Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 65 of 144
Found at i:19686947 original size:25 final size:26
Alignment explanation
Indices: 19686893--19686962 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
19686883 TTAGTTTTTT
*
19686893 TTATATATTTTGGTAAATAAAAAAAT
1 TTATATATTTTGGTAAATAAAAAAAG
19686919 TTATATATTTTGGTAAAT-AAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAG
*
19686944 TTATAATATTTTCGTAAAT
1 TTAT-ATATTTTGGTAAAT
19686963 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 10 0.24
26 31 0.76
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (26 bp):
TTATATATTTTGGTAAATAAAAAAAG
Found at i:19701662 original size:13 final size:13
Alignment explanation
Indices: 19701644--19701669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19701634 TGTCTTCCCC
19701644 TTTTTCTCAATAA
1 TTTTTCTCAATAA
19701657 TTTTTCTCAATAA
1 TTTTTCTCAATAA
19701670 GAGACACCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTCTCAATAA
Found at i:19705927 original size:64 final size:63
Alignment explanation
Indices: 19705826--19705945 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 63
19705816 TCCCACTGCT
* *
19705826 AAATAAGAAGGCATTATTCTTCAGTTTAGCCAAAGCTAAAGTCTATTCCAAATTTGACCTCGCC
1 AAATAAGAAGGCATTATTCTCCAATTTAGCCAAAGCT-AAGTCTATTCCAAATTTGACCTCGCC
*
19705890 AAATAAGAAGGCATTATTCTCCAATTTAGTCAAAGCTAAGTCTATTCCAAATTTGA
1 AAATAAGAAGGCATTATTCTCCAATTTAGCCAAAGCTAAGTCTATTCCAAATTTGA
19705946 TCTCAAAGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 19 0.36
64 34 0.64
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (63 bp):
AAATAAGAAGGCATTATTCTCCAATTTAGCCAAAGCTAAGTCTATTCCAAATTTGACCTCGCC
Found at i:19708044 original size:36 final size:36
Alignment explanation
Indices: 19708000--19708076 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
19707990 TATTAATGCA
* *
19708000 TTAT-TAGTTTA-ATCTGTAACTGTGTTTGTCTGTTT
1 TTATCTAGTTTATA-CTGTAACTATGTTTGTCTGTTC
*
19708035 TTATCTAGTTTGTACTGTAACTATGTTTGTCTGTTC
1 TTATCTAGTTTATACTGTAACTATGTTTGTCTGTTC
19708071 TTATCT
1 TTATCT
19708077 CCTTTGCCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 4 0.11
36 32 0.86
37 1 0.03
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.56
Consensus pattern (36 bp):
TTATCTAGTTTATACTGTAACTATGTTTGTCTGTTC
Found at i:19708678 original size:69 final size:69
Alignment explanation
Indices: 19708605--19708741 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 69
19708595 GACCTAGGTG
*
19708605 AAAAAATAAAATTATCTAATAAATATAACTATA-AAATTTTAATATAAAAAACAAATGA-ATTTT
1 AAAAAATAAAATTATCTAACAAATATAACTATAGAAA-TTTAATATAAAAAACAAATGAGA-TTT
19708668 TAGTTT
64 TAGTTT
** ** * *
19708674 AAAAAATAGCATTATCTAACAAATATATGTATAGAAATTTGATATAAAAAATAAATGAGATTTTA
1 AAAAAATAAAATTATCTAACAAATATAACTATAGAAATTTAATATAAAAAACAAATGAGATTTTA
19708739 GTT
66 GTT
19708742 GAAATGAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 55 0.93
70 4 0.07
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (69 bp):
AAAAAATAAAATTATCTAACAAATATAACTATAGAAATTTAATATAAAAAACAAATGAGATTTTA
GTTT
Found at i:19713062 original size:20 final size:21
Alignment explanation
Indices: 19713037--19713079 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
19713027 ATGATGTCAT
19713037 AATCT-AAAAAATATATTAAA
1 AATCTAAAAAAATATATTAAA
19713057 AATCTAAAAAAATATATTAAA
1 AATCTAAAAAAATATATTAAA
19713078 AA
1 AA
19713080 CCATAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AATCTAAAAAAATATATTAAA
Found at i:19713934 original size:3 final size:3
Alignment explanation
Indices: 19713921--19713949 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
19713911 TGATAAAGAA
19713921 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19713950 TGCAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19726695 original size:49 final size:50
Alignment explanation
Indices: 19726623--19726747 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 50
19726613 TAATACGCAC
* *
19726623 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCCGATACACGT
* * * * *
19726672 AGTAGCCTACACTTAGTACTACACACGTGACCTCACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCCGATACACGT
*
19726722 AGTAGCTTGCACTTAGTACTACACAC
1 AGTAGCCTGCACTTAGTACTACACAC
19726748 CTAAGAAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 29 0.44
50 37 0.56
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCCGATACACGT
Found at i:19727426 original size:58 final size:57
Alignment explanation
Indices: 19727358--19727486 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 57
19727348 AAAAATGGTG
* * *
19727358 AAATGGAGAAATAAGAAA-CATTTGGAAATGATTAAGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAAT--GAAATCATTTGGAAATAAATAAGATTTTCTCCAAAATGAAAATGA
**
19727416 AAATGGAGAAATGAAATCATTTGGAAATAAATGTGATTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATGAAATCATTTGGAAATAAATAAGATTTTCTCCAAAATGAAAATGA
19727473 AAAT-GA-AAATGAAA
1 AAATGGAGAAATGAAA
19727487 ATGAAAAATG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
55 8 0.12
56 6 0.09
57 39 0.60
58 12 0.18
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (57 bp):
AAATGGAGAAATGAAATCATTTGGAAATAAATAAGATTTTCTCCAAAATGAAAATGA
Found at i:19727471 original size:6 final size:6
Alignment explanation
Indices: 19727460--19727498 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
19727450 GATTTTCTCC
19727460 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG -AAAATG AA
19727499 TTTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:19728456 original size:8 final size:8
Alignment explanation
Indices: 19728443--19728474 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
19728433 TTTAAAATAT
19728443 ATATTATA
1 ATATTATA
19728451 ATATTATA
1 ATATTATA
19728459 ATATTATA
1 ATATTATA
19728467 ATATTATA
1 ATATTATA
19728475 TCTTAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTATA
Found at i:19729283 original size:24 final size:24
Alignment explanation
Indices: 19729256--19729302 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19729246 ATTGAAATGG
19729256 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
19729280 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
19729303 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:19729580 original size:40 final size:40
Alignment explanation
Indices: 19729461--19729598 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 40
19729451 CTGCAAGTCA
* * * *
19729461 ATGAGACACTAGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATCCG
* * * * * * *
19729502 ATGAGGCGCTGCGTG-CCAA-T-TCACTTCGGTTTAACCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
*
19729539 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
* *
19729579 ATGAGGCACTGGGTGCCAAA
1 ATGAGACACTGGGTGTCAAA
19729599 CTGGTATGTT
Statistics
Matches: 73, Mismatches: 21, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
37 15 0.21
38 12 0.16
39 2 0.03
40 33 0.45
41 11 0.15
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
Found at i:19737849 original size:3 final size:3
Alignment explanation
Indices: 19737841--19737870 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19737831 GAATTAAACC
19737841 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19737871 CAATGTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19738487 original size:22 final size:22
Alignment explanation
Indices: 19738462--19738503 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19738452 AAAAATATAT
*
19738462 TTTCTTTTTTAAATATATAAGC
1 TTTCCTTTTTAAATATATAAGC
19738484 TTTCCTTTTTAAATATATAA
1 TTTCCTTTTTAAATATATAA
19738504 TATGACCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTCCTTTTTAAATATATAAGC
Found at i:19740217 original size:27 final size:27
Alignment explanation
Indices: 19740165--19740217 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19740155 AAAAATTTTA
* *
19740165 AAAAAAATTGTAAAAAATTAATAAAAC
1 AAAAAAATTGTAAAAAAATAAAAAAAC
19740192 AAAAAAATT-TAAACAAAATAAAAAAA
1 AAAAAAATTGTAAA-AAAATAAAAAAA
19740218 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (27 bp):
AAAAAAATTGTAAAAAAATAAAAAAAC
Found at i:19740225 original size:10 final size:10
Alignment explanation
Indices: 19740154--19740227 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
19740144 CAAAAAAGAG
*
19740154 AAAAAATTTT
1 AAAAAAATTT
19740164 AAAAAAAATTGT
1 -AAAAAAATT-T
19740176 -AAAAAA-TT
1 AAAAAAATTT
* *
19740184 AATAAAA--C
1 AAAAAAATTT
19740192 AAAAAAATTT
1 AAAAAAATTT
19740202 AAACAAAA--T
1 AAA-AAAATTT
19740211 AAAAAAATTT
1 AAAAAAATTT
19740221 AAAAAAA
1 AAAAAAA
19740228 GGTACTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
8 11 0.22
9 10 0.20
10 17 0.33
11 12 0.24
12 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:19740227 original size:18 final size:18
Alignment explanation
Indices: 19740176--19740227 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
19740166 AAAAAATTGT
*
19740176 AAAAAA-TTAATAAAACA
1 AAAAAATTTAAAAAAACA
*
19740193 AAAAAATTTAAACAAAATA
1 AAAAAATTTAAA-AAAACA
19740212 AAAAAATTTAAAAAAA
1 AAAAAATTTAAAAAAA
19740228 GGTACTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 6 0.19
18 8 0.26
19 17 0.55
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAAAATTTAAAAAAACA
Found at i:19742565 original size:55 final size:55
Alignment explanation
Indices: 19742488--19742592 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
19742478 AATGCTGCTC
* *
19742488 AACTCTATGTTTGTTCTACATCATTTCAACTCTAAAATACTTAAGGAGATGAAAA
1 AACTCGATGTTTGTTCTACATCATTTCAACTCTAAAATACTCAAGGAGATGAAAA
* *
19742543 AACTCGATG-TTGATTCTGCATCATTTCAACTCTAAAATACTCAATGAGAT
1 AACTCGATGTTTG-TTCTACATCATTTCAACTCTAAAATACTCAAGGAGAT
19742593 AAGATTCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 3 0.07
55 42 0.93
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (55 bp):
AACTCGATGTTTGTTCTACATCATTTCAACTCTAAAATACTCAAGGAGATGAAAA
Found at i:19751773 original size:73 final size:73
Alignment explanation
Indices: 19751686--19751831 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
19751676 CCTTCCTTTT
*
19751686 AACCCCAATTTGTTTGGATGCATGTCTACACTTTCATGCAACATTCAGCAAATCAACCTTACATT
1 AACCCCAATTTGTTTGGACGCATGTCTACACTTTCATGCAACATTCAGCAAATCAACCTTACATT
19751751 ACTTTTGC
66 ACTTTTGC
19751759 AACCCCAATTTGTTTGGACGCATGTCTACACTTTCATGCAACATTCAGCAAATCAACCTTACATT
1 AACCCCAATTTGTTTGGACGCATGTCTACACTTTCATGCAACATTCAGCAAATCAACCTTACATT
*
19751824 CCTTTTGC
66 ACTTTTGC
