Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold330
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: 1763736
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 8 of 14
Found at i:883334 original size:33 final size:33
Alignment explanation
Indices: 883290--884033 Score: 571
Period size: 33 Copynumber: 23.4 Consensus size: 33
883280 CTAGGCTTCA
*
883290 AGTTGTCGACTTAAAAGGAAAAAGATGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
*
883323 AGTTGTGGACTTAAAAGG-----G-TGCCACAG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
*
883350 AGTTATGGACTTAAAAGGAAAAAGAGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGG
* * * * * *
883384 GGTTGGGGGCTTTAAAAAGAAAAAGGTGGCACGG
1 AGTTGTGGAC-TTAAAAGGAAAAAGATGCCACGG
* *
883418 AGTTGTGGACTTAAAAAGAAAAAGATGCCATGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
883451 AGTTGTGGACTTAAAAGG-----G-TGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* *
883478 AGTTTTGGACTTAAAAGGAAAAAGAGTGCCACGA
1 AGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGG
* * * *
883512 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAG
1 AGTTGTGGAC-TTAAAAGGAAAAAGATGCCACGG
*
883546 AGTTGTGGACTTAAAGGGAAAAAGATGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* *
883579 AGTTGTGGACCTAAAAGGAGAAAAGGATGCCATGG
1 AGTTGTGGACTTAAAAGGA-AAAA-GATGCCACGG
* * * **
883614 AGGTGTGGGCTTAAAAGGGAAAAAGGTGCCACAA
1 AGTTGTGGACTTAAAA-GGAAAAAGATGCCACGG
*
883648 AGTTGTGGACTTAAAA-G----AG-TGCCACCG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* * *
883675 AGTTATGGACTTAAAAGGAAAAAGAGTGTCACAG
1 AGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGG
** * *
883709 AGTCATGGACTTAAAAGGAAAGAGATGCCATGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* *
883742 GGTTATGGACTTAAAAGG-----G-TGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* *
883769 AGTTGT-GAGCTTTAAAAAGAAAAA-AGTGCCATGG
1 AGTTGTGGA-C-TTAAAAGGAAAAAGA-TGCCACGG
883803 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
883836 AGTTGTGGACTTAAAAGG-----G-TGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* * *
883863 AGTTGTGGACTTAAAAGGAGAAAGGTGCCGCGG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* * *
883896 AGTTATGGACTTGGAGAA-G-AAAAGATGCCACTG
1 AGTTGTGGACTT--AAAAGGAAAAAGATGCCACGG
* * * * *
883929 AGTCGTGGACTTAGAA-GACAAGGATGCCACTG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
* * **
883961 AGTCGTGAACTT---A-GAAAAGAGATGCCATTG
1 AGTTGTGGACTTAAAAGGAAAA-AGATGCCACGG
** *
883991 AGTTGTGGACTTTGAA-G-AAAAGATGCCACTG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
*
884022 AGTCGTGGACTT
1 AGTTGTGGACTT
884034 TGGGAAAAGA
Statistics
Matches: 579, Mismatches: 82, Indels: 102
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.00
27 107 0.18
28 14 0.02
29 5 0.01
30 19 0.03
31 26 0.04
32 32 0.06
33 188 0.32
34 126 0.22
35 57 0.10
36 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAGGAAAAAGATGCCACGG
Found at i:883346 original size:27 final size:28
Alignment explanation
Indices: 883315--883879 Score: 170
Period size: 34 Copynumber: 17.9 Consensus size: 28
883305 AGGAAAAAGA
883315 TGCCACGGAGTTGTGGACTTAAAAG-GG
1 TGCCACGGAGTTGTGGACTTAAAAGAGG
* *
883342 TGCCACAGAGTTATGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAA-G----AG-G
* * *
883376 TGCCACGGGGTTGGGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG----AGG
* *
883410 TGGCACGGAGTTGTGGACTTAAAAAGAAAAAGA
1 TGCCACGGAGTTGTGGACTT-AAAAG----AGG
*
883443 TGCCATGGAGTTGTGGACTTAAAAG-GG
1 TGCCACGGAGTTGTGGACTTAAAAGAGG
*
883470 TGCCACGGAGTTTTGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAA-G----AG-G
* *
883504 TGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG----AGG
* * *
883538 TGCCACAGAGTTGTGGACTTAAAGGGAAAAAGA
1 TGCCACGGAGTTGTGGACTT--A---AAAGAGG
*
883571 TGCCACGGAGTTGTGGACCTAAAAGGAGAAAAGG
1 TGCCACGGAGTTGTGGA-CTTAAA--AG---AGG
* * *
883605 ATGCCATGGAGGTGTGGGCTTAAAAGGGAAAAAGG
1 -TGCCACGGAGTTGTGGACTTAAAA--G----AGG
**
883640 TGCCACAAAGTTGTGGACTTAAAAGA-G
1 TGCCACGGAGTTGTGGACTTAAAAGAGG
* *
883667 TGCCACCGAGTTATGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAA-G----AG-G
* * **
883701 TGTCACAGAGTCATGGACTTAAAAGGAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAA-G--AG-G
* * *
883733 ATGCCATGGGGTTATGGACTTAAAAG-GG
1 -TGCCACGGAGTTGTGGACTTAAAAGAGG
*
883761 TGCCACGGAGTTGT-GAGCTTTAAAAAGAAAAAAG
1 TGCCACGGAGTTGTGGA-C-TT-AAAAG----AGG
* *
883795 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAA-G----AGG
883828 TGCCACGGAGTTGTGGACTTAAAAG-GG
1 TGCCACGGAGTTGTGGACTTAAAAGAGG
883855 TGCCACGGAGTTGTGGACTTAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAG
883880 GAGAAAGGTG
Statistics
Matches: 430, Mismatches: 58, Indels: 100
0.73 0.10 0.17
Matches are distributed among these distances:
26 2 0.00
27 105 0.24
28 7 0.02
29 8 0.02
31 1 0.00
32 21 0.05
33 104 0.24
34 131 0.30
35 40 0.09
36 8 0.02
37 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (28 bp):
TGCCACGGAGTTGTGGACTTAAAAGAGG
Found at i:883522 original size:128 final size:127
Alignment explanation
Indices: 883290--883973 Score: 669
Period size: 128 Copynumber: 5.4 Consensus size: 127
883280 CTAGGCTTCA
* *
883290 AGTTGTCGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTA
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTA
** * *
883355 TGGACTTAAAAGGAAAAAGAGTGCCACGGGGTTGGGGGCTTTAAAAAGAAAAAGGTGGCACGG
66 TGGACTTAAAAGGAAAAAG-GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* * *
883418 AGTTGTGGACTTAAAAAGAAAAAGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTT
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTA
*
883483 TGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAG
66 TGGACTTAAAAGGAAAAAG-GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* *
883546 AGTTGTGGACTTAAAGGGAAAAAGATGCCACGGAGTTGTGGACCTAAAAGGAGAAAAGGATGCCA
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGA-CTTAAA--AG----GG-TGCCA
* * * * * *
883611 TGGAGGTGTGGGCTTAAAAGGGAAAAAGGTGCCACAAAGTTGTGGAC-TT-AAAAG----A-GTG
58 CGGAGTTATGGACTTAAAA-GGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTG
*
883669 CCACCG
122 CCACGG
* * * ** *
883675 AGTTATGGACTTAAAAGGAAAAAGAGTGTCACAGAGTCATGGACTTAAAAGGAAAGAGATGCCAT
1 AGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAA-G---G-G-TGCCAC
* * * *
883740 GGGGTTATGGACTTAAAA-G-----GGTGCCACGGAGTTGTGAGCTTTAAAAAGAAAAAAGTGCC
59 GGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCC
*
883799 ATGG
124 ACGG
*
883803 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTA
* * * * * ** * * *
883868 TGGACTTAAAAGGAGAAAGGTGCCGCGGAGTTATGGACTTGGAGAAG-AAAAGATGCCACTG
66 TGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* * * * * * *
883929 AGTCGTGGACTTAGAA-GACAAGGATGCCACTGAGTCGTGAACTTA
1 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTA
883974 GAAAAGAGAT
Statistics
Matches: 467, Mismatches: 64, Indels: 53
0.80 0.11 0.09
Matches are distributed among these distances:
121 37 0.08
122 4 0.01
123 6 0.01
125 24 0.05
126 26 0.06
127 48 0.10
128 211 0.45
129 41 0.09
130 14 0.03
131 2 0.00
134 5 0.01
135 4 0.01
136 37 0.08
137 8 0.02
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.20
Consensus pattern (127 bp):
AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTA
TGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
Found at i:883666 original size:163 final size:162
Alignment explanation
Indices: 883297--883907 Score: 502
Period size: 163 Copynumber: 3.8 Consensus size: 162
883287 TCAAGTTGTC
* *
883297 GACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-AGAGTTATGGACT
1 GACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGA-AGTTATGGACT
* * * * * * *
883361 TAAAAGGAAAAAGAGTGCCACGGGGTTGGGGGCTTTAAAAAGAAAAAGGTGGCACGGAGTTGTGG
65 TAAAAGGAAAAAGAGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGATGCCACGGAGTTGTGG
*
883426 ACTTAAAA--AGAAAAAGATGCCATGGAGTTGTG
129 ACTTAAAAGGAGAAAAAGATGCCATGGAGGTGTG
* *
883458 GACTTAAAA-G-----GGTGCCACGGAGTTTTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTG
1 GACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT-------AAAAGAGTGCCACGAAGTTA
* * *
883517 TGGGCTTTAAAAAGAAAAAG-GTGCCACAGAGTTGTGGACTTAAAGGGAAAAAGATGCCACGGAG
59 TGGAC-TTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
* *
883581 TTGTGGACCTAAAAGGAGAAAAGGATGCCATGGAGGTGTG
123 TTGTGGACTTAAAAGGAGAAAAAGATGCCATGGAGGTGTG
* **
883621 GGCTTAAAAGGGAAAAAGGTGCCACAAAGTTGTGGACTTAAAAGAGTGCCACCG-AGTTATGGAC
1 GACTTAAAA-GGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCA-CGAAGTTATGGAC
* ** * * * *
883685 TTAAAAGGAAAAAGAGTGTCACAGAGTCATGGACTTAAAAGGAAAGAGATGCCATGGGGTTATGG
64 TTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGG
* *
883750 ACTTAAAA-G-G-----G-TGCCACGGAGTTGT-
129 ACTTAAAAGGAGAAAAAGATGCCATGGAGGTGTG
* * * *
883775 GAGCTTTAAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTT
1 GA-C-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G----AG-TGCCACGAAGTT
* * * * *
883840 GTGGACTTAAAA-G-----G-GTGCCACGGAGTTGTGGACTTAAAAGGAGAAAGGTGCCGCGGAG
58 ATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
*
883898 TTATGGACTT
123 TTGTGGACTT
883908 GGAGAAGAAA
Statistics
Matches: 369, Mismatches: 52, Indels: 65
0.76 0.11 0.13
Matches are distributed among these distances:
154 45 0.12
155 62 0.17
156 8 0.02
160 6 0.02
161 64 0.17
162 49 0.13
163 113 0.31
164 2 0.01
165 1 0.00
170 19 0.05
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (162 bp):
GACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGAAGTTATGGACTT
AAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGAC
TTAAAAGGAGAAAAAGATGCCATGGAGGTGTG
Found at i:883755 original size:94 final size:94
Alignment explanation
Indices: 883290--883941 Score: 621
Period size: 94 Copynumber: 6.9 Consensus size: 94
883280 CTAGGCTTCA
*
883290 AGTTGTCGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCAC
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
* *
883348 AGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGG
66 GGAGTTGTGGACTTAAAA-G-----G-GTGCCACGG
* * * * * *
883384 GGTTGGGGGCTTTAAAAAGAAAAAG-GTGGCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCA
1 AGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCA
*
883448 TGGAGTTGTGGACTTAAAAGGGTGCCACGG
65 CGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * * *
883478 AGTTTTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGATGCCA
* *
883543 CAGAGTTGTGGACTTAAAGGGAAAAAGATGCCACGG
65 CGGAGTTGTGGACTTAAAAGG-----G-TGCCACGG
* * * * *
883579 AGTTGTGGACCTAAAAGGAGAAAAG-GATGCCATGGAGGTGTGGGCTTAAAAGGGAAAAAGGTGC
1 AGTTGTGGACTTAAAAGGA-AAAAGAG-TGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGATGC
** * *
883643 CACAAAGTTGTGGACTTAAAAGAGTGCCACCG
63 CACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * ** * *
883675 AGTTATGGACTTAAAAGGAAAAAGAGTGTCACAGAGTCATGGACTTAAAAGGAAAGAGATGCCAT
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
* *
883740 GGGGTTATGGACTTAAAAGGGTGCCACGG
66 GGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
883769 AGTTGT-GAGCTTTAAAAAGAAAAA-AGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCC
1 AGTTGTGGA-C-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCC
883832 ACGGAGTTGTGGACTTAAAAGGGTGCCACGG
64 ACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
883863 AGTTGTGGACTTAAAAGGAGAAAG-GTGCCGCGGAGTTATGGACTTGGAGAA-G-AAAAGATGCC
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT--AAAAGGAAAAAGATGCC
* *
883925 ACTGAGTCGTGGACTTA
64 ACGGAGTTGTGGACTTA
883942 GAAGACAAGG
Statistics
Matches: 463, Mismatches: 69, Indels: 53
0.79 0.12 0.09
Matches are distributed among these distances:
93 69 0.15
94 147 0.32
95 114 0.25
96 25 0.05
97 1 0.00
100 3 0.01
101 53 0.11
102 51 0.11
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (94 bp):
AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
GGAGTTGTGGACTTAAAAGGGTGCCACGG
Found at i:883880 original size:27 final size:27
