Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 99 of 109
Found at i:19802394 original size:2 final size:2
Alignment explanation
Indices: 19802387--19802414 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19802377 AGCAATTCAT
19802387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19802415 GAAGTTGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19803563 original size:5 final size:5
Alignment explanation
Indices: 19803553--19803579 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19803543 AGGACCACAT
19803553 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
19803580 ATCATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:19811728 original size:2 final size:2
Alignment explanation
Indices: 19811721--19811752 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19811711 ATTGTTTTTC
19811721 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19811753 TCTTCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19812035 original size:22 final size:23
Alignment explanation
Indices: 19811990--19812036 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19811980 AAAATTTAAA
19811990 TCATATTATATTCATATCATTTAT
1 TCATATTATATTCATATCA-TTAT
* *
19812014 TCATATTATTTTTATATC-TTAT
1 TCATATTATATTCATATCATTAT
19812036 T
1 T
19812037 ATTATATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
24 16 0.76
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.60
Consensus pattern (23 bp):
TCATATTATATTCATATCATTAT
Found at i:19814910 original size:20 final size:22
Alignment explanation
Indices: 19814863--19814914 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
19814853 TATATCCTCT
19814863 TTCTT-TTTTTTATATCTAAAA
1 TTCTTATTTTTTATATCTAAAA
*
19814884 TTCTTATTTTTTATATTTAAAA
1 TTCTTATTTTTTATATCTAAAA
19814906 -T-TTATTTTT
1 TTCTTATTTTT
19814915 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.28
21 6 0.21
22 15 0.52
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTATTTTTTATATCTAAAA
Found at i:19816909 original size:22 final size:25
Alignment explanation
Indices: 19816875--19816919 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
19816865 TATATATGTA
*
19816875 ATATTAATATTT-GTTAATTTTTAT
1 ATATTAATATTTGGTAAATTTTTAT
19816899 ATATT-AT-TTTGGTAAATTTTT
1 ATATTAATATTTGGTAAATTTTT
19816920 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 11 0.58
24 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (25 bp):
ATATTAATATTTGGTAAATTTTTAT
Found at i:19817004 original size:15 final size:13
Alignment explanation
Indices: 19816976--19817000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19816966 TATGTACCTT
19816976 ATATATTAATTTA
1 ATATATTAATTTA
19816989 ATATATTAATTT
1 ATATATTAATTT
19817001 TTAAAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATTAATTTA
Found at i:19844322 original size:45 final size:48
Alignment explanation
Indices: 19844273--19844417 Score: 149
Period size: 45 Copynumber: 3.1 Consensus size: 48
19844263 AACATAATTT
*
19844273 TATTTATAAATAATATTATATTAATAAATATATAATAAT-AT-AAT-A
1 TATTTATAAATAATATTATATAAATAAATATATAATAATAATGAATAA
* * *
19844318 TATTTA-ATAATAATAGTATATAAATAAATATATATTATTAATGAATAA
1 TATTTATA-AATAATATTATATAAATAAATATATAATAATAATGAATAA
* * *
19844366 TATTAATAAATAATATTA-AGAAAT-AATATTATAATATATTAATAAATAA
1 TATTTATAAATAATATTATATAAATAAATA-TATAATA-A-TAATGAATAA
19844415 TAT
1 TAT
19844418 AAAGAATAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 33 0.40
46 6 0.07
47 14 0.17
48 15 0.18
49 13 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (48 bp):
TATTTATAAATAATATTATATAAATAAATATATAATAATAATGAATAA
Found at i:19844371 original size:13 final size:13
Alignment explanation
Indices: 19844353--19844428 Score: 81
Period size: 13 Copynumber: 6.2 Consensus size: 13
19844343 AAATATATAT
19844353 TATTAATGAATAA
1 TATTAATGAATAA
*
19844366 TATTAATAAATAA
1 TATTAATGAATAA
19844379 TATTAA-GAAATAA
1 TATTAATG-AATAA
19844392 TATT-AT-AAT-A
1 TATTAATGAATAA
*
19844402 TATTAATAAATAA
1 TATTAATGAATAA
*
19844415 TA-TAAAGAATAA
1 TATTAATGAATAA
19844427 TA
1 TA
19844429 AATAATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
10 5 0.09
11 5 0.09
12 14 0.26
13 30 0.56
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (13 bp):
TATTAATGAATAA
Found at i:19844404 original size:23 final size:26
Alignment explanation
Indices: 19844353--19844428 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 26
19844343 AAATATATAT
* *
19844353 TATTAATGAATAATATTAATAAATAA
1 TATTAATAAATAATATTAAGAAATAA
* *
19844379 TATTAAGAAATAATATT-A-TAAT-A
1 TATTAATAAATAATATTAAGAAATAA
*
19844402 TATTAATAAATAATATAAAG-AATAA
1 TATTAATAAATAATATTAAGAAATAA
19844427 TA
1 TA
19844429 AATAATTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.38
24 7 0.17
25 4 0.10
26 15 0.36
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
TATTAATAAATAATATTAAGAAATAA
Found at i:19844520 original size:16 final size:15
Alignment explanation
Indices: 19844490--19844542 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
19844480 TTATTATTAA
* *
19844490 AATATAATTATTTTT
1 AATATAAATAATTTT
*
19844505 GAATATTAATAATTTT
1 -AATATAAATAATTTT
19844521 AATAATAAATAATTTT
1 AAT-ATAAATAATTTT
19844537 AATATA
1 AATATA
19844543 TTTCAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 6 0.19
16 26 0.81
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATAAATAATTTT
Found at i:19844524 original size:9 final size:9
Alignment explanation
Indices: 19844510--19844579 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
19844500 TTTTTGAATA
19844510 TTAATAATT
1 TTAATAATT
19844519 TTAATAA--
1 TTAATAATT
*
19844526 TAAATAATT
1 TTAATAATT
19844535 TTAATATATT
1 TTAATA-ATT
*
19844545 TCAATAA--
1 TTAATAATT
*
19844552 TAAATAATTT
1 TTAATAA-TT
19844562 TTAA-AATT
1 TTAATAATT
*
19844570 TTAAAAATT
1 TTAATAATT
19844579 T
1 T
19844580 ATATTAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
7 12 0.24
8 6 0.12
9 20 0.41
10 11 0.22
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAATAATT
Found at i:19844545 original size:26 final size:25
Alignment explanation
Indices: 19844510--19844570 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
19844500 TTTTTGAATA
*
19844510 TTAATAATTTTAATAATAAATAATT
1 TTAATAATTTCAATAATAAATAATT
19844535 TTAATATATTTCAATAATAAATAATTT
1 TTAATA-ATTTCAATAATAAATAA-TT
19844562 TTAA-AATTT
1 TTAATAATTT
19844571 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 10 0.30
26 17 0.52
27 6 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATAATTTCAATAATAAATAATT
Found at i:19847365 original size:21 final size:22
Alignment explanation
Indices: 19847320--19847371 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
19847310 CCCGAAATTA
19847320 ATAAAATATTATTTTTTAAAGT
1 ATAAAATATTATTTTTTAAAGT
19847342 ATAAAATATTATTTTTTAAA-T
1 ATAAAATATTATTTTTTAAAGT
19847363 AT-AAATATT
1 ATAAAATATT
19847372 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 20 0.67
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAGT
Found at i:19849408 original size:13 final size:14
Alignment explanation
Indices: 19849390--19849423 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19849380 ATCAAAAAAT
19849390 AAATAAATT-TAAA
1 AAATAAATTATAAA
19849403 AAATAAATTATAAA
1 AAATAAATTATAAA
*
19849417 ATATAAA
1 AAATAAA
19849424 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAAATTATAAA
Found at i:19849503 original size:2 final size:2
Alignment explanation
Indices: 19849498--19849524 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19849488 AGAGAAGGAG
19849498 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19849525 TACATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19863662 original size:2 final size:2
Alignment explanation
Indices: 19863655--19863683 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19863645 CAGGTCGTTT
19863655 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19863684 TTATTTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19869072 original size:9 final size:8
Alignment explanation
Indices: 19869057--19869090 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
19869047 TCAAGTTGGG
19869057 ATTATTTT
1 ATTATTTT
19869065 ATTTATTTT
1 A-TTATTTT
19869074 ATTATTATT
1 ATTATT-TT
19869083 ATTATTTT
1 ATTATTTT
19869091 TTTGCAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTATTTT
Found at i:19869079 original size:17 final size:17
Alignment explanation
Indices: 19869057--19869090 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19869047 TCAAGTTGGG
19869057 ATTATT-TTATTTATTTT
1 ATTATTATTA-TTATTTT
19869074 ATTATTATTATTATTTT
1 ATTATTATTATTATTTT
19869091 TTTGCAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTATTATTATTATTTT
Found at i:19871676 original size:2 final size:2
Alignment explanation
Indices: 19871671--19871696 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19871661 AATTAAAAGA
19871671 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19871697 CATTGAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19876713 original size:29 final size:29
Alignment explanation
Indices: 19876669--19876758 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
19876659 CCTCATAAGA
*
19876669 GTATTGGGGTTTTACGTCTTATGGGTGTT
1 GTATTGGGGTTCTACGTCTTATGGGTGTT
19876698 GTATTGGGGTTCTACGTCTTATGGGTGTT
1 GTATTGGGGTTCTACGTCTTATGGGTGTT
19876727 GTATTGGGGTTCTACGTCTTATGGGTG-T
1 GTATTGGGGTTCTACGTCTTATGGGTGTT
19876755 GTAT
1 GTAT
19876759 GTTTGTTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
28 5 0.08
29 55 0.92
ACGTcount: A:0.11, C:0.09, G:0.34, T:0.46
Consensus pattern (29 bp):
GTATTGGGGTTCTACGTCTTATGGGTGTT
Found at i:19877223 original size:17 final size:18
Alignment explanation
Indices: 19877183--19877223 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
19877173 ATCAAATTAA
*
19877183 TTCTTTTATTTTTTTCAG
1 TTCTTTTATTTTCTTCAG
*
19877201 TT-TTTTA-TTTCTTCAT
1 TTCTTTTATTTTCTTCAG
19877217 TTCTTTT
1 TTCTTTT
19877224 TCTTTTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (18 bp):
TTCTTTTATTTTCTTCAG
Found at i:19877912 original size:19 final size:19
Alignment explanation
