Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 66 of 214
Found at i:18889020 original size:33 final size:32
Alignment explanation
Indices: 18888978--18889089 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
18888968 TCATTTAAAC
*
18888978 TTTCATTTCATTTCATAATCATTACAAAATTCA
1 TTTCATTTCATTTCATATTCATTAC-AAATTCA
*
18889011 TTTCATTTCATTTCATATTCATT--TAA--CA
1 TTTCATTTCATTTCATATTCATTACAAATTCA
*
18889039 TTTCATTTCATTTGAATATTCATTACAAATTACA
1 TTTCATTTCATTT-CATATTCATTACAAATT-CA
*
18889073 TTACATTTCATATTCAT
1 TTTCATTTCAT-TTCAT
18889090 TTAACATTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
28 15 0.23
29 9 0.14
30 2 0.03
31 2 0.03
33 22 0.33
34 14 0.21
35 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (32 bp):
TTTCATTTCATTTCATATTCATTACAAATTCA
Found at i:18889044 original size:23 final size:21
Alignment explanation
Indices: 18888983--18889106 Score: 65
Period size: 23 Copynumber: 5.5 Consensus size: 21
18888973 TAAACTTTCA
* *
18888983 TTTCATTTCATAATCATTACAAA
1 TTTCATTTCATATTCATTTC--A
*
18889006 ATTCATTTCAT-TTCATTTCA
1 TTTCATTTCATATTCATTTCA
18889026 TATTCATTTAACAT-TTCATTTCA
1 T-TTCATTT--CATATTCATTTCA
* * *
18889049 TTTGAATATTCAT-TACAAATTACA
1 TTT-CAT-TTCATATTC--ATTTCA
*
18889073 TTACATTTCATATTCATTTAACA
1 TTTCATTTCATATTCATTT--CA
18889096 TTTCATTTCAT
1 TTTCATTTCAT
18889107 TAGTTTTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
20 1 0.01
21 10 0.13
22 18 0.23
23 41 0.52
24 9 0.11
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (21 bp):
TTTCATTTCATATTCATTTCA
Found at i:18889045 original size:12 final size:10
Alignment explanation
Indices: 18888978--18889107 Score: 80
Period size: 12 Copynumber: 11.7 Consensus size: 10
18888968 TCATTTAAAC
18888978 TTTCATTTCA
1 TTTCATTTCA
*
18888988 TTTCATAATCA
1 TTTCAT-TTCA
* *
18888999 TTACAAAATTCA
1 TTTC--ATTTCA
18889011 TTTCATTTCA
1 TTTCATTTCA
18889021 TTTCATATTCA
1 TTTCAT-TTCA
18889032 TTTAACATTTCA
1 TTT--CATTTCA
*
18889044 TTTCATTTGAA
1 TTTCATTT-CA
*
18889055 TATTCATTACAAA
1 T-TTCATTTC--A
* *
18889068 TTACATTACA
1 TTTCATTTCA
18889078 TTTCATATTCA
1 TTTCAT-TTCA
18889089 TTTAACATTTCA
1 TTT--CATTTCA
18889101 TTTCATT
1 TTTCATT
18889108 AGTTTTTTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
10 32 0.34
11 21 0.22
12 33 0.35
13 9 0.09
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.50
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:18889097 original size:57 final size:59
Alignment explanation
Indices: 18888967--18889107 Score: 191
Period size: 57 Copynumber: 2.4 Consensus size: 59
18888957 ATAATTTATT
* *
18888967 TTCATTTAA-ACTTTCATTTCATTTCATAATCATTACAAAATTCATTTCATTTCATTTCATA
1 TTCATTTAACA-TTTCATTTCATTTAATAATCATTACAAAATTCA--TCATTACATTTCATA
*
18889028 TTCATTTAACATTTCATTTCATTTGAATATTCATTAC-AAATT-A-CATTACATTTCATA
1 TTCATTTAACATTTCATTTCATTT-AATAATCATTACAAAATTCATCATTACATTTCATA
18889085 TTCATTTAACATTTCATTTCATT
1 TTCATTTAACATTTCATTTCATT
18889108 AGTTTTTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
57 36 0.48
60 1 0.01
61 27 0.36
62 11 0.15
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.50
Consensus pattern (59 bp):
TTCATTTAACATTTCATTTCATTTAATAATCATTACAAAATTCATCATTACATTTCATA
Found at i:18889211 original size:15 final size:15
Alignment explanation
Indices: 18889182--18889220 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
18889172 AGTAGTCTCA
*
18889182 TTTCAATT-TATTTT
1 TTTCAATTCAATTTT
18889196 TTTCAATTCAATTTT
1 TTTCAATTCAATTTT
*
18889211 TTTCATTTCA
1 TTTCAATTCA
18889221 TTTCATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTCAATTCAATTTT
Found at i:18889234 original size:20 final size:19
Alignment explanation
Indices: 18889179--18889236 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
18889169 ACAAGTAGTC
*
18889179 TCATTTCAATTTATTT-TTT
1 TCATTTCAATTT-TTTCATT
*
18889198 TCAATTCAATTTTTTTCATT
1 TCATTTCAA-TTTTTTCATT
18889218 TCATTTCATATTTTTTCAT
1 TCATTTCA-ATTTTTTCAT
18889237 ATTAATTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 11 0.33
20 21 0.64
21 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (19 bp):
TCATTTCAATTTTTTCATT
Found at i:18889308 original size:20 final size:21
Alignment explanation
Indices: 18889262--18889307 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18889252 TCTCAATTAC
*
18889262 ATTTTATTTAAATTTTTTCAT
1 ATTTTATTTAAATTTTCTCAT
18889283 ATTTTATTTAAACTTTTCTCA-
1 ATTTTATTTAAA-TTTTCTCAT
18889304 ATTT
1 ATTT
18889308 AAATATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATTTAAATTTTCTCAT
Found at i:18889576 original size:22 final size:22
Alignment explanation
Indices: 18889546--18889591 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18889536 TCAATTTTTA
*
18889546 ATTTTCATTCTAAATTCATTTC
1 ATTTCCATTCTAAATTCATTTC
* *
18889568 ATTTCCATTCTCATTTCATTTC
1 ATTTCCATTCTAAATTCATTTC
18889590 AT
1 AT
18889592 CTAAATTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTCCATTCTAAATTCATTTC
Found at i:18889736 original size:29 final size:27
Alignment explanation
Indices: 18889691--18889779 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 27
18889681 TTTCATTTCA
*
18889691 ATTTATACTTTATTTTCATTTCACATTC
1 ATTTATA-TTTATTTTCATTTCAAATTC
*
18889719 ATTTAATATTTTAGTTTCATTTCAAATTC
1 ATTT-ATA-TTTATTTTCATTTCAAATTC
*
18889748 ATTTCATATTTATTTTCATTTCATATTC
