Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2334
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: 268611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:1058 original size:2 final size:2
Alignment explanation
Indices: 1051--1077 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1041 TACCTTTTCT
1051 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1078 TTTGGCCCTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4634 original size:2 final size:2
Alignment explanation
Indices: 4627--4653 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4617 AAATTTTTAA
4627 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4654 CTTATAGAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5386 original size:39 final size:41
Alignment explanation
Indices: 5284--5387 Score: 97
Period size: 41 Copynumber: 2.6 Consensus size: 41
5274 AAAGACATGA
* * * * *
5284 ATTTTTTATTGGATTTTGAAAGATATTAGTAATGCATATAG
1 ATTTTTTATTGGAATTCGAAAGATATGACTAATACATATAG
* * *
5325 ATTATTTATT-GAAATCTAAAAGATATGACTAATACATA-A-
1 ATTTTTTATTGGAATTC-GAAAGATATGACTAATACATATAG
*
5364 TTTTTTTATTGGAATTCGAAAGAT
1 ATTTTTTATTGGAATTCGAAAGAT
5388 GGGACTTGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
39 14 0.29
40 9 0.18
41 26 0.53
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (41 bp):
ATTTTTTATTGGAATTCGAAAGATATGACTAATACATATAG
Found at i:6123 original size:22 final size:22
Alignment explanation
Indices: 6078--6123 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6068 AATTCGGGTT
*
6078 TAGGACGAAAACTTATATTACC
1 TAGGACGAAAACTTATATCACC
* *
6100 TAGGATGAAAACTTATATCGCC
1 TAGGACGAAAACTTATATCACC
6122 TA
1 TA
6124 TACGCCTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
TAGGACGAAAACTTATATCACC
Found at i:6828 original size:81 final size:81
Alignment explanation
Indices: 6683--6855 Score: 197
Period size: 81 Copynumber: 2.1 Consensus size: 81
6673 ATCACCAAAG
* *
6683 ATGAAAAATTCGATGCTTTTGAAAGTAAAAATAGGGTTAGAGTATTCTTTCAAAGACTATGGGGT
1 ATGAAAAATTCGATGCTTTTGAAAGTAAAAACAGGGTTAGAGTATTCTTTCAAAGACTACGGGGT
* *
6748 TGGACTATCCTCGAAA
66 TGGACTACCCCCGAAA
* * * ***
6764 ATGAAAAATTCGATGCTTTTGGAAGTAAAAACGGGGTTTGAGTA-TCTTCTTGGAGA-TGACGGG
1 ATGAAAAATTCGATGCTTTTGAAAGTAAAAACAGGGTTAGAGTATTCTT-TCAAAGACT-ACGGG
* *
6827 GTTGGAGTACCCCCGAAG
64 GTTGGACTACCCCCGAAA
6845 ATGGAAAAATT
1 AT-GAAAAATT
6856 TAATGTTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.06
81 64 0.83
82 8 0.10
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (81 bp):
ATGAAAAATTCGATGCTTTTGAAAGTAAAAACAGGGTTAGAGTATTCTTTCAAAGACTACGGGGT
TGGACTACCCCCGAAA
Found at i:11572 original size:20 final size:21
Alignment explanation
Indices: 11535--11580 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
11525 TTCTACAATT
11535 TGTATCAATACAATAAGTGAA
1 TGTATCAATACAATAAGTGAA
11556 TGTATCAATAC-ATAAGTGAA
1 TGTATCAATACAATAAGTGAA
11576 TGTAT
1 TGTAT
11581 TGATACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCAATACAATAAGTGAA
Found at i:11912 original size:13 final size:13
Alignment explanation
Indices: 11894--11920 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11884 ACATTATGCT
11894 TTGTATCGATACA
1 TTGTATCGATACA
11907 TTGTATCGATACA
1 TTGTATCGATACA
11920 T
1 T
11921 GCTCACTGTA
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:11950 original size:52 final size:52
Alignment explanation
Indices: 11855--11959 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 52
11845 AACCCTTGAA
* * *
11855 TGTATCGATACACGCTCAGATGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACACGCTCAGATGTATCGATACATGA-GCATTGTATCAATACAT
* *
11908 TGTATCGATACATGCTCA-CTGTATCGATACATG-GACAATTGTATCAATACAT
1 TGTATCGATACACGCTCAGATGTATCGATACATGAG-C-ATTGTATCAATACAT
11960 GAGATTGGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
50 1 0.02
51 1 0.02
52 26 0.58
53 17 0.38
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (52 bp):
TGTATCGATACACGCTCAGATGTATCGATACATGAGCATTGTATCAATACAT
Found at i:11952 original size:20 final size:19
Alignment explanation
Indices: 11904--11960 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
11894 TTGTATCGAT
11904 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
11923 TCACTGTATCGATACATGG
1 ACATTGTATCGATACATGC
*
11942 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
11961 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:12028 original size:13 final size:13
Alignment explanation
Indices: 12010--12058 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
12000 CATGGGACAA
12010 TGTATCGATACAT
1 TGTATCGATACAT
12023 TGTATCGATACA-
1 TGTATCGATACAT
*
12035 TG-A-GGA-A-AT
1 TGTATCGATACAT
12044 TGTATCGATACAT
1 TGTATCGATACAT
12057 TG
1 TG
12059 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12053 original size:34 final size:33
Alignment explanation
Indices: 11989--12058 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
11979 CTATCACTAT
11989 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGACAATGTATCGATACA
12022 TTGTATCGATACATGAGGA-AATTGTATCGATACA
1 TTGTATCGATACATG-GGACAA-TGTATCGATACA
12056 TTG
1 TTG
12059 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGGACAATGTATCGATACA
Found at i:15646 original size:69 final size:69
Alignment explanation
Indices: 15557--15914 Score: 263
Period size: 69 Copynumber: 5.3 Consensus size: 69
15547 TTGGGGTTGC
* * * * *
15557 CAAGAACTTTCATGTTAAAGGCATGCTTTAGAGGATATATTGATCGTTTTTAGAGTCCTTTAGGG
1 CAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGATATGTTGATCATTTTTAGAGTCCTTTAGGG
15622 TCAT
66 TCAT
* * ** * * * *
15626 CAAGAATTTTCATGTCAAAGGTGTGCTTTAAA-GAGTATCTTAATCATTTTTAAAG-CCTTTTAA
1 CAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGA-TATGTTGATCATTTTTAGAGTCC-TTTAG
*
15689 GGTCAC
64 GGTCAT
* ** *
15695 CAAAAACTTTCGTGTCAAAGGCATGCTTTAAAGGGCATGTTGGTCATTTTTAGAGTCCTTTAGGG
1 CAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGATATGTTGATCATTTTTAGAGTCCTTTAGGG
*
15760 TCCT
66 TCAT
* * * ** *
15764 -AGGAGCTTTCGTGTCAAAGGCATGCTTTAAAAGG-TGTGTTGAT-GGTTTTAGAGTTC-TTA-G
1 CAAGAACTTTCGTGTCAAAGGCATGCTTT-AAAGGATATGTTGATCATTTTTAGAGTCCTTTAGG
15824 GTCA-
65 GTCAT
* * * * * *
15828 CTAAGAA-TTTTGTGTCAAAGGCATACTTT--AGCAGTATGTTGGTCATTTTTGGAGGT-CGTTA
1 C-AAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGA-TATGTTGATCATTTTTAGA-GTCCTTTA
15889 GGGTCAT
63 GGGTCAT
* * * *
15896 GAGGACCTTTCATGTCAAA
1 CAAGAACTTTCGTGTCAAA
15915 CGTGCACTTT
Statistics
Matches: 224, Mismatches: 50, Indels: 31
0.73 0.16 0.10
Matches are distributed among these distances:
62 2 0.01
64 7 0.03
65 31 0.14
66 11 0.05
67 18 0.08
68 45 0.20
69 107 0.48
70 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (69 bp):
CAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGATATGTTGATCATTTTTAGAGTCCTTTAGGG
TCAT
Found at i:18317 original size:28 final size:29
Alignment explanation
Indices: 18263--18318 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
18253 AAAACCAGAG
* * *
18263 AATAAAAATGGAGTAAAAAGATCAAGAAA
1 AATAAAAATGGAGAAAAAAAAGCAAGAAA
*
18292 AATAAAAAT-GAGAAAAAAAAGGAAGAA
1 AATAAAAATGGAGAAAAAAAAGCAAGAA
18319 TATAACCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.11
Consensus pattern (29 bp):
AATAAAAATGGAGAAAAAAAAGCAAGAAA
Found at i:19198 original size:59 final size:59
Alignment explanation
Indices: 19022--19198 Score: 218
Period size: 59 Copynumber: 3.1 Consensus size: 59
19012 TTCTATGACT
* * * *
19022 TAGGGACTTTTATGC-AATTTCAGGCATTTTAGGGTCATTTAGGTCATTTTTCATAATC
1 TAGGGACTTTTATGCAAATTTCATGTATATTAGGGTCATTTAGGTCATTTTTCATGATC
* ** *
19080 TA--GATTTTTATAAAAATTTCATGTATATTGGGGTCATTTAGGTCA-TTTTCTATGATC
1 TAGGGACTTTTATGCAAATTTCATGTATATTAGGGTCATTTAGGTCATTTTTC-ATGATC
* * *
19137 TAGGGACTTTTATGCAAATTTCATGTATGTTAGGATCATTTAGGTCATTTTTCATGCTC
1 TAGGGACTTTTATGCAAATTTCATGTATATTAGGGTCATTTAGGTCATTTTTCATGATC
19196 TAG
1 TAG
19199 AGATTTTCGT
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
56 13 0.13
57 34 0.34
58 2 0.02
59 45 0.45
60 5 0.05
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (59 bp):
TAGGGACTTTTATGCAAATTTCATGTATATTAGGGTCATTTAGGTCATTTTTCATGATC
Found at i:19232 original size:116 final size:116
Alignment explanation
Indices: 19009--19244 Score: 273
Period size: 116 Copynumber: 2.0 Consensus size: 116
18999 TATCCTAGTA
* *
19009 ATTTTCTATGACTTAGGGACTTTTATGCAATTTCAGGCATTTTAGGGTCATTTAGGTCATTTTTC
1 ATTTTCTATGACTTAGGGACTTTTATGCAATTTCAGGCATGTTAGGATCATTTAGGTCATTTTTC
* * * *
19074 ATAATCTAGATTTTTATAAAAATTTCATGTATATTGGGGTCATTTAGGT-C
66 ATAATCTAGATTTTCATAAAAATTTCATGAATATTGAGGTCATGTAGGTCC
* *
19124 ATTTTCTATGA-TCTAGGGACTTTTATGCAAATTTCATGTATGTTAGGATCATTTAGGTCATTTT
1 ATTTTCTATGACT-TAGGGACTTTTATGC-AATTTCAGGCATGTTAGGATCATTTAGGTCATTTT
** * ** * *
19188 TCATGCTCTAGAGATTTTCGT-GCAATTTTATGAAT-TTGATGTCATGTAGGTCC
64 TCATAATCT--AGATTTTCATAAAAATTTCATGAATATTGAGGTCATGTAGGTCC
19241 ATTT
1 ATTT
19245 AGATTATTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
114 1 0.01
115 26 0.26
116 51 0.50
117 15 0.15
118 8 0.08
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (116 bp):
ATTTTCTATGACTTAGGGACTTTTATGCAATTTCAGGCATGTTAGGATCATTTAGGTCATTTTTC
ATAATCTAGATTTTCATAAAAATTTCATGAATATTGAGGTCATGTAGGTCC
Found at i:22220 original size:20 final size:20
Alignment explanation
Indices: 22195--22251 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
22185 TTTTACCTAG
22195 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
22215 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTTCA
*
22235 ATGTATCGATTCATTCT
1 ATGTATCGATACATTCT
22252 GTCTTTTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:24283 original size:21 final size:21
Alignment explanation
Indices: 24250--24290 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24240 CTAAGTAAAA
24250 ATACGTATTGTATTAATACAT
1 ATACGTATTGTATTAATACAT
24271 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATTAATACA
24291 CAAGGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
ATACGTATTGTATTAATACAT
Found at i:24470 original size:13 final size:13
Alignment explanation
Indices: 24452--24477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24442 TACACAAAGT
24452 ATGTATCGATACA
1 ATGTATCGATACA
24465 ATGTATCGATACA
1 ATGTATCGATACA
24478 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24475 original size:32 final size:33
Alignment explanation
Indices: 24434--24497 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
24424 TAGCCAAACT
**
24434 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
24466 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
24498 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:26698 original size:84 final size:84
Alignment explanation
Indices: 26525--26685 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 84
26515 ACTCAAAGAA
* * * *
26525 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAAAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAAAAGAG
* *
26590 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* * *
26609 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATTAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAAAAG
26672 A-AAAGAAATGAGTT
64 AGAAAGAAA-GAGTT
26686 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 4 0.06
83 6 0.09
84 55 0.85
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAAAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:28214 original size:13 final size:13
Alignment explanation
Indices: 28196--28220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28186 TTTTCCAAAT
28196 TGTATCGATACAA
1 TGTATCGATACAA
28209 TGTATCGATACA
1 TGTATCGATACA
28221 TTACTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:29871 original size:21 final size:21
Alignment explanation
Indices: 29838--29878 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29828 CTAAGTAAAA
29838 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
29859 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
29879 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:30058 original size:13 final size:13
