGAACACTTTATTGC
* * * * *
14696523 TTCAACCCACTCTTTTGTATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCATATTGAGCTT
130 TTCGACCCATTC-TTTGTATCTCATCAGGAAGATGGGGTTT-GAAGTCTCATTCGTATTGAGCTT
* ** *
14696588 CACTTTGTTGAATTA
193 CGCTTCATTGATTTA
* * *
14696603 GTCTACTTTTCTGTATCTTATCA-AGAAGATGACCGCTTCATTATTTTAATCCACTTTTCTGTAT
1 GTCTACTTCTCTGTATCTCATCAGA-AAGATGACCGCTTCATTATTTTAATCCACTTCTCTGTAT
** * * * *
14696667 CTCATCAAAAAGATGGATTTGGTTCATTTCTCTGCATCTCGTCAGAAAGGTGAACACTTTATTAC
65 CTCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGAACACTTTATTGC
* * *
14696732 TTCGACCCATTTCTTTGTATCTCATGAAGAAGATGGGGTTTGAAATCTCATTCGTATTGAGCTTC
130 TTCGACCCA-TTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTC
14696797 GCTTCATTGATTTA
194 GCTTCATTGATTTA
* * * * * * *
14696811 GTCTACTTTTTTGTATCTTATCAGAAAGATGAACG-TCTCATTGTTTCAATCCACTTCTCAGTAT
1 GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCT-TCATTATTTTAATCCACTTCTCTGTAT
* * *
14696875 CTCATCAGGAAGAGGGATTTGGTTCACTTCTCTACATCTCATCACG-AAGATGACCACTTT-TTG
65 CTCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCA-GAAAGATGAACACTTTATTG
* * * *
14696938 GTTCGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTTGTTTTGAGCTT
129 CTTCGACCCA-TTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTT
* *
14697003 TGCTTCATTGATTTG
193 CGCTTCATTGATTTA
* *
14697018 GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCATTGA---AAATCCACTTCTCTGTAT
1 GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTCATT-ATTTTAATCCACTTCTCTGTAT
* ** * *
14697080 CTCATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCTTCAAAAAGATG
65 CTCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATG
14697132 GGGTTTGAAG
Statistics
Matches: 450, Mismatches: 70, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
205 61 0.14
207 109 0.24
208 139 0.31
209 139 0.31
210 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (207 bp):
GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTCATTATTTTAATCCACTTCTCTGTATC
TCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGAACACTTTATTGCT
TCGACCCATTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGC
TTCATTGATTTA
Found at i:14696877 original size:208 final size:206
Alignment explanation
Indices: 14696394--14697131 Score: 858
Period size: 209 Copynumber: 3.6 Consensus size: 206
14696384 TCATCTTTTG
* * * * * * *
14696394 GTCTACTTCTCTGCATCTCATCAGGAAGATGATCACTTCATTGTTTTAATCCACTTCTTTGTATC
1 GTCTACTTTTCTGTATCTTATCAGAAAGATGACCGC-TCATTGTTTTAATCCACTTCTCTGTATC
* * * *
14696459 TCATTAGGAAGACGAATTTGATTCACTTCTCTACATCTCGTCAAGAAA-ATGAACACTTTATTGC
65 TCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTC-AGAAAGATGAACACTTTATTGC
* * * * *
14696523 TTCAACCCACTCTTTTGTATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCATATTGAGCTT
129 TTCGACCCATTC-TTTGTATCTCATCAGGAAGATGGGGTTT-GAAGTCTCATTCGTATTGAGCTT
* ** *
14696588 CACTTTGTTGAATTA
192 CGCTTCATTGATTTA
* *
14696603 GTCTACTTTTCTGTATCTTATCA-AGAAGATGACCGCTTCATTATTTTAATCCACTTTTCTGTAT
1 GTCTACTTTTCTGTATCTTATCAGA-AAGATGACCGC-TCATTGTTTTAATCCACTTCTCTGTAT
** * * * *
14696667 CTCATCAAAAAGATGGATTTGGTTCATTTCTCTGCATCTCGTCAGAAAGGTGAACACTTTATTAC
64 CTCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGAACACTTTATTGC
* * *
14696732 TTCGACCCATTTCTTTGTATCTCATGAAGAAGATGGGGTTTGAAATCTCATTCGTATTGAGCTTC
129 TTCGACCCA-TTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTC
14696797 GCTTCATTGATTTA
193 GCTTCATTGATTTA
* * * *
14696811 GTCTACTTTTTTGTATCTTATCAGAAAGATGAACGTCTCATTGTTTCAATCCACTTCTCAGTATC
1 GTCTACTTTTCTGTATCTTATCAGAAAGATGACCG-CTCATTGTTTTAATCCACTTCTCTGTATC
* * * *
14696876 TCATCAGGAAGAGGGATTTGGTTCACTTCTCTACATCTCATCACG-AAGATGACCACTTT-TTGG
65 TCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCA-GAAAGATGAACACTTTATTGC
* * * *
14696939 TTCGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTTGTTTTGAGCTTT
129 TTCGACCCA-TTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTC
*
14697004 GCTTCATTGATTTG
193 GCTTCATTGATTTA
* * **
14697018 GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCATTG--AAAATCCACTTCTCTGTATC
1 GTCTACTTTTCTGTATCTTATCAGAAAGATGACCG-CTCATTGTTTTAATCCACTTCTCTGTATC
* ** * *
14697081 TCATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCTTCAAAAAGATG
65 TCATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATG
14697132 GGGTTTGAAG
Statistics
Matches: 452, Mismatches: 70, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
205 61 0.13
207 110 0.24
208 139 0.31
209 140 0.31
210 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (206 bp):
GTCTACTTTTCTGTATCTTATCAGAAAGATGACCGCTCATTGTTTTAATCCACTTCTCTGTATCT
CATCAGGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGAACACTTTATTGCTT
CGACCCATTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCT
TCATTGATTTA