Alignment explanation
Indices: 883828--883880 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
883818 AGGAAAAAGA
883828 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
883855 TGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
883881 AGAAAGGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:883945 original size:31 final size:31
Alignment explanation
Indices: 883911--884482 Score: 620
Period size: 31 Copynumber: 18.3 Consensus size: 31
883901 TGGACTTGGA
*
883911 GAAGAAAAGATGCCACTGAGTCGTGGACTTA
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * *
883942 GAAGACAAGGATGCCACTGAGTCGTGAACTTA
1 GAAGA-AAAGATGCCACTGAGTCGTGGACTTT
* * *
883974 GAA-AAGAGATGCCATTGAGTTGTGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
884004 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* *
884035 G-GGAAAAGATTGCCACTGAGTCCTGGACTTT
1 GAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
* *
884066 G-GGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
*
884097 GAAGAAAAGATGCCATTGAGTCGTGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * * * * *
884128 G-GGAAGAGATGGCATTAAGTCATGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * * *
884158 G-GGACAAGATGACATTGAGTCGTGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * *
884188 G-GGAAGAGATTGCCACTAAGTCGTGGACTTT
1 GAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
*
884219 GAAGCAAAGATGCCACTGAGTCGTGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * * *
884250 G-GGAAGAGATGCCCCTGAGTCATGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
884280 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * *
884311 G-GGAAGAGATGCCACTGAGTCATGGACTTT
1 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
884341 GAAGAAAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAG--AAAAGATGCCACTGAGTCGTGGACTTT
* ** *
884374 GAAGAAAAAAAGATGCCACTAAGTTATGGACTTG
1 GAAG---AAAAGATGCCACTGAGTCGTGGACTTT
* *
884408 GAAGAAAAGGATGCCACTGAGTCATGAACTTT
1 GAAGAAAA-GATGCCACTGAGTCGTGGACTTT
*
884440 GAAGAAAATAGATGCCACTGAGTTGTGGACTTT
1 GAAG-AAA-AGATGCCACTGAGTCGTGGACTTT
884473 GAAGAAAAGA
1 GAAGAAAAGA
884483 GATTTGAAGA
Statistics
Matches: 464, Mismatches: 63, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
30 138 0.30
31 176 0.38
32 64 0.14
33 56 0.12
34 30 0.06
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (31 bp):
GAAGAAAAGATGCCACTGAGTCGTGGACTTT
Found at i:884211 original size:122 final size:122
Alignment explanation
Indices: 883914--884482 Score: 646
Period size: 122 Copynumber: 4.6 Consensus size: 122
883904 ACTTGGAGAA
* * * *
883914 GAAAAGATGCCACTGAGTCGTGGACTTAGAAGACA-AGGA-TGCCACTGAGTCGTGAACTTAGAA
1 GAAAAGATGCCACTGAGTCGTGGACTTTG-GGA-AGA-GATTGCCACTGAGTCGTGGACTTTGAA
* * * * * *
883977 -AAGAGATGCCATTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
63 GAAAAGATGCCACTGAGTCGTGGACTTTG-GGAAGAGATGCCACTGAGTCATGGACTTTGG
*
884037 GAAAAGATTGCCACTGAGTCCTGGACTTTGGGAAGAGATTGCCACTGAGTCGTGGACTTTGAAGA
1 GAAAAGA-TGCCACTGAGTCGTGGACTTTGGGAAGAGATTGCCACTGAGTCGTGGACTTTGAAGA
* * * *
884102 AAAGATGCCATTGAGTCGTGGACTTTGGGAAGAGATGGCATTAAGTCATGGACTTTGG
65 AAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGG
* * * * *
884160 GACAAGATGACATTGAGTCGTGGACTTTGGGAAGAGATTGCCACTAAGTCGTGGACTTTGAAGCA
1 GAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATTGCCACTGAGTCGTGGACTTTGAAGAA
* *
884225 AAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCCCTGAGTCATGGACTTTGAA
66 AAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTG-G
*
884283 GAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGA-TGCCACTGAGTCATGGACTTTGAAGAA
1 GAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATTGCCACTGAGTCGTGGACTTTGAAG--
* * * *
884347 AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCCACTAAGTTATGGAC-TTGG
64 AAAAGATGCCACTGAGTCGTGGACTTTG--G--GAAGAGATGCCACTGAGTCATGGACTTTGG
* * * * *
884409 AAGAAAAGGATGCCACTGAGTCATGAACTTTGAAGAAAATAGA-TGCCACTGAGTTGTGGACTTT
1 --GAAAA-GATGCCACTGAGTCGTGGACTTTG--G-GAAGAGATTGCCACTGAGTCGTGGACTTT
884473 GAAGAAAAGA
60 GAAGAAAAGA
884483 GATTTGAAGA
Statistics
Matches: 386, Mismatches: 43, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
122 130 0.34
123 97 0.25
124 73 0.19
126 1 0.00
127 3 0.01
128 25 0.06
129 22 0.06
130 6 0.02
131 1 0.00
132 28 0.07
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.24
Consensus pattern (122 bp):
GAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATTGCCACTGAGTCGTGGACTTTGAAGAA
AAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGG
Found at i:884215 original size:61 final size:61
Alignment explanation
Indices: 883895--884482 Score: 583
Period size: 61 Copynumber: 9.4 Consensus size: 61
883885 AGGTGCCGCG
* * * *
883895 GAGTTATGGACTTGGAGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAGACA-AGGATGCCAC
1 GAGTCATGGACTTTGAG--GAAAAGATGCCACTGAGTCGTGGACTTTG-GGA-AGA-GATGCCAC
883959 T
61 T
* * * * * * *
883960 GAGTCGTGAAC-TT-AGAAAAGAGATGCCATTGAGTTGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCATGGACTTTGAGGAAA-AGATGCCACTGAGTCGTGGACTTTG-GGAAGAGATGCCACT
* *
884021 GAGTCGTGGACTTTG-GGAAAAGATTGCCACTGAGTCCTGGACTTTGGGAAGAGATTGCCACT
1 GAGTCATGGACTTTGAGGAAAAGA-TGCCACTGAGTCGTGGACTTTGGGAAGAGA-TGCCACT
* * * * *
884083 GAGTCGTGGACTTTGAAGAAAAGATGCCATTGAGTCGTGGACTTTGGGAAGAGATGGCATT
1 GAGTCATGGACTTTGAGGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACT
* * * *
884144 AAGTCATGGACTTTG-GGACAAGATGACATTGAGTCGTGGACTTTGGGAAGAGATTGCCACT
1 GAGTCATGGACTTTGAGGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGA-TGCCACT
* * * * *
884205 AAGTCGTGGACTTTGAAGCAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCCCT
1 GAGTCATGGACTTTGAGGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACT
*
884266 GAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACT
1 GAGTCATGGACTTTGAGGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACT
* * *
884327 GAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCCA
1 GAGTCATGGACTTTG-AG-GAAAAGATGCCACTGAGTCGTGGACTTTG--G--GAAGAGATGCCA
884392 CT
60 CT
* * * * * * * *
884394 AAGTTATGGACTTGGAAGAAAAGGATGCCACTGAGTCATGAACTTTGAAGAAAATAGATGCCACT
1 GAGTCATGGACTTTGAGGAAAA-GATGCCACTGAGTCGTGGACTTTG--G-GAAGAGATGCCACT
** *
884459 GAGTTGTGGACTTTGAAGAAAAGA
1 GAGTCATGGACTTTGAGGAAAAGA
884483 GATTTGAAGA
Statistics
Matches: 454, Mismatches: 53, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
60 35 0.08
61 147 0.32
62 136 0.30
63 37 0.08
64 3 0.01
65 46 0.10
66 26 0.06
67 24 0.05
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.24
Consensus pattern (61 bp):
GAGTCATGGACTTTGAGGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACT
Found at i:885812 original size:19 final size:18
Alignment explanation
Indices: 885773--885812 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
885763 TTTTTGTGTG
**
885773 TTTTTTTTTGTTTTTGTT
1 TTTTTTTTTGTTTTTACT
885791 TTTTTTTTGTGTTTTTACT
1 TTTTTTTT-TGTTTTTACT
885810 TTT
1 TTT
885813 GACTTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTACT
Found at i:898965 original size:13 final size:12
Alignment explanation
Indices: 898947--899004 Score: 64
Period size: 13 Copynumber: 4.6 Consensus size: 12
898937 TCGTACCCCA
898947 AAAAAAACCAAAC
1 AAAAAAA-CAAAC
898960 -AAAAAACAAAC
1 AAAAAAACAAAC
*
898971 AAAAAAAACAAGC
1 -AAAAAAACAAAC
898984 AAAGAAAACAAAC
1 AAA-AAAACAAAC
898997 AAACAAAA
1 AAA-AAAA
899005 AGGGGTCCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.13
12 9 0.23
13 25 0.64
ACGTcount: A:0.79, C:0.17, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAC
Found at i:898975 original size:26 final size:26
Alignment explanation
Indices: 898945--899005 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
898935 CTTCGTACCC
898945 CAAAAAAAACCAAAC-AA-AAAACAAA
1 CAAAAAAAA-CAAACAAAGAAAACAAA
*
898970 CAAAAAAAACAAGCAAAGAAAACAAA
1 CAAAAAAAACAAACAAAGAAAACAAA
898996 CAAACAAAAA
1 CAAA-AAAAA
899006 GGGGTCCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.12
25 11 0.34
26 12 0.38
27 5 0.16
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (26 bp):
CAAAAAAAACAAACAAAGAAAACAAA
Found at i:898991 original size:17 final size:17
Alignment explanation
Indices: 898956--899005 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
898946 AAAAAAAACC
898956 AAACAAA-AAACAAACAA
1 AAACAAACAAACAAA-AA
* *
898973 AAA-AAACAAGCAAAGA
1 AAACAAACAAACAAAAA
898989 AAACAAACAAACAAAAA
1 AAACAAACAAACAAAAA
899006 GGGGTCCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.80, C:0.16, G:0.04, T:0.00
Consensus pattern (17 bp):
AAACAAACAAACAAAAA
Found at i:899940 original size:13 final size:13
Alignment explanation
Indices: 899922--899946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
899912 CCAGTAGAAC
899922 CAGGACAAATTGA
1 CAGGACAAATTGA
899935 CAGGACAAATTG
1 CAGGACAAATTG
899947 CAAGAGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (13 bp):
CAGGACAAATTGA
Found at i:900242 original size:13 final size:13
Alignment explanation
Indices: 900205--900243 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
900195 CAATTTGCCA
*
900205 TTTGTCAAGAAAT
1 TTTGTCAAGAACT
900218 TATTGTCAAGAACT
1 T-TTGTCAAGAACT
*
900232 TTTGTCTAGAAC
1 TTTGTCAAGAAC
900244 GTTTACCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTGTCAAGAACT
Found at i:900292 original size:28 final size:28
Alignment explanation
Indices: 900252--900814 Score: 495
Period size: 28 Copynumber: 20.0 Consensus size: 28
900242 ACGTTTACCT
* *
900252 TTTCAAAGTCCACAAGTCAGTGGCAACC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* *
900280 TTTAAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
** * * *
900308 TTTTGAAGCCCGCAGGTCAGTGGCAACC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* *
900336 TTTAAAAGCCCACAAGTTAGTGGC-ACAT
1 TTTCAAAGCCCACAAGTTAGTGGCAAC-C
* * * *
900364 TTTCGAAGCCCACACAAGTTGGTGGCATCA
1 TTTCAAAG-CC-CACAAGTTAGTGGCAACC
* * *
900394 TTTCAAAGACCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
*
900422 TTTCAAAGCCCACAAGTTATTGG-----
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* *
900445 ----AAAGTCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* *
900469 TTTCAAAGTCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* * *
900497 TTTCAAAGCCCACAAGTCAGTGACATCC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
*
900525 TTCTCAAAGCCCACAAG-TCGATGGCAACATC
1 TT-TCAAAGCCCACAAGTTAG-TGGCAAC--C
* *
900556 TCTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
*
900584 TTTCAAAGCCCATAAGTTAGTGGCAACC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* *
900612 TTTCAAAGCCCACAAGATAGTAGC-ACC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
*
900639 TTTTTAAAGCCCACAAGTTAGTGGCAACC
1 -TTTCAAAGCCCACAAGTTAGTGGCAACC
*
900668 TTTCAAAGCCCACAAGTTAGTTGC-ACC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* * *
900695 TTTTCGAAGCCCACAAATTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCAACC
* * * *
900724 TTTTAAAGCCTATAAGTCAGTGGCAACC
1 TTTCAAAGCCCACAAGTTAGTGGCAACC
* *
900752 TTTCTAAAGCCCATACAAGTTGGTGGTAACC
1 TTTC-AAAGCCC--ACAAGTTAGTGGCAACC
*
900783 TTCTCTAAAGCCCATACAAGTTGGTGGCAACC
1 TT-TC-AAAGCCC--ACAAGTTAGTGGCAACC
900815 CTTCTAAACC
Statistics
Matches: 441, Mismatches: 68, Indels: 48
0.79 0.12 0.09
Matches are distributed among these distances:
19 17 0.04
27 8 0.02
28 295 0.67
29 33 0.07
30 40 0.09
31 20 0.05
32 28 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCAACC
Found at i:900473 original size:47 final size:47
Alignment explanation
Indices: 900398--900487 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
900388 GCATCATTTC
*
900398 AAAGACCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTATTGG
1 AAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTATTGG
* *
900445 AAAGTCCACAAGTTAGTGGCATCCTTTCAAAGTCCACAAGTTA
1 AAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTA
900488 GTGGCATCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (47 bp):
AAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTATTGG
Found at i:906400 original size:13 final size:13
Alignment explanation
Indices: 906382--906406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
906372 TTTTACAATT
906382 TGTATCGATACAA
1 TGTATCGATACAA
906395 TGTATCGATACA
1 TGTATCGATACA
906407 TAAGTTTTGT
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:910185 original size:13 final size:13
Alignment explanation
Indices: 910167--910191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
910157 TTTTACAATT
910167 TGTATCGATACAA
1 TGTATCGATACAA
910180 TGTATCGATACA
1 TGTATCGATACA
910192 TAAGTTTTGT
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:911223 original size:20 final size:21
Alignment explanation
Indices: 911184--911224 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
911174 ACAGCCCATG
911184 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
911205 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
911225 CCAACACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:913546 original size:54 final size:54
Alignment explanation
Indices: 913482--913753 Score: 319
Period size: 54 Copynumber: 5.0 Consensus size: 54
913472 CGTTGCGACA
** * * *
913482 ACACCAAGTCACTTTTACTGAATTTTGGTTACCACAATGGCATCATCATTAGTG
1 ACACCAAGTCACACTTACTGAACTTTGATTACCACCATGGCATCATCATTAGTG
** * * * *
913536 ACACCAAGTCACTTTTACTAAATTTTGGTTACCACAATGGCATCATCATTAGTG
1 ACACCAAGTCACACTTACTGAACTTTGATTACCACCATGGCATCATCATTAGTG
** * * **
913590 ACACCAAGTCACACTTACCAAAATCTGATCGCCACCATGGCATCATCATTAGTG
1 ACACCAAGTCACACTTACTGAACTTTGATTACCACCATGGCATCATCATTAGTG
* * * *
913644 GCACTAAGTCACACTTACTGAACTTTGATTACGACCATGGCATCATCATTAATG
1 ACACCAAGTCACACTTACTGAACTTTGATTACCACCATGGCATCATCATTAGTG
* * * *
913698 GCACTAAGTCACACTTACTGAACTCTGATTACGACCATGGCATCATCATTAGTG
1 ACACCAAGTCACACTTACTGAACTTTGATTACCACCATGGCATCATCATTAGTG
913752 AC
1 AC
913754 GCCCAATCAT
Statistics
Matches: 195, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 195 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (54 bp):
ACACCAAGTCACACTTACTGAACTTTGATTACCACCATGGCATCATCATTAGTG
Found at i:913772 original size:162 final size:162
Alignment explanation
Indices: 913487--913822 Score: 386
Period size: 162 Copynumber: 2.1 Consensus size: 162
913477 CGACAACACC
** * * * **
913487 AAGTCACTTTTACTGAATTTTGGTTACCACAATGGCATCATCATTAGTGACACCAAGTCACTTTT
1 AAGTCACACTTACTGAACTTTGATTACCACAATGGCATCATCATTAATGACACCAAGTCACACTT
* * * **
913552 ACTAAATTTTGGTTACCACAATGGCATCATCATTAGTGACACCAAGTCACACTTACCAAAATCTG
66 ACTAAACTCTGATTACCACAATGGCATCATCATTAGTGACACCAAGTCACACTTACCAAAATCCA
* *** * * *
913617 ATCGCCACCATGGCATCATCATTAGTGGCACT
131 ATCACCACCACAACATCACCATTAGTGACAAT
* * * *
913649 AAGTCACACTTACTGAACTTTGATTACGACCATGGCATCATCATTAATGGCACTAAGTCACACTT
1 AAGTCACACTTACTGAACTTTGATTACCACAATGGCATCATCATTAATGACACCAAGTCACACTT
* * * * * *
913714 ACTGAACTCTGATTACGACCATGGCATCATCATTAGTGACGCCCAA-TCATATTTACCAAAATCC
66 ACTAAACTCTGATTACCACAATGGCATCATCATTAGTGAC-ACCAAGTCACACTTACCAAAATCC
913778 AATCACCACCACAACATCACCATTAGTGACAAT
130 AATCACCACCACAACATCACCATTAGTGACAAT
*
913811 ATGTCACACTTA
1 AAGTCACACTTA
913823 TTAAATTTTG
Statistics
Matches: 143, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
162 139 0.97
163 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (162 bp):
AAGTCACACTTACTGAACTTTGATTACCACAATGGCATCATCATTAATGACACCAAGTCACACTT
ACTAAACTCTGATTACCACAATGGCATCATCATTAGTGACACCAAGTCACACTTACCAAAATCCA
ATCACCACCACAACATCACCATTAGTGACAAT
Found at i:920459 original size:129 final size:129
Alignment explanation
Indices: 920224--920483 Score: 484
Period size: 129 Copynumber: 2.0 Consensus size: 129
920214 GAGCTTAAGC
920224 TTGTCATGTTTGGCATGTATTGTGATGACTTGGAGTATGAAAATACATATCCATACCAAACAATG
1 TTGTCATGTTTGGCATGTATTGTGATGACTTGGAGTATGAAAATACATATCCATACCAAACAATG
*
920289 GGTCCCATAAGCTAAGGTTGAAAATAGCTTGAAATACTTAATTTTAACTAGATGTATCGATACA
66 GGTCCCATAAGCTAAAGTTGAAAATAGCTTGAAATACTTAATTTTAACTAGATGTATCGATACA
* *
920353 TTGTGATGTTTGGCATGTATTGTGATGACTTGGAGTATGAAAATACATATCCATACCAAACATTG
1 TTGTCATGTTTGGCATGTATTGTGATGACTTGGAGTATGAAAATACATATCCATACCAAACAATG
*
920418 GGTCCCATAAGCTAAAGTTGAAAATGGCTTGAAATACTTAATTTTAACTAGATGTATCGATACA
66 GGTCCCATAAGCTAAAGTTGAAAATAGCTTGAAATACTTAATTTTAACTAGATGTATCGATACA
920482 TT
1 TT
920484 ATTCAATGTA
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (129 bp):
TTGTCATGTTTGGCATGTATTGTGATGACTTGGAGTATGAAAATACATATCCATACCAAACAATG
GGTCCCATAAGCTAAAGTTGAAAATAGCTTGAAATACTTAATTTTAACTAGATGTATCGATACA
Found at i:920548 original size:20 final size:19
Alignment explanation
Indices: 920519--920593 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
920509 AAAAAGACAT
920519 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
920538 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
920559 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
920579 AATGTATCGATACAT
1 AATGTATCGATACAT
920594 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:920576 original size:40 final size:39
Alignment explanation
Indices: 920516--920593 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
920506 GGTAAAAAGA
*
920516 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
920555 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
920594 CTAGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:921363 original size:29 final size:29
Alignment explanation
Indices: 921153--922164 Score: 1181
Period size: 29 Copynumber: 34.4 Consensus size: 29
921143 TTTTAAAAAA
*
921153 AAAAG-GTGCCACTAACTTATGTGGGCTTTG
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTG
921183 AAAAGAGTTGCCA-TCGACTCGTGTGGGCTTTG
1 AAAAGAG-TGCCACT-GACT--TGTGGGCTTTG
* *
921215 AAAAGAGTTACCACTGGCTTGTGGGCTTT-
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTG
* *
921244 AAAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
921273 GAAGGA-TGCCACTGATTTGTGTGGACTTTG
1 AAAAGAGTGCCACTGACTTGTG-GG-CTTTG
* *
921303 AAAAGAGTTGCTACCGACTTGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
*
921335 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
921364 AAAAAAGTGCCACTGACTTGTGGGTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
921393 AAAA-AGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
921421 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
921450 AAAGGGGTGCCACTGTCTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
921479 AAAAGAGTGCCACTAAATTATGGGCTTT-
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
921507 AAAAGGGTACCACTGACTTGCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTT--GTGGGCTTTG
* *
921538 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
921567 -AAAGGGTACCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
921595 AAAACAGTTGCCACCGACTCATGTGGGCTTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTG
* *
921627 -AAAGAGTGCCACTAACTTGTGGGCTTTA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
921655 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
921684 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
921712 AAAGGGGTGCCACTGTCTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
921741 AAAAGAGTGCCACTGACTTGTGGGCTTT-
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
921769 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTT--GTGGGCTTTG
* *
921800 AAAGGGGTGCCACTGACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGC-TTTG
* * *
921830 -AAAGGGTACCACTAACTTATGTGGGCTTTG
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTG
* * *
921860 AAAGGGGTGCCACTGACCTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
921889 -AAAGGGTGCCACTGACTTGTGGCCTTAG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
921917 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTG
921949 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
921978 AAAAGAGTGCCACTGACTTGTGGGTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
922007 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
922035 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTG
922067 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
922096 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
922124 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
922153 -AAAGGGTGCCAC
1 AAAAGAGTGCCAC
922165 CTGAGATGAT
Statistics
Matches: 860, Mismatches: 84, Indels: 78
0.84 0.08 0.08
Matches are distributed among these distances:
28 242 0.28
29 334 0.39
30 89 0.10
31 90 0.10
32 97 0.11
33 4 0.00
34 4 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:921411 original size:57 final size:57
Alignment explanation
Indices: 921152--922164 Score: 1079
Period size: 57 Copynumber: 17.2 Consensus size: 57
921142 TTTTTAAAAA
* *
921152 AAAAAGGTGCCACTAACTTATGTGGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGTGGGCTTTG
1 AAAAA-GTGCCACTGAC-T-TGTGGGCTTTGAAAAG-GGTGCCACT-GACT--TGTGGGCTTTG
* * *
921215 AAAAGAGTTACCACTGGCTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAA-AG-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * *
921273 -GAAGGATGCCACTGATTTGTGTGGACTTTGAAAAGAGTTGCTACCGACTTGTGTGGGCTTTG
1 AAAAAG-TGCCACTGACTTGTG-GG-CTTTGAAAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
* ** *
921335 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGTTTTG
1 AAAA-AGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
*
921393 AAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
** * * * * *
921450 AAAGGGGTGCCACTGTCTTGTGGGCTTTGAAAAGAGTGCCACTAAATTATGGGCTTT-
1 AAA-AAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
921507 AAAAGGGTACCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAA-AGTGCCACTGACTT--GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
** * * * *
921567 AAAGGGTACCACTGACTTGTGGGCTTTGAAAACAGTTGCCACCGACTCATGTGGGCTTTG
1 AAAAAGTGCCACTGACTTGTGGGCTTTGAAAA-GGGTGCCACTGACT--TGTGGGCTTTG
* * * *
921627 AAAGAGTGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
** * *
921684 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGTCTTGTGGGCTTTG
1 AAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
921741 AAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAA-AGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTT--GTGGGCTTTG
** * *
921800 AAAGGGGTGCCACTGACTTGTGGGCTTTTG-AAAGGGTACCACTAACTTATGTGGGCTTTG
1 AAA-AAGTGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
** * * *
921860 AAAGGGGTGCCACTGACCTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGCCTTAG
1 AAA-AAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
921917 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAA-AG-TGCCACTGACT--TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
*
921978 AAAAGAGTGCCACTGACTTGTGGGTTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTG
1 AAAA-AGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
922035 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAA-AG-TGCCACTGACT--TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
** *
922096 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
**
922153 AAAGGGTGCCAC
1 AAAAAGTGCCAC
922165 CTGAGATGAT
Statistics
Matches: 818, Mismatches: 96, Indels: 78
0.82 0.10 0.08
Matches are distributed among these distances:
56 13 0.02
57 258 0.32
58 141 0.17
59 123 0.15
60 154 0.19
61 75 0.09
62 24 0.03
63 21 0.03
64 9 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (57 bp):
AAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:923318 original size:1 final size:1
Alignment explanation
Indices: 923314--923357 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
923304 TTTTTTGCTA
* * * *
923314 TTTTTTCTTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
923358 GGTGTAAAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:923358 original size:19 final size:19
Alignment explanation
Indices: 923303--923358 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
923293 GACCCTTCTA
*
923303 TTTTTTTGCTATTTTTTCTTT