1 ATTT-ATATTTATTTTCATTTCAAATTC
18889776 ATTT
1 ATTT
18889780 CACTTTATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 26 0.48
29 28 0.52
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.58
Consensus pattern (27 bp):
ATTTATATTTATTTTCATTTCAAATTC
Found at i:18889767 original size:17 final size:17
Alignment explanation
Indices: 18889745--18889779 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18889735 TCATTTCAAA
*
18889745 TTCATTTCATATTTATT
1 TTCATTTCATATTCATT
18889762 TTCATTTCATATTCATT
1 TTCATTTCATATTCATT
18889779 T
1 T
18889780 CACTTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCATTTCATATTCATT
Found at i:18889780 original size:28 final size:29
Alignment explanation
Indices: 18889680--18889788 Score: 129
Period size: 28 Copynumber: 3.9 Consensus size: 29
18889670 ATGGTAATTG
18889680 ATTTCAT-TTCAATTT-ATACTTTATTTTC
1 ATTTCATATTC-ATTTCATACTTTATTTTC
* * * *
18889708 ATTTCACATTCATTTAATATTTTAGTTTC
1 ATTTCATATTCATTTCATACTTTATTTTC
*
18889737 ATTTCAAATTCATTTCATA-TTTATTTTC
1 ATTTCATATTCATTTCATACTTTATTTTC
18889765 ATTTCATATTCATTTC--ACTTTATT
1 ATTTCATATTCATTTCATACTTTATT
18889789 CATTTTTAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.01
27 6 0.08
28 33 0.46
29 31 0.44
ACGTcount: A:0.27, C:0.15, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTCATATTCATTTCATACTTTATTTTC
Found at i:18892834 original size:17 final size:17
Alignment explanation
Indices: 18892808--18893041 Score: 112
Period size: 18 Copynumber: 13.0 Consensus size: 17
18892798 CACGAGGATT
18892808 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
18892825 TTTATGAAACACGGTCAATT
1 TTTTTGAAACAC-G--AAAA
18892845 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * *
18892863 -TTTTGAAAGACGGAAT
1 TTTTTGAAACACGAAAA
*
18892879 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* **
18892897 TTTATGAAACACGGTCAATT
1 TTTTTGAAACAC-G--AAAA
18892917 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * **
18892935 -TTTTGAAAGACAGGATT
1 TTTTTGAAACAC-GAAAA
*
18892952 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* **
18892970 TTTATGAAACACAGAATT
1 TTTTTGAAACAC-GAAAA
*
18892988 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* * *
18893006 TTTTCGAAATACGAGAATT
1 TTTTTGAAACACGA-AA-A
*
18893025 TTTTTTAAACACGAAAA
1 TTTTTGAAACACGAAAA
18893042 CATGAAAATT
Statistics
Matches: 159, Mismatches: 41, Indels: 34
0.68 0.18 0.15
Matches are distributed among these distances:
16 13 0.08
17 46 0.29
18 52 0.33
19 21 0.13
20 15 0.09
21 12 0.08
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:18892834 original size:36 final size:36
Alignment explanation
Indices: 18892794--18893082 Score: 288
Period size: 36 Copynumber: 7.8 Consensus size: 36
18892784 GATAAAATAC
*
18892794 GAAACACGAGGATTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT-T
18892830 GAAACACG-GTCAATTTTTTTGAAAACACGAAAATTTT
1 GAAACACGAG--AATTTTTTTGAAAACACGAAAATTTT
* *
18892867 GAAAGACG-GAA-TTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT-T
18892902 GAAACACG-GTCAATTTTTTTGAAAACACGAAAATTTT
1 GAAACACGAG--AATTTTTTTGAAAACACGAAAATTTT
* * *
18892939 GAAAGAC-AGGATTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT-T
*
18892975 GAAACAC-AGAATTTTTTTGAAAACAAGAAAATTTT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTTT
* *
18893010 CGAAATACGAGAATTTTTTTTAAACACGAAAACATGAAAATTTGT
1 -GAAACACGAGAA-TTTTTTT------GAAAACACGAAAATTT-T
*
18893055 CAAACACGAGAA-TTTTTTGAAAACACGA
1 GAAACACGAGAATTTTTTTGAAAACACGA
18893083 TAACATCAAA
Statistics
Matches: 217, Mismatches: 17, Indels: 38
0.80 0.06 0.14
Matches are distributed among these distances:
34 21 0.10
35 36 0.17
36 54 0.25
37 32 0.15
38 42 0.19
42 6 0.03
44 25 0.12
45 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
GAAACACGAGAATTTTTTTGAAAACACGAAAATTTT
Found at i:18892969 original size:73 final size:73
Alignment explanation
Indices: 18892802--18893037 Score: 356
Period size: 72 Copynumber: 3.3 Consensus size: 73
18892792 ACGAAACACG
*
18892802 AGGATTTTTTTG-AAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTT
1 AGGATTTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTT
18892866 TGAAAGAC
66 TGAAAGAC
*
18892874 -GGAATTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTT
1 AGGATTTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTT
18892938 TGAAAGAC
66 TGAAAGAC
* *
18892946 AGGATTTTTTTGAAAACACGGAAATTTATGAAACACAG--AATTTTTTTGAAAACAAGAAAATTT
1 AGGATTTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTT
*
18893009 TCGAAATAC
66 T-GAAAGAC
* *
18893018 GAGAATTTTTTT-TAAACACG
1 -AGGATTTTTTTGAAAACACG
18893038 AAAACATGAA
Statistics
Matches: 152, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
71 35 0.23
72 72 0.47
73 45 0.30
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (73 bp):
AGGATTTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTT
TGAAAGAC
Found at i:18893088 original size:44 final size:44
Alignment explanation
Indices: 18892993--18893093 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
18892983 GAATTTTTTT
* * **
18892993 GAAAACAAGAAAATTTTCGAAATACGAGAATTTTTTTTAAACAC
1 GAAAACATGAAAATTTTCGAAACACGAGAATTTTTTGAAAACAC
18893037 GAAAACATGAAAATTTGTC-AAACACGAGAATTTTTTGAAAACAC
1 GAAAACATGAAAATTT-TCGAAACACGAGAATTTTTTGAAAACAC
* *
18893081 GATAACATCAAAA
