Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 7 of 17
Found at i:948651 original size:27 final size:27
Alignment explanation
Indices: 948621--948990 Score: 399
Period size: 27 Copynumber: 13.4 Consensus size: 27
948611 GTGGGCTTTG
* *
948621 AAAGGTGGCACGGATTTGTGGATTTAA
1 AAAGGTGCCACGGAGTTGTGGATTTAA
948648 AAAGGTGCCACGGAGTTGTGGACTTT-A
1 AAAGGTGCCACGGAGTTGTGGA-TTTAA
*
948675 AAAGAGTGCCACGGAGTTGTGGACTTAA
1 AAAG-GTGCCACGGAGTTGTGGATTTAA
* * *
948703 AAGGGTGCCATGGAGTTGTGGACTTAA
1 AAAGGTGCCACGGAGTTGTGGATTTAA
*
948730 AAGGGTGCCACGGAGTTGTGGACTTT-A
1 AAAGGTGCCACGGAGTTGTGGA-TTTAA
* * *
948757 AAAGAGTGCCACAGAGTTATGGACTTAA
1 AAAG-GTGCCACGGAGTTGTGGATTTAA
* **
948785 AAGGGTGCCATAGAGTTGTGGATTTAA
1 AAAGGTGCCACGGAGTTGTGGATTTAA
*
948812 AAGGGTGCCACGGAGTTGTGGACTTT-A
1 AAAGGTGCCACGGAGTTGTGGA-TTTAA
* *
948839 AAAGAGTGCCACAGAGTTGTGGACTTAA
1 AAAG-GTGCCACGGAGTTGTGGATTTAA
948867 AAAGGTGCCACGGAGTTGTGGACTTTAA
1 AAAGGTGCCACGGAGTTGTGGA-TTTAA
* *
948895 AAGGGTGCCACGGAGTTATGGACTTT-A
1 AAAGGTGCCACGGAGTTGTGGA-TTTAA
*
948922 AAAGGATGCCACGGAGTTGTGGACTT-A
1 AAAGG-TGCCACGGAGTTGTGGATTTAA
* *
948949 AAAGGATGCAACGTAGTTGTGGACTTTAA
1 AAAGG-TGCCACGGAGTTGTGGA-TTTAA
948978 AAAGAGATGCCAC
1 AAAG-G-TGCCAC
948991 TGAATCGTGG
Statistics
Matches: 298, Mismatches: 31, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
27 168 0.56
28 118 0.40
29 5 0.02
30 7 0.02
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (27 bp):
AAAGGTGCCACGGAGTTGTGGATTTAA
Found at i:948695 original size:55 final size:55
Alignment explanation
Indices: 948600--949005 Score: 482
Period size: 55 Copynumber: 7.4 Consensus size: 55
948590 TGAGAAGGAC
* * * * * *
948600 GCCACTGACTTGTGGGCTTTGAAA-GGTGGCACGGATTTGTGGATTTAAAAAGGT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGATTTAAAAAGGT
* * *
948654 GCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGATTTAAAAAGGT
*
948709 GCCATGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGAGT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGA-TTTAAAAAG-GT
* * ** *
948764 GCCACAGAGTTATGGAC-TTAAAAGGGTGCCATAGAGTTGTGGATTTAAAAGGGT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGATTTAAAAAGGT
* * *
948818 GCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAAAGGT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGATTTAAAAAGGT
*
948873 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACTTT-AAAAGGAT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGA-TTTAAAAAGG-T
* * *
948929 GCCACGGAGTTGTGGAC-TTAAAAGGATGCAACGTAGTTGTGGACTTTAAAAAGAGAT
1 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGA-TTTAAAAAG-G-T
* * *
948986 GCCACTGAATCGTGGACTTT
1 GCCACGGAGTTGTGGACTTT
949006 GAAGAGGTCA
Statistics
Matches: 306, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
54 69 0.23
55 193 0.63
56 25 0.08
57 17 0.06
58 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.26
Consensus pattern (55 bp):
GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGATTTAAAAAGGT
Found at i:948722 original size:82 final size:82
Alignment explanation
Indices: 948624--948979 Score: 543
Period size: 82 Copynumber: 4.3 Consensus size: 82
948614 GGCTTTGAAA
* * * *
948624 GGTGGCACGGATTTGTGGATTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGG
1 GGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAG
948689 AGTTGTGGACTTAAAAG
66 AGTTGTGGACTTAAAAG
* *
948706 GGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAG
1 GGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAG
*
948771 AGTTATGGACTTAAAAG
66 AGTTGTGGACTTAAAAG
**
948788 GGTGCCATAGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAG
1 GGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAG
*
948853 AGTTGTGGACTTAAAAA
66 AGTTGTGGACTTAAAAG
*
948870 GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAG-GATGCCAC
1 GGTGCCACGGAGTTGTGGA-TTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG-TGCCAC
*
948934 GGAGTTGTGGACTTAAAAG
64 AGAGTTGTGGACTTAAAAG
* * *
948953 GATGCAACGTAGTTGTGGACTTTAAAA
1 GGTGCCACGGAGTTGTGGA-TTTAAAA
948980 AGAGATGCCA
Statistics
Matches: 253, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
82 171 0.68
83 82 0.32
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (82 bp):
GGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACAG
AGTTGTGGACTTAAAAG
Found at i:951249 original size:13 final size:13
Alignment explanation
Indices: 951231--951256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
951221 CAATTTTTGG
951231 TGTATCGATACAT
1 TGTATCGATACAT
951244 TGTATCGATACAT
1 TGTATCGATACAT
951257 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:951273 original size:32 final size:33
Alignment explanation
Indices: 951211--951274 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
951201 TACAAGCCAA
**
951211 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
*
951244 TGTATCGATAC-ATACTTGGTGTATTGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
951275 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:953676 original size:21 final size:22
Alignment explanation
Indices: 953642--953682 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
953632 GCTGGTTTTG
*
953642 ATGAAAAATGAAGTAATTTGAA
1 ATGAAAAATCAAGTAATTTGAA
*
953664 ATGAAAAA-CAAGTATTTTG
1 ATGAAAAATCAAGTAATTTG
953683 CAAAAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.29
Consensus pattern (22 bp):
ATGAAAAATCAAGTAATTTGAA
Found at i:953821 original size:13 final size:13
Alignment explanation
Indices: 953803--953828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
953793 ATAATCACCC
953803 TGTATCGATACAA
1 TGTATCGATACAA
953816 TGTATCGATACAA
1 TGTATCGATACAA
953829 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:955927 original size:15 final size:15
Alignment explanation
Indices: 955907--955937 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
955897 ATTTCGTTTG
*
955907 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
955922 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
955937 G
1 G
955938 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:960025 original size:13 final size:13
Alignment explanation
Indices: 960007--960032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
959997 CAATTTTTGG
960007 TGTATCGATACAT
1 TGTATCGATACAT
960020 TGTATCGATACAT
1 TGTATCGATACAT
960033 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:960044 original size:32 final size:33
Alignment explanation
Indices: 959987--960050 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
959977 TACAAGCCAA
**
959987 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
960020 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
960051 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:960057 original size:19 final size:18
Alignment explanation
Indices: 959987--960057 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
959977 TACAAGCCAA
959987 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
960007 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
960020 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
960039 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
960058 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:967254 original size:23 final size:20
Alignment explanation
Indices: 967204--967300 Score: 104
Period size: 20 Copynumber: 4.7 Consensus size: 20
967194 TTTTAACTAG
967204 ATGTATCGATACATTGAGAA
1 ATGTATCGATACATTGAGAA
* *
967224 ATGCATCGATACATCTGGATAGA
1 ATGTATCGATACAT-T-GAGA-A
* ***
967247 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAGAA
967267 ATGTATCGATACATTGAGAA
1 ATGTATCGATACATTGAGAA
*
967287 ATGTATCGGTACAT
1 ATGTATCGATACAT
967301 ATAGGTAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
20 42 0.67
21 3 0.05
22 4 0.06
23 14 0.22
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAGAA
Found at i:967275 original size:43 final size:40
Alignment explanation
Indices: 967204--967300 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 40
967194 TTTTAACTAG
* *
967204 ATGTATCGATACATTGAGAAATGCATCGATACATCTGGATAGA
1 ATGTATCGATACATTCAGAAATGCATCGATACAT-T-GAGA-A
*** *
967247 ATGTATCGATACATTCATCCATGTATCGATACATTGAGAA
1 ATGTATCGATACATTCAGAAATGCATCGATACATTGAGAA
*
967287 ATGTATCGGTACAT
1 ATGTATCGATACAT
967301 ATAGGTAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
40 14 0.30
41 3 0.06
42 1 0.02
43 29 0.62
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (40 bp):
ATGTATCGATACATTCAGAAATGCATCGATACATTGAGAA
Found at i:967932 original size:19 final size:20
Alignment explanation
Indices: 967907--967966 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
967897 CTTTGTATCG
967907 ATAATTGTATCGATACAT-A
1 ATAATTGTATCGATACATGA
*
967926 TTAATTGTATCGATACATGA
1 ATAATTGTATCGATACATGA
* *
967946 AAAAATGTATCGATACATGA
1 ATAATTGTATCGATACATGA
967966 A
1 A
967967 GTTAGCAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
ATAATTGTATCGATACATGA
Found at i:967937 original size:31 final size:32
Alignment explanation
Indices: 967880--967940 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
967870 CACTTTTAGA
**
967880 TGTATCGATACATTATGCTTTGTATCGATAAT
1 TGTATCGATACATTATGAATTGTATCGATAAT
*
967912 TGTATCGATACA-TATTAATTGTATCGATA
1 TGTATCGATACATTATGAATTGTATCGATA
967941 CATGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATTATGAATTGTATCGATAAT
Found at i:973076 original size:21 final size:20
Alignment explanation
Indices: 973028--973078 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
973018 TTTAGGCATT
* *
973028 TATCGATACATTCATTTATG
1 TATCGATACATTCACTAATG
973048 TATCGATACATTCACTAATTG
1 TATCGATACATTCACTAA-TG
*
973069 TATTGATACA
1 TATCGATACA
973079 AACCATAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCACTAATG
Found at i:975957 original size:13 final size:13
Alignment explanation
Indices: 975939--976000 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
975929 CAAAGATCAA
975939 TGTATCGATACAT
1 TGTATCGATACAT
975952 TGTATCGATACA-
1 TGTATCGATACAT
975964 T-TACTC-A-A-A-
1 TGTA-TCGATACAT
975973 TGTATCGATACAT
1 TGTATCGATACAT
975986 TGTATCGATACAT
1 TGTATCGATACAT
975999 TG
1 TG
976001 ATCTTTGTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 4 0.09
12 4 0.09
13 27 0.63
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:976051 original size:52 final size:50
Alignment explanation
Indices: 975986--976134 Score: 199
Period size: 52 Copynumber: 2.9 Consensus size: 50
975976 ATCGATACAT
*
975986 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
976038 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCTAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
976090 TGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATTATT--ATGTATCGATACATGCAGGCAAATTT
976135 TCATATTTCG
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:983215 original size:15 final size:15
Alignment explanation
Indices: 983195--983232 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
983185 CCTAATCTTC
983195 ACAAAAAAAACAAAA
1 ACAAAAAAAACAAAA
983210 ACAAAAAAAACAAAA
1 ACAAAAAAAACAAAA
983225 A-AAAAAAA
1 ACAAAAAAA
983233 GGAAAAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (15 bp):