1 TTTTTTTG-T-TTTTTTGTTT
923324 TTTTTTTGTTTTTTTGTTT
1 TTTTTTTGTTTTTTTGTTT
923343 TGTTTTTT-TTTTTTTG
1 T-TTTTTTGTTTTTTTG
923359 GTGTAAAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 18 0.55
20 7 0.21
21 8 0.24
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTGTTT
Found at i:937416 original size:20 final size:20
Alignment explanation
Indices: 937373--937443 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
937363 AGACATAATA
* * **
937373 TATCGATACATTGAAGAATA
1 TATCGATACATTCAAAAACG
* *
937393 TATCGATACATTCATACACG
1 TATCGATACATTCAAAAACG
* * *
937413 TATCGATATATTGAAAAATG
1 TATCGATACATTCAAAAACG
937433 TATCGATACAT
1 TATCGATACAT
937444 CTGGATAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (20 bp):
TATCGATACATTCAAAAACG
Found at i:938353 original size:21 final size:19
Alignment explanation
Indices: 938328--938366 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
938318 TGTTGATTTA
938328 TTTATACTTTTCATGTTCTAT
1 TTTAT-CTTTT-ATGTTCTAT
*
938349 TTTATCTTTTTTGTTCTA
1 TTTATCTTTTATGTTCTA
938367 GAAAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATCTTTTATGTTCTAT
Found at i:939396 original size:13 final size:13
Alignment explanation
Indices: 939378--939402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
939368 CATAAAGTGT
939378 TGTATCGATACAA
1 TGTATCGATACAA
939391 TGTATCGATACA
1 TGTATCGATACA
939403 TAAGTTTTGT
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:939418 original size:32 final size:33
Alignment explanation
Indices: 939358--939423 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
939348 TTCAACGATT
939358 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
939391 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
939423 T
1 T
939424 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:939553 original size:52 final size:52
Alignment explanation
Indices: 939497--939677 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
939487 CACTAATCTT
939497 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
939549 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
939601 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
939653 TTTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
939678 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:946872 original size:11 final size:11
Alignment explanation
Indices: 946858--946910 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
946848 GAAACAAAAC
946858 AAAAAAGGAAAA
1 AAAAAAGG-AAA
946870 AAAAAAGAAGAAA
1 AAAAAAG--GAAA
**
946883 CAAAAAAACAAA
1 -AAAAAAGGAAA
946895 AAAAAAGGAAA
1 AAAAAAGGAAA
946906 AAAAA
1 AAAAA
946911 TAGAAAACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 14 0.41
12 10 0.29
13 3 0.09
14 7 0.21
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAAA
Found at i:946916 original size:11 final size:11
Alignment explanation
Indices: 946841--946917 Score: 64
Period size: 12 Copynumber: 6.4 Consensus size: 11
946831 GTTCTTTTCC
*
946841 AAAAAAAGAAAC
1 AAAAAAA-AAAG
946853 AAAACAAAAAAGG
1 AAAA-AAAAAA-G
946866 AAAAAAAAAAG
1 AAAAAAAAAAG
*
946877 AAGAAACAAAAAA
1 AA-AAA-AAAAAG
946890 ACAAAAAAAAAGG
1 A-AAAAAAAAA-G
*
946903 AAAAAAAATAG
1 AAAAAAAAAAG
946914 AAAA
1 AAAA
946918 CCCCTTTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
11 8 0.15
12 29 0.53
13 17 0.31
14 1 0.02
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.01
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:947888 original size:31 final size:30
Alignment explanation
Indices: 947848--948128 Score: 253
Period size: 32 Copynumber: 9.1 Consensus size: 30
947838 TTCAAATACC
* *
947848 TTCTTAAAGTCCACGACTCAGTGGCGATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
947879 TTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTT
947910 TTCTTCAAAGTCCACGACTCAGTGGCATCATT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC-TT
*
947942 TGTCTCAAAGTCCACGACTTAGTGGCATCCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCAT-CTT
* *
947974 TTCTGCAAAGTCCACAACTCTGTGGCACTCTT
1 TTCT-CAAAGTCCACGACTCAGTGGCA-TCTT
** * * * *
948006 TTCCTTTTAAGTCCACAACTCTGTGGCACCCT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATCTT
* **
948038 TT-T--AAGCCCATAACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* *
948065 TTTTCAAAGTCCACGACTCAATGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
948095 TTCTCTAAAGCCCACAATTCCGTGGCACTCTT
1 TTCTC-AAAGTCCACGACTCAGTGGCA-TCTT
948127 TT
1 TT
948129 ACCTTTTAAG
Statistics
Matches: 211, Mismatches: 25, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.10
28 1 0.00
29 1 0.00
30 26 0.12
31 49 0.23
32 87 0.41
33 25 0.12
34 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:948067 original size:27 final size:27
Alignment explanation
Indices: 948008--948060 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
947998 GCACTCTTTT
* *
948008 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
*
948035 CCTTTTAAGCCCATAACTCAGTGGCA
1 CCTTTTAAGCCCACAACTCAGTGGCA
948061 TCTTTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:948090 original size:122 final size:124
Alignment explanation
Indices: 947926--948162 Score: 347
Period size: 122 Copynumber: 1.9 Consensus size: 124
947916 AAAGTCCACG
* * *
947926 ACTCAGTGGCATCATTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTGC-AAAGTCCACA
1 ACTCAGTGGCATCATTTGTCTCAAAGTCCACGACTCAATGGCAT-CTTTTCT-CTAAAGCCCACA
* * *
947990 ACTCTGTGGCACTCTTTT-CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCATA
64 ACTCCGTGGCACTCTTTTACCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCATA
* *
948050 ACTCAGTGGCATC-TTT-TTTCAAAGTCCACGACTCAATGGCATCTTTTCTCTAAAGCCCACAAT
1 ACTCAGTGGCATCATTTGTCTCAAAGTCCACGACTCAATGGCATCTTTTCTCTAAAGCCCACAAC
*
948113 TCCGTGGCACTCTTTTACCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
66 TCCGTGGCACTCTTTTACCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
948163 TCCTTCTAAG
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
120 1 0.01
121 32 0.31
122 53 0.52
123 3 0.03
124 13 0.13
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (124 bp):
ACTCAGTGGCATCATTTGTCTCAAAGTCCACGACTCAATGGCATCTTTTCTCTAAAGCCCACAAC
TCCGTGGCACTCTTTTACCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCATA
Found at i:948141 original size:34 final size:33
Alignment explanation
Indices: 947985--948456 Score: 298
Period size: 34 Copynumber: 14.7 Consensus size: 33
947975 TCTGCAAAGT
* *
947985 CCACAACTCTGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
*
948018 CCACAACTCTGTGGCA--C----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
* * ** *
948045 CCATAACTCAGTGGCA-TCTTTT--TTCAAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
* ** * *
948075 CCACGACTCAATGGCA-TCTTTT-CTCTAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
*
948106 CCACAATTCCGTGGCACTCTTTTACCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTT-CCTTTTAAGC
* *
948140 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTC-TTTTCCTTTTAAGC
*
948174 CCACAACTCTGTGGCA--C----CCTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTT-AAGC
* *
948202 CCACAACTCCATGGCACTCTTTTCCCCTTTTAAAGT
1 CCACAACTCCGTGGCACTCTTTT--CCTTTT-AAGC
* * * *
948238 CCACAACCCCATGGCAC-CTTGTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTT-TTCCTTTTAAGC
*
948271 CCACGACTCCGTGGCAC-C--TT-CTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTT--AAGC
* * *
948302 CCACAACTCCGTGGTACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTC-TTTTCCTTTTAAGC
948336 CCACAACTCCGTGGCAC-C--TT-CTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTT--AAGC
* * *
948367 CCAAAACTCCGTGGTACTCTTTTTCCCTTTTAAAGT
1 CCACAACTCCGTGGCACTC-TTTT-CCTTTT-AAGC
* * *
948403 CCAAAACTTCGTGGCAC-CTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTT-TTCCTTTTAAGC
*
948436 CCACAACTTCGTGGCA-TCTTT
1 CCACAACTCCGTGGCACTCTTT
948457 CACCCTTCTA
Statistics
Matches: 355, Mismatches: 47, Indels: 75
0.74 0.10 0.16
Matches are distributed among these distances:
27 28 0.08
28 18 0.05
29 8 0.02
30 29 0.08
31 54 0.15
32 10 0.03
33 58 0.16
34 80 0.23
35 14 0.04
36 51 0.14
37 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
Found at i:948334 original size:65 final size:65
Alignment explanation
Indices: 948228--948422 Score: 268
Period size: 65 Copynumber: 3.0 Consensus size: 65
948218 CTCTTTTCCC
* * * * * *
948228 CTTTT-AAAGTCCACAACCCCATGGCAC-CTTGTTCCTTCTAAGTCCACGACTCCGTGGCACCTT
1 CTTTTCAAAGCCCACAACTCCGTGGTACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
948291 CTTTTCAAAGCCCACAACTCCGTGGTACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
1 CTTTTCAAAGCCCACAACTCCGTGGTACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* * * *
948356 CTTTTCAAAGCCCAAAACTCCGTGGTACTCTTTTTCCCTTTTAAAGTCCAAAACTTCGTGGCACC
1 CTTTTCAAAGCCCACAACTCCGTGGTACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACC
948421 TT
64 TT
948423 GTTCCTTTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
63 5 0.04
64 18 0.15
65 68 0.58
66 5 0.04
67 22 0.19
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.32
Consensus pattern (65 bp):
CTTTTCAAAGCCCACAACTCCGTGGTACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
Found at i:948420 original size:165 final size:162
Alignment explanation
Indices: 947979--948451 Score: 524
Period size: 165 Copynumber: 2.9 Consensus size: 162
947969 TCCTTTTCTG
* * * *
947979 CAAAGTCCACAACTCTGTGGCACTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT-A
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
* * ** * * *
948042 AGCCCATAACT-CAGTGGCA-TC-TTT----TTTCAAAGTCCACGACTCAATGGCATCTT-TT-C
66 AGCCCAAAACTCCA-TGGCACTCTTTTCCCCTTTTAAAGTCCAAAACCCCATGGCACCTTGTTCC
* *
948098 -TCTAAAGCCCACAATTCCGTGGCACTCTTTTACCTTTT
130 TTCT-AAGTCCACAACTCCGTGGCAC-C--TT--CTTTT
*
948136 --AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAA
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
* *
948199 AGCCCACAACTCCATGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCATGGCACCTTGTTCCT
66 AGCCCAAAACTCCATGGCACTCTTTTCCCCTTTTAAAGTCCAAAACCCCATGGCACCTTGTTCCT
*
948264 TCTAAGTCCACGACTCCGTGGCACCTTCTTTT
131 TCTAAGTCCACAACTCCGTGGCACCTTCTTTT
*
948296 CAAAGCCCACAACTCCGTGGTACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTCTTTT
1 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--CTTTT
* * * ** *
948361 CAAAGCCCAAAACTCCGTGGTACTCTTTTTCCCTTTTAAAGTCCAAAACTTCGTGGCACCTTGTT
64 -AAAGCCCAAAACTCCATGGCACTCTTTTCCCCTTTTAAAGTCCAAAACCCCATGGCACCTTGTT
* *
948426 CCTTTTAAGTCCACAACTTCGTGGCA
128 CCTTCTAAGTCCACAACTCCGTGGCA
948452 TCTTTCACCC
Statistics
Matches: 274, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
155 21 0.08
156 36 0.13
157 16 0.06
158 4 0.01
159 3 0.01
160 5 0.02
162 56 0.20
163 24 0.09
164 8 0.03
165 98 0.36
166 3 0.01
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (162 bp):
CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
AGCCCAAAACTCCATGGCACTCTTTTCCCCTTTTAAAGTCCAAAACCCCATGGCACCTTGTTCCT
TCTAAGTCCACAACTCCGTGGCACCTTCTTTT
Found at i:948537 original size:64 final size:64
Alignment explanation
Indices: 948458--948596 Score: 226
Period size: 64 Copynumber: 2.2 Consensus size: 64
948448 GGCATCTTTC
*
948458 ACCCTTCTATAAGCCCACACAAGTCGGTGGCAACCTTTCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTA-AAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
948522 ACCCTCTCTAAAGCCCACATAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCT-TCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
948587 ACCCTTCTAA
1 ACCCTTCTAA
948597 GTCCAATATA
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
64 38 0.54
65 32 0.46
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (64 bp):
ACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:948568 original size:33 final size:32
Alignment explanation
Indices: 948463--948594 Score: 194
Period size: 32 Copynumber: 4.0 Consensus size: 32
948453 CTTTCACCCT