Indices: 19877890--19877926 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
19877880 GAGAAAGGGA
19877890 AGAAAAA-AATGAAAAGAAT
1 AGAAAAAGAA-GAAAAGAAT
19877909 AGAAAAAGAAGAAAAGAA
1 AGAAAAAGAAGAAAAGAA
19877927 AAAATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (19 bp):
AGAAAAAGAAGAAAAGAAT
Found at i:19880387 original size:15 final size:15
Alignment explanation
Indices: 19880364--19880394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19880354 AGTTCGGTTA
*
19880364 ATTTTAAATTAAATT
1 ATTTAAAATTAAATT
19880379 ATTTAAAATTAAATT
1 ATTTAAAATTAAATT
19880394 A
1 A
19880395 ATCAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAAATTAAATT
Found at i:19893863 original size:17 final size:18
Alignment explanation
Indices: 19893841--19893879 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
19893831 TGGATTGGGA
*
19893841 TATATTTTTATTT-ATTT
1 TATATTTTAATTTAATTT
19893858 TATA-TTTAATTTAATTT
1 TATATTTTAATTTAATTT
19893875 TATAT
1 TATAT
19893880 ATAATATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTAATTTAATTT
Found at i:19893884 original size:17 final size:16
Alignment explanation
Indices: 19893850--19893884 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19893840 ATATATTTTT
*
19893850 ATTTATTTTATATTTA
1 ATTTATTTTATATATA
19893866 ATTTAATTTTATATATA
1 ATTT-ATTTTATATATA
19893883 AT
1 AT
19893885 ATTTGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTATTTTATATATA
Found at i:19894034 original size:18 final size:19
Alignment explanation
Indices: 19893986--19894036 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
19893976 TAATTTAAAA
19893986 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
19894004 TTAAATATAAAATATTA-TTT
1 TT-AATAT-AAATATTATTTT
19894024 TTAATATAAATAT
1 TTAATATAAATAT
19894037 AAAATTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 5 0.17
21 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:19894041 original size:25 final size:21
Alignment explanation
Indices: 19893989--19894033 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
19893979 TTTAAAATTA
19893989 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19894010 ATAAAATATTA-TTTTT-AAT
1 ATAAAATATTATTTTTTAAAT
19894029 ATAAA
1 ATAAA
19894034 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:19897305 original size:21 final size:23
Alignment explanation
Indices: 19897279--19897331 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
19897269 ATTATATATT
19897279 TAAATATTTT-TA-TTTAAAAAA
1 TAAATATTTTATATTTTAAAAAA
19897300 TAAATATTTTATATTTTTAAAAAA
1 TAAATATTTTATA-TTTTAAAAAA
19897324 T-AATATTT
1 TAAATATTT
19897332 AATTAATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.34
22 2 0.07
23 7 0.24
24 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATATTTTATATTTTAAAAAA
Found at i:19898422 original size:2 final size:2
Alignment explanation
Indices: 19898415--19898444 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19898405 TTAGTCGCAC
19898415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19898445 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19906022 original size:17 final size:18
Alignment explanation
Indices: 19906000--19906038 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
19905990 TGGATTGGGA
*
19906000 TATATTTTTATTT-ATTT
1 TATATTTTAATTTAATTT
19906017 TATA-TTTAATTTAATTT
1 TATATTTTAATTTAATTT
19906034 TATAT
1 TATAT
19906039 ATAATATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTAATTTAATTT
Found at i:19906043 original size:17 final size:16
Alignment explanation
Indices: 19906009--19906043 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19905999 ATATATTTTT
*
19906009 ATTTATTTTATATTTA
1 ATTTATTTTATATATA
19906025 ATTTAATTTTATATATA
1 ATTT-ATTTTATATATA
19906042 AT
1 AT
19906044 ATTTGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTATTTTATATATA
Found at i:19906603 original size:20 final size:20
Alignment explanation
Indices: 19906566--19906604 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19906556 ATATATATGT
*
19906566 AATAAATAAATTTTTTATTA
1 AATAAATAAATTTATTATTA
19906586 AATAATATAAA-TTATTATT
1 AATAA-ATAAATTTATTATT
19906605 TTATATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAAATAAATTTATTATTA
Found at i:19906613 original size:27 final size:24
Alignment explanation
Indices: 19906567--19906645 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 24
19906557 TATATATGTA
*
19906567 ATAAATAAATTTTTTATTAAATAAT
1 ATAAATATA-TTTTTATTAAATAAT
* *
19906592 ATAAATTATTATTTTATATTAATTAAA
1 ATAAA-TA-TATTTT-TATTAAATAAT
* *
19906619 ATTAATATATTTTTATTAAAAAAT
1 ATAAATATATTTTTATTAAATAAT
19906643 ATA
1 ATA
19906646 TGTTAATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
24 10 0.23
25 11 0.26
26 8 0.19
27 14 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATAAATATATTTTTATTAAATAAT
Found at i:19908153 original size:14 final size:14
Alignment explanation
Indices: 19908134--19908160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19908124 CTAAAATAAC
19908134 TTAAATTTGATAGT
1 TTAAATTTGATAGT
19908148 TTAAATTTGATAG
1 TTAAATTTGATAG
19908161 GATAATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
TTAAATTTGATAGT
Found at i:19910388 original size:2 final size:2
Alignment explanation
Indices: 19910381--19910412 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19910371 TTAGTCGCAC
19910381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19910413 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19911948 original size:2 final size:2
Alignment explanation
Indices: 19911941--19911966 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19911931 AGTTAGATGG
19911941 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19911967 TTAACACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19919228 original size:3 final size:3
Alignment explanation
Indices: 19919220--19919284 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
19919210 TTTCATTTTC
*
19919220 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TGT CATC A-T ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T -ATT ATT ATT ATT ATT
*
19919264 TTT ATT AATT -TT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT
19919285 TACATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
2 6 0.12
3 41 0.80
4 3 0.06
5 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19920060 original size:15 final size:15
Alignment explanation
Indices: 19920040--19920100 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 15
19920030 CTCCAAGAGC
19920040 TATGATTTTTGTTTT
1 TATGATTTTTGTTTT
*
19920055 TATGATGTTTGTTTT
1 TATGATTTTTGTTTT
**
19920070 TATTTTTTTTATGTGTGTT
1 TA-TGATTTT-TGT-T-TT
19920089 TATGATTTTTGT
1 TATGATTTTTGT
19920101 GGGTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 16 0.44
16 4 0.11
17 6 0.17
18 6 0.17
19 4 0.11
ACGTcount: A:0.13, C:0.00, G:0.16, T:0.70
Consensus pattern (15 bp):
TATGATTTTTGTTTT
Found at i:19920083 original size:21 final size:21
Alignment explanation
Indices: 19920045--19920098 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
19920035 AGAGCTATGA
* *
19920045 TTTTTGTTTTTATGATGTTTG
1 TTTTTATTTTTATGATGTGTG
* *
19920066 TTTTTATTTTTTTTATGTGTG
1 TTTTTATTTTTATGATGTGTG
*
19920087 TTTATGATTTTT
1 TTT-TTATTTTT
19920099 GTGGGTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.74
Consensus pattern (21 bp):
TTTTTATTTTTATGATGTGTG
Found at i:19923838 original size:26 final size:25
Alignment explanation
Indices: 19923775--19923838 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
19923765 ATAATTTTTT
19923775 TTATGAT-ATTTTTTTTAATCGCAA
1 TTATGATAATTTTTTTTAATCGCAA
* *
19923799 TTAT-AGTAATTTTTTTTTAATTGCAG
1 TTATGA-TAA-TTTTTTTTAATCGCAA
*
19923825 TTATGATAACTTTT
1 TTATGATAATTTTT
19923839 ATTATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 5 0.15
25 5 0.15
26 21 0.64
27 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (25 bp):
TTATGATAATTTTTTTTAATCGCAA
Found at i:19927165 original size:12 final size:12
Alignment explanation
Indices: 19927148--19927172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19927138 ATGTCTTTTA
19927148 TTTTATAAAGGT
1 TTTTATAAAGGT
19927160 TTTTATAAAGGT
1 TTTTATAAAGGT
19927172 T
1 T
19927173 AGACAAAGAA
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTTATAAAGGT
Found at i:19927653 original size:27 final size:27
Alignment explanation
Indices: 19927606--19927663 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
19927596 TTTAGTGAAT
* * *
19927606 TTTTTTTTCAGTCCTAGTTACAATAAC
1 TTTTTTTTCAGTCATAATTACAATAAA
19927633 TTTTTTTTC-GATCATAATTACAATAAA
1 TTTTTTTTCAG-TCATAATTACAATAAA
19927660 TTTT
1 TTTT
19927664 ATTGTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (27 bp):
TTTTTTTTCAGTCATAATTACAATAAA
Found at i:19930907 original size:14 final size:14
Alignment explanation
Indices: 19930888--19930914 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19930878 AGATCATCCC
19930888 TTGTCATTCCAGGG
1 TTGTCATTCCAGGG
19930902 TTGTCATTCCAGG
1 TTGTCATTCCAGG
19930915 TTTCCTAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (14 bp):
TTGTCATTCCAGGG
Found at i:19932222 original size:24 final size:25
Alignment explanation
Indices: 19932190--19932244 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
19932180 TTAAAAAATA
* *
19932190 TAAAAATATA-AATTTTAA-GTGTT
1 TAAAAATATATAATTTAAAGGTATT
19932213 TAAAATATATATAATTTAAAGGTATT
1 TAAAA-ATATATAATTTAAAGGTATT
19932239 TAAAAA
1 TAAAAA
19932245 AATGAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 8 0.30
26 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (25 bp):
TAAAAATATATAATTTAAAGGTATT
Found at i:19932823 original size:49 final size:50
Alignment explanation
Indices: 19932769--19932869 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 50
19932759 ATGTATATAT
*
19932769 ATATATATTTT-T-AACCTGTTTAAT-AATAATCTATTAAAATCCAATTACA
1 ATATAT-TTTTCTAAACCTGTTTAATCAA-AATCGATTAAAATCCAATTACA
* *
19932818 ATATATTTTTCTAAACCTGTTTGATCAAAATCGATTAAAATCTAATTACA
1 ATATATTTTTCTAAACCTGTTTAATCAAAATCGATTAAAATCCAATTACA
19932868 AT
1 AT