Found at i:14697167 original size:158 final size:159
Alignment explanation
Indices: 14696945--14697292 Score: 448
Period size: 158 Copynumber: 2.2 Consensus size: 159
14696935 TTGGTTCGAC
* * **** **
14696945 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTTGTTTTGAGCTTTGCTTCA
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCACTTCA
* * *
14697010 TTGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCA-TTGA-AAATCCACTTC
66 TCGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCACATCACTT-ATAAATCCACTTC
* * *
14697073 TCTGTATCTCATCAGGAAGATGGATTTGGT
130 TCTATATCTCATCAAGAAGACGGATTTGGT
* * *
14697103 CCACTTCTCTGTATCTCTTCAAAAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCA
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCACTTCA
* * * *
14697168 TCGATTTGGTCTACTTCTCTGTATCTTATCAGGAAGATGACCACATCACTTATTTTAATCCGCTT
66 TCGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCACATCACTTA--TAAATCCACTT
*
14697233 CTTTATATCTCATCAAGAAGACGGATTTGGT
129 CTCTATATCTCATCAAGAAGACGGATTTGGT
*
14697264 CCACTACTCTGTATCTCATCAAGAAGATG
1 CCACTTCTCTGTATCTCATCAAGAAGATG
14697293 ACCATTTTAT
Statistics
Matches: 161, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
158 98 0.61
159 2 0.01
161 61 0.38
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (159 bp):
CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCACTTCA
TCGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCACATCACTTATAAATCCACTTCT
CTATATCTCATCAAGAAGACGGATTTGGT
Found at i:14697342 original size:367 final size:366
Alignment explanation
Indices: 14696742--14697492 Score: 1004
Period size: 367 Copynumber: 2.0 Consensus size: 366
14696732 TTCGACCCAT
* * * * ** * *
14696742 TTCTTTGTATCTCATGAAGAAGATGGGGTTTGAAATCTCATTCGTATTGAGCTTCGCTTCATTGA
1 TTCTCTGTATCTCATCAAAAAGATGGGGTTTGAAATCTCACTCACATTGAGCTTCACTTCATCGA
* * * * *
14696807 TTTAGTCTACTTTTTTGTATCTTATCAGAAAGATGAACGTCTCATTGTTTCAATCCACTTCTCAG
66 TTTAGTCTACTTCTCTGTATCTTATCAGAAAGATGAACATCACATTATTTCAATCCACTTCTCAG
* * * * *
14696872 TATCTCATCAGGAAGAGGGATTTGGTTCACTTCTCTACATCTCATCACGAAGATGACCACTTTTT
131 TATCTCATCAAGAAGACGGATTTGGTCCACTACTCTACATCTCATCAAGAAGATGACCACTTTTT
* * * * *
14696937 GGTTCGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTTGTTTTGAGCT
196 GCTTCGACCCACTTCTATGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTAAGCT
* *
14697002 TTGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCA-TTGAAAAT
261 TCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGAAAGATGACCGCCTCATTTGAAAAT
* *
14697066 CCACTTCTCTGTATCTCATCAGGAAGATGGATTTGGTCCAC
326 CCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCAC
* * *
14697107 TTCTCTGTATCTCTTCAAAAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATCGA
1 TTCTCTGTATCTCATCAAAAAGATGGGGTTTGAAATCTCACTCACATTGAGCTTCACTTCATCGA
* * * *
14697172 TTTGGTCTACTTCTCTGTATCTTATCAGGAAGATGACCACATCAC-TTATTTTAATCCGCTTCTT
66 TTTAGTCTACTTCTCTGTATCTTATCAGAAAGATGA--ACATCACATTATTTCAATCCACTTC-T
* ** *
14697236 TA-TATCTCATCAAGAAGACGGATTTGGTCCACTACTCTGTATCTCATCAAGAAGATGACCATTT
128 CAGTATCTCATCAAGAAGACGGATTTGGTCCACTACTCTACATCTCATCAAGAAGATGACCACTT
* *
14697300 TATTGCTTTGACCCACTTCTATGTATCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGTATTA
193 T-TTGCTTCGACCCACTTCTATGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTA
* * * * *
14697365 AGCTTCGCTTCATTGATTTGGTCTACTTCTGTATATTTCATCAGGAAGATGATCGCCTCATTTTT
257 AGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGAAAGATGACCGCCTCA-TTTG
** *
14697430 TTAATCCATTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCAC
321 AAAATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCAC
14697476 TTCTCTGTATCTCATCA
1 TTCTCTGTATCTCATCA
14697493 GGAACAAGGA
Statistics
Matches: 331, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
365 86 0.26
366 69 0.21
367 117 0.35
369 59 0.18
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (366 bp):
TTCTCTGTATCTCATCAAAAAGATGGGGTTTGAAATCTCACTCACATTGAGCTTCACTTCATCGA
TTTAGTCTACTTCTCTGTATCTTATCAGAAAGATGAACATCACATTATTTCAATCCACTTCTCAG
TATCTCATCAAGAAGACGGATTTGGTCCACTACTCTACATCTCATCAAGAAGATGACCACTTTTT
GCTTCGACCCACTTCTATGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTAAGCT
TCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGAAAGATGACCGCCTCATTTGAAAAT
CCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCAC
Found at i:14697489 original size:37 final size:37
Alignment explanation
Indices: 14697434--14697535 Score: 159
Period size: 37 Copynumber: 2.8 Consensus size: 37
14697424 ATTTTTTTAA
* * *
14697434 TCCATTTCTCTGTATCTCATCAAGAAGACGGATTTGG
1 TCCACTTCTCTGTATCTCATCAGGAAGAAGGATTTGG
*
14697471 TCCACTTCTCTGTATCTCATCAGGAACAAGGATTTGG
1 TCCACTTCTCTGTATCTCATCAGGAAGAAGGATTTGG
*
14697508 TCCACTTCTCTATATCTCATCAGGAAGA
1 TCCACTTCTCTGTATCTCATCAGGAAGA