948463 TCTATAAGCCCACACAAGTCGGTGGCAACCTT-
1 TCTA-AAGCCCACACAAGTCGGTGGCAACCTTC
*
948495 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCT-AAAGCCCACACAAGTCGGTGGCAACCTTC
* *
948528 TCTAAAGCCCACATAAGTTGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-TTC
948561 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC
948594 T
1 T
948595 AAGTCCAATA
Statistics
Matches: 90, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
32 53 0.59
33 35 0.39
34 2 0.02
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (32 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCTTC
Found at i:948706 original size:43 final size:43
Alignment explanation
Indices: 948640--949053 Score: 425
Period size: 43 Copynumber: 9.1 Consensus size: 43
948630 GCACCTTCAT
*
948640 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* **
948683 CTTTAAGTCCAATATCG-TCGGCCTTGAATCAGCGTATTGGCACCTTC
1 CTTTAAGTCCAATATAGCT-GGCCTTGAATCAGCACATTGGCA----C
* *
948730 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
948775 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
948822 ATCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
948867 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* * *
948914 TTCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGACAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
948959 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-GCAC
* * *
949004 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
949050 CTTT
1 CTTT
949054 TTCTCATCTT
Statistics
Matches: 314, Mismatches: 32, Indels: 49
0.79 0.08 0.12
Matches are distributed among these distances:
42 1 0.00
43 147 0.47
44 5 0.02
45 10 0.03
46 2 0.01
47 38 0.12
49 110 0.35
50 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:948751 original size:92 final size:92
Alignment explanation
Indices: 948589--949053 Score: 774
Period size: 92 Copynumber: 5.1 Consensus size: 92
948579 CGGTGGCAAC
*
948589 CCTTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
948654 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGACA
*
948682 CCTTTAAGTCCAATATCG-TCGGCCTTGAATCAGCGTATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
948746 TAGCTGGCCTTGAATCAGCACATTGACA
65 TAGCTGGCCTTGAATCAGCACATTGACA
*
948774 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
948839 AACTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGACA
* *
948866 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAGTGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
948931 AGCTGGCCTTGAATCAGCACATTGACA
66 AGCTGGCCTTGAATCAGCACATTGACA
* * * *
948958 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCA-C-ACATCTTTAAGTTCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
949021 AGCTGGCCTTGAATCAGCACATTGACA
66 AGCTGGCCTTGAATCAGCACATTGACA
949048 TCCTTT
1 -CCTTT
949054 TTCTCATCTT
Statistics
Matches: 351, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
90 42 0.12
91 7 0.02
92 297 0.85
93 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGACA
Found at i:949997 original size:13 final size:13
Alignment explanation
Indices: 949979--950003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
949969 CATAAAGTGT
949979 TGTATCGATACAA
1 TGTATCGATACAA
949992 TGTATCGATACA
1 TGTATCGATACA
950004 TAAGTTTTGT
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:950019 original size:32 final size:33
Alignment explanation
Indices: 949959--950024 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
949949 TTCAACGATT
949959 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
949992 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
950024 T
1 T
950025 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:950083 original size:13 final size:13
Alignment explanation
Indices: 950065--950089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
950055 ATTACTCAAA
950065 TGTATCGATACAT
1 TGTATCGATACAT
950078 TGTATCGATACA
1 TGTATCGATACA
950090 CTGATCTTTG
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:954650 original size:14 final size:14
Alignment explanation
Indices: 954633--954659 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
954623 ATTGTGTGAT
954633 TTTTTAAAAAAATA
1 TTTTTAAAAAAATA
954647 TTTTTAAAAAAAT
1 TTTTTAAAAAAAT
954660 CATTAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTTAAAAAAATA
Found at i:955022 original size:5 final size:5
Alignment explanation
Indices: 955012--955045 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
955002 ATATAAATTA
*
955012 TATAT TATAT TATAT TATAC TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
955046 CATAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:955540 original size:17 final size:17
Alignment explanation
Indices: 955514--955565 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
955504 TAAATTATTC
*
955514 AAATTCAAAATAATTTA
1 AAATTTAAAATAATTTA
*
955531 AAATTTAAAATGATTT-
1 AAATTTAAAATAATTTA
*
955547 AAACTTAAAATAATTTA
1 AAATTTAAAATAATTTA
955564 AA
1 AA
955566 TAAAAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATTTAAAATAATTTA
Found at i:955556 original size:16 final size:16
Alignment explanation
Indices: 955520--955565 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
955510 ATTCAAATTC
*
955520 AAAATAATTTAAAATTT
1 AAAATAATTT-AAACTT
*
955537 AAAATGATTTAAACTT
1 AAAATAATTTAAACTT
955553 AAAATAATTTAAA
1 AAAATAATTTAAA
955566 TAAAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAATAATTTAAACTT
Found at i:957434 original size:3 final size:3
Alignment explanation
Indices: 957426--957461 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
957416 CTAAAATTAA
*
957426 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
957462 TAATGTAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:957842 original size:22 final size:22
Alignment explanation
Indices: 957810--957871 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
957800 ATTAAAAAAT
957810 AAAAAAA-TTTATAAAAATCA-A
1 AAAAAAATTTTA-AAAAATCACA
*
957831 AAGAAAATTTTAAAAAATCACA
1 AAAAAAATTTTAAAAAATCACA
*
957853 AAAAAAATATGTAAAAAAT
1 AAAAAAAT-TTTAAAAAAT
957872 TAAGATGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.40
22 12 0.34
23 9 0.26
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (22 bp):
AAAAAAATTTTAAAAAATCACA
Found at i:959226 original size:3 final size:3
Alignment explanation
Indices: 959218--959257 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
959208 TTGTTTATTC
959218 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
959258 TTAGTACCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:961337 original size:2 final size:2
Alignment explanation
Indices: 961330--961362 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
961320 CATTCGTGCA
961330 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
961363 TTATATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:962064 original size:31 final size:31
Alignment explanation
Indices: 962026--962087 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
962016 CTTGCCAAAC
*
962026 GTCTTGAGTATTATACTGGATTAATAGTTGA
1 GTCTTGAGTATTACACTGGATTAATAGTTGA
962057 GTCTTGAGTATTACACTGGATTAATAGTTGA
1 GTCTTGAGTATTACACTGGATTAATAGTTGA
962088 AGCTATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (31 bp):
GTCTTGAGTATTACACTGGATTAATAGTTGA
Found at i:964922 original size:54 final size:54
Alignment explanation
Indices: 964782--964928 Score: 147
Period size: 58 Copynumber: 2.6 Consensus size: 54
964772 ATGTAGCATA
* *
964782 AAAAAATAATATAAATACAAAATAAATATACGAATATATTTAAATTTATAATAT
1 AAAAAATAATATAAATATAAAATAAATATACGAATATATTTAAATTAATAATAT
* * * * *
964836 AAATTATTATTATATTAAA-ATTTAAATAAATATA-TAATAT-TTTAAATATAATTATGAT
1 AAA--A-AATAATA-TAAATA-TAAAATAAATATACGAATATATTTAAAT-TAATAAT-AT
964894 AAAAAATAATATAAATATAAAATAAATATACGAAT
1 AAAAAATAATATAAATATAAAATAAATATACGAAT
964929 TATAAATTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
54 19 0.26
55 9 0.12
56 9 0.12
57 16 0.22
58 20 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (54 bp):
AAAAAATAATATAAATATAAAATAAATATACGAATATATTTAAATTAATAATAT
Found at i:966181 original size:33 final size:33
Alignment explanation
Indices: 966164--966243 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
966154 ACATTTCTTT
966164 ATGTATCGATACAATGTATCGATACATTGTACC
1 ATGTATCGATACAATGTATCGATACATTGTACC
966197 ATGTATCGATACAATGTATCGATACATTGTACC
1 ATGTATCGATACAATGTATCGATACATTGTACC
966230 ATGTATCGATACAA
1 ATGTATCGATACAA
966244 ATAGTGATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACATTGTACC
Found at i:966182 original size:13 final size:13
Alignment explanation
Indices: 966164--966227 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
966154 ACATTTCTTT
966164 ATGTATCGATACA
1 ATGTATCGATACA
966177 ATGTATCGATAC-
1 ATGTATCGATACA
*
966189 A--T-T-G-TACC
1 ATGTATCGATACA
966197 ATGTATCGATACA
1 ATGTATCGATACA
966210 ATGTATCGATACA
1 ATGTATCGATACA
*
966223 TTGTA
1 ATGTA
966228 CCATGTATCG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 3 0.07
8 2 0.05
9 1 0.02
10 2 0.05
11 1 0.02
12 2 0.05
13 32 0.74
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:966202 original size:20 final size:20
Alignment explanation
Indices: 966177--966242 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
966167 TATCGATACA
966177 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
966197 ATGTATCGATAC-----A--
1 ATGTATCGATACATTGTACC
966210 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
966230 ATGTATCGATACA
1 ATGTATCGATACA
966243 AATAGTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
15 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:966316 original size:13 final size:13
Alignment explanation
Indices: 966298--966352 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
966288 TATCCATGTT
966298 TGTATCGATATAA
1 TGTATCGATATAA
966311 TGTATCGATACAATGAACA
1 TGTATCGAT---AT--A-A
966330 TGTATCGATATAA
1 TGTATCGATATAA
966343 TGTATCGATA
1 TGTATCGATA
966353 CAAAGCAGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 4 0.11
18 1 0.03
19 10 0.28
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:966337 original size:32 final size:33
Alignment explanation
Indices: 966298--966370 Score: 121
Period size: 32 Copynumber: 2.2 Consensus size: 33
966288 TATCCATGTT
*
966298 TGTATCGATATAATGTATCGATACAATG-AACA
1 TGTATCGATATAATGTATCGATACAAAGCAACA
*
966330 TGTATCGATATAATGTATCGATACAAAGCAGCA
1 TGTATCGATATAATGTATCGATACAAAGCAACA
966363 TGTATCGA
1 TGTATCGA
966371 CACATCTGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 27 0.71
33 11 0.29
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (33 bp):
TGTATCGATATAATGTATCGATACAAAGCAACA
Found at i:966904 original size:16 final size:16
Alignment explanation
Indices: 966883--966929 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
966873 CTTAGAACAC
966883 AAAATGATTCAAACTT
1 AAAATGATTCAAACTT
* *
966899 AAAATGATAT-GAGCTT
1 AAAATGAT-TCAAACTT
*
966915 AATATGATTCAAACT
1 AAAATGATTCAAACT
966930 CAAATTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (16 bp):
AAAATGATTCAAACTT
Found at i:966966 original size:16 final size:16
Alignment explanation
Indices: 966947--966990 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
966937 AACCAAATCT
966947 AAATGATTTAAAATTA
1 AAATGATTTAAAATTA
* * * *
966963 AAATAACTTGAATTTA
1 AAATGATTTAAAATTA
966979 AAATGATTTAAA
1 AAATGATTTAAA
966991 GTTGAGGCTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (16 bp):
AAATGATTTAAAATTA
Found at i:969279 original size:12 final size:13
Alignment explanation
Indices: 969240--969322 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 13
969230 AAATAATACG
* *
969240 AATATAAAATAAT
1 AATATAAATTTAT
969253 ATATATAAA--TAT
1 A-ATATAAATTTAT
969265 AAT-TAAATTTAT
1 AATATAAATTTAT
969277 AATATAAATTATTAT
1 AATATAAA-T-TTAT
* *
969292 TATATTAAAATT-T
1 AATA-TAAATTTAT
*
969305 -ATATAAATATAT
1 AATATAAATTTAT
969317 AATATA
1 AATATA