Alignment explanation
Indices: 30040--30065 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30030 TACACAAAGT
30040 ATGTATCGATACA
1 ATGTATCGATACA
30053 ATGTATCGATACA
1 ATGTATCGATACA
30066 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30063 original size:32 final size:33
Alignment explanation
Indices: 30022--30085 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
30012 TAGCCAAACT
**
30022 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
30054 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
30086 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:43010 original size:1 final size:1
Alignment explanation
Indices: 43004--43121 Score: 92
Period size: 1 Copynumber: 118.0 Consensus size: 1
42994 TCTTCGTACC
* * ** * * * * *
43004 AAAAAAAATAAAAAAAAACAAAAAAAACCAAGAAAAAAAACAAAAAAAAAAACAAAAAACAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
43069 AAAAAATAAAAAAAAACAAAAAAAAAACAAACAAAAAACAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
43122 TGGGTCCAAA
Statistics
Matches: 87, Mismatches: 30, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 87 1.00
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:43039 original size:22 final size:19
Alignment explanation
Indices: 43003--43121 Score: 123
Period size: 19 Copynumber: 6.0 Consensus size: 19
42993 TTCTTCGTAC
*
43003 CAAAAAAAATAAAAAAAAA
1 CAAAAAAAAAAAAAAAAAA
43022 CAAAAAAAACCAAGAAAAAAAA
1 CAAAAAAAA--AA-AAAAAAAA
*
43044 CAAAAAAAAAAACAAAAAA
1 CAAAAAAAAAAAAAAAAAA
* *
43063 CAAAAGAAAAAATAAAAAA
1 CAAAAAAAAAAAAAAAAAA
* *
43082 -AAACAAAAAAAAAACAAA
1 CAAAAAAAAAAAAAAAAAA
43100 CAAAAAACAAACAAACAAAAAA
1 CAAAAAA-AAA-AAA-AAAAAA
43122 TGGGTCCAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
18 14 0.17
19 38 0.46
20 5 0.06
21 4 0.05
22 22 0.27
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (19 bp):
CAAAAAAAAAAAAAAAAAA
Found at i:43041 original size:15 final size:15
Alignment explanation
Indices: 43013--43121 Score: 104
Period size: 15 Copynumber: 7.3 Consensus size: 15
43003 CAAAAAAAAT
43013 AAAAAAAAACAAA-A
1 AAAAAAAAACAAACA
43027 AAAACCAAGAAA-AAA-A
1 AAAA--AA-AAACAAACA
43043 ACAAAAAAAA-AAACA
1 A-AAAAAAAACAAACA
*
43058 AAAAACAAAAGAAA-A
1 AAAAA-AAAACAAACA
*
43073 AATAAAAAA-AAACA
1 AAAAAAAAACAAACA
43087 AAAAAAAAACAAACA
1 AAAAAAAAACAAACA
*
43102 AAAAACAAACAAACA
1 AAAAAAAAACAAACA
43117 AAAAA
1 AAAAA
43122 TGGGTCCAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 17
0.81 0.03 0.17
Matches are distributed among these distances:
13 3 0.04
14 27 0.33
15 37 0.45
16 10 0.12
17 6 0.07
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (15 bp):
AAAAAAAAACAAACA
Found at i:43048 original size:41 final size:41
Alignment explanation
Indices: 43003--43110 Score: 132
Period size: 41 Copynumber: 2.6 Consensus size: 41
42993 TTCTTCGTAC
*
43003 CAAAAAAAATAAA-AAAAAACAAAA-AAAACCAA-GAAAAAAAA
1 CAAAAAAAA-AAACAAAAAACAAAAGAAAA--AATAAAAAAAAA
43044 CAAAAAAAAAAACAAAAAACAAAAGAAAAAATAAAAAAAAA
1 CAAAAAAAAAAACAAAAAACAAAAGAAAAAATAAAAAAAAA
43085 CAAAAAAAAAACAAACAAAAAACAAA
1 C--AAAAAAAA-AAACAAAAAACAAA
43111 CAAACAAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
40 5 0.08
41 29 0.48
42 4 0.07
43 8 0.13
44 14 0.23
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (41 bp):
CAAAAAAAAAAACAAAAAACAAAAGAAAAAATAAAAAAAAA
Found at i:43050 original size:33 final size:32
Alignment explanation
Indices: 43004--43121 Score: 116
Period size: 34 Copynumber: 3.6 Consensus size: 32
42994 TCTTCGTACC
*
43004 AAAAAAAATAAAAAAAAACAAAAAA-AACCAAG
1 AAAAAAAAAAAAAAAAAACAAAAAACAA-CAAG
43036 AAAAAAAACAAAAAAAAAAACAAAAAACAA-AAG
1 -AAAAAAA-AAAAAAAAAAACAAAAAACAACAAG
*
43069 AAAAAATAAAAAAAAACAAAAAAAAAACAAACAA-
1 AAAAAA-AAAAAAAAA-AAACAAAAAAC-AACAAG
* *
43103 AAAACAAACAAACAAAAAA
1 AAAA-AAAAAAAAAAAAAA
43122 TGGGTCCAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
32 14 0.19
33 24 0.32
34 30 0.41
35 6 0.08
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (32 bp):
AAAAAAAAAAAAAAAAAACAAAAAACAACAAG
Found at i:43073 original size:44 final size:44
Alignment explanation
Indices: 43004--43120 Score: 141
Period size: 44 Copynumber: 2.6 Consensus size: 44
42994 TCTTCGTACC
* *
43004 AAAAAAAATAAAAAA-AAACAAAAAAAACCAAGAAAAAAA-ACAAA
1 AAAAAAAACAAAAAACAAACAAAAAAAA-CAA-AAAAAAACAAAAA
* *
43048 AAAAAAAACAAAAAACAAA-AGAAAAAATAAAAAAAAACAAAAA
1 AAAAAAAACAAAAAACAAACAAAAAAAACAAAAAAAAACAAAAA
43091 AAAAACAAACAAAAAACAAACAAACAAAAA
1 AAAAA-AAACAAAAAACAAACAAA-AAAAA
43121 ATGGGTCCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 7 0.11
43 11 0.17
44 35 0.56
45 5 0.08
46 5 0.08
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (44 bp):
AAAAAAAACAAAAAACAAACAAAAAAAACAAAAAAAAACAAAAA
Found at i:43073 original size:52 final size:50
Alignment explanation
Indices: 43003--43121 Score: 157
Period size: 53 Copynumber: 2.3 Consensus size: 50
42993 TTCTTCGTAC
* *
43003 CAAAAAAAATAAAAAAAAACAAAAAAAACCAAGAAAAAAAACAAAAAAAAAAA
1 CAAAAAACA-AAAAAAAAACAAAAAAAAACAA-AAAAAAAAC-AAAAAAAAAA
* *
43056 CAAAAAACAAAAGAAAAAATAAAAAAAAACAAAAAAAAAACAAACAAAAAA
1 CAAAAAACAAAA-AAAAAACAAAAAAAAACAAAAAAAAAACAAAAAAAAAA
43107 CAAACAAACAAAAAA
1 CAAA-AAACAAAAAA
43122 TGGGTCCAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
51 15 0.25
52 20 0.33
53 25 0.42
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (50 bp):
CAAAAAACAAAAAAAAAACAAAAAAAAACAAAAAAAAAACAAAAAAAAAA
Found at i:44396 original size:28 final size:28
Alignment explanation
Indices: 44360--45744 Score: 1470
Period size: 28 Copynumber: 48.7 Consensus size: 28
44350 CCAGAACGTT
* ** *
44360 CATCTTTTCAAAGCCTGCAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44388 CATCCTTTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* **
44416 CAT-CTCTTCAAAAGACCACGGGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
* *
44445 CATCCTTTCAAAGCCCATAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44473 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44501 CATCCTTTCAAAGCCGACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44529 CATCCTTTCAAAGCCCACAAATCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44557 CA-CCTTTTCAAAGCCCATAAGTCAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
* * *
44585 CATCCTTTCAAAGTCGACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44613 CATCCTTTCAAAGCCGACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44641 CAT-CTCTTCAAAAGACCACAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
*
44670 CATCCTTTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44698 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44726 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
44754 CATCATTTCAAAACCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44782 CATCCTTTCAAAGCTCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
44810 CAT-CTCTTCAAAAGACTATAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
44839 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
* * * *
44867 CAACCTTTTAAAGCACACAAGTCAATGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
44895 CATACCCTTTCAAAGCCTACACAAATCAGTGG
1 CAT--CCTTTCAAAGCC--CACAAGTCAGTGG
* * * *
44927 CACCCTTCCAAAGCCCACAAGTTAGTAG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
44955 CATACCCTTTCAAAGCCCACACAAATCAGTGT
1 CAT--CCTTTCAAAG-CC-CACAAGTCAGTGG
***
44987 CA-CCTTTCCAAAGTGAACAAGTCAGTGG
1 CATCCTTT-CAAAGCCCACAAGTCAGTGG
*
45015 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
45043 CACCCTTTCAAAGCCCACATAAATCAGTGG
1 CATCCTTTCAAAGCCCAC--AAGTCAGTGG
* * *
45073 CACCCTTCCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
45101 CACCCTTTCAAAGCTCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
45129 CAT-CTCTTCAAAAGACCACAAGTTAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
45158 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
45186 CACCCTCTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
45214 CACCCTCTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
45242 CA-CCTTTTCAAAGCCCATAAGTCAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
45270 CA-CTCTTTCAAAGCCCACAAGTCA-TGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
* * * * * * *
45297 TACCCCTTCAAAGCCTATAACTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
45325 CA-CCTTTCCAAAGCCCACAAGTTAGTGG
1 CATCCTTT-CAAAGCCCACAAGTCAGTGG
*
45353 CATAACCTTTCAAAGCCCACACAAATCAGTGG
1 CAT--CCTTTCAAAG-CC-CACAAGTCAGTGG
* *
45385 CACCCTTCCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
45413 CACCCTTTCAAAGCCCACACAAATCAGTGG
1 CATCCTTTCAAAG-CC-CACAAGTCAGTGG
* *
45443 TA-CCTTTCTAAAGCCCACAAGTTAGTGG
1 CATCCTTTC-AAAGCCCACAAGTCAGTGG
* * *
45471 CACCCTTTCAAAACCCACAAGTCAATGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
45499 CAT-CTCTTCAAAAGACCACAAGTTAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
*
45528 CATCCTTTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
45556 CACCCTCTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
45584 CA-CTCTTCCAAAGCCCACAAGTAAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
* *
45612 CA-CTTTTTCAAAGCCCACAAGTTAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
* *
45640 C-CCTCTTTCGAAGCCCACAAGTCAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
* * * *
45668 TACCCCTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
45696 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
45724 CATACCCTTTCAAAGCCCACA
1 CAT--CCTTTCAAAGCCCACA
45745 CAAGTTAGTG
Statistics
Matches: 1156, Mismatches: 151, Indels: 98
0.82 0.11 0.07
Matches are distributed among these distances:
27 38 0.03
28 813 0.70
29 143 0.12
30 116 0.10
31 9 0.01
32 37 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:44662 original size:169 final size:167
Alignment explanation
Indices: 44365--45758 Score: 1526
Period size: 169 Copynumber: 8.2 Consensus size: 167
44355 ACGTTCATCT
** * * * *
44365 TTTCAAAGCCTGCAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCTCTTCAAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCT-TTC-AAAG
* ** * * *
44430 ACCACGGGTCAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCA-CCCTTTCAAAGCCCACAAG
64 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTC-TTCAAAGCCCACAAG
* *
44494 TCAGTGGCATCCTTTCAAAGCCGACAAGTCAGTGGCATCC
128 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
44534 TTTCAAAGCCCACAAATCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGC
* * * *
44599 CGACAAGTTAGTGGCATCCTTTCAAAGCCGACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGT
65 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAGCCCACAAGT
* *
44664 CAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCC
129 CAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
44703 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAAC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGC
* * * *
44768 CCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCTCTTCAAAAGACTATAAGT
65 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAGCCCACAAGT
*
44833 CAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCAACC
129 CAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
44872 TTTTAAAGCACACAAGTCAATGGCATACCCTTTCAAAGCCTACACAAATCAGTGGCACCCTTCCA
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAAAGCC--CACAAGTCAGTGGCA-CCTTTCA
* * * * * *
44937 AAGCCCACAAGTTAGTAGCATACCCTTTCAAAGCCCACACAAATCAGTGTCACCT-TTCCAAAGT
61 AAGCCCACAAGTCAGTGGCAT--CCTTTCAAAG-CC-CACAAGTCAGTGGCATCTCTT-CAAAGC
** *
45001 GAACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
121 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
45048 TTTCAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGCCCATAAGTCAGTGGCACCCTTTCAAA
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAA
* * *
45113 GCTCACAAGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTTAGTGGCATC-CTTTCAAAGCCCAC
63 GCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCTC-TTCAAAGCCCAC
* * *
45176 AAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGGCACCC
125 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