19751832 TGGTTCTGAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (73 bp):
AACCCCAATTTGTTTGGACGCATGTCTACACTTTCATGCAACATTCAGCAAATCAACCTTACATT
ACTTTTGC
Found at i:19754014 original size:80 final size:75
Alignment explanation
Indices: 19753870--19754019 Score: 174
Period size: 79 Copynumber: 1.9 Consensus size: 75
19753860 ATAAATAACT
* * *
19753870 TAATAGTATAAAAAGCCGTCAAACTTAAAAAAAAAACAATTAAATCTCTCTTTTTTTCTGCACTC
1 TAATAGTATAAAAAGCCCTCAAACTTAAAAAAAAAACAATTAAACCCCTCTTTTTTTCTGCACTC
19753935 AATTGAGCAC
66 AATTGAGCAC
* ** * * *
19753945 TAATAGTATAAAAAGGCCCTCAAACTTCTTCAAAAAAAAGTAATTAAGCCCCTGCTTTTTTTTTT
1 TAATAGTATAAAAA-GCCCTCAAA---CTTAAAAAAAAAACAATTAAACCCCT-CTTTTTTTCTG
19754010 CACTCAATTG
61 CACTCAATTG
19754020 GGTACTTGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
75 14 0.23
76 8 0.13
79 20 0.33
80 19 0.31
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (75 bp):
TAATAGTATAAAAAGCCCTCAAACTTAAAAAAAAAACAATTAAACCCCTCTTTTTTTCTGCACTC
AATTGAGCAC
Found at i:19754132 original size:37 final size:37
Alignment explanation
Indices: 19754091--19754176 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
19754081 ACCCCTGCAA
19754091 TTATTAAAAATTAGAAAAAAAAACT-AAAAATTA-AATT
1 TTATTAAAAATTA-AAAAAAAAA-TAAAAAATTAGAATT
** * *
19754128 TTATTAAATTTTAATAAAAATATAAAAAATTAGAATT
1 TTATTAAAAATTAAAAAAAAAATAAAAAATTAGAATT
*
19754165 TTATAAAAAATT
1 TTATTAAAAATT
19754177 TATTTTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 1 0.03
36 15 0.38
37 24 0.60
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (37 bp):
TTATTAAAAATTAAAAAAAAAATAAAAAATTAGAATT
Found at i:19754337 original size:10 final size:9
Alignment explanation
Indices: 19754309--19754387 Score: 61
Period size: 10 Copynumber: 8.3 Consensus size: 9
19754299 ACATGTGGTG
*
19754309 AAAAATGAT
1 AAAAATTAT
*
19754318 AAAAA-AAT
1 AAAAATTAT
19754326 AAAAATTGAT
1 AAAAATT-AT
*
19754336 AAAAGTTAT
1 AAAAATTAT
*
19754345 AAAAAATTTT
1 -AAAAATTAT
19754355 AAAAATTGAT
1 AAAAATT-AT
*
19754365 AAAAGTTAT
1 AAAAATTAT
19754374 AGAAAAATTAT
1 --AAAAATTAT
19754385 AAA
1 AAA
19754388 GTTATAGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 7 0.12
9 19 0.34
10 22 0.39
11 8 0.14
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:19754360 original size:29 final size:30
Alignment explanation
Indices: 19754324--19754387 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
19754314 TGATAAAAAA
19754324 ATAAAAATTGATAAAAGTTATA-AAAAATT
1 ATAAAAATTGATAAAAGTTATAGAAAAATT
*
19754353 TTAAAAATTGATAAAAGTTATAGAAAAATT
1 ATAAAAATTGATAAAAGTTATAGAAAAATT
19754383 ATAAA
1 ATAAA
19754388 GTTATAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (30 bp):
ATAAAAATTGATAAAAGTTATAGAAAAATT
Found at i:19754390 original size:19 final size:21
Alignment explanation
Indices: 19754355--19754394 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
19754345 AAAAAATTTT
19754355 AAAAATTGATAAAAGTTATAG
1 AAAAATTGATAAAAGTTATAG
19754376 AAAAATT-AT-AAAGTTATAG
1 AAAAATTGATAAAAGTTATAG
19754395 TATAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 2 0.11
21 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAAATTGATAAAAGTTATAG
Found at i:19755533 original size:13 final size:13
Alignment explanation
Indices: 19755510--19755560 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
19755500 ACACTCAAAT
*
19755510 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
19755523 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
19755536 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
19755549 TTTTCAAAAGCA
1 TTTTCAAAAGCA
19755561 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:19758796 original size:25 final size:23
Alignment explanation
Indices: 19758761--19758807 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
19758751 TATAAACGAT
19758761 AAAAAATAAATGCATA-TAACAAA
1 AAAAAATAAATGCA-AGTAACAAA
19758784 AAAAAATAAAAATGCAAGTAACAA
1 AAAAAAT--AAATGCAAGTAACAA
19758808 CCTTTGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 13 0.62
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAAAATAAATGCAAGTAACAAA
Found at i:19759658 original size:44 final size:43
Alignment explanation
Indices: 19759610--19760397 Score: 340
Period size: 44 Copynumber: 18.3 Consensus size: 43
19759600 ACTACTGCTT
* * *
19759610 AGGGAGATAAGATTTGCTTACTTAGTCAGCTCCACTACAACTTC
1 AGGGAGATAAGA-TTGCTTACTTAATCTGCTCCACTGCAACTTC
* *** *
19759654 AGGGAGATAAGA---CTAAACGCGATCTGCT-CTCTGCAACTTC
1 AGGGAGATAAGATTGCT-TACTTAATCTGCTCCACTGCAACTTC
* * *
19759694 AGTGAGATAAGATTTGAGATT--TTAATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGA-TT--GCTTACTTAATCTGCTCCACTGCAACTTC
** *
19759738 AGGGAGAT-AGAATTG-TCGGCTTTAATCTGCTCCACTGTAACTTC
1 AGGGAGATAAG-ATTGCT-TAC-TTAATCTGCTCCACTGCAACTTC
* * *
19759782 AGAGAGATAGGATTGTCTGT--TTAGTCTGCTCCACTGCAACTTC
1 AGGGAGATAAGATTG-CT-TACTTAATCTGCTCCACTGCAACTTC
* * * *
19759825 AGGGAGATAAGA---CTAAATGTGATCTGCT-CTCTGCAACTTC
1 AGGGAGATAAGATTGCTTACT-TAATCTGCTCCACTGCAACTTC
* * * *
19759865 AGAGAGATAAGA-T-CTAAGGCTTTAATCAGTTCCACTGCAACTTC
1 AGGGAGATAAGATTGCTTA--C-TTAATCTGCTCCACTGCAACTTC
* *
19759909 AGGGAGATAGGATTATCGGTT--TTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGA-T-T-GCTTACTTAATCTGCTCCACTGCAACTTC
* *
19759953 AGGGAGATAGGATTATCGGTT--TTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGA-T-T-GCTTACTTAATCTGCTCCACTGCAACTTC
* *
19759997 A-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTC
1 AGGGA-GATAAGA-TTGCTTACTTAATCTGCTCCACTGCAACTTC
* * * * * * *
19760041 AGGGAGATAAAACTAG-ATGC--GATCTTCT-CTCTGCAACTTC
1 AGGGAGATAAGA-TTGCTTACTTAATCTGCTCCACTGCAACTTC
* * * * *
19760081 AGAGAGATAATATCTGAGGTT--TTAATCTGCTCCACTACAATTTC
1 AGGGAGATAAGAT-T--GCTTACTTAATCTGCTCCACTGCAACTTC
* **
19760125 AGGGAGAT-AGAATT-ATCGGCTTTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAG-ATTGCT-TAC-TTAATCTGCTCCACTGCAACTTC
* * * * * *
19760169 AGGGAGATAAAACTAG-ATGC--GATCTGCT-CTCTGCAACTTC
1 AGGGAGATAAGA-TTGCTTACTTAATCTGCTCCACTGCAACTTC
* * *
19760209 AGAGAGATAAGATCTGAGGTT--TTAATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGAT-T--GCTTACTTAATCTGCTCCACTGCAACTTC
* ** *
19760253 AGGGAGATAGGATTG-TCGGCTTTAATCTGCTCTACTGCAACTTC
1 AGGGAGATAAGATTGCT-TAC-TTAATCTGCTCCACTGCAACTTC
* * *
19760297 AGGGAGATATGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTC
1 AGGGAGATAAGA-TTGCTTA-CTT-AATCTGCTC-CACTGCAACTTC
* * * *
19760342 A-GGAGGATAATACTTGCCTACTTAGTCTGCTCCACTACAACTTC
1 AGGGA-GATAAGA-TTGCTTACTTAATCTGCTCCACTGCAACTTC
19760386 AGGGAGATAAGA
1 AGGGAGATAAGA
19760398 CTCGATCTGT
Statistics
Matches: 574, Mismatches: 102, Indels: 136
0.71 0.13 0.17
Matches are distributed among these distances:
39 4 0.01
40 90 0.16
41 32 0.06
42 5 0.01
43 70 0.12
44 324 0.56
45 44 0.08
46 3 0.01
47 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (43 bp):
AGGGAGATAAGATTGCTTACTTAATCTGCTCCACTGCAACTTC
Found at i:19760088 original size:128 final size:127
Alignment explanation
Indices: 19759638--19760305 Score: 540
Period size: 128 Copynumber: 5.2 Consensus size: 127
19759628 TACTTAGTCA
* * * * *
19759638 GCTCCACTACAACTTCAGGGAGATAAGACTAAACGCGATCTGCTCTCTGCAACTTCAGTGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT-
* * *
19759703 AGATT-T-GAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCT
65 AGATTATCG-G-TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGACTTTAATCT
* * ** * * ** * *
19759766 GCTCCACTGTAACTTCAGAGAGATAGGA-TTGTCTGTTTAGTCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAAACTAG-ATG-CGA-TCTGCT-CTCTGCAACTTCAGAGA
* ** * * * * * *
19759830 GATAAGACTA---AATGTGATCTGCT-CTCTGCAACTTCAGAGAGATA-AGATCTA-AGGCTTTA
62 GAT-AGATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGA-AT-TATCGACTTTA
*
19759889 ATCA
124 ATCT
* ** * * *** * *
19759893 GTTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAAACTA---GATGCGATCTGCT-CTCTGCAACTTCAGAGA
* * *
19759958 GATAGGATTATCGGTTTTAATCTGCTCCACTGCAACTTCA-GGAGGATAAGACTT-GCTTAC-TT
62 GATA-GATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGGA-GAT-AGAATTATC-GACTTT
*
19760020 AGTCT
123 AATCT
* *
19760025 GCTCCACTGTAACTTCAGGGAGATAAAACTAGATGCGATCTTCTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
* * *
19760090 -A-TATCTGAGGTTTTAATCTGCTCCACTACAATTTCAGGGAGATAGAATTATCGGCTTTAATCT
66 GATTATC---GGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGACTTTAATCT
19760153 GCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT-
* * * *
19760218 AGATCTGA--GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCT
65 AGAT-T-ATCGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGACTTTAATCT
*
19760281 GCTCTACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
19760306 TGATTTGCCA
Statistics
Matches: 438, Mismatches: 70, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
125 4 0.01
126 2 0.00
127 64 0.15
128 257 0.59
129 15 0.03
130 8 0.02
131 35 0.08
132 48 0.11
133 4 0.01
134 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (127 bp):
GCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
GATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGACTTTAATCT
Found at i:19760104 original size:172 final size:172
Alignment explanation
Indices: 19759638--19760397 Score: 660
Period size: 172 Copynumber: 4.4 Consensus size: 172
19759628 TACTTAGTCA
* * * * *
19759638 GCTCCACTACAACTTCAGGGAGATAAGAC-T--AAACGCGATCTGCTCTCTGCAACTTCAGTGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCATAC-TGATCTGCTCACTGCAACTTCAGAGAG
* ** **
19759700 ATAAGATTTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGA-ATTGTCGGCTTTAAT
65 ATAAGATCT-AGA-TGCAATCTTCT-CACTGCAACTTCAGGGAGATAGATATTGTCGGCTTTAAT
* * * * *
19759764 CTGCTCCACTGTAACTTCAGAGAGATAGGATTGTCTG-TTTAGTCT
127 CTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCT
** * *
19759809 GCTCCACTGCAACTTCAGGGAGATAAGAC-TAAAT-GTGATCTGCTCTCTGCAACTTCAGAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTGATCTGCTCACTGCAACTTCAGAGAGA
* * * *
19759872 TAAGATCTA-AGGCTTTAATCAGTTC-CACTGCAACTTCAGGGAGATAG-GATTATCGGTTTTAA
66 TAAGATCTAGATGC---AATC--TTCTCACTGCAACTTCAGGGAGATAGATATTGTCGGCTTTAA
19759934 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCT
126 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCT
* * * *
19759981 GCTCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTGA-TCTGCT-CACTGCAACTTCAGAG
* * * * * *
19760045 AGATAA-AACTAGATGCGATCTTCTCTCTGCAACTTCAGAGAGATA-ATATCTG-AGGTTTTAAT