969323 TTAAATATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
10 4 0.07
11 7 0.12
12 13 0.23
13 11 0.20
14 10 0.18
15 7 0.12
16 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATAAATTTAT
Found at i:969286 original size:18 final size:19
Alignment explanation
Indices: 969240--969371 Score: 69
Period size: 18 Copynumber: 6.9 Consensus size: 19
969230 AAATAATACG
*
969240 AATATAAAATAATATATAT
1 AATATAAATTAATATATAT
*
969259 AA-ATATAATTAA-ATTTAT
1 AATATA-AATTAATATATAT
*
969277 AATATAAATTATTAT-TAT
1 AATATAAATTAATATATAT
* * *
969295 ATTA-AAATTTATATAAAT
1 AATATAAATTAATATATAT
*
969313 ATATAATATATTAAATATAATTAT
1 A-AT-ATAAATT-AATAT-A-TAT
* * *
969337 AATAAAAAATAATATAAAT
1 AATATAAATTAATATATAT
*
969356 -ATA-AAATAAATATATA
1 AATATAAATTAATATATA
969372 AATTATTAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
17 18 0.21
18 27 0.32
19 15 0.18
20 2 0.02
21 9 0.11
22 8 0.09
23 3 0.04
24 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATAAATTAATATATAT
Found at i:969352 original size:21 final size:20
Alignment explanation
Indices: 969326--969377 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
969316 TAATATATTA
969326 AATATAATTATAATAAAAAAT
1 AATATAATTATAA-AAAAAAT
* *
969347 AATATAAATATAAAATAAAT
1 AATATAATTATAAAAAAAAT
969367 -ATATAAATTAT
1 AATAT-AATTAT
969378 TAAATTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 11 0.41
21 12 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATAATTATAAAAAAAAT
Found at i:969392 original size:27 final size:28
Alignment explanation
Indices: 969248--969403 Score: 121
Period size: 27 Copynumber: 5.6 Consensus size: 28
969238 CGAATATAAA
969248 ATAATATATATAAATATAATTAAATTTATAAT
1 ATAA-ATATATAAATAT-ATTAAA-TT-TAAT
* *
969280 ATAAAT-TATTATTATATTAAAATTT-AT
1 ATAAATATATAAATATATT-AAATTTAAT
*
969307 ATAAATATAT-AATATATTAAATATAAT
1 ATAAATATATAAATATATTAAATTTAAT
* * *
969334 -TATAATA-AAAAATA-ATATAAATATAAA
1 ATA-AATATATAAATATAT-TAAATTTAAT
969361 ATAAATATATAAAT-TATTAAATTTAAT
1 ATAAATATATAAATATATTAAATTTAAT
* *
969388 TTAAATAT-TAATTATA
1 ATAAATATATAAATATA
969404 AAAAACTGTA
Statistics
Matches: 103, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
26 14 0.14
27 55 0.53
28 13 0.13
29 5 0.05
30 10 0.10
31 2 0.02
32 4 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAAATATATAAATATATTAAATTTAAT
Found at i:970101 original size:15 final size:16
Alignment explanation
Indices: 970074--970109 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
970064 CCTGAACTCA
*
970074 AAAAATTCTAAATCTG
1 AAAAATTCTAAATATG
970090 AAAAATTC-AAATATG
1 AAAAATTCTAAATATG
970105 AAAAA
1 AAAAA
970110 AAAATTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAAATTCTAAATATG
Found at i:970110 original size:16 final size:17
Alignment explanation
Indices: 970073--970110 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
970063 TCCTGAACTC
*
970073 AAAAAATTCTAAATCTG
1 AAAAAATTCTAAATATG
970090 -AAAAATTC-AAATATG
1 AAAAAATTCTAAATATG
970105 AAAAAA
1 AAAAAA
970111 AAATTCATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAAATTCTAAATATG
Found at i:972598 original size:14 final size:14
Alignment explanation
Indices: 972579--972605 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
972569 TTATTGGTCA
972579 TTACTATTTAAAAT
1 TTACTATTTAAAAT
972593 TTACTATTTAAAA
1 TTACTATTTAAAA
972606 GGTATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
TTACTATTTAAAAT
Found at i:975834 original size:33 final size:33
Alignment explanation
Indices: 975797--975863 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
975787 TTCAACGATT
975797 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
975830 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
975863 T
1 T
975864 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:975835 original size:13 final size:13
Alignment explanation
Indices: 975817--975841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975807 CATAAAATGT
975817 TGTATCGATACAA
1 TGTATCGATACAA
975830 TGTATCGATACA
1 TGTATCGATACA
975842 TATTTTTTTG
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:975924 original size:13 final size:13
Alignment explanation
Indices: 975906--975930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975896 ATTACTCACA
975906 TGTATCGATACAT
1 TGTATCGATACAT
975919 TGTATCGATACA
1 TGTATCGATACA
975931 CTGATCTTTG
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:976067 original size:52 final size:52
Alignment explanation
Indices: 975939--976059 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
975929 CACTGATCTT
*
975939 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
975991 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
976043 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
976060 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:980345 original size:10 final size:10
Alignment explanation
Indices: 980330--980360 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
980320 AATCTCATTT
980330 TCACTGTTCA
1 TCACTGTTCA
980340 TCACTGTTCA
1 TCACTGTTCA
980350 TCACTGTTCA
1 TCACTGTTCA
980360 T
1 T
980361 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:980418 original size:17 final size:17
Alignment explanation
Indices: 980392--980428 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
980382 TATCGATACA
*
980392 TCACTATTCATAACTGT
1 TCACTATTCATAACTAT
*
980409 TCACTGTTCATAACTAT
1 TCACTATTCATAACTAT
980426 TCA
1 TCA
980429 TGTATCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (17 bp):
TCACTATTCATAACTAT
Found at i:980442 original size:24 final size:24
Alignment explanation
Indices: 980409--980458 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
980399 TCATAACTGT
*
980409 TCACTGTTCATAACTATTCATGTA
1 TCACTATTCATAACTATTCATGTA
* *
980433 TCACTATTCATCACTGTTCATGTA
1 TCACTATTCATAACTATTCATGTA
980457 TC
1 TC
980459 GATACATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (24 bp):
TCACTATTCATAACTATTCATGTA
Found at i:980474 original size:13 final size:13
Alignment explanation
Indices: 980456--980492 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
980446 CTGTTCATGT
980456 ATCGATACATTGC
1 ATCGATACATTGC
* *
980469 ATCGATACACTGT
1 ATCGATACATTGC
980482 ATCGATACATT
1 ATCGATACATT
980493 ATGAATAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:985098 original size:16 final size:17
Alignment explanation
Indices: 985076--985114 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
985066 GTTTATTGGT
985076 TTAAGGTTGACAACGTA
1 TTAAGGTTGACAACGTA
985093 -TAAGGTTGACAACGTA
1 TTAAGGTTGACAACGTA
985109 TTAAGG
1 TTAAGG
985115 GGGAGAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (17 bp):
TTAAGGTTGACAACGTA
Found at i:986137 original size:17 final size:17
Alignment explanation
Indices: 986111--986147 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
986101 TATCGACACA
*
986111 TCACTATTCATAACTGT
1 TCACTATTCATAACTAT
*
986128 TCACTGTTCATAACTAT
1 TCACTATTCATAACTAT
986145 TCA
1 TCA
986148 TGTATCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (17 bp):
TCACTATTCATAACTAT
Found at i:986161 original size:24 final size:24
Alignment explanation
Indices: 986128--986177 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
986118 TCATAACTGT
*
986128 TCACTGTTCATAACTATTCATGTA
1 TCACTATTCATAACTATTCATGTA
* *
986152 TCACTATTCATCACTGTTCATGTA
1 TCACTATTCATAACTATTCATGTA
986176 TC
1 TC
986178 GATACATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (24 bp):
TCACTATTCATAACTATTCATGTA
Found at i:986193 original size:13 final size:13
Alignment explanation
Indices: 986175--986212 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
986165 CTGTTCATGT
986175 ATCGATACATTGC
1 ATCGATACATTGC
* *
986188 ATCGATACACTGT
1 ATCGATACATTGC
986201 ATCGATACATTG
1 ATCGATACATTG
986213 TGAATAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:987039 original size:20 final size:20
Alignment explanation
Indices: 987014--987067 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
987004 GTTACAAGCA
* *
987014 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
987034 ATGTATCGATACAATGCACC
1 ATGTATCGATACAATGCACC
987054 ATGTATCGATACAA
1 ATGTATCGATACAA
987068 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:987144 original size:19 final size:19
Alignment explanation
Indices: 987096--987151 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
987086 CTGCCAATTT
**
987096 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
987116 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
987135 TATGTATCGATACAATG
1 CATGTATCGATACAATG
987152 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:987154 original size:13 final size:13
Alignment explanation
Indices: 987136--987162 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
987126 TACAATGAAT
987136 ATGTATCGATACA
1 ATGTATCGATACA
987149 ATGTATCGATACA
1 ATGTATCGATACA
987162 A
1 A
987163 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:987178 original size:33 final size:32
Alignment explanation
Indices: 987120--987181 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
987110 ATTGTCCATA
*
987120 TATCGATACAATGAATATGTATCGATACAATG
1 TATCGATACAAAGAATATGTATCGATACAATG
*
987152 TATCGATACAAAGCATAATGTATCGATACA
1 TATCGATACAAAGAAT-ATGTATCGATACA
987182 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
TATCGATACAAAGAATATGTATCGATACAATG
Found at i:995947 original size:20 final size:21
Alignment explanation
Indices: 995922--995981 Score: 90
Period size: 19 Copynumber: 3.0 Consensus size: 21
995912 CTGTCAGTTT
995922 CATGTATCGATACAAT-TATC
1 CATGTATCGATACAATGTATC
*
995942 CATGTATCGATACAATGAAT-
1 CATGTATCGATACAATGTATC
995962 -ATGTATCGATACAATGTATC
1 CATGTATCGATACAATGTATC
995982 GATACAAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 16 0.44
21 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
CATGTATCGATACAATGTATC
Found at i:995980 original size:13 final size:13
Alignment explanation
Indices: 995962--995988 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
995952 TACAATGAAT
995962 ATGTATCGATACA
1 ATGTATCGATACA
995975 ATGTATCGATACA
1 ATGTATCGATACA
995988 A
1 A
995989 GGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:995984 original size:32 final size:33
Alignment explanation
Indices: 995943--996007 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
995933 ACAATTATCC
*
995943 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAGGAATAATGTATCGATACA
*
995975 ATGTATCGATACAAGGCATAATGTATCGATACA
1 ATGTATCGATACAAGGAATAATGTATCGATACA
996008 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAGGAATAATGTATCGATACA
Found at i:998252 original size:13 final size:13
Alignment explanation
Indices: 998234--998258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
998224 AAACTCACTT
998234 TGTATCGATACAA
1 TGTATCGATACAA
998247 TGTATCGATACA
1 TGTATCGATACA
998259 TACTTGAATT
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:999196 original size:29 final size:28
Alignment explanation
Indices: 999149--999207 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
999139 CTTTTGCCTT
** **
999149 ATTTGCAATTTAGTCTTAAATTTTCAAA
1 ATTTGCAATTTACCCTTAAACATTCAAA
999177 ATTTGCAATTTCACCCTTAAACATTCAAA
1 ATTTGCAATTT-ACCCTTAAACATTCAAA
999206 AT
1 AT
999208 ATCACTCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (28 bp):
ATTTGCAATTTACCCTTAAACATTCAAA
Found at i:999852 original size:23 final size:23
Alignment explanation
Indices: 999826--999873 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
999816 CTTGGAGATG
999826 TTGAATTTAATCTAAGTATTTTC
1 TTGAATTTAATCTAAGTATTTTC
999849 TTGAATTTAATCTAAGTATTTTC
1 TTGAATTTAATCTAAGTATTTTC
999872 TT
1 TT
999874 TCTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (23 bp):
TTGAATTTAATCTAAGTATTTTC
Found at i:1000440 original size:48 final size:50
Alignment explanation
Indices: 1000363--1000456 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 50