45219 TCTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTCAAAGC
* * * * * * * *
45284 CCACAAGTCA-TGGTACCCCTTCAAAGCCTATAACTTAGTGGCACCT-TTCCAAAGCCCACAAGT
65 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTT-CAAAGCCCACAAGT
* *
45347 TAGTGGCATAACCTTTCAAAGCCCACACAAATCAGTGGCACCC
129 CAGTGGCAT--CCTTTCAAAG-CC-CACAAGTCAGTGGCACCC
* * *
45390 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAATCAGTGGTACCTTTCTAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCACCTTTC-AAA
* * * * *
45455 GCCCACAAGTTAGTGGCACCCTTTCAAAACCCACAAGTCAATGGCATCTCTTCAAAAGACCACAA
63 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAGCCCACAA
* *
45520 GTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCC
127 GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
45561 TCTCAAAGCCCACAAGTTAGTGGCACTCTTCCAAAGCCCACAAGTAAGTGGCACTTTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTCAAAGC
* * * * * *
45626 CCACAAGTTAGTGGC-CCTCTTTCGAAGCCCACAAGTCAGTGGTACCCCTTCAAAGCCCACAAGT
65 CCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCCCACAAGT
* *
45690 TAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCC
129 CAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC--ACCC
*
45731 TTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTTCAAAG-CC-CACAAGTCAGTGGCAC
45759 TTTTTTTAAA
Statistics
Matches: 1052, Mismatches: 133, Indels: 77
0.83 0.11 0.06
Matches are distributed among these distances:
166 2 0.00
167 39 0.04
168 101 0.10
169 398 0.38
170 21 0.02
171 185 0.18
172 31 0.03
173 78 0.07
174 66 0.06
175 33 0.03
176 71 0.07
177 18 0.02
178 9 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (167 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCC
CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCCCACAAGTCA
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:46648 original size:31 final size:31
Alignment explanation
Indices: 46613--46696 Score: 168
Period size: 31 Copynumber: 2.7 Consensus size: 31
46603 AAAAGTCACA
46613 TTTTTACCCAGATGTATCGATACATCTTATC
1 TTTTTACCCAGATGTATCGATACATCTTATC
46644 TTTTTACCCAGATGTATCGATACATCTTATC
1 TTTTTACCCAGATGTATCGATACATCTTATC
46675 TTTTTACCCAGATGTATCGATA
1 TTTTTACCCAGATGTATCGATA
46697 AATTGAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (31 bp):
TTTTTACCCAGATGTATCGATACATCTTATC
Found at i:61738 original size:21 final size:21
Alignment explanation
Indices: 61691--61742 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
61681 ATACTACGCG
* * * *
61691 TAAAAAAAATTAATCAATCAA
1 TAAATAAAATAAATAAATAAA
*
61712 TCAATAAAATAAATAAATAAA
1 TAAATAAAATAAATAAATAAA
61733 TAAATAAAAT
1 TAAATAAAAT
61743 CAGATGAAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAATAAAATAAATAAATAAA
Found at i:62096 original size:21 final size:21
Alignment explanation
Indices: 62067--62107 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
62057 AAAGGTCAAC
62067 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
62089 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
62108 TTGCTTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 2 0.11
22 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:62682 original size:23 final size:23
Alignment explanation
Indices: 62638--62682 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62628 TGCATTCAAT
*
62638 TTTGGGTTACAATCTCTTAAGAA
1 TTTGGGGTACAATCTCTTAAGAA
*
62661 TTTGGGGTATAAT-TCTTGAAGA
1 TTTGGGGTACAATCTCTT-AAGA
62683 GATTCAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TTTGGGGTACAATCTCTTAAGAA
Found at i:64410 original size:21 final size:21
Alignment explanation
Indices: 64380--64420 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64370 TGGTAATAAA
*
64380 GAATTAGCTAATAAAAACAAC
1 GAATTAGCTAAGAAAAACAAC
* *
64401 GAATTGGCTAAGAAGAACAA
1 GAATTAGCTAAGAAAAACAA
64421 GAACTTGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (21 bp):
GAATTAGCTAAGAAAAACAAC
Found at i:68398 original size:31 final size:31
Alignment explanation
Indices: 68363--68429 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
68353 TATTCAAATC
68363 TCAAATTT-CATCAATTCGTTTTCGA-ATTTCA
1 TCAAATTTACATCAATTC-TTTTC-ATATTTCA
* *
68394 TCAAATTTACATCATTTCTTTTCATTTTTCA
1 TCAAATTTACATCAATTCTTTTCATATTTCA
68425 TCAAA
1 TCAAA
68430 ATCTTCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 1 0.03
31 23 0.72
32 8 0.25
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (31 bp):
TCAAATTTACATCAATTCTTTTCATATTTCA
Found at i:70123 original size:22 final size:22
Alignment explanation
Indices: 70098--70142 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
70088 TTTTTTTTGA
70098 AAATAGATTTAAAAAAGGCGAG
1 AAATAGATTTAAAAAAGGCGAG
* * * *
70120 AAATTGTTTTATAAAAGGGGAG
1 AAATAGATTTAAAAAAGGCGAG
70142 A
1 A
70143 TTATTTTAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (22 bp):
AAATAGATTTAAAAAAGGCGAG
Found at i:70786 original size:21 final size:20
Alignment explanation
Indices: 70746--70784 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
70736 TTAAGTATAA
70746 ATATTTTTCAAGCATTAAATC
1 ATATTTTTCAA-CATTAAATC
70767 ATATGTTTTCAA-ATTAAA
1 ATAT-TTTTCAACATTAAA
70785 ATAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATTTTTCAACATTAAATC
Found at i:74253 original size:52 final size:52
Alignment explanation
Indices: 74175--74303 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
74165 CGAAATATGA
* *
74175 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
74227 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
74279 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
74304 AAGATCAATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:74406 original size:20 final size:20
Alignment explanation
Indices: 74377--74432 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
74367 GCAGTAGCTT
74377 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
74396 AAATATGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
74416 AAATATGTATCGATACA
1 AAATATGTATCGATACA
74433 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 32 0.89
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.27
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:74439 original size:13 final size:13
Alignment explanation
Indices: 74421--74445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74411 CAAAAAAATA
74421 TGTATCGATACAT
1 TGTATCGATACAT
74434 TGTATCGATACA
1 TGTATCGATACA
74446 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74443 original size:33 final size:33
Alignment explanation
Indices: 74401--74465 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
74391 CAAAAAAATA
74401 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
74434 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
74466 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:75386 original size:52 final size:54
Alignment explanation
Indices: 75252--76118 Score: 503
Period size: 43 Copynumber: 16.8 Consensus size: 54
75242 GAAAAGTGAT
* * * * * *
75252 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* * * *
75306 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
75359 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---GA-GA-A
* * * * *
75418 AAAGTGATAAAGATGCTAATATGTTGATTCACGGCCA-ATGATATTGGGCTTAAAGATGAGAA
1 AAAG-G-T---G--CC-AATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGATGAGAA
* * ** * *
75480 AAAGGATGTCAATGTGCTGATTCAACTCCAGCTACATTGAACTTAAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
*
75533 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAATGAAGATGAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAA-GATGA-GA-A
* * * * *
75592 AAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTAGG-CTTAAAGATGAGAA
1 AAAG-G-T---G--CC-AATATGCTGATTCAAGGCCAGCTATATT-GGACTTAAAGATGAGAA
* * * *
75654 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
75707 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* * *
75750 AAAGGTGCCAATGTGCTGATTCACGGCCAGCTACATTGGACTTAAAGA--AG--
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* * *
75800 -AAGTTGCTAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* *
75842 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G--
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
*
75892 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* * *
75934 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AG--
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* *
75984 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* *
76026 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AG--
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
*
76076 -AAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTA
76119 GAAGGGTTGC
Statistics
Matches: 654, Mismatches: 87, Indels: 149
0.73 0.10 0.17
Matches are distributed among these distances:
43 146 0.22
44 4 0.01
46 1 0.00
48 4 0.01
49 145 0.22
51 1 0.00
52 104 0.16
53 18 0.03
54 11 0.02
55 102 0.16
56 3 0.00
57 2 0.00
58 2 0.00
59 10 0.02
60 2 0.00
61 8 0.01
62 10 0.02
63 4 0.01
64 8 0.01
65 3 0.00
66 3 0.00
67 61 0.09
68 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (54 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
Found at i:75409 original size:174 final size:174
Alignment explanation
Indices: 75051--75753 Score: 1064
Period size: 174 Copynumber: 4.1 Consensus size: 174
75041 CCTACCACAC
* * * * *
75051 TGGACTTAAAGATGATGAGGATGAAGAGTGATAAA-AAGACCAATACGTTGATTCACGGCCAACG
1 TGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATATGTTGATTCACGGCCAACG
* * *** * * * * * * *
75115 ATATTGGG-TTCGAAGAAGAGAAAAAGGATAAAAAAG-CCAAT-ATGC--GGCTAGCGATATTGG
64 ATATTGGGCTT-AAAGATGAGAAAAAGGATGTCAATGTGC--TGATTCAAGGCCAGCTACATTGA
* * *
75175 ACTTAAAGAT---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
126 ACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
75221 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
1 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
75286 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
66 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
75351 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
131 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
* *
75395 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCTAATATGTTGATTCACGGCCAATGAT
1 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
**
75460 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAACTCCAGCTACATTGAACTTA
66 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
75525 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
131 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
*
75569 TGGACTTAAAAATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
1 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
*
75634 ATTAGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
66 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
75699 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
131 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
75743 TGGACTTAAAG
1 TGGACTTAAAG
75754 GTGCCAATGT
Statistics
Matches: 493, Mismatches: 31, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
168 1 0.00
169 66 0.13
170 24 0.05
171 21 0.04
174 381 0.77
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (174 bp):
TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
Found at i:75846 original size:92 final size:92
Alignment explanation
Indices: 75654--76123 Score: 787
Period size: 92 Copynumber: 5.1 Consensus size: 92
75644 AAGATGAGAA
* * *
75654 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
*
75719 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
75750 AAAGGTGCCAATGTGCTGATTCACGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCTAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
75815 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
75842 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
75907 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
75934 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
