Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 56 of 161
Found at i:17433051 original size:29 final size:29
Alignment explanation
Indices: 17433017--17433075 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
17433007 TCCACCTTGA
* * * *
17433017 CACGAATTCTTAATGAACAAGTTCTTCAT
1 CACGAAATCTCAACGAACAAGTTCTCCAT
17433046 CACGAAATCTCAACGAACAAGTTCTCCAT
1 CACGAAATCTCAACGAACAAGTTCTCCAT
17433075 C
1 C
17433076 TCTTCCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (29 bp):
CACGAAATCTCAACGAACAAGTTCTCCAT
Found at i:17441826 original size:19 final size:19
Alignment explanation
Indices: 17441802--17441841 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
17441792 GATTACTGGA
17441802 GGGCAGCCCTGAGAAAGGC
1 GGGCAGCCCTGAGAAAGGC
*
17441821 GGGCAGCCTTGAGAAAGGC
1 GGGCAGCCCTGAGAAAGGC
17441840 GG
1 GG
17441842 CAAAGGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.45, T:0.07
Consensus pattern (19 bp):
GGGCAGCCCTGAGAAAGGC
Found at i:17447438 original size:51 final size:49
Alignment explanation
Indices: 17447313--17447498 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
17447303 GTGAAAGTGA
* * *
17447313 TGGTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* ** * *
17447363 AGGTTGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * *
17447413 TCGATCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCAGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
*
17447463 GATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
17447499 TGTGAACCGA
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 42 0.37
51 70 0.62
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:17447501 original size:102 final size:101
Alignment explanation
Indices: 17447316--17447507 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 101
17447306 AAAGTGATGG
* **
17447316 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGATAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTAC
*
17447381 TATGTGCAGGCTACTATGTGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGTGAACCGGATAGCTTCGA
* *
17447417 TCACATGTGTAGTACTATGTGC-AGACTACTACGTGTATCAGATAG-TGATGGTCACATGTGTAG
1 TCACATGTGTAGTACTATGTGCAAG-CTACTACGTGTACCAGAAAGAT-A-GGTCACATGTGTAG
*
17447480 TACTATGTGTAGGCTACTATGTGAACCG
63 TACTATGTGCAGGCTACTATGTGAACCG
17447508 ATATCATTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
100 3 0.04
101 40 0.49
102 38 0.47
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGTGAACCGGATAGCTTCGA
Found at i:17447538 original size:101 final size:101
Alignment explanation
Indices: 17447322--17447507 Score: 259
Period size: 102 Copynumber: 1.8 Consensus size: 101
17447312 ATGGTCACGT
**
17447322 GTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGATAGGTTGCATGTGTAGTACTATGTG
1 GTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTACTATGTG
* * *
17447387 CAGGCTACTATGTGTACCGGATAGCTTCGATCACAT
66 CAGGCTACTATGTGAACCGGATAGCTTCAATCACAA
* *
17447423 GTGTAGTACTATGTGC-AGACTACTACGTGTATCAGATAG-TGATGGTCACATGTGTAGTACTAT
1 GTGTAGTACTATGTGCAAG-CTACTACGTGTACCAGAAAGAT-A-GGTCACATGTGTAGTACTAT
*
17447486 GTGTAGGCTACTATGTGAACCG
63 GTGCAGGCTACTATGTGAACCG
17447508 ATATCATTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 3 0.04
101 35 0.46
102 38 0.50
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
GTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTACTATGTG
CAGGCTACTATGTGAACCGGATAGCTTCAATCACAA
Found at i:17455353 original size:52 final size:54
Alignment explanation
Indices: 17455219--17455354 Score: 141
Period size: 54 Copynumber: 2.6 Consensus size: 54
17455209 AACAATATCT
* * * *
17455219 AAAAAAATTTGGGTGCTGGGACACTGATGATCGACACCTATTTGTCTGATTAAA
1 AAAAAAATTTGGGTACTGGGACACTGATGGTCGACACCCATTTATCTGATTAAA
* * * * ** * * *
17455273 AAAAAAATTTAGGTACTAGAACATTGATGGTCGGTACCCCTTTATTTGA-T-AG
1 AAAAAAATTTGGGTACTGGGACACTGATGGTCGACACCCATTTATCTGATTAAA
17455325 AAAAAAATTTGGGTACTGGGACACTGATGG
1 AAAAAAATTTGGGTACTGGGACACTGATGG
17455355 CTGGCACTCT
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
52 27 0.42
53 1 0.02
54 37 0.57
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (54 bp):
AAAAAAATTTGGGTACTGGGACACTGATGGTCGACACCCATTTATCTGATTAAA
Found at i:17461719 original size:12 final size:11
Alignment explanation
Indices: 17461683--17461743 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
17461673 TTTAATATCC
17461683 AAAT-AAGT-A
1 AAATAAAGTAA
*
17461692 AAATAAAAT-A
1 AAATAAAGTAA
*
17461702 AAATAATGTAA
1 AAATAAAGTAA
17461713 TAAATAAAGTAA
1 -AAATAAAGTAA
*
17461725 AAATAAAAATAA
1 AAAT-AAAGTAA
17461737 AAATAAA
1 AAATAAA
17461744 AATTGGGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 4 0.09
10 11 0.26
11 8 0.19
12 20 0.47
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (11 bp):
AAATAAAGTAA
Found at i:17461733 original size:6 final size:6
Alignment explanation
Indices: 17461722--17461746 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17461712 ATAAATAAAG
17461722 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
17461747 TGGGTTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:17464039 original size:50 final size:50
Alignment explanation
Indices: 17463910--17464152 Score: 200
Period size: 50 Copynumber: 4.8 Consensus size: 50
17463900 TGATAATAAC
* * ** * * *
17463910 ATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCGTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCA
* * * **
17463959 CTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCA
* * *** * *
17464009 ATGCCCATGTCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCA
* * * * *
17464059 GTGCCAACGCTATGTCCCAGAAATGGTCTTACATGGGACCTATCATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---A
*
17464115 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
17464153 TCTCATTCCC
Statistics
Matches: 148, Mismatches: 39, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
49 38 0.26
50 75 0.51
53 2 0.01
56 33 0.22
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCA
Found at i:17473803 original size:18 final size:18
Alignment explanation
Indices: 17473747--17473795 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
17473737 GGTTTTCTCT
* * *
17473747 AAAAGGAAACTGAAACTA
1 AAAATGAAAATGAAAATA
17473765 AAAATGAAAATGAAAATA
1 AAAATGAAAATGAAAATA
17473783 AAAATGAAAATGA
1 AAAATGAAAATGA
17473796 CTTGAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.67, C:0.04, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAATGAAAATGAAAATA
Found at i:17473807 original size:6 final size:6
Alignment explanation
Indices: 17473765--17473795 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
17473755 ACTGAAACTA
*
17473765 AAAATG AAAATG AAAATA AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A
17473796 CTTGAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:17476760 original size:14 final size:14
Alignment explanation
Indices: 17476743--17476779 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
17476733 TACCACAACG
17476743 AATTGTGGCAGGTC
1 AATTGTGGCAGGTC
*
17476757 AATTGT-CCAGGTC
1 AATTGTGGCAGGTC
17476770 AATTGTGGCA
1 AATTGTGGCA
17476780 AATCGATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (14 bp):
AATTGTGGCAGGTC
Found at i:17484164 original size:6 final size:6
Alignment explanation
Indices: 17484153--17484182 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
17484143 TATTATAACC
*
17484153 ATGTTT ATGTTT ATTTTT ATGTTT ATGTTT
1 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
17484183 TGGGGTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (6 bp):
ATGTTT
Found at i:17486009 original size:13 final size:13
Alignment explanation
Indices: 17485962--17486015 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
17485952 GATGCTAATG
17485962 GAAGATCCATATT
1 GAAGATCCATATT
*
17485975 GATGAT---TACTT
1 GAAGATCCATA-TT
*
17485986 GCAAAATCCATATT
1 G-AAGATCCATATT
17486000 GAAGATCCATATT
1 GAAGATCCATATT
17486013 GAA
1 GAA
17486016 TAGCTAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 3 0.09
13 19 0.59
14 3 0.09
15 2 0.06
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
GAAGATCCATATT
Found at i:17488452 original size:23 final size:23
Alignment explanation
Indices: 17488424--17488472 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
17488414 TGCAAAGGAC
*
17488424 AAAGCGTCAGATAAACGTGTTCA
1 AAAGCGTCAGATAAACATGTTCA
*
17488447 AAAGCGTCAGATAGACATGTTCA
1 AAAGCGTCAGATAAACATGTTCA
17488470 AAA
1 AAA
17488473 TATAGCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (23 bp):
AAAGCGTCAGATAAACATGTTCA
Found at i:17494853 original size:36 final size:36
Alignment explanation
Indices: 17494808--17494881 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
17494798 CAACAAAGGG
17494808 GGAAGGAGGCCTATCAAAGTCACTTTCCTAGGTTAA
1 GGAAGGAGGCCTATCAAAGTCACTTTCCTAGGTTAA
17494844 GGAAGGAGGCCTATCAAAGTCACTTTCCTAGGTTAA
1 GGAAGGAGGCCTATCAAAGTCACTTTCCTAGGTTAA
17494880 GG
1 GG
17494882 TAGGTTCAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (36 bp):
GGAAGGAGGCCTATCAAAGTCACTTTCCTAGGTTAA
Found at i:17499890 original size:22 final size:22
Alignment explanation
Indices: 17499865--17499908 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17499855 CAGTCAAAGG
17499865 AAGGTTTAAATTCATAATTGGT
1 AAGGTTTAAATTCATAATTGGT
17499887 AAGGTTTAAATTCATAATTGGT
1 AAGGTTTAAATTCATAATTGGT
17499909 CCTTCAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (22 bp):
AAGGTTTAAATTCATAATTGGT
Found at i:17504966 original size:49 final size:49
Alignment explanation
Indices: 17504896--17505350 Score: 796
Period size: 49 Copynumber: 9.4 Consensus size: 49
17504886 NNNNNNNNNN
*
17504896 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
17504945 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
17504994 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
17505043 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
17505090 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
17505139 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
**
17505188 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGGCCATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC--TTATCACAT
* *
17505237 ATATATACACTTTCACATTCATCACTTCGGTCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