14697536 TGACCTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (37 bp):
TCCACTTCTCTGTATCTCATCAGGAAGAAGGATTTGG
Found at i:14697632 original size:38 final size:39
Alignment explanation
Indices: 14697554--14697636 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
14697544 TTATTATTTC
* *
14697554 GGATGACTGTAATTTGCCCCATGATCGGGGTAAGAGATT
1 GGATGACTATAATCTGCCCCATGATCGGGGTAAGAGATT
* *
14697593 GGATGACTATAATCTGCTCTATGATC-GGGTAAGAGATT
1 GGATGACTATAATCTGCCCCATGATCGGGGTAAGAGATT
14697631 GGATGA
1 GGATGA
14697637 TGATGGCTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 18 0.45
39 22 0.55
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (39 bp):
GGATGACTATAATCTGCCCCATGATCGGGGTAAGAGATT
Found at i:14697813 original size:41 final size:41
Alignment explanation
Indices: 14697695--14698137 Score: 629
Period size: 41 Copynumber: 10.8 Consensus size: 41
14697685 GACTGTAATT
* *
14697695 TGCCCCTCTTGACTTAAGGGTAAAAGACT-AGAATCTCCAATC
1 TGCCCTTCTTGA-TTAAGGGTAAAAGACTGA-AATCTTCAATC
* *
14697737 TGTCCTTCTTGATTTAAGGGTAAAAGACTGGAATCTTCAATC
1 TGCCCTTCTTGA-TTAAGGGTAAAAGACTGAAATCTTCAATC
* * *
14697779 TACCCTTCTTGATTAAAGGTAAAAGACCGAAATCTTCAATC
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
*
14697820 TGCCATTCTTGATTAAGGGTAAAAGA-TCGAAATCTTCAATC
1 TGCCCTTCTTGATTAAGGGTAAAAGACT-GAAATCTTCAATC
* * * *
14697861 TGCCCTTCTTGATTAAGGGTAAAAAACTGGAATCTTCATTT
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
*
14697902 TGCCCTTCTTGATTAAGGGTAAAAGATTGAAATCTTCAATC
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
* *
14697943 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTTAATT
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
* * * *
14697984 TTCCCTTCTTGATTAAGGGTAAAAGATTGAAATATTCAATT
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
* * *
14698025 TGTCCTTCTTGATTAAGGGTAAAAAACTGGAATCTTCAATC
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
*
14698066 TACCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
14698107 TGCCCTTCTTGATTAAGGGTAAAAGACTGAA
1 TGCCCTTCTTGATTAAGGGTAAAAGACTGAA
14698138 TGATCATGTA
Statistics
Matches: 355, Mismatches: 43, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
41 308 0.87
42 47 0.13
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (41 bp):
TGCCCTTCTTGATTAAGGGTAAAAGACTGAAATCTTCAATC
Found at i:14698559 original size:50 final size:49
Alignment explanation
Indices: 14698451--14698574 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
14698441 GTTGCAGCCT
* *
14698451 CAACCTTTCCCTTAAAATCTTCATGATACCGGGTTCACCGTTATGGCCT
1 CAACCTTTCCCTTAAAATCTTCATGATACCGGGTTCACCGTTATGCCCC
* * ** * *
14698500 CAACCTTTCCCTTTAAATCTTCATGGTACCGGGTTTGCCTTTGTGACCCC
1 CAACCTTTCCCTTAAAATCTTCATGATACCGGGTTCACCGTTATG-CCCC
* * *
14698550 CAACCTTTCCCATCACATCTTCATG
1 CAACCTTTCCCTTAAAATCTTCATG
14698575 TTTCCTTGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 39 0.62
50 24 0.38
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (49 bp):
CAACCTTTCCCTTAAAATCTTCATGATACCGGGTTCACCGTTATGCCCC
Found at i:14703838 original size:30 final size:30
Alignment explanation
Indices: 14703727--14703937 Score: 164
Period size: 30 Copynumber: 7.1 Consensus size: 30
14703717 TTTCGAAGAA
* * *
14703727 TTTAG-GGCTAAAACATAATTTTGGAAAAG
1 TTTAGAGGTTAAAATATAATTTTAGAAAAG
* *
14703756 TTTA-AGGTTAAAATATAATTTTGGAAAAT
1 TTTAGAGGTTAAAATATAATTTTAGAAAAG
* * *
14703785 TTTAGGGGTTAATATATAATTTTAGAAAAC
1 TTTAGAGGTTAAAATATAATTTTAGAAAAG
*
14703815 TTTAGAGGTTAAAATATAATTTTAGAGAAG
1 TTTAGAGGTTAAAATATAATTTTAGAAAAG
* *
14703845 TTTA-AGGGTTCAAATGTAATTTCTA-AAAAG
1 TTTAGA-GGTTAAAATATAATTT-TAGAAAAG
*** * * *
14703875 TTT-GAGGACCAAGTTTGAATTTTTGAAAAG
1 TTTAGAGGTTAAAATAT-AATTTTAGAAAAG
* * * *
14703905 TTTAGTGGTTAAAATGTGATTTT-TAAAAG
1 TTTAGAGGTTAAAATATAATTTTAGAAAAG
14703934 TTTA
1 TTTA
14703938 AGGACTTCTT
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
29 47 0.32
30 91 0.62
31 9 0.06
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (30 bp):
TTTAGAGGTTAAAATATAATTTTAGAAAAG
Found at i:14705394 original size:17 final size:18
Alignment explanation
Indices: 14705362--14705395 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14705352 AATTAACAAC
14705362 AATAAGTAATACAATCAA
1 AATAAGTAATACAATCAA
*
14705380 AATAA-TAATATAATCA
1 AATAAGTAATACAATCA
14705396 TGGTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAAGTAATACAATCAA
Found at i:14707599 original size:99 final size:98
Alignment explanation
Indices: 14707467--14707706 Score: 329
Period size: 99 Copynumber: 2.4 Consensus size: 98
14707457 GATACTGTAA
* * *
14707467 GTTTTAATCTGCCCCTCTACAACTTTACA-GGTATAGGATTTGGGGTTATAACTTCGCTCTATTT
1 GTTTTAATCTG-CCCTCTACAACTTTA-AGGGTATAGGATTTGGGGTTATAACTTCACTCCATTC
*
14707531 CACTACAACTTTAGGGAGATTAAGGTTCGCTACTC
64 CACCACAACTTTAGGGAGATTAAGGTTCGCTACTC
* * *