1 GAAAACATGAAAA
18893094 AAATATTCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 48 0.96
45 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (44 bp):
GAAAACATGAAAATTTTCGAAACACGAGAATTTTTTGAAAACAC
Found at i:18893183 original size:18 final size:18
Alignment explanation
Indices: 18893143--18893187 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
18893133 TTGAAAACAC
18893143 GAAAACACGAAAATTTTT
1 GAAAACACGAAAATTTTT
* *
18893161 -CAAACACGGAAATTTTT
1 GAAAACACGAAAATTTTT
18893178 GAAAACACGA
1 GAAAACACGA
18893188 TAACGTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (18 bp):
GAAAACACGAAAATTTTT
Found at i:18893223 original size:104 final size:104
Alignment explanation
Indices: 18893019--18893235 Score: 357
Period size: 104 Copynumber: 2.1 Consensus size: 104
18893009 TCGAAATACG
* *
18893019 AGAATTTTTTTTAAACACGAAAACATGAAAATTTGTCAAACACGAGAATTTTTTGAAAACACGAT
1 AGAATTTTTTTTAAACACGAAAACACGAAAATTTGTCAAACACGAGAAATTTTTGAAAACACGAT
18893084 AACATCAAAAAAATATTCACGAGAGTTTTTTGAAACACA
66 AACATCAAAAAAATATTCACGAGAGTTTTTTGAAACACA
*
18893123 AGAATTTTTTTTGAAAACACGAAAACACGAAAATTTTTCAAACACG-GAAATTTTTGAAAACACG
1 AGAATTTTTTTT--AAACACGAAAACACGAAAATTTGTCAAACACGAGAAATTTTTGAAAACACG
* *
18893187 ATAACGTC-AAAAAATATTCACGAGAGTTTTTTGAAACACG
64 ATAACATCAAAAAAATATTCACGAGAGTTTTTTGAAACACA
18893227 AGAATTTTT
1 AGAATTTTT
18893236 GAAAACATTT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
104 52 0.49
105 24 0.23
106 30 0.28
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (104 bp):
AGAATTTTTTTTAAACACGAAAACACGAAAATTTGTCAAACACGAGAAATTTTTGAAAACACGAT
AACATCAAAAAAATATTCACGAGAGTTTTTTGAAACACA
Found at i:18893260 original size:29 final size:29
Alignment explanation
Indices: 18893214--18893271 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
18893204 TCACGAGAGT
*
18893214 TTTTTGAAACACGAGAATTTTTGAAAACA
1 TTTTTCAAACACGAGAATTTTTGAAAACA
*
18893243 TTTTTCAAACACGGGAATTTTTGAAAACA
1 TTTTTCAAACACGAGAATTTTTGAAAACA
18893272 CGAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (29 bp):
TTTTTCAAACACGAGAATTTTTGAAAACA
Found at i:18893316 original size:17 final size:17
Alignment explanation
Indices: 18893214--18893315 Score: 99
Period size: 17 Copynumber: 6.3 Consensus size: 17
18893204 TCACGAGAGT
18893214 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAGAA
18893231 TTTTTGAAA-AC----A
1 TTTTTGAAACACGAGAA
* *
18893243 TTTTTCAAACACGGGAA
1 TTTTTGAAACACGAGAA
*
18893260 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAGAA
* **
18893278 TTTTTTATTCACGAGAA
1 TTTTTGAAACACGAGAA
18893295 TTTTTGAAACACG-GAA
1 TTTTTGAAACACGAGAA
18893311 TTTTT
1 TTTTT
18893316 TTTTTTTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
12 9 0.13
13 2 0.03
16 10 0.15
17 33 0.49
18 14 0.21
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (17 bp):
TTTTTGAAACACGAGAA
Found at i:18893398 original size:17 final size:16
Alignment explanation
Indices: 18893376--18893424 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
18893366 TATTATTATT
18893376 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGA-AA
*
18893393 ATTTTGAAAACATGAAA
1 ATTTTG-AAACACGAAA
18893410 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
18893425 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (16 bp):
ATTTTGAAACACGAAA
Found at i:18894207 original size:11 final size:11
Alignment explanation
Indices: 18894193--18894260 Score: 75
Period size: 11 Copynumber: 5.9 Consensus size: 11
18894183 GTATTTTGTA
18894193 TTTTTCTTTTC
1 TTTTTCTTTTC
18894204 TTTTTCTATTT-
1 TTTTTCT-TTTC
*
18894215 TTTATCTTTTTC
1 TTTTTC-TTTTC
18894227 TTTTTTCTTTCTC
1 -TTTTTCTTT-TC
*
18894240 TTTTTCTTCTC
1 TTTTTCTTTTC
18894251 TTTTTCTTTT
1 TTTTTCTTTT
18894261 TTCTTTTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
11 26 0.54
12 15 0.31
13 7 0.15
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:18894217 original size:28 final size:28
Alignment explanation
Indices: 18894186--18894266 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
18894176 TTTTTTTGTA
*
18894186 TTTTGTATTTTTCTTTTCTT-TTTCTATT
1 TTTTATATTTTTCTTTT-TTCTTTCTATT
* *
18894214 TTTTATCTTTTTCTTTTTTCTTTCTCTTT
1 TTTTATATTTTTCTTTTTTCTTTCT-ATT
* *
18894243 TTCTTCTCTTTTTCTTTTTTCTTT
1 TT-TTATATTTTTCTTTTTTCTTT
18894267 TTTCTCTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.04
28 20 0.43
29 4 0.09
30 20 0.43
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (28 bp):
TTTTATATTTTTCTTTTTTCTTTCTATT
Found at i:18894224 original size:7 final size:6
Alignment explanation
Indices: 18894193--18894268 Score: 77
Period size: 6 Copynumber: 12.8 Consensus size: 6
18894183 GTATTTTGTA
* * *
18894193 TTTTTC -TTTTC TTTTTC TATTT- TTTATC TTTTTC TTTTTTC TTTCTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC
*
18894240 TTTTTC -TTCTC TTTTTC TTTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
18894269 TCTCTTCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 12 0.21
6 33 0.58
7 12 0.21
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:18894235 original size:30 final size:30
Alignment explanation
Indices: 18894199--18894268 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
18894189 TGTATTTTTC
18894199 TTTTCTTTTTCTATTTT-TTATCTTTTTCTT
1 TTTTCTTTTTCT-TTTTCTTATCTTTTTCTT
* *
18894229 TTTTCTTTCTCTTTTTCTTCTCTTTTTCTT