17505286 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
17505335 ATATATACA--TTCACAT
1 ATATATACACTTTCACAT
17505351 CACAATTATC
Statistics
Matches: 389, Mismatches: 11, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 58 0.15
49 326 0.84
51 5 0.01
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:17505225 original size:194 final size:194
Alignment explanation
Indices: 17504896--17505350 Score: 794
Period size: 194 Copynumber: 2.3 Consensus size: 194
17504886 NNNNNNNNNN
*
17504896 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
17504961 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
**
17505026 ATTAGGCC-TTATCACATATATATACACTTTCACATTCATCACATCGG-CTATTAGGCCTTATCA
131 ATTAGGCCGCCATCAC--ATATATACACTTTCACATTCATCACATCGGTC-ATTAGGCCTTATCA
17505089 C-
193 CA
17505090 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
17505155 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
*
17505220 ATTAGGCCGGCCATCACATATATACACTTTCACATTCATCACTTCGGTCATTAGGCCTTATCACA
131 ATTAGGCC-GCCATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACA
17505285 TATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA--TTCA
1 -ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
17505348 CAT
65 CAT
17505351 CACAATTATC
Statistics
Matches: 252, Mismatches: 4, Indels: 10
0.95 0.02 0.04
Matches are distributed among these distances:
194 188 0.75
195 1 0.00
196 63 0.25
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (194 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCGCCATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACA
Found at i:17507767 original size:25 final size:25
Alignment explanation
Indices: 17507738--17507787 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
17507728 ACGAATTTTC
* *
17507738 TCAAAATTTTATCGGGGTAAAATTG
1 TCAAAATTTTACCAGGGTAAAATTG
17507763 TCAAAATTTTACCAGGGTAAAATTG
1 TCAAAATTTTACCAGGGTAAAATTG
17507788 GAATGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (25 bp):
TCAAAATTTTACCAGGGTAAAATTG
Found at i:17509668 original size:17 final size:17
Alignment explanation
Indices: 17509648--17509716 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
17509638 AAAATAATAT
17509648 TATTTTAA-TAGATTTAA
1 TATTTTAATTA-ATTTAA
17509665 TA-TTTAATTTAATTTAA
1 TATTTTAA-TTAATTTAA
* *
17509682 TA-TTTATCTTAA--TAG
1 TATTTTA-ATTAATTTAA
17509697 TA-TTTAATTAATTTAA
1 TATTTTAATTAATTTAA
17509713 TATT
1 TATT
17509717 AAAGTAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 4 0.10
15 8 0.19
16 9 0.21
17 19 0.45
18 2 0.05
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTTTAATTAATTTAA
Found at i:17509726 original size:20 final size:19
Alignment explanation
Indices: 17509663--17509750 Score: 62
Period size: 20 Copynumber: 4.8 Consensus size: 19
17509653 TAATAGATTT
*
17509663 AATATTTAATTTAAT-TT-
1 AATAATTAATTTAATATTA
* *
17509680 AAT-ATTTATCTTAATAGTA
1 AATAATTAAT-TTAATATTA
**
17509699 TTTAATTAATTTAATATTA
1 AATAATTAATTTAATATTA
17509718 AAGTAATT-ATCTTAATATTA
1 AA-TAATTAAT-TTAATATTA
17509738 AAT--TTAATTTAAT
1 AATAATTAATTTAAT
17509751 GTTTATCTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
16 4 0.07
17 15 0.27
18 3 0.05
19 12 0.22
20 21 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
AATAATTAATTTAATATTA
Found at i:17509728 original size:39 final size:38
Alignment explanation
Indices: 17509642--17509750 Score: 108
Period size: 37 Copynumber: 3.0 Consensus size: 38
17509632 ATTTTAAAAA
*
17509642 TAAT-ATTATTTTAATAGATTTAATATTTAATTTAATT
1 TAATAATTATCTTAATAGATTTAATATTTAATTTAATT
*
17509679 TAATATTTATCTTAATAGTATTT-A-A-TTAATTTAATAT
1 TAATAATTATCTTAATAG-ATTTAATATTTAATTTAAT-T
17509716 TAAAGTAATTATCTTAAT--A-TTAA-ATTTAATTTAAT
1 T-AA-TAATTATCTTAATAGATTTAATATTTAATTTAAT
17509751 GTTTATCTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
35 2 0.03
36 13 0.21
37 17 0.27
38 14 0.23
39 16 0.26
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (38 bp):
TAATAATTATCTTAATAGATTTAATATTTAATTTAATT
Found at i:17518468 original size:9 final size:9
Alignment explanation
Indices: 17518454--17518481 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17518444 TTTTGTTACA
17518454 ACAATTAAT
1 ACAATTAAT
17518463 ACAATTAAT
1 ACAATTAAT
17518472 ACAATTAAT
1 ACAATTAAT
17518481 A
1 A
17518482 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:17518503 original size:68 final size:66
Alignment explanation
Indices: 17518424--17518565 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
17518414 TCAAGTTTGT
*
17518424 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
17518489 AAA
64 AAA
17518492 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
17518557 T
66 A
17518558 TTTACTAA
1 TTTACTAA
17518566 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:17518575 original size:16 final size:16
Alignment explanation
Indices: 17518554--17518595 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
17518544 AATAATTTGA
*
17518554 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
17518570 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
17518586 TAGTTTTAAT
1 TAATTTTAAT
17518596 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:17518579 original size:22 final size:23
Alignment explanation
Indices: 17518569--17518622 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
17518559 TTACTAACAA
* * *
17518569 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATATAAAAAATAATT
*
17518591 TTAATTTTATTTAAAAAATAATT
1 TTAATTTTATATAAAAAATAATT
17518614 TTAATTTTA
1 TTAATTTTA
17518623 ATTTTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TTAATTTTATATAAAAAATAATT
Found at i:17518584 original size:59 final size:66
Alignment explanation
Indices: 17518424--17518587 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
17518414 TCAAGTTTGT
*
17518424 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
17518489 AAA
64 AAA
17518492 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
17518555 AAT
64 AAA
*
17518558 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
17518588 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:17518647 original size:5 final size:5
Alignment explanation
Indices: 17518637--17518668 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
17518627 TAATTAAAAA
17518637 CGGGC CGGGC CGGGC CGGGC CGGGC TCGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC -CGGGC C
17518669 CCATATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.41, G:0.56, T:0.03
Consensus pattern (5 bp):
CGGGC
Found at i:17530459 original size:51 final size:51
Alignment explanation
Indices: 17530296--17530480 Score: 205
Period size: 51 Copynumber: 3.6 Consensus size: 51
17530286 TAAAAGTGAT
* * *
17530296 GGTCATATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-AATAATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATAGTAATA
* * *** * * *
17530346 GGTCGCATGTGTAGTACTATGTGTAGGCTACTATACGTACCGGATAGT-TTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATAGTAATA
* * *
17530397 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATAGTAATA
17530448 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
17530481 TGTGAACCGA
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
50 33 0.30
51 73 0.67
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATAGTAATA
Found at i:17530484 original size:26 final size:26
Alignment explanation
Indices: 17530404--17530484 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
17530394 TTCGATCACG
17530404 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
17530430 CGTGTA-T-CAGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
17530455 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
17530481 TGTG
1 TGTG
17530485 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:17533609 original size:14 final size:14
Alignment explanation
Indices: 17533574--17533602 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17533564 TGACTTTCTC
17533574 TAGTTTGTAGTGTT
1 TAGTTTGTAGTGTT
17533588 TAGTTTGTAGTGTT
1 TAGTTTGTAGTGTT
17533602 T
1 T
17533603 GCTTTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TAGTTTGTAGTGTT
Found at i:17536384 original size:24 final size:24
Alignment explanation
Indices: 17536351--17536398 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17536341 AAATGATCAA
*
17536351 ATTGGGTTTTAAA-TATTAATGGGT
1 ATTGGATTTTAAACT-TTAATGGGT
17536375 ATTGGATTTTAAACTTTAATGGGT
1 ATTGGATTTTAAACTTTAATGGGT
17536399 TTAGACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (24 bp):
ATTGGATTTTAAACTTTAATGGGT
Found at i:17543450 original size:65 final size:63
Alignment explanation
Indices: 17543333--17543459 Score: 218
Period size: 65 Copynumber: 2.0 Consensus size: 63
17543323 ATAAACATTA
17543333 CACTAAACCATAGTCGCAAGCTAGTCTTTTTGAAGACTAACCACATGATAAACCATTTTAATG
1 CACTAAACCATAGTCGCAAGCTAGTCTTTTTGAAGACTAACCACATGATAAACCATTTTAATG
* *
17543396 CACTCAACCATAGTCGCAAGCTAGTCTTTTTTTGAAGACTAACTACATGATAAACCATTTTAAT
1 CACTAAACCATAGTCGCAAGCTAGTC--TTTTTGAAGACTAACCACATGATAAACCATTTTAAT
17543460 AAAGATTACA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 25 0.42
65 35 0.58
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (63 bp):
CACTAAACCATAGTCGCAAGCTAGTCTTTTTGAAGACTAACCACATGATAAACCATTTTAATG
Found at i:17544787 original size:45 final size:45
Alignment explanation
Indices: 17544730--17544816 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
17544720 CAGATACTCG
* * *
17544730 GTGGATTCAGCACATAGCAACCGCCTTATTAATCAATAATGTCTA
1 GTGGATTCAGCACATAGCAACCACCTTACTAATAAATAATGTCTA
*
17544775 GTGGAATT-AGCACATAGCAACCACCTTACTAATAAATGATGT
1 GTGG-ATTCAGCACATAGCAACCACCTTACTAATAAATAATGT
17544817 TCGGTTCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 34 0.92
46 3 0.08
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (45 bp):
GTGGATTCAGCACATAGCAACCACCTTACTAATAAATAATGTCTA
Found at i:17544881 original size:51 final size:50
Alignment explanation
Indices: 17544816--17544959 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
17544806 ATAAATGATG
*
17544816 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGATCAAAAC-T
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CAAAACAT