75999 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
76026 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
76091 TGATTCAAGGCCAGTGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
76118 AGAAGG
1 A-AAGG
76124 GTTGCCACCG
Statistics
Matches: 357, Mismatches: 16, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
92 308 0.86
93 4 0.01
95 40 0.11
96 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:76355 original size:68 final size:68
Alignment explanation
Indices: 76159--76719 Score: 722
Period size: 68 Copynumber: 8.4 Consensus size: 68
76149 AGAAAAGGTG
* * * * * *
76159 AAAGA-TGCCACGAAGTTATGGAC-TTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAA
76222 GGGAA
65 -GGAA
* * *
76227 AAAGAGTGCCACAGAGTTGTGGGCTTT--GAA-AAAAAGGTGCCACGGAGTCGTGGACTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
76289 GAA
66 GAA
76292 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
76357 GAA
66 GAA
* * *
76360 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAA
76425 GGGAA
65 -GGAA
* * * *
76430 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGATGCCACGGAGTCGTGGACTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
76492 GAA
66 GAA
76495 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
76560 GAA
66 GAA
* * * *
76563 AAAGAGTGCCACGGAGTTGTGGGCTTT-GAAAG--GAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAG-AA
76625 GG--
65 GGAA
* * * * *
76627 -AAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAGGTGCCACGAAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAA
*
76690 AGAA
65 GGAA
76694 AAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
76720 GAAGAAAAAA
Statistics
Matches: 439, Mismatches: 36, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
62 21 0.05
63 7 0.02
65 113 0.26
66 16 0.04
67 48 0.11
68 178 0.41
69 19 0.04
70 37 0.08
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (68 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
GAA
Found at i:76534 original size:203 final size:203
Alignment explanation
Indices: 76185--76719 Score: 827
Period size: 203 Copynumber: 2.7 Consensus size: 203
76175 TATGGACTTA
* *
76185 AAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGG
*
76250 CTTTGAAAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
66 CTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
76315 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGT
131 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGT
76380 GGGCTTTG
196 GGGCTTTG
* *
76388 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAAAGTGCCACGGAGTTGTGGG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGG
*
76453 CTTTGAAAAGAAGATGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
66 CTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
*
76518 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGT
131 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGT
76583 GGGCTTTG
196 GGGCTTTG
* * *
76591 -AAAG--GAAGGTGCCACGGAGTTGTGGGCTTTGAAA-GG----AAGGTGCCACAGAGTTGTGGG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGG
* * * * * *
76648 CTTTAAAAAGGAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTG
66 CTTTGAAAA-G--AAGGTGCCACGGAGTCGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTG
76712 TGGGCTTT
127 TGGGCTTT
76720 GAAGAAAAAA
Statistics
Matches: 309, Mismatches: 19, Indels: 13
0.91 0.06 0.04
Matches are distributed among these distances:
195 27 0.09
196 1 0.00
198 40 0.13
199 14 0.05
200 27 0.09
202 4 0.01
203 196 0.63
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (203 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGG
CTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGT
GGGCTTTG
Found at i:76760 original size:30 final size:30
Alignment explanation
Indices: 76699--77187 Score: 393
Period size: 30 Copynumber: 15.7 Consensus size: 30
76689 AAGAAAAAGG
* * * *
76699 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
* *
76730 TGCCACTGAATCCTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
*
76760 TGCCACTGAGTCGTGGACTTTAAAGA-AAAGGA
1 TGCCACTGAGTCGTGGACTTT-GAGACAAA--A
* *
76792 TGCCACTAAGTCGTGGACTTTAAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
76822 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
76852 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGACAAA--A
* *
76884 TGCCACTGAGTCGTGGACTTCGAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
*
76915 TGCCACTGAGTCGTGGACTTTAAAGA-AAAGGA
1 TGCCACTGAGTCGTGGACTTT-GAGACAAA--A
* *
76947 TGCCATTAAGTCGTGGACTTTG-GA-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGACAA-A-A
* * * *
76977 TCCCACTGAATTGTGGACTTTTAGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGA-GACAAAA
* * *
77008 TGCCACTGAGTTGTGGGCTTTGAGAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTGAG-A-CAAAA
* * * *
77040 GGTGCCACGGATTCATGGACTTT-AGGATAAAA
1 --TGCCACTGAGTCGTGGACTTTGA-GACAAAA
* * *
77072 TGCCACTGAATCGTGGGCTTTGAGAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTGAG-A-CAAAA
*
77104 GGTGCCACGGAGTCGTGGACTTT-AGGACAAAA
1 --TGCCACTGAGTCGTGGACTTTGA-GACAAAA
* *
77136 TGCCACTGATTCGTGGGCTTTGAGA-AAAGA
1 TGCCACTGAGTCGTGGACTTTGAGACAAA-A
77166 TTGCCACTGAGTCGTGGACTTT
1 -TGCCACTGAGTCGTGGACTTT
77188 AAAAAGGTAT
Statistics
Matches: 375, Mismatches: 51, Indels: 64
0.77 0.10 0.13
Matches are distributed among these distances:
29 3 0.01
30 146 0.39
31 95 0.25
32 88 0.23
33 7 0.02
34 36 0.10
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:76825 original size:92 final size:91
Alignment explanation
Indices: 76693--77189 Score: 415
Period size: 92 Copynumber: 5.3 Consensus size: 91
76683 TTTAAAAAGA
** * * * * *
76693 AAAAGG-TGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAATCCTGGACTTTGAGACA
1 AAAAGGATGCCACTAAGTCGTGGACTTT-AAGACAAAATGCCACTGAGTCGTGGACTTTGAGACA
76757 AAATGCCACTGAGTCGTGGACTTTAAAG
65 AAATGCCACTGAGTCGTGGACTTT-AAG
76785 AAAAGGATGCCACTAAGTCGTGGACTTTAAGACAAAATGCCACTGAGTCGTGGACTTTGAGACAA
1 AAAAGGATGCCACTAAGTCGTGGACTTTAAGACAAAATGCCACTGAGTCGTGGACTTTGAGACAA
76850 AATGCCACTGAGTCGTGGACTTTGAAG
66 AATGCCACTGAGTCGTGGACTTT-AAG
* ** * *
76877 AAAAGGATGCCACTGAGTCGTGGACTTCGAG-CAGAGATTGCCACTGAGTCGTGGACTTTAAAGA
1 AAAAGGATGCCACTAAGTCGTGGACTTTAAGACA-A-AATGCCACTGAGTCGTGGACTTT-GAGA
* *
76941 -AAAGGATGCCATTAAGTCGTGGACTTT--G
63 CAAA--ATGCCACTGAGTCGTGGACTTTAAG
* * * * * *
76969 GAAAGAGATCCCACTGAA-TTGTGGACTTTTAGGACAAAATGCCACTGAGTTGTGGGCTTTGAGA
1 AAAAG-GATGCCACT-AAGTCGTGGAC-TTTAAGACAAAATGCCACTGAGTCGTGGACTTTGAG-
* * * * *
77033 AGAAAAAGGTGCCACGGATTCATGGACTTTAGG
62 A-CAAAA--TGCCACTGAGTCGTGGACTTTAAG
* *
77066 ATAAA--ATGCCACTGAA-TCGTGGGCTTTGAGAAGA-AAAAGGTGCCACGGAGTCGTGGACTTT
1 A-AAAGGATGCCACT-AAGTCGTGGACTTT---AAGACAAAA--TGCCACTGAGTCGTGGACTTT
* * *
77127 -AGGACAAAATGCCACTGATTCGTGGGCTTTGAG
59 GA-GACAAAATGCCACTGAGTCGTGGACTTTAAG
*
77160 AAAA-GATTGCCACTGAGTCGTGGACTTTAA
1 AAAAGGA-TGCCACTAAGTCGTGGACTTTAA
77190 AAAGGTATTT
Statistics
Matches: 331, Mismatches: 47, Indels: 54
0.77 0.11 0.12
Matches are distributed among these distances:
91 2 0.01
92 104 0.31
93 82 0.25
94 33 0.10
95 74 0.22
96 8 0.02
97 6 0.02
98 22 0.07
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (91 bp):
AAAAGGATGCCACTAAGTCGTGGACTTTAAGACAAAATGCCACTGAGTCGTGGACTTTGAGACAA
AATGCCACTGAGTCGTGGACTTTAAG
Found at i:76983 original size:93 final size:92
Alignment explanation
Indices: 76730--77186 Score: 306
Period size: 95 Copynumber: 4.9 Consensus size: 92
76720 GAAGAAAAAA
* * * * * *
76730 TGCCACTGAATCCTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGC
1 TGCCACTGAGTCGTGGACTTTAAGACAAAATGCCACTAAGTCGTGGACTTT-GAGAAAAGGATCC
** *
76795 CACT-AAGTCGTGGACTTTAAGACA-A-AA
65 CACTGAA-TCGTGGACTTCGAG-CAGAGAT
* * *
76822 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGC
1 TGCCACTGAGTCGTGGACTTTAAGACAAAATGCCACTAAGTCGTGGACTTTG-AGAAAAGGATCC
*
76887 CACTGAGTCGTGGACTTCGAGCAGAGAT
65 CACTGAATCGTGGACTTCGAGCAGAGAT
*
76915 TGCCACTGAGTCGTGGACTTTAAAGA-AAAGGATGCCATTAAGTCGTGGACTTTG-G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTT-AAGACAAA--ATGCCACTAAGTCGTGGACTTTGAGAAAAG-GA
* ** * * * *
76977 TCCCACTGAATTGTGGACTTTTAGGACAAAA
62 TCCCACTGAATCGTGGACTTCGAGCAGAGAT
* * ** * *
77008 TGCCACTGAGTTGTGGGCTTTGAGAAGA-AAAAGGTGCCACGGATTCATGGACTTT-AGGATAAA
1 TGCCACTGAGTCGTGGACTTT---AAGACAAAA--TGCCACTAAGTCGTGGACTTTGA-GA-AAA
* * * * * *
77071 --ATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGG
59 GGATCCCACTGAATCGTGGACTTCGAGCAG--AGA-T
* * * * * *
77106 TGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGATTCGTGGGCTTTGAGAAAA-GATTGC
1 TGCCACTGAGTCGTGGACTTTAAGACAAAATGCCACTAAGTCGTGGACTTTGAGAAAAGGA-TCC
*
77170 CACTGAGTCGTGGACTT
65 CACTGAATCGTGGACTT
77187 TAAAAAGGTA
Statistics
Matches: 299, Mismatches: 43, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
91 2 0.01
92 82 0.27
93 74 0.25
94 24 0.08
95 88 0.29
96 5 0.02
97 3 0.01
98 21 0.07
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (92 bp):
TGCCACTGAGTCGTGGACTTTAAGACAAAATGCCACTAAGTCGTGGACTTTGAGAAAAGGATCCC
ACTGAATCGTGGACTTCGAGCAGAGAT
Found at i:77047 original size:34 final size:33
Alignment explanation
Indices: 76159--77128 Score: 630
Period size: 34 Copynumber: 29.8 Consensus size: 33
76149 AGAAAAGGTG
* * * * *
76159 AAAGATGCCACGAAGTTATGGACTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
* * *
76192 CAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAA--GAA
* *
76227 AAAGAGTGCCACAGAGTTGTGGGCTTT-GAA-AA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAGAAGAA
*
76259 AAAGGTGCCACGGAGTCGTGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAA-GAA
* *
76292 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AGAAGAA
76327 AAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAA-GAA
* * *
76360 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AGAAGAA
*
76395 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAA--G-AA
* *
76431 AAAAGTGCCACGGAGTTGTGGGCTTT-GAA-AA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
* * *
76462 GAAGATGCCACGGAGTCGTGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAA-GAA
* *
76495 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AGAAGAA
76530 AAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAA-GAA
* *
76563 AAAGAGTGCCACGGAGTTGTGGGCTTT-GAA-AG
1 AAAG-GTGCCACGGAGTTGTGGACTTTAGAAGAA
* * *
76595 GAAGGTGCCACGGAGTTGTGGGCTTT-GAA-AG
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
* * * * *
76626 GAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AGAAGAA
* * *
76660 AAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AGAAGAA
*
76694 AAAGGTGCCACGGAGTTGTGGGCTTT-GAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
* * * **
76726 AAA-ATGCCACTGAATCCTGGACTTT-G-AGACA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGA-A
* *
76757 AAA--TGCCACTGAGTCGTGGACTTTA-AAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
** *
76786 AAAGGATGCCACTAAGTCGTGGACTTT--AAGACA
1 AAAGG-TGCCACGGAGTTGTGGACTTTAGAAGA-A
* *
76819 AAA--TGCCACTGAGTCGTGGACTTT-G-AGACA
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGA-A
* *
76849 AAA--TGCCACTGAGTCGTGGACTTT-GAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
* * * *
76878 AAAGGATGCCACTGAGTCGTGGAC-TTCG-AG-C
1 AAAGG-TGCCACGGAGTTGTGGACTTTAGAAGAA
* * * *
76909 AGAGATTGCCACTGAGTCGTGGACTTTA-AAG-A
1 AAAG-GTGCCACGGAGTTGTGGACTTTAGAAGAA
*** *
76941 AAAGGATGCCATTAAGTCGTGGACTTT-G--GAA
1 AAAGG-TGCCACGGAGTTGTGGACTTTAGAAGAA
* * * * *
76972 AGAGATCCCACTGAATTGTGGACTTTTAG--GACA
1 AAAGGTGCCACGGAGTTGTGGAC-TTTAGAAGA-A
* *
77005 AAA--TGCCACTGAGTTGTGGGCTTTGAGAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AGAAGAA
*
77037 AAAGGTGCCACGGA-TTCATGGACTTTAG--GATA
1 AAAGGTGCCACGGAGTT-GTGGACTTTAGAAGA-A
* * * *
77069 AAA--TGCCACTGAATCGTGGGCTTTGAGAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AGAAGAA
*
77101 AAAGGTGCCACGGAGTCGTGGACTTTAG
1 AAAGGTGCCACGGAGTTGTGGACTTTAG
77129 GACAAAATGC
Statistics
Matches: 783, Mismatches: 90, Indels: 128
0.78 0.09 0.13