19932870 TTCGAAACCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
48 4 0.09
49 7 0.15
50 33 0.72
51 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.42
Consensus pattern (50 bp):
ATATATTTTTCTAAACCTGTTTAATCAAAATCGATTAAAATCCAATTACA
Found at i:19944177 original size:22 final size:23
Alignment explanation
Indices: 19944125--19944182 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
19944115 AATATATTTT
* *
19944125 ATTATTTTAATT-AAATTTATAT
1 ATTATTTTTATTAAAATTTATAA
* *
19944147 ATAAGTTTTATTAAAATTT-TAA
1 ATTATTTTTATTAAAATTTATAA
19944169 ATTATTTTT-TTAAA
1 ATTATTTTTATTAAA
19944183 TTATTTTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 5 0.17
22 18 0.62
23 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTATTTTTATTAAAATTTATAA
Found at i:19944179 original size:13 final size:13
Alignment explanation
Indices: 19944163--19944189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19944153 TTTATTAAAA
19944163 TTTTAAATTATTT
1 TTTTAAATTATTT
19944176 TTTTAAATTATTT
1 TTTTAAATTATTT
19944189 T
1 T
19944190 CATATCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTATTT
Found at i:19945458 original size:24 final size:23
Alignment explanation
Indices: 19945415--19945460 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19945405 AGAGGATAAA
* *
19945415 ATTATTTTTTTATTTTATTTATT
1 ATTATTTTTTTAATTGATTTATT
19945438 ATTATTTTTTTAAATTGATTTAT
1 ATTATTTTTTT-AATTGATTTAT
19945461 GAAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTATTTTTTTAATTGATTTATT
Found at i:19946565 original size:3 final size:3
Alignment explanation
Indices: 19946557--19946612 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
19946547 AAAGAAAATA
* *
19946557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT ATAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
19946606 AAT AAT A
1 AAT AAT A
19946613 TATCAGACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19947125 original size:13 final size:13
Alignment explanation
Indices: 19947107--19947134 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19947097 GTGGGTTATT
19947107 ATTAAAATTAAAA
1 ATTAAAATTAAAA
19947120 ATTAAAATTAAAA
1 ATTAAAATTAAAA
19947133 AT
1 AT
19947135 CAATCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAATTAAAA
Found at i:19949184 original size:32 final size:32
Alignment explanation
Indices: 19949130--19949206 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
19949120 CTAGATCTCT
* *
19949130 GTGATGTTAT-T-GATGAAGACGATGATAAGG
1 GTGATGTTATGTAGATAAAGACGATGACAAGG
* *
19949160 GTGATGTTCTGTAGATAAAGACGATGACGAGG
1 GTGATGTTATGTAGATAAAGACGATGACAAGG
19949192 GTGATGTTATGTAGA
1 GTGATGTTATGTAGA
19949207 AGAAAAGCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 9 0.22
31 1 0.03
32 30 0.75
ACGTcount: A:0.31, C:0.05, G:0.34, T:0.30
Consensus pattern (32 bp):
GTGATGTTATGTAGATAAAGACGATGACAAGG
Found at i:19950039 original size:14 final size:14
Alignment explanation
Indices: 19950020--19950069 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
19950010 ATTAATTAAT
19950020 TATTTATATATATA
1 TATTTATATATATA
19950034 TATTTATATAATGATA
1 TATTTATAT-AT-ATA
* * *
19950050 TTTTTAAATATTTA
1 TATTTATATATATA
19950064 TATTTA
1 TATTTA
19950070 AAAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 4 0.13
16 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:19950068 original size:30 final size:30
Alignment explanation
Indices: 19950022--19950083 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
19950012 TAATTAATTA
* * * *
19950022 TTTATATATATATATTTATATAATGATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
19950052 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
19950082 TT
1 TT
19950084 ATTAATTTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:19956037 original size:14 final size:15
Alignment explanation
Indices: 19956011--19956044 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19956001 TTTAGGTCGC
19956011 ATAAAGTCTACTTTA
1 ATAAAGTCTACTTTA
*
19956026 TTAAAG-CTACTTTA
1 ATAAAGTCTACTTTA
19956040 ATAAA
1 ATAAA
19956045 ACAAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (15 bp):
ATAAAGTCTACTTTA
Found at i:19956095 original size:14 final size:14
Alignment explanation
Indices: 19956063--19956098 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19956053 AATCTTACCT
*
19956063 TTATTTTATTAAAG
1 TTATTTTATTAAAA
*
19956077 CTATTTTATTAAAA
1 TTATTTTATTAAAA
19956091 TTATTTTA
1 TTATTTTA
19956099 AGTCTAGTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (14 bp):
TTATTTTATTAAAA
Found at i:19964232 original size:51 final size:51
Alignment explanation
Indices: 19964145--19964242 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
19964135 TAATTAGCAC
* * * *
19964145 TTCCATTGTTGTCGGTGTAGCTCTGTGGAGCGTTATTGTTCTCATTCGAAT
1 TTCCATTGTTGTCGCTGTAGCTCTGAGCAGCATTATTGTTCTCATTCGAAT
19964196 TTCCATTGTTGTCGCTGTAGCTCTGAGCAGCATTATTGTTCTCATTC
1 TTCCATTGTTGTCGCTGTAGCTCTGAGCAGCATTATTGTTCTCATTC
19964243 TGACCTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.43
Consensus pattern (51 bp):
TTCCATTGTTGTCGCTGTAGCTCTGAGCAGCATTATTGTTCTCATTCGAAT
Found at i:19964404 original size:54 final size:55
Alignment explanation
Indices: 19964339--19964483 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 55
19964329 AGCATCGTTG
* * *
19964339 TTCTCATTCTGACTTGCATTCTCATTGTTGTCGTTGTAGTTCTGAG-A-AGCATTA
1 TTCTCATTCTGACCTGCATTTTCATTGTTGT-GTTGTAGCTCTGAGCACAGCATTA
* *** * *
19964393 TTCTCAATCTGACCCAAATTTTCATTG-T-TGTTATAGCTCTGAGCAGCAGCATTG
1 TTCTCATTCTGACCTGCATTTTCATTGTTGTGTTGTAGCTCTGAGCA-CAGCATTA
19964447 TTCTCATTCTGACCTGCATTTTCATTGTTGTTGTTGT
1 TTCTCATTCTGACCTGCATTTTCATTGTTG-TGTTGT
19964484 TGTTGATGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
51 12 0.17
52 2 0.03
53 1 0.01
54 50 0.70
55 1 0.01
57 5 0.07
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (55 bp):
TTCTCATTCTGACCTGCATTTTCATTGTTGTGTTGTAGCTCTGAGCACAGCATTA
Found at i:19965641 original size:24 final size:24
Alignment explanation
Indices: 19965589--19965641 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
19965579 TTTCACTGTC
* *
19965589 CTCTTTGCTCTCTTCATTTTCTTT
1 CTCTTTGCTCTCTTCATTCTCCTT
*
19965613 TTCTTTGCTCTCTTC-TATCTCCTT
1 CTCTTTGCTCTCTTCAT-TCTCCTT
19965637 CTCTT
1 CTCTT
19965642 CACTGTCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (24 bp):
CTCTTTGCTCTCTTCATTCTCCTT
Found at i:19971346 original size:28 final size:26
Alignment explanation
Indices: 19971295--19971368 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
19971285 AAATTATACT
* * *
19971295 AAAATATTTAATATGATACTTAAACTTAA
1 AAAATTTTTAA-ATAATATTTAAA-TT-A
19971324 AAAATTTTTAAATAATATTTAAATTA
1 AAAATTTTTAAATAATATTTAAATTA
* *
19971350 TAAATTTGTTAATTAATAT
1 AAAATTT-TTAAATAATAT
19971369 GATACTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 7 0.18
27 12 0.31
28 10 0.26
29 10 0.26
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
AAAATTTTTAAATAATATTTAAATTA
Found at i:19971469 original size:27 final size:28
Alignment explanation
Indices: 19971439--19971512 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
19971429 AAAATATCAC
*
19971439 ATTA-ATTAATAAA-TTTATAATTCAAAT
1 ATTATATTAA-AAATTTTAAAATTCAAAT
19971466 ATTATATTAAAAATTTTTAAAATTCAAAT
1 ATTATATTAAAAA-TTTTAAAATTCAAAT
* *
19971495 ATCATATTAAATATTTTA
1 ATTATATTAAAAATTTTA
19971513 TTATAATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.17
28 10 0.24
29 24 0.59
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTATATTAAAAATTTTAAAATTCAAAT
Found at i:19971524 original size:31 final size:29
Alignment explanation
Indices: 19971452--19971524 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
19971442 AATTAATAAA
*
19971452 TTTATAATTCAAATATTATATTAAAAATT
1 TTTATAATTCAAATATCATATTAAAAATT
* *
19971481 TTTAAAATTCAAATATCATATTAAATATTT
1 TTTATAATTCAAATATCATATTAAA-AATT
19971511 TATTATAATTCAAA
1 T-TTATAATTCAAA
19971525 AATAATTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 23 0.61
30 4 0.11
31 11 0.29
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTATAATTCAAATATCATATTAAAAATT
Found at i:19974004 original size:35 final size:35
Alignment explanation
Indices: 19973954--19974024 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
19973944 TATAAATATG
*
19973954 TATATATATATAAATTAATTTTTTTAAAAATTATA
1 TATATATATACAAATTAATTTTTTTAAAAATTATA
* *
19973989 TATATATATACAAATTATTTTTTTTCAAAATTATA
1 TATATATATACAAATTAATTTTTTTAAAAATTATA
19974024 T
1 T
19974025 TCAAATCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (35 bp):
TATATATATACAAATTAATTTTTTTAAAAATTATA
Found at i:19974554 original size:681 final size:685
Alignment explanation
Indices: 19973588--19975581 Score: 3585
Period size: 683 Copynumber: 2.9 Consensus size: 685
19973578 AATTTATTTG
19973588 TCTTTTAATACTCATTTACTATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
1 TCTTTTAATACTCATTTACTATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
19973653 ATAGAGAGATGGTATGTTTTATAGATGTTTATTAAAATTCTTTTGTTTTCC-AAAAAAAAATTTA
66 ATAGAGAGATGGTATG-TTTATAGATGTTTATTAAAATTCTTTTGTTTTCCAAAAAAAAAATTTA
19973717 TATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTATTCATATAAAAGAGGTCGTTAT
130 TATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTATTCATATAAAAGAGGTCGTTAT
* * * *
19973782 AGCCAAGCTACAAAATCGTAAGATCCATGCATTCTCATCTTAACTAGAAAATCTGCCAAATAATT
195 AGCCAAGTTACAAAATCGTAAGATCCATGCATTCTCATCTTAGCTAGAGAATCTGCAAAATAATT
*
19973847 AGTTTCTCTAAAAACATGTACGAAAGTGATGCTATATCAAAAGATAACTTACTATATTATAATCC
260 AGTTTCTCTAAAAACATGTACGAAAGTGATGCTATATCAAAAGATAACTTACTAGATTATAATCC
19973912 ATGTGATGCATGAAATAATTTTATTTATTTAATATAAATATGTATATATATATAAATTAATTTTT
325 ATGTGATGCATGAAATAATTTTATTTATTTAATATAAATATGTATATATATATAAATTAATTTTT
19973977 TTAAAAATTATATATATATATACAAATTA-TTTTTTTTCAAAATTATATTCAAATCTTTAAAACT
390 TTAAAAATTATATATATATATACAAATTATTTTTTTTTCAAAATTATATTCAAATCTTTAAAACT
*
19974041 CATAACATATATAAAATTTATATATATTAACTTGTCATTAAAAAATAAAATTTCTAAAAACAGCA
455 CATAACATATATAAAATTTATATATATTGACTTGTCATTAAAAAATAAAATTTCTAAAAACAGCA
*
19974106 AGAAAAAAAT-TGTCTTTCATTTGCATTTTT-AAAAAAATTATATTTATACACTTGTAAGATTAT