** * * ** *
17544866 ATTCGGTACGTATAGTAGCCTGCACATAGTACTACACATGCGACCTATCAT
1 -TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAACAT
*
17544917 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
17544960 CATCACTTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 41 0.52
51 38 0.48
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAACAT
Found at i:17555276 original size:20 final size:20
Alignment explanation
Indices: 17555251--17555290 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17555241 CGTAAAATGA
*
17555251 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
17555271 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
17555291 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17555280 original size:34 final size:35
Alignment explanation
Indices: 17555236--17555302 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
17555226 CAGTAAAATA
*
17555236 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
17555270 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
17555303 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:17555306 original size:14 final size:15
Alignment explanation
Indices: 17555230--17555306 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
17555220 GATTGCCAGT
* *
17555230 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
17555244 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
17555258 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
17555278 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
17555293 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
17555307 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:17555904 original size:17 final size:18
Alignment explanation
Indices: 17555884--17555919 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17555874 TTGTTAGGCG
17555884 TCTGT-TTTTAATGTTGC
1 TCTGTCTTTTAATGTTGC
*
17555901 TCTGTCTTTTCATGTTGC
1 TCTGTCTTTTAATGTTGC
17555919 T
1 T
17555920 TTACAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.08, C:0.17, G:0.17, T:0.58
Consensus pattern (18 bp):
TCTGTCTTTTAATGTTGC
Found at i:17557774 original size:23 final size:25
Alignment explanation
Indices: 17557733--17557778 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
17557723 AAAAAAGCTA
17557733 AAATTAGAAAAGAAAAAAATGAAGG
1 AAATTAGAAAAGAAAAAAATGAAGG
*
17557758 AAATTA-AAAAG-ATAAAATGAA
1 AAATTAGAAAAGAAAAAAATGAA
17557779 TTTCCCCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 5 0.25
25 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (25 bp):
AAATTAGAAAAGAAAAAAATGAAGG
Found at i:17557922 original size:20 final size:20
Alignment explanation
Indices: 17557899--17557956 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
17557889 ATTTTTCTTG
17557899 TAAAAACTCAAGTTTTCCTA
1 TAAAAACTCAAGTTTTCCTA
* **
17557919 TAAAAACCCACTTAATTTCCTA
1 TAAAAACTCAAGT--TTTCCTA
*
17557941 TAAAACCTCAAGTTTT
1 TAAAAACTCAAGTTTT
17557957 TGCTTCTCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAAAACTCAAGTTTTCCTA
Found at i:17558224 original size:31 final size:31
Alignment explanation
Indices: 17558186--17558244 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
17558176 TTAACGGTGG
17558186 GTGACTAAAATAATAAAAGAATGCAACGACA
1 GTGACTAAAATAATAAAAGAATGCAACGACA
* * *
17558217 GTGACTAAAATGATAAAAGTATGTAACG
1 GTGACTAAAATAATAAAAGAATGCAACG
17558245 GAAGTGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.20
Consensus pattern (31 bp):
GTGACTAAAATAATAAAAGAATGCAACGACA
Found at i:17559238 original size:26 final size:26
Alignment explanation
Indices: 17559189--17559239 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
17559179 ATAGCTATGA
* *
17559189 AAAATAAAAATATATTAGTTATTTTT
1 AAAATAAAAATATATTAATAATTTTT
* *
17559215 AAAATAATAATATTTTAATAATTTT
1 AAAATAAAAATATATTAATAATTTT
17559240 ATAACTGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AAAATAAAAATATATTAATAATTTTT
Found at i:17572389 original size:21 final size:19
Alignment explanation
Indices: 17572344--17572391 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
17572334 ATGTATAGAT
17572344 TATAAAAAATAATTACATA
1 TATAAAAAATAATTACATA
17572363 TA-AAAAAATAATTACATTA
1 TATAAAAAATAATTACA-TA
17572382 TATTAAAAAA
1 TA-TAAAAAA
17572392 ATAAATATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 14 0.54
19 6 0.23
21 6 0.23
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
TATAAAAAATAATTACATA
Found at i:17572391 original size:22 final size:19
Alignment explanation
Indices: 17572342--17572395 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 19
17572332 ATATGTATAG
17572342 ATTATAAAAAATAATTACAT
1 ATTA-AAAAAATAATTACAT
17572362 A-TAAAAAAATAATTACATTAT
1 ATTAAAAAAATAATTAC---AT
17572383 ATTAAAAAAATAA
1 ATTAAAAAAATAA
17572396 ATATGCGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 13 0.43
19 2 0.07
20 1 0.03
21 3 0.10
22 11 0.37
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTAAAAAAATAATTACAT
Found at i:17572485 original size:16 final size:17
Alignment explanation
Indices: 17572454--17572507 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
17572444 ACATAGATTT
*
17572454 AAAAAAATAATTAAATA
1 AAAAAAATAATAAAATA
**
17572471 TGAAAAATAA-AAAATA
1 AAAAAAATAATAAAATA
*
17572487 AAAAAAATAAT-TAATA
1 AAAAAAATAATAAAATA
17572503 AAAAA
1 AAAAA
17572508 GGAAAACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAAATAATAAAATA
Found at i:17573954 original size:44 final size:43
Alignment explanation
Indices: 17573847--17574467 Score: 279
Period size: 44 Copynumber: 14.3 Consensus size: 43
17573837 TGCTCTCTGT
* * * *
17573847 AACTTCAGGGAGATAAGATTTGCCATCTTGAGTCTGC-CTCATTAC
1 AACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTGCTC-CACTGC
*
17573892 AACTTCA-GGAGGAGAAGACTTGCTTACTTAGTCTGCTCCACTGC
1 AACTTCAGGGA-GATAAGACTTGCTT-CTTAGTCTGCTCCACTGC
* * * * * *
17573936 AATTTCAGGGAGATAAGACTAG-GTGTGA-TCTGCT-CTCTGC
1 AACTTCAGGGAGATAAGACTTGCTTCTTAGTCTGCTCCACTGC
* * * * * *
17573976 AACTTCAGAGAGATAAGATCCTAGGTT-TTAAT-TCGTTCCACGGC
1 AACTTCAGGGAGATAAGA--CTTGCTTCTTAGTCT-GCTCCACTGC
* * ** *
17574020 AACTTCAGGGAGATAGGATTATCGGC-T-TTAACCTGCTCCACTGT
1 AACTTCAGGGAGATAAGACT-T--GCTTCTTAGTCTGCTCCACTGC
* * * *
17574064 AACTTCAGGGAGATAAGATTTTCCGTCATCAGTCTGC-CTCACTGC
1 AACTTCAGGGAGATAAGA-CTTGCTTC-TTAGTCTGCTC-CACTGC
*
17574109 AACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGC
1 AACTTCAGGGA-GATAAGACTTGCTT-CTTAGTCTGCTCCACTGC
* * * * * *
17574153 AACTTCAGGGAGATAAGA-TAGATGC-GA-TTTGCT-CTCTGC
1 AACTTCAGGGAGATAAGACTTGCTTCTTAGTCTGCTCCACTGC
* ** * *
17574192 AACTTCAGAGAGATAAGATCCCAGGTT-TTAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGA--CTTGCTTCTTAGTCTGCTCCACTGC
* * **
17574236 AACTTCAGGGAGATAGGA-TT-ATTGGCTTTAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGACTTGCTT--C-TTAGTCTGCTCCACTGC
* * *
17574280 AAATTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGC
1 AACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTGCTC-CACTGC
* * *
17574325 AACTTTA-GGAGGATAAGACTTGCCTACTTAGTCTGCTCCCCTGC
1 AACTTCAGGGA-GATAAGACTTG-CTTCTTAGTCTGCTCCACTGC
* * * *
17574369 AACTTCAGGGAGATAAGACTAG---ATGAGATCTGCT-CTCTGC
1 AACTTCAGGGAGATAAGACTTGCTTCTTAG-TCTGCTCCACTGC
* * *
17574409 AACTTCAGAGAGATAAGATCCAATG-TT-TTAAT-TCGCTCCACTGC
1 AACTTCAGGGAGATAAGA--C-TTGCTTCTTAGTCT-GCTCCACTGC
17574453 AACTTCAGGGAGATA
1 AACTTCAGGGAGATA
17574468 GGATTATTGG
Statistics
Matches: 444, Mismatches: 83, Indels: 99
0.71 0.13 0.16
Matches are distributed among these distances:
39 22 0.05
40 52 0.12
41 13 0.03
42 18 0.04
43 19 0.04
44 224 0.50
45 95 0.21
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGACTTGCTTCTTAGTCTGCTCCACTGC
Found at i:17574293 original size:216 final size:217
Alignment explanation
Indices: 17573850--17574478 Score: 1019
Period size: 216 Copynumber: 2.9 Consensus size: 217
17573840 TCTCTGTAAC
* * * *
17573850 TTCAGGGAGATAAGATTTGCCATCTTGAGTCTGCCTCATTACAACTTCAGGAGGAGAAGACTTGC
1 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
* * *
17573915 TTACTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTAGGTGTGATCTGCTCTCTGCAACT
66 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACT
* * * *
17573980 TCAGAGAGATAAGATCCTAGGTTTTAATTCGTTCCACGGCAACTTCAGGGAGATAGGATTATCGG
131 TCAGAGAGATAAGATCCAAGGTTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGG
* *
17574045 CTTTAACCTGCTCCACTGTAAC
196 CTTTAACCTGCTCCACTGCAAA
* * *
17574067 TTCAGGGAGATAAGATTTTCCGTCATCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
1 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
* * *
17574132 TTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGA-TAGATGCGATTTGCTCTCTGCAACT
66 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACT
*
17574196 TCAGAGAGATAAGATCCCAGGTTTTAA-TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTG
131 TCAGAGAGATAAGATCCAAGGTTTTAATTC-GCTCCACTGCAACTTCAGGGAGATAGGATTATTG
17574260 GCTTTAACCTGCTCCACTGCAAA
195 GCTTTAACCTGCTCCACTGCAAA
*
17574283 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGC
1 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
* *
17574348 CTACTTAGTCTGCTCCCCTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACT
66 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACT
*
17574413 TCAGAGAGATAAGATCCAATGTTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGG
131 TCAGAGAGATAAGATCCAAGGTTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGG
17574478 C
196 C
17574479 CATGGATCTG
Statistics
Matches: 380, Mismatches: 29, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
215 2 0.01
216 197 0.52
217 179 0.47
218 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (217 bp):
TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACT
TCAGAGAGATAAGATCCAAGGTTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGG
CTTTAACCTGCTCCACTGCAAA
Found at i:17586305 original size:41 final size:42
Alignment explanation
Indices: 17586260--17586346 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
17586250 TGTATTTATG
17586260 AAAATAAAGGA-AAAAAAAATATAAATGATAAAGTATATGAA-
1 AAAATAAA-GACAAAAAAAATATAAATGATAAAGTATATGAAT
* * *** *
17586301 AAAATACATACATTTAAAATATAAATTATAAAGTATATGAAT
1 AAAATAAAGACAAAAAAAATATAAATGATAAAGTATATGAAT
17586343 AAAA
1 AAAA