1 TTTTCTTTTTCTTTTTCTTATCTTTTTCTT
18894259 TTTTCTTTTT
1 TTTTCTTTTT
18894269 TCTCTTCTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (30 bp):
TTTTCTTTTTCTTTTTCTTATCTTTTTCTT
Found at i:18894279 original size:8 final size:7
Alignment explanation
Indices: 18894199--18894271 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 7
18894189 TGTATTTTTC
18894199 TTTTCTT
1 TTTTCTT
*
18894206 TTTCTATT
1 TTT-TCTT
*
18894214 TTTTATCT
1 TTTTCT-T
18894222 TTTTCTT
1 TTTTCTT
18894229 TTTTCTT
1 TTTTCTT
18894236 TCTCTT-TT
1 T-T-TTCTT
*
18894244 TCTTCTCT
1 TTTTCT-T
18894252 TTTTCTT
1 TTTTCTT
18894259 TTTTCTT
1 TTTTCTT
18894266 TTTTCT
1 TTTTCT
18894272 CTTCTTCTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
6 2 0.04
7 30 0.54
8 22 0.39
9 2 0.04
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:18895598 original size:76 final size:77
Alignment explanation
Indices: 18895248--18896173 Score: 787
Period size: 76 Copynumber: 11.8 Consensus size: 77
18895238 AATAGAAATT
* * *
18895248 GAAAGTACCTCAACATGATCCGAGTCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTG-GAGA
1 GAAA-TACCTCGACATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGATTTTTGTGA-A
* *
18895311 AACGGAAATTTTAAA
63 AACGAAAATTTAAAA
* * * *
18895326 GAAATACCTCGATATGTGACCCGAGGTTCAACTCACCTCTGGCAATATGAGTTGATTTTTTTGAA
1 GAAATACCTCGACA--TGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGATTTTTGTGAA
18895391 AA-GCAGAAATTTAAAA
63 AACG-A-AAATTTAAAA
* * * * * *
18895407 GAAATACATCGGTATATGACCCGAGACTCAACTCACCTCTCGCAATATGA-TCCGATTTTTTTGA
1 GAAATACCTC-G-ACATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGT-TGATTTTTGTGA
** *
18895471 AAAATAGAAA-TT-GAA
62 AAACGA-AAATTTAAAA
* *** *
18895486 -AAATACCTCAGGATATGACTTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGTGAA
1 GAAATACCTC--GACATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGATTTTTGTGAA
* * *
18895550 AACCAAAAATT-GAA
63 AACGAAAATTTAAAA
* * * *
18895564 -AAATACCTCGACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTGATTTTTT
1 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCT-GCATTATGAG------TTGA-TTTTT
* *
18895628 TTGAAAACACGAAAA-TT-GAA
58 GTG-AAA-ACGAAAATTTAAAA
* * **
18895648 -AAATACCTC-AGGATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 GAAATACCTCGA-CATGACCCGAGGCTCAACTCACCTCT-GCATTATGAGTTGATTTTTG-TGAA
18895711 AACGAAAATTTAAAA
63 AACGAAAATTTAAAA
* * * * *
18895726 GAAATACCTTGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTT-TAAAAAT
1 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTGAAAAC
*
18895789 G-AAATTTGAAA
66 GAAAATTTAAAA
* * *
18895800 GAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG-AAAAAC
1 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTGAAAAC
18895864 GAAAATTTAAAA
66 GAAAATTTAAAA
* * * * *
18895876 GAAATACCTCGGCATGACTCGAGGCTCAACTCACCTCTGTATTATGAGTTTATTTTT-TGAAAAA
1 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTGAAAAC
*
18895940 GGAAATTTAAAA
66 GAAAATTTAAAA
* * *
18895952 GAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG-AAAAAC
1 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTGAAAAC
*
18896016 GGAAATTTAAAA
66 GAAAATTTAAAA
* ***
18896028 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTAAAAAAAA
1 GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTT--GTGAAA
** **
18896093 TAAAAAAGACATAAATTA
64 -ACGAAA-ATTTAAA--A
* * *
18896111 AAAATACCTC-AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT-TGAAAA
1 GAAATACCTCGA-CATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTGAAAA
18896174 AAGCAGAAAT
Statistics
Matches: 737, Mismatches: 70, Indels: 81
0.83 0.08 0.09
Matches are distributed among these distances:
74 60 0.08
75 16 0.02
76 249 0.34
77 25 0.03
78 91 0.12
79 78 0.11
80 16 0.02
81 75 0.10
82 6 0.01
83 65 0.09
84 50 0.07
85 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (77 bp):
GAAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGCATTATGAGTTGATTTTTGTGAAAAC
GAAAATTTAAAA
Found at i:18895678 original size:238 final size:231
Alignment explanation
Indices: 18895228--18896189 Score: 901
Period size: 235 Copynumber: 4.1 Consensus size: 231
18895218 ATTATCGTTT
* * * *
18895228 TTTTTTGAAAAATAGAAA-TTGAAAG---TACCTCA-ACATGATCCGAGTCTCAACTCACCTCTC
1 TTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGGCATGACCCGAGGCTCAACTCACCTCT-
* * *
18895288 GCATTATGAGTTGATTTTGGAGAAACGGAAATTTTAAAGAAATACCTCGATATGTGACCCGAGGT
65 GCATTATGAGTTGATTTTGGA-AAAC-GAAAATTTAAAGAAATACCTCGACA--TGACCCGAGGC
* *
18895353 TCAACTCACCTCTGGCAATATGAGTTGATTTTTTTGAAAAGCA-GAAATTTAAAAGAAATACATC
126 TCAACTCACCTCT-GCAATATGAGTTGATTTTTTTGAAAA-CACGAAAATTAAAAGAAATACCTC
* *
18895417 GGTATATGACCCGAGACTCAACTCACCTCTCGCAATATGA-TCCGA
189 GG--TATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT-TGA
* * ***
18895462 TTTTTTTGAAAAATAGAAA-TT-GAA-AAATACCTCAGGATATGACTTAAGGCTCAACTCACCTC
1 -TTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGG-CATGACCCGAGGCTCAACTCACCTC
* * * * * * *
18895524 TCGCAATATGAGTTGATTTTTGTGAAAACCAAAAATTGAA-AAATACCTCGACGTGACTCAAGGC
64 T-GCATTATGAGTTGA-TTTTG-GAAAACGAAAATTTAAAGAAATACCTCGACATGACCCGAGGC
*
18895588 TCAACTCACCTCTCGCAATATGAGTTAATTTTGATTTTTTTTGAAAACACGAAAATT-GAA-AAA
126 TCAACTCACCTCT-GCAATATGAG------TTGA-TTTTTTTGAAAACACGAAAATTAAAAGAAA