63 AGATAAGATCTAGATGCAATCTTCTCACTGCAACTTCAGGGAGATAGATAT-TGTCGGCTTTAAT
* * * *
19760107 CTGCTCCACTACAATTTCAGGGAGATAGAATTATCGGCTTTAATCT
127 CTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCT
* * * *
19760153 GCTCCACTGCAACTTCAGGGAGATAAAACTAG-ATGC-GATCTGCTCTCTGCAACTTCAGAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTGATCTGCTCACTGCAACTTCAGAGAGA
* ** ** *
19760216 TAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG-GATTGTCGGCTTTAATC
66 TAAGATCT-A-GATGCAATCTTCT-CACTGCAACTTCAGGGAGATAGATATTGTCGGCTTTAATC
* * ** * *
19760280 TGCTCTACTGCAACTTCAGGGAGATATGATT-TGCCATCTTCAGTCT
128 TGCTCCACTGCAACTTCAGGGAGATAGGATTAT-CGGT-TTTAATCT
* * * * *
19760326 GC-CTCACTGCAACTTCA-GGAGGATAATACTTGCCTACTTAGTCTGCTCCACTACAACTTCAGG
1 GCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTGA-TCTGCT-CACTGCAACTTCAGA
19760389 GAGATAAGA
62 GAGATAAGA
19760398 CTCGATCTGT
Statistics
Matches: 480, Mismatches: 76, Indels: 60
0.78 0.12 0.10
Matches are distributed among these distances:
168 19 0.04
169 10 0.02
170 3 0.01
171 152 0.32
172 191 0.40
173 41 0.09
174 4 0.01
175 11 0.02
176 28 0.06
177 21 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (172 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTGATCTGCTCACTGCAACTTCAGAGAGA
TAAGATCTAGATGCAATCTTCTCACTGCAACTTCAGGGAGATAGATATTGTCGGCTTTAATCTGC
TCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCT
Found at i:19760128 original size:216 final size:215
Alignment explanation
Indices: 19759713--19760261 Score: 709
Period size: 216 Copynumber: 2.6 Consensus size: 215
19759703 AGATTTGAGA
* * *
19759713 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGTAA
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGCAA
* *
19759778 CTTCAGAGAGATAGGATTGTCTGTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAAT
66 CTTCAGAGAGATAAGATTGTCTGTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAAAT
* * *
19759843 GTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCAGTTCCACTGCAACTT
131 GCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCAGCTCCACTACAACTT
*
19759908 CAGGGAGATAGGATTATCGG
196 CAGGGAGATAGAATTATCGG
* *
19759928 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTCCACTGCAA
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGCAA
*
19759993 CTTCAG-GAGGATAAGACTTG-CT-TACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAAACT
66 CTTCAGAGA-GATAAGA-TTGTCTGT--TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACT
* * * * * *
19760055 AGATGCGATCTTCTCTCTGCAACTTCAGAGAGATAATATCTGAGGTTTTAATCTGCTCCACTACA
127 AAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCAGCTCCACTACA
*
19760120 ATTTCAGGGAGATAGAATTATCGG
192 ACTTCAGGGAGATAGAATTATCGG
* * * * *** *
19760144 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTA---GATGCGATCTGCT-CTCTGCAA
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGCAA
** * *
19760205 CTTCAGAGAGATAAGATCTG-AGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
66 CTTCAGAGAGATAAGAT-TGTCTG-TTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
19760262 GGATTGTCGG
Statistics
Matches: 293, Mismatches: 33, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
211 1 0.00
212 51 0.17
213 11 0.04
214 4 0.01
215 74 0.25
216 152 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (215 bp):
TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGCAA
CTTCAGAGAGATAAGATTGTCTGTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAAAT
GCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCAGCTCCACTACAACTT
CAGGGAGATAGAATTATCGG
Found at i:19761643 original size:10 final size:11
Alignment explanation
Indices: 19761618--19761642 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19761608 GGCCTATCCA
19761618 TTTTCTTTTTT
1 TTTTCTTTTTT
19761629 TTTTCTTTTTT
1 TTTTCTTTTTT
19761640 TTT
1 TTT
19761643 CAAAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:19770081 original size:407 final size:407
Alignment explanation
Indices: 19769326--19770139 Score: 1583
Period size: 407 Copynumber: 2.0 Consensus size: 407
19769316 TTAAACTGCC
19769326 GAGTTCCTTATCAACCTTGTTTTTCTCTTTCTTCAACCTCTCATTCTCAAGCTTCTGAACGTCTA
1 GAGTTCCTTATCAACCTTGTTTTTCTCTTTCTTCAACCTCTCATTCTCAAGCTTCTGAACGTCTA
19769391 TGTCTAATCTCAAGTTCGTCTTTTTCGCCTCCATTTGCTCTATCCTTTTCTCCAACTCCGCGTTC
66 TGTCTAATCTCAAGTTCGTCTTTTTCGCCTCCATTTGCTCTATCCTTTTCTCCAACTCCGCGTTC
*
19769456 TTTCTCTCAAAATCTTGTCTTACAATTTCCAATTCCGAAGGGATGACTCGCAAATGCTCTTCTAT
131 TTTCTCTCAAAATCTTGTCTTACAATTTCCAATTCCGAAGGGATGACTCGCAAACGCTCTTCTAT
19769521 TGACTGGCCATCCTCATGATTTAACTTAGGTGTGTTATCATTAATCTTCCCAGTCCACCATCCAT
196 TGACTGGCCATCCTCATGATTTAACTTAGGTGTGTTATCATTAATCTTCCCAGTCCACCATCCAT
19769586 AATACTCAGGAGTTATCATCGGCCCCACAGCTAACCTCTTCATTCGGCGAGTCTGTTTCCACGCA
261 AATACTCAGGAGTTATCATCGGCCCCACAGCTAACCTCTTCATTCGGCGAGTCTGTTTCCACGCA
19769651 TTGGACATTTCTTGAATCTTCTTTCTATAACCATCATCTTTGTATGAAAATTCACAATCAGCTAT
326 TTGGACATTTCTTGAATCTTCTTTCTATAACCATCATCTTTGTATGAAAATTCACAATCAGCTAT
19769716 CCCTTGAGTCGCAGGTA
391 CCCTTGAGTCGCAGGTA
19769733 GAGTTCCTTATCAACCTTGTTTTTCTCTTTCTTCAACCTCTCATTCTCAAGCTTCTGAACGTCTA
1 GAGTTCCTTATCAACCTTGTTTTTCTCTTTCTTCAACCTCTCATTCTCAAGCTTCTGAACGTCTA
19769798 TGTCTAATCTCAAGTTCGTCTTTTTCGCCTCCATTTGCTCTATCCTTTTCTCCAACTCCGCGTTC
66 TGTCTAATCTCAAGTTCGTCTTTTTCGCCTCCATTTGCTCTATCCTTTTCTCCAACTCCGCGTTC
19769863 TTTCTCTCAAAATCTTGTCTTACAATTTCCAATTCCGAAGGGATGACTCGCAAACGCTCTTCTAT
131 TTTCTCTCAAAATCTTGTCTTACAATTTCCAATTCCGAAGGGATGACTCGCAAACGCTCTTCTAT
19769928 TGACTGGCCATCCTCATGATTTAACTTAGGTGTGTTATCATTAATCTTCCCAGTCCACCATCCAT
196 TGACTGGCCATCCTCATGATTTAACTTAGGTGTGTTATCATTAATCTTCCCAGTCCACCATCCAT
19769993 AATACTCAGGAGTTATCATCGGCCCCACAGCTAACCTCTTCATTCGGCGAGTCTGTTTCCACGCA
261 AATACTCAGGAGTTATCATCGGCCCCACAGCTAACCTCTTCATTCGGCGAGTCTGTTTCCACGCA
* *
19770058 TTGGACATTTCTTGAATCTTCTTTCTATAACCATCATCTTTGTATGAAAATTCACGATCAGTTAT
326 TTGGACATTTCTTGAATCTTCTTTCTATAACCATCATCTTTGTATGAAAATTCACAATCAGCTAT
* *
19770123 CCCTTGGGTCGCGGGTA
391 CCCTTGAGTCGCAGGTA
19770140 TAAACTGTCT
Statistics
Matches: 402, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
407 402 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (407 bp):
GAGTTCCTTATCAACCTTGTTTTTCTCTTTCTTCAACCTCTCATTCTCAAGCTTCTGAACGTCTA
TGTCTAATCTCAAGTTCGTCTTTTTCGCCTCCATTTGCTCTATCCTTTTCTCCAACTCCGCGTTC
TTTCTCTCAAAATCTTGTCTTACAATTTCCAATTCCGAAGGGATGACTCGCAAACGCTCTTCTAT
TGACTGGCCATCCTCATGATTTAACTTAGGTGTGTTATCATTAATCTTCCCAGTCCACCATCCAT
AATACTCAGGAGTTATCATCGGCCCCACAGCTAACCTCTTCATTCGGCGAGTCTGTTTCCACGCA
TTGGACATTTCTTGAATCTTCTTTCTATAACCATCATCTTTGTATGAAAATTCACAATCAGCTAT
CCCTTGAGTCGCAGGTA
Found at i:19782981 original size:30 final size:29
Alignment explanation
Indices: 19782942--19783013 Score: 72
Period size: 33 Copynumber: 2.3 Consensus size: 29
19782932 TTTTTTCCCG
*
19782942 TTACGTTATGCTTGAAAGTTTTGTTAAGGGA
1 TTAC-TTATGCTTGAAAG-TTTGTTAAGGAA
19782973 TTACTTATGTTTGCTTGAAAGTTTGTTAAGGAA
1 TTACTTA----TGCTTGAAAGTTTGTTAAGGAA
*
19783006 CTACTTAT
1 TTACTTAT
19783014 CTTTATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
29 1 0.03
30 3 0.09
31 4 0.11
33 17 0.49
34 10 0.29
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.44
Consensus pattern (29 bp):
TTACTTATGCTTGAAAGTTTGTTAAGGAA
Found at i:19783003 original size:33 final size:34
Alignment explanation
Indices: 19782950--19783013 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
19782940 CGTTACGTTA
* *
19782950 TGCTTGAAAGTTTTGTTAAGGGATTACTTATGTT
1 TGCTTGAAAGTTTTGTTAAGGAACTACTTATGTT
19782984 TGCTTGAAAG-TTTGTTAAGGAACTACTTAT
1 TGCTTGAAAGTTTTGTTAAGGAACTACTTAT
19783014 CTTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.44
Consensus pattern (34 bp):
TGCTTGAAAGTTTTGTTAAGGAACTACTTATGTT
Found at i:19785410 original size:20 final size:19
Alignment explanation
Indices: 19785368--19785410 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
19785358 CATTCATACT
*
19785368 AATTTAACATCAAATATTT
1 AATTTAACATCAAATATTG
19785387 AATTTAACAATCAACA-ATTG
1 AATTTAAC-ATCAA-ATATTG
19785407 AATT
1 AATT
19785411 CTCATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 12 0.57
21 1 0.05
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (19 bp):
AATTTAACATCAAATATTG
Found at i:19786152 original size:27 final size:27
Alignment explanation
Indices: 19786117--19786171 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19786107 TGATAACCAA
19786117 TTTCTTTTATTTCCTTTTGTTTTGATT
1 TTTCTTTTATTTCCTTTTGTTTTGATT
19786144 TTTCTTTTATTTCCTTTTGTTTTGATT
1 TTTCTTTTATTTCCTTTTGTTTTGATT
19786171 T
1 T
19786172 CAACTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTCTTTTATTTCCTTTTGTTTTGATT
Found at i:19788352 original size:16 final size:17
Alignment explanation
Indices: 19788331--19788364 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
19788321 TTAGGGGTAG
19788331 AAAATAAATAG-TTAGA
1 AAAATAAATAGATTAGA
19788347 AAAATAAATAGATTAGA
1 AAAATAAATAGATTAGA
19788364 A
1 A
19788365 TGAATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAATAAATAGATTAGA
Found at i:19789341 original size:20 final size:21
Alignment explanation
Indices: 19789307--19789347 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19789297 AATAAGTAAT
19789307 TAAGTAATTAAGT-AAATAAA
1 TAAGTAATTAAGTAAAATAAA
**
19789327 TAAGTAATTTTGTAAAATAAA
1 TAAGTAATTAAGTAAAATAAA
19789348 GCCAAGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (21 bp):
TAAGTAATTAAGTAAAATAAA
Found at i:19790088 original size:30 final size:30
Alignment explanation
Indices: 19790052--19790438 Score: 367
Period size: 30 Copynumber: 12.9 Consensus size: 30
19790042 GTATATGTTT
* *
19790052 TATATATTGTCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * * *
19790082 TATATATTGCTGAATTGATTTATATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
19790112 TGTATATATAGCCGAATTGATTTGTATATGGA
1 --TATACATTGCCGAATTGATTTGTATATGGA
* * *
19790144 TATACATTGCCGAATTGAATTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * * *
19790174 TATATATTGTCGAAATGATTTGTATATGTTTACA
1 TATACATTGCCGAATTGATTTGTATATG----GA
*
19790208 TATATATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
19790238 TATACATTTCCAAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
19790268 TATACATTGCCAAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
19790298 TATACATTGCCAAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
19790328 TGTACATTGCCGAATTG---T-T-T-TGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