14707566 GTTTTAATCTGCCTCTCTACAACTTTAGGGGTATAGGATTTGGGGTTGTAATTTCACTCCATTCC
1 GTTTTAATCTGCC-CTCTACAACTTTAAGGGTATAGGATTTGGGGTTATAACTTCACTCCATTCC
* * *
14707631 ACCATAACTTTAGGGAGATTGAGGTTCGTTACTC
65 ACCACAACTTTAGGGAGATTAAGGTTCGCTACTC
* *
14707665 GTTTTAATCTGCCCTTTTATAACTTTAAGGGTATAGGATTTG
1 GTTTTAATCTGCCC-TCTACAACTTTAAGGGTATAGGATTTG
14707707 TCATTCTATC
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
98 3 0.02
99 122 0.98
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (98 bp):
GTTTTAATCTGCCCTCTACAACTTTAAGGGTATAGGATTTGGGGTTATAACTTCACTCCATTCCA
CCACAACTTTAGGGAGATTAAGGTTCGCTACTC
Found at i:14710242 original size:194 final size:194
Alignment explanation
Indices: 14709893--14710337 Score: 712
Period size: 194 Copynumber: 2.3 Consensus size: 194
14709883 ACTAGTATAT
* * *
14709893 GATGCTACTCACATGAGCTGTCGAGGACTCGTAACATATGTGGTACCCCAGCCATCGATACGACA
1 GATGCTACTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCCCAACCATCGATACGACA
* * *
14709958 ACTATGCATATAACTGTCCCTTAATGATGCTGTTCACACGAGCTGTCGAGAATATGCACTTGCAT
66 ACTATGCATATAACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTGCAT
*
14710023 AAATCCCAGCCATTATAGGGCCTATAATCCATTCTTGGATTCATTTCACATTTTCCCGACCCAC
131 AAATCCCAGCCATCATAGGGCCTATAATCCATTCTTGGATTCATTTCACATTTTCCCGACCCAC
* * * *
14710087 GATGCTGCTCACACAAGCTATCGAGGACTCATAACATATGCGGTACCCCAACCATCGATACTG-C
1 GATGCTACTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCCCAACCATCGATAC-GAC
* *
14710151 AGCTATGCATATAACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCATTTGCA
65 AACTATGCATATAACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTGCA
* * *
14710216 TAAATCCCAGCCATCGTAGGGCCTATAATCCATTCTTGGATTCATTTCACATTTTCTCGACCCAT
130 TAAATCCCAGCCATCATAGGGCCTATAATCCATTCTTGGATTCATTTCACATTTTCCCGACCCAC
* *
14710281 GATGCTACTCACACGAGTTGTCGAGGACTCGCAACATATGCGGTACCCCAACCATCG
1 GATGCTACTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCCCAACCATCG
14710338 CATTGGTCAC
Statistics
Matches: 228, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
194 227 1.00
195 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (194 bp):
GATGCTACTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCCCAACCATCGATACGACA
ACTATGCATATAACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTGCAT
AAATCCCAGCCATCATAGGGCCTATAATCCATTCTTGGATTCATTTCACATTTTCCCGACCCAC
Found at i:14713643 original size:21 final size:21
Alignment explanation
Indices: 14713619--14713658 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14713609 AGTACATTTG
*
14713619 TCAATCTTAAGAGCAATTTTC
1 TCAATCTTAAGAACAATTTTC
14713640 TCAATCTTAAGAACAATTT
1 TCAATCTTAAGAACAATTT
14713659 GTCAAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (21 bp):
TCAATCTTAAGAACAATTTTC
Found at i:14721904 original size:16 final size:16
Alignment explanation
Indices: 14721885--14721919 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14721875 CAACATATAA
14721885 AAAAATAATAAAAAAT
1 AAAAATAATAAAAAAT
* *
14721901 AAAAATAGTAACAAAT
1 AAAAATAATAAAAAAT
14721917 AAA
1 AAA
14721920 TAAGGTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAATAATAAAAAAT
Found at i:14722391 original size:29 final size:30
Alignment explanation
Indices: 14722329--14722392 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
14722319 ATAAGTGATT
*
14722329 TTTTTAAAAAAAAAATCATTTGCTTCTTTG
1 TTTTTAAAAAAAAAATCATTTGCTTCTTTC
*
14722359 TTTTTAAAAAAAAGATCATTCT-CTT-TTTC
1 TTTTTAAAAAAAAAATCATT-TGCTTCTTTC
14722388 TTTTT
1 TTTTT
14722393 TCTCTCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
30 22 0.71
31 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTTAAAAAAAAAATCATTTGCTTCTTTC
Found at i:14730295 original size:132 final size:132
Alignment explanation
Indices: 14730054--14730333 Score: 506
Period size: 132 Copynumber: 2.1 Consensus size: 132
14730044 TGTTACAGTT
* * *
14730054 ACAACTCGTATGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGG
1 ACAACTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGG
*
14730119 TCCTGCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGAC
66 TCCTGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGAC
14730184 CC
131 CC
* *
14730186 TCAGCTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGG
1 ACAACTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGG
14730251 TCCTGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGAC
66 TCCTGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGAC
14730316 CC
131 CC
14730318 ACAACTCGTGTGAGCA
1 ACAACTCGTGTGAGCA
14730334 GGCCCATTTC
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 140 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (132 bp):
ACAACTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGG
TCCTGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGAC
CC