ACAAAAAAAACAAAA
Found at i:984062 original size:8 final size:8
Alignment explanation
Indices: 984049--984094 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
984039 TTGTGCTATA
984049 ATCATGAC
1 ATCATGAC
984057 ATCATGAC
1 ATCATGAC
984065 ATCATGAC
1 ATCATGAC
*
984073 ATCATAAC
1 ATCATGAC
*
984081 ATCAATAAC
1 ATC-ATGAC
984090 ATCAT
1 ATCAT
984095 TATTTGCATC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (8 bp):
ATCATGAC
Found at i:984331 original size:23 final size:23
Alignment explanation
Indices: 984293--984338 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
984283 GCATCTTGTC
*
984293 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
* *
984316 TCAAAGTCCATAACTCCGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
984339 CTTTTTTTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (23 bp):
TCAAAGTCCACAACTCAGTGGCA
Found at i:984383 original size:59 final size:59
Alignment explanation
Indices: 984291--984500 Score: 251
Period size: 59 Copynumber: 3.4 Consensus size: 59
984281 TGGCATCTTG
*
984291 TCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCATAACTCCGTGGCACTTTTTTTCCT
1 TCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACTCCGTGGCACTTTTTTTCCT
*
984350 TCTCAAAGTCCACGACTCAGTGGCATTAAAGTCCACAACTCCGTGGCACTTTTTTTCCT
1 TCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACTCCGTGGCACTTTTTTTCCT
* * * *
984409 TCTTAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCTCAAAGTCCACGACTCAGTGGCA--------TCAAAGTCCACAACTCCGTGGCACT-TTTTTT
984474 CCT
57 CCT
* * *
984477 T-TTAAAGTCCACAACTCCGTGGCA
1 TCTCAAAGTCCACGACTCAGTGGCA
984501 CCTTGTTCCT
Statistics
Matches: 134, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
59 80 0.60
67 45 0.34
68 9 0.07
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (59 bp):
TCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACTCCGTGGCACTTTTTTTCCT
Found at i:984384 original size:23 final size:23
Alignment explanation
Indices: 984354--984397 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
984344 TTTCCTTCTC
*
984354 AAAGTCCACGACTCAGTGGCATT
1 AAAGTCCACAACTCAGTGGCATT
*
984377 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACAACTCAGTGGCA
984398 CTTTTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (23 bp):
AAAGTCCACAACTCAGTGGCATT
Found at i:984494 original size:67 final size:62
Alignment explanation
Indices: 984375--984726 Score: 286
Period size: 67 Copynumber: 5.4 Consensus size: 62
984365 CTCAGTGGCA
* * * *
984375 TTAAAGTCCACAACTCCGTGGCACTTTTTTTCCTTCTTAAAGTCCACGACTCCGTGGCACCTTCT
1 TTAAAGCCCACAACTCCGTGGCAC----TTCCCTT-TTAAAGCCCACAACTCCGTGGCACCTTCT
984440 TT
61 TT
* * *
984442 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGT
1 TTAAAGCCCACAACTCCGTGGCA--C---TTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTCT
984507 TCCT
61 T--T
* * * * * *
984511 TTTAAGTCCACGATTCCGTGGCACCTT-CTTTTTAAAGCCCACAACTCCATGGCACCTTTTTCTT
1 TTAAAGCCCACAACTCCGTGGCA-CTTCCCTTTTAAAGCCCACAACTCCGTGGCACC---TTCTT
984575 T
62 T
*
984576 TTAAAGCCCACAACTCCGTGGCA---CCCTTTT-AAGCCCACAAC-CCTATGGCACTCTCCTTCT
1 TTAAAGCCCACAACTCCGTGGCACTTCCCTTTTAAAGCCCACAACTCC-GTGGCA----CCTTCT
984636 TT
61 TT
* *
984638 TTAAAGCCCACAACTCCGTGGCACCTT-CCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTT
1 TTAAAGCCCACAACTCCGTGGCA-CTTCCCTTTTAAAGCCCACAACTCCGTGGCACC-TTCTTT
* *
984701 TTGAAGCCCACAACTCTGTGGCACTT
1 TTAAAGCCCACAACTCCGTGGCACTT
984727 TTTTCTTTTC
Statistics
Matches: 240, Mismatches: 25, Indels: 45
0.77 0.08 0.15
Matches are distributed among these distances:
60 2 0.01
61 17 0.07
62 39 0.16
63 26 0.11
64 26 0.11
65 29 0.12
66 16 0.07
67 55 0.23
68 10 0.04
69 20 0.08
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
TTAAAGCCCACAACTCCGTGGCACTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTT
Found at i:984579 original size:34 final size:34
Alignment explanation
Indices: 984375--984746 Score: 343
Period size: 31 Copynumber: 11.4 Consensus size: 34
984365 CTCAGTGGCA
* * *
984375 TTAAAGTCCACAACTCCGTGGCACTTTTTTTCCTTC
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTT
* *
984411 TTAAAGTCCACGACTCCGTGGCACC---TTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
984442 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTT
* * *
984478 TTAAAGTCCACAACTCCGTGGCACCTTGTTCCTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* * *
984512 TT-AAGTCCACGATTCCGTGGCACC---TTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
984542 TTAAAGCCCACAACTCCATGGCACCTTTTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
984576 TTAAAGCCCACAACTCCGTGGCACC-----C-TT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* **
984604 TT-AAGCCCACAAC-CCTATGGCACTCTCCTTCTTT
1 TTAAAGCCCACAACTCC-GTGGCAC-CTTTTTCTTT
*
984638 TTAAAGCCCACAACTCCGTGGCACC---TTCCTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
984669 TCAAAGCCCACAACTCCGTGGCACC-TTTT-TTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* * *
984701 TTGAAGCCCACAACTCTGTGGCACTTTTTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
984735 TCAAAGCCCACA
1 TTAAAGCCCACA
984747 CAAGTCGGTG
Statistics
Matches: 284, Mismatches: 29, Indels: 48
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.01
27 17 0.06
28 5 0.02
29 1 0.00
30 7 0.02
31 71 0.25
32 26 0.09
33 27 0.10
34 54 0.19
35 24 0.08
36 50 0.18
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
Found at i:984839 original size:66 final size:65
Alignment explanation
Indices: 984737--984898 Score: 229
Period size: 66 Copynumber: 2.5 Consensus size: 65
984727 TTTTCTTTTC
*
984737 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACC-CTCTCT
1 AAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCACTCTCT
* * * *
984801 AAAGCCCACACAAGTCGATGGTAATCCCCTT-TCTAAAGCCCACACAAGTTGGTGGCCACCATTC
1 AAAGCCCACACAAGTCGATGGCAA--CCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCACTC
984865 TCT
63 TCT
*
984868 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGATGGCAACCCTTCT
984899 AAGCCTAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
64 22 0.26
65 7 0.08
66 30 0.35
67 27 0.31
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (65 bp):
AAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCACTCTCT
Found at i:984874 original size:33 final size:33
Alignment explanation
Indices: 984737--984898 Score: 240
Period size: 32 Copynumber: 4.9 Consensus size: 33
984727 TTTTCTTTTC
984737 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
984769 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
984801 AAAGCCCACACAAGTCGATGGTAATCCCCTT-TCT
1 AAAGCCCACACAAGTCGGTGGCAA--CCCTTCTCT
* * *
984835 AAAGCCCACACAAGTTGGTGGCCACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
984868 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
984899 AAGCCTAATA
Statistics
Matches: 115, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
31 4 0.03
32 53 0.46
33 31 0.27
34 26 0.23
35 1 0.01
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:984989 original size:21 final size:21
Alignment explanation
Indices: 984965--985032 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
984955 ATGTAGCTGG
984965 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* * ** *
984986 CCTTTCAGTCCAATATCGTTGGC-
1 CC-TTGAAT-CAGCAT-ATTGGCA
985009 -CTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
985029 CCTT
1 CCTT
985033 CTTCTTTAAG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 5 0.16
20 4 0.12
21 9 0.28
22 5 0.16
23 4 0.12
24 5 0.16
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:985010 original size:43 final size:43
Alignment explanation
Indices: 984909--985401 Score: 538
Period size: 43 Copynumber: 10.8 Consensus size: 43
984899 AAGCCTAATA
984909 TAGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATG
* *
984958 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTCAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
* *
985001 TCGTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATG
* *
985050 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATT
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
* *
985093 TCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATT-G-----GCACCTTTAAGTCCAATG
* * *
985142 TAGCTGGCCTTGAATCAGCACATTTGCACCTTTAAGTCCAATAT
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAAT-G
985186 TA-CTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATG
* * * *
985234 TAGCTGGCCTTGAATCAGCAAATTGGCACCTCTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
985277 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATG
* *
985326 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
*
985369 TCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTT
985402 TCCACCTTTA
Statistics
Matches: 384, Mismatches: 34, Indels: 58
0.81 0.07 0.12
Matches are distributed among these distances:
43 194 0.51
44 3 0.01
45 4 0.01
47 3 0.01
48 2 0.01
49 178 0.46
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATG
Found at i:985062 original size:92 final size:92
Alignment explanation
Indices: 984905--985453 Score: 873
Period size: 92 Copynumber: 5.9 Consensus size: 92
984895 TTCTAAGCCT
* *
984905 AATATAGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* *
984970 AATCAGCATATTGGCACCTTTCAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* *
984997 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
985062 AATCAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* * *
985089 AATTTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
985154 AATCAGCACATTTGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
** *
985181 AATATTACTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* * *
985246 AATCAGCAAATTGGCACCTCTAAGCCC
66 AATCAGCACATTGGCACCTTTAAGTCC
*
985273 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
985338 AATCAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* *
985365 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCCAATATAGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCC
* * *
985430 TTGAACCAGCATATTAGCACCTTT
63 TTGAATCAGCACATTGGCACCTTT
985454 TCCATCTTTA
Statistics
Matches: 420, Mismatches: 34, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
92 373 0.89
94 2 0.00
95 45 0.11
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
AATCAGCACATTGGCACCTTTAAGTCC
Found at i:985430 original size:52 final size:52
Alignment explanation
Indices: 985352--985560 Score: 247
Period size: 52 Copynumber: 4.0 Consensus size: 52
985342 AGCACATTGG
*
985352 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* *
985404 CACCTTTAAGTCCAATATAGCTGGCCTTGAACCAGCATATTAGCACCTTTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* * * * * *
985456 CATCTTTAAGTTCAATGTAGCTGGCCATGAATCAGCACATTGACATCCTTTTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC
* * * * * * *
985510 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 -CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
985561 ATCACTTTTC
Statistics
Matches: 133, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
52 86 0.65
53 5 0.04
54 6 0.05
55 36 0.27
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (52 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