520 AGAAAAAAATATGTCTTTCATTTGGATTTTTAAAAAAAATTATATTTATACACTTGTAAGATTAT
*
19974169 ATTAAAT-AAAATAAATTATGCTTTTCTTTAAAAAATAAAAA-ATATTATTTAATGATAAATTAA
585 ATCAAATAAAAATAAATTATGCTTTTCTTTAAAAAATAAAAATATATTATTTAATGATAAATTAA
19974232 ATAATAAAAGAAATATTATCATACTTTCATATTTTA
650 ATAATAAAAGAAATATTATCATACTTTCATATTTTA
19974268 TCTTTTAATACTCATTTACTATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
1 TCTTTTAATACTCATTTACTATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
* *
19974333 ATAGAGAGATGATATGTTTATAGACGTTTATTAAAATTCTTTTGTTTTCCCAAAAAAAAAATTTA
66 ATAGAGAGATGGTATGTTTATAGATGTTTATTAAAATTCTTTTGTTTT-CCAAAAAAAAAATTTA
*
19974398 TATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTTTTCATATAAAAGAGGTCGTTAT
130 TATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTATTCATATAAAAGAGGTCGTTAT
* *
19974463 AGCCAAGTTACAAAATCGTAAGATCCTTGCATTCTCATCTTAGCTAGAGAATCTGTAAAATAATT
195 AGCCAAGTTACAAAATCGTAAGATCCATGCATTCTCATCTTAGCTAGAGAATCTGCAAAATAATT
* *
19974528 AGTTTATCTAAAAACACGTACGAAAGTGATGCTATATCAAAAGATAACTTACTAGATTATAATCC
260 AGTTTCTCTAAAAACATGTACGAAAGTGATGCTATATCAAAAGATAACTTACTAGATTATAATCC
*
19974593 ATGCGATGCATGAAATAATTTTATTTATTTAATATAAATATG--TATATATATAAATTAATTTTT
325 ATGTGATGCATGAAATAATTTTATTTATTTAATATAAATATGTATATATATATAAATTAATTTTT
*
19974656 TTAAAAA-AAT-TATATATATACAAATTATTTTTTTTTCAAAATTATATTCAAATCTTTAAAACT
390 TTAAAAATTATATATATATATACAAATTATTTTTTTTTCAAAATTATATTCAAATCTTTAAAACT
*
19974719 CATAACATATATAAATTTTATATATATTGACTTGTCATTAAAAAATAAAATTTCTAAAAACAGCA
455 CATAACATATATAAAATTTATATATATTGACTTGTCATTAAAAAATAAAATTTCTAAAAACAGCA
*
19974784 AGAAAAAAATTATGTCTTTCATTTGGATTTTTTAAAAAAAAGTATATTTATACACTTGTAAGATT
520 AGAAAAAAA-TATGTCTTTCATTTGGA-TTTTTAAAAAAAATTATATTTATACACTTGTAAGATT
19974849 ATATCAAATAAAAATAAATTATGCTTTTCTTTAAAAAATAAAAATATATTATTTAATGATAAATT
583 ATATCAAATAAAAATAAATTATGCTTTTCTTTAAAAAATAAAAATATATTATTTAATGATAAATT
19974914 AAATAATAAAAGAAATATTATCATACTTTCATATTTTA
648 AAATAATAAAAGAAATATTATCATACTTTCATATTTTA
*
19974952 TCTTTTAATACTCATTTACCATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
1 TCTTTTAATACTCATTTACTATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
*
19975017 ATAGAGAGATGGTATGTTTATAGATGTTTATTAAAATTCTTTTGTTTTCCAAAAAAAAAATATAT
66 ATAGAGAGATGGTATGTTTATAGATGTTTATTAAAATTCTTTTGTTTTCCAAAAAAAAAATTTAT
*
19975082 ATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTATTCATATAAAAGATGTCGTTATA
131 ATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTATTCATATAAAAGAGGTCGTTATA
*
19975147 GCCAAGTTACAAAATCGTAAGATCCATGCATTCTCATCTTAGCTAGAGAATCTACAAAATAATTA
196 GCCAAGTTACAAAATCGTAAGATCCATGCATTCTCATCTTAGCTAGAGAATCTGCAAAATAATTA
*
19975212 GTTTCTCTAAAAACATGTACAAAAGTGATGCTATATCAAAAGATAACTTACTAGATTATAATCCA
261 GTTTCTCTAAAAACATGTACGAAAGTGATGCTATATCAAAAGATAACTTACTAGATTATAATCCA
19975277 TGTGATGCATGAAATAATTTTATTTATTTAATATAAATATGTATATATATATAAATTAATTTTTT
326 TGTGATGCATGAAATAATTTTATTTATTTAATATAAATATGTATATATATATAAATTAATTTTTT
*
19975342 AAAAAAATTATATATATATATATATACAAATTATTTTTTTTTTCAAAATTATATTCAAATCTTTA
391 --TAAAA--AT-TATATATATATATACAAATTA-TTTTTTTTTCAAAATTATATTCAAATCTTTA
*
19975407 AAACTCATAACATATATAAAATTTATATATATTGACTTGTCTTTAAAAAATAAAATTTCTAAAAA
450 AAACTCATAACATATATAAAATTTATATATATTGACTTGTCATTAAAAAATAAAATTTCTAAAAA
*
19975472 CAGCAAGAAAAAATTATGTCTTTCATTTGGATTTTTAAAAAAAATTATATTTATACACTTGTAAG
515 CAGCAAGAAAAAAATATGTCTTTCATTTGGATTTTTAAAAAAAATTATATTTATACACTTGTAAG
19975537 ATTATATCAAATAAAAATAAATTATGCTTTTCTTTAAAAAATAAA
580 ATTATATCAAATAAAAATAAATTATGCTTTTCTTTAAAAAATAAA
19975582 TTATGCTTTT
Statistics
Matches: 1257, Mismatches: 38, Indels: 27
0.95 0.03 0.02
Matches are distributed among these distances:
677 17 0.01
678 109 0.09
679 60 0.05
680 96 0.08
681 244 0.19
682 38 0.03
683 277 0.22
684 168 0.13
685 22 0.02
687 4 0.00
689 1 0.00
691 80 0.06
692 34 0.03
693 107 0.09
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (685 bp):
TCTTTTAATACTCATTTACTATTTTTTTTCTTTCATATTTTGTTTAGGAGTTTTGATCAATTATC
ATAGAGAGATGGTATGTTTATAGATGTTTATTAAAATTCTTTTGTTTTCCAAAAAAAAAATTTAT
ATTAAAATATAACTTTTTTTGAATATTGAAATAAAGATATTATTCATATAAAAGAGGTCGTTATA
GCCAAGTTACAAAATCGTAAGATCCATGCATTCTCATCTTAGCTAGAGAATCTGCAAAATAATTA
GTTTCTCTAAAAACATGTACGAAAGTGATGCTATATCAAAAGATAACTTACTAGATTATAATCCA
TGTGATGCATGAAATAATTTTATTTATTTAATATAAATATGTATATATATATAAATTAATTTTTT
TAAAAATTATATATATATATACAAATTATTTTTTTTTCAAAATTATATTCAAATCTTTAAAACTC
ATAACATATATAAAATTTATATATATTGACTTGTCATTAAAAAATAAAATTTCTAAAAACAGCAA
GAAAAAAATATGTCTTTCATTTGGATTTTTAAAAAAAATTATATTTATACACTTGTAAGATTATA
TCAAATAAAAATAAATTATGCTTTTCTTTAAAAAATAAAAATATATTATTTAATGATAAATTAAA
TAATAAAAGAAATATTATCATACTTTCATATTTTA
Found at i:19975579 original size:24 final size:24
Alignment explanation
Indices: 19975549--19975605 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
19975539 TATATCAAAT
19975549 AAAAATAAATTATGCTTTTCTTTA
1 AAAAATAAATTATGCTTTTCTTTA
19975573 AAAAATAAATTATGCTTTTCTTTA
1 AAAAATAAATTATGCTTTTCTTTA
19975597 AAAAATAAA
1 AAAAATAAA
19975606 AATATATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAAATAAATTATGCTTTTCTTTA
Found at i:19975615 original size:30 final size:29
Alignment explanation
Indices: 19975545--19975615 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 29
19975535 AGATTATATC
19975545 AAATAAAAATAAATTATGCTTTTCTTTAAA
1 AAATAAAAAT-AATTATGCTTTTCTTTAAA
19975575 AAAT----A-AATTATGCTTTTCTTTAAA
1 AAATAAAAATAATTATGCTTTTCTTTAAA
19975599 AAATAAAAATATATTAT
1 AAATAAAAATA-ATTAT
19975616 TTAATGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
24 23 0.66
26 1 0.03
28 1 0.03
29 1 0.03
30 9 0.26
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATAAAAATAATTATGCTTTTCTTTAAA
Found at i:19978626 original size:30 final size:29
Alignment explanation
Indices: 19978588--19978692 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 29
19978578 AGGTTTATGG
19978588 TTTT-GATTTTAGAGTTTGGATGTTAAAGA
1 TTTTAGATTTTAGAGTTTGGAT-TTAAAGA
*
19978617 TTTTAGATTTTAGGGTTTGGATTTAAAGGA
1 TTTTAGATTTTAGAGTTTGGATTTAAA-GA
* * * *
19978647 TTTTGGATTTTTAGAGGTTTCAGATTTTAGGA
1 TTTTAGA-TTTTAGA-GTTT-GGATTTAAAGA
19978679 TTTTAGATTTTAGA
1 TTTTAGATTTTAGA
19978693 AGATTTTGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
29 9 0.14
30 24 0.38
31 13 0.20
32 12 0.19
33 6 0.09
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.50
Consensus pattern (29 bp):
TTTTAGATTTTAGAGTTTGGATTTAAAGA
Found at i:19978653 original size:16 final size:16
Alignment explanation
Indices: 19978602--19978656 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
19978592 GATTTTAGAG
19978602 TTTGGATGTTAAA-GAT
1 TTTGGAT-TTAAAGGAT
* * *
19978618 TTTAGATTT-TAGG-G
1 TTTGGATTTAAAGGAT
19978632 TTTGGATTTAAAGGAT
1 TTTGGATTTAAAGGAT
19978648 TTTGGATTT
1 TTTGGATTT
19978657 TTAGAGGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 9 0.30
15 6 0.20
16 15 0.50
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (16 bp):
TTTGGATTTAAAGGAT
Found at i:19978704 original size:7 final size:8
Alignment explanation
Indices: 19978615--19978709 Score: 60
Period size: 7 Copynumber: 12.1 Consensus size: 8
19978605 GGATGTTAAA
19978615 GATTTTA-
1 GATTTTAG
19978622 GATTTTAG
1 GATTTTAG
*
19978630 G-GTTT-G
1 GATTTTAG
*
19978636 GATTTAAAG
1 GATTT-TAG
19978645 GATTTT-G
1 GATTTTAG
19978652 GATTTTTAG
1 GA-TTTTAG
* *
19978661 AGGTTTCA-
1 -GATTTTAG
19978669 GATTTTAG
1 GATTTTAG
19978677 GATTTTA-
1 GATTTTAG
19978684 GATTTTAG
1 GATTTTAG
19978692 AAGATTTT-G
1 --GATTTTAG
19978701 GATTTTAG
1 GATTTTAG
19978709 G
1 G
19978710 GGTTTTAGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
7 33 0.49
8 14 0.21
9 12 0.18
10 7 0.10
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.48
Consensus pattern (8 bp):
GATTTTAG
Found at i:19978705 original size:32 final size:30
Alignment explanation
Indices: 19978588--19978718 Score: 106
Period size: 30 Copynumber: 4.2 Consensus size: 30
19978578 AGGTTTATGG
* *
19978588 TTTT-GATTTTAGAG-TTTGGATGTTAAAGA
1 TTTTAGATTTTAGAGTTTTGGAT-TTTAGGA
* *
19978617 TTTTAGATTTTAG-GGTTTGGATTTAAAGGA
1 TTTTAGATTTTAGAGTTTTGGATTT-TAGGA
* **
19978647 TTTTGGATTTTTAGAGGTTTCAGATTTTAGGA
1 TTTTAGA-TTTTAGA-GTTTTGGATTTTAGGA
*
19978679 TTTTAGATTTTAGAAGATTTTGGATTTTAGGGG
1 TTTTAGATTTTAG-AG-TTTTGGATTTTA-GGA
19978712 TTTTAGA
1 TTTTAGA
19978719 AATCTAGGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
29 7 0.08
30 25 0.30
31 13 0.16
32 21 0.25
33 17 0.20
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (30 bp):
TTTTAGATTTTAGAGTTTTGGATTTTAGGA
Found at i:19980188 original size:6 final size:7
Alignment explanation
Indices: 19980171--19980200 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
19980161 CCACCCTACT
19980171 TTTTTTA
1 TTTTTTA
19980178 TTTTTTA
1 TTTTTTA
19980185 TTTTTTA
1 TTTTTTA
19980192 -TTTTTA
1 TTTTTTA
19980198 TTT
1 TTT
19980201 ATAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:19980190 original size:14 final size:13
Alignment explanation
Indices: 19980171--19980200 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
19980161 CCACCCTACT
19980171 TTTTTTATTTTTTA
1 TTTTTTA-TTTTTA
19980185 TTTTTTATTTTTA
1 TTTTTTATTTTTA
19980198 TTT
1 TTT
19980201 ATAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:19980484 original size:22 final size:22
Alignment explanation
Indices: 19980458--19980499 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
19980448 AATCAAATTT
19980458 ATGCCCGGAGGTCTTACAAATC
1 ATGCCCGGAGGTCTTACAAATC
19980480 ATGCCCGGAGGTCTTACAAA
1 ATGCCCGGAGGTCTTACAAA
19980500 ATTGACTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTACAAATC
Found at i:19980695 original size:132 final size:132
Alignment explanation
Indices: 19980458--19980701 Score: 339
Period size: 132 Copynumber: 1.8 Consensus size: 132
19980448 AATCAAATTT
19980458 ATGCCCGGAGGTCTTACAAATCATGCCCGGAGGTCTTACAAAATTGACTGGAATAACATCGCAAG
1 ATGCCCGGAGGTCTTACAAATCATGCCCGGAGGTCTTACAAAATTGACTGGAATAACATCGCAAG
* ** *
19980523 TTGAAAAATAAGGAATCGATCGGGATAACATCACGAATTGAATTTATGCCTAGAGATCTTAGACA
66 TTCAAAAATAAAAAATCGATCGGGATAACATCACGAATTGAAATTATGCCTAGAGATCTTAGACA
19980588 TC
131 TC
* * *** * *
19980590 ATGCCTGGAGGTCTTACAGAATTATGTTTGGAGGTCTTACAGAATTGACTGGGATAACA-CTGCA