Found at i:14730475 original size:158 final size:158
Alignment explanation
Indices: 14730187--14730491 Score: 497
Period size: 158 Copynumber: 1.9 Consensus size: 158
14730177 TCTCGACCCT
14730187 CAGCTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGGT
1 CAGCTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGGT
* *
14730252 CCTGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACC
66 CCTGCATTGATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCCAACATCTCGACC
14730317 CACAACTCGTGTGAGCAGGCCCATTTCA
131 CACAACTCGTGTGAGCAGGCCCATTTCA
* * *
14730345 CAGCTCGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCTTACC-ACTGGCTGAGG
1 CAGCTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGA-TGGCTGAGG
* * * *
14730409 TCC-GACATTTATTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCCCACATCTCGA
65 TCCTG-CATTGATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCCAACATCTCGA
14730473 CCCACAACTCGTGTGAGCA
129 CCCACAACTCGTGTGAGCA
14730492 TATATGATTA
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
157 2 0.01
158 134 0.99
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.27
Consensus pattern (158 bp):
CAGCTCGTGTGAGCATCACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGGT
CCTGCATTGATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCCAACATCTCGACC
CACAACTCGTGTGAGCAGGCCCATTTCA
Found at i:14735382 original size:38 final size:38
Alignment explanation
Indices: 14735287--14735390 Score: 106
Period size: 38 Copynumber: 2.7 Consensus size: 38
14735277 ACTACAACGA
* * * *
14735287 CAATTCTGGGCAT-GCTAATGCAGTGATAATTTTAGGCG
1 CAATTCTGGACATAG-TCATGCAATGACAATTTTAGGCG
* *
14735325 CAATTTTGGACATCGTCATGCAATGACAATTTTAGGCG
1 CAATTCTGGACATAGTCATGCAATGACAATTTTAGGCG
14735363 CAATTCT-GA-ATAGACTCATGCAATGACA
1 CAATTCTGGACATAG--TCATGCAATGACA
14735391 TTAACAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 3 0.05
37 2 0.04
38 50 0.89
39 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (38 bp):
CAATTCTGGACATAGTCATGCAATGACAATTTTAGGCG
Found at i:14740192 original size:28 final size:28
Alignment explanation
Indices: 14740113--14740192 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
14740103 TGTACACACA
*
14740113 AAACA-AAGATGAAGTTTGTTGGGACAGT
1 AAACACAAGAT-AAGTTTGATGGGACAGT
*
14740141 AAACACAAGATAAG-TTCACTGGGACAGT
1 AAACACAAGATAAGTTTGA-TGGGACAGT
* * *
14740169 AAACACGAGGTAAGTTTGAGGGGA
1 AAACACAAGATAAGTTTGATGGGA
14740193 TGCAAAGAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 33 0.77
29 8 0.19
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (28 bp):
AAACACAAGATAAGTTTGATGGGACAGT
Found at i:14743301 original size:54 final size:54
Alignment explanation
Indices: 14743242--14743356 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
14743232 TCATGACAAG
** * *
14743242 TGAAGACCATATAATGTAAGGCCTAGCCGAATTGCCATGGCATCATATGGGAAA
1 TGAAGACCATATAATGTAAACCCTAGCCGAATTACCATGGAATCATATGGGAAA
* * * *
14743296 TGAAGACCATATAGTGTAAACCCTAGTCGGATTACTATGGAATCATATGGGAAA
1 TGAAGACCATATAATGTAAACCCTAGCCGAATTACCATGGAATCATATGGGAAA
14743350 TGAAGAC
1 TGAAGAC
14743357 TCACATTGTG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
TGAAGACCATATAATGTAAACCCTAGCCGAATTACCATGGAATCATATGGGAAA
Found at i:14743395 original size:54 final size:54
Alignment explanation
Indices: 14743278--14743409 Score: 130
Period size: 54 Copynumber: 2.5 Consensus size: 54
14743268 CCGAATTGCC
* *
14743278 ATGG-CATCATATGGGAAATGAAGACCATATAGTGTAAACCCTAGTCGGATTACT
1 ATGGACATCATATGGGAAATGAAGACCACATAGTGTAAACCCTAGTCGGA-GACT
* *
14743332 ATGGA-ATCATATGGGAAATGAAGACTCACATTGTGTAAGA-CCTAGTTTGG-GACT
1 ATGGACATCATATGGGAAATGAAGAC-CACATAGTGTAA-ACCCTAG-TCGGAGACT
* * *
14743386 -TTGACATCATGTGGAAAATGAAGA
1 ATGGACATCATATGGGAAATGAAGA
14743410 AGACGGTTGG
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
53 3 0.05
54 44 0.67
55 15 0.23
56 4 0.06
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (54 bp):
ATGGACATCATATGGGAAATGAAGACCACATAGTGTAAACCCTAGTCGGAGACT
Found at i:14743540 original size:30 final size:30
Alignment explanation
Indices: 14743504--14743646 Score: 198
Period size: 30 Copynumber: 4.8 Consensus size: 30
14743494 TTACTAAAAA
*
14743504 GTGAAAGCCTTTGTGGTTGTTCTTTGAAAT
1 GTGAAAGCCTTTGTGGTTGTTCTCTGAAAT
* * *
14743534 GTGAAAGCCTTTGTGGCTATTCTCTGATAT
1 GTGAAAGCCTTTGTGGTTGTTCTCTGAAAT
*
14743564 GTGAAAGCCTTTATGGTTGTTCTCT-AATAT
1 GTGAAAGCCTTTGTGGTTGTTCTCTGAA-AT
* * *
14743594 GTGGAAGCCTTTGTGGTTGTCCTCTGATAT
1 GTGAAAGCCTTTGTGGTTGTTCTCTGAAAT
14743624 GTGAAAGCCTTTGTGGTTGTTCT
1 GTGAAAGCCTTTGTGGTTGTTCT
14743647 TTGTTACATG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
29 1 0.01
30 95 0.98
31 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (30 bp):
GTGAAAGCCTTTGTGGTTGTTCTCTGAAAT
Found at i:14743945 original size:30 final size:30
Alignment explanation