18895651 TACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
183 TACCTC-GGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
18895700 -TTTTTGAAAAAAACGAAAATTTAAAAGAAATACCT-TGGCATGACCCGAGGCTCAACTCACCTC
1 TTTTTTGAAAAATA-G-AAATTTAAAAGAAATACCTCAGGCATGACCCGAGGCTCAACTCACCTC
* ** * *
18895763 TGTATTATGAGTTGATTTTTAAAAATG-AAATTTGAAAGAAATACCTCGGCATGACCCGAGGCTC
64 TGCATTATGAGTTGATTTTGGAAAACGAAAATTT-AAAGAAATACCTCGACATGACCCGAGGCTC
* * *
18895827 AACTCACCTCTGTATTATGAGTTGA--TTTTTGAAAA-ACGAAAATTTAAAAGAAATACCTCGGC
128 AACTCACCTCTGCAATATGAGTTGATTTTTTTGAAAACACGAAAA-TTAAAAGAAATACCTCGGT
* * * *
18895889 ATGACTCGAGGCTCAACTCACCTCT-GTATTATGAGTTTA
192 ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
18895928 TTTTTTGAAAAA-GGAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCTG
1 TTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGGCATGACCCGAGGCTCAACTCACCTCTG
* * *
18895991 TATTATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGACATGACCCGAGGCTCA
66 CATTATGAGTTGA-TTTTGGAAAACGAAAATTT-AAAGAAATACCTCGACATGACCCGAGGCTCA
* * *** * ** * *
18896056 ACTCACCTCTGTATTATGAGTTGATTTTTAAAAAAAATAAAAAAGACATAAATTAAAAATACCTC
129 ACTCACCTCTGCAATATGAGTTGATTTTT-TTGAAAACACGAAA-A-TTAAA--AGAAATACCTC
* ** * *
18896121 AGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA
189 GGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
18896163 TTTTTTGAAAAAAGCAGAAATTTAAAA
1 TTTTTTG-AAAAA-TAGAAATTTAAAA
18896190 ATATAATTCT
Statistics
Matches: 617, Mismatches: 68, Indels: 81
0.81 0.09 0.11
Matches are distributed among these distances:
226 68 0.11
227 23 0.04
228 75 0.12
229 44 0.07
230 7 0.01
231 4 0.01
232 4 0.01
233 5 0.01
234 2 0.00
235 111 0.18
236 38 0.06
237 49 0.08
238 103 0.17
239 34 0.06
240 14 0.02
241 18 0.03
242 18 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (231 bp):
TTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGGCATGACCCGAGGCTCAACTCACCTCTG
CATTATGAGTTGATTTTGGAAAACGAAAATTTAAAGAAATACCTCGACATGACCCGAGGCTCAAC
TCACCTCTGCAATATGAGTTGATTTTTTTGAAAACACGAAAATTAAAAGAAATACCTCGGTATGA
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
Found at i:18895680 original size:84 final size:82
Alignment explanation
Indices: 18895433--18895703 Score: 307
Period size: 84 Copynumber: 3.4 Consensus size: 82
18895423 TGACCCGAGA
** * *
18895433 CTCAACTCACCTCTCGCAATAT--G--A-TCCGATTTTTTTGAAAA-ATAGAAATTGAAAAATAC
1 CTCAACTCACCTCTCGCAATATGAGTTATTTTGATTTTTTTGAAAACACAAAAATTGAAAAATAC
*
18895492 CTCAGGATATGACTTAAGG
66 CTCAGG--ATGACTCAAGG
*
18895511 CTCAACTCACCTCTCGCAATATGAG-----TTGATTTTTGTGAAAAC-CAAAAATTGAAAAATAC
1 CTCAACTCACCTCTCGCAATATGAGTTATTTTGATTTTTTTGAAAACACAAAAATTGAAAAATAC
*
18895570 CTCGACG-TGACTCAAGG
66 CTC-AGGATGACTCAAGG
*
18895587 CTCAACTCACCTCTCGCAATATGAGTTAATTTTGATTTTTTTTGAAAACACGAAAATTGAAAAAT
1 CTCAACTCACCTCTCGCAATATGAGTT-ATTTTGA-TTTTTTTGAAAACACAAAAATTGAAAAAT
* *
18895652 ACCTCAGGATGACCCGAGG
64 ACCTCAGGATGACTCAAGG
18895671 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTT-ATTTT
18895704 TGAAAAAAAC
Statistics
Matches: 167, Mismatches: 13, Indels: 20
0.83 0.06 0.10
Matches are distributed among these distances:
76 34 0.20
78 53 0.32
79 2 0.01
80 1 0.01
82 4 0.02
83 14 0.08
84 59 0.35
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (82 bp):
CTCAACTCACCTCTCGCAATATGAGTTATTTTGATTTTTTTGAAAACACAAAAATTGAAAAATAC
CTCAGGATGACTCAAGG
Found at i:18897082 original size:20 final size:19
Alignment explanation
Indices: 18897046--18897091 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
18897036 TTTCATCTTG
*
18897046 GTTTTTCTTTTTCTTTTTT
1 GTTTTTTTTTTTCTTTTTT
*
18897065 GTTTTTTTTTGTTGTTTTTT
1 GTTTTTTTTT-TTCTTTTTT
*
18897085 ATTTTTT
1 GTTTTTT
18897092 GTCTACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (19 bp):
GTTTTTTTTTTTCTTTTTT
Found at i:18908130 original size:16 final size:16
Alignment explanation
Indices: 18908109--18908140 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18908099 CACAACCACT
18908109 TTTTTTTTAAACACAA
1 TTTTTTTTAAACACAA
*
18908125 TTTTTTTTAAATACAA
1 TTTTTTTTAAACACAA
18908141 GCATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTTTTAAACACAA
Found at i:18908206 original size:18 final size:18
Alignment explanation
Indices: 18908185--18908221 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18908175 AAAACGAAAA
18908185 TTTT-GAAACACGAGATTT
1 TTTTGGAAACACGA-ATTT
18908203 TTTTGGAAACACGAATTT
1 TTTTGGAAACACGAATTT
18908221 T
1 T
18908222 CTTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTTGGAAACACGAATTT
Found at i:18908307 original size:36 final size:36
Alignment explanation
Indices: 18908265--18908553 Score: 252
Period size: 36 Copynumber: 7.8 Consensus size: 36
18908255 GATAAAATAC
*
18908265 GAAACACGAGGATTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT-T
18908301 GAAACACG-GTCAATTTTTTTGAAAACACGAAAATTTT
1 GAAACACGAG--AATTTTTTTGAAAACACGAAAATTTT
* * *
18908338 AAAAGAC-AGAA-TTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT-T
* *
18908373 GAAACGCG-GTCAATTTTTTTGAAAACACAAAAATTTT
1 GAAACACGAG--AATTTTTTTGAAAACACGAAAATTTT
* * *
18908410 GAAAGACG-GGATTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT-T
* *
18908446 GAAACA-TAGAATTTTTTTGAAAACAAGAAAATTTT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTTT
* *
18908481 CGAAATACGAGAATTTTTTTTAAACACGAAAACATGAAAATTTGT