Found at i:985551 original size:107 final size:104
Alignment explanation
Indices: 985355--985560 Score: 250
Period size: 107 Copynumber: 2.0 Consensus size: 104
985345 ACATTGGCAC
* * * * *
985355 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCATGAATCAGCACATTGACACCTTTTCCACCTTTAAGCCCAAT
* *
985420 ATAGCTGGCCTTGAACCAGCATATTAGCACCTTTTCCAT
66 ATAGCTGGCCGTGAACCAACATATTAGCACCTTTTCCAT
* * *
985459 CTTTAAGTTCAATGTAGCTGGCCATGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCC
1 CTTTAAGTCCAATATAGCTGGCCATGAATCAGCACATTGACA-CC-TTTTC-CACCTTTAAGCCC
* * * * *
985524 AATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
63 AATATAGCTGGCCGTGAACCAACATATTAGCACCTTT
985561 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 36 0.43
105 2 0.02
106 5 0.06
107 41 0.49
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (104 bp):
CTTTAAGTCCAATATAGCTGGCCATGAATCAGCACATTGACACCTTTTCCACCTTTAAGCCCAAT
ATAGCTGGCCGTGAACCAACATATTAGCACCTTTTCCAT
Found at i:986377 original size:13 final size:13
Alignment explanation
Indices: 986359--986383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
986349 CATAAAGTGT
986359 TGTATCGATACAA
1 TGTATCGATACAA
986372 TGTATCGATACA
1 TGTATCGATACA
986384 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:986381 original size:33 final size:33
Alignment explanation
Indices: 986339--986405 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
986329 TTCAACGATT
986339 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
986372 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
986405 T
1 T
986406 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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:986466 original size:13 final size:13
Alignment explanation
Indices: 986448--986472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
986438 ATTACTCAAA
986448 TGTATCGATACAT
1 TGTATCGATACAT
986461 TGTATCGATACA
1 TGTATCGATACA
986473 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:990247 original size:73 final size:73
Alignment explanation
Indices: 990128--990277 Score: 248
Period size: 73 Copynumber: 2.1 Consensus size: 73
990118 AATAGGCGTA
**
990128 TCCAAAGATGTAAAACATGTCACTTGGCTAAGTCCAAAAGCCAAAATACAAGATTATACATGCCT
1 TCCAAAGATAAAAAACATGTCACTTGGCTAAGTCCAAAAGCCAAAATACAAGATTATACATGCCT
990193 CTTCCTAT
66 CTTCCTAT
* *
990201 TCCAAAGATAAAAAACCA-GTCGCTTGGCTAAGTCCAAAAGCCAAAATACGAGATTATACATGCC
1 TCCAAAGATAAAAAA-CATGTCACTTGGCTAAGTCCAAAAGCCAAAATACAAGATTATACATGCC
990265 TCTTCCTAT
65 TCTTCCTAT
990274 TCCA
1 TCCA
990278 GATGGACCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 70 0.97
74 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (73 bp):
TCCAAAGATAAAAAACATGTCACTTGGCTAAGTCCAAAAGCCAAAATACAAGATTATACATGCCT
CTTCCTAT
Found at i:991263 original size:17 final size:18
Alignment explanation
Indices: 991183--991263 Score: 71
Period size: 18 Copynumber: 4.7 Consensus size: 18
991173 GATCAACATC
*
991183 AATCACA-AATTT-TAGG
1 AATCACAGATTTTCTAGG
*
991199 AATCATAGATTTTCTAAGG
1 AATCACAGATTTTCT-AGG
*
991218 -ATAACAGATTTTCTAGG
1 AATCACAGATTTTCTAGG
* *
991235 AACCACAAATTTT-TAGG
1 AATCACAGATTTTCTAGG
*
991252 AATTACAGATTT
1 AATCACAGATTT
991264 CTATAATCCC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
16 6 0.12
17 20 0.39
18 22 0.43
19 3 0.06
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
AATCACAGATTTTCTAGG
Found at i:992998 original size:27 final size:27
Alignment explanation
Indices: 992967--993022 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
992957 TCACTTCTAT
*
992967 TTGCATAAATAGATCTAATGGAGAGTG
1 TTGCATAAATAAATCTAATGGAGAGTG
*
992994 TTGCATAGATAAATCTAATGGAGAGTG
1 TTGCATAAATAAATCTAATGGAGAGTG
993021 TT
1 TT
993023 TTTGTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (27 bp):
TTGCATAAATAAATCTAATGGAGAGTG
Found at i:1001688 original size:20 final size:20
Alignment explanation
Indices: 1001641--1001715 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
1001631 AAAAAGACAT
1001641 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
* *
1001661 AATATATCGATACA-TGTATG
1 AATGTATCGATACATTG-AAG
* *
1001681 AATGTATCGATATATT-AAA
1 AATGTATCGATACATTGAAG
*
1001700 AATTGTATTGATACAT
1 AA-TGTATCGATACAT
1001716 CTAGGTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.11
20 38 0.86
21 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:1002202 original size:45 final size:46
Alignment explanation
Indices: 1002093--1002300 Score: 199
Period size: 45 Copynumber: 4.5 Consensus size: 46
1002083 AGAGGAGTGC
** * * * *
1002093 CAATGTGCCAATTCAATGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAA--GTAAAGTGGA
*
1002141 CTAATGTGCTGA-TCAAGGCCAGCAACATTGGGCT-AGTAAAGTGGA
1 C-AATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGTAAAGTGGA
* * *
1002186 CAATGTGGTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAATGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCT-AAGTAAAGTGGA
* * * *
1002233 AAATGTGCTGATTCAAGGCCAGCGATATTGAGCTAA-TAAAG-GTGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGTAAAGTG-GA
* *
1002278 CAATATGCTGATTCAATGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
1002301 GATTTCGGAT
Statistics
Matches: 136, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.07
45 55 0.40
46 2 0.01
47 40 0.29
48 21 0.15
49 8 0.06
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.22
Consensus pattern (46 bp):
CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGTAAAGTGGA
Found at i:1002252 original size:47 final size:47
Alignment explanation
Indices: 1002094--1002268 Score: 185
Period size: 47 Copynumber: 3.7 Consensus size: 47
1002084 GAGGAGTGCC
** * * * * *
1002094 AATGTGCCAATTCAATGCCAGCGACATTGGGCTAAGGGAAAAGTGGACT
1 AATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAA-TGGA-A
* * * *
1002143 AATGTGCTGA-TCAAGGCCAGCAACATTGGGCT--AGTAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAATGGAA
*
1002187 AATGTGGTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAATGGAA
1 AATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAATGGAA
* *
1002234 AATGTGCTGATTCAAGGCCAGCGATATTGAGCTAA
1 AATGTGCTGATTCAAGGCCAGCAACATTGAGCTAA
1002269 TAAAGGTGCC
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
44 9 0.08
45 25 0.23
46 4 0.04
47 41 0.38
48 20 0.19
49 8 0.07
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (47 bp):
AATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAATGGAA
Found at i:1002299 original size:92 final size:92
Alignment explanation
Indices: 1002088--1002300 Score: 259
Period size: 92 Copynumber: 2.3 Consensus size: 92
1002078 AGATAAGAGG
** * * * *
1002088 AGTGCCAATGTGCCAATTCAATGCCAGCGACATTGGGCTAAGGGAAAAGTGGACTAATGTGCTGA
1 AGTGCCAATGTGCTGATTCAATGCCAGCAACATTGAGCTAAAGGAAAAGTGGACAAATGTGCTGA
* *
1002153 TCAAGGCCAGCAACATTGGGCTAGTAA
66 TCAAGGCCAGCAACATTGAGCTAATAA
* * *
1002180 AGTGGACAATGTGGTGATTCAAGGCCAGCAACATTGAGCTAAAGGAAAA-TGGA-AAATGTGCTG
1 AGT-GCCAATGTGCTGATTCAATGCCAGCAACATTGAGCTAAAGGAAAAGTGGACAAATGTGCTG
* *
1002243 ATTCAAGGCCAGCGATATTGAGCTAATAA
65 A-TCAAGGCCAGCAACATTGAGCTAATAA
*
1002272 AGGTGCCAATATGCTGATTCAATGCCAGC
1 A-GTGCCAATGTGCTGATTCAATGCCAGC
1002301 GATTTCGGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
91 10 0.10
92 52 0.51
93 39 0.39
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (92 bp):
AGTGCCAATGTGCTGATTCAATGCCAGCAACATTGAGCTAAAGGAAAAGTGGACAAATGTGCTGA
TCAAGGCCAGCAACATTGAGCTAATAA
Found at i:1002425 original size:28 final size:27
Alignment explanation
Indices: 1002392--1003946 Score: 621
Period size: 28 Copynumber: 53.2 Consensus size: 27
1002382 CCATAACTTC
* *
1002392 TGTGGGCTTTCAAGAGATGCCACTAACT
1 TGTGGGCTTTGAA-AGATGCCACTGACT
1002420 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
1002448 TGTGGGCTTTGGAAAGATGCCACTGACT
1 TGTGGGCTTT-GAAAGATGCCACTGACT
* *
1002476 CGTGGGCTTTGAAAAGTTGCCACTGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
* * * *
1002504 CGTGGGCTTTGAAAAGTTGCCATTAACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
* * *
1002532 TGTGGGCTTGGAAAAGATACCATTGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
* * * *
1002560 TGTTGGTTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
*
1002588 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
*
1002616 TGTGGGCTTTGAAAGGATGCTACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* *
1002644 CGTGGGCTTTGAAA-A-G----TTAC-
1 TGTGGGCTTTGAAAGATGCCACTGACT
** *
1002664 CATGGGCTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * *
1002692 TGTGGGCTTGGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* *
1002720 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* *
1002748 TGTGGGCTTTGAAAAGAAGCCACCGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
** * *
1002776 TGTAAGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA---GATGCCACTGAC-T
* *
1002807 GTGTGGGCTTTGAAAGGATGCCACAGATT
1 -TGTGGGCTTTGAAA-GATGCCACTGACT
* *
1002836 TATGGGCTTTGAAAAGATACCACTGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
*
1002864 TGTGGGCTTTGAAAAGATGCCACCGACTT
1 TGTGGGCTTTG-AAAGATGCCACTGAC-T
* *
1002893 GTGTGGGCTTTGAAATGGGTTGCCAC-CACCTT
1 -TGTGGGCTTTGAAA---GATGCCACTGA-C-T
*
1002925 GTGTGGGCTTTGAAATGAGTTCCCACTGACT
1 -TGTGGGCTTTGAAA-GA--TGCCACTGACT
* * **
1002956 TGTATGGGCTTTCAAATGGGTTGCCACCAACTT
1 TG--TGGGCTTTGAAA---GATGCCACTGAC-T
* **
1002989 GTGTGGGCTTTGAAATAGGTTGCCACCAACTT
1 -TGTGGGCTTTG-AA-A-GATGCCACTGAC-T
* **
1003021 GTGTGGGCTTTCAAATGAGTTGCCACCAACT
1 -TGTGGGCTTTGAAA-GA--TGCCACTGACT
* **
1003052 TGTATGGGCTTTGGAGTAAGTTGCCACCAACTT
1 TG--TGGGCTTT-GA--AAGATGCCACTGAC-T
* **
1003085 GTGTGGGCTTTGAAGTAAGTTGCCACCAACTT
1 -TGTGGGCTTTG-A--AAGATGCCACTGAC-T
* * **
1003117 GTGTGGGCTTTGAAGTGGGTTGCCACCAACT
1 -TGTGGGCTTTGAA---AGATGCCACTGACT
* * **
1003148 TGCGTGGGCTTTCAAATAATTTGCCACCAACT
1 T--GTGGGCTTTGAAA-GA--TGCCACTGACT
* * **
1003180 TGTGTAGGCTTTAAAATGGGTTGCCACCAACTT
1 TGTG--GGCTTTGAAA---GATGCCACTGAC-T
* **
1003213 GTGTGGGCTTTGAAATAAGTTGCCACCAACTT
1 -TGTGGGCTTTG--A-AAGATGCCACTGAC-T
* **
1003245 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA---GATGCCACTGAC-T
* **
1003277 GTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GA--TGCCACTGAC-T
* **
1003309 ATGTGGGCTTTGAAATAGGTTGCCACCAACTT
1 -TGTGGGCTTTG-AA-A-GATGCCACTGAC-T
* **
1003341 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA---GATGCCACTGAC-T
*
1003373 GTGTGGGCTTTGAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-GA--TGCCACTGAC-T
*
1003405 GTGTGGGCTTTGAAAGGATGCCACTAACT
1 -TGTGGGCTTTGAAA-GATGCCACTGACT
*
1003434 TGTGGGCTTTGGAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-TGCCACTGACT
* *
1003462 CGTGGGC-TTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
*
1003489 TGTGTAGGCTTTGAAAAGATGCCACTAACT
1 TGTG--GGCTTTG-AAAGATGCCACTGACT
1003519 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-TGCCACTGACT
* * *
1003547 CGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* *
1003575 TGTGGGCTTTGAAAAGAAGCCACCGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
* * *
1003603 TGTGAGCATTGAAATGGGTTGCCACTGACTT
1 TGTGGGCTTTGAAA---GATGCCACTGAC-T
*
1003634 GTGTGGGCTTTGAAAGGATGCCATTGACT