1000353 GTTGCTGCCC
* * * *
1000363 GTTTCTTTCATTTGCTACAATTGTTTCATTTTTTTCATTTGTTGTTGTCA
1 GTTTCTTTCATTTACTACAACTATTTCATTTCTTTCATTTGTTGTTGTCA
1000413 GTTTC-TTC-TTTACTACAACTATTTCATTTCTTTCATTTGTTGTT
1 GTTTCTTTCATTTACTACAACTATTTCATTTCTTTCATTTGTTGTT
1000457 CCTTGTTGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 32 0.80
49 3 0.08
50 5 0.12
ACGTcount: A:0.15, C:0.16, G:0.10, T:0.60
Consensus pattern (50 bp):
GTTTCTTTCATTTACTACAACTATTTCATTTCTTTCATTTGTTGTTGTCA
Found at i:1000830 original size:3 final size:3
Alignment explanation
Indices: 1000824--1000868 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
1000814 TTTTAAAAAA
* *
1000824 ATT ATT ATT ATT ATT ATT -TT ATT -TA ATT ATG ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1000869 ATATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.08
3 33 0.92
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1001506 original size:43 final size:42
Alignment explanation
Indices: 1001427--1001572 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 42
1001417 TTAAGCTGAC
* *
1001427 GGGCAGACAAAGAAG-AATAAATAAGTCTCTCGAGTCAAAGTCAAT
1 GGGCAGACAAAG-GGTAA-AAA-AAGTCTCTAGAGTCAAAG-CAAT
*
1001472 GGGCAGACAAAGGGTAAAAAAAGTCTCCTA-AGTCAAAGCTGAT
1 GGGCAGACAAAGGGTAAAAAAAGTCT-CTAGAGTCAAAGC-AAT
* * * * * *
1001515 GGGCAAACAAAAGGT-AAAGAAGTCTCTAGGGTCATAGCCAAC
1 GGGCAGACAAAGGGTAAAAAAAGTCTCTAGAGTCAAAG-CAAT
*
1001557 AGGCAGACAAAGGGTA
1 GGGCAGACAAAGGGTA
1001573 GGGAAATCTC
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
41 3 0.04
42 29 0.35
43 30 0.37
44 6 0.07
45 14 0.17
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.15
Consensus pattern (42 bp):
GGGCAGACAAAGGGTAAAAAAAGTCTCTAGAGTCAAAGCAAT
Found at i:1001745 original size:42 final size:42
Alignment explanation
Indices: 1001675--1002142 Score: 165
Period size: 42 Copynumber: 11.2 Consensus size: 42
1001665 GAAGTTGTCA
* * * * *
1001675 GGGTCAAAGCCGACAAGTAGATAGAAGGTAAAGAAATC-CCT
1 GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAATCTCCT
* ** * *
1001716 AGGGTCAAAGCTGATGGGCACACGAAAGGTAAAGAAGTCTCCT
1 -GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAATCTCCT
* *
1001759 GGGTCAAAGCCGACAGGCAGACAAAAGGTAAAGAAGTCT-CT
1 GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAATCTCCT
* * * *
1001800 CGAGTCAAAGTCGAC-GGCCAAACAAAAGGTAAAGAAGTCTCC-
1 -GGGTCAAAGCCGACAGG-CACACAAAAGGTAAAGAAATCTCCT
* * * * * *
1001842 AGGTCAAAGTCGACAGGTAGAC-AAAGATAAAGAAATTTTCC-
1 GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAA-TCTCCT
* * * * * ** * *
1001883 CGATCAAGGTCAATGGGCAAAC-AAAGATAAA-AAAGTCT-CT
1 GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAA-TCTCCT
* * ** * * * *
1001923 CGAGTCAAAGCCAATGGGTAGACAAAAAGGTAAAGAAGT-TTCT
1 -GGGTCAAAGCCGACAGGCACAC-AAAAGGTAAAGAAATCTCCT
* * * *
1001966 AAGGTCAAAGCTGACAGGCAGACAAAAGGTAAAGAAGTCTTCC-
1 -GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAATC-TCCT
* * * *
1002009 AGGTCAAAGCCAACAAGCACAC-AAAGGATAAA-AAAGTCTCCA
1 GGGTCAAAGCCGACAGGCACACAAAAGG-TAAAGAAA-TCTCCT
* * * * * *
1002051 AGGTCAAAGCTGATAGGCAGAC-AAAGGATAAAGAAGTCTCTT
1 GGGTCAAAGCCGACAGGCACACAAAAGG-TAAAGAAATCTCCT
* *** * * *
1002093 GAGTCAAAGTTAACAAGCAGAC-AAAGGATAAAGAAGTCTCCT
1 GGGTCAAAGCCGACAGGCACACAAAAGG-TAAAGAAATCTCCT
*
1002135 GAGTCAAA
1 GGGTCAAA
1002143 ATCGATGGGC
Statistics
Matches: 335, Mismatches: 73, Indels: 36
0.75 0.16 0.08
Matches are distributed among these distances:
39 1 0.00
40 16 0.05
41 71 0.21
42 211 0.63
43 32 0.10
44 4 0.01
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (42 bp):
GGGTCAAAGCCGACAGGCACACAAAAGGTAAAGAAATCTCCT
Found at i:1002141 original size:84 final size:85
Alignment explanation
Indices: 1001719--1002159 Score: 326
Period size: 84 Copynumber: 5.3 Consensus size: 85
1001709 AATCCCTAGG
* * * *
1001719 GTCAAAGCT-GATGGGCACACGAAAGGTAAAGAAGTCTC-CTGGGTCAAAGCCGACAGGCAGACA
1 GTCAAAGCTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTC-GAGTCAAAGCCAACAGGCAGAC-
1001782 AAAGG-TAAAGAAGTCT-CTCGA
64 AAAGGATAAAGAAGTCTCCT-GA
* * * * * *
1001803 GTCAAAG-TCGACGGCCAAACAAAAGGTAAAGAAGTCTC-C-AGGTCAAAGTCGACAGGTAGACA
1 GTCAAAGCTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTCGA-GTCAAAGCCAACAGGCAGACA
* * *
1001865 AA-GATAAAGAAATTTTCCCGA
65 AAGGATAAAG-AAGTCTCCTGA
* * * * * ** *
1001886 -TC-AAGGTCAATGGGCAAAC-AAAGATAAAAAAGTCTCTCGAGTCAAAGCCAATGGGTAGACAA
1 GTCAAAGCTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTCGAGTCAAAGCCAACAGGCAGAC--
* *
1001948 AAAGG-TAAAGAAGT-TTCTAA
64 AAAGGATAAAGAAGTCTCCTGA
** * * *
1001968 GGTCAAAGCT-GACAGGCAGACAAAAGGTAAAGAAGTCT-TCCAGGTCAAAGCCAACAAGCACAC
1 -GTCAAAGCTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTCGA-GTCAAAGCCAACAGGCAGAC
* *
1002031 AAAGGATAAAAAAGTCTCC-AA
64 AAAGGATAAAGAAGTCTCCTGA
* * ** *
1002052 GGTCAAAGCT-GATAGGCAGAC-AAAGGATAAAGAAGTCTCTTGAGTCAAAGTTAACAAGCAGAC
1 -GTCAAAGCTCGATGGGCAGACAAAAGG-TAAAGAAGTCTCTCGAGTCAAAGCCAACAGGCAGAC
1002115 AAAGGATAAAGAAGTCTCCTGA
64 AAAGGATAAAGAAGTCTCCTGA
*
1002137 GTCAAA-ATCGATGGGCAGACAAA
1 GTCAAAGCTCGATGGGCAGACAAA
1002160 GGATCAAAGG
Statistics
Matches: 286, Mismatches: 48, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
81 19 0.07
82 40 0.14
83 40 0.14
84 146 0.51
85 41 0.14
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (85 bp):
GTCAAAGCTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTCGAGTCAAAGCCAACAGGCAGACAA
AGGATAAAGAAGTCTCCTGA
Found at i:1002155 original size:42 final size:42
Alignment explanation
Indices: 1001740--1002168 Score: 280
Period size: 42 Copynumber: 10.3 Consensus size: 42
1001730 TGGGCACACG
* *
1001740 AAAGG-TAAAGAAGTCTCCTGGGTCAAAGCCGACAGGCAGAC
1 AAAGGATAAAGAAGTCTCCTGAGTCAAAGTCGACAGGCAGAC
*
1001781 AAAAGG-TAAAGAAGTCT-CTCGAGTCAAAGTCGAC-GGCCAAAC
1 -AAAGGATAAAGAAGTCTCCT-GAGTCAAAGTCGACAGG-CAGAC
* *
1001823 AAAAGG-TAAAGAAGTCTCCAG-GTCAAAGTCGACAGGTAGAC
1 -AAAGGATAAAGAAGTCTCCTGAGTCAAAGTCGACAGGCAGAC
* * * * * ** *
1001864 AAA-GATAAAGAAATTTTCCCGA-TCAAGGTCAATGGGCAAAC
1 AAAGGATAAAG-AAGTCTCCTGAGTCAAAGTCGACAGGCAGAC
* * * ** *
1001905 AAA-GATAAAAAAGTCT-CTCGAGTCAAAGCCAATGGGTAGAC
1 AAAGGATAAAGAAGTCTCCT-GAGTCAAAGTCGACAGGCAGAC
* *
1001946 AAAAAGG-TAAAGAAGT-TTCTAAGGTCAAAG-CTGACAGGCAGAC
1 --AAAGGATAAAGAAGTCTCCTGA-GTCAAAGTC-GACAGGCAGAC
* * * * *
1001989 AAAAGG-TAAAGAAGTCTTCCAG-GTCAAAGCCAACAAGCACAC
1 -AAAGGATAAAGAAGTC-TCCTGAGTCAAAGTCGACAGGCAGAC
* * *
1002031 AAAGGATAAAAAAGTCTCC-AAGGTCAAAG-CTGATAGGCAGAC
1 AAAGGATAAAGAAGTCTCCTGA-GTCAAAGTC-GACAGGCAGAC
* ** *
1002073 AAAGGATAAAGAAGTCTCTTGAGTCAAAGTTAACAAGCAGAC
1 AAAGGATAAAGAAGTCTCCTGAGTCAAAGTCGACAGGCAGAC
* **
1002115 AAAGGATAAAGAAGTCTCCTGAGTCAAAATCGATGGGCAGAC
1 AAAGGATAAAGAAGTCTCCTGAGTCAAAGTCGACAGGCAGAC
1002157 AAAGGATCAAAG
1 AAAGGAT-AAAG
1002169 GTATCAGATA
Statistics
Matches: 307, Mismatches: 55, Indels: 49
0.75 0.13 0.12
Matches are distributed among these distances:
39 2 0.01
40 14 0.05
41 72 0.23
42 182 0.59
43 34 0.11
44 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (42 bp):
AAAGGATAAAGAAGTCTCCTGAGTCAAAGTCGACAGGCAGAC
Found at i:1002163 original size:126 final size:124
Alignment explanation
Indices: 1001699--1002142 Score: 357
Period size: 126 Copynumber: 3.5 Consensus size: 124
1001689 AAGTAGATAG
* * * * ** * *
1001699 AAGGTAAAGAAATCCCTAGGGTCAAAGCTGATGGGCACACGAAAGGTAAAGAAGTCTCCTGGGTC
1 AAGGTAAAGAAGTCTCT-GAGTCAAAGTTGACAGGCAGAC-AAAGGTAAAGAAGTCTCCTGAGTC
* * * *
1001764 AAAGCCGACAGGCAGACAAAAGG-TAAAGAAGTCTCTCGAGTCAAAG-TCGA-CGGCCAAACAA
64 AAAGCCAACAGGCAGAC-AAAGGATAAAAAAGTCTCTCGAGTCAAAGCT-GATAGG-CAGACAA
* * * * * * *
1001825 AAGGTAAAGAAGTCTC-CAGGTCAAAGTCGACAGGTAGACAAAGATAAAGAAATTTTCCCGA-TC
1 AAGGTAAAGAAGTCTCTGA-GTCAAAGTTGACAGGCAGACAAAGGTAAAG-AAGTCTCCTGAGTC
* * ** * ** * *
1001888 AAGGTCAATGGGCAAACAAA-GATAAAAAAGTCTCTCGAGTCAAAGCCAATGGGTAGACAAA
64 AAAGCCAACAGGCAGACAAAGGATAAAAAAGTCTCTCGAGTCAAAGCTGATAGGCAGAC-AA
* * * *
1001949 AAGGTAAAGAAGTTTCTAAGGTCAAAGCTGACAGGCAGACAAAAGGTAAAGAAGTCTTCCAG-GT
1 AAGGTAAAGAAGTCTCTGA-GTCAAAGTTGACAGGCAGAC-AAAGGTAAAGAAGTC-TCCTGAGT
* * *
1002013 CAAAGCCAACAAGCACACAAAGGATAAAAAAGTCTC-CAAGGTCAAAGCTGATAGGCAGAC-A
63 CAAAGCCAACAGGCAGACAAAGGATAAAAAAGTCTCTCGA-GTCAAAGCTGATAGGCAGACAA
* *
1002074 AAGGATAAAGAAGTCTCTTGAGTCAAAGTTAACAAGCAGACAAAGGATAAAGAAGTCTCCTGAGT
1 AAGG-TAAAGAAGTCTC-TGAGTCAAAGTTGACAGGCAGACAAAGG-TAAAGAAGTCTCCTGAGT
1002139 CAAA
63 CAAA
1002143 ATCGATGGGC
Statistics
Matches: 249, Mismatches: 53, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
122 1 0.00
123 29 0.12
124 41 0.16
125 57 0.23
126 89 0.36
127 32 0.13
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.16
Consensus pattern (124 bp):
AAGGTAAAGAAGTCTCTGAGTCAAAGTTGACAGGCAGACAAAGGTAAAGAAGTCTCCTGAGTCAA
AGCCAACAGGCAGACAAAGGATAAAAAAGTCTCTCGAGTCAAAGCTGATAGGCAGACAA
Found at i:1002360 original size:88 final size:87
Alignment explanation
Indices: 1002242--1002797 Score: 569
Period size: 88 Copynumber: 6.3 Consensus size: 87
1002232 GCAAATCATT
* * * * * *
1002242 TGACCAGGGTAGTAACCATACATCAAACAAG-AAGAAGGCAAATTTGACCAAGGTGGTAACTATA
1 TGACTAGGGTGGTAACCATACGTCAGACAAGAAAG-AGGCAGATTTGACCAAGGTGGTAACCATA
1002306 CGTCAAATCAGAATGAAAAGAATC
65 CGTCAAATC-GAATGAAAAGAATC
* * * * *
1002330 TGACTAGGATGGCAACCATACATTAGACAAGAATGAGGCAGATTTGACC-AGGTTGGTAACCATA
1 TGACTAGGGTGGTAACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAAGG-TGGTAACCATA
* *
1002394 TGTAAAATCGAAATGAAAAGAATC
65 CGTCAAATCG-AATGAAAAGAATC
** * * *
1002418 TGACTAGGGTGCAAACCATACGTCAGACAAGAAAGAGGCATATTTGACCAGGGTGGTAACCATAT
1 TGACTAGGGTGGTAACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
*
1002483 GTCAAATCGAAATAAAAAGAATC
66 GTCAAATCG-AATGAAAAGAATC
* * * * * *
1002506 TGACTAGGGTGGTAACCACAGGTCAGATAGGAAAGAGGCAGATTTGACTAGGGTGGTAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
*
1002571 GTCAAATTGGAATGAAAAGAATC
66 GTCAAA-TCGAATGAAAAGAATC
* * * * * * * * * *
1002594 TGACCAGGATAGTAACCATACGTCAGATAGGAAGGAGGCAAATTTGA-TAAGGGTGATAACTATA
1 TGACTAGGGTGGTAACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAA-GGTGGTAACCATA
* *
1002658 CGTCAAATTAGAATGAAAATAATC
65 CGTCAAA-TCGAATGAAAAGAATC
* * * * * * * *
1002682 TGACTAGGGTGGTAACCATATGTCAGATAAGAAAGAGGTAGATTTAATCATGGTGATAACTATAC
1 TGACTAGGGTGGTAACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
1002747 GTCAAATCGGAATGAAAAGAATC
66 GTCAAATC-GAATGAAAAGAATC
* * *
1002770 TAACTAGGGTGGTAACGATATGTCAGAC
1 TGACTAGGGTGGTAACCATACGTCAGAC
1002798 CAAAATGAGA
Statistics
Matches: 400, Mismatches: 60, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
87 7 0.02
88 386 0.96
89 7 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (87 bp):
TGACTAGGGTGGTAACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
GTCAAATCGAATGAAAAGAATC
Found at i:1002391 original size:44 final size:43
Alignment explanation
Indices: 1002239--1002481 Score: 127
Period size: 44 Copynumber: 5.5 Consensus size: 43
1002229 AATGCAAATC
* *
1002239 ATTTGACCAGGGTAGTAACCATACATCAAACAAGAA-GAAGGCAA
1 ATTTGACCA-GGTGGTAACCATACATCAAACAAGAATG-AGGCAG
* * **
1002283 ATTTGACCAAGGTGGTAACTATACGTCAAATC-AGAATGA-AAAG
1 ATTTGACC-AGGTGGTAACCATACATCAAA-CAAGAATGAGGCAG
* * * * *
1002326 AATCTGACTAGGATGGCAACCATACATTAGACAAGAATGAGGCAG
1 -ATTTGACCAGG-TGGTAACCATACATCAAACAAGAATGAGGCAG
** * * **
1002371 ATTTGACCAGGTTGGTAACCATATGTAAAATCGA-AATGA-AAAG
1 ATTTGACCAGG-TGGTAACCATACATCAAA-CAAGAATGAGGCAG
* * ** * * * *
1002414 AATCTGACTAGGGTGCAAACCATACGTCAGACAAGAAAGAGGCAT
1 -ATTTGACCA-GGTGGTAACCATACATCAAACAAGAATGAGGCAG
1002459 ATTTGACCAGGGTGGTAACCATA
1 ATTTGACCA-GGTGGTAACCATA
1002482 TGTCAAATCG
Statistics
Matches: 145, Mismatches: 42, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
43 9 0.06
44 126 0.87
45 10 0.07
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (43 bp):
ATTTGACCAGGTGGTAACCATACATCAAACAAGAATGAGGCAG
Found at i:1002515 original size:44 final size:44
Alignment explanation
Indices: 1002293--1002794 Score: 182
Period size: 44 Copynumber: 11.4 Consensus size: 44