Indices: 14743837--14743974 Score: 116
Period size: 30 Copynumber: 4.6 Consensus size: 30
14743827 AATGTATCTA
* * *
14743837 GACGCCTTTGTGGCTATCTAATGATGTGTA
1 GACGCTTTTATGGCTATCTAATGATGTGTG
* *
14743867 GAGGCTTTTATAGCTATCTAATGATGTGTG
1 GACGCTTTTATGGCTATCTAATGATGTGTG
* * * * *
14743897 GATGCCTTTGTGGTTATTTAATGATGTGTG
1 GACGCTTTTATGGCTATCTAATGATGTGTG
* * * **
14743927 GACGCTTTTACGGCTATTTAA-GTTAAGTG
1 GACGCTTTTATGGCTATCTAATGATGTGTG
* *
14743956 GACGCCTTCATGGCTATCT
1 GACGCTTTTATGGCTATCT
14743975 GTTGATCAAG
Statistics
Matches: 85, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
29 20 0.24
30 65 0.76
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.39
Consensus pattern (30 bp):
GACGCTTTTATGGCTATCTAATGATGTGTG
Found at i:14747071 original size:17 final size:17
Alignment explanation
Indices: 14747049--14747081 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14747039 TGTTAGTAAG
14747049 CATTGTCGTTACATTTT
1 CATTGTCGTTACATTTT
*
14747066 CATTGTCGTTGCATTT
1 CATTGTCGTTACATTT
14747082 CAGTGTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (17 bp):
CATTGTCGTTACATTTT
Found at i:14751973 original size:17 final size:17
Alignment explanation
Indices: 14751951--14751984 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14751941 TGTTAGTAAG
*
14751951 CATTGTCGTTGCATTTT
1 CATTGTCATTGCATTTT
14751968 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
14751985 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.53
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:14760594 original size:39 final size:39
Alignment explanation
Indices: 14760551--14760636 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
14760541 TCAAAATCTA
14760551 AAATATTTTGAAGAA-GGGGAAGATTGTTGGAACATTTTC
1 AAATATTTTGAA-AAGGGGGAAGATTGTTGGAACATTTTC
*
14760590 AAATA-TTTGAAAATGGGGGGAGATTGTTGGAACATTTTC
1 AAATATTTTGAAAA-GGGGGAAGATTGTTGGAACATTTTC
14760629 AAATATTT
1 AAATATTT
14760637 ATGTGTTCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
37 2 0.05
38 6 0.14
39 33 0.77
40 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (39 bp):
AAATATTTTGAAAAGGGGGAAGATTGTTGGAACATTTTC
Found at i:14761518 original size:13 final size:13
Alignment explanation
Indices: 14761500--14761524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14761490 CAGTTGTATC
14761500 ACAATCAGTCTCT
1 ACAATCAGTCTCT
14761513 ACAATCAGTCTC
1 ACAATCAGTCTC
14761525 ACTTAACACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (13 bp):
ACAATCAGTCTCT
Found at i:14762339 original size:26 final size:28
Alignment explanation
Indices: 14762310--14762367 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
14762300 GTAGTTATCA
14762310 TAATCTAAAATTATAATTATTA-TAT-T
1 TAATCTAAAATTATAATTATTAGTATAT
* * *
14762336 TAATCTAATATTTTATTTATTAGTATAT
1 TAATCTAAAATTATAATTATTAGTATAT
14762364 TAAT
1 TAAT
14762368 TATAGTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 19 0.70
27 3 0.11
28 5 0.19
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATCTAAAATTATAATTATTAGTATAT
Found at i:14768265 original size:29 final size:28
Alignment explanation
Indices: 14768219--14768282 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
14768209 TTGACCTTAT
* * *
14768219 TTGATTCTTTTCAGTAGTTCAGAGACTAAA
1 TTGA-TCTATTCAATAGTACAG-GACTAAA
* *
14768249 TTGATCTATTCAATAGTACTGGACTAAT
1 TTGATCTATTCAATAGTACAGGACTAAA
14768277 TTGATC
1 TTGATC
14768283 CTGTTCCCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 12 0.41
29 13 0.45
30 4 0.14
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (28 bp):
TTGATCTATTCAATAGTACAGGACTAAA
Found at i:14769477 original size:44 final size:44
Alignment explanation
Indices: 14769426--14769515 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
14769416 TTTTAAATAA
* * *
14769426 AATAGAAGTTGTGATAATTATACA-TTTAAAAATAATTATAATTT
1 AATAGAAGTTGGGATAATTACA-ATTTTAAAAATAATTAGAATTT
* *
14769470 AATAGAAGTTGGGATAATTACAATTTTAAAACTTATTAGAATTT
1 AATAGAAGTTGGGATAATTACAATTTTAAAAATAATTAGAATTT
14769514 AA
1 AA
14769516 ATTATAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (44 bp):
AATAGAAGTTGGGATAATTACAATTTTAAAAATAATTAGAATTT
Found at i:14772167 original size:23 final size:23
Alignment explanation
Indices: 14772105--14772168 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
14772095 GTCAAAGTCA
* *
14772105 ATTTGTCTTCCACAATTTTAGGG
1 ATTTGTCTTCTACAATTTTAGGC
* *
14772128 ATGTGTTTATCTA-AATTTTAGGC
1 ATTTGTCT-TCTACAATTTTAGGC
14772151 ATTTGTCTTCTACAATTT
1 ATTTGTCTTCTACAATTT
14772169 GAGATTTGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 4 0.12
23 26 0.79
24 3 0.09
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (23 bp):
ATTTGTCTTCTACAATTTTAGGC
Found at i:14775196 original size:23 final size:23
Alignment explanation