Matches are distributed among these distances:
29 8 0.01
30 108 0.14
31 176 0.22
32 104 0.13
33 76 0.10
34 215 0.27
35 40 0.05
36 56 0.07
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAGAAGAA
Found at i:78429 original size:11 final size:11
Alignment explanation
Indices: 78415--78444 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
78405 TTTTTCTGTG
78415 TTTTTTTTGAC
1 TTTTTTTTGAC
78426 TTTTTTTTGAC
1 TTTTTTTTGAC
78437 TTTTTTTT
1 TTTTTTTT
78445 TGTGTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:78445 original size:12 final size:12
Alignment explanation
Indices: 78415--78465 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
78405 TTTTTCTGTG
78415 TTTTTTTTGAC-
1 TTTTTTTTGACT
78426 TTTTTTTTGACT
1 TTTTTTTTGACT
**
78438 TTTTTTTTGTGT
1 TTTTTTTTGACT
**
78450 TTACTTTTGACT
1 TTTTTTTTGACT
78462 TTTT
1 TTTT
78466 CGGTATTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.75
Consensus pattern (12 bp):
TTTTTTTTGACT
Found at i:85412 original size:52 final size:52
Alignment explanation
Indices: 85334--85462 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
85324 CGAAATATGA
* *
85334 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
85386 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
85438 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
85463 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:85475 original size:52 final size:51
Alignment explanation
Indices: 85334--85482 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
85324 CGAAATATGA
*
85334 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
85386 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
85438 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
85483 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:85489 original size:13 final size:13
Alignment explanation
Indices: 85471--85495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85461 CAAAGATCAG
85471 TGTATCGATACAA
1 TGTATCGATACAA
85484 TGTATCGATACA
1 TGTATCGATACA
85496 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85578 original size:13 final size:13
Alignment explanation
Indices: 85560--85584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85550 CAAAAAAATA
85560 TGTATCGATACAT
1 TGTATCGATACAT
85573 TGTATCGATACA
1 TGTATCGATACA
85585 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85580 original size:33 final size:33
Alignment explanation
Indices: 85538--85604 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85528 AGTAGCTTAA
85538 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
85571 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
85604 A
1 A
85605 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:87509 original size:78 final size:78
Alignment explanation
Indices: 87411--87563 Score: 229
Period size: 78 Copynumber: 2.0 Consensus size: 78
87401 TTTCAGTCAC
*** *
87411 TAGATGATATTAGTGCATCACATGATTGCAAAAGGTGTAG-CC-TACATATTCCTAATCATATCT
1 TAGATGATATTAGTGCATCACATGACCACAAAAGGTGTAGCCCATACAT-TGCC-AATCATATCT
87474 CCTTCATTCATCTTT
64 CCTTCATTCATCTTT
*
87489 TAGATGATATTGGTGCATCACATGACCACAAAAGGTGTAGCCCATACATTGCCAATCATATCTCC
1 TAGATGATATTAGTGCATCACATGACCACAAAAGGTGTAGCCCATACATTGCCAATCATATCTCC
87554 TTCATTCATC
66 TTCATTCATC
87564 CGCTAGATGG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
78 58 0.85
79 5 0.07
80 5 0.07
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (78 bp):
TAGATGATATTAGTGCATCACATGACCACAAAAGGTGTAGCCCATACATTGCCAATCATATCTCC
TTCATTCATCTTT
Found at i:87571 original size:78 final size:78
Alignment explanation
Indices: 87410--87588 Score: 227
Period size: 78 Copynumber: 2.3 Consensus size: 78
87400 CTTTCAGTCA
*** *
87410 CTAGATGATATTAGTGCATCACATGATTGCAAAAGGTGTAGCCTACATATTCCTAATCATATCTC
1 CTAGATGATATTAGTGCATCACATGACCACAAAAGGTGTAGCCTACATATGCCTAATCATATCTC
**
87475 CTTCATTCATCTT
66 CTTCATTCATCCG
* *
87488 TTAGATGATATTGGTGCATCACATGACCACAAAAGGTGTAGCCCATACAT-TGCC-AATCATATC
1 CTAGATGATATTAGTGCATCACATGACCACAAAAGGTGTAG-CC-TACATATGCCTAATCATATC
87551 TCCTTCATTCATCCG
64 TCCTTCATTCATCCG
* * *
87566 CTAGATGGTATTAATACATCACA
1 CTAGATGATATTAGTGCATCACA
87589 AAGCCTAATT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 76 0.88
79 5 0.06
80 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (78 bp):
CTAGATGATATTAGTGCATCACATGACCACAAAAGGTGTAGCCTACATATGCCTAATCATATCTC
CTTCATTCATCCG
Found at i:88200 original size:35 final size:35
Alignment explanation
Indices: 88159--88747 Score: 583
Period size: 35 Copynumber: 16.9 Consensus size: 35
88149 AAGTTTTTTC
88159 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * *
88194 TTGTTTGGCTGTATTTGGTTAAAC-CTTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTC-TTTTCATCA
** * ** *
88229 TCGTTTAACCGTATCTGGTTTAACTTTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * * * *
88264 TTGTTTGACCGTATTTGGTTAAACTCTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * *
88299 TGGTTTGACTGTATTTGGTCAAACTCTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * *
88334 TTGTTTGGCTATATCTGGTCAAACTCTTTTCACCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* *
88369 TCGTTTTGCTGTATCTGGTCAAACTCTTTTCACCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * * *
88404 TCGTTTGGCTATATTTGGTCAAATTCTTTTCAGCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
** * *
88439 TTATTTGGCTGTATCTGGTTAAACTTTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * *
88474 TCGTTTGGCTGGATCTAGTCGAACTCTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* *
88509 TCGTTTGGCTAG-ATTTGGTTAAACT-TTTTCCATCA
1 TCGTTTGGCT-GTATCTGGTCAAACTCTTTT-CATCA
* * *
88544 TCATTTGGCTGCATCTAGTCAAACTCTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * * * *
88579 TCATTTGGCTATATCTAGTGAAACTCTTTGCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* *
88614 TCGTTTGACTGTATCTGGTCAAACTTTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* ** ** * *
88649 TTGTTCAGCTACATTTGGTCAAACACTTTT-ATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
* * * *
88683 TTGTTTGACTGTATTTGGTTAAACTCTTTTCATCA
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
** * *
88718 TCGTTCAGTTGTATGTGGTCAAACTCTTTT
1 TCGTTTGGCTGTATCTGGTCAAACTCTTTT
88748 TTAGCTATAT
Statistics
Matches: 459, Mismatches: 88, Indels: 14
0.82 0.16 0.02
Matches are distributed among these distances:
34 33 0.07
35 421 0.92
36 5 0.01
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.45
Consensus pattern (35 bp):
TCGTTTGGCTGTATCTGGTCAAACTCTTTTCATCA
Found at i:90967 original size:8 final size:8
Alignment explanation
Indices: 90933--90982 Score: 57
Period size: 8 Copynumber: 5.9 Consensus size: 8
90923 TATTTGACAT
90933 TAAAAATAA
1 TAAAAA-AA
90942 TAGAAAAATA
1 TA-AAAAA-A
90952 TAATAAAAA
1 TAA-AAAAA
90961 T-AAAAAA
1 TAAAAAAA
90968 TAAAAAAA
1 TAAAAAAA
90976 TAAAAAA
1 TAAAAAA
90983 GAATAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 6 0.16
8 14 0.38
9 6 0.16
10 11 0.30
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:90976 original size:15 final size:16
Alignment explanation
Indices: 90945--90996 Score: 70
Period size: 15 Copynumber: 3.2 Consensus size: 16
90935 AAAATAATAG
90945 AAAAATATAATAAAAAT
1 AAAAA-ATAATAAAAAT
90962 AAAAAATAA-AAAAAT
1 AAAAAATAATAAAAAT
* *
90977 AAAAAAGAATAAAATT
1 AAAAAATAATAAAAAT
90993 AAAA
1 AAAA
90997 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 14 0.44
16 13 0.41
17 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAAATAATAAAAAT
Found at i:91331 original size:38 final size:38
Alignment explanation
Indices: 91265--91389 Score: 182
Period size: 38 Copynumber: 3.3 Consensus size: 38
91255 TATCAACGAG
* * * *
91265 ATGC-AATTAAAGCTACT-AAAACGGCAGCAATGAAGA
1 ATGCAAATTAAAGCTGCTGCAAACGACAGCAATGAACA
91301 ATGCAAATTAAAGCTGCTGCAAACGACAGCAATGAACA
1 ATGCAAATTAAAGCTGCTGCAAACGACAGCAATGAACA
*
91339 ATGCAAATTAAAGCTGCTGCAAATGACAGCAATGAACA
1 ATGCAAATTAAAGCTGCTGCAAACGACAGCAATGAACA
*
91377 ATACAAATTAAAG
1 ATGCAAATTAAAG
91390 GCAAATTCAA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 4 0.05
37 12 0.15
38 65 0.80
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (38 bp):
ATGCAAATTAAAGCTGCTGCAAACGACAGCAATGAACA
Found at i:98307 original size:31 final size:31
Alignment explanation
Indices: 98272--98331 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
98262 CGTGACATAC
*
98272 GGTTACTACCCTAGTCAGATTTTTCTCATGT
1 GGTTACCACCCTAGTCAGATTTTTCTCATGT
98303 GGTTACCACCCTAGTCAGATTTTTCTCAT
1 GGTTACCACCCTAGTCAGATTTTTCTCAT
98332 TCTGATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (31 bp):
GGTTACCACCCTAGTCAGATTTTTCTCATGT
Found at i:98630 original size:42 final size:42
Alignment explanation
Indices: 98510--99381 Score: 564
Period size: 42 Copynumber: 20.8 Consensus size: 42
98500 CCATTTGAAT
* * * *
98510 TTTCCTACCTTC-GATCTGCCTATCGGATTTGACCTTGGAGAC
1 TTTCTTACCTTCAG-TCTGCCTGTCGGCTTTGACCTTAGAGAC
** * *
98552 TACCTCAACC-TCAAGTCTGCCTGTCGGCTTTAACCTTAGAGAC
1 TTTCT-TACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* *
98595 TTTCTTACCTTCAGTCTGCCTATCGTCTTTGACCTTAGA-AC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * *
98636 TTTCTTACCTTCAGTCTGCCTATCGACTTTGACCCTAGAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * ** *
98678 TGCCTCAACC-TCAAGTCTGCCCATCGGCTTTGACCTTGGAGAC
1 TTTCT-TACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * * *
98721 TTTCTCACCTTCAATCTACCTGTCGGCTTTGACCCTAGAGA-
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * * * * *
98762 TTACGTCACC-TCAAGTCTGCCTATTGGCTTTGACCCTAAAGAC
1 TTTC-TTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * ** * * *
98805 TACCTCACCTAAAGTCTGCCTGTTGGCTTTGACCATAAAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* *
98847 TTTCTTACCTTCAGTCTGCCTGTCGGTTTTGACCTTAGAGAT
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * * * * *
98889 TTTTTTACCCTCAATCTGCTTGTCGACTTTGACCCTAGAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * * * * *
98931 TGCCTCATC-TCAAGTCTTCTTGTCGGCTTTGACCTTGGAGAC
1 TTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * * * * *
98973 TTTCCTATCTTTAGTCTG-CTGTCGACTTTGACCCTGGAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * * * * *
99014 TGCCTCATC-TCAAGTCTACTTGTCGGCTTTGACCTTGGAGAC
1 TTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * * * * *
99056 TTTTTTACCTTTAGTCTGCCTGTTGGCTTTAACCCTGGAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * * ** * *
99098 TACCTCATC-TCAAGTCTGGGTGTCGGCTTTGACCCTATAGAC
1 TTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* * *
99140 TTT-TCTACCTTTAGTTTGCCTGTCGGCTTTGACCTTGGAGAC
1 TTTCT-TACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * * * * *
99182 TACCTCATCTTAAGTCTGCCTGTCGGCTTTGACCCTCGAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* ** *
99224 TTTCTTACCTTCAGTCTGCCTATCAACTTTGACCTTGGAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
** * * * * *
99266 TACCTCATC-TCAAGTCTGCATGTCAGCTTTGACCCTAGAGAC
1 TTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTAGAGAC
* *
99308 TTTCCTACTTTCAGTCTGCCTGTCGGCTTTGACCTT-GAAGAC
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAG-AGAC
** * * * *
99350 TACCTCATCTTAAGTTTGCCTGTCGGCTTTGA
1 TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGA
99382 TATTGGAGAC
Statistics
Matches: 638, Mismatches: 168, Indels: 48
0.75 0.20 0.06
Matches are distributed among these distances:
40 1 0.00
41 81 0.13
42 481 0.75
43 74 0.12
44 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (42 bp):
TTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTAGAGAC
Found at i:98713 original size:84 final size:84
Alignment explanation
Indices: 98524--99381 Score: 776
Period size: 84 Copynumber: 10.2 Consensus size: 84
98514 CTACCTTCGA
* * * ** * * *
98524 TCTGCCTATCGGATTTGACCTTGGAGACTACCTCAACC-TCAAGTCTGCCTGTCGGCTTTAACCT
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCT-TACCTTC-AGTCTGCCTGTCGGCTTTGACCC
** * *
98588 TAGAGACTTTCTTACCTTC-AG
64 TAGAGACTACCTCATC-TCAAG
* * * *
98609 TCTGCCTATCGTCTTTGACCTTAGA-ACTTTCTTACCTTCAGTCTGCCTATCGACTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