1 -TGTGGGCTTTGAAA-GATGCCACTGACT
1003663 TGTGTTGGCTTTGAAAGGAGTGCCACTGACT
1 TGTG--GGCTTTGAAA-GA-TGCCACTGACT
*
1003694 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* *
1003722 TGTGGACTTTGAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-TGCCACTGACT
* * * * * *
1003750 TGTGGAC-TTAAAAGGGTGCTACAGAGT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * ** * * *
1003777 TGTAGACTTAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGATGCCACTGACT
* * * * *
1003804 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * * * *
1003831 TGTGGACTTTAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGATGCCACTGACT
* * * * *
1003858 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * * *
1003886 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * * *
1003914 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
1003942 TGTGG
1 TGTGG
1003947 ACTTAAAAGG
Statistics
Matches: 1285, Mismatches: 144, Indels: 196
0.79 0.09 0.12
Matches are distributed among these distances:
20 12 0.01
21 3 0.00
22 1 0.00
23 1 0.00
25 1 0.00
26 6 0.00
27 123 0.10
28 543 0.42
29 42 0.03
30 109 0.08
31 26 0.02
32 391 0.30
33 9 0.01
34 14 0.01
35 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (27 bp):
TGTGGGCTTTGAAAGATGCCACTGACT
Found at i:1002713 original size:48 final size:48
Alignment explanation
Indices: 1002618--1002713 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
1002608 CACCGACTTG
* * * *
1002618 TGGGCTTTGAAAGGATGCTACTGACTCGTGGGCTTTGAAAAGTTACCA
1 TGGGCTTGGAAAGGATGCCACTGACTCGTGGGCTTGGAAAAGGTACCA
* *
1002666 TGGGCTTGGAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGGTACCA
1 TGGGCTTGGAAAGGATGCCACTGACTCGTGGGCTTGGAAAAGGTACCA
1002714 CTGACTTGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (48 bp):
TGGGCTTGGAAAGGATGCCACTGACTCGTGGGCTTGGAAAAGGTACCA
Found at i:1002717 original size:76 final size:76
Alignment explanation
Indices: 1002590--1002733 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 76
1002580 CATTGACTTG
* * * *
1002590 TGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAGGATGCTACTGACTCGTGGGCTTTG
1 TGGGCTTGGAAAAGATGCCACCGACTTGTGGGCTTGGAAAGGATACCACTGACTCGTGGGCTTTG
1002655 AAAAGTTACCA
66 AAAAGTTACCA
* * * *
1002666 TGGGCTTGGAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGGTACCACTGACTTGTGGGCTTTG
1 TGGGCTTGGAAAAGATGCCACCGACTTGTGGGCTTGGAAAGGATACCACTGACTCGTGGGCTTTG
1002731 AAA
66 AAA
1002734 GGGTGCCATT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (76 bp):
TGGGCTTGGAAAAGATGCCACCGACTTGTGGGCTTGGAAAGGATACCACTGACTCGTGGGCTTTG
AAAAGTTACCA
Found at i:1002753 original size:104 final size:104
Alignment explanation
Indices: 1002570--1002763 Score: 289
Period size: 104 Copynumber: 1.9 Consensus size: 104
1002560 TGTTGGTTTT
* * * *
1002570 GAAAGGGTGCCATTGACTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAGGATG
1 GAAAGGATGCCACTGACTTGTGGGCTTGGAAAAGATACCACCGACTTGTGGGCTTTGAAAGGATG
*
1002635 CTACTGACTCGTGGGCTTTGAAAAGTTACCATGGGCTTG
66 CCACTGACTCGTGGGCTTTGAAAAGTTACCATGGGCTTG
* * * *
1002674 GAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGGTACCACTGACTTGTGGGCTTTGAAAGGGTG
1 GAAAGGATGCCACTGACTTGTGGGCTTGGAAAAGATACCACCGACTTGTGGGCTTTGAAAGGATG
* *
1002739 CCATTGACTTGTGGGCTTTGAAAAG
66 CCACTGACTCGTGGGCTTTGAAAAG
1002764 AAGCCACCGA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.27
Consensus pattern (104 bp):
GAAAGGATGCCACTGACTTGTGGGCTTGGAAAAGATACCACCGACTTGTGGGCTTTGAAAGGATG
CCACTGACTCGTGGGCTTTGAAAAGTTACCATGGGCTTG
Found at i:1002926 original size:32 final size:32
Alignment explanation
Indices: 1002781--1003707 Score: 837
Period size: 32 Copynumber: 30.3 Consensus size: 32
1002771 CGACTTGTAA
* *
1002781 GCTTTGAAATGGGTTGCCACCGACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1002813 GCTTTGAAA-G-GATGCCA-CAGA-TT-TATGG
1 GCTTTGAAATGAGTTGCCACCA-ACTTGTGTGG
* * **
1002841 GCTTTGAAA--AGATACCACTGAC-T-TGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1002869 GCTTTGAAA--AGATGCCACCGACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1002899 GCTTTGAAATGGGTTGCCACCACCTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* ** *
1002931 GCTTTGAAATGAGTTCCCACTGACTTGTATGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1002963 GCTTTCAAATGGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
1002995 GCTTTGAAAT-AGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGA-GTTGCCACCAACTTGTGTGG
* *
1003027 GCTTTCAAATGAGTTGCCACCAACTTGTATGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* * *
1003059 GCTTTGGAGTAAGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1003091 GCTTTGAAGTAAGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* * *
1003123 GCTTTGAAGTGGGTTGCCACCAACTTGCGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* * * *
1003155 GCTTTCAAATAATTTGCCACCAACTTGTGTAG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1003187 GCTTTAAAATGGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
*
1003219 GCTTTGAAATAAGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
*
1003251 GCTTTGAAATGGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1003283 GCTTTCAAATGAGTTGCCACCAACTTATGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
1003315 GCTTTGAAAT-AGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGA-GTTGCCACCAACTTGTGTGG
*
1003347 GCTTTGAAATGGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
*
1003379 GCTTTGAAATGAGTTGCCACCGACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1003411 GCTTTGAAA-G-GATGCCACTAAC-T-TGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* ** *
1003439 GCTTTGGAA-GAG-TGCCACTGAC-T-CGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* ** *
1003467 GC-TTGAAA--AGGTGCCACTGACTTGTGTAG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *
1003496 GCTTTGAAA--AGATGCCACTAAC-T-TGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
** *
1003524 GCTTTGAAA-GAG-TGCCACTGAC-T-CGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* * **
1003552 GCTTT-AAAAG-GGTGCCACTGAC-T-TGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
** * *
1003580 GCTTTGAAA--AGAAGCCACCGAC-T-TGTGA
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* * **
1003608 GCATTGAAATGGGTTGCCACTGACTTGTGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* *** *
1003640 GCTTTGAAA-G-GATGCCATTGACTTGTGTTG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
* **
1003670 GCTTTGAAAGGAG-TGCCACTGAC-T-TGTGG
1 GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
1003699 GCTTTGAAA
1 GCTTTGAAA
1003708 GGGTGCCACT
Statistics
Matches: 773, Mismatches: 94, Indels: 59
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.00
27 19 0.02
28 151 0.20
29 30 0.04
30 83 0.11
31 15 0.02
32 472 0.61
33 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (32 bp):
GCTTTGAAATGAGTTGCCACCAACTTGTGTGG
Found at i:1003488 original size:27 final size:28
Alignment explanation
Indices: 1002666--1004016 Score: 586
Period size: 32 Copynumber: 45.6 Consensus size: 28
1002656 AAAGTTACCA
*
1002666 TGGGC-TTGGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * *
1002694 TGGGCTTGGAAAGGGTACCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* *
1002722 TGGGCTTTGAAAGGGTGCCATTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
** *
1002750 TGGGCTTTGAAAAGAAGCCACCGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
** * *
1002778 TAAGCTTTGAAATGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
* * *
1002810 TGGGCTTTG-AAAGGATGCCACAGATTTA
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* *
1002838 TGGGCTTTGAAAAGATACCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* *
1002866 TGGGCTTTGAAAAGATGCCACCGACTTGTG
1 TGGGCTTTGAAAAGGTGCCACTGAC-T-TG
* *
1002896 TGGGCTTTGAAATGGGTTGCCAC-CACCTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGA-C-T-TG
* *
1002928 TGGGCTTTGAAATGAGTTCCCACTGACTTG
1 TGGGCTTTGAAA--AGGTGCCACTGACTTG
* * **
1002958 TATGGGCTTTCAAATGGGTTGCCACCAACTTGTG
1 --TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
**
1002992 TGGGCTTTGAAATAGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
* * **
1003024 TGGGCTTTCAAATGAGTTGCCACCAACTTG
1 TGGGCTTTGAAA--AGGTGCCACTGACTTG
* * **
1003054 TATGGGCTTTGGAGTAAGTTGCCACCAACTTGTG
1 --TGGGCTTT-GA-AAAGGTGCCACTGAC-T-TG
* **
1003088 TGGGCTTTGAAGTAAGTTGCCACCAACTTGTG
1 TGGGCTTTGAA--AAGGTGCCACTGAC-T-TG
** **
1003120 TGGGCTTTGAAGTGGGTTGCCACCAACTTGCG
1 TGGGCTTTGAA-AAGG-TGCCACTGACTT--G
* ** **
1003152 TGGGCTTTCAAATAATTTGCCACCAACTTG
1 TGGGCTTT-GAA-AAGGTGCCACTGACTTG
**
1003182 TGTAGGCTTT-AAAATGGGTTGCCACCAACTTGTG
1 TG--GGCTTTGAAAA--GG-TGCCACTGAC-T-TG
* **
1003216 TGGGCTTTGAAATAAGTTGCCACCAACTTGTG
1 TGGGCTTTG-AA-AAGGTGCCACTGAC-T-TG
* **
1003248 TGGGCTTTGAAATGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
* * **
1003280 TGGGCTTTCAAATGAGTTGCCACCAACTTATG
1 TGGGCTTTGAAA--AGGTGCCACTGAC-T-TG
**
1003312 TGGGCTTTGAAATAGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
* **
1003344 TGGGCTTTGAAATGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
* *
1003376 TGGGCTTTGAAATGAGTTGCCACCGACTTGTG
1 TGGGCTTTGAAA--AGGTGCCACTGAC-T-TG
*
1003408 TGGGCTTTG-AAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* *
1003436 TGGGCTTTG-GAAGAGTGCCACTGACTCG
1 TGGGCTTTGAAAAG-GTGCCACTGACTTG
1003464 TGGGC-TTGAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* *
1003491 TGTAGGCTTTGAAAAGATGCCACTAACTTG
1 TG--GGCTTTGAAAAGGTGCCACTGACTTG
*
1003521 TGGGCTTTG-AAAGAGTGCCACTGACTCG
1 TGGGCTTTGAAAAG-GTGCCACTGACTTG
1003549 TGGGCTTT-AAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
** *
1003577 TGGGCTTTGAAAAGAAGCCACCGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* * *
1003605 TGAGCATTGAAATGGGTTGCCACTGACTTGTG
1 TGGGCTTTGAAA-AGG-TGCCACTGAC-T-TG
*
1003637 TGGGCTTTG-AAAGGATGCCATTGACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
*
1003665 TGTTGGCTTTGAAAGGAGTGCCACTGACTTG
1 TG--GGCTTTGAAAAG-GTGCCACTGACTTG
*
1003696 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* *
1003724 TGGACTTTG-AAGGAGTGCCACTGACTTG
1 TGGGCTTTGAAAAG-GTGCCACTGACTTG
* * * *
1003752 TGGAC-TT-AAAAGGGTGCTACAGAGTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
* * * * *
1003779 TAGAC-TTAAAAAGGTGCCACGGAGTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* * *
1003806 TGGAC-TT-AAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
* * *
1003833 TGGACTTT-AAAAGGTGCCACAGAGTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* * *
1003860 TGGACTTT-AAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAA-GGTGCCACTGACTTG
* * *
1003888 TGGACTTT-AAAAGGATGCCACGGAGTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * *
1003916 TGGACTTT-AAAAGGATGCCACAGAGTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * * *
1003944 TGGAC-TT-AAAAGGATGTCACGGAGTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * * * *
1003971 TGGACTTTAAAAAGAAATGCCACTGAATCG
1 TGGGCTTTGAAAAG--GTGCCACTGACTTG
* *
1004001 TGGACTTTGAAGAGGT
1 TGGGCTTTGAAAAGGT
1004017 CACAGTACTA
Statistics
Matches: 1112, Mismatches: 135, Indels: 152
0.79 0.10 0.11
Matches are distributed among these distances:
26 4 0.00
27 139 0.12
28 352 0.32
29 46 0.04
30 121 0.11
31 39 0.04