17586347 ATACATACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.03
41 33 0.87
42 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.25
Consensus pattern (42 bp):
AAAATAAAGACAAAAAAAATATAAATGATAAAGTATATGAAT
Found at i:17586492 original size:21 final size:19
Alignment explanation
Indices: 17586447--17586494 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
17586437 ATGTATAGAT
17586447 TATAAAAAATAATTACATA
1 TATAAAAAATAATTACATA
*
17586466 TA-AAAAAATAATTATATTA
1 TATAAAAAATAATTACA-TA
17586485 TATTAAAAAA
1 TA-TAAAAAA
17586495 ATAAATATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 13 0.52
19 6 0.24
21 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAAATAATTACATA
Found at i:17586603 original size:21 final size:21
Alignment explanation
Indices: 17586577--17586617 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17586567 AAATATGAAA
*
17586577 AATAAAAAATAAAAAAAAATT
1 AATAAAAAAGAAAAAAAAATT
*
17586598 AATAAAAAAGGAAAAAAAAT
1 AATAAAAAAGAAAAAAAAAT
17586618 ACTAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AATAAAAAAGAAAAAAAAATT
Found at i:17590985 original size:8 final size:8
Alignment explanation
Indices: 17590972--17590998 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17590962 CAAGCAAAAT
17590972 ATGCATGA
1 ATGCATGA
17590980 ATGCATGA
1 ATGCATGA
17590988 ATGCATGA
1 ATGCATGA
17590996 ATG
1 ATG
17590999 TAAAAATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (8 bp):
ATGCATGA
Found at i:17591513 original size:3 final size:3
Alignment explanation
Indices: 17591505--17591550 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
17591495 AGTGCCTCTA
17591505 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
17591551 TATTATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:17600007 original size:114 final size:114
Alignment explanation
Indices: 17599864--17600722 Score: 1278
Period size: 114 Copynumber: 7.5 Consensus size: 114
17599854 AAAGCGTCGT
*
17599864 AAAAAACCTAAGCCCAATGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
** *
17599929 GCATCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGAGAAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
*
17599978 AAAAAACCTAAGCCCAACGACG-CTATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAA
1 AAAAAACCTAAGCCCAACGACGTC-GTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAA
* *
17600042 AGCGCCGCTAATGCTCAGGGCTTTAGCAGTGTTTTTGAGAAAGCGCCGCAA
65 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC-A
* * * * *
17600093 AAAAAAACTAAGCCCAATGATGCCGTTTTTTGAGCTTT-GGGGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
* * *
17600157 GCGGCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGGGAAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
* *
17600206 AAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGTTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
* * *
17600271 GCGGCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGGGAAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
* *
17600320 AAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGTTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
* *
17600385 GCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCTGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
* *
17600434 AAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
* *
17600499 GTGCCGCTAATGCGT-AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCA
66 GCGCCGCTAATGC-TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
* * *
17600548 AAAAAATCTAAGCCCAACGACGTCGTTTTCTGAGCTTTTGGGGGATTTAGTGGCGTTTTTAAGAA
1 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGC-TTTCGGGGATTTAGCGGCGTTTTTAAGAA
* * * * * *
17600613 AGGGCCACTAATGTTCAGGACTTTAGCGGTGTTTTTAAGAAAGCGCCGCA
65 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
* * *
17600663 AAATAAACCTAAGCCCAA--ACGCCGTTTTCTGAGTTTTCGGGGACTTAGCGGCGTTTTTAA
1 AAA-AAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA
17600723 TAAATTGTCT
Statistics
Matches: 682, Mismatches: 55, Indels: 17
0.90 0.07 0.02
Matches are distributed among these distances:
113 56 0.08
114 508 0.74
115 104 0.15
116 14 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (114 bp):
AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
Found at i:17600749 original size:21 final size:21
Alignment explanation
Indices: 17600725--17600787 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
17600715 GTTTTTAATA
17600725 AATTGTCTATTTAATTTATTT
1 AATTGTCTATTTAATTTATTT
* *
17600746 AATTGTTTATTT-ATTTAATT
1 AATTGTCTATTTAATTTATTT
*
17600766 --TT-TCTATTTAATTTATGT
1 AATTGTCTATTTAATTTATTT
17600784 AATT
1 AATT
17600788 AATTCATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
20 9 0.26
21 11 0.32
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (21 bp):
AATTGTCTATTTAATTTATTT
Found at i:17600757 original size:16 final size:17
Alignment explanation
Indices: 17600738--17600780 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
17600728 TGTCTATTTA
17600738 ATTTATTTAATTGTT-T
1 ATTTATTTAATTGTTCT
*
17600754 ATTTATTTAATTTTTCT
1 ATTTATTTAATTGTTCT
17600771 ATTTAATTTA
1 ATTT-ATTTA
17600781 TGTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.58
17 5 0.21
18 5 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTATTTAATTGTTCT
Found at i:17600773 original size:38 final size:40
Alignment explanation
Indices: 17600730--17600805 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
17600720 TAATAAATTG
* * *
17600730 TCTATTTAATTTATTTAATT-GTTTATTTA-TTTAATTTT
1 TCTATTTAATTTATGTAATTAATTCATTTATTTTAATTTT
17600768 TCTATTTAATTTATGTAATTAATTCATTTATTTTAATT
1 TCTATTTAATTTATGTAATTAATTCATTTATTTTAATT
17600806 AAAAGTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 19 0.58
39 7 0.21
40 7 0.21
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (40 bp):
TCTATTTAATTTATGTAATTAATTCATTTATTTTAATTTT
Found at i:17600789 original size:13 final size:13
Alignment explanation
Indices: 17600735--17600797 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
17600725 AATTGTCTAT
17600735 TTAATTTATTTAA
1 TTAATTTATTTAA
* *
17600748 TT-GTTTATTTAT
1 TTAATTTATTTAA
*
17600760 TTAATTT-TTCTAT
1 TTAATTTATT-TAA
*
17600773 TTAATTTATGTAA
1 TTAATTTATTTAA
*
17600786 TTAATTCATTTA
1 TTAATTTATTTA
17600798 TTTTAATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
12 12 0.30
13 27 0.68
14 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (13 bp):
TTAATTTATTTAA
Found at i:17600796 original size:22 final size:22
Alignment explanation
Indices: 17600754--17600802 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
17600744 TTAATTGTTT
* *
17600754 ATTTATTTAATTTTTCTATTTA
1 ATTTATGTAATTATTCTATTTA
17600776 ATTTATGTAATTAATTC-ATTTA
1 ATTTATGTAATT-ATTCTATTTA
*
17600798 TTTTA
1 ATTTA
17600803 ATTAAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTATGTAATTATTCTATTTA
Found at i:17601179 original size:14 final size:15
Alignment explanation
Indices: 17601153--17601185 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
17601143 ATGGTTTATA
17601153 GATTATGGAATTAGG
1 GATTATGGAATTAGG
17601168 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
17601182 GATT
1 GATT
17601186 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:17601230 original size:13 final size:14
Alignment explanation
Indices: 17601212--17601241 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17601202 AATTTAAGGG
17601212 TTAGGGGTTAG-GA
1 TTAGGGGTTAGAGA
17601225 TTAGGGGTTAGAGA
1 TTAGGGGTTAGAGA
17601239 TTA
1 TTA
17601242 AGAGTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGAGA
Found at i:17605949 original size:43 final size:43
Alignment explanation
Indices: 17605879--17606053 Score: 208
Period size: 43 Copynumber: 4.1 Consensus size: 43
17605869 GTTATGTTTT
* * * *
17605879 TAGCGGCGTTTTTGCGAAAAGCATCGCTAAAGGTCCTGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATCTA
* *
17605922 TAACGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATCTA
* * * * * *
17605965 TAGCAGCGTTTAT-GAAAAAGCGTCGCTAAAGTTCCTAACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATCTA
* * *
17606007 TAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGATCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATCTA
17606050 TAGC
1 TAGC
17606054 AGTGTTTATT
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 35 0.32
43 74 0.68
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATCTA
Found at i:17606033 original size:85 final size:85
Alignment explanation
Indices: 17605895--17606062 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 85
17605885 CGTTTTTGCG
* * * * * *
17605895 AAAAGCATCGCTAAAGGTCCTGATCTTTAACGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCCTG
1 AAAAGCATCGCTAAAGGTCCTAACCTATAACGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCATG
17605960 ATCTATAGCAGCGTTTATGA
66 ATCTATAGCAGCGTTTATGA
* * * *
17605980 AAAAGCGTCGCTAAAGTTCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGATCATG
1 AAAAGCATCGCTAAAGGTCCTAACCTATAACGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCATG
*
17606045 ATCTATAGCAGTGTTTAT
66 ATCTATAGCAGCGTTTAT
17606063 TTCTAAAAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (85 bp):
AAAAGCATCGCTAAAGGTCCTAACCTATAACGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCATG
ATCTATAGCAGCGTTTATGA
Found at i:17606330 original size:42 final size:43
Alignment explanation
Indices: 17606232--17606395 Score: 222
Period size: 43 Copynumber: 3.8 Consensus size: 43
17606222 TTATTGCGAG
* * * *
17606232 AAGCGTCGGTAAAGGTCCTGATCTTTAGCGGTGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAA
* *
17606275 AAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GGAA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAA
* * * *
17606317 AAGCGACGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGGA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAA
*
17606360 AAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTT
17606396 ATTTCTAAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 37 0.36
43 67 0.64
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAA
Found at i:17606362 original size:335 final size:336
Alignment explanation
Indices: 17605737--17606406 Score: 1110