* *
98673 GAGACTGCCTCAACCTCAAG
66 GAGACTACCTC-ATCTCAAG
** * * * *
98693 TCTGCCCATCGGCTTTGACCTTGGAGACTTTCTCACCTTCAATCTACCTGTCGGCTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
* * *
98758 GAGATTACGTCACCTCAAG
66 GAGACTACCTCATCTCAAG
* * * * ** * ** * *
98777 TCTGCCTATTGGCTTTGACCCTAAAGACTACCTCACCTAAAGTCTGCCTGTTGGCTTTGACCATA
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
* ** * *
98842 AAGACTTTCTTACCTTC-AG
66 GAGACTACCTCATC-TCAAG
* * * * * * *
98861 TCTGCCTGTCGGTTTTGACCTTAGAGATTTTTTTACCCTCAATCTGCTTGTCGACTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
*
98926 GAGACTGCCTCATCTCAAG
66 GAGACTACCTCATCTCAAG
* * * * * * * *
98945 TCTTCTTGTCGGCTTTGACCTTGGAGACTTTCCTATCTTTAGTCTG-CTGTCGACTTTGACCCTG
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
*
99009 GAGACTGCCTCATCTCAAG
66 GAGACTACCTCATCTCAAG
* * * * * * * *
99028 TCTACTTGTCGGCTTTGACCTTGGAGACTTTTTTACCTTTAGTCTGCCTGTTGGCTTTAACCCTG
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
99093 GAGACTACCTCATCTCAAG
66 GAGACTACCTCATCTCAAG
** * * * * *
99112 TCTGGGTGTCGGCTTTGACCCTATAGACTTT-TCTACCTTTAGTTTGCCTGTCGGCTTTGACCTT
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCT-TACCTTCAGTCTGCCTGTCGGCTTTGACCCT
* *
99176 GGAGACTACCTCATCTTAAG
65 AGAGACTACCTCATCTCAAG
* * * ** * *
99196 TCTGCCTGTCGGCTTTGACCCTCGAGACTTTCTTACCTTCAGTCTGCCTATCAACTTTGACCTTG
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
99261 GAGACTACCTCATCTCAAG
66 GAGACTACCTCATCTCAAG
* * * * * *
99280 TCTGCATGTCAGCTTTGACCCTAGAGACTTTCCTACTTTCAGTCTGCCTGTCGGCTTTGA-CCTT
1 TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
*
99344 GAAGACTACCTCATCTTAAG
66 G-AGACTACCTCATCTCAAG
*
99364 TTTGCCTGTCGGCTTTGA
1 TCTGCCTGTCGGCTTTGA
99382 TATTGGAGAC
Statistics
Matches: 641, Mismatches: 122, Indels: 21
0.82 0.16 0.03
Matches are distributed among these distances:
83 117 0.18
84 457 0.71
85 67 0.10
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (84 bp):
TCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTA
GAGACTACCTCATCTCAAG
Found at i:99922 original size:7 final size:7
Alignment explanation
Indices: 99910--99954 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
99900 TATTTGACTT
99910 TAAAAAA
1 TAAAAAA
99917 TAAAAAA
1 TAAAAAA
* *
99924 TATAATA
1 TAAAAAA
99931 -AAAAAA
1 TAAAAAA
99937 TAAAAAA
1 TAAAAAA
99944 T-AAAAA
1 TAAAAAA
99950 TAAAA
1 TAAAA
99955 TTTAGTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:99936 original size:13 final size:12
Alignment explanation
Indices: 99912--99954 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
99902 TTTGACTTTA
99912 AAAAATAAAAAAT
1 AAAAA-AAAAAAT
*
99925 ATAATAAAAAAAT
1 A-AAAAAAAAAAT
99938 AAAAAATAAAAAT
1 AAAAAA-AAAAAT
99951 AAAA
1 AAAA
99955 TTTAGTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 4 0.15
13 19 0.73
14 3 0.12
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:99954 original size:20 final size:19
Alignment explanation
Indices: 99910--99954 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
99900 TATTTGACTT
*
99910 TAAAAAATAAAAAATATAA
1 TAAAAAATAAAAAATAAAA
99929 TAAAAAAATAAAAAATAAAAA
1 T-AAAAAATAAAAAAT-AAAA
99950 TAAAA
1 TAAAA
99955 TTTAGTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
TAAAAAATAAAAAATAAAA
Found at i:100329 original size:38 final size:38
Alignment explanation
Indices: 100278--100370 Score: 141
Period size: 38 Copynumber: 2.4 Consensus size: 38
100268 AACGAGATAC
* *
100278 AATTAAAGTTGCTGCAAACGGCAGCAATGAAGAATGCA
1 AATTAAAGTTGCTGCAAACGGCAACAATGAACAATGCA
* *
100316 AATTAAAGCTGCTGCAAATGGCAACAATGAACAATGCA
1 AATTAAAGTTGCTGCAAACGGCAACAATGAACAATGCA
*
100354 AATTAAAGTTGATGCAA
1 AATTAAAGTTGCTGCAA
100371 TCAAGAAGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (38 bp):
AATTAAAGTTGCTGCAAACGGCAACAATGAACAATGCA
Found at i:100801 original size:17 final size:17
Alignment explanation
Indices: 100779--100841 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
100769 ACAATCTAGT
100779 AGCAAAGCAACACCAGC
1 AGCAAAGCAACACCAGC
*
100796 AGCAAAGCAACACTCCAAC
1 AGCAAAGCAACA--CCAGC
**
100815 AGCAAA-CAACAATAGC
1 AGCAAAGCAACACCAGC
100831 AAGCAAAGCAA
1 -AGCAAAGCAA
100842 AATTGAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.05
17 18 0.47
18 8 0.21
19 10 0.26
ACGTcount: A:0.52, C:0.30, G:0.14, T:0.03
Consensus pattern (17 bp):
AGCAAAGCAACACCAGC
Found at i:101043 original size:31 final size:31
Alignment explanation
Indices: 101005--101067 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
100995 TGATTTCTCA
* *
101005 TTTTGAGTTGCGCGGTCAGTACATTAAAGGT
1 TTTTGAGTTGCACGATCAGTACATTAAAGGT
101036 TTTTGAGTTGCACGATCAGTACATTAAAGGT
1 TTTTGAGTTGCACGATCAGTACATTAAAGGT
101067 T
1 T
101068 GCATGATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (31 bp):
TTTTGAGTTGCACGATCAGTACATTAAAGGT
Found at i:103244 original size:13 final size:13
Alignment explanation
Indices: 103226--103283 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
103216 CAATTTTTTG
103226 TGTATCGATACAT
1 TGTATCGATACAT
103239 TGTATCGATACATACTTT
1 TGTATCGATAC--A---T
103257 GTGTATCGATACAT
1 -TGTATCGATACAT
103271 TGTATCGATACAT
1 TGTATCGATACAT
103284 ACTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103263 original size:19 final size:19
Alignment explanation
Indices: 103239--103301 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
103229 ATCGATACAT
103239 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
103258 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
103271 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
*
103290 TGTATTGATACA
1 TGTATCGATACA
103302 AGTTTGGCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 22 0.59
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:103263 original size:32 final size:32
Alignment explanation
Indices: 103206--103301 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
103196 TACAAGCCAA
**
103206 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATACTTTGTGTATCGATACAT
103239 TGTATCGATACATACTTTGTGTATCGATACAT
1 TGTATCGATACATACTTTGTGTATCGATACAT
*
103271 TGTATCGATACATACTTTGTGTATTGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
103302 AGTTTGGCCA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.82
33 11 0.18
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:107691 original size:31 final size:31
Alignment explanation
Indices: 107645--107737 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 31
107635 CATTTAGAAA
* *
107645 TCAAACTTGTTTTTTTTGAACAAGTTAAAAT
1 TCAAACTTGTCTTTTTTGAACAAGTTAAAAG
** * *
107676 TTGAACTTGTC-TTTTTGAATAGGTTAAAAG
1 TCAAACTTGTCTTTTTTGAACAAGTTAAAAG
* * *
107706 TCAAACTTGTCTCTTTCTAAACAAGTCAAAAG
1 TCAAACTTGTCT-TTTTTGAACAAGTTAAAAG
107738 CTGAACCTAT
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
30 25 0.53
31 8 0.17
32 14 0.30
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (31 bp):
TCAAACTTGTCTTTTTTGAACAAGTTAAAAG
Found at i:107737 original size:32 final size:32
Alignment explanation
Indices: 107701--107975 Score: 92
Period size: 32 Copynumber: 8.6 Consensus size: 32
107691 TGAATAGGTT
107701 AAAAGTCAAACTTGTCTCTTTCTAAACAAGTC
1 AAAAGTCAAACTTGTCTCTTTCTAAACAAGTC
* * * * * *
107733 AAAAGCTGAACCTAT-TTTC-TTCTAAATAGGTT
1 AAAAG-TCAAACT-TGTCTCTTTCTAAACAAGTC
** ** * *
107765 AGGAGTTGAACTTGTCTCTTT-TCGAACAAGCC
1 AAAAGTCAAACTTGTCTCTTTCT-AAACAAGTC
* *** * * * * * *
107797 AAAATTTGGACCTATATCTTTCCAAATAGGTC
1 AAAAGTCAAACTTGTCTCTTTCTAAACAAGTC
*
107829 AAAAGTCAAACTTGTCTCCTTCTAAACAAGTC
1 AAAAGTCAAACTTGTCTCTTTCTAAACAAGTC
* * * * * *
107861 AAAATTCGAACTTGTATCTTTCTAAATAGGTTT
1 AAAAGTCAAACTTGTCTCTTTCTAAACAAG-TC
*** * *
107894 AGGTGTCAAACTTGTCTTTTTAC-AAACAAATC
1 AAAAGTCAAACTTGTCTCTTT-CTAAACAAGTC
* * * * *
107926 AAAATTCAAACTTG-CATATTTCTACATAAGTT
1 AAAAGTCAAACTTGTC-TCTTTCTAAACAAGTC
* *
107958 AAAAATCAAACTTATCTC
1 AAAAGTCAAACTTGTCTC
107976 CTTTTGAGCA
Statistics
Matches: 162, Mismatches: 70, Indels: 22
0.64 0.28 0.09
Matches are distributed among these distances:
30 1 0.01
31 10 0.06
32 121 0.75
33 28 0.17
34 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (32 bp):
AAAAGTCAAACTTGTCTCTTTCTAAACAAGTC
Found at i:107777 original size:64 final size:64
Alignment explanation
Indices: 107693--107891 Score: 188
Period size: 64 Copynumber: 3.1 Consensus size: 64
107683 TGTCTTTTTG
* * *
107693 AATAGGTTAAAAGTCAAACTTGTCTCTTTCTAAACAAGTCAAAAGCTGAACCTAT-TTTCTTCTA
1 AATAGGTCAAAAGTCAAACTTGTCTCTTTCTAAACAAGTCAAAAGCTGAACCTATATCT-TTCCA
* ** ** * * ** *
107757 AATAGGTTAGGAGTTGAACTTGTCTCTTT-TCGAACAAGCCAAAATTTGGACCTATATCTTTCCA
1 AATAGGTCAAAAGTCAAACTTGTCTCTTTCT-AAACAAGTCAAAAGCTGAACCTATATCTTTCCA
* * * * *
107821 AATAGGTCAAAAGTCAAACTTGTCTCCTTCTAAACAAGTCAAAA-TTCGAACTTGTATCTTTCTA
1 AATAGGTCAAAAGTCAAACTTGTCTCTTTCTAAACAAGTCAAAAGCT-GAACCTATATCTTTCCA
107885 AATAGGT
1 AATAGGT
107892 TTAGGTGTCA
Statistics
Matches: 108, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
63 3 0.03
64 102 0.94
65 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (64 bp):
AATAGGTCAAAAGTCAAACTTGTCTCTTTCTAAACAAGTCAAAAGCTGAACCTATATCTTTCCA
Found at i:108033 original size:64 final size:64
Alignment explanation
Indices: 107658--108095 Score: 184
Period size: 64 Copynumber: 6.9 Consensus size: 64
107648 AACTTGTTTT
* * * * * * *
107658 TTTTGAACAAGTTAAAATTTGAA-CT-TGTCTTTTTGAATAGGTTAAAAGTCAAACTTGTCT-C
1 TTTTGAACAAGTCAAAATATGAACCTATATCTTTTTGAATAAGTTAAGAGTTAAACTTATCTCC
* ** * * * * *
107719 TTTCTAAACAAGTCAAAAGCTGAACCTAT-T-TTCTTCTAAATAGGTTAGGAGTTGAACTTGTCT
1 TTT-TGAACAAGTCAAAATATGAACCTATATCTT-TT-TGAATAAGTTAAGAGTTAAACTTATCT
107782 -C
63 CC
* * * *** * * * * *
107783 TTTTCGAACAAGCCAAAATTTGGACCTATATCTTTCCAAATAGGTCAAAAGTCAAACTTGTCTCC
1 TTTT-GAACAAGTCAAAATATGAACCTATATCTTTTTGAATAAGTTAAGAGTTAAACTTATCTCC
* * * * * * * * *
107848 TTCTAAACAAGTCAAAAT-TCGAACTTGTATCTTTCTAAATAGGTTTAG-GTGTCAAACTTGTCT
1 TTTTGAACAAGTCAAAATAT-GAACCTATATCTTTTTGAATAAGTTAAGAGT-T-AAACTTATCT
107911 --
63 CC
* * * * * * * * *
107911 TTTTACAAACAAATCAAAAT-TCAAACT-TGCATATTTCT-ACATAAGTTAAAAATCAAACTTAT
1 TTTT--GAACAAGTCAAAATATGAACCTAT--ATCTTTTTGA-ATAAGTTAAGAGTTAAACTTAT
107973 CTCC
61 CTCC
* * * * * * *
107977 TTTTGAGCAAGTCCAAAA-ATGAACTTGTATCTTTTTGAATAGGTTAGGAGTTAAACTTGTCTCT
1 TTTTGAACAAGT-CAAAATATGAACCTATATCTTTTTGAATAAGTTAAGAGTTAAACTTATCTCC
* *
108041 TTTTGAATAAGTCAAAATTTGAACCTATATCTTTTTGAATAAGTTAAGAGTTAAA
1 TTTTGAACAAGTCAAAATATGAACCTATATCTTTTTGAATAAGTTAAGAGTTAAA
108096 AATGTGTCTT
Statistics
Matches: 286, Mismatches: 66, Indels: 47
0.72 0.17 0.12
Matches are distributed among these distances:
61 3 0.01
62 18 0.06
63 18 0.06
64 185 0.65
65 54 0.19
66 8 0.03
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (64 bp):
TTTTGAACAAGTCAAAATATGAACCTATATCTTTTTGAATAAGTTAAGAGTTAAACTTATCTCC
Found at i:108034 original size:32 final size:32
Alignment explanation
Indices: 107998--108095 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 32
107988 TCCAAAAATG
* *
107998 AACTTGTATCTTTTTGAATAGGTTAGGAGTTA
1 AACTTGTATCTTTTTGAATAAGTTAAGAGTTA
* * * * *
108030 AACTTGTCTCTTTTTGAATAAGTCAAAATTTG
1 AACTTGTATCTTTTTGAATAAGTTAAGAGTTA
* *
108062 AACCTATATCTTTTTGAATAAGTTAAGAGTTA
1 AACTTGTATCTTTTTGAATAAGTTAAGAGTTA
108094 AA
1 AA
108096 AATGTGTCTT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (32 bp):
AACTTGTATCTTTTTGAATAAGTTAAGAGTTA
Found at i:108106 original size:32 final size:32
Alignment explanation
Indices: 108002--108106 Score: 102
Period size: 32 Copynumber: 3.3 Consensus size: 32
107992 AAAATGAACT
* * *
108002 TGTATCTTTTTGAATAGGTTAGGAGTTAAACT
1 TGTATCTTTTTGAATAAGTTAAGAGTTAAACA
* * * * * *
108034 TGTCTCTTTTTGAATAAGTCAAAATTTGAACC
1 TGTATCTTTTTGAATAAGTTAAGAGTTAAACA
* *
108066 TATATCTTTTTGAATAAGTTAAGAGTTAAAAA
1 TGTATCTTTTTGAATAAGTTAAGAGTTAAACA
*
108098 TGTGTCTTT
1 TGTATCTTT
108107 CTAAACAAGT
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TGTATCTTTTTGAATAAGTTAAGAGTTAAACA
Found at i:108681 original size:20 final size:21
Alignment explanation