32 385 0.35
33 13 0.01
34 11 0.01
35 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
TGGGCTTTGAAAAGGTGCCACTGACTTG
Found at i:1003876 original size:55 final size:55
Alignment explanation
Indices: 1003682--1003982 Score: 392
Period size: 55 Copynumber: 5.5 Consensus size: 55
1003672 TTTGAAAGGA
* * * * * * * *
1003682 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGACTTTGAAGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
* * * * *
1003737 AGTGCCACTGACTTGTGGAC-TTAAAAGGGTGCTACAGAGTTGTAGACTTAAAAAG
1 -GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
*
1003792 GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
* *
1003846 GTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
*
1003901 GATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAG
1 G-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
*
1003956 GATGTCACGGAGTTGTGGACTTTAAAA
1 G-TGCCACGGAGTTGTGGACTTTAAAA
1003983 AGAAATGCCA
Statistics
Matches: 223, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
54 66 0.30
55 96 0.43
56 61 0.27
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (55 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
Found at i:1003947 original size:28 final size:28
Alignment explanation
Indices: 1003635--1003982 Score: 375
Period size: 28 Copynumber: 12.5 Consensus size: 28
1003625 CACTGACTTG
* * ** *
1003635 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * * *
1003663 TGTGTTGGCTTTGAAAGGAGTGCCACTGACT
1 TGTG--GACTTTAAAAGGA-TGCCACGGAGT
* * * * *
1003694 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1003722 TGTGGACTTT-GAAGGAGTGCCACTGACT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGT
* * *
1003750 TGTGGAC-TTAAAAGGGTGCTACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1003777 TGTAGACTTAAAAAGG-TGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1003804 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1003831 TGTGGACTTTAAAAGG-TGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1003858 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1003886 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1003914 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1003942 TGTGGAC-TTAAAAGGATGTCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1003969 TGTGGACTTTAAAA
1 TGTGGACTTTAAAA
1003983 AGAAATGCCA
Statistics
Matches: 288, Mismatches: 22, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
26 7 0.02
27 104 0.36
28 138 0.48
29 12 0.04
30 13 0.05
31 14 0.05
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACGGAGT
Found at i:1005368 original size:24 final size:24
Alignment explanation
Indices: 1005342--1005386 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1005332 TTTTGCACTT
*
1005342 TTTTTCTTTTCA-TTTTTTTGTGC
1 TTTTGCTTTTCACTTTTTTTGTGC
*
1005365 TTTTGCTTTTGACTTTTTTTGT
1 TTTTGCTTTTCACTTTTTTTGT
1005387 CATTTTGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.04, C:0.11, G:0.11, T:0.73
Consensus pattern (24 bp):
TTTTGCTTTTCACTTTTTTTGTGC
Found at i:1013669 original size:20 final size:19
Alignment explanation
Indices: 1013637--1013674 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1013627 TTTTAGATAT
1013637 AAAATAAAATATTAAATTA
1 AAAATAAAATATTAAATTA
*
1013656 AAAATTAAATTATTAAATT
1 AAAA-TAAAATATTAAATT
1013675 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAAAATATTAAATTA
Found at i:1015117 original size:36 final size:32
Alignment explanation
Indices: 1015076--1015152 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 32
1015066 TTAAAAAGTG
1015076 TATTTTTTATTTAAATTTAATAGTAAAAAAT-AATA
1 TATTTTTTATTT-AA--TAATA-TAAAAAATAAATA
* *
1015111 TTATTTTTAATTTAATAATATTAAAAATAAATA
1 -TATTTTTTATTTAATAATATAAAAAATAAATA
1015144 TATTTTTTA
1 TATTTTTTA
1015153 ATTTTTTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 15 0.41
33 9 0.24
35 2 0.05
36 11 0.30
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (32 bp):
TATTTTTTATTTAATAATATAAAAAATAAATA
Found at i:1015124 original size:30 final size:32
Alignment explanation
Indices: 1015089--1015156 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
1015079 TTTTTATTTA
*
1015089 AATTTAATAGTA-AAAAAT-AATAT-TATTTTT
1 AATTTAATAATATAAAAATAAATATAT-TTTTT
1015119 AATTTAATAATATTAAAAATAAATATATTTTTT
1 AATTTAATAATA-TAAAAATAAATATATTTTTT
1015152 AATTT
1 AATTT
1015157 TTTGAAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 11 0.33
32 6 0.18
33 15 0.45
34 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
AATTTAATAATATAAAAATAAATATATTTTTT
Found at i:1015130 original size:33 final size:33
Alignment explanation
Indices: 1015076--1015156 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 33
1015066 TTAAAAAGTG
1015076 TATTTTTT-ATTTAAATTTAATAGTAAAAAAT-AATA
1 TATTTTTTAATTT-AA--TAATA-TAAAAAATAAATA
*
1015111 T-TATTTTTAATTTAATAATATTAAAAATAAATA
1 TAT-TTTTTAATTTAATAATATAAAAAATAAATA
1015144 TATTTTTTAATTT
1 TATTTTTTAATTT
1015157 TTTGAAAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
32 7 0.17
33 20 0.49
34 2 0.05
35 8 0.20
36 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (33 bp):
TATTTTTTAATTTAATAATATAAAAAATAAATA
Found at i:1015148 original size:32 final size:31
Alignment explanation
Indices: 1015089--1015156 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
1015079 TTTTTATTTA
*
1015089 AATTTAATAGTAAAAAATAATATTA-TTTTT
1 AATTTAATAATAAAAAATAATATTATTTTTT
1015119 AATTTAATAATATTAAAAATAA-ATATATTTTTT
1 AATTTAATAATA--AAAAATAATAT-TATTTTTT
1015152 AATTT
1 AATTT
1015157 TTTGAAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 11 0.33
31 2 0.06
32 10 0.30
33 10 0.30
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
AATTTAATAATAAAAAATAATATTATTTTTT
Found at i:1015221 original size:21 final size:22
Alignment explanation
Indices: 1015195--1015244 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
1015185 AAACAATTTC
1015195 ATTTTAAAATTTTTAAAAAT-A
1 ATTTTAAAATTTTTAAAAATAA
* * *
1015216 ATTTTATATTTTTTAAAGATAA
1 ATTTTAAAATTTTTAAAAATAA
1015238 ATTTTAA
1 ATTTTAA
1015245 TCATCCTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTTAAAATTTTTAAAAATAA
Found at i:1015480 original size:11 final size:12
Alignment explanation
Indices: 1015459--1015521 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 12
1015449 AATTTTTAAC
1015459 TATAATATAAAA
1 TATAATATAAAA
*
1015471 T-TAAT-TTAAA
1 TATAATATAAAA
1015481 TATAATATAAAA
1 TATAATATAAAA
* *
1015493 TA-AAAATAATA
1 TATAATATAAAA
1015504 TA-AATAT-AAA
1 TATAATATAAAA
1015514 TA-AATATA
1 TATAATATA
1015522 TTTAAATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
10 14 0.33
11 21 0.50
12 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:1015484 original size:22 final size:22
Alignment explanation
Indices: 1015453--1015536 Score: 73
Period size: 22 Copynumber: 3.7 Consensus size: 22
1015443 TTTAATAATT
*
1015453 TTTAACTATAATATAAAATTAA
1 TTTAAATATAATATAAAATTAA
*
1015475 TTTAAATATAATATAAAATAAA
1 TTTAAATATAATATAAAATTAA
** *
1015497 AAT-AATATAAATATAAATAAATATA
1 TTTAAATAT-AATAT-AA-AATTA-A
1015522 TTTAAAT-TAATATAA
1 TTTAAATATAATATAA
1015537 CATAAATTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 5 0.10
22 26 0.53
23 4 0.08
24 8 0.16
25 3 0.06
26 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAATATAATATAAAATTAA
Found at i:1015489 original size:27 final size:27
Alignment explanation
Indices: 1015459--1015521 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
1015449 AATTTTTAAC
* *
1015459 TATAATATAAAATTAATTTAAATATAA
1 TATAATATAAAAATAATATAAATATAA
*
1015486 TATAAAATAAAAATAATATAAATATAA
1 TATAATATAAAAATAATATAAATATAA
1015513 -ATAAATATA
1 TAT-AATATA
1015522 TTTAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAATATAAAAATAATATAAATATAA
Found at i:1015509 original size:6 final size:6
Alignment explanation
Indices: 1015462--1015515 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
1015452 TTTTAACTAT
* * *
1015462 AATATA AA-ATT AATTTA AATAT- AATATA AA-ATA AAAAT- AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1015506 AATATA AATA
1 AATATA AATA
1015516 AATATATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
5 18 0.46
6 21 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:1015519 original size:16 final size:17
Alignment explanation
Indices: 1015462--1015521 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 17
1015452 TTTTAACTAT
* * *
1015462 AATATAAAATTAATTTA
1 AATATAATATAAATATA
1015479 AATATAATATAAA-ATA
1 AATATAATATAAATATA
*
1015495 AAAATAATATAAATATA
1 AATATAATATAAATATA
1015512 AATA-AATATA
1 AATATAATATA
1015522 TTTAAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.54
17 17 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAATATAAATATA
Found at i:1015869 original size:10 final size:9
Alignment explanation
Indices: 1015844--1015887 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
1015834 TGTCTCGAGG
1015844 TTTATAAA-
1 TTTATAAAT
1015852 TTTATAAAT
1 TTTATAAAT
1015861 TTATATAAAT
1 TT-TATAAAT
1015871 TTTCATAAAT
1 TTT-ATAAAT
1015881 TTATATA
1 TT-TATA
1015888 TTTGTGTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.25
9 3 0.09
10 20 0.62
11 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTATAAAT
Found at i:1015880 original size:20 final size:18
Alignment explanation
Indices: 1015846--1015887 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
1015836 TCTCGAGGTT
1015846 TATAAATTTATAAATTTA
1 TATAAATTTATAAATTTA
1015864 TATAAATTTTCATAAATTTA
1 TATAAA-TTT-ATAAATTTA
1015884 TATA
1 TATA
1015888 TTTGTGTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 3 0.14
20 13 0.59
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAAATTTATAAATTTA
Found at i:1022983 original size:15 final size:17
Alignment explanation
Indices: 1022914--1022985 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 17
1022904 ATAAATATAG
*
1022914 TATAAAAATAATTTAAA
1 TATAAAAATAATATAAA
* * *
1022931 TAGAATAAAAAATAGTATGA
1 TATAA-AAATAATA-TA-AA
1022951 TATAAAAATAATATAAA
1 TATAAAAATAATATAAA
1022968 TAT-AAAATAA-ATAAA
1 TATAAAAATAATATAAA
1022983 TAT
1 TAT
1022986 TTTTTAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
15 8 0.18
16 7 0.16
17 8 0.18
18 8 0.18
19 9 0.20
20 5 0.11
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
TATAAAAATAATATAAA
Found at i:1023002 original size:30 final size:31
Alignment explanation
Indices: 1022967--1023035 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
1022957 AATAATATAA
**
1022967 ATATAAAATAAA-TA-AATATTTTTTAAATTT
1 ATATAAAATAAATTATAATA-TTTAAAAATTT
*
1022997 ATATAACATAAATTATTAATATTTAAAAATTT
1 ATATAAAATAAATTA-TAATATTTAAAAATTT
1023029 ATATAAA
1 ATATAAA
1023036 TATATCACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 11 0.34
31 2 0.06
32 15 0.47
33 4 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATAAAATAAATTATAATATTTAAAAATTT
Found at i:1023079 original size:16 final size:17
Alignment explanation
Indices: 1023048--1023087 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1023038 TATCACATCT
*
1023048 TAAATATAATTATAAAA
1 TAAAAATAATTATAAAA
1023065 TAAAAATAA-TATAAAA
1 TAAAAATAATTATAAAA
*
1023081 TATAAAT
1 TAAAAAT