1 ATGCCCGGAGGTCTTACA-AATCATGCCCGGAGGTCTTACAAAATTGACTGGAATAACATC-GCA
* *
19980654 AG-TCAAAAATAAAAAATCGATCGGGATAACATCGCTAATTGAAATTAT
64 AGTTCAAAAATAAAAAATCGATCGGGATAACATCACGAATTGAAATTAT
19980702 ACCCGGAGGT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
132 58 0.60
133 39 0.40
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (132 bp):
ATGCCCGGAGGTCTTACAAATCATGCCCGGAGGTCTTACAAAATTGACTGGAATAACATCGCAAG
TTCAAAAATAAAAAATCGATCGGGATAACATCACGAATTGAAATTATGCCTAGAGATCTTAGACA
TC
Found at i:19980797 original size:109 final size:108
Alignment explanation
Indices: 19980626--19980824 Score: 263
Period size: 109 Copynumber: 1.8 Consensus size: 108
19980616 TTTGGAGGTC
* * * ** * *
19980626 TTACAGAATTGACTGGGATAACACTGCAAGTCAAAAATAAAAAATCGATCGGGATAACATCGCTA
1 TTACAGAATCGACTAGAATAACACAACAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCGA
*
19980691 ATTGAAATTATACCCGGAGGTCTTAAAAATCATGCCAGTGATA
66 ATCGAAATTATACCCGGAGGTCTTAAAAATCATGCCAGTGATA
* *
19980734 TTACAGAATCGACTAGAATAACACAATAAGTCAAAAGATAAAGAATCGATCGAGATAACATCGCG
1 TTACAGAATCGACTAGAATAACACAACAAGTCAAAA-ATAAAAAATCGATCGAGATAACATCGCG
* ***
19980799 AATCGAATTTATTTTCGGAGGTCTTA
65 AATCGAAATTATACCCGGAGGTCTTA
19980825 CAGAATCGAC
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
108 30 0.39
109 46 0.61
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (108 bp):
TTACAGAATCGACTAGAATAACACAACAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCGA
ATCGAAATTATACCCGGAGGTCTTAAAAATCATGCCAGTGATA
Found at i:19980889 original size:88 final size:88
Alignment explanation
Indices: 19980734--19980912 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 88
19980724 GCCAGTGATA
* * * *
19980734 TTACAGAATCGACTAGAATAACACAATAAGTCAAAAGATAAAGAATCGATCGAGATAACATCGCG
1 TTACAGAATCGACTAGAATAACACAACAAGTCAAAAAATAAAGAATCGATCGAGATAACACCACG
* ***
19980799 AATCGAATTTATTTTCGGAGGTC
66 AATCAAATTTATGCCCGGAGGTC
** *
19980822 TTACAGAATCGACT-GAGATAACACCGCAAGTCAAAAAAT-AAGAAATCGATCGGGATAACACCA
1 TTACAGAATCGACTAGA-ATAACACAACAAGTCAAAAAATAAAG-AATCGATCGAGATAACACCA
19980885 CGAATCAAATTTATGCCCGGAGGTC
64 CGAATCAAATTTATGCCCGGAGGTC
19980910 TTA
1 TTA
19980913 GAAATCATGC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
87 5 0.06
88 73 0.94
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (88 bp):
TTACAGAATCGACTAGAATAACACAACAAGTCAAAAAATAAAGAATCGATCGAGATAACACCACG
AATCAAATTTATGCCCGGAGGTC
Found at i:19981003 original size:198 final size:196
Alignment explanation
Indices: 19980609--19981028 Score: 533
Period size: 198 Copynumber: 2.1 Consensus size: 196
19980599 GGTCTTACAG
* * *
19980609 AATTATGTTT-GGAGGTCTTACAGAATTGACTGGGATAACACTGCAAGTCAAAAATAAAAAATCG
1 AATTAT-TTTCGGAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAATAAAAAATCG
* * * *
19980673 ATCGGGATAACATCGCTAATTGAAATTATACCCGGAGGTCTTAAAAATCATGCCAGTGATATTAC
65 ATCGGGATAACACCACGAATTCAAATTATACCCGGAGGTCTTAAAAATCATGCCAGTGATATTAC
* * * *
19980738 AGAATCGACTAGAATAACACAATAAGTCAAAAGATAAAGAATCGATCGAGATAACATCGCGAATC
130 AGAATCGACTAGAATAACACAACAAGTAAAAAAATAAAGAATCGATCGAGATAACATCGCAAATC
19980803 GA
195 GA
* *
19980805 ATTTATTTTCGGAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAGAAATCG
1 AATTATTTTCGGAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTC-AAAAATAAAAAATCG
* * ** *
19980870 ATCGGGATAACACCACGAA-TCAAATTTATGCCCGGAGGTCTTAGAAATCATGCTTG-GAGGTCT
65 ATCGGGATAACACCACGAATTCAAA-TTATACCCGGAGGTCTTAAAAATCATGCCAGTGA--TAT
* ** * *
19980933 TACAGAATCGACTAGGATAACACTGCAAGTAAAAAAATAATGAATCGATCGAGATAACATCGTAA
127 TACAGAATCGACTAGAATAACACAACAAGTAAAAAAATAAAGAATCGATCGAGATAACATCGCAA
19980998 ATCGA
192 ATCGA
** *
19981003 AATTATGCTCGGAGATCTTA-AGAATC
1 AATTATTTTCGGAGGTCTTACAGAATC
19981029 ATGCCCAGAG
Statistics
Matches: 192, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
195 3 0.02
196 47 0.24
197 63 0.33
198 79 0.41
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (196 bp):
AATTATTTTCGGAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAATAAAAAATCGA
TCGGGATAACACCACGAATTCAAATTATACCCGGAGGTCTTAAAAATCATGCCAGTGATATTACA
GAATCGACTAGAATAACACAACAAGTAAAAAAATAAAGAATCGATCGAGATAACATCGCAAATCG
A
Found at i:19981193 original size:110 final size:110
Alignment explanation
Indices: 19980817--19981211 Score: 485
Period size: 110 Copynumber: 3.6 Consensus size: 110
19980807 TTATTTTCGG
19980817 AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAAT-AAGAAATCGATCGGGATAAC
1 AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAG-AATCGATCGGGATAAC
** ** *
19980881 ACCACGAATC-AAATTTATGCCCGGAGGTCTTAGAAATCATGCTTGG
65 ACCGTGAATCGAAA-TTATGCCCGGAGGTCTTAGAAATCATGCCCGA
* * * *
19980927 AGGTCTTACAGAATCGACT-AGGATAACACTGCAAGTAAAAAAATAATGAATCGATCGAGATAAC
1 AGGTCTTACAGAATCGACTGA-GATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGATAAC
* * * *
19980991 ATCGTAAATCGAAATTATGCTCGGAGATCTTA-AGAATCATGCCC-A
65 ACCGTGAATCGAAATTATGCCCGGAGGTCTTAGA-AATCATGCCCGA
* * * * * *
19981036 GAGGTCTTACAGAATCGATTGGGATGACACCGTAAGTTAAAAAATAAAGAATCGATCGGGATAAT
1 -AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGATAAC
19981101 ACCGTGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCCCGA
65 ACCGTGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCCCGA
* * * * **
19981147 AGGTTTTACAGAATCGACTGAGATAACACCACAAGTCGAAAGATAAAGAATCGATCAAGATAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGATAACA
19981212 TTGTAAATCA
Statistics
Matches: 239, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
109 2 0.01
110 230 0.96
111 7 0.03
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (110 bp):
AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGATAACA
CCGTGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCCCGA
Found at i:19981200 original size:220 final size:220
Alignment explanation
Indices: 19980816--19981226 Score: 585
Period size: 220 Copynumber: 1.9 Consensus size: 220
19980806 TTTATTTTCG
19980816 GAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGGGATAAC
1 GAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGGGATAAC
** *
19980881 ACCACGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCTTGGAGGTCTTACAGAATCGACT
66 ACCACGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCGACT
** * * *
19980946 AGGATAACACTGCAAGTAAAAAAATAATGAATCGATCGAGATAACATCGTAAATCGAAATTATGC
131 AGGATAACACCACAAGTAAAAAAATAAAGAATCGATCAAGATAACATCGTAAATCAAAATTATGC
19981011 TCGGAGATCTTAAGAATCATGCCCA
196 TCGGAGATCTTAAGAATCATGCCCA
* * * * *
19981036 GAGGTCTTACAGAATCGATTGGGATGACACCGTAAGTTAAAAAATAA-AGAATCGATCGGGATAA
1 GAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAGA-AATCGATCGGGATAA
* ** *
19981100 TACCGTGAATCGAAA-TTATGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTTTTACAGAATCGA
65 CACCACGAATC-AAATTTATGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCGA
** * *
19981164 CT-GAGATAACACCACAAGTCGAAAGATAAAGAATCGATCAAGATAACATTGTAAATCAAAATT
129 CTAG-GATAACACCACAAGTAAAAAAATAAAGAATCGATCAAGATAACATCGTAAATCAAAATT
19981227 TTACCTAGAA
Statistics
Matches: 167, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
219 2 0.01
220 162 0.97
221 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (220 bp):
GAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGGGATAAC
ACCACGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCGACT
AGGATAACACCACAAGTAAAAAAATAAAGAATCGATCAAGATAACATCGTAAATCAAAATTATGC
TCGGAGATCTTAAGAATCATGCCCA
Found at i:19981241 original size:110 final size:110
Alignment explanation
Indices: 19980817--19981264 Score: 460
Period size: 110 Copynumber: 4.1 Consensus size: 110
19980807 TTATTTTCGG
*
19980817 AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAAT-AAGAAATCGATCGGGATAAC
1 AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAG-AATCGATCGAGATAAC
*** * ** *
19980881 ACCACGAATC-AAATTTATGCCCGGAGGTCTTAGAAATCATGCTTGG
65 ACCGTAAATCGAAA-TTATGCCCGGAAGTCTTAGAAATCATGCCCGA
* * *
19980927 AGGTCTTACAGAATCGACT-AGGATAACACTGCAAGTAAAAAAATAATGAATCGATCGAGATAAC
1 AGGTCTTACAGAATCGACTGA-GATAACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAAC
* *
19980991 ATCGTAAATCGAAATTATGCTCGG-AGATCTTA-AGAATCATGCCC-A
65 ACCGTAAATCGAAATTATGCCCGGAAG-TCTTAGA-AATCATGCCCGA
* * * * * * *
19981036 GAGGTCTTACAGAATCGATTGGGATGACACCGTAAGTTAAAAAATAAAGAATCGATCGGGATAAT
1 -AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAAC
* *
19981101 ACCGTGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCCCGA
65 ACCGTAAATCGAAATTATGCCCGGAAGTCTTAGAAATCATGCCCGA
* * * * *
19981147 AGGTTTTACAGAATCGACTGAGATAACACCACAAGTCGAAAGATAAAGAATCGATCAAGATAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACA
** * * * ** * *
19981212 TTGTAAATCAAAATTTTACCTAGAAGTCTT-GAAAGTTATGCCCGG
66 CCGTAAATCGAAATTATGCCCGGAAGTCTTAGAAA-TCATGCCCGA
19981257 AGGTCTTA
1 AGGTCTTA
19981265 GATATTTTAT
Statistics
Matches: 277, Mismatches: 50, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
109 7 0.03
110 262 0.95
111 8 0.03
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (110 bp):
AGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGAGATAACA
CCGTAAATCGAAATTATGCCCGGAAGTCTTAGAAATCATGCCCGA
Found at i:19981592 original size:41 final size:41
Alignment explanation
Indices: 19981538--19981646 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
19981528 TTCTAAGGAA
*
19981538 GGTT-CTCTCTAAACAGAGGCTTTAAAATCTTGATTGA-AATT
1 GGTTCCTCT-TAAACAGAGGCTTTAAAATCTTGATTGAGAA-C
*
19981579 GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAC
1 GGTTCCTCTTAAACAGAGGCTTTAAAATCTTGATTGAGAAC
* * * *
19981620 AGTTCTTTTTAAACAGAGACTTTAAAA
1 GGTTCCTCTTAAACAGAGGCTTTAAAA
19981647 CTTTAAAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 53 0.90
42 6 0.10
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (41 bp):
GGTTCCTCTTAAACAGAGGCTTTAAAATCTTGATTGAGAAC
Found at i:19983334 original size:13 final size:13
Alignment explanation
Indices: 19983316--19983346 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19983306 AGATGTCGTC
19983316 TTTTTTTT-CTTT
1 TTTTTTTTACTTT
19983328 TTTTTTTTACTTT
1 TTTTTTTTACTTT
19983341 TTTTTT
1 TTTTTT
19983347 ATGTCCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTACTTT
Found at i:19986887 original size:5 final size:5
Alignment explanation
Indices: 19986877--19986901 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19986867 ACATAATCAA
19986877 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
19986902 GACTCAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19988613 original size:7 final size:7
Alignment explanation
Indices: 19988575--19988649 Score: 53
Period size: 7 Copynumber: 10.0 Consensus size: 7
19988565 AGGTTTAGGG
19988575 TTTT-GA
1 TTTTAGA
19988581 TTTTAGA
1 TTTTAGA
* *
19988588 GTTTGGA
1 TTTTAGA
19988595 TTTTAGAGA
1 TTTT--AGA
19988604 TTTTAGA
1 TTTTAGA
*
19988611 TTTTTAGGGG
1 -TTTTA--GA
*
19988621 TTTTGGA
1 TTTTAGA
19988628 TTTTAGGA
1 TTTTA-GA
19988636 TTTTAGA
1 TTTTAGA
19988643 TTTTAGA
1 TTTTAGA
19988650 AGATTTTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
6 4 0.07
7 27 0.50
8 12 0.22
9 10 0.19
10 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (7 bp):
TTTTAGA
Found at i:19988617 original size:17 final size:16
Alignment explanation
Indices: 19988575--19988675 Score: 86
Period size: 17 Copynumber: 6.4 Consensus size: 16
19988565 AGGTTTAGGG
19988575 TTTT-GATTTTAGAG-
1 TTTTAGATTTTAGAGA
*
19988589 -TTTGGATTTTAGAGA
1 TTTTAGATTTTAGAGA
* *
19988604 TTTTAGATTTTTAGGGG
1 TTTTAGA-TTTTAGAGA
*
19988621 TTTTGGATTTTAG-GA
1 TTTTAGATTTTAGAGA
19988636 TTTTAGATTTTAGAAGA
1 TTTTAGATTTTAG-AGA
* *
19988653 TTTT-GAATTTTAGGGG
1 TTTTAG-ATTTTAGAGA
19988669 TTTTAGA
1 TTTTAGA
19988676 AACCTAAGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.04
14 10 0.14
15 13 0.18
16 18 0.25
17 27 0.38
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (16 bp):
TTTTAGATTTTAGAGA
Found at i:19988657 original size:32 final size:30
Alignment explanation
Indices: 19988568--19988675 Score: 112
Period size: 32 Copynumber: 3.5 Consensus size: 30
19988558 ATATGGAAGG
*
19988568 TTTAGGGTTTT-GATTTTAGAG-TTTGGAT
1 TTTAGGATTTTAGATTTTAGAGTTTTGGAT
*
19988596 TTTAGAGATTTTAGATTTTTAGGGGTTTTGGAT
1 TTTAG-GATTTTAGA-TTTTA-GAGTTTTGGAT
*
19988629 TTTAGGATTTTAGATTTTAGAAGATTTTGAAT
1 TTTAGGATTTTAGATTTTAG-AG-TTTTGGAT
*
19988661 TTTAGGGGTTTTAGA
1 TTTA-GGATTTTAGA
19988676 AACCTAAGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.07
29 5 0.07
30 3 0.04
31 11 0.16
32 22 0.33
33 21 0.31
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (30 bp):
TTTAGGATTTTAGATTTTAGAGTTTTGGAT
Found at i:19988664 original size:48 final size:46
Alignment explanation
Indices: 19988568--19988672 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 46
19988558 ATATGGAAGG
* *
19988568 TTTA-GGGTTTTGATTTTAGAGTTTGGATTTTAGAGATTTTAGATT
1 TTTAGGGGTTTTGATTTTAGAGTTTAGATTTTAGAGATTTTAGAAT
*
19988613 TTTAGGGGTTTTGGATTTTAGGATTTTAGATTTTAGAAGATTTT-GAAT
1 TTTAGGGGTTTT-GATTTTA-GAGTTTAGATTTTAG-AGATTTTAGAAT
19988661 TTTAGGGGTTTT
1 TTTAGGGGTTTT
19988673 AGAAACCTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
45 4 0.08
46 7 0.13
47 7 0.13
48 28 0.53
49 7 0.13
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (46 bp):
TTTAGGGGTTTTGATTTTAGAGTTTAGATTTTAGAGATTTTAGAAT
Found at i:19989010 original size:22 final size:22
Alignment explanation
Indices: 19988955--19989010 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
19988945 ATAATTATTA
19988955 TTATTATTATTTTTGAACATTT
1 TTATTATTATTTTTGAACATTT
* *
19988977 TTAATATATATTTTT-AATCGTTT
1 TTATTAT-TATTTTTGAA-CATTT
19989000 TTATTATTATT
1 TTATTATTATT
19989011 ATTATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTATTATTTTTGAACATTT
Found at i:19989465 original size:18 final size:19
Alignment explanation
Indices: 19989444--19989480 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19989434 TCTATAAAAG
19989444 TTAGA-TTTTTTTCAGCTC
1 TTAGATTTTTTTTCAGCTC
19989462 TTAGATTTTTTTTCAGCTC
1 TTAGATTTTTTTTCAGCTC
19989481 ACTTTTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (19 bp):
TTAGATTTTTTTTCAGCTC
Found at i:19990186 original size:15 final size:15
Alignment explanation
Indices: 19990161--19990202 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
19990151 GTCACCCTAC
* *
19990161 TTTTTGTTTTTCTTTT
1 TTTTTATTTTT-TTGT
19990177 TTTTTATTTTTTTGT
1 TTTTTATTTTTTTGT
19990192 TTTTTATTTTT
1 TTTTTATTTTT
19990203 ATTTATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.05, C:0.02, G:0.05, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTTTGT
Found at i:19990191 original size:24 final size:25
Alignment explanation
Indices: 19990161--19990208 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
19990151 GTCACCCTAC
19990161 TTTTTGTTTTTCT-TTTTT-TTTATT
1 TTTTTGTTTTT-TATTTTTATTTATT
19990185 TTTTTGTTTTTTATTTTTATTTAT
1 TTTTTGTTTTTTATTTTTATTTAT
19990209 AATTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.73
25 5 0.23
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.85
Consensus pattern (25 bp):
TTTTTGTTTTTTATTTTTATTTATT
Found at i:19990195 original size:25 final size:24
Alignment explanation
Indices: 19990161--19990208 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
19990151 GTCACCCTAC
* *
19990161 TTTTTGTTTTTCTTTTTTTTTATT
1 TTTTTGTTTTTATTTTTATTTATT
19990185 TTTTTGTTTTTTATTTTTATTTAT
1 TTTTTG-TTTTTATTTTTATTTAT
19990209 AATTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.85
Consensus pattern (24 bp):
TTTTTGTTTTTATTTTTATTTATT
Found at i:19990238 original size:3 final size:3
Alignment explanation
Indices: 19990230--19990270 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
19990220 ATTTTTTAAA
** *
19990230 ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
19990271 ACTAAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:19990244 original size:9 final size:9
Alignment explanation
Indices: 19990225--19990270 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
19990215 TAATTATTTT
*
19990225 TTAAAATTA
1 TTAATATTA
*
19990234 TTATTATTA
1 TTAATATTA
*
19990243 TTATTATTA
1 TTAATATTA
*
19990252 TTAAAATTA
1 TTAATATTA
19990261 TTAATATTA
1 TTAATATTA
19990270 T
1 T
19990271 ACTAAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATATTA
Found at i:19992576 original size:12 final size:12
Alignment explanation
Indices: 19992559--19992602 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
19992549 AAAAATAATA
19992559 ATAATTATTATT
1 ATAATTATTATT
*
19992571 ATAATTATGATT
1 ATAATTATTATT
*
19992583 AAAAATT-TTATT
1 -ATAATTATTATT
19992595 ATAATTAT
1 ATAATTAT
19992603 GGTTAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATAATTATTATT
Found at i:19992594 original size:24 final size:24
Alignment explanation
Indices: 19992561--19992620 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 24
19992551 AAATAATAAT
19992561 AATTATTATTATAATTATGATTAAA
1 AATT-TTATTATAATTATGATTAAA
*
19992586 AATTTTATTATAATTATGGTTAAA
1 AATTTTATTATAATTATGATTAAA
19992610 AATTTATATTA
1 AATTT-TATTA
19992621 AAAATTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 24 0.73
25 9 0.27
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
AATTTTATTATAATTATGATTAAA
Found at i:19992621 original size:13 final size:13
Alignment explanation
Indices: 19992575--19992645 Score: 53
Period size: 13 Copynumber: 5.7 Consensus size: 13
19992565 ATTATTATAA
19992575 TTATGATTAAAAAT
1 TTAT-ATTAAAAAT
*
19992589 TT-TATT-ATAA-
1 TTATATTAAAAAT
*
19992599 TTATGGTTAAAAAT
1 TTAT-ATTAAAAAT
19992613 TTATATTAAAAAT
1 TTATATTAAAAAT
* *
19992626 TAATATT-TAAAT
1 TTATATTAAAAAT
19992638 TTA-ATTAA
1 TTATATTAA
19992646 TAATAATTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
10 2 0.05
11 7 0.16
12 11 0.25
13 18 0.41
14 6 0.14
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTATATTAAAAAT
Found at i:19992649 original size:20 final size:21
Alignment explanation
Indices: 19992626--19992665 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19992616 TATTAAAAAT
*
19992626 TAAT-ATTTAAATTTAATTAA
1 TAATAATTAAAATTTAATTAA
19992646 TAATAATTAAAATTTAATTA
1 TAATAATTAAAATTTAATTA
19992666 CATTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAATTAAAATTTAATTAA
Found at i:20003619 original size:21 final size:22
Alignment explanation
Indices: 20003588--20003629 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20003578 TCCATTTAAA
* *
20003588 TAAATAATATTTTTTAAATATC
1 TAAATAATATTATTAAAATATC
20003610 TAAA-AATATTATTAAAATAT
1 TAAATAATATTATTAAAATAT
20003630 TTTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAATAATATTATTAAAATATC
Found at i:20003637 original size:16 final size:16
Alignment explanation
Indices: 20003616--20003658 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
20003606 TATCTAAAAA
20003616 TATTATTAAAATATTT
1 TATTATTAAAATATTT
20003632 TATTATT-AAAT-TTT
1 TATTATTAAAATATTT
*
20003646 T-TTATCAAAATAT
1 TATTATTAAAATAT
20003659 AAAATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.17
14 8 0.33
15 5 0.21
16 7 0.29
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTAAAATATTT
Found at i:20005371 original size:13 final size:12
Alignment explanation
Indices: 20005343--20005378 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
20005333 TCTATTTAAA
20005343 TATATTAAAAAT
1 TATATTAAAAAT
20005355 TATATTAAAATAT
1 TATATTAAAA-AT
*
20005368 TATATGAAAAA
1 TATATTAAAAA
20005379 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
TATATTAAAAAT
Found at i:20006946 original size:206 final size:204
Alignment explanation
Indices: 20006589--20006959 Score: 469
Period size: 206 Copynumber: 1.8 Consensus size: 204
20006579 TTATACAAAA
* * * *
20006589 TAATAAAAAATAAGAAAAAAAAATTTTTATCCTACAATAAGATTCAAAGATACTTCGAGTAGTGA
1 TAATAAAAAATAAGAAAAAAAAAATTTTATCCAACAATAAGATTCAAAAATACTTCGAGTAGAGA
* * * * *
20006654 TACCTACGAAATCTATATGTGAGAATATTTTTTTAAAATACTACCAATGTATTGGAGTATTTATA
66 TACCTAAGAAATCTATATATGAGAAGATTTTTTTAAAATACTACCAATGTATTGGAATATATATA
*
20006719 AAAAGTTTTCAATACAATAAAAATTTTC-TTTTCTTTAATAAAATAATAAAATTAATTAATAAAT
131 AAAAGTCTTCAATACAAT-AAAATTTTCATTTTCTTTAATAAAATAATAAAATTAATTAATAAAT
20006783 TAAGAATAAG
195 TAAGAATAAG
* ** ** *
20006793 TAAT-AAAAATGAGAAAAAAAAAATTTTATCCAATGATGGGATTCTAAAAATATTTCGAGTAGAG
1 TAATAAAAAATAAGAAAAAAAAAATTTTATCCAACAATAAGATTC-AAAAATACTTCGAGTAGAG
* * * * * *