Period size: 335 Copynumber: 2.0 Consensus size: 336
17605727 AATTTTCATA
* *
17605737 GCAAATTTAATTTAAATAATATTTTTTAATTATCCTTAAAAGTACATTTAAAGTTCAAATTTAAA
1 GCAAATTTAATTTAAATAATATTTTTTAACTATCCTGAAAAGTACATTTAAAGTTCAAATTTAAA
*
17605802 AAATAAAACATAATATAATATTTATCATAGAAATAAATATTATTTGATTAAAATAATTGTTTTAA
66 AAATAAAACATAATATAATATTTATCATAAAAATAAATATTATTTGATTAAAATAATTGTTTTAA
*
17605867 ATGTTATGTTTTTAGCGGCGTTTTTGCGAAAAGCATCGCTAAAGGTCCTGATCTTTAACGGCGTT
131 ATGTTATGTTTTTAGCGGCGTTATTGCGAAAAGCATCGCTAAAGGTCCTGATCTTTAACGGCGTT
* * *
17605932 TGTGGGAAAAGTGTCGCTAAAGGTCCTGATCTATAGCAGCGTTTATGAAAAAGCGTCGCTAAAGT
196 TGTGGGAAAAGTGCCGCTAAAGGTCCTGATCTATAGCAGCGTTTATGAAAAAGCGACGCTAAAGG
* *
17605997 TCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGATCATGATCTATAGCAGTGTTTA
261 TCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCATGATCTATAGCAGCGTTTA
17606062 TTTCTAAAAAC
326 TTTCTAAAAAC
* *
17606073 GCAAATTTAATTTAAATAATATTTTTTAACTATCCTGAAAAGTATATTTCAAGTTCAAATTTAAA
1 GCAAATTTAATTTAAATAATATTTTTTAACTATCCTGAAAAGTACATTTAAAGTTCAAATTTAAA
17606138 AAATAAAACATAATATAATATTTATCATAAAAATAAATATTATTTGATTAAAATAAATT-TTTTA
66 AAATAAAACATAATATAATATTTATCATAAAAATAAATATTATTTGATTAAAAT-AATTGTTTTA
* * * * * *
17606202 AAT-TTATGTTTTTAGTGGCGTTATTGCGAGAAGCGTCGGTAAAGGTCCTGATCTTTAGCGGTGT
130 AATGTTATGTTTTTAGCGGCGTTATTGCGAAAAGCATCGCTAAAGGTCCTGATCTTTAACGGCGT
* * * *
17606266 TTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGACGCTAAAG
195 TTGTGGGAAAAGTGCCGCTAAAGGTCCTGATCTATAGCAGCGTTTATGAAAAAGCGACGCTAAAG
* *
17606331 GTCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
260 GTCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCATGATCTATAGCAGCGTTT
17606396 ATTTCTAAAAA
325 ATTTCTAAAAA
17606407 TGCCGCAAAC
Statistics
Matches: 310, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
335 184 0.59
336 122 0.39
337 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (336 bp):
GCAAATTTAATTTAAATAATATTTTTTAACTATCCTGAAAAGTACATTTAAAGTTCAAATTTAAA
AAATAAAACATAATATAATATTTATCATAAAAATAAATATTATTTGATTAAAATAATTGTTTTAA
ATGTTATGTTTTTAGCGGCGTTATTGCGAAAAGCATCGCTAAAGGTCCTGATCTTTAACGGCGTT
TGTGGGAAAAGTGCCGCTAAAGGTCCTGATCTATAGCAGCGTTTATGAAAAAGCGACGCTAAAGG
TCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCATGATCTATAGCAGCGTTTA
TTTCTAAAAAC
Found at i:17606368 original size:85 final size:85
Alignment explanation
Indices: 17606232--17606395 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 85
17606222 TTATTGCGAG
* * * * * * * *
17606232 AAGCGTCGGTAAAGGTCCTGATCTTTAGCGGTGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGAT
1 AAGCGACGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
17606297 CTATAGCGGCGTTTGTGGAA
66 CTATAGCGGCGTTTGTGGAA
*
17606317 AAGCGACGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGAT
1 AAGCGACGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
17606382 CTATAGCGGCGTTT
66 CTATAGCGGCGTTT
17606396 ATTTCTAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (85 bp):
AAGCGACGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
CTATAGCGGCGTTTGTGGAA
Found at i:17608015 original size:3 final size:3
Alignment explanation
Indices: 17608007--17608037 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17607997 TTAAGATCAC
17608007 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17608038 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17608042 original size:3 final size:3
Alignment explanation
Indices: 17608036--17608070 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17608026 ATAATAATAA
17608036 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
17608071 AAAACCACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17614049 original size:23 final size:23
Alignment explanation
Indices: 17614023--17614073 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17614013 GAAGTATAGT
* *
17614023 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
17614046 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
17614069 AGTAA
1 TGTAA
17614074 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:17614552 original size:11 final size:13
Alignment explanation
Indices: 17614528--17614559 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17614518 TAGTTTATTA
17614528 ATATTTTAATTTG
1 ATATTTTAATTTG
17614541 AT-TTTTAA-TTG
1 ATATTTTAATTTG
17614552 ATATTTTA
1 ATATTTTA
17614560 TTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
ATATTTTAATTTG
Found at i:17616575 original size:54 final size:54
Alignment explanation
Indices: 17616493--17616610 Score: 202
Period size: 54 Copynumber: 2.2 Consensus size: 54
17616483 TTGGATATTT
*
17616493 TATTCAATTTAATTGGTTTACGTAGACTTAATGGCCACACATGCTTATAAGAGC
1 TATTCGATTTAATTGGTTTACGTAGACTTAATGGCCACACATGCTTATAAGAGC
*
17616547 TATTCGATTTAATTGGTTTACGTAGACTTAATGGCCACAGATGCTTATAAGAGC
1 TATTCGATTTAATTGGTTTACGTAGACTTAATGGCCACACATGCTTATAAGAGC
*
17616601 TAAT-GATTTA
1 TATTCGATTTA
17616611 TTCTTTTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
53 6 0.10
54 55 0.90
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (54 bp):
TATTCGATTTAATTGGTTTACGTAGACTTAATGGCCACACATGCTTATAAGAGC
Found at i:17622432 original size:45 final size:45
Alignment explanation
Indices: 17622301--17622440 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 45
17622291 GGGTATATGA
* * *
17622301 TTTGTAGCTTCATCTTGCTCCATTGTAACTTTAGGGAGATAAGA-
1 TTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAAATAAGAT
* * * * * *
17622345 TTTGCCATTGTCTTTGATC-TGATCCACTGCATCTTCAGGGAAATAGGAT
1 TTTG---TAG-C-TTCATCTTGCTCCATTGCAACTTCAGGGAAATAAGAT
*
17622394 TTTGTAGCTTCATCTTGCTCCATTGCAACTTCATGGAAATAAGAT
1 TTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAAATAAGAT
17622439 TT
1 TT
17622441 GCCATTGTAG
Statistics
Matches: 73, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
44 9 0.12
45 28 0.38
46 2 0.03
47 2 0.03
48 23 0.32
49 9 0.12
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (45 bp):
TTTGTAGCTTCATCTTGCTCCATTGCAACTTCAGGGAAATAAGAT
Found at i:17622515 original size:94 final size:94
Alignment explanation
Indices: 17622219--17622772 Score: 497
Period size: 94 Copynumber: 5.9 Consensus size: 94
17622209 CACAGTTTCA
* * * * *** *
17622219 TCTTGATCCATTGTAACTTCATGGAGATAAGATTTGATGTTATAGTTTCACTT-CAACCCACTAC
1 TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCA-TTCCAACCCACTAC
* * *
17622283 AACTTCAAGGGTATATGATTTGTAGCTTCA
65 AACTTTAAGGGTATAGGATTTGTAGCTTCG
* * * * * ** * *
17622313 TCTTGCTCCATTGTAACTTTAGGGAGATAAGATTTGCCATTGT-CTTTGA-TCTGATCCACTGCA
1 TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCATTCCAACCCACTACA
* * * *
17622376 TC-TTCAGGGAAATAGGATTTTGTAGCTTCA
66 ACTTTAAGGG-TATAGGA-TTTGTAGCTTCG
* * * * * *
17622406 TCTTGCTCCATTGCAACTTCATGGAAATAAGATTTGCCATTGTAGTTTCATTCTAACCTACTATA
1 TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCATTCCAACCCACTACA
17622471 ACTTTAAGGGTATAGGATTTGTAGCTTCG
66 ACTTTAAGGGTATAGGATTTGTAGCTTCG
* * * * ** * *
17622500 TCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAACTTCAATCCGACCCACTACA
1 TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCATTCCAACCCACTACA
* *
17622565 ACTTCAGGGGTATAGGATTTGTAGCTTCG
66 ACTTTAAGGGTATAGGATTTGTAGCTTCG
* * * * * * * *
17622594 TCTTTCTCCACTGCAACTTTAGAGAGATATGATTTGCCTTTGTAGTTTTATTCCAACCCATTGCA
1 TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCATTCCAACCCACTACA
*
17622659 ACTTTAGGGGTATAGGATTTGTAGCTTCG
66 ACTTTAAGGGTATAGGATTTGTAGCTTCG
* ** ** * * * *
17622688 TCTTGCTCCACTACAACTTCAAAGAGATAAGATTCACTATGGTAGCTTCAATT-CAACCCACTGC
1 TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTC-ATTCCAACCCACTAC
*
17622752 AACTTCAAGGGGTATAGGATT
65 AACTTTAA-GGGTATAGGATT
17622773 CACTATTTCA
Statistics
Matches: 373, Mismatches: 79, Indels: 15
0.80 0.17 0.03
Matches are distributed among these distances:
91 6 0.02
92 14 0.04
93 55 0.15
94 261 0.70
95 31 0.08
96 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (94 bp):
TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCATTCCAACCCACTACA
ACTTTAAGGGTATAGGATTTGTAGCTTCG
Found at i:17622519 original size:44 final size:44
Alignment explanation
Indices: 17622470--17622706 Score: 115
Period size: 44 Copynumber: 5.1 Consensus size: 44
17622460 AACCTACTAT
17622470 AACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGC
1 AACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGC
* * * * * *
17622514 AACTTT-AGGGAGATAAGATTCGCTATGGTAACTTCAATC-CGAC-CCACTAC
1 AACTTTAAGGG-TATAGGA-T---T-T-GTAGCTTC-GTCTTG-CTCCACTGC
* * *
17622564 AACTTCAGGGGTATAGGATTTGTAGCTTCGTCTTTCTCCACTGC
1 AACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGC
* ** * * * * *
17622608 AACTTTAGAGAGATATGATTTGCCTTTGTAG-TT-TTATTCCAACCCATTGC
1 AACTTTA-AG-GGTAT-A---GGATTTGTAGCTTCGTCTTGC--TCCACTGC
* *
17622658 AACTTTAGGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTAC
1 AACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGC
17622702 AACTT
1 AACTT
17622707 CAAAGAGATA
Statistics
Matches: 136, Mismatches: 35, Indels: 44
0.63 0.16 0.20
Matches are distributed among these distances:
43 7 0.05
44 48 0.35
45 5 0.04
46 9 0.07
47 2 0.01
48 9 0.07
49 5 0.04
50 45 0.33
51 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (44 bp):
AACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGC
Found at i:17622672 original size:188 final size:187
Alignment explanation
Indices: 17622215--17622772 Score: 636
Period size: 188 Copynumber: 3.0 Consensus size: 187
17622205 GTGTCACAGT
* * * * *** *
17622215 TTCATCTTGATCCATTGTAACTTCATGGAGATAAGATTTGATGTTATAGTTTCACTT-CAACCCA
1 TTCATCTTGCTCCACTGCAACTTCATGGAAATAAGATTTGCCATTGTAGTTTCA-TTCCAACCCA
* * * * *
17622279 CTACAACTTCAAGGGTATATGATTTGTAGCTTCATCTTGCTCCATTGTAACTTTAGGGAGATAAG
65 CTACAACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGCAACTTTAGGGAGATAAG
* * * ** * * * **
17622344 ATTTGCCATTGT-CTTTGATCTGATCCACTGCATCTTCAGGGAAATAGGATTTTGTAGC
130 ATTCGCTATGGTACTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGA-TTTGTAGC
* * *
17622402 TTCATCTTGCTCCATTGCAACTTCATGGAAATAAGATTTGCCATTGTAGTTTCATTCTAACCTAC
1 TTCATCTTGCTCCACTGCAACTTCATGGAAATAAGATTTGCCATTGTAGTTTCATTCCAACCCAC
*
17622467 TATAACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGCAACTTTAGGGAGATAAGA
66 TACAACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGCAACTTTAGGGAGATAAGA
*
17622532 TTCGCTATGGTAACTTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGC
131 TTCGCTATGGT-ACTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGC
* * * * * * *
17622590 TTCGTCTTTCTCCACTGCAACTTTA-GAGAGATATGATTTGCCTTTGTAGTTTTATTCCAACCCA
1 TTCATCTTGCTCCACTGCAACTTCATG-GAAATAAGATTTGCCATTGTAGTTTCATTCCAACCCA
* * * * * **
17622654 TTGCAACTTTAGGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTACAACTTCAAAGAGATAAG
65 CTACAACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGCAACTTTAGGGAGATAAG
* * *
17622719 ATTCACTATGGTAGCTTCAATTCAACCCACTGCAACTTCAAGGGGTATAGGATT
130 ATTCGCTATGGTA-CTTCAATCCGACCCACTGCAACTTC-AGGGGTATAGGATT
17622773 CACTATTTCA
Statistics
Matches: 317, Mismatches: 48, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
186 2 0.01
187 122 0.38
188 150 0.47
189 43 0.14
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (187 bp):
TTCATCTTGCTCCACTGCAACTTCATGGAAATAAGATTTGCCATTGTAGTTTCATTCCAACCCAC
TACAACTTTAAGGGTATAGGATTTGTAGCTTCGTCTTGCTCCACTGCAACTTTAGGGAGATAAGA
TTCGCTATGGTACTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGC
Found at i:17632248 original size:29 final size:29
Alignment explanation
Indices: 17632206--17632262 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
17632196 AATCGTATTC
*
17632206 TAGGGTCGTCATAGGATTTGTAACAAATT
1 TAGGGTCGTCATAGGATTTGCAACAAATT
17632235 TAGGGTCGTCATAGGATTTGCAACAAAT
1 TAGGGTCGTCATAGGATTTGCAACAAAT
17632263 CTCTTCATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGTCGTCATAGGATTTGCAACAAATT
Found at i:17650951 original size:15 final size:16
Alignment explanation
Indices: 17650922--17650959 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
17650912 CCCTAATCAA
*
17650922 AATTTT-CATTCTTTT
1 AATTTTACATTATTTT
17650937 -ATTTTACATTATTTT
1 AATTTTACATTATTTT
17650952 AATTTTAC
1 AATTTTAC
17650960 CAAATATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTTACATTATTTT
Found at i:17657014 original size:14 final size:15
Alignment explanation
Indices: 17656979--17657021 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
17656969 CATTTGTTTG
17656979 CTAGTAAAAT-ATTTT
1 CTAG-AAAATGATTTT
17656994 CTAGAAAATGATTTT
1 CTAGAAAATGATTTT
*
17657009 -TGGAAAATGATTT
1 CTAGAAAATGATTT
17657022 ACTTTTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (15 bp):
CTAGAAAATGATTTT
Found at i:17658492 original size:32 final size:32
Alignment explanation
Indices: 17658449--17658514 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
17658439 CAATCATTTT
*
17658449 AATATCCAACAAGCTTAAAAAATAATAAATTC
1 AATATCAAACAAGCTTAAAAAATAATAAATTC
* * *
17658481 AATATCAAACAAGTTTAAAACATAATAATTTC
1 AATATCAAACAAGCTTAAAAAATAATAAATTC
17658513 AA
1 AA
17658515 AATCCAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (32 bp):
AATATCAAACAAGCTTAAAAAATAATAAATTC
Found at i:17659985 original size:21 final size:21
Alignment explanation
Indices: 17659959--17660001 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17659949 TCACACAAAA
17659959 ATTACAAATT-AATATGCAATT
1 ATTAC-AATTCAATATGCAATT
*
17659980 ATTACAATTCAATGTGCAATT
1 ATTACAATTCAATATGCAATT
17660001 A
1 A
17660002 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTACAATTCAATATGCAATT
Found at i:17671196 original size:19 final size:20
Alignment explanation
Indices: 17671155--17671201 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17671145 GAACCAACAC
* **
17671155 TATCGATACTAAAATAACTT
1 TATCGATACTAAAAAAAAGT
17671175 TATCGATAC-AAAAAAAAGT
1 TATCGATACTAAAAAAAAGT
17671194 TATCGATA
1 TATCGATA
17671202 TCGTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (20 bp):
TATCGATACTAAAAAAAAGT
Found at i:17674903 original size:15 final size:17
Alignment explanation
Indices: 17674883--17674920 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17674873 GCCTAAAAGG
17674883 AATTTTAA-TTT-TTTT
1 AATTTTAAGTTTATTTT
17674898 AATTTTAAGTTTATTTT
1 AATTTTAAGTTTATTTT
*
17674915 CATTTT
1 AATTTT
17674921 TATGTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 3 0.15
17 9 0.45
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
AATTTTAAGTTTATTTT
Found at i:17676595 original size:25 final size:25
Alignment explanation
Indices: 17676539--17676596 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 25
17676529 TTCCCCAAAT
17676539 TAATAATAAATAAAACATAAGTATAAC
1 TAAT-ATAAATAAAACATAAG-ATAAC
*
17676566 TAATATAATTAAGAACATAA-ATAAC
1 TAATATAAATAA-AACATAAGATAAC
17676591 TAATAT
1 TAATAT
17676597 CACAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 11 0.38
26 7 0.24
27 11 0.38
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.29
Consensus pattern (25 bp):
TAATATAAATAAAACATAAGATAAC
Found at i:17678479 original size:51 final size:49
Alignment explanation
Indices: 17678380--17678499 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 49
17678370 ATAGAAATGG
* * *
17678380 TGAAAATTGAGAAATGGGAAACATTTGGAAATTATTATGGTTTACTCCAAAA
1 TGAAAA-TGAGAAAT--GAAACATTTGAAAATGAATATGGTTTACTCCAAAA
* *
17678432 TGAAAATGGAGAAATGAAACCATTTGAAAATGAATGTGGTTTTCTCCAAAA
1 TGAAAAT-GAGAAATGAAA-CATTTGAAAATGAATATGGTTTACTCCAAAA
17678483 TGAAAATGA-AAATGAAA
1 TGAAAATGAGAAATGAAA
17678500 AATGAATTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
49 8 0.13
50 6 0.10
51 34 0.56
52 13 0.21
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (49 bp):
TGAAAATGAGAAATGAAACATTTGAAAATGAATATGGTTTACTCCAAAA
Found at i:17686516 original size:16 final size:16
Alignment explanation
Indices: 17686495--17686525 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17686485 TTCTAAGCAC
17686495 ATTCCCTACATAGTTA
1 ATTCCCTACATAGTTA
17686511 ATTCCCTACATAGTT
1 ATTCCCTACATAGTT
17686526 CAAGATAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTCCCTACATAGTTA
Found at i:17686697 original size:24 final size:24
Alignment explanation
Indices: 17686668--17686719 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
17686658 TTTCTAGAAG
*
17686668 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
*
17686692 ATTTAGTATTTATTAGCATAATTT
1 ATTTAGTATTTATTAGCATAATAT
17686716 ATTT
1 ATTT
17686720 GACCTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:17687519 original size:124 final size:124
Alignment explanation
Indices: 17687299--17687648 Score: 610
Period size: 124 Copynumber: 2.8 Consensus size: 124
17687289 TAATTTTGAG
17687299 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
17687364 AAATTGCGGCCTCGTCAACGCGCTTTTGCTACAGTAGGTCTTTTGATGTATAAGTTTTT
66 AAATTGCGGCCTCGTCAACGCGCTTTTGCTACAGTAGGTCTTTTAATGTATAAGTTTTT
17687423 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
17687488 AAATTGCGGCCTCGTCAACGCGCTTTTGCTACAGTAGGTCTTTTAATGTATAATTTTTT
66 AAATTGCGGCCTCGTCAACGCGCTTTTGCTACAGTAGGTCTTTTAATGTATAAGTTTTT
* * *
17687547 TTGACGTTTCTGATAAAATAATATAAAATCGCTTATACCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * ** *
17687612 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATTGCGGCCTCGTCAACGCGCTTTTGCTACAGTAG
17687649 CATGTTTGGG
Statistics
Matches: 216, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 216 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (124 bp):
TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATTGCGGCCTCGTCAACGCGCTTTTGCTACAGTAGGTCTTTTAATGTATAAGTTTTT
Found at i:17690348 original size:49 final size:49
Alignment explanation
Indices: 17690253--17690348 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
17690243 CCCGACAGCC
* * * *
17690253 CCCCTAGCGATCCCTCGTGCGCCGCTGGCCTATACATCGGCGGTCCGCT
1 CCCCTAGCGATCCCTCCTGCACCGCTGGCCTATACATCGACAGTCCGCT
* * *
17690302 CCCCTTGCGATCCCTCCTGCACGGCTGGCTTATACATCGACAGTCCG
1 CCCCTAGCGATCCCTCCTGCACCGCTGGCCTATACATCGACAGTCCG
17690349 ATCGACATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.12, C:0.42, G:0.24, T:0.22
Consensus pattern (49 bp):
CCCCTAGCGATCCCTCCTGCACCGCTGGCCTATACATCGACAGTCCGCT
Found at i:17691148 original size:7 final size:7
Alignment explanation
Indices: 17691138--17691162 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17691128 ATACATACAT
17691138 AATACTA
1 AATACTA
17691145 AATACTA
1 AATACTA
17691152 AATACTA
1 AATACTA
17691159 AATA
1 AATA
17691163 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:17692418 original size:22 final size:22
Alignment explanation
Indices: 17692393--17692448 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
17692383 AAATATAGAT
17692393 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* *
17692415 TTGAGAGAATTTTGGAATGAAT
1 TTGAGAGAATTTTGGAAGGAAA
17692437 TTGAGAGGAATT
1 TTGAGA-GAATT
17692449 GAGAGGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:17692421 original size:51 final size:51
Alignment explanation
Indices: 17692306--17692421 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
17692296 TATTTTAAAA
* * * *
17692306 AAGGAAATTGAGAAGAAATTTAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
17692357 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
17692408 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
17692422 AATTTTGGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
Found at i:17692875 original size:52 final size:52
Alignment explanation
Indices: 17692818--17692923 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
17692808 TTAAAAATCC
*
17692818 TTAAATTCTTAATTAGGGTTTTAAAGGATTGTGTTTAAATATTATTGCATGA
1 TTAAATTCTTAACTAGGGTTTTAAAGGATTGTGTTTAAATATTATTGCATGA
17692870 TTAAATTCTTAACTAGGGTTTTAAAGGATTGTGTTTAAATATTATTGCATGA
1 TTAAATTCTTAACTAGGGTTTTAAAGGATTGTGTTTAAATATTATTGCATGA
17692922 TT
1 TT
17692924 TTTCATTGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (52 bp):
TTAAATTCTTAACTAGGGTTTTAAAGGATTGTGTTTAAATATTATTGCATGA
Found at i:17694728 original size:25 final size:25
Alignment explanation
Indices: 17694698--17694754 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
17694688 CATGAAACCA
17694698 AATTTTTTCTAAAATGA-AATTTAAT
1 AATTTTTT-TAAAATGATAATTTAAT
* * *
17694723 AATTTTTTTTAATTTATAATTTAAT
1 AATTTTTTTAAAATGATAATTTAAT
17694748 AATTTTT
1 AATTTTT
17694755 AACAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
AATTTTTTTAAAATGATAATTTAAT
Found at i:17694774 original size:30 final size:29
Alignment explanation