19790352 TA-ACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * * **
19790381 TATACATTACCAAATTGAATTT-TACATACA
1 TATACATTGCCGAATTG-ATTTGTATATGGA
* * *
19790411 TATATATTGCCGAAATGATGTGTATATG
1 TATACATTGCCGAATTGATTTGTATATG
19790439 TTTACATATA
Statistics
Matches: 299, Mismatches: 43, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
23 13 0.04
24 4 0.01
25 1 0.00
26 2 0.01
27 2 0.01
28 1 0.00
29 7 0.02
30 212 0.71
31 4 0.01
32 26 0.09
34 27 0.09
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:19790238 original size:94 final size:90
Alignment explanation
Indices: 19790052--19790377 Score: 328
Period size: 94 Copynumber: 3.6 Consensus size: 90
19790042 GTATATGTTT
* * * * * ** *
19790052 TATATATTGTCGAATTGATTTGTATATGGATATATATTGCTGAATTGATTTATATATAG-ATGTA
1 TATACATTGCCGAATTGAATTGTACATGGATATACATTGCCAAATTGATTTGTATAT-GCA--TA
*
19790116 TATATAGCCGAATTGATTTGTATATGGA
63 TATATTGCCGAATTGATTTGTATATGGA
* * *
19790144 TATACATTGCCGAATTGAATTGTACATGTATATATATTGTCGAAA-TGATTTGTATATGTTTACA
1 TATACATTGCCGAATTGAATTGTACATGGATATACATTG-CCAAATTGATTTGTATATG----CA
19790208 TATATATTGCCGAATTGATTTGTATATGGA
61 TATATATTGCCGAATTGATTTGTATATGGA
* * * * * *
19790238 TATACATTTCCAAATTGATTTGTATATGGATATACATTGCCAAATTGATTTGTATATGGATATAC
1 TATACATTGCCGAATTGAATTGTACATGGATATACATTGCCAAATTGATTTGTATATGCATATAT
*
19790303 ATTGCCAAATTGATTTGTATATGGA
66 ATTGCCGAATTGATTTGTATATGGA
* *
19790328 TGTACATTGCCGAATTG--TT-T---TGTATA-ACATTGCCAAATTGATTTGTATAT
1 TATACATTGCCGAATTGAATTGTACATGGATATACATTGCCAAATTGATTTGTATAT
19790378 AGATATACAT
Statistics
Matches: 204, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
83 24 0.12
84 5 0.02
87 1 0.00
88 2 0.01
90 43 0.21
91 1 0.00
92 45 0.22
93 7 0.03
94 75 0.37
96 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (90 bp):
TATACATTGCCGAATTGAATTGTACATGGATATACATTGCCAAATTGATTTGTATATGCATATAT
ATTGCCGAATTGATTTGTATATGGA
Found at i:19790357 original size:23 final size:23
Alignment explanation
Indices: 19790331--19790376 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19790321 ATATGGATGT
* *
19790331 ACATTGCCGAATTGTTTTGTATA
1 ACATTGCCAAATTGATTTGTATA
19790354 ACATTGCCAAATTGATTTGTATA
1 ACATTGCCAAATTGATTTGTATA
19790377 TAGATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (23 bp):
ACATTGCCAAATTGATTTGTATA
Found at i:19790420 original size:83 final size:83
Alignment explanation
Indices: 19790271--19790424 Score: 229
Period size: 83 Copynumber: 1.9 Consensus size: 83
19790261 ATATGGATAT
* * * ** *
19790271 ACATTGCCAAATTGATTTGTATATGGATATACATTGCCAAATTGATTTGTATATGGATGTACATT
1 ACATTGCCAAATTGATTTGTATATAGATATACATTACCAAATTGATTTGTACATACATATACATT
19790336 GCCGAATTGTTTTGTATA
66 GCCGAATTGTTTTGTATA
*
19790354 ACATTGCCAAATTGATTTGTATATAGATATACATTACCAAATTGAATTT-TACATACATATATAT
1 ACATTGCCAAATTGATTTGTATATAGATATACATTACCAAATTG-ATTTGTACATACATATACAT
19790418 TGCCGAA
65 TGCCGAA
19790425 ATGATGTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
83 59 0.94
84 4 0.06
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (83 bp):
ACATTGCCAAATTGATTTGTATATAGATATACATTACCAAATTGATTTGTACATACATATACATT
GCCGAATTGTTTTGTATA
Found at i:19796226 original size:11 final size:11
Alignment explanation
Indices: 19796210--19796234 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19796200 TCGAATTTTC
19796210 AGACCGTACTT
1 AGACCGTACTT
19796221 AGACCGTACTT
1 AGACCGTACTT
19796232 AGA
1 AGA
19796235 TCAATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (11 bp):
AGACCGTACTT
Found at i:19808898 original size:26 final size:26
Alignment explanation
Indices: 19808869--19808958 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
19808859 GCTTATGGCC
*
19808869 TGCTAAATAACCACCAGCTCAAGGCT
1 TGCTAAATAACCACCGGCTCAAGGCT
* * *
19808895 TGCTAAATAATCATCGGCTCATA-TCT
1 TGCTAAATAACCACCGGCTCA-AGGCT
* * *
19808921 TGCTAAAT-ATCACCGGCTTAAGGAT
1 TGCTAAATAACCACCGGCTCAAGGCT
19808946 TGCTAAATAACCA
1 TGCTAAATAACCA
19808959 ATGGCTCATA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.02
25 19 0.37
26 31 0.60
27 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (26 bp):
TGCTAAATAACCACCGGCTCAAGGCT
Found at i:19808958 original size:77 final size:78
Alignment explanation
Indices: 19808815--19809018 Score: 198
Period size: 77 Copynumber: 2.6 Consensus size: 78
19808805 ATAATAGTAC
* * * * * * **
19808815 CTGCT-AATAATTCATCGGCTTAAAGCCTACTAAAATAAACATCGGCTTATGGCCTGCTAAATAA
1 CTGCTAAATAA-TCATCAGCTCATAGCCTACT-AAATAATCACCGGCTTAAGGATTGCTAAATAA
*
19808879 CCACCAGCTCA-AGG
64 CCAACAGCTCATAGG
* * * *
19808893 CTTGCTAAATAATCATCGGCTCATATCTTGCTAAAT-ATCACCGGCTTAAGGATTGCTAAATAAC
1 C-TGCTAAATAATCATCAGCTCATAGCCTACTAAATAATCACCGGCTTAAGGATTGCTAAATAAC
** *
19808957 CAATGGCTCATAGT
65 CAACAGCTCATAGG
* *
19808971 CTGCTAATTAATCATCAGCTCATAGCCTACTAATTAATCACCGGCTTA
1 CTGCTAAATAATCATCAGCTCATAGCCTACTAAATAATCACCGGCTTA
19809019 TGGCCTGCTA
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
77 58 0.57
78 20 0.20
79 19 0.19
80 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (78 bp):
CTGCTAAATAATCATCAGCTCATAGCCTACTAAATAATCACCGGCTTAAGGATTGCTAAATAACC
AACAGCTCATAGG
Found at i:19808965 original size:51 final size:52
Alignment explanation
Indices: 19808847--19808992 Score: 145
Period size: 51 Copynumber: 2.8 Consensus size: 52
19808837 AAGCCTACTA
* * * * *
19808847 AAATAAACATCGGCTTATGGCCTGCTAAATAACCACCAGCTCAAGGCTTGCT
1 AAATAACCATCGGCTCATAGTCTGCTAAATAACCACCAGCTCAAGGATTGCT
* * * *
19808899 AAATAATCATCGGCTCATA-TCTTGCTAAAT-ATCACCGGCTTAAGGATTGCT
1 AAATAACCATCGGCTCATAGTC-TGCTAAATAACCACCAGCTCAAGGATTGCT
* * *
19808950 AAATAACCAAT-GGCTCATAGTCTGCTAATTAATCATCAGCTCA
1 AAATAACC-ATCGGCTCATAGTCTGCTAAATAACCACCAGCTCA
19808993 TAGCCTACTA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
51 40 0.52
52 37 0.48
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (52 bp):
AAATAACCATCGGCTCATAGTCTGCTAAATAACCACCAGCTCAAGGATTGCT
Found at i:19809024 original size:26 final size:26
Alignment explanation
Indices: 19808962--19809012 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
19808952 ATAACCAATG
* * *
19808962 GCTCATAGTCTGCTAATTAATCATCA
1 GCTCATAGCCTACTAATTAATCACCA
19808988 GCTCATAGCCTACTAATTAATCACC
1 GCTCATAGCCTACTAATTAATCACC
19809013 GGCTTATGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (26 bp):
GCTCATAGCCTACTAATTAATCACCA
Found at i:19812071 original size:24 final size:24
Alignment explanation
Indices: 19812020--19812095 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
19812010 GTGGATGTTC
* * * * *
19812020 AACCTTTCATCTTTCATCTCCCTC
1 AACCTTACACCTTTCATCTTCTTT
*
19812044 AACCTTCCACCTTTCATCTTCTTT
1 AACCTTACACCTTTCATCTTCTTT
* *
19812068 AACCTTAAACATTTCATCTTCTTGT
1 AACCTTACACCTTTCATCTTCTT-T
19812093 AAC
1 AAC
19812096 TAATTTCCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 39 0.91
25 4 0.09
ACGTcount: A:0.22, C:0.34, G:0.01, T:0.42
Consensus pattern (24 bp):
AACCTTACACCTTTCATCTTCTTT
Found at i:19812262 original size:17 final size:18
Alignment explanation
Indices: 19812242--19812278 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19812232 ATTTTTGTTT
*
19812242 ATAATACATATATT-ATA
1 ATAAAACATATATTAATA
19812259 ATAAAACATATATTAATA
1 ATAAAACATATATTAATA
19812277 AT
1 AT
19812279 TAAATACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAACATATATTAATA
Found at i:19813011 original size:34 final size:34
Alignment explanation
Indices: 19812973--19813044 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
19812963 CTATATAAAA
19812973 TAAAAAGCTTTTAGGACTTATTTTGGGTTTAAGT
1 TAAAAAGCTTTTAGGACTTATTTTGGGTTTAAGT
19813007 TAAAAAGCTTTTAGGACTTATTTTGGGTTTAAGT
1 TAAAAAGCTTTTAGGACTTATTTTGGGTTTAAGT
19813041 TAAA
1 TAAA
19813045 CTTGGATTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (34 bp):
TAAAAAGCTTTTAGGACTTATTTTGGGTTTAAGT
Found at i:19815486 original size:36 final size:34
Alignment explanation
Indices: 19815446--19815526 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 34
19815436 AATTTAATTT
19815446 ATATTTTATTATTTGATTCA-AATATAATCTGTAAAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
19815482 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
19815517 ATATTTTATT
1 ATATTTTATT
19815527 GTATATTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
34 1 0.03
35 14 0.35
36 16 0.40
37 9 0.22
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Found at i:19815693 original size:19 final size:18
Alignment explanation
Indices: 19815651--19815696 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
19815641 ATATAATTGT
*
19815651 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
19815669 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
19815688 AATAATTTT
1 AATAATTTT
19815697 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:19815834 original size:21 final size:21
Alignment explanation
Indices: 19815808--19815862 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
19815798 ACCGCTGTTT
* *
19815808 CTAATCTCACTGCTATAGTATC
1 CTAATCTCACCGCTACAGTA-C
19815830 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
19815850 CTAATCTCACCGC
1 CTAATCTCACCGC
19815863 CACCGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:19819460 original size:70 final size:70
Alignment explanation
Indices: 19819384--19819539 Score: 285
Period size: 70 Copynumber: 2.2 Consensus size: 70
19819374 TAATCTCATG
19819384 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTATATTTTATTACACCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTATATTTTATTACACCAAATAAACTT
19819449 CTATT
66 CTATT
* * *
19819454 TTATTACATAAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTATATTTTATTACACCAAATAAACTT
19819519 CTATT
66 CTATT
19819524 TTATTACATCAAATAA
1 TTATTACATCAAATAA
19819540 ACTTCTATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 82 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTATATTTTATTACACCAAATAAACTT
CTATT
Found at i:19819498 original size:45 final size:45
Alignment explanation
Indices: 19819438--19819619 Score: 222
Period size: 45 Copynumber: 3.9 Consensus size: 45
19819428 TTTATTACAC
*
19819438 CAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAACT
1 CAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAACT
* * ** *
19819483 CAAAAAAATTTCTATTTTATTACATCAAATAA-ACTTCTATTTTATTACAT
1 CAAAAAAACTTCTATTTTATTACATAAAATAATA--TC-A--AAATAAC-T
* *
19819533 CAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACT
1 CAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAACT
*
19819578 CAAAAAAATTTCTATTTTATTACATAAAATAATATCAAAATA
1 CAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATA
19819620 TTCAAAATAT
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 69 0.59
46 6 0.05
47 1 0.01
48 1 0.01
49 6 0.05
50 31 0.27
51 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
CAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAACT
Found at i:19819537 original size:95 final size:95
Alignment explanation
Indices: 19819425--19819609 Score: 343
Period size: 95 Copynumber: 1.9 Consensus size: 95
19819415 AAAAAATTTA
19819425 TATTTTATTACACCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTCAAAAAA
1 TATTTTATTACACCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTCAAAAAA
*
19819490 ATTTCTATTTTATTACATCAAATAAACTTC
66 ATTTCTATTTTATTACATAAAATAAACTTC
* *
19819520 TATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAA
1 TATTTTATTACACCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTCAAAAAA
19819585 ATTTCTATTTTATTACATAAAATAA
66 ATTTCTATTTTATTACATAAAATAA
19819610 TATCAAAATA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (95 bp):
TATTTTATTACACCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTCAAAAAA
ATTTCTATTTTATTACATAAAATAAACTTC
Found at i:19819562 original size:25 final size:25
Alignment explanation
Indices: 19819425--19819564 Score: 166
Period size: 25 Copynumber: 5.8 Consensus size: 25
19819415 AAAAAATTTA
*
19819425 TATTTTATTACACCAAATAAACTTC
1 TATTTTATTACATCAAATAAACTTC
*
19819450 TATTTTATTACATAAAAT-AA-TATC
1 TATTTTATTACATCAAATAAACT-TC
** * * *
19819474 -A--AAATAAC-TCAAAAAAATTTC
1 TATTTTATTACATCAAATAAACTTC
19819495 TATTTTATTACATCAAATAAACTTC
1 TATTTTATTACATCAAATAAACTTC
19819520 TATTTTATTACATCAAATAAACTTC
1 TATTTTATTACATCAAATAAACTTC
19819545 TATTTTATTACATCAAATAA
1 TATTTTATTACATCAAATAA
19819565 TATCAAAATA
Statistics
Matches: 96, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
20 4 0.04
21 8 0.08
22 2 0.02
23 2 0.02
24 8 0.08
25 72 0.75
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (25 bp):
TATTTTATTACATCAAATAAACTTC
Found at i:19824701 original size:7 final size:7
Alignment explanation
Indices: 19824689--19824714 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19824679 TTATACACAT
19824689 AATACTA
1 AATACTA
19824696 AATACTA
1 AATACTA
19824703 AATACTA
1 AATACTA
19824710 AATAC
1 AATAC
19824715 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:19825885 original size:28 final size:29
Alignment explanation
Indices: 19825830--19825884 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 29
19825820 AAAAAATTAA
19825830 AAAAATATTTTTAAAATTATTTAAAAAAC
1 AAAAATATTTTTAAAATTATTTAAAAAAC
19825859 AAAAAT-TTTTT-AAATTATTTAAAAAA
1 AAAAATATTTTTAAAATTATTTAAAAAA
19825885 AGGGAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.58
28 5 0.19
29 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAAATATTTTTAAAATTATTTAAAAAAC
Found at i:19825954 original size:11 final size:11
Alignment explanation
Indices: 19825940--19826016 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
19825930 TTAAATATGG
19825940 ATTTGAGAGAA
1 ATTTGAGAGAA
*
19825951 ATTTG-GAAGGA
1 ATTTGAG-AGAA
19825962 ATTTGAGAGCAA
1 ATTTGAGAG-AA
19825974 A-TTGAGAGGAA
1 ATTTGAGA-GAA
19825985 ATTT-AGAGGAA
1 ATTTGAGA-GAA
*
19825996 A-TTGCGAGGAA
1 ATTTGAGA-GAA
19826007 ATTTGAGAGA
1 ATTTGAGAGA
19826017 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
10 3 0.05
11 41 0.75
12 11 0.20
ACGTcount: A:0.42, C:0.03, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:19825965 original size:22 final size:22
Alignment explanation
Indices: 19825940--19826016 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
19825930 TTAAATATGG
19825940 ATTTGAGAGAAATTTGGAAGG-A
1 ATTTGAGAGAAA-TTGGAAGGAA
19825962 ATTTGAGAGCAAATT-GAGAGGAA
1 ATTTGAGAG-AAATTGGA-AGGAA
19825985 ATTT-AGAGGAAATTGCG-AGGAA
1 ATTTGAGA-GAAATTG-GAAGGAA
19826007 ATTTGAGAGA
1 ATTTGAGAGA
19826017 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
21 2 0.04
22 33 0.69
23 12 0.25
24 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGGAAGGAA
Found at i:19825995 original size:33 final size:35
Alignment explanation
Indices: 19825940--19826015 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 35
19825930 TTAAATATGG
* *
19825940 ATTTGAGA-GAAATTTGGAAGGAATTTGAGAGCAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
* *
19825974 A-TTGAGAGGAAATTTAG-AGGAAATTGCGAGGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
19826007 ATTTGAGAG
1 ATTTGAGAG
19826016 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 20 0.56
34 16 0.44
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
Found at i:19826757 original size:22 final size:22
Alignment explanation
Indices: 19826716--19826772 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
19826706 AAATAAAATA
*
19826716 AAAATATTAAA-TA-ATTTATT
1 AAAATAATAAATTATATTTATT
19826736 AAAATAATAAATTATATTTATT
1 AAAATAATAAATTATATTTATT
* * *
19826758 ATATTAATAATTTAT
1 AAAATAATAAATTAT
19826773 TATATGATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.32
21 2 0.06
22 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATAATAAATTATATTTATT
Found at i:19826811 original size:14 final size:14
Alignment explanation
Indices: 19826773--19826817 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
19826763 AATAATTTAT
19826773 TATATGATTAAATA
1 TATATGATTAAATA
* *
19826787 TAAATAATTAAATA
1 TATATGATTAAATA
* *
19826801 TATATGTTTAATTA
1 TATATGATTAAATA
19826815 TAT
1 TAT
19826818 TGAAAATATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
TATATGATTAAATA
Found at i:19826840 original size:23 final size:24
Alignment explanation
Indices: 19826796--19826841 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
19826786 ATAAATAATT
19826796 AAATATATATGTTTAATTATATTGA
1 AAATATATATGTTTAA-TATATTGA
19826821 AAATATAATAT-TTTAA-ATATT
1 AAATAT-ATATGTTTAATATATT
19826842 TTTAAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
25 11 0.55
26 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATATATATGTTTAATATATTGA
Found at i:19828077 original size:6 final size:6
Alignment explanation
Indices: 19828066--19828091 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19828056 CAAAATAAAT
19828066 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
19828092 ATGTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:19829618 original size:11 final size:11
Alignment explanation
Indices: 19829588--19829626 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
19829578 CATGATTATG
19829588 TACATAAAAGTA
1 TACATAAAA-TA
*
19829600 TCCATAAAATA
1 TACATAAAATA
19829611 TACATAAAA-A
1 TACATAAAATA
19829621 TACATA
1 TACATA
19829627 TGACAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 7 0.28
11 10 0.40
12 8 0.32
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.26
Consensus pattern (11 bp):
TACATAAAATA
Found at i:19835912 original size:87 final size:87
Alignment explanation
Indices: 19835761--19835936 Score: 280
Period size: 87 Copynumber: 2.0 Consensus size: 87
19835751 GACGAATTGG
* * *
19835761 ACACCACTTACATTTATCAATTTTTGCGTGAATAATATGCCCTAACCATTCCATATATAACACAA
1 ACACCACTTACATTTATCAATTTTCGCGTGAATAATATGCCCTAACCATTCCACACATAACACAA
*
19835826 AAAGGTAAGGTGGTAATGGACA
66 AAAGGTAAGGTGATAATGGACA
* * * *
19835848 ACACCACTTACCTTTATCAATTTTCGTGTGAATAATGTGCCCTAACCATTCCACACATAGCACAA
1 ACACCACTTACATTTATCAATTTTCGCGTGAATAATATGCCCTAACCATTCCACACATAACACAA
19835913 AAAGGTAAGGTGATAATGGACA
66 AAAGGTAAGGTGATAATGGACA
19835935 AC
1 AC
19835937 CCTGTCTGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (87 bp):
ACACCACTTACATTTATCAATTTTCGCGTGAATAATATGCCCTAACCATTCCACACATAACACAA
AAAGGTAAGGTGATAATGGACA
Found at i:19847279 original size:21 final size:22
Alignment explanation
Indices: 19847253--19847296 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19847243 AATTGTAGTT
* *
19847253 TTGTTGTTGATTGTAATT-CCC
1 TTGTTGTGGATTATAATTGCCC
19847274 TTGTTGTGGATTATAATTGCCC
1 TTGTTGTGGATTATAATTGCCC
19847296 T
1 T
19847297 GAGTAGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (22 bp):
TTGTTGTGGATTATAATTGCCC
Found at i:19857121 original size:79 final size:78
Alignment explanation
Indices: 19857019--19857242 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
19857009 GCTCCTCGTT
* *
19857019 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
19857084 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
19857099 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
19857163 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
19857177 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
19857241 GA
63 GA
19857243 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 56 0.44
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:19857136 original size:39 final size:40
Alignment explanation
Indices: 19857019--19857242 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
19857009 GCTCCTCGTT
* *
19857019 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
19857059 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
19857099 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
19857138 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
19857177 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
19857218 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19857243 CATCATTCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 77 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:19864988 original size:40 final size:39
Alignment explanation
Indices: 19864951--19865042 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
19864941 GCTACTCGTT
*
19864951 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
19864991 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
19865030 CAAATGCCTTCGG
1 CAAATGCCTTCGG
19865043 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:19865022 original size:39 final size:40
Alignment explanation
Indices: 19864932--19865095 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
19864922 CGGAATTTAA
** *
19864932 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
19864972 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19865011 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19865051 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19865091 CCGGA
1 CCGGA