1023088 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAATAATTATAAAA
Found at i:1023129 original size:102 final size:100
Alignment explanation
Indices: 1022958--1023140 Score: 219
Period size: 102 Copynumber: 1.8 Consensus size: 100
1022948 TGATATAAAA
* * * * *
1022958 ATAATATAAATATAAAATAAATAAATATTTTTTAAATTTATATAACATAAATTATTAATATTTAA
1 ATAAAATAAAAATAAAATAAATAAATATTTATTAAAATTATATAACATAAATTATTAACATTT-A
1023023 AAATTT-ATATAAATATATCACATCTTAAATATAATT
65 AAATTTCA-ATAAATATATCACATCTTAAATATAATT
* * *
1023059 ATAAAATAAAAATAATATAAAATATAA-ATTTATTAAAATTATATAATATAAATTATTGTTACAT
1 ATAAAATAAAAATAAAAT-AAATA-AATATTTATTAAAATTATATAACATAAATTA-T-TAACAT
1023123 TT-AAATTTCAATAAATAT
62 TTAAAATTTCAATAAATAT
1023141 CATTGCAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
101 15 0.22
102 44 0.64
103 4 0.06
104 6 0.09
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (100 bp):
ATAAAATAAAAATAAAATAAATAAATATTTATTAAAATTATATAACATAAATTATTAACATTTAA
AATTTCAATAAATATATCACATCTTAAATATAATT
Found at i:1024215 original size:21 final size:22
Alignment explanation
Indices: 1024190--1024245 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
1024180 TATTTATATA
* * *
1024190 ATAATATTATATTA-ATTTTTT
1 ATAATATAAAATTATATTCTTT
1024211 ATAATATAAAATTATATTCTTT
1 ATAATATAAAATTATATTCTTT
* *
1024233 ATATTATATAATT
1 ATAATATAAAATT
1024246 CCAAATGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATAATATAAAATTATATTCTTT
Found at i:1026050 original size:2 final size:2
Alignment explanation
Indices: 1026043--1026081 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1026033 GGATACTTTT
1026043 TG TG TG 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 TG TG TG T
1026082 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1027066 original size:33 final size:31
Alignment explanation
Indices: 1027027--1027102 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 31
1027017 TAAATTCACA
*
1027027 TAATATTTATAAATTATTTTTTATATTTTATAT
1 TAATATTTATAAATT-TTTTATATATTTTA-AT
* *
1027060 TCATATTATATTAATTTTTTATATATTTTAAT
1 TAATATT-TATAAATTTTTTATATATTTTAAT
*
1027092 TAATTTTTATA
1 TAATATTTATA
1027103 TTATATTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.08
32 7 0.19
33 19 0.53
34 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
TAATATTTATAAATTTTTTATATATTTTAAT
Found at i:1027095 original size:21 final size:23
Alignment explanation
Indices: 1027052--1027128 Score: 85
Period size: 22 Copynumber: 3.5 Consensus size: 23
1027042 ATTTTTTATA
1027052 TTTTATAT-TCATATTATATTAATT
1 TTTTATATAT-AT-TTATATTAATT
1027076 TTTTATATAT-TTTA-ATTAA-T
1 TTTTATATATATTTATATTAATT
1027096 TTTTATATTATATTTATATT-A-T
1 TTTTATA-TATATTTATATTAATT
1027118 TTTTATATATA
1 TTTTATATATA
1027129 ATTGATGTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
20 8 0.16
21 12 0.24
22 16 0.33
23 4 0.08
24 8 0.16
25 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATATATATTTATATTAATT
Found at i:1027103 original size:33 final size:33
Alignment explanation
Indices: 1027043--1027130 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 33
1027033 TTATAAATTA
*
1027043 TTTTTTATATTTTATATTCATATTATATTA-AT
1 TTTTTTATATTTTATATTAATATTATATTATAT
*
1027075 TTTTTATATATTTTA-ATTAATTTTTATATTATAT
1 TTTTT-TATATTTTATATTAA-TATTATATTATAT
*
1027109 TTATATTAT-TTTTATATATAAT
1 TT-TTTTATATTTTATAT-TAAT
1027131 TGATGTGGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
32 9 0.19
33 23 0.49
34 10 0.21
35 5 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (33 bp):
TTTTTTATATTTTATATTAATATTATATTATAT
Found at i:1027211 original size:4 final size:5
Alignment explanation
Indices: 1027196--1027234 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
1027186 TCGAGGAGAG
*
1027196 AGAAA TGAAA AG-AA AGAAA A-AAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
1027235 AGGAACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
AGAAA
Found at i:1027220 original size:9 final size:9
Alignment explanation
Indices: 1027202--1027235 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1027192 AGAGAGAAAT
*
1027202 GAAAAGAAA
1 GAAAAAAAA
1027211 GAAAAAAAA
1 GAAAAAAAA
1027220 GAAAAGAAAA
1 GAAAA-AAAA
1027230 GAAAAA
1 GAAAAA
1027236 GGAACTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:1027372 original size:43 final size:40
Alignment explanation
Indices: 1027310--1027392 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 40
1027300 ATATTTACTA
* *
1027310 ATTATTTTTTATATTTTTATATTTATG-TCATATTTATTTTT
1 ATTATTTTTTATAATTTTATA-TCATGTTCATA-TTATTTTT
1027351 ATTATTTTTTAATTAATTTTATATCATGTTCATATTATTTTT
1 ATTATTTTTT-A-TAATTTTATATCATGTTCATATTATTTTT
1027393 CATATAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 10 0.27
42 13 0.35
43 14 0.38
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (40 bp):
ATTATTTTTTATAATTTTATATCATGTTCATATTATTTTT
Found at i:1028305 original size:16 final size:16
Alignment explanation
Indices: 1028275--1028317 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
1028265 TTTAATACTT
*
1028275 TTTAATT-TAAATTTA
1 TTTAATTATTAATTTA
1028290 TTTAATTATTAATTTA
1 TTTAATTATTAATTTA
* *
1028306 ATTAAATATTAA
1 TTTAATTATTAA
1028318 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTATTAATTTA
Found at i:1028505 original size:2 final size:2
Alignment explanation
Indices: 1028488--1028540 Score: 74
Period size: 2 Copynumber: 27.0 Consensus size: 2
1028478 TGGCTTGTAA
*
1028488 AT AT CAT AT AT GT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1028530 AT AT AT A- AT AT
1 AT AT AT AT AT AT
1028541 TTTAAGTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 2 0.04
2 42 0.91
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1032285 original size:13 final size:13
Alignment explanation
Indices: 1032267--1032291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032257 CATAAAGTGT
1032267 TGTATCGATACAA
1 TGTATCGATACAA
1032280 TGTATCGATACA
1 TGTATCGATACA
1032292 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:1032289 original size:33 final size:33
Alignment explanation
Indices: 1032247--1032313 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1032237 TTCAATGATT
1032247 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1032280 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1032313 T
1 T
1032314 TTAAACTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1032357 original size:21 final size:21
Alignment explanation
Indices: 1032331--1032389 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
1032321 ACTACCAAAA
1032331 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
1032352 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
1032373 AAATGTATCGATACATT
1 AAATGTATCGATACATT
1032390 GTATCGATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:1032394 original size:13 final size:13
Alignment explanation
Indices: 1032376--1032400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032366 ATTACTCAAA
1032376 TGTATCGATACAT
1 TGTATCGATACAT
1032389 TGTATCGATACA
1 TGTATCGATACA
1032401 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:1032465 original size:52 final size:52
Alignment explanation
Indices: 1032409--1032537 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1032399 CACTGATCTT
* *
1032409 TGTATCGATACATGCAGGAAAATTTGCTCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1032461 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1032513 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGAAAATTT
1032538 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1038437 original size:97 final size:96
Alignment explanation
Indices: 1038272--1038609 Score: 371
Period size: 97 Copynumber: 3.5 Consensus size: 96
1038262 CATCCTTACC
* * * *
1038272 AACCTCATTTTTGCTTGAA-TTTTATTATCGGAAGTACTCCAACCCCATTCTTTCAAGGGGATAT
1 AACCTCATTTTTGCTTAAATTTTTATCATCGG-GGTACTCCAACCCCATTCTTTCAAGGGGATAC
* *
1038336 TCTAATCCCGTTTTTAAACTCATCTAGATTTA
65 TCTAATCCCATTTTTAAACTCATCAAGATTTA
* *
1038368 AACCTCATTTTTGCTCAAATTTTTATCATCGAGGGTACTCCAACCCCATTCTTTTAAGGGGATAC
1 AACCTCATTTTTGCTTAAATTTTTATCATCG-GGGTACTCCAACCCCATTCTTTCAAGGGGATAC
*** *
1038433 TCTAATTTTATTTTTAAACTCATCAATATTTA
65 TCTAATCCCATTTTTAAACTCATCAAGATTTA
** *
1038465 AACCTCATTTTTGCTTAAATTTTTATCATCGGGGGTACTTTAACCCCATTCTTTCGAGGGGATAC
1 AACCTCATTTTTGCTTAAATTTTTATCATC-GGGGTACTCCAACCCCATTCTTTCAAGGGGATAC
*
1038530 T-TCAA-CCCTATTTTTAAACTCATCAATATTTA
65 TCT-AATCCC-ATTTTTAAACTCATCAAGATTTA
** * ** * * *
1038562 TTCCT--TATTTGCTTAAATCATCATTATCAGGGATACTCCAACCCCATT
1 AACCTCATTTTTGCTTAAATTTTTATCATC-GGGGTACTCCAACCCCATT
1038610 TCTCTGAAAG
Statistics
Matches: 206, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
95 34 0.17
96 18 0.09
97 152 0.74
98 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (96 bp):
AACCTCATTTTTGCTTAAATTTTTATCATCGGGGTACTCCAACCCCATTCTTTCAAGGGGATACT
CTAATCCCATTTTTAAACTCATCAAGATTTA
Found at i:1042499 original size:38 final size:38
Alignment explanation
Indices: 1042412--1042515 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 38
1042402 AGTTAGAAAT
*
1042412 GAAAATCACTATTCTAAACCAGTGGCACGATTCAAAAC
1 GAAAACCACTATTCTAAACCAGTGGCACGATTCAAAAC
* * * * * *
1042450 GAAAACAACTATTCTAAACCGGTGGCAGGGTTTAATAC
1 GAAAACCACTATTCTAAACCAGTGGCACGATTCAAAAC
* *
1042488 -AAACACCACTATTCTTATCCAGTGGCAC
1 GAAA-ACCACTATTCTAAACCAGTGGCAC
1042516 AACAAAAACC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
37 3 0.06
38 50 0.94
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (38 bp):
GAAAACCACTATTCTAAACCAGTGGCACGATTCAAAAC
Found at i:1042563 original size:62 final size:62
Alignment explanation
Indices: 1042487--1042610 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
1042477 GGGTTTAATA
*
1042487 CAAACACCACTATTCTTATCCAGTGGCACAACAAAAACCACTAGTCTT-ATCTGGTGGCATGG
1 CAAAAACCACTATTCTTATCCAGTGGCACAACAAAAACCACTAGTCTTAATC-GGTGGCATGG
* ** * * *
1042549 CAAAAACCACTATTCTTATCCGGTGGCATGACAAAAATCGCTATTCTTAATCGGTGGCATGG
1 CAAAAACCACTATTCTTATCCAGTGGCACAACAAAAACCACTAGTCTTAATCGGTGGCATGG
1042611 TTTGAAACTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 51 0.94
63 3 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (62 bp):
CAAAAACCACTATTCTTATCCAGTGGCACAACAAAAACCACTAGTCTTAATCGGTGGCATGG
Found at i:1042608 original size:31 final size:30
Alignment explanation
Indices: 1042486--1042609 Score: 140
Period size: 31 Copynumber: 4.0 Consensus size: 30
1042476 AGGGTTTAAT
* * **
1042486 ACAAACACCACTATTCTTATCCAGTGGCACA
1 ACAAAAACCACTATTCTTAT-CGGTGGCATG
*
1042517 ACAAAAACCACTAGTCTTATCTGGTGGCATG
1 ACAAAAACCACTATTCTTATC-GGTGGCATG
*
1042548 GCAAAAACCACTATTCTTATCCGGTGGCATG
1 ACAAAAACCACTATTCTTAT-CGGTGGCATG
* *
1042579 ACAAAAATCGCTATTCTTAATCGGTGGCATG
1 ACAAAAACCACTATTCTT-ATCGGTGGCATG
1042610 GTTTGAAACT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
30 1 0.01
31 76 0.95
32 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (30 bp):
ACAAAAACCACTATTCTTATCGGTGGCATG
Found at i:1044391 original size:3 final size:3
Alignment explanation
Indices: 1044379--1044417 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1044369 ATAGATATAC
1044379 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1044418 TTTGTGAGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1046448 original size:20 final size:20