20006857 ATACTTTAAGAAATTTCTATATGAGAAGATTTTTTTTTAAATATTACCAGTGTATTGGAATATAT
65 ATAC-CTAAGAAATCTATATATGAGAAGA-TTTTTTTAAAATACTACCAATGTATTGGAATATAT
*
20006922 ATAGAAAA-TCTTCAATATAATAAAATTTTCATTTTCTT
128 ATA-AAAAGTCTTCAATACAATAAAATTTTCATTTTCTT
20006960 CAACGTTTTA
Statistics
Matches: 139, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
203 33 0.24
204 24 0.17
205 27 0.19
206 51 0.37
207 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (204 bp):
TAATAAAAAATAAGAAAAAAAAAATTTTATCCAACAATAAGATTCAAAAATACTTCGAGTAGAGA
TACCTAAGAAATCTATATATGAGAAGATTTTTTTAAAATACTACCAATGTATTGGAATATATATA
AAAAGTCTTCAATACAATAAAATTTTCATTTTCTTTAATAAAATAATAAAATTAATTAATAAATT
AAGAATAAG
Found at i:20011128 original size:8 final size:8
Alignment explanation
Indices: 20011115--20011144 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
20011105 AAACGATCCC
20011115 AAAAAAAG
1 AAAAAAAG
*
20011123 AAAAAAAA
1 AAAAAAAG
20011131 AAAAAAAG
1 AAAAAAAG
20011139 AAAAAA
1 AAAAAA
20011145 GATAGGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:20011495 original size:14 final size:15
Alignment explanation
Indices: 20011444--20011497 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 15
20011434 ACATATGCAA
*
20011444 AAAAAAGCAAAAGTG
1 AAAAAAGAAAAAGTG
20011459 AAAGCAAA-AAAAAGTG
1 AAA--AAAGAAAAAGTG
*
20011475 AAGAAAGAAAAAG-G
1 AAAAAAGAAAAAGTG
20011489 AAAAAAGAA
1 AAAAAAGAA
20011498 TAAGATGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 12 0.36
15 9 0.27
16 9 0.27
17 3 0.09
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (15 bp):
AAAAAAGAAAAAGTG
Found at i:20012826 original size:34 final size:34
Alignment explanation
Indices: 20012739--20012826 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
20012729 AGTATTTTTG
**
20012739 AAAAAGACATTTGCATTTCATGTGCATCTTCTAA
1 AAAAAGACATTTGCATTTCATGAACATCTTCTAA
* *
20012773 AAAAAGATATTTTC-TTTCATGAACATCATT-TAA
1 AAAAAGACATTTGCATTTCATGAACATC-TTCTAA
*
20012806 GAAAAGACATTTGCATTTCAT
1 AAAAAGACATTTGCATTTCAT
20012827 TTGCATCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
33 25 0.56
34 20 0.44
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (34 bp):
AAAAAGACATTTGCATTTCATGAACATCTTCTAA
Found at i:20012834 original size:34 final size:35
Alignment explanation
Indices: 20012739--20012835 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 35
20012729 AGTATTTTTG
20012739 AAAAAGACATTTGCATTTCATGTGCATC-TTCTAA
1 AAAAAGACATTTGCATTTCATGTGCATCATTCTAA
* * **
20012773 AAAAAGATATTTTC-TTTCATGAACATCATT-TAA
1 AAAAAGACATTTGCATTTCATGTGCATCATTCTAA
* *
20012806 GAAAAGACATTTGCATTTCATTTGCATCAT
1 AAAAAGACATTTGCATTTCATGTGCATCAT
20012836 AATGGTGTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
33 25 0.49
34 26 0.51
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
AAAAAGACATTTGCATTTCATGTGCATCATTCTAA
Found at i:20013130 original size:42 final size:41
Alignment explanation
Indices: 20013039--20013130 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
20013029 AAGTTCTCGG
* * *
20013039 TGGTGATATCCGAGTAATAAATATGAATTTCATTTTTTCAA
1 TGGTGATATCCGAGTAATAAATATCAATTGCATGTTTTCAA
** *
20013080 TGGTGATATCCGAGTGTTAAA-ACTTCAATTGCATGTTTTCGA
1 TGGTGATATCCGAGTAATAAATA--TCAATTGCATGTTTTCAA
20013122 TGGTGATAT
1 TGGTGATAT
20013131 TTAAATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
40 1 0.02
41 19 0.44
42 23 0.53
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (41 bp):
TGGTGATATCCGAGTAATAAATATCAATTGCATGTTTTCAA
Found at i:20013255 original size:98 final size:98
Alignment explanation
Indices: 20013136--20013410 Score: 349
Period size: 98 Copynumber: 2.8 Consensus size: 98
20013126 GATATTTAAA
* * *
20013136 TTTTTTTCGATGGTGATATCCGAAGTCATTTGAATATCTTCGGTGATAATATCCGAGTGATAAGG
1 TTTTCTTCGATGGCGATATCCGAAGTCATTTGAATATCTTCGGTGGTAATATCCGAGTGATAAGG
20013201 TTTGATTTACATTTTTCGATAATGATATTCGAG
66 TTTGATTTACATTTTTCGATAATGATATTCGAG
* * *
20013234 TTTTCTTCGATGGCGATATCCGAAGTCATTTGCATATTTTCGGTGGTAATATCCGAGTGATAAGA
1 TTTTCTTCGATGGCGATATCCGAAGTCATTTGAATATCTTCGGTGGTAATATCCGAGTGATAAGG
* *
20013299 TTTGATTTACATTTTTTGATAGTGATATTCGAG
66 TTTGATTTACATTTTTCGATAATGATATTCGAG
* * * * ** * * *
20013332 -TTTCTTTGGTGGCGATATTCGAAGTAATTT-ACATATTCTT-AATGGTGATATCTGAGTGTTAA
1 TTTTCTTCGATGGCGATATCCGAAGTCATTTGA-ATA-TCTTCGGTGGTAATATCCGAGTGATAA
*
20013394 GGTTTGATTTGCATTTT
64 GGTTTGATTTACATTTT
20013411 CTTGGTGGTG
Statistics
Matches: 154, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
97 61 0.40
98 93 0.60
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (98 bp):
TTTTCTTCGATGGCGATATCCGAAGTCATTTGAATATCTTCGGTGGTAATATCCGAGTGATAAGG
TTTGATTTACATTTTTCGATAATGATATTCGAG
Found at i:20013400 original size:97 final size:98
Alignment explanation
Indices: 20013064--20013424 Score: 325
Period size: 98 Copynumber: 3.7 Consensus size: 98
20013054 AATAAATATG
* * * *** * * * * *
20013064 AATTT-CATTTTTTCAATGGTGATATCCGAGTGTTAAAACTTCAATTGCATGTTTTCGATGGTGA
1 AATTTACATATTTTCAATGGTAATATCCGAGTGATAAGGTTTGATTTACAT-TTTTTGATAGTGA
** * * *
20013128 TATTTAAATTTTTTTCGATGGTGATATCCGAAGT
65 TATTCGAGTTTTCTTCGATGGCGATATCCGAAGT
* * ** * * *
20013162 CATTTGA-ATATCTTCGGTGATAATATCCGAGTGATAAGGTTTGATTTACATTTTTCGATAATGA
1 AATTT-ACATATTTTCAATGGTAATATCCGAGTGATAAGGTTTGATTTACATTTTTTGATAGTGA
20013226 TATTCGAGTTTTCTTCGATGGCGATATCCGAAGT
65 TATTCGAGTTTTCTTCGATGGCGATATCCGAAGT
* * ** *
20013260 CATTTGCATATTTTCGGTGGTAATATCCGAGTGATAAGATTTGATTTACATTTTTTGATAGTGAT
1 AATTTACATATTTTCAATGGTAATATCCGAGTGATAAGGTTTGATTTACATTTTTTGATAGTGAT
* * *
20013325 ATTCGAG-TTTCTTTGGTGGCGATATTCGAAGT
66 ATTCGAGTTTTCTTCGATGGCGATATCCGAAGT
* * * * * *
20013357 AATTTACATATTCTT-AATGGTGATATCTGAGTGTTAAGGTTTGATTTGCATTTTCTTGGTGGTG
1 AATTTACATATT-TTCAATGGTAATATCCGAGTGATAAGGTTTGATTTACATTTT-TTGATAGTG
20013421 ATAT
64 ATAT
20013425 CCAAGTGTTA
Statistics
Matches: 217, Mismatches: 41, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
97 64 0.29
98 122 0.56
99 31 0.14
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (98 bp):
AATTTACATATTTTCAATGGTAATATCCGAGTGATAAGGTTTGATTTACATTTTTTGATAGTGAT
ATTCGAGTTTTCTTCGATGGCGATATCCGAAGT
Found at i:20013451 original size:42 final size:42
Alignment explanation
Indices: 20013360--20013465 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
20013350 TCGAAGTAAT
* ** * *
20013360 TTACATATTCTTAATGGTGATATCTGAGTGTTAAGGTTTGAT
1 TTACATTTTCTTAATGGTGATATCCAAGTGTTAAGCTTTGAA
* **
20013402 TTGCATTTTCTTGGTGGTGATATCCAAGTGTTAAAGCTTT-AA
1 TTACATTTTCTTAATGGTGATATCCAAGTGTT-AAGCTTTGAA
*
20013444 TTACATTTT-TTTATGGTGATAT
1 TTACATTTTCTTAATGGTGATAT
20013466 TCAAATTTCC
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
41 11 0.21
42 35 0.67
43 6 0.12
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.47
Consensus pattern (42 bp):
TTACATTTTCTTAATGGTGATATCCAAGTGTTAAGCTTTGAA
Found at i:20013522 original size:140 final size:140
Alignment explanation
Indices: 20013261--20013965 Score: 738
Period size: 141 Copynumber: 5.0 Consensus size: 140
20013251 ATCCGAAGTC
* * * * *
20013261 ATTTGCATATTT-TCGGTGGTAATATCCGAGTGAT-AAGATTTGATTTACATTTTTTGATAGTGA
1 ATTTGCAT-TTTCTCGGTGGTGATATCCGAGTGTTAAAG-CTTCAATTACATTTTTTGATAGTGA
* * * * * ** *
20013324 TATTCGAGTTT-CTTTGGTGGCGATATTCGAAGTAATTTACATATTCTTAATGGTGATATCTGAG
64 TATTCAAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATATTCTCGATGGTGATATCCGAG
*
20013388 TGTTAAGGTTTG
129 TGTTAAGATTTG
* * * * *
20013400 ATTTGCATTTTCTTGGTGGTGATATCCAAGTGTTAAAGCTTTAATTACATTTTTTTATGGTGATA
1 ATTTGCATTTTCTCGGTGGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTTTGATAGTGATA
* * * *
20013465 TTCAAATTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATATTCTCGGTGGTGATATTCGAGTA
66 TTCAAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATATTCTCGATGGTGATATCCGAGTG
* *
20013530 TTAAGGTTTA
131 TTAAGATTTG
* * ** * **
20013540 ATTTACATTTTTTTAGTGGTGATATTCGAGTGTTAAAGCTTCAATTGTATTTTTTCGATAGTGAT
1 ATTTGCATTTTCTCGGTGGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTTT-GATAGTGAT
* * * * * *
20013605 ATTCGAGTTTCATTCGATGACGATATCCGAAGTCATTTGCATATTCT-TAGTGTTGATATCCGAG
65 ATTCAAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATATTCTCGA-TGGTGATATCCGAG
20013669 TGTTAAGATTTG
129 TGTTAAGATTTG
* * * *
20013681 ATTTACATTTTCTCAGTAGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTTTCCATAGTGAT
1 ATTTGCATTTTCTCGGTGGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTTT-GATAGTGAT
* * *
20013746 ATTCGAGGTTT-CTTCGGTGGTGATATCCGAAGTCATTTGTATATTCTCGATGGTGATATCCGAG
65 ATTC-AAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATATTCTCGATGGTGATATCCGAG
20013810 TGTTAAGATTTG
129 TGTTAAGATTTG
* * * ** * ** *
20013822 ATTTGTATTTTCTCGGTAGTAATATTTGAGTGTTAAAGCTTCAATTGCATTTTTCAATGGTGATA
1 ATTTGCATTTTCTCGGTGGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTTTGATAGTGATA
* * * * * * *
20013887 TTTAAGTTTCCTTCGATGGTGATATCCGAAG-CTATTTACATATTCTCGATAGTGATATTCGTGT
66 TTCAAGTTTCCTTCGGTGGCGATATCCGAAGTC-ATTTGCATATTCTCGATGGTGATATCCGAGT
* *
20013951 GTTAAAAGTTG
130 GTTAAGATTTG
20013962 ATTT
1 ATTT
20013966 TCATATCCTT
Statistics
Matches: 477, Mismatches: 80, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
138 3 0.01
139 61 0.13
140 173 0.36
141 235 0.49
142 5 0.01
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (140 bp):
ATTTGCATTTTCTCGGTGGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTTTGATAGTGATA
TTCAAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATATTCTCGATGGTGATATCCGAGTG
TTAAGATTTG
Found at i:20013592 original size:42 final size:40
Alignment explanation
Indices: 20013513--20013612 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 40
20013503 CATATTCTCG
* *
20013513 GTGGTGATATTCGAGTATTAAGGTTTAATTTACATTTTTTTA
1 GTGGTGATATTCGAGTATTAAGCTTCAATTTA-A-TTTTTTA
* *
20013555 GTGGTGATATTCGAGTGTTAAAGCTTCAATTGT-ATTTTTTC
1 GTGGTGATATTCGAGTATT-AAGCTTCAATT-TAATTTTTTA
*
20013596 GATAGTGATATTCGAGT
1 G-TGGTGATATTCGAGT
20013613 TTCATTCGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 7 0.14
42 33 0.66
43 9 0.18
44 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (40 bp):
GTGGTGATATTCGAGTATTAAGCTTCAATTTAATTTTTTA
Found at i:20013729 original size:42 final size:42