19865096 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19867564 original size:49 final size:49
Alignment explanation
Indices: 19867494--19867609 Score: 187
Period size: 49 Copynumber: 2.4 Consensus size: 49
19867484 ACTTGTTGTT
* * * *
19867494 AAGATATTAATACTTAACCCAGAACTATAGATACTTTATTGATAAATAA
1 AAGATATCAATGCCTAACCCAGAACGATAGATACTTTATTGATAAATAA
*
19867543 AATATATCAATGCCTAACCCAGAACGATAGATACTTTATTGATAAATAA
1 AAGATATCAATGCCTAACCCAGAACGATAGATACTTTATTGATAAATAA
19867592 AAGATATCAATGCCTAAC
1 AAGATATCAATGCCTAAC
19867610 TTAAAAGTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (49 bp):
AAGATATCAATGCCTAACCCAGAACGATAGATACTTTATTGATAAATAA
Found at i:19867622 original size:49 final size:50
Alignment explanation
Indices: 19867494--19867625 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 50
19867484 ACTTGTTGTT
* * * *
19867494 AAGATATTAATACTTAACCCAG-AACTATAGATACTTTATTGATAAATAA
1 AAGATATCAATGCCTAACCCAGAAAGTATAGATACTTTATTGATAAATAA
* *
19867543 AATATATCAATGCCTAACCCAGAACG-ATAGATACTTTATTGATAAATAA
1 AAGATATCAATGCCTAACCCAGAAAGTATAGATACTTTATTGATAAATAA
**
19867592 AAGATATCAATGCCTAACTTA-AAAGTATAGATAC
1 AAGATATCAATGCCTAACCCAGAAAGTATAGATAC
19867626 CTTACCGATG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
48 3 0.04
49 67 0.94
50 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (50 bp):
AAGATATCAATGCCTAACCCAGAAAGTATAGATACTTTATTGATAAATAA
Found at i:19871590 original size:269 final size:269
Alignment explanation
Indices: 19871105--19871645 Score: 1010
Period size: 269 Copynumber: 2.0 Consensus size: 269
19871095 ATTGAGCATT
19871105 ATGAGACAGAGTGCTAGGTGAAGGAGACTTGTTGAGCTGAAGTTTATATAACCCATGATGCACCA
1 ATGAGACAGAGTGCTAGGTGAAGGAGACTTGTTGAGCTGAAGTTTATATAACCCATGATGCACCA
* *
19871170 ACCCTTGAAGACGCACTTCTCTGGTCCTTAAATCACGCACCCGACACTGAGTAGGAAAGAACTCA
66 ACCCTGGAAGAAGCACTTCTCTGGTCCTTAAATCACGCACCCGACACTGAGTAGGAAAGAACTCA
*
19871235 AATATTACTTGATTATCTTTAGCAAACTTTGACACAGATAATAGATTTTTAGTAATTCCTAGAAC
131 AACATTACTTGATTATCTTTAGCAAACTTTGACACAGATAATAGATTTTTAGTAATTCCTAGAAC
19871300 AAGCAGTAAAGATCACATGTACAACGGTCGAGATCTTGTGATTAACGAGGACTGCCCAGTGGCCA
196 AAGCAGTAAAGATCACATGTACAACGGTCGAGATCTTGTGATTAACGAGGACTGCCCAGTGGCCA
19871365 AAACAGGTA
261 AAACAGGTA
* *
19871374 ATGAGACAGAGTGCTAGGTGAAGGAGACTTGTTGAGCTGAAGTTTATATAACCCGTGATGCGCCA
1 ATGAGACAGAGTGCTAGGTGAAGGAGACTTGTTGAGCTGAAGTTTATATAACCCATGATGCACCA
19871439 ACCCTGGAAGAAGCACTTCTCTGGTCCTTAAATCACGCACCCGACACTGAGTAGGAAAGAACTCA
66 ACCCTGGAAGAAGCACTTCTCTGGTCCTTAAATCACGCACCCGACACTGAGTAGGAAAGAACTCA
*
19871504 AACATTACTTGATTATCTTTAGCAAACTTTGACACAGATAATAGATTTTTAGTAATTCCTGGAAC
131 AACATTACTTGATTATCTTTAGCAAACTTTGACACAGATAATAGATTTTTAGTAATTCCTAGAAC
*
19871569 AAGCAGTAAAGATCGCATGTACAACGGTCGAGATCTTGTGATTAACGAGGACTGCCCAGTGGCCA
196 AAGCAGTAAAGATCACATGTACAACGGTCGAGATCTTGTGATTAACGAGGACTGCCCAGTGGCCA
*
19871634 AAATAGGTA
261 AAACAGGTA
19871643 ATG
1 ATG
19871646 TAGAACCATT
Statistics
Matches: 264, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
269 264 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (269 bp):
ATGAGACAGAGTGCTAGGTGAAGGAGACTTGTTGAGCTGAAGTTTATATAACCCATGATGCACCA
ACCCTGGAAGAAGCACTTCTCTGGTCCTTAAATCACGCACCCGACACTGAGTAGGAAAGAACTCA
AACATTACTTGATTATCTTTAGCAAACTTTGACACAGATAATAGATTTTTAGTAATTCCTAGAAC
AAGCAGTAAAGATCACATGTACAACGGTCGAGATCTTGTGATTAACGAGGACTGCCCAGTGGCCA
AAACAGGTA
Found at i:19871851 original size:18 final size:18
Alignment explanation
Indices: 19871818--19871852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19871808 TCCAGCAGAT
* *
19871818 GGCATACTGACTTGTTGA
1 GGCATACTAACCTGTTGA
19871836 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
19871853 TGGAGAGCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGA
Found at i:19871975 original size:18 final size:18
Alignment explanation
Indices: 19871952--19871987 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19871942 GATAGGAAAA
*
19871952 CCAAGGTGTAGGTGAACT
1 CCAAGGTGTAGATGAACT
19871970 CCAAGGTGTAGATGAACT
1 CCAAGGTGTAGATGAACT
19871988 AGAACCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (18 bp):
CCAAGGTGTAGATGAACT
Found at i:19873162 original size:18 final size:15
Alignment explanation
Indices: 19873100--19873152 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
19873090 AGCTAACTTT
19873100 CTAACTGCTAACA-A
1 CTAACTGCTAACAGA
*
19873114 CTTTAC-G-TAACAGA
1 C-TAACTGCTAACAGA
*
19873128 CTAACTGCTAATAGA
1 CTAACTGCTAACAGA
19873143 CTAACTGCTA
1 CTAACTGCTA
19873153 CTAACAGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 8 0.25
14 5 0.16
15 19 0.59
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (15 bp):
CTAACTGCTAACAGA
Found at i:19873963 original size:5 final size:5
Alignment explanation
Indices: 19873953--19873982 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
19873943 TATGTTATTA
19873953 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
19873983 CTTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:19879956 original size:7 final size:7
Alignment explanation
Indices: 19879944--19879979 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
19879934 ATTGTTTTAT
19879944 TTTAATA
1 TTTAATA
19879951 TTTAATAA
1 TTTAAT-A
*
19879959 TTTTATA
1 TTTAATA
19879966 TTTAATA
1 TTTAATA
19879973 TTTAATA
1 TTTAATA
19879980 ATTTTATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAATA
Found at i:19879968 original size:15 final size:15
Alignment explanation
Indices: 19879942--19880000 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
19879932 ATATTGTTTT
19879942 ATTTTAATATTTAATA
1 ATTTT-ATATTTAATA
19879958 ATTTTATATTTAAT-
1 ATTTTATATTTAATA
* *
19879972 ATTTAATAATTTTATA
1 ATTTTAT-ATTTAATA
*
19879988 CATTTTTTATTTA
1 -ATTTTATATTTA
19880001 TTGAAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.17
15 15 0.43
16 9 0.26
17 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTATATTTAATA
Found at i:19879971 original size:22 final size:22
Alignment explanation
Indices: 19879938--19879987 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
19879928 AAATATATTG
19879938 TTTTAT-TTTAATATTTAATAA
1 TTTTATATTTAATATTTAATAA
19879959 TTTTATATTTAATATTTAATAA
1 TTTTATATTTAATATTTAATAA
19879981 TTTTATA
1 TTTTATA
19879988 CATTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTATATTTAATATTTAATAA
Found at i:19882963 original size:113 final size:113
Alignment explanation
Indices: 19882815--19883255 Score: 381
Period size: 113 Copynumber: 3.9 Consensus size: 113
19882805 TATGTTACAG
** *
19882815 TTAGTGGCGTTTAAGGGAAAACGCCGCTAAAGCATAATATTAGCGGCGTTTAGTGGGAAGCGCCG
1 TTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAATATTAGCGGCGTTT-GTGAGAAGCGCCG
* *
19882880 CAAAATATCTTAACCAAAACGTAGAGTTTGGTCTTGAGGTATACTAGAA
65 CAAAATATGTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAA
* * * * *
19882929 TTAGTGGCGCA-AAGGGAACATGCCGCTAAGGCATACTATTAGCGGCATTT-TCAGAGAAGCGCC
1 TTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAATATTAGCGGCGTTTGT--GAGAAGCGCC
* * * * * *
19882992 GCAACATTTGGTAACCAAAACGCA-ACGTTTTGTCTTGATGTATAC-AGTTA
64 GCAAAATATGTTAACCAAAACGCAGA-GTTTGGTCTTGAGGTATACTAG-AA
* **** * * * * *
19883042 TTAGTGGCGTATATCAAAAAACGCAGCTAAATCATAGTATTAGCGGCGCTTG-GCAAAAAGCGCC
1 TTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAATATTAGCGGCGTTTGTG--AGAAGCGCC
* ** * * *
19883106 GCAAAATATGTTCACCAAAACGCAGAGTTTTTTCATGAGGTATATTAGAC
64 GCAAAATATGTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAA
* * ** * * *
19883156 TTAGTGGCGCTTATGGGGGAACGCCGCTAAAGCAT-ATTTTTGCGGCGCTTTTTGAGAAGCGCCG
1 TTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAATATTAGCGGCG-TTTGTGAGAAGCGCCG
* * *
19883220 CAAAATATATTAACAAAAATGCAGAGTTTTGGTCTT
65 CAAAATATGTTAACCAAAACGCAGAG-TTTGGTCTT
19883256 AACCATGCAT
Statistics
Matches: 252, Mismatches: 62, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
111 1 0.00
112 4 0.02
113 130 0.52
114 113 0.45
115 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (113 bp):
TTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAATATTAGCGGCGTTTGTGAGAAGCGCCGC
AAAATATGTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAA
Found at i:19883339 original size:21 final size:20
Alignment explanation
Indices: 19883315--19883353 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
19883305 TTTGGTCTAT
*
19883315 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
19883336 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
19883354 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:19883382 original size:15 final size:14
Alignment explanation
Indices: 19883345--19883391 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
19883335 GGGTTTAAGG
19883345 TTTAAGG-TTATGT
1 TTTAAGGTTTATGT
*
19883358 GTTAAGGGTTTATGAT
1 TTTAA-GGTTTATG-T
*
19883374 TTTAAGGTTTATGG
1 TTTAAGGTTTATGT
19883388 TTTA
1 TTTA
19883392 CAATTTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 13 0.46
16 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (14 bp):
TTTAAGGTTTATGT
Found at i:19885650 original size:17 final size:17
Alignment explanation
Indices: 19885619--19885654 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
19885609 ACCAATTTGG
19885619 TTGGGAATTTGGGGAAT
1 TTGGGAATTTGGGGAAT
19885636 TTGGAGAATTT-GGGAAT
1 TTGG-GAATTTGGGGAAT
19885653 TT
1 TT
19885655 TTGCATGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (17 bp):
TTGGGAATTTGGGGAAT
Found at i:19885654 original size:8 final size:8
Alignment explanation
Indices: 19885619--19885654 Score: 54
Period size: 9 Copynumber: 4.2 Consensus size: 8
19885609 ACCAATTTGG
19885619 TTGGGAAT
1 TTGGGAAT
19885627 TTGGGGAAT
1 TT-GGGAAT
19885636 TTGGAGAAT
1 TTGG-GAAT
19885645 TTGGGAAT
1 TTGGGAAT
19885653 TT
1 TT
19885655 TTGCATGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 10 0.38
9 16 0.62
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (8 bp):
TTGGGAAT
Found at i:19887406 original size:9 final size:9
Alignment explanation
Indices: 19887392--19887652 Score: 272
Period size: 9 Copynumber: 29.4 Consensus size: 9
19887382 AGAGTAAGAN
19887392 AACTTACAT
1 AACTTACAT
19887401 AACTTACAT
1 AACTTACAT
19887410 AACTTACAT
1 AACTTACAT
* *
19887419 AAATTAAAT
1 AACTTACAT
*
19887428 ATCTTACAT
1 AACTTACAT
19887437 AACTTACAT
1 AACTTACAT
*
19887446 AAATTA-AGT
1 AACTTACA-T
19887455 AACTTACAT
1 AACTTACAT
19887464 AACTTACAT
1 AACTTACAT
19887473 AACTTACAT
1 AACTTACAT
* *
19887482 AAATTAAAT
1 AACTTACAT
*