Indices: 17694740--17694803 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
17694730 TTTAATTTAT
*
17694740 AATTTAATAATTTTTAACAAAATAAATTAA
1 AATTTAATAATTTTTAA-AAAATAAAATAA
* * * *
17694770 AATTTTATTATTTTTAAAAATTAAAATAT
1 AATTTAATAATTTTTAAAAAATAAAATAA
17694799 AATTT
1 AATTT
17694804 TATCATATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
AATTTAATAATTTTTAAAAAATAAAATAA
Found at i:17694802 original size:29 final size:30
Alignment explanation
Indices: 17694737--17694806 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
17694727 TTTTTTAATT
* *
17694737 TATAATTTAATAATTTTTAACAAAATAAAT
1 TATAATTTTATAATTTTTAACAAAATAAAA
* * *
17694767 TAAAATTTTATTATTTTTAA-AAATTAAAA
1 TATAATTTTATAATTTTTAACAAAATAAAA
17694796 TATAATTTTAT
1 TATAATTTTAT
17694807 CATATGTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAACAAAATAAAA
Found at i:17697840 original size:27 final size:27
Alignment explanation
Indices: 17697800--17697876 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
17697790 AACACATAAG
* * *
17697800 GAAAGAAAAACCTTTATGGTAAAATCT
1 GAAAGAATAGCCTTTATGGCAAAATCT
* * *
17697827 GAAAGAATAGCCTTTGTGGCGAACTCT
1 GAAAGAATAGCCTTTATGGCAAAATCT
17697854 GAAAGAATAGCC-TTAGTGGCAAA
1 GAAAGAATAGCCTTTA-TGGCAAA
17697877 TTATGAAGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (27 bp):
GAAAGAATAGCCTTTATGGCAAAATCT
Found at i:17697883 original size:27 final size:27
Alignment explanation
Indices: 17697826--17697883 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
17697816 TGGTAAAATC
* * *
17697826 TGAAAGAATAGCCTTTGTGGCGAACTC
1 TGAAAGAATAGCCTTAGTGGCAAACTA
*
17697853 TGAAAGAATAGCCTTAGTGGCAAATTA
1 TGAAAGAATAGCCTTAGTGGCAAACTA
17697880 TGAA
1 TGAA
17697884 GGGATAACCT
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:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (27 bp):
TGAAAGAATAGCCTTAGTGGCAAACTA
Found at i:17701154 original size:25 final size:25
Alignment explanation
Indices: 17701126--17701205 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
17701116 TATCCCTTTC
* *
17701126 GAGCCATGTAACAGGAAGCTAATGT
1 GAGCCATGTAACAGGAAGCTCATGA
* *
17701151 GAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATGTAACAGGAAGCTCATGA
*
17701176 GAGCCA--TAATCAGGAAGCTCATGC
1 GAGCCATGTAA-CAGGAAGCTCATGA
17701200 GAGCCA
1 GAGCCA
17701206 ATATCGGGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 3 0.06
24 17 0.36
25 27 0.57
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (25 bp):
GAGCCATGTAACAGGAAGCTCATGA
Found at i:17701195 original size:24 final size:24
Alignment explanation
Indices: 17701162--17701304 Score: 101
Period size: 24 Copynumber: 5.8 Consensus size: 24
17701152 AGCCATGTAA
17701162 CGGGAAGCTCATAAGAGCCATAAT
1 CGGGAAGCTCATAAGAGCCATAAT
* **
17701186 CAGGAAGCTCATGCGAGCCA-ATAT
1 CGGGAAGCTCATAAGAGCCATA-AT
**
17701210 CGGGTAA-CTCCGAAGAGCCATTAAT
1 CGGG-AAGCTCATAAGAGCCA-TAAT
* * *
17701235 TGGGAAGCTCATGGGAGAGCCTTTAAT
1 CGGGAAGCTCAT--AAGAGCC-ATAAT
* * *
17701262 CGGGAAGCTCGTAAGAACCATATGT
1 CGGGAAGCTCATAAGAGCCATA-AT
*
17701287 CGGGATGCTCATAAGAGC
1 CGGGAAGCTCATAAGAGC
17701305 TAAATAACGG
Statistics
Matches: 88, Mismatches: 22, Indels: 17
0.69 0.17 0.13
Matches are distributed among these distances:
23 1 0.01
24 35 0.40
25 31 0.35
26 1 0.01
27 20 0.23
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCATAAT
Found at i:17703077 original size:15 final size:15
Alignment explanation
Indices: 17703057--17703085 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17703047 ATTTAAAGAG
17703057 TTGGGCATGAACGTT
1 TTGGGCATGAACGTT
17703072 TTGGGCATGAACGT
1 TTGGGCATGAACGT
17703086 GTAAACTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.34, T:0.31
Consensus pattern (15 bp):
TTGGGCATGAACGTT
Found at i:17703575 original size:33 final size:33
Alignment explanation
Indices: 17703538--17703610 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
17703528 TGAAATAATC
17703538 TTGCATGATAATTACAATTAGTAAATGTTCACA
1 TTGCATGATAATTACAATTAGTAAATGTTCACA
17703571 TTGCATGATAATTACAATTAGTAAATGTTCACA
1 TTGCATGATAATTACAATTAGTAAATGTTCACA
17703604 TTAGCAT
1 TT-GCAT
17703611 CAGAGCCAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 35 0.90
34 4 0.10
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (33 bp):
TTGCATGATAATTACAATTAGTAAATGTTCACA
Found at i:17706977 original size:90 final size:93
Alignment explanation
Indices: 17706827--17707007 Score: 232
Period size: 90 Copynumber: 2.0 Consensus size: 93
17706817 CTCTCCATCT
*
17706827 TTTTTATTTATTCTCTATTTATTTTCTTTTCCTTTTCTTTACACTATATTTTCATCTTCATTATT
1 TTTTTATTTATTCTCTATTTATTTTCTTTTCCTTTTCTATACACTATATTTTCATCTTCATTATT
* *
17706892 GATAATTA-TTTTGCTTTCTCGAATCGTA
66 GAGAATTATTTTTGC-TTCTCAAATCGTA
*
17706920 TTTTTATTTATTCT-T-TTT-TTTTCTTTCTCTTTTTCTATACA-TCATAATTTT-AT-TTCATT
1 TTTTTATTTATTCTCTATTTATTTTCTTT-TCCTTTTCTATACACT-AT-ATTTTCATCTTCATT
*
17706979 ATTGAGCATTATTTTTGCTTCTCAAATCG
63 ATTGAGAATTATTTTTGCTTCTCAAATCG
17707008 AAATCTATTC
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
90 34 0.43
91 25 0.32
92 6 0.08
93 14 0.18
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.61
Consensus pattern (93 bp):
TTTTTATTTATTCTCTATTTATTTTCTTTTCCTTTTCTATACACTATATTTTCATCTTCATTATT
GAGAATTATTTTTGCTTCTCAAATCGTA
Found at i:17718556 original size:15 final size:15
Alignment explanation
Indices: 17718536--17718566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17718526 TTTTACTTAG
*
17718536 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
17718551 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
17718566 T
1 T
17718567 TTATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:17724069 original size:17 final size:17
Alignment explanation
Indices: 17724047--17724079 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17724037 CACTAATATT
*
17724047 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
17724064 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
17724080 GTGCACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:17730766 original size:9 final size:9
Alignment explanation
Indices: 17730754--17730778 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17730744 TATTTTATTT
17730754 TATAAAATA
1 TATAAAATA
17730763 TATAAAATA
1 TATAAAATA
17730772 TATAAAA
1 TATAAAA
17730779 ATACCCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TATAAAATA
Found at i:17733750 original size:93 final size:93
Alignment explanation
Indices: 17733591--17733777 Score: 329
Period size: 93 Copynumber: 2.0 Consensus size: 93
17733581 ATCTCTTCTC
*
17733591 CCATTCTTCATTCTTTCACTTCCCATTTGAGAGAGCAACACAAGAGTTTGAGGGAAGCATTGCAG
1 CCATTCTTCATTCTTTAACTTCCCATTTGAGAGAGCAACACAAGAGTTTGAGGGAAGCATTGCAG
* *
17733656 AAGTTCTTTGAGTAGAAAAATTCAGCAT
66 AAGTTCTTTGAGCAGAAAAATTCAACAT
*
17733684 CCATTCTTCATTCTTTAACTTCCCATTTGAGAGAGTAACACAAGAGTTTGAGGGAAGCATTGCAG
1 CCATTCTTCATTCTTTAACTTCCCATTTGAGAGAGCAACACAAGAGTTTGAGGGAAGCATTGCAG
*
17733749 AAGTTCTTTGAGCAGCAAAATTCAACAT
66 AAGTTCTTTGAGCAGAAAAATTCAACAT
17733777 C
1 C
17733778 TTGAAGGAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (93 bp):
CCATTCTTCATTCTTTAACTTCCCATTTGAGAGAGCAACACAAGAGTTTGAGGGAAGCATTGCAG
AAGTTCTTTGAGCAGAAAAATTCAACAT
Found at i:17746453 original size:17 final size:17
Alignment explanation
Indices: 17746431--17746464 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17746421 TTATGCGCAC
17746431 TTGTAC-GAGATATGTTA
1 TTGTACGGAGAT-TGTTA
17746448 TTGTACGGAGATTGTTA
1 TTGTACGGAGATTGTTA
17746465 CAGTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (17 bp):
TTGTACGGAGATTGTTA
Found at i:17754955 original size:98 final size:98
Alignment explanation
Indices: 17754781--17754975 Score: 318
Period size: 98 Copynumber: 2.0 Consensus size: 98
17754771 ATAATGAAAA
* * * *
17754781 ACTTTAAAGGAACATCCATTTATCCAAGATTTAAGAAAACACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAAGGCACAATT
* * *
17754846 CCTTTAGAATCCCAAACTCGGAATATTTCCTTC
66 CCTTTAAAATCCCAAACTCAGAAAATTTCCTTC
*
17754879 ACTTTAAAAGAACATCCGCTTATCCAAGATTTAAGAAAACACACCCAATACGTTAAGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAAGGCACAATT
17754944 CCTTTAAAATCCCAAACTCAGAAAATTTCCTT
66 CCTTTAAAATCCCAAACTCAGAAAATTTCCTT
17754976 TATGATTTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAAGGCACAATT
CCTTTAAAATCCCAAACTCAGAAAATTTCCTTC
Found at i:17757316 original size:44 final size:44
Alignment explanation
Indices: 17757003--17757809 Score: 331
Period size: 44 Copynumber: 18.5 Consensus size: 44
17756993 CTACTCCATC
* * * *
17757003 GCAACTTTAGGGAGATAAGATTTGC-CATCTTCAGTCTGC-CTCACT
1 GCAACTTCAGAGAGATAAGACTTGCTTA-CTT-AGTCTGCTC-CACT
* * *
17757048 GCAATTTCAG-GAGGATAAGACTTACTTTGCTTAGTCTGCTCCACT
1 GCAACTTCAGAGA-GATAAGACTTGC-TTACTTAGTCTGCTCCACT
* * * * * * *
17757093 GTAACTTCAGGGAGATAAGATTTG-ATGC-GA-TCTGCT-CTCT
1 GCAACTTCAGAGAGATAAGACTTGCTTACTTAGTCTGCTCCACT
* * * **
17757133 GCAACTTCAGAGAGATAAGATCTGAGGTT--TTAATCCACTCCACT
1 GCAACTTCAGAGAGATAAGA-CT-TGCTTACTTAGTCTGCTCCACT
** * * * * * * * *
17757177 ATAATTTTAGGGAGATAGGA-TTG-TCGACTTTAATTTTCTCCACT
1 GCAACTTCAGAGAGATAAGACTTGCT-TAC-TTAGTCTGCTCCACT
* * * *
17757221 GCAACTTCAGGGAGATAAGACTTTC-CATCTTCAGTCTGCCCCACT
1 GCAACTTCAGAGAGATAAGACTTGCTTA-CTT-AGTCTGCTCCACT
17757266 GCAACTTCA-AGAGGATAAGACTTGCTTACTTAGTCTGCTCCACT
1 GCAACTTCAGAGA-GATAAGACTTGCTTACTTAGTCTGCTCCACT
** * * * * * *
17757310 ATAACTTCAGGGAGATAAGACTAG-AT-GTGA-TCTGCT-CTCT
1 GCAACTTCAGAGAGATAAGACTTGCTTACTTAGTCTGCTCCACT
* * * * *
17757350 GCAACTTCAGAGAGATAAGATCTGAGGTT--TTAATCCGCTCCAAT
1 GCAACTTCAGAGAGATAAGA-CT-TGCTTACTTAGTCTGCTCCACT
* * * * *
17757394 GCAACTTCAGGGAGATAGGA-TT-ATCAGCTTTAATCTGCTCCACT
1 GCAACTTCAGAGAGATAAGACTTGCTTA-C-TTAGTCTGCTCCACT
** * *
17757438 ATAACTTCA-AGGAGATAAGACTTGC-CATCTTCAGTCTGCCCCACT
1 GCAACTTCAGA-GAGATAAGACTTGCTTA-CTT-AGTCTGCTCCACT
17757483 GCAACTTCAGA-AGGATAAGACTTGCTTACTTAGTCTGCTCCACT
1 GCAACTTCAGAGA-GATAAGACTTGCTTACTTAGTCTGCTCCACT
* * * * * *
17757527 GTAACTTCAGGGAGATAAGACTAGC-TGC-GA-TCTGCT-CTCT
1 GCAACTTCAGAGAGATAAGACTTGCTTACTTAGTCTGCTCCACT
** * * * *
17757567 GCAACTTCAGAGAGATAAGATCCGAGGTT--TTAATCCGCTCCAAT
1 GCAACTTCAGAGAGATAAGA--CTTGCTTACTTAGTCTGCTCCACT
* * * *
17757611 GCAACTTCAGGGAGATAGGATTATCGGC-T--TTAATCTGCTCCACT