Alignment explanation
Indices: 1046423--1046488 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1046413 TTACAACCCA
1046423 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
1046443 ATGTATCGATACA-------
1 ATGTATCGATACATTTTGGG
1046456 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
1046476 ATGTATCGATACA
1 ATGTATCGATACA
1046489 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTTGGG
Found at i:1046461 original size:13 final size:13
Alignment explanation
Indices: 1046443--1046501 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
1046433 ACATTTTGGG
1046443 ATGTATCGATACA
1 ATGTATCGATACA
1046456 ATGTATCGATACA
1 ATGTATCGATACA
1046469 TTTTGGGATGTATCGATACA
1 -------ATGTATCGATACA
1046489 ATGTATCGATACA
1 ATGTATCGATACA
1046502 TATTGGGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 26 0.67
20 13 0.33
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1046463 original size:33 final size:33
Alignment explanation
Indices: 1046421--1046521 Score: 186
Period size: 33 Copynumber: 3.1 Consensus size: 33
1046411 CGTTACAACC
1046421 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATTTTGGGATGTATCGATA
1046454 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATTTTGGGATGTATCGATA
*
1046487 CAATGTATCGATACATATTGGG-TGTATCGATA
1 CAATGTATCGATACATTTTGGGATGTATCGATA
1046519 CAA
1 CAA
1046522 ACAGTTAAGG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 13 0.19
33 54 0.81
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATTTTGGGATGTATCGATA
Found at i:1046609 original size:20 final size:21
Alignment explanation
Indices: 1046562--1046614 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
1046552 GCCAATGTCC
*
1046562 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
1046583 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
*
1046603 TGTATCGGTACA
1 TGTATCGATACA
1046615 ATGTATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:1048916 original size:20 final size:21
Alignment explanation
Indices: 1048886--1048927 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1048876 CTGTTTTTGT
1048886 TGATGATTTTG-A-TGAAAAA
1 TGATGATTTTGAAGTGAAAAA
1048905 TGATGTATTTTGAAGTGAAAAA
1 TGATG-ATTTTGAAGTGAAAAA
1048927 T
1 T
1048928 AAGAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 1 0.05
22 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (21 bp):
TGATGATTTTGAAGTGAAAAA
Found at i:1049076 original size:13 final size:13
Alignment explanation
Indices: 1049058--1049093 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1049048 ATAAACCCTT
* *
1049058 TGTATCGATACAC
1 TGTATCGATAAAA
1049071 TGTATCGATAAAA
1 TGTATCGATAAAA
1049084 TGTATCGATA
1 TGTATCGATA
1049094 TAGAGAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATAAAA
Found at i:1055281 original size:13 final size:13
Alignment explanation
Indices: 1055263--1055288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1055253 ACATTTTGGG
1055263 ATGTATCGATACA
1 ATGTATCGATACA
1055276 ATGTATCGATACA
1 ATGTATCGATACA
1055289 TATTGGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1055305 original size:32 final size:33
Alignment explanation
Indices: 1055241--1055308 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
1055231 CGTTACAACC
*
1055241 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCGATA
1055274 CAATGTATCGATACATATTGGG-TGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCGATA
1055306 CAA
1 CAA
1055309 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATATTGGGATGTATCGATA
Found at i:1055396 original size:20 final size:21
Alignment explanation
Indices: 1055349--1055401 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1055339 GCCAATGTCC
*
1055349 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
1055370 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
1055390 TGTATCGATACA
1 TGTATCGATACA
1055402 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:1055407 original size:13 final size:13
Alignment explanation
Indices: 1055389--1055413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1055379 ACATTTGGTC
1055389 ATGTATCGATACA
1 ATGTATCGATACA
1055402 ATGTATCGATAC
1 ATGTATCGATAC
1055414 TGTGCAATTT
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):
ATGTATCGATACA
Found at i:1060032 original size:38 final size:38
Alignment explanation
Indices: 1059948--1060116 Score: 180
Period size: 38 Copynumber: 4.5 Consensus size: 38
1059938 ACAAGTTTTG
* * * * * *
1059948 AACAAAAACCATTATTTTAAATCGGTGGCACGGTTAGA
1 AACAAAAATCACTATTCTAAACCGGTGGCATGGTTCGA
*
1059986 AACGAAAATCACTATTCTAAACCGGTGGCATGGTTCGA
1 AACAAAAATCACTATTCTAAACCGGTGGCATGGTTCGA
* * *
1060024 AATAAAAATCACTA-TCTAAACTGGTGACATGGTTCGA
1 AACAAAAATCACTATTCTAAACCGGTGGCATGGTTCGA
* * * *
1060061 AACGAAAATCACTATTCTAAATCAGTGGCATGGTT-TA
1 AACAAAAATCACTATTCTAAACCGGTGGCATGGTTCGA
*
1060098 ATACAAAAACCACTATTCT
1 A-ACAAAAATCACTATTCT
1060117 TATTCGGTGG
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
37 35 0.32
38 74 0.68
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (38 bp):
AACAAAAATCACTATTCTAAACCGGTGGCATGGTTCGA
Found at i:1060143 original size:31 final size:30
Alignment explanation
Indices: 1060101--1060193 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 30
1060091 TGGTTTAATA
* *
1060101 CAAAAACCACTATTCTTATTCGGTGGCACCG
1 CAAAAA-CACTATTCTTATCCGGTGGCACAG
* *
1060132 TAAAAATCACTATACTTATCCGGTGGCACAG
1 CAAAAA-CACTATTCTTATCCGGTGGCACAG
* *
1060163 CAAAAACTACTATTCTTAACCGGTGACACAG
1 CAAAAAC-ACTATTCTTATCCGGTGGCACAG
1060194 TTTAAAACCG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 1 0.02
31 51 0.98
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (30 bp):
CAAAAACACTATTCTTATCCGGTGGCACAG
Found at i:1062013 original size:3 final size:3
Alignment explanation
Indices: 1062005--1062036 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1061995 TAGATATACT
1062005 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1062037 TGTGCGGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1071090 original size:52 final size:52
Alignment explanation
Indices: 1071005--1071129 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1070995 ATATGAAAAG
* * *
1071005 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCACAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1071057 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1071109 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1071130 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1071142 original size:52 final size:51
Alignment explanation
Indices: 1071005--1071149 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
1070995 ATATGAAAAG
* *
1071005 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCACAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
1071057 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1071109 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1071150 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1071156 original size:13 final size:13
Alignment explanation
Indices: 1071138--1071162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1071128 CAAAGATCAG
1071138 TGTATCGATACAA
1 TGTATCGATACAA
1071151 TGTATCGATACA
1 TGTATCGATACA
1071163 TGTGAGTAAT
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:1071245 original size:13 final size:13
Alignment explanation
Indices: 1071227--1071251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1071217 CAAAAAAATA
1071227 TGTATCGATACAT
1 TGTATCGATACAT
1071240 TGTATCGATACA
1 TGTATCGATACA
1071252 ACTTTTTATG
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:1072262 original size:28 final size:28
Alignment explanation
Indices: 1072205--1072332 Score: 107
Period size: 28 Copynumber: 4.5 Consensus size: 28
1072195 TTTTCTTTTC
1072205 TAAAGTCCACAACTTCGTGGCACCTCCTT
1 TAAA-TCCACAACTTCGTGGCACCTCCTT
* * * * * *
1072234 TAACTCGACAGCTTTGTGGCACTTTCTT
1 TAAATCCACAACTTCGTGGCACCTCCTT
*
1072262 TAAATCCACAACTTCGTGGCACC-CTTT
1 TAAATCCACAACTTCGTGGCACCTCCTT
* * *
1072289 TAAAGTCTACAACTCCATGGCACC-CCTCT
1 TAAA-TCCACAACTTCGTGGCACCTCCT-T
1072318 TCAAAGTCCACAACT
1 T-AAA-TCCACAACT
1072333 CTGTGGTATC
Statistics
Matches: 78, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
27 6 0.08
28 55 0.71
29 5 0.06
30 12 0.15
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (28 bp):
TAAATCCACAACTTCGTGGCACCTCCTT
Found at i:1072310 original size:56 final size:57
Alignment explanation
Indices: 1072205--1072332 Score: 134
Period size: 56 Copynumber: 2.2 Consensus size: 57
1072195 TTTTCTTTTC
* ***
1072205 TAAAGTCCACAACTTCGTGGCACCTCCTTTAACTCGACAGCTTTGTGGCACTTTCTT
1 TAAAGTCCACAACTTCGTGGCACCTCCTTTAACTCGACAACTCCATGGCACTTTCTT
* * * **
1072262 TAAA-TCCACAACTTCGTGGCACC-CTTTTAAAGTCTACAACTCCATGGCACCCCTCTT
1 TAAAGTCCACAACTTCGTGGCACCTCCTTT-AACTCGACAACTCCATGGCA-CTTTCTT
*
1072319 CAAAGTCCACAACT
1 TAAAGTCCACAACT
1072333 CTGTGGTATC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
55 4 0.07
56 33 0.57
57 12 0.21
58 9 0.16
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (57 bp):
TAAAGTCCACAACTTCGTGGCACCTCCTTTAACTCGACAACTCCATGGCACTTTCTT
Found at i:1072373 original size:33 final size:33
Alignment explanation
Indices: 1072335--1072558 Score: 181
Period size: 33 Copynumber: 6.9 Consensus size: 33
1072325 CCACAACTCT
* * *
1072335 GTGGTATCTTTTTTCAAAAGCCCATACAAGTTG
1 GTGGTAACCTTTTTCAAAAGCCCACACAAGTTG
*
1072368 GTGGTAACCTTTTTCAAAAGCCCACACAAGTCG
1 GTGGTAACCTTTTTCAAAAGCCCACACAAGTTG
* *** *
1072401 TTCACAACCCTTTTCAAAAGCCCACACAAGTTG
1 GTGGTAACCTTTTTCAAAAGCCCACACAAGTTG
* * * *
1072434 ATGGCAACCCTTTTT--AAAGCCCATATAAGTTG
1 GTGGTAA-CCTTTTTCAAAAGCCCACACAAGTTG
* * * *
1072466 GTGGTATCTTTTTTTC-GAAGCCCACACAAGTCG
1 GTGGTAAC-CTTTTTCAAAAGCCCACACAAGTTG
**
1072499 GTGGTAACCTCTTTT-AAAA-CCCGTACAAGTTG
1 GTGGTAACCT-TTTTCAAAAGCCCACACAAGTTG
** *
1072531 GTGACAACCCTTTT-AAAAGCCCACACAA
1 GTGGTAACCTTTTTCAAAAGCCCACACAA
1072559 ATTAGTGGCA
Statistics
Matches: 150, Mismatches: 35, Indels: 13
0.76 0.18 0.07
Matches are distributed among these distances:
31 9 0.06
32 49 0.33
33 86 0.57
34 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (33 bp):
GTGGTAACCTTTTTCAAAAGCCCACACAAGTTG
Found at i:1072466 original size:98 final size:97
Alignment explanation
Indices: 1072345--1072558 Score: 252
Period size: 98 Copynumber: 2.2 Consensus size: 97
1072335 GTGGTATCTT
*
1072345 TTTTCAAAAGCCCATACAAGTTGGTGGTAAC-CTTTTTCAAAAGCCCACACAAGTCGTTCACAAC
1 TTTT-AAAAGCCCATACAAGTTGGTGGTAACTCTTTTTC-AAAGCCCACACAAGTCGGTCACAAC
*
1072409 C-CTTTTCAAAAGCCCACACAAGTTGATGGCAACCC
64 CTCTTTT-AAAA-CCCACACAAGTTGATGACAACCC
* * * * * ***
1072444 TTTTTAAAGCCCATATAAGTTGGTGGTATCTTTTTTTCGAAGCCCACACAAGTCGGTGGTAACCT
1 TTTTAAAAGCCCATACAAGTTGGTGGTAACTCTTTTTCAAAGCCCACACAAGTCGGTCACAACCT
** *
1072509 CTTTTAAAACCCGTACAAGTTGGTGACAACCC
66 CTTTTAAAACCCACACAAGTTGATGACAACCC
*
1072541 TTTTAAAAGCCCACACAA
1 TTTTAAAAGCCCATACAA
1072559 ATTAGTGGCA
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
97 34 0.35
98 48 0.49
99 15 0.15
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTTAAAAGCCCATACAAGTTGGTGGTAACTCTTTTTCAAAGCCCACACAAGTCGGTCACAACCT