Indices: 108637--108688 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
108627 AAAAGTGCAG
* *
108637 TTGTATTGATACAATTACCTA
1 TTGTATCGATACAATTACATA
*
108658 TTGTATCGATACAA-TGCATA
1 TTGTATCGATACAATTACATA
108678 TTGTATCGATA
1 TTGTATCGATA
108689 TATCCTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (21 bp):
TTGTATCGATACAATTACATA
Found at i:109841 original size:30 final size:30
Alignment explanation
Indices: 109755--109844 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
109745 TGCATTTTTT
* *
109755 GGGTCATTTAGGTTATTTTCCATGATCTAG
1 GGGTTATTTAGGTTATTTTCCATGATCTTG
* * * * *
109785 GGATT-TTTATG-TA-ATTACATATATCTTG
1 GGGTTATTTAGGTTATTTTCCAT-GATCTTG
109813 GGGTTATTTAGGTTATTTTCCATGATCTTG
1 GGGTTATTTAGGTTATTTTCCATGATCTTG
109843 GG
1 GG
109845 ACTTTTATGC
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
27 5 0.11
28 11 0.25
29 10 0.23
30 13 0.30
31 5 0.11
ACGTcount: A:0.21, C:0.10, G:0.22, T:0.47
Consensus pattern (30 bp):
GGGTTATTTAGGTTATTTTCCATGATCTTG
Found at i:109938 original size:116 final size:117
Alignment explanation
Indices: 109818--110079 Score: 292
Period size: 117 Copynumber: 2.2 Consensus size: 117
109808 TCTTGGGGTT
* ** **
109818 ATTTAGGTTATTTTCCATGATCTTGGGACTTTTATGCAAATTTCAAGTATGTTGGGGTCATTTAA
1 ATTTAGGTCATTTTCCATGATCTACGGACTTTTATGCAAATTTCAAGTATGTTAAGGTCATTTAA
* * *
109883 GTCAT-TTCTATGATAGAGGGATTTTGGCGTAATTTTATAAATTTTGATGTC
66 GTCATATTCCATGATAGAAGGACTTTGGCGTAATTTTATAAATTTTGATGTC
* * * ** ** * * * *
109934 ATTTAGATCATTTTTCATGATATACGGACTTTTATGCAGGTTTCATTTATTTTAATGTCTTTTAG
1 ATTTAGGTCATTTTCCATGATCTACGGACTTTTATGCAAATTTCAAGTATGTTAAGGTCATTTAA
** ** *
109999 GTCATATTCCATGATCTAAGGACTTTGTTGTAATTTTATGAATTTTGATGTC
66 GTCATATTCCATGATAGAAGGACTTTGGCGTAATTTTATAAATTTTGATGTC
*
110051 ATTTAGGTCATTTTCCATGATCTATGGAC
1 ATTTAGGTCATTTTCCATGATCTACGGAC
110080 ATGGATGTAA
Statistics
Matches: 117, Mismatches: 28, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
116 54 0.46
117 63 0.54
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (117 bp):
ATTTAGGTCATTTTCCATGATCTACGGACTTTTATGCAAATTTCAAGTATGTTAAGGTCATTTAA
GTCATATTCCATGATAGAAGGACTTTGGCGTAATTTTATAAATTTTGATGTC
Found at i:110072 original size:58 final size:59
Alignment explanation
Indices: 109757--110139 Score: 278
Period size: 58 Copynumber: 6.6 Consensus size: 59
109747 CATTTTTTGG
* * * * * **
109757 GTCATTTAGGTTATTTTCCATGATCTAGGGA-TTTTTATGTAATTACATATATCTTGGG
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATGTAATTTCATAAATTTTGAT
* * * * * * **
109815 GTTATTTAGGTTATTTTCCATGATCTTGGGACTTT-TATGCAAATTTCA-AGTATGTTGGG
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATG-TAATTTCATA-AATTTTGAT
* * ** * ** *
109874 GTCATTTAAGTCA-TTTCTATGATAGAGGGATTTTG-GCGTAATTTTATAAATTTTGAT
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATGTAATTTCATAAATTTTGAT
* * * * * * ** *
109931 GTCATTTAGATCATTTTTCATGATATACGGACTTT-TATGCAGGTTTCATTTATTTTAAT
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATGTA-ATTTCATAAATTTTGAT
* * * * *
109990 GTCTTTTAGGTCATATTCCATGATCTAAGGACTTTGT-TGTAATTTTATGAATTTTGAT
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATGTAATTTCATAAATTTTGAT
* * * *
110048 GTCATTTAGGTCATTTTCCATGATCTATGGAC-ATGGATGTAATTTTATAAATTTTGAT
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATGTAATTTCATAAATTTTGAT
* * * *
110106 GTCATGTAAGTCATTTTCTATGATCTAGAGACTT
1 GTCATTTAGGTCATTTTCCATGATCTAGGGACTT
110140 CCATGTAATT
Statistics
Matches: 254, Mismatches: 60, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
57 24 0.09
58 158 0.62
59 71 0.28
60 1 0.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.46
Consensus pattern (59 bp):
GTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGTATGTAATTTCATAAATTTTGAT
Found at i:110160 original size:58 final size:58
Alignment explanation
Indices: 110039--110160 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 58
110029 TAATTTTATG
* * ** * *
110039 AATTTTGATGTCATTTAGGTCATTTTCCATGATCTATGGACATGGATGTAATTTTATA
1 AATTTTGATGTCATGTAAGTCATTTTCCATGATCTATGGACATCCATGTAATTTAACA
* *
110097 AATTTTGATGTCATGTAAGTCATTTTCTATGATCTA-GAGACTTCCATGTAATTTAACA
1 AATTTTGATGTCATGTAAGTCATTTTCCATGATCTATG-GACATCCATGTAATTTAACA
*
110155 CATTTT
1 AATTTT
110161 AGAAATATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 1 0.02
58 53 0.98
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (58 bp):
AATTTTGATGTCATGTAAGTCATTTTCCATGATCTATGGACATCCATGTAATTTAACA
Found at i:110458 original size:60 final size:60
Alignment explanation
Indices: 110385--110501 Score: 200
Period size: 60 Copynumber: 1.9 Consensus size: 60
110375 GTTAATTATA
*
110385 ATGTATATTTTTTTCAAAAATC-GAAAAAATATCTTTGAGTTAAAATAGTCCATAGGTATG
1 ATGTATATTTTTTTCAAAAATCTG-AAAAATATCTTTGAGTTAAAATAATCCATAGGTATG
*
110445 ATGTATTTTTTTTTCAAAAATCTGAAAAATATCTTTGAGTTAAAATAATCCATAGGT
1 ATGTATATTTTTTTCAAAAATCTGAAAAATATCTTTGAGTTAAAATAATCCATAGGT
110502 GTGCTTCTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 53 0.98
61 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (60 bp):
ATGTATATTTTTTTCAAAAATCTGAAAAATATCTTTGAGTTAAAATAATCCATAGGTATG
Found at i:110789 original size:11 final size:11
Alignment explanation
Indices: 110773--110806 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
110763 ATAAAGACTA
110773 AGTTAATATAT
1 AGTTAATATAT
* *
110784 AGTTAACACAT
1 AGTTAATATAT
110795 AGTTAATATAT
1 AGTTAATATAT
110806 A
1 A
110807 CCAATTTATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
AGTTAATATAT
Found at i:112142 original size:20 final size:21
Alignment explanation
Indices: 112107--112178 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 21
112097 CTACAATTTA
*
112107 TATCGATACTATAAGTTAATG
1 TATCGATACTATAAGTGAATG
*
112128 TATCGATAC-ATAAGTGAATT
1 TATCGATACTATAAGTGAATG
***
112148 TATCGATA-TATGCTTGCAATG
1 TATCGATACTATAAGTG-AATG
112169 TATCGATACT
1 TATCGATACT
112179 GGACTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
20 21 0.50
21 20 0.48
22 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (21 bp):
TATCGATACTATAAGTGAATG
Found at i:113244 original size:20 final size:21
Alignment explanation
Indices: 113219--113257 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
113209 ATCTTGACAA
*
113219 CCCATG-TTCATGCATTTTGT
1 CCCATGATCCATGCATTTTGT
113239 CCCATGATCCATGCATTTT
1 CCCATGATCCATGCATTTT
113258 AACATGTTTA
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:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (21 bp):
CCCATGATCCATGCATTTTGT
Found at i:117972 original size:26 final size:26
Alignment explanation
Indices: 117942--118045 Score: 120
Period size: 26 Copynumber: 3.9 Consensus size: 26
117932 CTAGAGTCTT
117942 AAATAAAGTTAAACTTTATCAATCCC
1 AAATAAAGTTAAACTTTATCAATCCC
* * *
117968 AAATAAAGATCACAC-TTATCTAGAGTCCT
1 AAATAAAG-TTAAACTTTATC-A-A-TCCC
117997 AAATAAAGTTAAACTTTATCAATCCC
1 AAATAAAGTTAAACTTTATCAATCCC
* *
118023 AAATAAAGCTGAACTTTATCAAT
1 AAATAAAGTTAAACTTTATCAAT
118046 ACTATTTCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 37 0.57
27 6 0.09
28 6 0.09
29 16 0.25
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (26 bp):
AAATAAAGTTAAACTTTATCAATCCC
Found at i:118001 original size:29 final size:29
Alignment explanation
Indices: 117918--118012 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
117908 ATAGACAGTT
*
117918 AAGATTACACTTATCTAGAGTCTTAAATA
1 AAGATTACACTTATCTAGAGTCCTAAATA
* *
117947 AAG-TTAAACTTTATC-A-A-TCCCAAATA
1 AAGATTACAC-TTATCTAGAGTCCTAAATA
*
117973 AAGATCACACTTATCTAGAGTCCTAAATA
1 AAGATTACACTTATCTAGAGTCCTAAATA
*
118002 AAG-TTAAACTT
1 AAGATTACACTT
118013 TATCAATCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
26 15 0.28
27 6 0.11
28 13 0.25
29 19 0.36
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (29 bp):
AAGATTACACTTATCTAGAGTCCTAAATA
Found at i:118042 original size:55 final size:55
Alignment explanation
Indices: 117918--118030 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
117908 ATAGACAGTT
* *
117918 AAGATTACACTTATCTAGAGTCTTAAATAAAGTTAAACTTTATCAATCCCAAATA
1 AAGATCACACTTATCTAGAGTCCTAAATAAAGTTAAACTTTATCAATCCCAAATA
117973 AAGATCACACTTATCTAGAGTCCTAAATAAAGTTAAACTTTATCAATCCCAAATA
1 AAGATCACACTTATCTAGAGTCCTAAATAAAGTTAAACTTTATCAATCCCAAATA
118028 AAG
1 AAG
118031 CTGAACTTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (55 bp):
AAGATCACACTTATCTAGAGTCCTAAATAAAGTTAAACTTTATCAATCCCAAATA
Found at i:119291 original size:13 final size:13
Alignment explanation
Indices: 119273--119297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119263 CATTATGCTT
119273 TGTATCGATACAA
1 TGTATCGATACAA
119286 TGTATCGATACA
1 TGTATCGATACA
119298 TGTTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:119310 original size:19 final size:19
Alignment explanation
Indices: 119286--119338 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
119276 ATCGATACAA
*
119286 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTAAT
* *
119305 TGTATCAATACATACTTAAT
1 TGTATCGATACAT-GTTAAT
119325 TGTATCGATACATG
1 TGTATCGATACATG
119339 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTAAT
Found at i:123516 original size:115 final size:118
Alignment explanation
Indices: 123321--123534 Score: 380
Period size: 115 Copynumber: 1.8 Consensus size: 118
123311 TAATAAAAGA
*
123321 ACCTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTTATGATTCTAACTCTTCCTTAAGGAAGGT
1 ACCTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTTATGATTCTAACTCTTCCTTAAGGAAAGT
* *
123386 ATCTTTTGTTGACAATGTCGTAATGTGCGCTCGATGTTTTAAATAACGATAAG
66 ATCTTTTGTTAACAATGTCGTAACGTGCGCTCGATGTTTTAAATAACGATAAG
123439 ACCTTAG-T-TTGAAGAATC-ATCCATGTTGTTTTTTATGATTCTAACTCTTCCTTAAGGAAAGT
1 ACCTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTTATGATTCTAACTCTTCCTTAAGGAAAGT
123501 ATCTTTTGTTAACAATGTCGTAACGTGCGCTCGA
66 ATCTTTTGTTAACAATGTCGTAACGTGCGCTCGA
123535 CCCCGGCGAT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
115 75 0.81
116 10 0.11
117 1 0.01
118 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (118 bp):
ACCTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTTATGATTCTAACTCTTCCTTAAGGAAAGT
ATCTTTTGTTAACAATGTCGTAACGTGCGCTCGATGTTTTAAATAACGATAAG
Found at i:126720 original size:52 final size:52
Alignment explanation
Indices: 126572--126700 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
126562 CGAAATATGA
126572 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
126624 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
126676 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
126701 AAGATCAGTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:126800 original size:19 final size:20
Alignment explanation
Indices: 126776--126828 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
126766 TAGCTTATAT
126776 TGTATCGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
126795 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
126815 TGTATCGATACAAA
1 TGTATCGATACAAA
126829 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:127576 original size:285 final size:284
Alignment explanation
Indices: 127186--127757 Score: 993
Period size: 285 Copynumber: 2.0 Consensus size: 284
127176 GAAGAAGCTT
**
127186 CAAAAGAAGTTGATGAACTTGAGCCGACTCAAACCAAAAGAAAACATCCAAGGAAGTTGACTTAT
1 CAAAAGAAGTTGATGAACACGAGCCGACTCAAACCAAAAGAAAACATCCAAGGAAGTTGACTTAT
*
127251 GTGCAAGAAGGTGAGATTATCGGTAATCCAAGTCATGGGGTAAGAACTAGATCATCTCTTAGAAA
66 GTGCAAGAAGGTGAGATTATCAGTAATCCAAGTCATGGGGTAAGAACTAGATCATCTCTTAGAAA
*
127316 TACTTGTGATTATGTAGCATTTCTCTCTCAAATAGAACCCAAAAGTATTGATTAGGCCATACAAG
131 TACTTGTGATTATGTAGCATTTCTCTCTCAAATAGAACCCAAAAGTATTGATGAGGCCATACAAG
127381 ATGAAAATTGGATTACGACCATGCAAAAAGAATTAAATCAATTTGAAAGAAGCAAGGTTTGGTCT
196 ATGAAAATTGGATTACGACCATGCAAAAAGAATTAAATCAATTTGAAAGAAGCAA-GTTTGGTCT
*
127446 TTAGTAAAAAGACCGAGCGATCATC
260 TTAGCAAAAAGACCGAGCGATCATC
* *
127471 CAAAAGAAGTTGATGAACACGAGTCGACTTAAACCAAAAGAAAACATCCAAAGG-AGTTGACTTA
1 CAAAAGAAGTTGATGAACACGAGCCGACTCAAACCAAAAGAAAACATCC-AAGGAAGTTGACTTA
*
127535 TGTGCAAGAAGGTGAGATTATCAGTAATCTAAGTCATGGGGTAAGAACTAGATCATCTCTTAGAA