1 GCAACTTCAGAGAGATAAGACT-T--GCTTACTTAGTCTGCTCCACT
* * *
17757655 GCAACTTCAGGGAGATAAGATTATCGGC-T--TTAATCTGCTCCACT
1 GCAACTTCAGAGAGATAAGACT-T--GCTTACTTAGTCTGCTCCACT
* * ** *
17757699 GCAACTTCAGGGAAATAAGACTT-CCCATCTTCAGTCTGCCCCACT
1 GCAACTTCAGAGAGATAAGACTTGCTTA-CTT-AGTCTGCTCCACT
*
17757744 GCAACTTCAG-GAGGATAAGACTTGCTTATTTAGTCTGCTCCACT
1 GCAACTTCAGAGA-GATAAGACTTGCTTACTTAGTCTGCTCCACT
* *
17757788 GTAACTTCAGGGAGATAAGACT
1 GCAACTTCAGAGAGATAAGACT
17757810 AGATGCGATC
Statistics
Matches: 589, Mismatches: 117, Indels: 113
0.72 0.14 0.14
Matches are distributed among these distances:
40 65 0.11
41 22 0.04
42 16 0.03
43 24 0.04
44 294 0.50
45 157 0.27
46 11 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
GCAACTTCAGAGAGATAAGACTTGCTTACTTAGTCTGCTCCACT
Found at i:17757365 original size:217 final size:217
Alignment explanation
Indices: 17756986--17757765 Score: 1067
Period size: 217 Copynumber: 3.6 Consensus size: 217
17756976 CCACTGTCGG
* * *
17756986 CTTTAATCTACTCCA-TCGCAACTTTAGGGAGATAAGA-TTTGCCATCTTCAGTCTGCCTCACTG
1 CTTTAATCTGCTCCACT-GCAACTTCAGGGAGATAAGACTTT-CCATCTTCAGTCTGCCCCACTG
* * * * *
17757049 CAATTTCAGGAGGATAAGACTTACTTTGCTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAT
64 CAACTTCAAGAGGATAAGACTTGC-TTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAC
* * * **
17757114 TTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTAT
128 TAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGC
* * *
17757179 AATTTTAGGGAGATAGGATTGTCGA
193 AACTTCAGGGAGATAGGATTATCGA
* *
17757204 CTTTAATTTTCTCCACTGCAACTTCAGGGAGATAAGACTTTCCATCTTCAGTCTGCCCCACTGCA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCCATCTTCAGTCTGCCCCACTGCA
*
17757269 ACTTCAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTATAACTTCAGGGAGATAAGACTAG
66 ACTTCAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAG
*
17757334 ATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAAC
131 ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAAC
17757399 TTCAGGGAGATAGGATTATC-A
196 TTCAGGGAGATAGGATTATCGA
** * *
17757420 GCTTTAATCTGCTCCACTATAACTTCAAGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGC
1 -CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCCATCTTCAGTCTGCCCCACTGC
17757485 AACTTC-AGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACT
65 AACTTCAAG-AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACT
* *
17757549 AGCTGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCGAGGTTTTAATCCGCTCCAATGCA
129 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCA
*
17757614 ACTTCAGGGAGATAGGATTATCGG
194 ACTTCAGGGAGATAGGATTATCGA
** * * *
17757638 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAT-CGGCTTTAATCTGCTCCACTGC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TCCATCTTCAGTCTGCCCCACTGC
** * *
17757701 AACTTC-AG-GGAAATAAGACTT-CCCATCTTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAA
65 AACTTCAAGAGG--ATAAGACTTGCTTA-CTT-AGTCTGCTCCACTGTAACTTCAGGGA-GATAA
17757762 GACT
125 GACT
17757766 TGCTTATTTA
Statistics
Matches: 508, Mismatches: 43, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
214 2 0.00
215 2 0.00
216 45 0.09
217 381 0.75
218 74 0.15
219 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCCATCTTCAGTCTGCCCCACTGCA
ACTTCAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAG
ATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAAC
TTCAGGGAGATAGGATTATCGA
Found at i:17757520 original size:89 final size:86
Alignment explanation
Indices: 17756987--17757809 Score: 400
Period size: 89 Copynumber: 9.4 Consensus size: 86
17756977 CACTGTCGGC
* * * * * *
17756987 TTTAATCTACTCCA-TCGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCA
1 TTTAATCTGCTCCACT-GTAACTTCAGGGAGATAAGACTT-CCAGCTTCAGTCTGCCCCACTGCA
* *
17757051 ATTTCAG-GAGGATAAGACTTACTT
64 ACTTCAGAGA-GATAAGACTTGC-T
* * * * * *
17757075 TGCTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-TT--TGATGC-GATCTG-CTCTCTGC
1 T--TTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCCAGCTTCAG-TCTGCCCCACTGC
* *
17757135 AACTTCAGAGAGATAAGATCTGAGGT
63 AACTTCAGAGAGATAAGA-CT-TGCT
** * * * * * * * * * * *
17757161 TTTAATCCACTCCACTATAATTTTAGGGAGATAGGATTGTCGA-CTTTAATTTTCTCCACTGCAA
1 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACT-TCCAGCTTCAGTCTGCCCCACTGCAA
* *
17757225 CTTCAGGGAGATAAGACTTTCCAT
65 CTTCAGAGAGATAAGAC-TTGC-T
* * * * * * * *
17757249 CTTCAGTCTGCCCCACTGCAACTTCA-AGAGGATAAGACTTGCTTA-CTT-AGTCTGCTCCACTA
1 -TTTAATCTGCTCCACTGTAACTTCAGGGA-GATAAGACTT-C-CAGCTTCAGTCTGCCCCACTG
* * * *
17757311 TAACTTCAGGGAGATAAGACTAG-A
62 CAACTTCAGAGAGATAAGACTTGCT
* * * * * * * * * * * *
17757335 TGTGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA--TCTGAGGTTTTAATCCGCTCCAATGCA
1 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTC-CA-GCTTCAGTCTGCCCCACTGCA
* * *
17757397 ACTTCAGGGAGATAGGATTATCAGC-
64 ACTTCAGAGAGATAAGACT-T--GCT
* * *
17757422 TTTAATCTGCTCCACTATAACTTCAAGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-CCAGCTTCAGTCTGCCCCACTGCAA
17757487 CTTCAGA-AGGATAAGACTTGCT
65 CTTCAGAGA-GATAAGACTTGCT
* * * *
17757509 TACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAC-T--AGCTGC-GATCTG-CTCTCTGC
1 T--TTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCCAGCTTCAG-TCTGCCCCACTGC
** *
17757569 AACTTCAGAGAGATAAGATCCGAGGT
63 AACTTCAGAGAGATAAGA--CTTGCT
* * * * * * * * *
17757595 TTTAATCCGCTCCAATGCAACTTCAGGGAGATAGGA-TTATCGGCTTTAATCTGCTCCACTGCAA
1 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-CCAGCTTCAGTCTGCCCCACTGCAA
* *
17757659 CTTCAGGGAGATAAGATTATCGGC-
65 CTTCAGAGAGATAAGACT-T--GCT
* * *
17757683 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTCCCATCTTCAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-CCAGCTTCAGTCTGCCCCACTGCAA
17757748 CTTCAG-GAGGATAAGACTTGCTT
65 CTTCAGAGA-GATAAGACTTGC-T
*
17757771 ATTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACT
1 -TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACT
17757810 AGATGCGATC
Statistics
Matches: 551, Mismatches: 131, Indels: 105
0.70 0.17 0.13
Matches are distributed among these distances:
81 3 0.01
82 1 0.00
83 2 0.00
84 129 0.23
85 41 0.07
86 21 0.04
87 22 0.04
88 108 0.20
89 187 0.34
90 35 0.06
91 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (86 bp):
TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCCAGCTTCAGTCTGCCCCACTGCAAC
TTCAGAGAGATAAGACTTGCT
Found at i:17768708 original size:98 final size:98
Alignment explanation
Indices: 17768534--17768728 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
17768524 ATAATGAAAA
* * *
17768534 ACTTTAAAGGAACATTCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAGGGCACAATT
*
17768599 CCTTTAGAATCCCAAACTCGGAATATTTCCTTC
66 CCTTTAGAATCCCAAACTCGGAAAATTTCCTTC
* *
17768632 ACTTTAAAAGAACATCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAGGGCACAATT
*
17768697 CCTTTATAATCCCAAACTCGGAAAATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAAAATTTCCTT
17768729 TATGATTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAAACACACCCAATACGTTAGGGCACAATT
CCTTTAGAATCCCAAACTCGGAAAATTTCCTTC
Found at i:17768855 original size:20 final size:20
Alignment explanation
Indices: 17768819--17768856 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17768809 AATAATGAGC
*
17768819 TCTTATTTTGATTAAAAGAA
1 TCTTATTTTGATAAAAAGAA
17768839 TCTTCATTTTGA-AAAAAG
1 TCTT-ATTTTGATAAAAAG
17768857 TTTGATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
TCTTATTTTGATAAAAAGAA
Found at i:17772897 original size:23 final size:24
Alignment explanation
Indices: 17772841--17772909 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
17772831 TTATTAACAT
* *
17772841 TGTTTGTTAATATGTTCAATTATA
1 TGTTTGTGAACATGTTCAATTATA
** *
17772865 TGTTCATGAACATGTTCATTTA-A
1 TGTTTGTGAACATGTTCAATTATA
*
17772888 TGTTTGTGAACATGTTCGATTA
1 TGTTTGTGAACATGTTCAATTA
17772910 AGTTAAATGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (24 bp):
TGTTTGTGAACATGTTCAATTATA
Found at i:17775553 original size:20 final size:19
Alignment explanation
Indices: 17775530--17775591 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
17775520 CAACAATAAT
17775530 TTTTTAAAATT-TTATATA
1 TTTTTAAAATTATTATATA
17775548 TCTTTT-AAATTAATTATATA
1 T-TTTTAAAATT-ATTATATA
* *
17775568 TTTTTAAAA-TATTTTTTA
1 TTTTTAAAATTATTATATA
17775586 TTTTTA
1 TTTTTA
17775592 TATTTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 18 0.47
19 9 0.24
20 11 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTATTATATA
Found at i:17775587 original size:18 final size:18
Alignment explanation
Indices: 17775530--17775591 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
17775520 CAACAATAAT
17775530 TTTTTAAAAT-TTTATATA
1 TTTTTAAAATATTT-TATA
* *
17775548 TCTTTTAAATTAATTATATA
1 T-TTTTAAAAT-ATTTTATA
*
17775568 TTTTTAAAATATTTTTTA
1 TTTTTAAAATATTTTATA
17775586 TTTTTA
1 TTTTTA
17775592 TATTTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 13 0.36
19 16 0.44
20 5 0.14
21 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTAAAATATTTTATA
Found at i:17776314 original size:23 final size:22
Alignment explanation
Indices: 17776287--17776332 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
17776277 AATCTAAATT
17776287 TTAAAATCTGAAAAAGTAAAAAA
1 TTAAAATCTGAAAAA-TAAAAAA
* *
17776310 TTAAAATTTTAAAAATAAAAAA
1 TTAAAATCTGAAAAATAAAAAA
17776332 T
1 T
17776333 GCAGAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
TTAAAATCTGAAAAATAAAAAA
Found at i:17780368 original size:18 final size:17
Alignment explanation
Indices: 17780341--17780374 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17780331 AATTCAATGT
*
17780341 TTAATTAATTCGTGATA
1 TTAATTAATTAGTGATA
17780358 TTAATTTAATTAGTGAT
1 TTAA-TTAATTAGTGAT
17780375 TTTAGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
TTAATTAATTAGTGATA
Found at i:17786408 original size:16 final size:14
Alignment explanation
Indices: 17786377--17786416 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
17786367 CTATTTATTA
17786377 AATTAATTTTAATT
1 AATTAATTTTAATT
17786391 AATTAATTTTCCAATT
1 AATTAATTTT--AATT
*
17786407 AAATAATTTT
1 AATTAATTTT
17786417 TCAACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTAATTTTAATT
Done.