1002283 ATTTGACCAA
* *
1002293 GGTGGTAACTATACGTCAAATC-AGAATGAAAAGAATCTGACTAG
1 GGTGGTAACCATACGTCAAATCGA-AATAAAAAGAATCTGACTAG
* * * * * * *** * *
1002337 GATGGCAACCATACATTAGA-CAAGAATGAGGCAG-ATTTGACCAG
1 GGTGGTAACCATACGTCAAATCGA-AAT-AAAAAGAATCTGACTAG
* * * *
1002381 GTTGGTAACCATATGTAAAATCGAAATGAAAAGAATCTGACTAG
1 GGTGGTAACCATACGTCAAATCGAAATAAAAAGAATCTGACTAG
** * * * * *
1002425 GGTGCAAACCATACGTCAGA-C-AAGA-AAGAGGCATATTTGACCAG
1 GGTGGTAACCATACGTCAAATCGAA-ATAAAAAG-A-ATCTGACTAG
*
1002469 GGTGGTAACCATATGTCAAATCGAAATAAAAAGAATCTGACTAG
1 GGTGGTAACCATACGTCAAATCGAAATAAAAAGAATCTGACTAG
* * * * * *** *
1002513 GGTGGTAACCACAGGTCAGATAGGAAAGAGGCAG-ATTTGACTAG
1 GGTGGTAACCATACGTCAAAT-CGAAATAAAAAGAATCTGACTAG
* * * *
1002557 GGTGGTAACCATACGTCAAATTGGAATGAAAAGAATCTGACCAG
1 GGTGGTAACCATACGTCAAATCGAAATAAAAAGAATCTGACTAG
* * * * ** *** *
1002601 GATAGTAACCATACGTCAGATAGGAAGGAGGCA-AATTTGA-TAAG
1 GGTGGTAACCATACGTCAAAT-CGAAATAAAAAGAATCTGACT-AG
* * * * *
1002645 GGTGATAACTATACGTCAAAT-TAGAATGAAAATAATCTGACTAG
1 GGTGGTAACCATACGTCAAATCGA-AATAAAAAGAATCTGACTAG
* * * * *** * * *
1002689 GGTGGTAACCATATGTCAGATAAGAAAGAGGTAG-AT-TTAATCAT
1 GGTGGTAACCATACGTCAAAT-CGAAATAAAAAGAATCTGACT-AG
* * * * *
1002733 GGTGATAACTATACGTCAAATCGGAATGAAAAGAATCTAACTAG
1 GGTGGTAACCATACGTCAAATCGAAATAAAAAGAATCTGACTAG
* *
1002777 GGTGGTAACGATATGTCA
1 GGTGGTAACCATACGTCA
1002795 GACCAAAATG
Statistics
Matches: 314, Mismatches: 122, Indels: 44
0.65 0.25 0.09
Matches are distributed among these distances:
42 6 0.02
43 21 0.07
44 256 0.82
45 24 0.08
46 7 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (44 bp):
GGTGGTAACCATACGTCAAATCGAAATAAAAAGAATCTGACTAG
Found at i:1002882 original size:48 final size:48
Alignment explanation
Indices: 1002807--1003045 Score: 173
Period size: 48 Copynumber: 5.0 Consensus size: 48
1002797 CCAAAATGAG
* * * *
1002807 AAGAGTTTGACCAGGTCTTAGCACCAATATAGTCAAACGAAGGATAAA
1 AAGAGTTTGACCAAGCCTTAACACCAATACAGTCAAACGAAGGATAAA
** ** *
1002855 AAGAGTTTGACCAAGCCTTAATGCCAATACAGTCAAACGGGGGATGAA
1 AAGAGTTTGACCAAGCCTTAACACCAATACAGTCAAACGAAGGATAAA
* * * * *
1002903 AAGAGTTTG-CCTAGGCC-CAAGCACCAATACAGTGAAA-TAAGGGATGAA
1 AAGAGTTTGACC-AAGCCTTAA-CACCAATACAGTCAAACGAA-GGATAAA
* * * * * * * * *
1002951 AAGATTTTAACTAGGCCCTAACACTAATATAGTCAAACGAGGGATGAA
1 AAGAGTTTGACCAAGCCTTAACACCAATACAGTCAAACGAAGGATAAA
* * * *
1002999 AAGAGTTTGACCAAACCCTAACACCAATGCAGTTAAACG-AGGA-AAA
1 AAGAGTTTGACCAAGCCTTAACACCAATACAGTCAAACGAAGGATAAA
1003045 A
1 A
1003046 TAGTTTGGTA
Statistics
Matches: 148, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
46 3 0.02
47 7 0.05
48 134 0.91
49 4 0.03
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.19
Consensus pattern (48 bp):
AAGAGTTTGACCAAGCCTTAACACCAATACAGTCAAACGAAGGATAAA
Found at i:1003155 original size:48 final size:47
Alignment explanation
Indices: 1003073--1003237 Score: 152
Period size: 48 Copynumber: 3.4 Consensus size: 47
1003063 TCAGACAAAA
* * ** * *
1003073 ATGAGAAGAGTTTGACCAGGCCTTAACACCAATACAATCAAACGAAGG
1 ATGAAAAGAGTTTGACTAGATC-TAACACTAATACAGTCAAACGAAGG
* *
1003121 ATGAAAAGAGTTTGACTAGATGCTGACACTAATACAGTCAAACGAGGG
1 ATGAAAAGAGTTTGACTAGAT-CTAACACTAATACAGTCAAACGAAGG
* * * * *
1003169 ATGAAACGAGTTTGACCAGGCTCTAACACTAATACAGTTAAA-TAAGGG
1 ATGAAAAGAGTTTGACTA-GATCTAACACTAATACAGTCAAACGAA-GG
* *
1003217 ATGACAAGAGTTTGAATAGAT
1 ATGAAAAGAGTTTGACTAGAT
1003238 ACAGTCAAAC
Statistics
Matches: 94, Mismatches: 20, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
47 3 0.03
48 88 0.94
49 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (47 bp):
ATGAAAAGAGTTTGACTAGATCTAACACTAATACAGTCAAACGAAGG
Found at i:1003616 original size:89 final size:90
Alignment explanation
Indices: 1003462--1003630 Score: 218
Period size: 89 Copynumber: 1.9 Consensus size: 90
1003452 CGGAATATCT
* ** * * *
1003462 TTACCCCAAGGATATCGGGCTTTGTGATGCATTAGTACCATCTAGTGGTTGGGTGAAGGGAATAT
1 TTACCCCAAGGAAATCAAGCTTTGTGATGCATGAGTACCATCTAGTGGCTGAGTGAAGGGAATAT
1003527 GATTAGG-AATGTGTGGGTTGCACC
66 GATTAGGAAATGTGTGGGTTGCACC
* * *
1003551 TTACCCCTAGGAAATCAAGCTTTGTGATGCATCGA-TACCATCTA-TGGGCTGAGTGAGGGGGAT
1 TTACCCCAAGGAAATCAAGCTTTGTGATGCAT-GAGTACCATCTAGT-GGCTGAGTGAAGGGAAT
1003614 ATGATTAGGAAATGTGT
64 ATGATTAGGAAATGTGT
1003631 TTTCCTTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
88 1 0.01
89 59 0.87
90 8 0.12
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (90 bp):
TTACCCCAAGGAAATCAAGCTTTGTGATGCATGAGTACCATCTAGTGGCTGAGTGAAGGGAATAT
GATTAGGAAATGTGTGGGTTGCACC
Found at i:1005090 original size:21 final size:21
Alignment explanation
Indices: 1005066--1005108 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1005056 AGCTTCATTC
1005066 TTTCTATT-TTTCGCTTTTTTT
1 TTTCT-TTCTTTCGCTTTTTTT
**
1005087 TTTCTTTCTTTTTCTTTTTTT
1 TTTCTTTCTTTCGCTTTTTTT
1005108 T
1 T
1005109 ATCATACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTCTTTCTTTCGCTTTTTTT
Found at i:1006166 original size:20 final size:20
Alignment explanation
Indices: 1006141--1006199 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1006131 ACTGCCAAAG
1006141 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATTAGT
* ***
1006161 AAATGTATCAATACATGCTT
1 AAATGTATCGATACATTAGT
1006181 ACAACTGTATCGATACATT
1 A-AA-TGTATCGATACATT
1006200 TTTTATCGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 2 0.06
22 12 0.39
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATTAGT
Found at i:1009375 original size:28 final size:28
Alignment explanation
Indices: 1009335--1009397 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
1009325 TGGCTGCCCT
1009335 TATTTGGCAGAGGAACGATTCAGATACC
1 TATTTGGCAGAGGAACGATTCAGATACC
1009363 TATTTGGCAGAGGAACGATTCAGATACC
1 TATTTGGCAGAGGAACGATTCAGATACC
1009391 TATTTGG
1 TATTTGG
1009398 GTGTCATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (28 bp):
TATTTGGCAGAGGAACGATTCAGATACC
Found at i:1011175 original size:13 final size:13
Alignment explanation
Indices: 1011157--1011198 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
1011147 ATACAATTCC
1011157 TTGTATCGATACA
1 TTGTATCGATACA
1011170 TTGTATCGATACA
1 TTGTATCGATACA
*
1011183 CTGTATCGATACA
1 TTGTATCGATACA
1011196 TTG
1 TTG
1011199 GGTACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1013731 original size:13 final size:13
Alignment explanation
Indices: 1013713--1013739 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1013703 ACATTATGCT
1013713 TTGTATCGATACA
1 TTGTATCGATACA
1013726 TTGTATCGATACA
1 TTGTATCGATACA
1013739 T
1 T
1013740 GGACAATTGT
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:1013750 original size:33 final size:33
Alignment explanation
Indices: 1013713--1013890 Score: 128
Period size: 33 Copynumber: 5.5 Consensus size: 33
1013703 ACATTATGCT
1013713 TTGTATCGATACATTGTATCGATACATGGACAA
1 TTGTATCGATACATTGTATCGATACATGGACAA
*
1013746 TTGTATCGATACA-TG-A--GAT---TGG-CAG
1 TTGTATCGATACATTGTATCGATACATGGACAA
* ** *
1013771 TAGCTA-CCCTACCATTGTTTGTATCGATACGTGGTACAA
1 TTG-TATCGATA-CA---T-TGTATCGATACATGG-ACAA
*
1013810 -TGTATCGATACATTGTATCGATACGTGGTACAA
1 TTGTATCGATACATTGTATCGATACATGG-ACAA
*
1013843 -TGTATCGATACATTGTATCGATACAT-GATGAA
1 TTGTATCGATACATTGTATCGATACATGGA-CAA
1013875 TTGTATCGATACATTG
1 TTGTATCGATACATTG
1013891 CTTGTAATGG
Statistics
Matches: 117, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
25 7 0.06
26 7 0.06
29 3 0.03
31 4 0.03
32 6 0.05
33 73 0.62
34 4 0.03
37 7 0.06
38 4 0.03
39 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATTGTATCGATACATGGACAA
Found at i:1013815 original size:20 final size:20
Alignment explanation
Indices: 1013790--1013853 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1013780 TACCATTGTT
1013790 TGTATCGATACGTGGTACAA
1 TGTATCGATACGTGGTACAA
*
1013810 TGTATCG--A-----TACAT
1 TGTATCGATACGTGGTACAA
1013823 TGTATCGATACGTGGTACAA
1 TGTATCGATACGTGGTACAA
1013843 TGTATCGATAC
1 TGTATCGATAC
1013854 ATTGTATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 11 0.31
15 1 0.03
18 1 0.03
20 22 0.63
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
TGTATCGATACGTGGTACAA
Found at i:1013826 original size:13 final size:13
Alignment explanation
Indices: 1013805--1013890 Score: 61
Period size: 13 Copynumber: 7.5 Consensus size: 13
1013795 CGATACGTGG
*
1013805 TACAATGTATCGA
1 TACATTGTATCGA
1013818 TACATTGTATCGA
1 TACATTGTATCGA
*
1013831 TAC---G--T-GG
1 TACATTGTATCGA
*
1013838 TACAATGTATCGA
1 TACATTGTATCGA
1013851 TACATTGTATCGA
1 TACATTGTATCGA
1013864 TACA-TG-AT-G-
1 TACATTGTATCGA
1013873 -A-ATTGTATCGA
1 TACATTGTATCGA
1013884 TACATTG
1 TACATTG
1013891 CTTGTAATGG
Statistics
Matches: 57, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 2 0.04
10 4 0.07
11 2 0.04
12 4 0.07
13 36 0.63
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1018489 original size:33 final size:33
Alignment explanation
Indices: 1018443--1018507 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
1018433 TTTGAAGCAA
1018443 TGTATCGACACAAT-T-CATCATGTATCGATACAT
1 TGTATCGACACAATGTGC--CATGTATCGATACAT
* *
1018476 TGTATGGATACAATGTGCCATGTATCGATACA
1 TGTATCGACACAATGTGCCATGTATCGATACA
1018508 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGACACAATGTGCCATGTATCGATACAT
Found at i:1020867 original size:22 final size:21
Alignment explanation
Indices: 1020832--1020881 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1020822 TTTGTTAATG
*
1020832 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
1020852 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
1020873 AATTTGAAG
1 ATTTTGAAG
1020882 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:1020878 original size:21 final size:22
Alignment explanation
Indices: 1020839--1020881 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1020829 ATGATTTTGA
* *
1020839 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1020861 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1020882 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1024975 original size:31 final size:30
Alignment explanation
Indices: 1024892--1025423 Score: 543
Period size: 31 Copynumber: 17.1 Consensus size: 30
1024882 TTTAAATATC
* * *
1024892 TTCTTAAAGTCCATGACTCAGTGGCATATTTT
1 TTCTCAAAGTCCACGACTCAGTGGC--ATCTT
* *
1024924 TTCTTCAAAGTCCATGACTCAGTGGCAATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
* *
1024956 TTCTCAAAGCCCACAACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * *
1024985 TGTCCCAAAGTCCACGACTAAGTGGCATTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATCTT
*
1025016 TTTTCCAAAGTCCACGACTCAGTGGCAATCTCT
1 TTCT-CAAAGTCCACGACTCAGTGGC-ATCT-T
*
1025049 TT-TCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
* *
1025079 TT-TCTAAGTCCACGACTTAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCA--TCTT
1025110 TTCTCAAAGTCCACGACTCAGTGGCATCTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATC--TT
* *
1025142 TTCTTCAAAGTCCATGACTTAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
*
1025174 TTTTCAAAGTCCACGACTCAGTGGCATCTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATC--TT
*
1025206 TTCTTCAAAGTCCACGACTCAGTGGCAATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
*
1025238 TTCTCAAAGCCCACGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
1025268 GTCCCAAAGTCCACGACTCACTGGCATTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
1025298 TTCTCCAAAGTCCACGACTCAGTGGCAATCTCT
1 TTCT-CAAAGTCCACGACTCAGTGGC-ATCT-T
*
1025331 TT-TCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
* *
1025361 TT-TCTAAGTCCACGACTTAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTT
* * *
1025391 TTCTTCCAAGTCCACAACTTAGTGGCATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTT
1025422 TT
1 TT
1025424 TTCTTTAAAG
Statistics
Matches: 431, Mismatches: 46, Indels: 47
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.00
30 121 0.28
31 153 0.35
32 80 0.19
33 69 0.16
34 6 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Done.