Indices: 14775164--14775255 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
14775154 CATGTTTGTT
*
14775164 CACAATATCACATTAATATTTAAA
1 CACAA-ATCACATTAATATTTAAG
* *
14775188 CATAAATCACATTAATATTTGAG
1 CACAAATCACATTAATATTTAAG
*
14775211 CACAAATCATATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
14775234 CACAAATCACATTAATATTTAA
1 CACAAATCACATTAATATTTAA
14775256 TCAAAGATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
23 57 0.93
24 4 0.07
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (23 bp):
CACAAATCACATTAATATTTAAG
Found at i:14779584 original size:23 final size:23
Alignment explanation
Indices: 14779558--14779627 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
14779548 TAAAAGAGAA
14779558 ACAAATC-CTTAAAATTGTGAAAG
1 ACAAATCAC-TAAAATTGTGAAAG
*
14779581 ACAAA-CACCTAAAATT-TAGGCAA-
1 ACAAATCA-CTAAAATTGT--GAAAG
14779604 ACAAATCACTAAAATTGTGAAAG
1 ACAAATCACTAAAATTGTGAAAG
14779627 A
1 A
14779628 TAATTTCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
22 5 0.13
23 26 0.68
24 7 0.18
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.21
Consensus pattern (23 bp):
ACAAATCACTAAAATTGTGAAAG
Found at i:14779617 original size:46 final size:45
Alignment explanation
Indices: 14779556--14779665 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 45
14779546 GATAAAAGAG
14779556 AAACAAATCCTTAAAATTGTGAAAGACAAACACCTAAAATTTAGGC-
1 AAACAAATCC-TAAAATTGTGAAAGACAAACACCTAAAATTTA-GCT
* ***
14779602 AAACAAATCACTAAAATTGTGAAAGATAATTTCCTAAAATTTAGCT
1 AAACAAATC-CTAAAATTGTGAAAGACAAACACCTAAAATTTAGCT
*
14779648 AAACACATCTCTAAAATT
1 AAACAAATC-CTAAAATT
14779666 AAAATTGTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
45 2 0.04
46 53 0.95
47 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (45 bp):
AAACAAATCCTAAAATTGTGAAAGACAAACACCTAAAATTTAGCT
Found at i:14780203 original size:18 final size:18
Alignment explanation
Indices: 14780166--14780204 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14780156 CCTTGATGCA
* * *
14780166 ATTTTTATTTGAAGTTTT
1 ATTTTTATTAGAAATGTT
14780184 ATTTTTATTAGAAATGTT
1 ATTTTTATTAGAAATGTT
14780202 ATT
1 ATT
14780205 AAAATTACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (18 bp):
ATTTTTATTAGAAATGTT
Found at i:14785221 original size:17 final size:17
Alignment explanation
Indices: 14785198--14785242 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
14785188 ATTATTAATA
**
14785198 TCATTGCATTTTTATTG
1 TCATTGCATTTACATTG
* *
14785215 TCGTTGCATCTACATTG
1 TCATTGCATTTACATTG
14785232 TCATTGCATTT
1 TCATTGCATTT
14785243 CCATATATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (17 bp):
TCATTGCATTTACATTG
Found at i:14794698 original size:31 final size:31
Alignment explanation
Indices: 14794592--14794730 Score: 126
Period size: 31 Copynumber: 4.5 Consensus size: 31
14794582 TTAATATAAT
*
14794592 ATTTGGTACCTGAACTTGACACTTTTTTCTTA
1 ATTTGGTACCTAAACTTGACAC-TTTTTCTTA
* * * *
14794624 ATTTTGTACCTCAACTT----TTTTTTGTTCA
1 ATTTGGTACCTAAACTTGACACTTTTTCTT-A
* *
14794652 ATTTGATA-CTCAAACTTGACACTTTTTCCTA
1 ATTTGGTACCT-AAACTTGACACTTTTTCTTA
*
14794683 ATTTGGTACCTAAACTTGACACTTTTTTTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTA
* *
14794714 AGTTGGTACTTAAACTT
1 ATTTGGTACCTAAACTT
14794731 TTTGGGGTCC
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
27 9 0.11
28 12 0.14
31 41 0.48
32 23 0.27
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTA
Found at i:14794758 original size:90 final size:90
Alignment explanation
Indices: 14794592--14794784 Score: 262
Period size: 90 Copynumber: 2.1 Consensus size: 90
14794582 TTAATATAAT
* * * * *** *
14794592 ATTTGGTACCTGAACTTGACACTTTTTTCTTAATTTTGTACCTCAACTTTTTTTTGTTCAATTTG
1 ATTTGGTACCTAAACTTGACACTTTTTTCTTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTG
14794657 ATACTCAAACTTGACACTTTTTCCTA
66 ATACTCAAACTTGACACTTTTT-CTA
*
14794683 ATTTGGTACCTAAACTTGACACTTTTTT-TTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTG
1 ATTTGGTACCTAAACTTGACACTTTTTTCTTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTG
** *
14794747 ATACTTGAACTTGACTCTTTTTCTA
66 ATACTCAAACTTGACACTTTTTCTA
14794772 ATTTGGTACCTAA
1 ATTTGGTACCTAA
14794785 TCTTTTTTTA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
89 16 0.18
90 47 0.52
91 27 0.30
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCTTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTG
ATACTCAAACTTGACACTTTTTCTA
Found at i:14795056 original size:59 final size:59
Alignment explanation
Indices: 14794990--14795104 Score: 194
Period size: 59 Copynumber: 1.9 Consensus size: 59
14794980 AAAAAATGCA
* * *
14794990 AAGTTCAAGTACCAAATTGGGTCTAAAAAAGTTTAGGTATCAAATTAAAAAAAAGTGTC
1 AAGTTCAAATACCAAATTGGGTCAAAAAAAGTTTAGATATCAAATTAAAAAAAAGTGTC
*
14795049 AAGTTCAAATACTAAATTGGGTCAAAAAAAGTTTAGATATCAAATTAAAAAAAAGT