1 -GAAACACGAGAA-TTTTTTT------GAAAACACGAAAATTT-T
*
18908526 CAAACACGAGAA-TTTTTTGAAAACACGA
1 GAAACACGAGAATTTTTTTGAAAACACGA
18908554 TAACATCAAA
Statistics
Matches: 207, Mismatches: 25, Indels: 42
0.76 0.09 0.15
Matches are distributed among these distances:
34 21 0.10
35 32 0.15
36 51 0.25
37 30 0.14
38 41 0.20
42 6 0.03
44 25 0.12
45 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
GAAACACGAGAATTTTTTTGAAAACACGAAAATTTT
Found at i:18908361 original size:72 final size:73
Alignment explanation
Indices: 18908278--18908512 Score: 316
Period size: 72 Copynumber: 3.3 Consensus size: 73
18908268 ACACGAGGAT
*
18908278 TTTTTTG-AAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTAAAA
1 TTTTTTGAAAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
18908342 GAC-AGAA
66 GACGAGAA
* * *
18908349 TTTTTTGAAAACACGGAAATTTATGAAACGCGGTCAATTTTTTTGAAAACACAAAAATTTTGAAA
1 TTTTTTGAAAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
* *
18908414 GACGGGAT
66 GACGAGAA
* ** *
18908422 TTTTTTGAAAACACGGAAATTTATGAAACATAG--AATTTTTTTGAAAACAAGAAAATTTTCGAA
1 TTTTTTGAAAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTT-GAA
*
18908485 ATACGAGAA
65 AGACGAGAA
**
18908494 TTTTTTTTAAACACGAAAA
1 TTTTTTGAAAACACGAAAA
18908513 CATGAAAATT
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
71 31 0.22
72 81 0.56
73 32 0.22
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.32
Consensus pattern (73 bp):
TTTTTTGAAAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
GACGAGAA
Found at i:18908375 original size:18 final size:18
Alignment explanation
Indices: 18908279--18908485 Score: 88
Period size: 18 Copynumber: 11.5 Consensus size: 18
18908269 CACGAGGATT
*
18908279 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGGAAA
* *
18908296 TTTATG-AAACACGGTCAATT
1 TTTTTGAAAACACGG--AA-A
18908316 TTTTTGAAAACAC-GAAA
1 TTTTTGAAAACACGGAAA
* * * *
18908333 ATTTT-AAAAGACAGAAT
1 TTTTTGAAAACACGGAAA
18908350 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGGAAA
* * *
18908368 TTTATG-AAACGCGGTCAATT
1 TTTTTGAAAACACGG--AA-A
*
18908388 TTTTTGAAAACAC-AAAA
1 TTTTTGAAAACACGGAAA
* * **
18908405 ATTTTGAAAGAC-GGGATT
1 TTTTTGAAA-ACACGGAAA
18908423 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGGAAA
* ** *
18908441 TTTATG-AAACATAGAATT
1 TTTTTGAAAACACGGAA-A
* *
18908459 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGGAAA
*
18908477 TTTTCGAAA
1 TTTTTGAAA
18908486 TACGAGAATT
Statistics
Matches: 137, Mismatches: 38, Indels: 29
0.67 0.19 0.14
Matches are distributed among these distances:
16 6 0.04
17 48 0.35
18 50 0.36
19 11 0.08
20 11 0.08
21 11 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGGAAA
Found at i:18908559 original size:44 final size:44
Alignment explanation
Indices: 18908464--18908564 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
18908454 GAATTTTTTT
* * **
18908464 GAAAACAAGAAAATTTTCGAAATACGAGAATTTTTTTTAAACAC
1 GAAAACATGAAAATTTTCGAAACACGAGAATTTTTTGAAAACAC
18908508 GAAAACATGAAAATTTGTC-AAACACGAGAATTTTTTGAAAACAC
1 GAAAACATGAAAATTT-TCGAAACACGAGAATTTTTTGAAAACAC
* *
18908552 GATAACATCAAAA
1 GAAAACATGAAAA
18908565 AAAATATTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 48 0.96
45 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (44 bp):
GAAAACATGAAAATTTTCGAAACACGAGAATTTTTTGAAAACAC
Found at i:18908655 original size:18 final size:18
Alignment explanation
Indices: 18908615--18908659 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
18908605 TTGAAAACAC
18908615 GAAAACACGAAAATTTTT
1 GAAAACACGAAAATTTTT
* *
18908633 -CAAACACGGAAATTTTT
1 GAAAACACGAAAATTTTT
18908650 GAAAACACGA
1 GAAAACACGA
18908660 TAACGTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (18 bp):
GAAAACACGAAAATTTTT
Found at i:18908693 original size:105 final size:107
Alignment explanation
Indices: 18908477--18908716 Score: 375
Period size: 105 Copynumber: 2.3 Consensus size: 107
18908467 AACAAGAAAA
* * * *
18908477 TTTTCGAAATACGAGAATTTTTTTT--AAACACGAAAACATGAAAATTTGTCAAACACGAGAATT
1 TTTTTGAAACACGAGAATTTTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGAGAAAT
*
18908540 TTTTGAAAACACGATAACATCAAAAAAAATATTCACGAGAGT
66 TTTTGAAAACACGATAACATCAAAAAAAATATCCACGAGAGT
*
18908582 TTTTTGAAACACGAGAATTTTTTTTGAAAACACGAAAACACGAAAATTTTTCAAACACG-GAAAT
1 TTTTTGAAACACGAGAATTTTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGAGAAAT
*
18908646 TTTTGAAAACACGATAACGTC-AAAAAAATATCCACGAGAGT
66 TTTTGAAAACACGATAACATCAAAAAAAATATCCACGAGAGT
18908687 TTTTTGAAACACGAGAA--TTTTTTGAAAACA
1 TTTTTGAAACACGAGAATTTTTTTTGAAAACA
18908717 TTTTTCAAAC
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
103 13 0.10
105 59 0.47
106 24 0.19
107 30 0.24
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.29
Consensus pattern (107 bp):
TTTTTGAAACACGAGAATTTTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGAGAAAT
TTTTGAAAACACGATAACATCAAAAAAAATATCCACGAGAGT
Found at i:18908701 original size:18 final size:18
Alignment explanation
Indices: 18908678--18908791 Score: 93
Period size: 18 Copynumber: 6.8 Consensus size: 18
18908668 AAAAAATATC
*
18908678 CACGAGAGTTTTTTGAAA
1 CACGAGAATTTTTTGAAA
18908696 CACGAGAATTTTTTGAAA
1 CACGAGAATTTTTTGAAA
*
18908714 -AC----A-TTTTTCAAA
1 CACGAGAATTTTTTGAAA
*
18908726 CACGGGAA-TTTTTGAAAA