19887491 ATCTTACAT
1 AACTTACAT
19887500 AACTTACAT
1 AACTTACAT
*
19887509 AAATTA-AGT
1 AACTTACA-T
19887518 AACTTACAT
1 AACTTACAT
19887527 AACTTACAT
1 AACTTACAT
* *
19887536 AAATTAAAT
1 AACTTACAT
19887545 AACTTACAT
1 AACTTACAT
19887554 AACTTACAT
1 AACTTACAT
* *
19887563 AAATGTA-GT
1 AACT-TACAT
19887572 AACTTACAT
1 AACTTACAT
19887581 AACTTACAT
1 AACTTACAT
* *
19887590 AAATGTA-GT
1 AACT-TACAT
19887599 AACTTACAT
1 AACTTACAT
19887608 AACTTACAGT
1 AACTTACA-T
19887618 -ACTTACAGT
1 AACTTACA-T
19887627 -ACTTACAT
1 AACTTACAT
19887635 AA--TACAT
1 AACTTACAT
19887642 AA--TACAT
1 AACTTACAT
19887649 AACT
1 AACT
19887653 GGCGTTTTAA
Statistics
Matches: 212, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
7 14 0.07
8 7 0.03
9 184 0.87
10 7 0.03
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:19887463 original size:63 final size:63
Alignment explanation
Indices: 19887392--19887591 Score: 312
Period size: 63 Copynumber: 3.3 Consensus size: 63
19887382 AGAGTAAGAN
19887392 AACTTACATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGT
1 AACTTACATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGT
19887455 AACTTACATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAG-
1 AACTTACATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGT
*
19887517 --------TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATGT-AGT
1 AACTTACATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAAT-TAAGT
19887572 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
19887592 ATGTAGTAAC
Statistics
Matches: 126, Mismatches: 1, Indels: 20
0.86 0.01 0.14
Matches are distributed among these distances:
54 51 0.40
55 1 0.01
63 74 0.59
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (63 bp):
AACTTACATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGT
Found at i:19892607 original size:42 final size:41
Alignment explanation
Indices: 19892548--19892775 Score: 246
Period size: 42 Copynumber: 5.4 Consensus size: 41
19892538 GTTTGTGAAA
* **
19892548 TAAGCGTCGCTAAAGAACACTACTTTTAGCGGCGTTTCTGACC
1 TAAGCGCCGCTAAAGAACA-TACTTTTAGCGGCGTTT-TTTCC
* *
19892591 -CAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACA-TACTTTTAGCGGCGTTTT-TTCC
19892633 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-ACT-TTTAGCGGCGTTTTTTCC
* * *
19892675 CAAGCGCCGCTATAGAACATTACTTTTAGCAGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACA-TACTTTTAGCGGCGTTTTTTCC
*
19892717 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACAT-ACT-TTTAGCGGCG-TTTTTTC-C
*
19892761 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
19892776 TTAGCGACGT
Statistics
Matches: 159, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.02
42 102 0.64
43 40 0.25
44 14 0.09
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACATACTTTTAGCGGCGTTTTTTCC
Found at i:19892756 original size:85 final size:85
Alignment explanation
Indices: 19892548--19892758 Score: 322
Period size: 85 Copynumber: 2.5 Consensus size: 85
19892538 GTTTGTGAAA
* * **
19892548 TAAGCGTCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTCTGACCCAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCCCAGCGCCGCTATAGAACATT
*
19892611 ACTTTTAGCGGCGTTTTCTTCC
64 ACTTTTAGCAGCGTTTTCTTCC
19892633 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCCAAGCGCCGCTATAGAACATTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCC-AGCGCCGCTATAGAACATTA
19892697 CTTTTAGCAGCGTTTT-TTCC
65 CTTTTAGCAGCGTTTTCTTCC
19892717 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
19892759 TGTAAGCGCC
Statistics
Matches: 117, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
84 45 0.38
85 71 0.61
86 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCCAGCGCCGCTATAGAACATTAC
TTTTAGCAGCGTTTTCTTCC
Found at i:19894287 original size:23 final size:23
Alignment explanation
Indices: 19894267--19894311 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19894257 AATTGTAATA
19894267 AAAAAAATAAAT-AGAGAGTAAAG
1 AAAAAAA-AAATGAGAGAGTAAAG
*
19894290 AACAAAAAAATGAGAGAGTAAA
1 AAAAAAAAAATGAGAGAGTAAA
19894312 AGAGACAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (23 bp):
AAAAAAAAAATGAGAGAGTAAAG
Found at i:19898241 original size:18 final size:18
Alignment explanation
Indices: 19898218--19898279 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
19898208 TAATAATATA
19898218 ACTTAATAATTTGATCAG
1 ACTTAATAATTTGATCAG
* * *
19898236 ACTTAAT-ATTTAATTATATA
1 ACTTAATAATTTGA-T-CA-G
19898256 ACTTAATAATTTGATCAG
1 ACTTAATAATTTGATCAG
19898274 ACTTAA
1 ACTTAA
19898280 AACAAATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.15
18 14 0.41
19 2 0.06
20 8 0.24
21 5 0.15
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (18 bp):
ACTTAATAATTTGATCAG
Found at i:19898245 original size:38 final size:38
Alignment explanation
Indices: 19898203--19898279 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
19898193 GAACCTATTG
19898203 ATATTTAATAATATAACTTAATAATTTGATCAGACTTA
1 ATATTTAATAATATAACTTAATAATTTGATCAGACTTA
*
19898241 ATATTTAATTATATAACTTAATAATTTGATCAGACTTA
1 ATATTTAATAATATAACTTAATAATTTGATCAGACTTA
19898279 A
1 A
19898280 AACAAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (38 bp):
ATATTTAATAATATAACTTAATAATTTGATCAGACTTA
Found at i:19899586 original size:26 final size:22
Alignment explanation
Indices: 19899536--19899592 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 22
19899526 ACAATCAATT
19899536 TAATTATTATTTTATTTTTTAA
1 TAATTATTATTTTATTTTTTAA
19899558 TAATTATTATTTGTAATTATCTTTAA
1 TAATTATTATTT-T-ATT-T-TTTAA
19899584 TAATTATTA
1 TAATTATTA
19899593 CTTACATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 12 0.39
23 1 0.03
24 3 0.10
25 1 0.03
26 14 0.45
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TAATTATTATTTTATTTTTTAA
Found at i:19905979 original size:15 final size:15
Alignment explanation
Indices: 19905959--19905988 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19905949 AAAGGCAAAT
*
19905959 GAAATCCTTTGTTTG
1 GAAATCCATTGTTTG
19905974 GAAATCCATTGTTTG
1 GAAATCCATTGTTTG
19905989 CAGGCTCGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (15 bp):
GAAATCCATTGTTTG
Found at i:19913587 original size:27 final size:27
Alignment explanation
Indices: 19913551--19913622 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
19913541 TTTTTCTCCA
*
19913551 ATAAATTTTTGAGT-ATTTTACCCACTG
1 ATAAAATTTTGAGTAATTTTACCCAC-G
* *
19913578 ATAAAATTTTGA-TAATTTTACTCTCG
1 ATAAAATTTTGAGTAATTTTACCCACG
* *
19913604 GTAAAATTTTGAGAAATTT
1 ATAAAATTTTGAGTAATTT
19913623 CATTCCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 13 0.34
27 25 0.66
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (27 bp):
ATAAAATTTTGAGTAATTTTACCCACG
Found at i:19919927 original size:9 final size:9
Alignment explanation
Indices: 19919876--19919952 Score: 66
Period size: 9 Copynumber: 8.4 Consensus size: 9
19919866 CCAATTCTAA
*
19919876 AAAAAATAA
1 AAAAAATAT
19919885 AAAAAATAT
1 AAAAAATAT
* *
19919894 GAAAATACAT
1 -AAAAAATAT
* *
19919904 AAATATTAT
1 AAAAAATAT
*
19919913 ACAAAATAT
1 AAAAAATAT
*
19919922 AAAAAATTT
1 AAAAAATAT
19919931 AAAAAATAT
1 AAAAAATAT
19919940 ATAAAAATA-
1 A-AAAAATAT
19919949 AAAA
1 AAAA
19919953 TTAATTGTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
8 3 0.06
9 36 0.68
10 14 0.26
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:19920000 original size:27 final size:27
Alignment explanation
Indices: 19919970--19920066 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
19919960 TTGAACAGAA
19919970 ATAATAATA-TATAAAATTTTAAAATAT
1 ATAATAATACT-TAAAATTTTAAAATAT
*
19919997 ATAA-AATACTTAAATATTTTTAAAAAAAT
1 ATAATAATACTTAAA-A-TTTT-AAAATAT
* * *
19920026 ATAATAATA-GTAATAAATTTAAAATTT
1 ATAATAATACTTAA-AATTTTAAAATAT
*
19920053 ATATTAATA-TTAAA
1 ATAATAATACTTAAA
19920067 TAAAAATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
26 9 0.16
27 22 0.39
28 7 0.12
29 14 0.25
30 5 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (27 bp):
ATAATAATACTTAAAATTTTAAAATAT
Found at i:19920013 original size:17 final size:17
Alignment explanation
Indices: 19919975--19920010 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19919965 CAGAAATAAT
*
19919975 AATATATAAAATTTTAA
1 AATATATAAAATCTTAA
19919992 AATATATAAAATACTTAA
1 AATATATAAAAT-CTTAA
19920010 A
1 A
19920011 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATATAAAATCTTAA
Found at i:19920306 original size:33 final size:32
Alignment explanation
Indices: 19920269--19920333 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
19920259 TCTTGTCAAA
19920269 AAAATATATT-TAAATTTATTATTATATTT-TTTG
1 AAAATAT-TTATAAATTT-TTA-TATATTTCTTTG
*
19920302 AAAATATTTATATATTTTTATATATTTCTTTG
1 AAAATATTTATAAATTTTTATATATTTCTTTG
19920334 TATTTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 7 0.24
32 9 0.31
33 13 0.45
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (32 bp):
AAAATATTTATAAATTTTTATATATTTCTTTG
Found at i:19920326 original size:31 final size:32
Alignment explanation
Indices: 19920274--19920333 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
19920264 TCAAAAAAAT
19920274 ATATTTAAATTTATTATTATATTT-TTTGAAA
1 ATATTTAAATTTATTATTATATTTCTTTGAAA
19920305 ATATTTATATATTT-TTA-TATATTTCTTTG
1 ATATTTA-A-ATTTATTATTATATTTCTTTG
19920334 TATTTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 14 0.54
32 8 0.31
33 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (32 bp):
ATATTTAAATTTATTATTATATTTCTTTGAAA
Found at i:19921406 original size:23 final size:23
Alignment explanation
Indices: 19921380--19921428 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
19921370 AATAACTTTT
*
19921380 AATTTTAAATA-TAAATATAAAAA
1 AATTTAAAATAGTAAA-ATAAAAA
19921403 AA-TTAAAATAGTTAAAATAAAAA
1 AATTTAAAATAG-TAAAATAAAAA
19921426 AAT
1 AAT
19921429 ATATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
22 7 0.32
23 11 0.50
24 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AATTTAAAATAGTAAAATAAAAA
Found at i:19929339 original size:27 final size:27
Alignment explanation
Indices: 19929291--19929355 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
19929281 CAATCTAATT
*
19929291 AGAGTATGCAACAAAAGCGATCCATTC
1 AGAGTATGCCACAAAAGCGATCCATTC
* * *
19929318 AGAGTATGCCACATAGGTGATCCATTC
1 AGAGTATGCCACAAAAGCGATCCATTC
* *
19929345 AAAGTACGCCA
1 AGAGTATGCCA
19929356 AGAAGGCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (27 bp):