1 AAGTTCAAATACCAAATTGGGTCAAAAAAAGTTTAGATATCAAATTAAAAAAAAGT
14795105 TTAGATACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.27
Consensus pattern (59 bp):
AAGTTCAAATACCAAATTGGGTCAAAAAAAGTTTAGATATCAAATTAAAAAAAAGTGTC
Found at i:14795078 original size:60 final size:59
Alignment explanation
Indices: 14794953--14795104 Score: 193
Period size: 59 Copynumber: 2.6 Consensus size: 59
14794943 ATTGAATCTA
* * *
14794953 AAAAAAAGCTTCA-GTAGCAAATTAGGAAAAAAA-TGCAAAGTTCAAGTACCAAATTGGGTC
1 AAAAAAAG-TTTAGGTATCAAATTA--AAAAAAAGTGCAAAGTTCAAATACCAAATTGGGTC
* *
14795013 TAAAAAAGTTTAGGTATCAAATTAAAAAAAAGTGTC-AAGTTCAAATACTAAATTGGGTC
1 AAAAAAAGTTTAGGTATCAAATTAAAAAAAAGTG-CAAAGTTCAAATACCAAATTGGGTC
*
14795072 AAAAAAAGTTTAGATATCAAATTAAAAAAAAGT
1 AAAAAAAGTTTAGGTATCAAATTAAAAAAAAGT
14795105 TTAGATACCA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
58 7 0.09
59 57 0.70
60 18 0.22
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.24
Consensus pattern (59 bp):
AAAAAAAGTTTAGGTATCAAATTAAAAAAAAGTGCAAAGTTCAAATACCAAATTGGGTC
Found at i:14795103 original size:24 final size:24
Alignment explanation
Indices: 14795072--14795117 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
14795062 AAATTGGGTC
*
14795072 AAAAAAAGTTTAGATATCAAATTA
1 AAAAAAAGTTTAGATACCAAATTA
14795096 AAAAAAAGTTTAGATACCAAAT
1 AAAAAAAGTTTAGATACCAAAT
14795118 ATTATATTAA
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:0.59, C:0.07, G:0.09, T:0.26
Consensus pattern (24 bp):
AAAAAAAGTTTAGATACCAAATTA
Found at i:14797121 original size:29 final size:29
Alignment explanation
Indices: 14797076--14797144 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
14797066 TCATAGGAAT
14797076 TAAAAATATATCAAACA-AATTAATTAAAAA
1 TAAAAATATATCAAACACAA-TAA-TAAAAA
** *
14797106 T-AAAATATATTTAACACAATAATAAATA
1 TAAAAATATATCAAACACAATAATAAAAA
14797134 TAAAAATATAT
1 TAAAAATATAT
14797145 AATATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 6 0.18
29 25 0.74
30 3 0.09
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (29 bp):
TAAAAATATATCAAACACAATAATAAAAA
Found at i:14797242 original size:98 final size:98
Alignment explanation
Indices: 14797107--14797284 Score: 259
Period size: 98 Copynumber: 1.8 Consensus size: 98
14797097 AATTAAAAAT
14797107 AAAATATATTTAACACAATAATAAATATAAAAATATATAATATCATTATATAATTACATATTTAT
1 AAAATATATTTAACACAATAATAAATATAAAAATATATAATATCATTATATAATTACATATTTAT
14797172 TAATTTTATATATAAATAAAGGAATTATTAATTA
66 T-ATTTTATATATAAATAAAGGAATTATTAATTA
* * * * * * * *
14797206 AAAATATTTTTAATATAATGATATATAT-AAAATATATATTTTTATTATATAATTACATATTTAT
1 AAAATATATTTAACACAATAATAAATATAAAAATATATAATATCATTATATAATTACATATTTAT
*
14797270 TATTTTATTTATAAA
66 TATTTTATATATAAA
14797285 AGAGTTATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
97 13 0.19
98 34 0.49
99 23 0.33
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.46
Consensus pattern (98 bp):
AAAATATATTTAACACAATAATAAATATAAAAATATATAATATCATTATATAATTACATATTTAT
TATTTTATATATAAATAAAGGAATTATTAATTA
Found at i:14797318 original size:13 final size:12
Alignment explanation
Indices: 14797291--14797315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14797281 TAAAAGAGTT
14797291 ATTAATTAAAAA
1 ATTAATTAAAAA
14797303 ATTAATTAAAAA
1 ATTAATTAAAAA
14797315 A
1 A
14797316 ATTTGAAAAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAATTAAAAA
Found at i:14797345 original size:93 final size:97
Alignment explanation
Indices: 14797131--14797317 Score: 233
Period size: 98 Copynumber: 2.0 Consensus size: 97
14797121 ACAATAATAA
* * *
14797131 ATATA-AAAATATATAATATCATTATATAATTACATATTTATTAATTTTATATATAAATAAAGGA
1 ATATACAAAATATATATTATTATTATATAATTACATATTTATTAATTTTATATAT-AATAAAAGA
* * *
14797195 ATTATTAATTAAAAATATTTTTAATATAATGAT
65 ATTATTAATTAAAAATATTATTAAAAAAATGAT
* * *
14797228 ATATATAAAATATATATTTTTATTATATAATTACATATTTATT-ATTTTAT-T-T-ATAAAAGAG
1 ATATACAAAATATATATTATTATTATATAATTACATATTTATTAATTTTATATATAATAAAAGAA
14797289 TTATTAATTAAAAA-ATTAATTAAAAAAAT
66 TTATTAATTAAAAATATT-ATTAAAAAAAT
14797318 TTGAAAACAA
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
92 3 0.04
93 29 0.36
95 1 0.01
96 1 0.01
97 12 0.15
98 34 0.43
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (97 bp):
ATATACAAAATATATATTATTATTATATAATTACATATTTATTAATTTTATATATAATAAAAGAA
TTATTAATTAAAAATATTATTAAAAAAATGAT
Found at i:14798513 original size:17 final size:17
Alignment explanation
Indices: 14798477--14798520 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14798467 TCTCTCTTGA
* *
14798477 TCTTTAACCTTCCATCT
1 TCTTTAACTTTCCATAT
*
14798494 TCTTTAACTTTTCATAT
1 TCTTTAACTTTCCATAT
14798511 TCTTGTAACT
1 TCTT-TAACT
14798521 ATTTTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.20, C:0.25, G:0.02, T:0.52
Consensus pattern (17 bp):
TCTTTAACTTTCCATAT
Done.