1 CACGAGAATTTTTTG-AAA
* **
18908744 CACGAAAATTTTTT-ATT
1 CACGAGAATTTTTTGAAA
18908761 CACGAGAA-TTTTTGAAA
1 CACGAGAATTTTTTGAAA
*
18908778 CACGAAAATTTTTT
1 CACGAGAATTTTTT
18908792 TTAAAAAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
12 8 0.11
13 3 0.04
16 5 0.07
17 24 0.32
18 31 0.41
19 5 0.07
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
CACGAGAATTTTTTGAAA
Found at i:18908738 original size:17 final size:17
Alignment explanation
Indices: 18908716--18908790 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
18908706 TTTTGAAAAC
* *
18908716 ATTTTTCAAACACGGGA
1 ATTTTTAAAACACGAGA
*
18908733 ATTTTTGAAAACACGAAA
1 ATTTTT-AAAACACGAGA
* **
18908751 ATTTTTTATTCACGAGA
1 ATTTTTAAAACACGAGA
* *
18908768 ATTTTTGAAACACGAAA
1 ATTTTTAAAACACGAGA
18908785 ATTTTT
1 ATTTTT
18908791 TTTAAAAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
17 32 0.70
18 14 0.30
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
ATTTTTAAAACACGAGA
Found at i:18908738 original size:29 final size:30
Alignment explanation
Indices: 18908687--18908745 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18908677 CCACGAGAGT
*
18908687 TTTTTGAAACACGAGAATTTTTTGAAAACA
1 TTTTTCAAACACGAGAATTTTTTGAAAACA
*
18908717 TTTTTCAAACACGGGAA-TTTTTGAAAACA
1 TTTTTCAAACACGAGAATTTTTTGAAAACA
18908746 CGAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (30 bp):
TTTTTCAAACACGAGAATTTTTTGAAAACA
Found at i:18908792 original size:35 final size:35
Alignment explanation
Indices: 18908726--18908791 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
18908716 ATTTTTCAAA
*
18908726 CACGGGAATTTTTGAAAACACGAAAATTTTTTATT
1 CACGAGAATTTTTGAAAACACGAAAATTTTTTATT
18908761 CACGAGAATTTTTG-AAACACGAAAATTTTTT
1 CACGAGAATTTTTGAAAACACGAAAATTTTTT
18908792 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CACGAGAATTTTTGAAAACACGAAAATTTTTTATT
Found at i:18908871 original size:17 final size:16
Alignment explanation
Indices: 18908849--18908897 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
18908839 TATTATTATT
18908849 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGA-AA
*
18908866 ATTTTGAAAACATGAAA
1 ATTTTG-AAACACGAAA
18908883 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
18908898 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (16 bp):
ATTTTGAAACACGAAA
Found at i:18909458 original size:21 final size:21
Alignment explanation
Indices: 18909418--18909466 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
18909408 CGGACTGGGC
18909418 CCTGCTGTGGCCTGCTGCT-G
1 CCTGCTGTGGCCTGCTGCTGG
18909438 CGCTGCTG-GGCCTGCTGGCTGG
1 C-CTGCTGTGGCCTGCT-GCTGG
18909460 CCTGCTG
1 CCTGCTG
18909467 AGTGCAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.35
21 15 0.58
22 2 0.08
ACGTcount: A:0.00, C:0.35, G:0.39, T:0.27
Consensus pattern (21 bp):
CCTGCTGTGGCCTGCTGCTGG
Found at i:18909628 original size:11 final size:11
Alignment explanation
Indices: 18909615--18909697 Score: 73
Period size: 11 Copynumber: 7.4 Consensus size: 11
18909605 TATTTTGTAT
18909615 TTTTC-TTTTC
1 TTTTCTTTTTC
18909625 TTTTTCTATTTT-
1 -TTTTCT-TTTTC
*
18909637 TTCTCTTTTTC
1 TTTTCTTTTTC
*
18909648 -TCTCTTTTTC
1 TTTTCTTTTTC
18909658 TTTTTCTTTTTTC
1 -TTTTC-TTTTTC
18909671 TTTCTCTTTTTC
1 TTT-TCTTTTTC
*
18909683 TTCTCTTTTTC
1 TTTTCTTTTTC
18909694 TTTT
1 TTTT
18909698 TTCTTTTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
10 14 0.23
11 21 0.34
12 14 0.23
13 12 0.20
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:18909629 original size:6 final size:6
Alignment explanation
Indices: 18909614--18909705 Score: 86
Period size: 6 Copynumber: 15.8 Consensus size: 6
18909604 GTATTTTGTA
* * *
18909614 TTTTTC -TTTTC TTTTTC TATTT- TTTCTC TTTTTC --TCTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* *
18909658 TTTTTC TTTTTTC TTTCTC TTTTTC -TTCTC TTTTTC TTTTTTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
18909706 TCTCTTCTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 3 0.04
5 12 0.17
6 42 0.61
7 12 0.17
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:18909629 original size:19 final size:19
Alignment explanation
Indices: 18909607--18909704 Score: 74
Period size: 19 Copynumber: 4.9 Consensus size: 19
18909597 TTTTTTTGTA
*
18909607 TTTTGTATTTTTCTTTTCT
1 TTTTCTATTTTTCTTTTCT
18909626 TTTTCTATTTTTTCTCTTTTTCT
1 TTTTCTA--TTTT-TC-TTTTCT
* *
18909649 CTCTTTTTCTTTTTCTTTT-T
1 -T-TTTCTATTTTTCTTTTCT
* *
18909669 TCTTTCTCTTTTTCTTCTCT
1 T-TTTCTATTTTTCTTTTCT
18909689 TTTTCT-TTTTTCTTTT
1 TTTTCTATTTTTCTTTT
18909705 TTCTCTTCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
18 9 0.14
19 27 0.41
20 3 0.05
21 8 0.12
22 4 0.06
23 10 0.15
24 1 0.02
25 4 0.06
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (19 bp):
TTTTCTATTTTTCTTTTCT
Found at i:18909639 original size:9 final size:9
Alignment explanation
Indices: 18909625--18909711 Score: 64
Period size: 8 Copynumber: 10.1 Consensus size: 9
18909615 TTTTCTTTTC
*
18909625 TTTTTCTAT
1 TTTTTCTCT
18909634 TTTTTCTC-
1 TTTTTCTCT
18909642 TTTTTCTCT
1 TTTTTCTCT
18909651 CTTTTTCT-T
1 -TTTTTCTCT
18909660 TTTCTT-T-T
1 TTT-TTCTCT
18909668 TTCTTTCTC-
1 TT-TTTCTCT
18909677 TTTTTCTTCT
1 TTTTTC-TCT
*
18909687 CTTTT-TC-
1 TTTTTCTCT
18909694 TTTTT-TCT
1 TTTTTCTCT
18909702 TTTTTCTCT
1 TTTTTCTCT
18909711 T
1 T