AGAGTATGCCACAAAAGCGATCCATTC
Found at i:19938037 original size:25 final size:24
Alignment explanation
Indices: 19937976--19938039 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
19937966 CTATTTCCTG
*
19937976 TTTTAAATTTTGTTAGTTTTTTTA
1 TTTTAATTTTTGTTAGTTTTTTTA
**
19938000 TTTTTTTTATTTGCTTA-TTTTTTTA
1 TTTTAATT-TTTG-TTAGTTTTTTTA
19938025 TTATTAATTTTTGTT
1 TT-TTAATTTTTGTT
19938040 GTGTTTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 7 0.22
25 18 0.56
26 7 0.22
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTAATTTTTGTTAGTTTTTTTA
Found at i:19947430 original size:20 final size:20
Alignment explanation
Indices: 19947405--19947446 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19947395 CATCCCTTTG
* *
19947405 TTGCTTATCTTCCAACTTCA
1 TTGCTTATCCTCCAACCTCA
*
19947425 TTGCTTGTCCTCCAACCTCA
1 TTGCTTATCCTCCAACCTCA
19947445 TT
1 TT
19947447 AGAAATGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.33, G:0.07, T:0.43
Consensus pattern (20 bp):
TTGCTTATCCTCCAACCTCA
Found at i:19962658 original size:37 final size:36
Alignment explanation
Indices: 19962518--19962659 Score: 110
Period size: 37 Copynumber: 3.8 Consensus size: 36
19962508 TTATCGAGTC
* ** *
19962518 AAATCTTACTGTTATATTGAATGAAGCTCAATCGAGT
1 AAAT-TTACTGTTATATTGAATGAAGTTCAATTTAGA
* * *
19962555 AAATTATACTGTTATATTGAATGCAG-CCTAA-TTAAA
1 AAATT-TACTGTTATATTGAATGAAGTTC-AATTTAGA
**
19962591 CAAATATTACCATTATATTGAAT-AATGTTCAATTTAGA
1 -AAAT-TTACTGTTATATTGAATGAA-GTTCAATTTAGA
*
19962629 AAATTCTACTGTTATATTGAGTGAAGTTCAA
1 AAATT-TACTGTTATATTGAATGAAGTTCAA
19962660 ATGAATAGAA
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
36 5 0.06
37 69 0.84
38 8 0.10
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (36 bp):
AAATTTACTGTTATATTGAATGAAGTTCAATTTAGA
Found at i:19967056 original size:126 final size:126
Alignment explanation
Indices: 19966751--19967194 Score: 728
Period size: 126 Copynumber: 3.5 Consensus size: 126
19966741 GATAAAATCA
* * *
19966751 AAGCAGGATGCTTTATCAGAAGAATTTTTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAAAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* *
19966816 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTC
* * ** * *
19966876 AAGTAGGATGCTTTATCAGAAGAATTTCTAAAATCGTGCCCACGTAGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAAAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
19966941 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTC
* **
19967002 AAGCAGGATGCTTTATCAGAAAAATTTCTGAAATCACGCCTTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAAAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
19967067 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTC
* **
19967128 AAGCAGGATGCTTTATCAGAAAAATTTCTGAAATCACGCCTTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAAAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
19967193 AG
66 AG
19967195 CATGTTTGGG
Statistics
Matches: 302, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
125 107 0.35
126 195 0.65
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (126 bp):
AAGCAGGATGCTTTATCAGAAAAATTTCTAAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTC
Found at i:19969317 original size:51 final size:51
Alignment explanation
Indices: 19969249--19969346 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
19969239 AAATAATTAA
19969249 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATT
* * *
19969300 AAATATGGATTTTAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGA
19969347 GAAAATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATT
Found at i:19969561 original size:40 final size:40
Alignment explanation
Indices: 19969489--19969567 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
19969479 CAGGGGCGTG
* * *
19969489 CTACGTGGCAGCAAAACGTGTCCACGTCAGCGCACTTTGC
1 CTACGTGGCAACAAAACGCGTCCACGTAAGCGCACTTTGC
* * *
19969529 CTACGTGGCAACAAAGCGCGTCTACGTAAGCGCGCTTTG
1 CTACGTGGCAACAAAACGCGTCCACGTAAGCGCACTTTG
19969568 TTGCCACGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (40 bp):
CTACGTGGCAACAAAACGCGTCCACGTAAGCGCACTTTGC
Found at i:19976395 original size:12 final size:12
Alignment explanation
Indices: 19976380--19976404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19976370 TAAATCGAGC
19976380 TATAAATATTTT
1 TATAAATATTTT
19976392 TATAAATATTTT
1 TATAAATATTTT
19976404 T
1 T
19976405 GGAGTGTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAAATATTTT
Found at i:19977610 original size:87 final size:87
Alignment explanation
Indices: 19977514--19977733 Score: 282
Period size: 87 Copynumber: 2.5 Consensus size: 87
19977504 GACCATCAAA
* *
19977514 TATGAAAAGGGATGGTGATGACCATAGAATATGAAAAGGGATGGTGGTAACCATTGAA-TATGAA
1 TATGAAAAGGGATGGTGACGACCATAGAATATGAAAAGGGATGGTGGTAACCA-TCAATTATGAA
* *
19977578 AAGGGATAGCTTTGGCTATCGAT
65 AAGGGATAGCTTCGGATATCGAT
* * * ** *
19977601 TATGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCT-TTGGCTATCAATTATGAA
1 TATGAAAAGGGATGGTGACGACCATAGAATATGAAAAGGGAT-GGTGGTAACCATCAATTATGAA
19977665 AAGGGATAGCTTCGGATATCGAT
65 AAGGGATAGCTTCGGATATCGAT
* * * *
19977688 TATAAAAAGGGATGGTAACGACCATAAAATATCAAAAGGGATGGTG
1 TATGAAAAGGGATGGTGACGACCATAGAATATGAAAAGGGATGGTG
19977734 ACGACCATCG
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
86 5 0.04
87 107 0.94
88 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (87 bp):
TATGAAAAGGGATGGTGACGACCATAGAATATGAAAAGGGATGGTGGTAACCATCAATTATGAAA
AGGGATAGCTTCGGATATCGAT
Found at i:19977647 original size:58 final size:58
Alignment explanation
Indices: 19977460--19977671 Score: 266
Period size: 58 Copynumber: 3.7 Consensus size: 58
19977450 TCGACTAATA
* * * **
19977460 AAAAGGGATAGCTTCGGGTATCGATTATGAAAAGGGATGATGAAGACCATCAAATATG
1 AAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGAAGACCATTGAATATG
* * * * * * *
19977518 AAAAGGGAT-GGTGATGACCATAGAATATGAAAAGGGATGGTGGTA-ACCATTGAATATG
1 AAAAGGGATAGCT-TTGGCTATCGATTATGAAAAGGGATGGT-GAAGACCATTGAATATG
*
19977576 AAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATTGAATATG
1 AAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGAAGACCATTGAATATG
*
19977634 AAAAGGGATAGCTTTGGCTATCAATTATGAAAAGGGAT
1 AAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGAT
19977672 AGCTTCGGAT
Statistics
Matches: 129, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
57 3 0.02
58 122 0.95
59 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (58 bp):
AAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGAAGACCATTGAATATG
Found at i:19977777 original size:59 final size:58
Alignment explanation
Indices: 19977485--19977802 Score: 234
Period size: 58 Copynumber: 5.5 Consensus size: 58
19977475 GGGTATCGAT
* * * * *
19977485 TATGAAAAGGGATGATGAAGACCATCAAATATGAAAAGGGATGGTGAT-GACCAT-AGAA
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGT-TTCGACCATCA-AA
*** * * * * * * *
19977543 TATGAAAAGGGATGGTGGTAACCATTGAATATGAAAAGGGATAGCTTT-GGCTATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGAT-GGTTTCGACCATCAAA
* * * * * *
19977601 TATGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCTTT-GGCTATCAAT
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGAT-GGTTTCGACCATCAAA
* * * * ** *
19977659 TATGAAAAGGGATAGCT-TCGGA-TATCGATTATAAAAAGGGATGGTAACGACCATAAAA
1 TATGAAAAGGGAT-GGTGAC-GACCATCGATTATGAAAAGGGATGGTTTCGACCATCAAA
* *
19977717 TATCAAAAGGGATGGTGACGACCATCGATTAATGAAATGGGATGGTTTCGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCGATT-ATGAAAAGGGATGGTTTCGACCATCAAA
** *
19977776 TATGAAAAGGGACAGTTACGACCATCG
1 TATGAAAAGGGATGGTGACGACCATCG
19977803 TTTAGTACAT
Statistics
Matches: 210, Mismatches: 42, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
57 6 0.03
58 152 0.72
59 52 0.25
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCATCAAA
Found at i:19977797 original size:29 final size:29
Alignment explanation
Indices: 19977485--19977801 Score: 189
Period size: 29 Copynumber: 10.9 Consensus size: 29
19977475 GGGTATCGAT
* * *
19977485 TATGAAAAGGGATGATGAAGACCATCAAA
1 TATGAAAAGGGATGGTTACGACCATCAAA
* *
19977514 TATGAAAAGGGATGGTGATGACCAT-AGAA
1 TATGAAAAGGGATGGTTACGACCATCA-AA
**
19977543 TATGAAAAGGGATGGTGGTA--ACCATTGAA
1 TATGAAAAGGGATGGT--TACGACCATCAAA
* * * * * *
19977572 TATGAAAAGGGATAGCTT-TGGCTATCGAT
1 TATGAAAAGGGAT-GGTTACGACCATCAAA
* **
19977601 TATGAAAAGGGATGGTGACGACCATTGAA
1 TATGAAAAGGGATGGTTACGACCATCAAA
* * * * *
19977630 TATGAAAAGGGATAGCTT-TGGCTATCAAT
1 TATGAAAAGGGAT-GGTTACGACCATCAAA
* * * *
19977659 TATGAAAAGGGATAGCTT-CGGA-TATCGAT
1 TATGAAAAGGGAT-GGTTAC-GACCATCAAA
* * *
19977688 TATAAAAAGGGATGGTAACGACCATAAAA
1 TATGAAAAGGGATGGTTACGACCATCAAA
* * * *
19977717 TATCAAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTTACGACCATCAAA
* *
19977746 TAATGAAATGGGATGGTTTCGACCATCAAA
1 T-ATGAAAAGGGATGGTTACGACCATCAAA
**
19977776 TATGAAAAGGGACAGTTACGACCATC
1 TATGAAAAGGGATGGTTACGACCATC
19977802 GTTTAGTACA
Statistics
Matches: 226, Mismatches: 49, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
28 8 0.04
29 189 0.84
30 28 0.12
31 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTACGACCATCAAA
Found at i:19982854 original size:8 final size:8
Alignment explanation
Indices: 19982841--19982871 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
19982831 TATAATCCAT
19982841 AATAATAA
1 AATAATAA
19982849 AATAATAA
1 AATAATAA
19982857 AATAATAA
1 AATAATAA
19982865 AATAATA
1 AATAATA
19982872 TCATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:19986670 original size:25 final size:25
Alignment explanation
Indices: 19986630--19986681 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
19986620 TAGGCTCAAG
* *
19986630 GCTTGATAATATACACCGGCACAAA
1 GCTTGATAATAGACACCGACACAAA
*
19986655 GCTTGATTATAGACACCGACACAAA
1 GCTTGATAATAGACACCGACACAAA
19986680 GC
1 GC
19986682 CTACTAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (25 bp):
GCTTGATAATAGACACCGACACAAA
Found at i:19986719 original size:41 final size:41
Alignment explanation
Indices: 19986651--19986730 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
19986641 TACACCGGCA
*
19986651 CAAAGCTTGATTATAGACACCGACACAAAGCCTACTAGGAG
1 CAAAGCTTGATTATAGAAACCGACACAAAGCCTACTAGGAG
* ** *
19986692 CAAAGCTTGATTATATAAATTGGCACAAAGCCTACTAGG
1 CAAAGCTTGATTATAGAAACCGACACAAAGCCTACTAGG
19986731 CACCAAGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (41 bp):
CAAAGCTTGATTATAGAAACCGACACAAAGCCTACTAGGAG
Done.