CTTTTAAAACCCACACAAGTTGATGACAACCC
Found at i:1072667 original size:59 final size:59
Alignment explanation
Indices: 1072567--1072688 Score: 181
Period size: 59 Copynumber: 2.1 Consensus size: 59
1072557 AAATTAGTGG
* * * * *
1072567 CATCTCCATCTAAGTCCAATGTCATTGGTCTTGAATTAACACATTGGCACTTGTCAAAC
1 CATCTCCATCTAAGCCCAATGTCATTGGCCTTAAATCAACACATAGGCACTTGTCAAAC
* *
1072626 CATCTCCTTCTAAGCCCAATGTCGTTGGCCTTAAATCAACACATAGGCACTTGTCAAAC
1 CATCTCCATCTAAGCCCAATGTCATTGGCCTTAAATCAACACATAGGCACTTGTCAAAC
1072685 CATC
1 CATC
1072689 AGCTTGTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (59 bp):
CATCTCCATCTAAGCCCAATGTCATTGGCCTTAAATCAACACATAGGCACTTGTCAAAC
Found at i:1076179 original size:94 final size:94
Alignment explanation
Indices: 1075944--1076179 Score: 280
Period size: 94 Copynumber: 2.5 Consensus size: 94
1075934 TTTACTGGGG
* *
1075944 ATACTCTAACCTTATTCTTCCAAGAGGATACTTTAACCTTCTTTTTAAACTTGTCAAGATTAAAT
1 ATACTCTAACCTTATTCTTCCAAGAGGATACTCTAACC-CCTTTTTAAACTTGTCAAGATT-AAT
* * *
1076009 CTTATTTTTGCTTATATTATCATCGTCGGGA
64 CTTATTTTTGCTCAAATTATCATCGTCGAGA
* * * *
1076040 ATACTCCAACCCTATTCTTCCAAGAGGATACTCCAACCCCATTTTTAAACTT-TCTAAGATT-TT
1 ATACTCTAACCTTATTCTTCCAAGAGGATACTCTAACCCC-TTTTTAAACTTGTC-AAGATTAAT
*
1076103 CTTATTTTTGCTCAAATTGTCATCGTCGAGA
64 CTTATTTTTGCTCAAATTATCATCGTCGAGA
* * *
1076134 ATACTCTAGCCTTATTCCTT-CAAGGGGATACTCTAGCCCCGTTTTT
1 ATACTCTAACCTTATT-CTTCCAAGAGGATACTCTAACCCC-TTTTT
1076180 CAACCAAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
94 63 0.52
95 6 0.05
96 51 0.43
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (94 bp):
ATACTCTAACCTTATTCTTCCAAGAGGATACTCTAACCCCTTTTTAAACTTGTCAAGATTAATCT
TATTTTTGCTCAAATTATCATCGTCGAGA
Found at i:1079744 original size:49 final size:49
Alignment explanation
Indices: 1079662--1079773 Score: 147
Period size: 49 Copynumber: 2.2 Consensus size: 49
1079652 CTATATGTGC
* *
1079662 AATGTATCGATACATTGAAGAAAGTATCAATACATTTGGTTTAAAAACCCAG
1 AATGTATCGAT--ATTGAAGAAAGTATCAATACATTTGGGTT-AAAACACAG
*
1079714 AATGTATCGATATT-AAGAATA-TATCGATACATTTGGGTTAAAACACAG
1 AATGTATCGATATTGAAGAA-AGTATCAATACATTTGGGTTAAAACACAG
1079762 AATGTATCGATA
1 AATGTATCGATA
1079774 CAACAAAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
48 20 0.36
49 21 0.38
50 4 0.07
52 11 0.20
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (49 bp):
AATGTATCGATATTGAAGAAAGTATCAATACATTTGGGTTAAAACACAG
Found at i:1080623 original size:52 final size:49
Alignment explanation
Indices: 1080533--1080647 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 49
1080523 AAGGCCTACG
* * * ***
1080533 ACATCAGACTTAATGATAAGAGTGCCAATATGCTGATTCATGGCTAGTA
1 ACATTAGACTTAAAGATAAGAGTACCAATATGCTGATTCAAAACTAGTA
*
1080582 ACATTAGACTTAAAGATAAGAAGAATACCAATATGCTGATTCAAAACTAGTG
1 ACATTAGACTTAAAGATAAG-AG--TACCAATATGCTGATTCAAAACTAGTA
*
1080634 ACATTGGACTTAAA
1 ACATTAGACTTAAA
1080648 AAAATGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 18 0.33
50 2 0.04
52 35 0.64
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (49 bp):
ACATTAGACTTAAAGATAAGAGTACCAATATGCTGATTCAAAACTAGTA
Found at i:1080704 original size:106 final size:105
Alignment explanation
Indices: 1080544--1080860 Score: 280
Period size: 106 Copynumber: 3.0 Consensus size: 105
1080534 CATCAGACTT
* * * * * * ** * *
1080544 AATGATAAGAGTGCCAATATGCTGATTCATGGCTAGTAACATTAGACTTAAAGATAAGAAGAATA
1 AATGATAAGGGTGCTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAAAAGAAT-
*
1080609 CCAATATGCTGATTCAAAACTAGTGACATTGGACTTAAAAA
65 CCAATATGCTGATTCAAAACTAATGACATTGGACTTAAAAA
* * * *
1080650 AATGATATA-GGTGTTAATGTGCTAATTTAAGGCCAGCGACATTGGACTTAAAGATGATAAGAAT
1 AATGATA-AGGGTGCTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAAAAGAAT
* * * * *
1080714 GCTAATATGCTAATTCAAGA-TCAACGATATTGGACTTAAAAAA
65 -CCAATATGCTGATTCAAAACT-AATGACATTGGACTT-AAAAA
* * * * * * *
1080757 AATTATAAGGGTGCTAATGTGCTGATTCAAGGCCAGTGATATTGGGCTTAAAGAGGACAAAAGCA
1 AATGATAAGGGTGCTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGA-TA-AAAAGAA
* * *
1080822 T-CAATATGTTGATTCAAAGCCAATGACATTGGACTTAAA
64 TCCAATATGCTGATTCAAAACTAATGACATTGGACTTAAA
1080861 GATGAGAAGA
Statistics
Matches: 165, Mismatches: 39, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
105 1 0.01
106 81 0.49
107 77 0.47
109 6 0.04
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (105 bp):
AATGATAAGGGTGCTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAAAAGAATC
CAATATGCTGATTCAAAACTAATGACATTGGACTTAAAAA
Found at i:1080785 original size:55 final size:54
Alignment explanation
Indices: 1080633--1080787 Score: 163
Period size: 52 Copynumber: 2.9 Consensus size: 54
1080623 CAAAACTAGT
* * * *
1080633 GACATTGGACTTAAAAAAATGATATA-GGTGTTAATGTGCTAATTTAAGGCCAGC
1 GACATTGGACTTAAAAAAATGATA-AGGGTGCTAATGTGCTAATTCAAGACCAAC
* ** * *
1080687 GACATTGGACTT--AAAGATGATAAGAATGCTAATATGCTAATTCAAGATCAAC
1 GACATTGGACTTAAAAAAATGATAAGGGTGCTAATGTGCTAATTCAAGACCAAC
* * *
1080739 GATATTGGACTTAAAAAAAATTATAAGGGTGCTAATGTGCTGATTCAAG
1 GACATTGGACTT-AAAAAAATGATAAGGGTGCTAATGTGCTAATTCAAG
1080788 GCCAGTGATA
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
51 1 0.01
52 40 0.49
54 12 0.15
55 28 0.35
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (54 bp):
GACATTGGACTTAAAAAAATGATAAGGGTGCTAATGTGCTAATTCAAGACCAAC
Found at i:1080798 original size:55 final size:54
Alignment explanation
Indices: 1080615--1080808 Score: 169
Period size: 55 Copynumber: 3.6 Consensus size: 54
1080605 AATACCAATA
* * * * *
1080615 TGCTGATTCAAAACTAGTGACATTGGACTTAAAAAAATGATATA-GGTGTTAATG
1 TGCTAATTCAAGACCAGCGACATTGGACTTAAAAAAATGATA-AGGGTGCTAATG
* * * ** *
1080669 TGCTAATTTAAGGCCAGCGACATTGGACTT--AAAGATGATAAGAATGCTAATA
1 TGCTAATTCAAGACCAGCGACATTGGACTTAAAAAAATGATAAGGGTGCTAATG
* * * *
1080721 TGCTAATTCAAGATCAACGATATTGGACTTAAAAAAAATTATAAGGGTGCTAATG
1 TGCTAATTCAAGACCAGCGACATTGGACTT-AAAAAAATGATAAGGGTGCTAATG
* * * * *
1080776 TGCTGATTCAAGGCCAGTGATATTGGGCTTAAA
1 TGCTAATTCAAGACCAGCGACATTGGACTTAAA
1080809 GAGGACAAAA
Statistics
Matches: 109, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
51 1 0.01
52 40 0.37
54 27 0.25
55 41 0.38
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (54 bp):
TGCTAATTCAAGACCAGCGACATTGGACTTAAAAAAATGATAAGGGTGCTAATG
Found at i:1080828 original size:107 final size:107
Alignment explanation
Indices: 1080582--1080860 Score: 262
Period size: 107 Copynumber: 2.6 Consensus size: 107
1080572 ATGGCTAGTA
* ** * * * * * * **
1080582 ACATTAGACTTAAAGATAAGAAGAATACCAATATGCTGATTCAAAACTAGTGACATTGGACTT-A
1 ACATTGGACTTAAAGAGGACAAGAATGCTAATATGCTAATTCAAAGCCAACGACATTGGACTTAA
* *
1080646 AAAAAATGATATAGGTGTTAATGTGCTAATTTAAGGCCAGCG
66 AAAAAATGATATAGGTGCTAATGTGCTAATTCAAGGCCAGCG
* * * *
1080688 ACATTGGACTTAAAGATGATAAGAATGCTAATATGCTAATTC-AAGATCAACGATATTGGACTTA
1 ACATTGGACTTAAAGAGGACAAGAATGCTAATATGCTAATTCAAAG-CCAACGACATTGGACTTA
* * *
1080752 AAAAAAATTATA-AGGGTGCTAATGTGCTGATTCAAGGCCAGTG
65 AAAAAAATGATATA-GGTGCTAATGTGCTAATTCAAGGCCAGCG
* * * * *
1080795 ATATTGGGCTTAAAGAGGACAA-AA-GCATCAATATGTTGATTCAAAGCCAATGACATTGGACTT
1 ACATTGGACTTAAAGAGGACAAGAATGC-T-AATATGCTAATTCAAAGCCAACGACATTGGACTT
1080858 AAA
64 AAA
1080861 GATGAGAAGA
Statistics
Matches: 141, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
105 4 0.03
106 52 0.37
107 82 0.58
108 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.27
Consensus pattern (107 bp):
ACATTGGACTTAAAGAGGACAAGAATGCTAATATGCTAATTCAAAGCCAACGACATTGGACTTAA
AAAAAATGATATAGGTGCTAATGTGCTAATTCAAGGCCAGCG
Found at i:1081054 original size:28 final size:27
Alignment explanation
Indices: 1081012--1081444 Score: 334
Period size: 28 Copynumber: 15.3 Consensus size: 27
1081002 GAGAGGGTTA
* *
1081012 CCACTGACTTTTGTGGGCTTTTGAGAGGTG
1 CCACTGAC--TTGTGGGC-TTTAAAAGGTG
* *
1081042 CCACTAACTTGTGGGCTTTGAAAATGTG
1 CCACTGACTTGTGGGCTTT-AAAAGGTG
*
1081070 CCATTGACTTGTGGGCTTTAAAAGAGGATG
1 CCACTGACTTGTGGGCTTT-AAA-AGG-TG
* * * *
1081100 CCACTAACTTGTAGGCCTTGAAAAGTTG
1 CCACTGACTTGT-GGGCTTTAAAAGGTG
*
1081128 CCACTGACTTGTGGGCTTTGAAAATGTG
1 CCACTGACTTGTGGGCTTT-AAAAGGTG
* *
1081156 TCATTGACTTGTGGGCTTTAAAAGAGGATG
1 CCACTGACTTGTGGGCTTT-AAA-AGG-TG
* * *
1081186 CCACTAACTTGTAGGCCTTTAAAAGTTG
1 CCACTGACTTGT-GGGCTTTAAAAGGTG
1081214 CCACTGACTTGT-GGCTTTAAAAGGAATG
1 CCACTGACTTGTGGGCTTTAAAAGG--TG
* **
1081242 CCACTAACTTGTGGGCTTTGAAAAAATG
1 CCACTGACTTGTGGGCTTT-AAAAGGTG
* *
1081270 CCATTGACTTATGGG-TTTAAAAATGGTG
1 CCACTGACTTGTGGGCTTT-AAAA-GGTG
1081298 CCACTGACTTGTGGGCTTTAAAAGGGGATG
1 CCACTGACTTGTGGGCTTTAAAA--GG-TG
*
1081328 CCACTGACTTGTGGGCTTTAAAATAGTG
1 CCACTGACTTGTGGGCTTTAAAA-GGTG
* * ** * *
1081356 CCATTAACTTGTGGGCTTTAGGAGATA
1 CCACTGACTTGTGGGCTTTAAAAGGTG
* *
1081383 CCACGGAGTTGTGGGCTTTAAAAAAGGATG
1 CCACTGACTTGTGGGCTTT--AAAAGG-TG
* *
1081413 CTACTGACTTGTGGGC--AAAAAGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGTG
1081438 CCACTGA
1 CCACTGA
1081445 ATTTGATCTC
Statistics
Matches: 320, Mismatches: 64, Indels: 43
0.75 0.15 0.10
Matches are distributed among these distances:
25 8 0.03
26 16 0.05
27 31 0.10
28 152 0.47
29 23 0.07
30 79 0.25
31 11 0.03
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (27 bp):
CCACTGACTTGTGGGCTTTAAAAGGTG
Found at i:1081142 original size:86 final size:85
Alignment explanation
Indices: 1081040--1081428 Score: 389
Period size: 86 Copynumber: 4.5 Consensus size: 85
1081030 TTTTGAGAGG
* * *
1081040 TGCCACTAACTTGTGGGCTTTGAAAATG-TGCCATTGACTTGTGGGCTTTAAAAGAGGATGCCAC
1 TGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTAAAAGA-GATGCCAC
*
1081104 TAACTTGTAGGCCTTGAAAAGT
64 TAACTTGTAGGCCTTAAAAAGT
* * *
1081126 TGCCACTGACTTGTGGGCTTTGAAAATG-TGTCATTGACTTGTGGGCTTTAAAAGAGGATGCCAC
1 TGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTAAAAGA-GATGCCAC
*
1081190 TAACTTGTAGGCCTTTAAAAGT
64 TAACTTGTAGGCCTTAAAAAGT
* *
1081212 TGCCACTGACTTGT-GGCTTTAAAAGGAATGCCACTAACTTGTGGGCTTTGAAAA-A-ATGCCAT
1 TGCCACTGACTTGTGGGCTTTAAAAGG-ATGCCACTGACTTGTGGGCTTT-AAAAGAGATGCCAC
* * ** *
1081274 TGACTTAT-GGGTTTAAAAATGG
64 TAACTTGTAGGCCTTAAAAA-GT
* *
1081296 TGCCACTGACTTGTGGGCTTTAAAAGGGGATGCCACTGACTTGTGGGCTTTAAAATAG-TGCCAT
1 TGCCACTGACTTGTGGGCTTTAAAA--GGATGCCACTGACTTGTGGGCTTTAAAAGAGATGCCAC
* * ** *
1081360 TAACTTGT-GGGCTTTAGGAGA
64 TAACTTGTAGGCCTTAAAAAGT
* * * *
1081381 TACCACGGAGTTGTGGGCTTTAAAAAAGGATGCTACTGACTTGTGGGC
1 TGCCACTGACTTGTGGGCTTT--AAAAGGATGCCACTGACTTGTGGGC
1081429 AAAAAGGTGC
Statistics
Matches: 266, Mismatches: 26, Indels: 23
0.84 0.08 0.07
Matches are distributed among these distances:
83 8 0.03
84 32 0.12
85 59 0.22
86 157 0.59
87 10 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (85 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTAAAAGAGATGCCACTA
ACTTGTAGGCCTTAAAAAGT
Found at i:1081481 original size:26 final size:26
Alignment explanation
Indices: 1081445--1081496 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1081435 GTGCCACTGA
*
1081445 ATTTGATCTCACCACTTTTTGGGCAT
1 ATTTGATCTCACCACTTTTTAGGCAT
*
1081471 ATTTGATCTCACCATTTTTTAGGCAT
1 ATTTGATCTCACCACTTTTTAGGCAT
1081497 GCCTCGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (26 bp):
ATTTGATCTCACCACTTTTTAGGCAT
Done.