65 TGTGCAAGAAGGTGAGATTATCAGTAATCCAAGTCATGGGGTAAGAACTAGATCATCTCTTAGAA
*
127600 ATACTTGTGATTATGTAGCATTTCTCTCTCAAATAGAACCCAAAAGTATTGATGAGGCCATATAA
130 ATACTTGTGATTATGTAGCATTTCTCTCTCAAATAGAACCCAAAAGTATTGATGAGGCCATACAA
* * * *
127665 GATGAAAATTGGATTATGGCCTTGCAAGAAGAATTAAATCAATTTGAAAGAAGCAAGTTTGGTCT
195 GATGAAAATTGGATTACGACCATGCAAAAAGAATTAAATCAATTTGAAAGAAGCAAGTTTGGTCT
*
127730 TTAGCAAAAAGACCGAGTGATCATC
260 TTAGCAAAAAGACCGAGCGATCATC
127755 CAA
1 CAA
127758 TTATAGGAAC
Statistics
Matches: 272, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
284 35 0.13
285 233 0.86
286 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (284 bp):
CAAAAGAAGTTGATGAACACGAGCCGACTCAAACCAAAAGAAAACATCCAAGGAAGTTGACTTAT
GTGCAAGAAGGTGAGATTATCAGTAATCCAAGTCATGGGGTAAGAACTAGATCATCTCTTAGAAA
TACTTGTGATTATGTAGCATTTCTCTCTCAAATAGAACCCAAAAGTATTGATGAGGCCATACAAG
ATGAAAATTGGATTACGACCATGCAAAAAGAATTAAATCAATTTGAAAGAAGCAAGTTTGGTCTT
TAGCAAAAAGACCGAGCGATCATC
Found at i:132134 original size:13 final size:13
Alignment explanation
Indices: 132116--132142 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
132106 ACATTATGCT
132116 TTGTATCGATACA
1 TTGTATCGATACA
132129 TTGTATCGATACA
1 TTGTATCGATACA
132142 T
1 T
132143 GAAGAATTGT
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:132139 original size:33 final size:33
Alignment explanation
Indices: 132097--132163 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
132087 CATATCTAGA
* * **
132097 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAAGAATTGTATCGATACAT
132130 TGTATCGATACATGAAGAATTGTATCGATACAT
1 TGTATCGATACATGAAGAATTGTATCGATACAT
132163 T
1 T
132164 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATGAAGAATTGTATCGATACAT
Found at i:135771 original size:57 final size:56
Alignment explanation
Indices: 135591--135808 Score: 183
Period size: 57 Copynumber: 3.9 Consensus size: 56
135581 ACTCAAGAGT
* * * * * *
135591 AGCTAATAGGTTTCATCTCGATTGAAATTAGCA-CCAAAATGTGAAAGCCTAAGAA-C
1 AGCTGATAGGTTTCAT-TCTACTAAAATTTGCACCCAAAATATGAAAGCCTAA-AAGC
* ** * * * * *
135647 AACTGATAGGTTTTGTTCCAACTAAAATTGGCACCCAAAATATGAAAGCCCAAGAGT
1 AGCTGATAGGTTTCATT-CTACTAAAATTTGCACCCAAAATATGAAAGCCTAAAAGC
* *
135704 AGCT-ACTAGGTTTCATTCTAGCTAAATTTTGCACCCAAAATATGAAAGTCTAAAAGC
1 AGCTGA-TAGGTTTCATTCTA-CTAAAATTTGCACCCAAAATATGAAAGCCTAAAAGC
* * **
135761 AGTTGATAGGTTTCATCCTACTAAAATTTGCA-TAAAAATATGAAAGCC
1 AGCTGATAGGTTTCATTCTACTAAAATTTGCACCCAAAATATGAAAGCC
135809 CAAGAATAGT
Statistics
Matches: 128, Mismatches: 28, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
55 14 0.11
56 38 0.30
57 75 0.59
58 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (56 bp):
AGCTGATAGGTTTCATTCTACTAAAATTTGCACCCAAAATATGAAAGCCTAAAAGC
Found at i:135784 original size:113 final size:112
Alignment explanation
Indices: 135584--135813 Score: 261
Period size: 113 Copynumber: 2.0 Consensus size: 112
135574 TGAGAAAACT
* * *
135584 CAAGAGTAGCTAATAGGTTTCATCTCGATTGAAATTAGCACCAAAATGTGAAAGCCTAAGAACAA
1 CAAGAGTAGCTAATAGGTTTCATCTAGACTGAAATTAGCACCAAAATATGAAAGCCTAAGAACAA
** *
135649 CTGATAGGTTTTGTTCCAACTAAAATTGGCACCCAAAATATGAAAGCC
66 CTGATAGGTTTTCATCCAACTAAAATTGGCA-CAAAAATATGAAAGCC
* * *
135697 CAAGAGTAGCTACTAGGTTTCATTCTAG-CT-AAATTTTGCACCCAAAATATGAAAGTCTAA-AA
1 CAAGAGTAGCTAATAGGTTTCA-TCTAGACTGAAA-TTAGCA-CCAAAATATGAAAGCCTAAGAA
** * * *
135759 GCAGTTGATAGG-TTTCATCCTACTAAAATTTGCATAAAAATATGAAAGCC
63 -CAACTGATAGGTTTTCATCCAACTAAAATTGGCACAAAAATATGAAAGCC
135809 CAAGA
1 CAAGA
135814 ATAGTTTATA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
112 22 0.22
113 47 0.47
114 30 0.30
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (112 bp):
CAAGAGTAGCTAATAGGTTTCATCTAGACTGAAATTAGCACCAAAATATGAAAGCCTAAGAACAA
CTGATAGGTTTTCATCCAACTAAAATTGGCACAAAAATATGAAAGCC
Found at i:135825 original size:55 final size:57
Alignment explanation
Indices: 135668--135825 Score: 162
Period size: 57 Copynumber: 2.8 Consensus size: 57
135658 TTTGTTCCAA
* * * * *
135668 CTAAAATTGGCACCCAAAATATGAAAGCCCAAGAGTAG-CTACTAGGTTTCATTCTAG
1 CTAAAATTTGCACCAAAAATATGAAAGCCCAAGAATAGTTTA-TAGGTTTCATCCTAG
* * * * * *
135725 CTAAATTTTGCACCCAAAATATGAAAGTCTAA-AAGCAGTTGATAGGTTTCATCCTA-
1 CTAAAATTTGCACCAAAAATATGAAAGCCCAAGAA-TAGTTTATAGGTTTCATCCTAG
*
135781 CTAAAATTTGCA-TAAAAATATGAAAGCCCAAGAATAGTTTATAGG
1 CTAAAATTTGCACCAAAAATATGAAAGCCCAAGAATAGTTTATAGG
135826 ATTTGTCCTA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
55 24 0.29
56 14 0.17
57 43 0.52
58 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (57 bp):
CTAAAATTTGCACCAAAAATATGAAAGCCCAAGAATAGTTTATAGGTTTCATCCTAG
Found at i:135940 original size:31 final size:31
Alignment explanation
Indices: 135905--135967 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
135895 AGTTCCTCGT
*
135905 TGGTCATCCTTTTGACTAATAGATTTTACCC
1 TGGTCATCCTTTTGACTAATAGATTTCACCC
** * *
135936 TGGTCATTTTTTTGACTATTAGGTTTCACCC
1 TGGTCATCCTTTTGACTAATAGATTTCACCC
135967 T
1 T
135968 AGTCTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (31 bp):
TGGTCATCCTTTTGACTAATAGATTTCACCC
Found at i:135985 original size:30 final size:31
Alignment explanation
Indices: 135915--135991 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
135905 TGGTCATCCT
* * * * *
135915 TTTGACTAATAGATTTTACCCTGGTCATTTT
1 TTTGACTATTAGGTTTCACCCTAGTCATTTA
135946 TTTGACTATTAGGTTTCACCCTAGTC-TTTA
1 TTTGACTATTAGGTTTCACCCTAGTCATTTA
*
135976 TTTGGCTATTAGGTTT
1 TTTGACTATTAGGTTT
135992 TGCTTTTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 18 0.45
31 22 0.55
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
TTTGACTATTAGGTTTCACCCTAGTCATTTA
Found at i:136043 original size:30 final size:30
Alignment explanation
Indices: 136009--136099 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
135999 GTTATCTTTC
136009 TAACTAATATGTTTTACCCTA-TCATTTTTT
1 TAACTAATATGTTTT-CCCTAGTCATTTTTT
** * *
136039 TAACTAATATGTTTTGGCTAGTCATCTTTC
1 TAACTAATATGTTTTCCCTAGTCATTTTTT
*
136069 TAACTAATACGTTTTGCCCTAGTCATTTTTT
1 TAACTAATATGTTTT-CCCTAGTCATTTTTT
136100 GACTGATAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
29 3 0.06
30 36 0.72
31 11 0.22
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.49
Consensus pattern (30 bp):
TAACTAATATGTTTTCCCTAGTCATTTTTT
Found at i:136294 original size:30 final size:30
Alignment explanation
Indices: 136139--136432 Score: 131
Period size: 30 Copynumber: 9.7 Consensus size: 30
136129 TTAAACTTTT
*
136139 GGTTTCACCTTAGTCAAT-ATTTTGACAATT-A
1 GGTTTCACCTTAGTC-ATCTTTTTGAC--TTAA
* * *
136170 GGTTTCATCTTAGTTATCCTTTTGACTTAA
1 GGTTTCACCTTAGTCATCTTTTTGACTTAA
* * * * *
136200 AGTTTCACTTTGGTAATCCTTTTGACTATGAA
1 GGTTTCACCTTAGTCATCTTTTTGACT-T-AA
** * * * * *
136232 -GTTTTGCCTGAGTTACCTTCTCGACTTAA
1 GGTTTCACCTTAGTCATCTTTTTGACTTAA
*
136261 GGTTTCATCC-TAGTCATCTTTTTGACTTTA
1 GGTTTCA-CCTTAGTCATCTTTTTGACTTAA
*
136291 GGTTTTACCTTAGTCATCTTTTTGTGAC-TATA
1 GGTTTCACCTTAGTCATC-TTTT-TGACTTA-A
* * * ** * *
136323 GATTTC-GCTCTGGTCATC-TCCTCAATTAA
1 GGTTTCACCT-TAGTCATCTTTTTGACTTAA
*
136352 GGTTTCACCTTAGTCATCTCTTTT-ACTAAA
1 GGTTTCACCTTAGTCATCT-TTTTGACTTAA
* * *
136382 GGTTTCACCCTGGTCATCTTTTTTAC-TAA
1 GGTTTCACCTTAGTCATCTTTTTGACTTAA
**
136411 GGTTT-TGCTATAGTCATCTTTT
1 GGTTTCACCT-TAGTCATCTTTT
136433 CAACTTGGTT
Statistics
Matches: 196, Mismatches: 50, Indels: 36
0.70 0.18 0.13
Matches are distributed among these distances:
28 1 0.01
29 43 0.22
30 86 0.44
31 48 0.24
32 18 0.09
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (30 bp):
GGTTTCACCTTAGTCATCTTTTTGACTTAA
Found at i:138963 original size:69 final size:69
Alignment explanation
Indices: 138890--139214 Score: 264
Period size: 69 Copynumber: 4.8 Consensus size: 69
138880 TTTAGCGTTG
* * * * *
138890 CCAAGAACTTTCGTGTCAAAGGCATGCTTTAGAGGATATGTTGATCATTTTTAGAGTTTTTTAGG
1 CCAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGGTATATTGATCATTTTTAGAGTCTTTTAAG
138955 GTCA
66 GTCA
* * * * ** * * * * * *
138959 CCAAGAATTTTCATGTGAAATGTGTGCTTTAAAGGGTATATTAATCAGTTTGAAAGCCTTTTAGG
1 CCAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGGTATATTGATCATTTTTAGAGTCTTTTAAG
139024 GTCA
66 GTCA
* * * * *
139028 CCAAAAACTTTAGTGTCAAAGGCATGCTTTAAAGGGCATATTGGTCATTTTTAGAGTCATTTAAG
1 CCAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGGTATATTGATCATTTTTAGAGTCTTTTAAG
139093 GTC-
66 GTCA
** * * * * * * **
139096 TTAGGAGCTTTCATGTCAAAGACGTGCTTT-AAGTGGTCTATTGAT-GGTTTTAGAG--TTTTAA
1 CCAAGAACTTTCGTGTCAAAGGCATGCTTTAAAG-GGTATATTGATCATTTTTAGAGTCTTTTAA
139157 GGTCA
65 GGTCA
* * ** * *
139162 CCAAGAACTTTTGTGTCAAAGGCATACTTTAGGGGGTATGTTGGTCATTTTTA
1 CCAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGGTATATTGATCATTTTTA
139215 AAGGTCGTTA
Statistics
Matches: 189, Mismatches: 63, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
65 9 0.05
66 29 0.15
67 17 0.09
68 29 0.15
69 105 0.56
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (69 bp):
CCAAGAACTTTCGTGTCAAAGGCATGCTTTAAAGGGTATATTGATCATTTTTAGAGTCTTTTAAG
GTCA
Found at i:140647 original size:20 final size:22
Alignment explanation
Indices: 140617--140660 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
140607 TGATTTCCCA
140617 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
140638 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
140659 TG
1 TG
140661 AAAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:140710 original size:20 final size:20
Alignment explanation
Indices: 140685--140736 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
140675 TACAAGCCAA
** *
140685 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
140705 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
140724 TGTATCGATACAA
1 TGTATCGATACAA
140737 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:140742 original size:19 final size:18
Alignment explanation
Indices: 140685--140742 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
140675 TACAAGCCAA
*
140685 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
140705 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
140724 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
140743 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:142005 original size:21 final size:21
Alignment explanation
Indices: 141973--142025 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
141963 ATTTATGAAG
141973 ATATATCAATAAATTTCATTA
1 ATATATCAATAAATTTCATTA
* *
141994 ATGTATCGATAAATTTCATTA
1 ATATATCAATAAATTTCATTA
142015 ATATATCAATA
1 ATATATCAATA
142026 CATCATTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (21 bp):
ATATATCAATAAATTTCATTA
Found at i:143588 original size:50 final size:50
Alignment explanation
Indices: 143520--143626 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
143510 GGGTTGTTTA
** * * *
143520 GGTCATTTTTCATAATCTAGGGATTTTTATGAAAATTTTATGTTTATTAT
1 GGTCATTTACCATAATCTAGGGATTTTTATGAAAATTTCATGTATATTAG
* * *
143570 GGTCATTTACCATGATCTAGGGATTTTTATGCAAATTTCATGTATGTTAG
1 GGTCATTTACCATAATCTAGGGATTTTTATGAAAATTTCATGTATATTAG
143620 GGTCATT
1 GGTCATT
143627 CAAGTTGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (50 bp):
GGTCATTTACCATAATCTAGGGATTTTTATGAAAATTTCATGTATATTAG
Found at i:148317 original size:20 final size:21
Alignment explanation
Indices: 148278--148321 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
148268 TTAAGTATAG
148278 ATGTTTTTCAAGCATAAAAATA
1 ATGTTTTTCAAG-ATAAAAATA
148300 ATGTTTTTCAAG-TAAAAATA
1 ATGTTTTTCAAGATAAAAATA
148320 AT
1 AT
148322 TCAAAGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTTTTTCAAGATAAAAATA
Found at i:149059 original size:31 final size:30
Alignment explanation
Indices: 149005--149064 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
148995 AAGTGATTGA
*
149005 GAGGTTCTATCTTAGCCCGTGAAAAGATAGG
1 GAGGTTCTATCTTAGCCAGTG-AAAGATAGG
*
149036 GAGGTTTCTATCTTAG-CATTGAAAGATAG
1 GAGG-TTCTATCTTAGCCAGTGAAAGATAG
149065 TGTTGTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 7 0.27
32 11 0.42
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (30 bp):
GAGGTTCTATCTTAGCCAGTGAAAGATAGG
Done.