Alignment explanation
Indices: 20013658--20013752 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
20013648 TTCTTAGTGT
* * *
20013658 TGATATCCGAGTGTTAAGATTTGATTTACATTTTCT-CAGTAG
1 TGATATCCGAGTGTTAAGACTTCAATTACATTTTCTCCA-TAG
*
20013700 TGATATCCGAGTGTTAA-AGCTTCAATTACATTTTTTCCATAG
1 TGATATCCGAGTGTTAAGA-CTTCAATTACATTTTCTCCATAG
*
20013742 TGATATTCGAG
1 TGATATCCGAG
20013753 GTTTCTTCGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (42 bp):
TGATATCCGAGTGTTAAGACTTCAATTACATTTTCTCCATAG
Found at i:20013955 original size:281 final size:279
Alignment explanation
Indices: 20013308--20013965 Score: 752
Period size: 281 Copynumber: 2.3 Consensus size: 279
20013298 ATTTGATTTA
* * * * * *
20013308 CATTTTTT-GATAGTGATATTCGAGTTTC-TTTGGTGGCGATATTCGAAGTAATTTACATATTCT
1 CATTTTTTCAATAGTGATATTCAAGTTTCATTCGATGACGATATCCGAAGTAATTTACATATTC-
* * ** *
20013371 TAATGGTGATA-TCTGAGTGTTAAGGTTTGATTTGCATTTTCTTGGTGGTGATATCCAAGTGTTA
65 TAAT-GTGATATTC-GAGTGTTAAGATTTGATTTACATTTTCTCAGTAGTGATATCCAAGTGTTA
* * *
20013435 AAGCTTTAATTACATTTTTTTATGGTGATATTCAAATTTCCTTCGGTGGCGATATCCGAAGTCAT
128 AAGCTTCAATTACATTTTTTCATAGTGATATTCAAATTTCCTTCGGTGGCGATATCCGAAGTCAT
* * * * * * *
20013500 TTGCATATTCTCGGTGGTGATATTCGAGTATTAAGGTTTAATTTACATTTTTTTAGTGGTGATAT
193 TTGCATATTCTCGATGGTGATATCCGAGTATTAAGATTTAATTTACATTTTCTCAGTAGTAATAT
20013565 TCGAGTGTTAAAGCTTCAATTG
258 TCGAGTGTTAAAGCTTCAATTG
* * * * *
20013587 TATTTTTTCGATAGTGATATTCGAGTTTCATTCGATGACGATATCCGAAGTCATTTGCATATTCT
1 CATTTTTTCAATAGTGATATTCAAGTTTCATTCGATGACGATATCCGAAGTAATTTACATATTC-
* * *
20013652 TAGTGTTGATATCCGAGTGTTAAGATTTGATTTACATTTTCTCAGTAGTGATATCCGAGTGTTAA
65 TAATG-TGATATTCGAGTGTTAAGATTTGATTTACATTTTCTCAGTAGTGATATCCAAGTGTTAA
** *
20013717 AGCTTCAATTACATTTTTTCCATAGTGATATTCGAGGTTT-CTTCGGTGGTGATATCCGAAGTCA
129 AGCTTCAATTACATTTTTT-CATAGTGATATTC-AAATTTCCTTCGGTGGCGATATCCGAAGTCA
* * * ** *
20013781 TTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGATTTGATTTGTATTTTCTCGGTAGTAATA
192 TTTGCATATTCTCGATGGTGATATCCGAGTATTAAGATTTAATTTACATTTTCTCAGTAGTAATA
*
20013846 TTTGAGTGTTAAAGCTTCAATTG
257 TTCGAGTGTTAAAGCTTCAATTG
* * * **
20013869 CA-TTTTTCAATGGTGATATTTAAGTTTCCTTCGATGGTGATATCCGAAGCT-ATTTACATATTC
1 CATTTTTTCAATAGTGATATTCAAGTTTCATTCGATGACGATATCCGAAG-TAATTTACATATTC
* * * *
20013932 TCGATAGTGATATTCGTGTGTTAAAAGTTGATTT
65 T-AAT-GTGATATTCGAGTGTTAAGATTTGATTT
20013966 TCATATCCTT
Statistics
Matches: 320, Mismatches: 50, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
279 7 0.02
280 22 0.07
281 175 0.55
282 112 0.35
283 4 0.01
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (279 bp):
CATTTTTTCAATAGTGATATTCAAGTTTCATTCGATGACGATATCCGAAGTAATTTACATATTCT
AATGTGATATTCGAGTGTTAAGATTTGATTTACATTTTCTCAGTAGTGATATCCAAGTGTTAAAG
CTTCAATTACATTTTTTCATAGTGATATTCAAATTTCCTTCGGTGGCGATATCCGAAGTCATTTG
CATATTCTCGATGGTGATATCCGAGTATTAAGATTTAATTTACATTTTCTCAGTAGTAATATTCG
AGTGTTAAAGCTTCAATTG
Found at i:20014267 original size:48 final size:48
Alignment explanation
Indices: 20014215--20014583 Score: 343
Period size: 49 Copynumber: 7.5 Consensus size: 48
20014205 TAGGACAGTT
20014215 TTTTTCAAGAT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
1 TTTTTCAAGATGAA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * * *
20014263 TTTTTCAAGATGAAAATTTTTAAAGTTATTAAGCCTTTGTTGAG-GGAGC
1 TTTTTCAAGATG-AAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * * **
20014312 TTTTTTTTAAGAT-AAATTTTTAAAGTTATTGAGCCTCTGCTTAGAAAAGCC
1 --TTTTTCAAGATGAAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
* * * * *
20014363 TTTTCCAAGATG-AATTTTAAAGTTATTGAGCCTCTGTTGAGATGAGTT
1 TTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
* * * *
20014411 TTTTTCAAGATGAATTTTTAATGTTGTTGAGCCTCTACTTAGAGGAGTC
1 TTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
* * * * * *
20014460 TTTTCCAAAAT-AAATTTTAAAGTTGTTGAACCTCTACTGAAATGAGC
1 TTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* *
20014507 TTTTTCAAGATGAAAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGC
1 TTTTTCAAGATG-AAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
*
20014557 TTTTTTTCAAGATGAATTTTTAAAGTT
1 --TTTTTCAAGATGAAATTTTAAAGTT
20014584 ATTAAATCTC
Statistics
Matches: 264, Mismatches: 43, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
47 10 0.04
48 79 0.30
49 84 0.32
50 66 0.25
51 13 0.05
52 12 0.05
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (48 bp):
TTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
Found at i:20014427 original size:97 final size:98
Alignment explanation
Indices: 20014211--20014586 Score: 422
Period size: 97 Copynumber: 3.8 Consensus size: 98
20014201 TACCTAGGAC
* * *
20014211 AGTTTTTTTCAAGAT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGAT
1 AGTTTTTTTCAAGATGAA-TTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCCAAGAT
* * *
20014274 GAAAATTTTTAAAGTTATTAAGCCTTTGTTGAG-GG
65 G--AATTTTTAAAGTTATTGAGCCTCTGTTGAGATG
* * * **
20014309 AGCTTTTTTTTAAGATAAATTTTTAAAGTTATTGAGCCTCTGCTTAGAAAAGCCTTTTCCAAGAT
1 AG-TTTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCCAAGAT
20014374 GAA-TTTTAAAGTTATTGAGCCTCTGTTGAGATG
65 GAATTTTTAAAGTTATTGAGCCTCTGTTGAGATG
* * * *
20014407 AGTTTTTTTCAAGATGAATTTTTAATGTTGTTGAGCCTCTACTTAGAGGAGTCTTTTCCAAAAT-
1 AGTTTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCCAAGATG
* * * ** *
20014471 AAATTTTAAAGTTGTTGAACCTCTACTGAAATG
66 AATTTTTAAAGTTATTGAGCCTCTGTTGAGATG
* * * *
20014504 AG-CTTTTTCAAGATGAAAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTTTCAAG
1 AGTTTTTTTCAAGATG--AATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-CTTTTCCAAG
20014568 ATGAATTTTTAAAGTTATT
63 ATGAATTTTTAAAGTTATT
20014587 AAATCTCTGA
Statistics
Matches: 235, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
96 14 0.06
97 105 0.45
98 39 0.17
99 49 0.21
100 28 0.12
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (98 bp):
AGTTTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCCAAGATG
AATTTTTAAAGTTATTGAGCCTCTGTTGAGATG
Found at i:20014595 original size:50 final size:50
Alignment explanation
Indices: 20014213--20014586 Score: 351
Period size: 48 Copynumber: 7.6 Consensus size: 50
20014203 CCTAGGACAG
* * *
20014213 TTTTTTTCAAGAT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
1 TTTTTTTCAAGATGAA-TTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGC
* *
20014263 --TTTTTCAAGATGAAAATTTTTAAAGTTATTAAGCCTTTG-TT-GAGGGAGC
1 TTTTTTTCAAGATG--AATTTTTAAAGTTATTGAGCCTCTGCTTAGA-GGAGC
* * **
20014312 TTTTTTTTAAGATAAATTTTTAAAGTTATTGAGCCTCTGCTTAGAAAAGC
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGC
* * *
20014362 -CTTTTCCAAGATGAA-TTTTAAAGTTATTGAGCCTCTG-TTGAGATGAG-
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTT-AGAGGAGC
* * *
20014409 TTTTTTTCAAGATGAATTTTTAATGTTGTTGAGCCTCTACTTAGAGGAG-
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGC
* * * * * * * * * *
20014458 TCTTTTCCAAAAT-AAATTTTAAAGTTGTTGAACCTCTACTGAAATGAGC
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGC
* *
20014507 --TTTTTCAAGATGAAAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGC
1 TTTTTTTCAAGATG--AATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGC
20014557 TTTTTTTCAAGATGAATTTTTAAAGTTATT
1 TTTTTTTCAAGATGAATTTTTAAAGTTATT
20014587 AAATCTCTGA
Statistics
Matches: 266, Mismatches: 40, Indels: 36
0.78 0.12 0.11
Matches are distributed among these distances:
47 11 0.04
48 82 0.31
49 75 0.28
50 72 0.27
51 14 0.05
52 12 0.05
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41
Consensus pattern (50 bp):
TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGC
Found at i:20014604 original size:50 final size:49
Alignment explanation
Indices: 20014213--20014608 Score: 301
Period size: 50 Copynumber: 8.0 Consensus size: 49
20014203 CCTAGGACAG
* * *
20014213 TTTTTTTCAAGAT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
1 TTTTTTTCAAGATGAA-TTTTTAAAGTTATTGAGCCTCTGTTG-GAGGAGC
* *
20014263 --TTTTTCAAGATGAAAATTTTTAAAGTTATTAAGCCTTTGTT-GAGGGAGC
1 TTTTTTTCAAGATG--AATTTTTAAAGTTATTGAGCCTCTGTTGGA-GGAGC
* * * **
20014312 TTTTTTTTAAGATAAATTTTTAAAGTTATTGAGCCTCTGCTTAGAAAAGC
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTG-TTGGAGGAGC
* * *
20014362 -CTTTTCCAAGATGAA-TTTTAAAGTTATTGAGCCTCTGTTGAGATGAG-
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGTTG-GAGGAGC
* * * *
20014409 TTTTTTTCAAGATGAATTTTTAATGTTGTTGAGCCTCTACTTAGAGGAG-
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCT-GTTGGAGGAGC
* * * * * * ** * *
20014458 TCTTTTCCAAAAT-AAATTTTAAAGTTGTTGAACCTCTACTGAAATGAGC
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGTTG-GAGGAGC
* * *
20014507 --TTTTTCAAGATGAAAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGC
1 TTTTTTTCAAGATG--AATTTTTAAAGTTATTGAGCCTCTG-TTGGAGGAGC
* **
20014557 TTTTTTTCAAGATGAATTTTTAAAGTTATTAAATCTCTGATTGGAGGAGC
1 TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTG-TTGGAGGAGC
20014607 TT
1 TT
20014609 CTTAATTAAC
Statistics
Matches: 277, Mismatches: 49, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
47 12 0.04
48 77 0.28
49 73 0.26
50 88 0.32
51 15 0.05
52 12 0.04
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (49 bp):
TTTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGTTGGAGGAGC
Found at i:20015061 original size:21 final size:20
Alignment explanation
Indices: 20015027--20015075 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20015017 GAAGTGACCC
*
20015027 AAAAAAAA-TGTTTCCAGAA
1 AAAAAAAATTCTTTCCAGAA
* *
20015046 TAAAAAAAATTCTTTCTATAA
1 -AAAAAAAATTCTTTCCAGAA
20015067 AAAAAAAAT
1 AAAAAAAAT
20015076 CAAAACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAAAAATTCTTTCCAGAA
Found at i:20017753 original size:8 final size:8
Alignment explanation
Indices: 20017740--20017770 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
20017730 ACCAAAAATA
20017740 GAGGGGTT
1 GAGGGGTT
20017748 GAGGGGTT
1 GAGGGGTT
20017756 GAGGGGTT
1 GAGGGGTT
20017764 GAGGGGT
1 GAGGGGT
20017771 GGTGGGTCTA
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:0.13, C:0.00, G:0.65, T:0.23
Consensus pattern (8 bp):
GAGGGGTT
Done.