18909712 CTTCTTCGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
7 6 0.09
8 28 0.43
9 20 0.31
10 11 0.17
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:18909658 original size:33 final size:33
Alignment explanation
Indices: 18909620--18909716 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
18909610 TGTATTTTTC
18909620 TTTTCTTTTTCTATTTTTTCTCTTTTTCTCTCT
1 TTTTCTTTTTCTATTTTTTCTCTTTTTCTCTCT
*
18909653 TTTTCTTTTTCTTTTTTCTTTCTCTTTTTCTTCTCT
1 TTTTCTTTTTC-TATTT-TTTCTCTTTTTC-TCTCT
* *
18909689 TTTTCTTTTT-TCTTTTTTCTCTTCTTCT
1 TTTTCTTTTTCTATTTTTTCTCTTTTTCT
18909717 TCGGGCGAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
32 1 0.02
33 22 0.38
34 8 0.14
35 12 0.21
36 15 0.26
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTCTTTTTCTATTTTTTCTCTTTTTCTCTCT
Found at i:18909662 original size:44 final size:45
Alignment explanation
Indices: 18909618--18909717 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
18909608 TTTGTATTTT
*
18909618 TCTTTTCTT-TTTCT-ATTTT-TTCTCTTTTTCTCTCTTTT-TCTTTT
1 TCTTTTCTTCTTTCTCTTTTTCTTCTCTTTTTCT-T-TTTTCT-TTTT
18909662 TCTTTT-TTCTTTCTCTTTTTCTTCTCTTTTTCTTTTTTCTTTTT
1 TCTTTTCTTCTTTCTCTTTTTCTTCTCTTTTTCTTTTTTCTTTTT
*
18909706 TCTCTTCTTCTT
1 TCTTTTCTTCTT
18909718 CGGGCGAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
43 2 0.04
44 24 0.49
45 11 0.22
46 12 0.24
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (45 bp):
TCTTTTCTTCTTTCTCTTTTTCTTCTCTTTTTCTTTTTTCTTTTT
Found at i:18909672 original size:46 final size:43
Alignment explanation
Indices: 18909620--18909705 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 43
18909610 TGTATTTTTC
*
18909620 TTTTCTTTTTCTATTTT-TTCTCTTTTTCTCTCTTTTTCTTTTTCTT
1 TTTTCTTTCTCT-TTTTCTTCTC-TTTT-TCT-TTTTTCTTTTTCTT
18909666 TTTTCTTTCTCTTTTTCTTCTCTTTTTCTTTTTTCTTTTT
1 TTTTCTTTCTCTTTTTCTTCTCTTTTTCTTTTTTCTTTTT
18909706 TCTCTTCTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
43 11 0.29
44 3 0.08
45 8 0.21
46 16 0.42
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (43 bp):
TTTTCTTTCTCTTTTTCTTCTCTTTTTCTTTTTTCTTTTTCTT
Found at i:18909706 original size:25 final size:25
Alignment explanation
Indices: 18909623--18909717 Score: 74
Period size: 25 Copynumber: 3.7 Consensus size: 25
18909613 ATTTTTCTTT
18909623 TCTTTTTCTATTTTTTCTCTTTTTC-TC
1 TCTTTTTC--TTTTTTCT-TTTTTCTTC
18909650 TCTTTTTC-TTTTTCTTTTTTCTTTC
1 TCTTTTTCTTTTTTCTTTTTTC-TTC
18909675 TCTTTTTCTTCTCTTT-TTCTTTT-TTC
1 TCTTTTTCTT-T-TTTCTT-TTTTCTTC
*
18909701 T-TTTTTCTCTTCTTCTT
1 TCTTTTTCT-TTTTTCTT
18909718 CGGGCGAACC
Statistics
Matches: 59, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
23 6 0.10
24 9 0.15
25 20 0.34
26 6 0.10
27 11 0.19
28 7 0.12
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (25 bp):
TCTTTTTCTTTTTTCTTTTTTCTTC
Found at i:18909716 original size:8 final size:7
Alignment explanation
Indices: 18909620--18909708 Score: 74
Period size: 7 Copynumber: 11.9 Consensus size: 7
18909610 TGTATTTTTC
18909620 TTTTCTT
1 TTTTCTT
*
18909627 TTTCTATT
1 TTT-TCTT
18909635 TTTTCTCT
1 TTTTCT-T
18909643 TTTTCTCT
1 TTTTCT-T
18909651 CTTTT-TCT
1 -TTTTCT-T
18909659 TTTTCTT
1 TTTTCTT
18909666 TTTTCTT
1 TTTTCTT
18909673 TCTCTT-TT
1 T-T-TTCTT
*
18909681 TCTTCTCT
1 TTTTCT-T
18909689 TTTTCTT
1 TTTTCTT
18909696 TTTTCTT
1 TTTTCTT
18909703 TTTTCT
1 TTTTCT
18909709 CTTCTTCTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
6 2 0.03
7 33 0.47
8 29 0.41
9 6 0.09
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:18911439 original size:6 final size:6
Alignment explanation
Indices: 18911429--18911462 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
18911419 TTTGATTGTA
*
18911429 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
18911463 GCTGAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18911678 original size:20 final size:20
Alignment explanation
Indices: 18911653--18911693 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18911643 TATTATAACT
18911653 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
18911673 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
18911693 T
1 T
18911694 ATCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTTATTTACCAAAATA
Found at i:18911724 original size:13 final size:12
Alignment explanation
Indices: 18911695--18911728 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
18911685 CCAAAATATA
18911695 TCAAAAAAAACT
1 TCAAAAAAAACT
18911707 T-AAAAAAAACT
1 TCAAAAAAAACT
18911718 TGCAAAAAAAA
1 T-CAAAAAAAA
18911729 TCAGATCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 1 0.05
13 8 0.40
ACGTcount: A:0.71, C:0.12, G:0.03, T:0.15
Consensus pattern (12 bp):
TCAAAAAAAACT
Found at i:18911824 original size:27 final size:27
Alignment explanation
Indices: 18911774--18911825 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
18911764 GGGATTGGCT
*
18911774 GCACCAAAGGTGCCAAAACCATTGGTA
1 GCACCAAAGGTGCCAAAACAATTGGTA
*
18911801 GCACCAATGGTGCC-AAACTAATTGG
1 GCACCAAAGGTGCCAAAAC-AATTGG
18911826 CGGCACTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (27 bp):
GCACCAAAGGTGCCAAAACAATTGGTA
Found at i:18911831 original size:27 final size:27
Alignment explanation
Indices: 18911767--18911831 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
18911757 CGCCAATGGG
* *
18911767 ATTGGCTGCACCAAAGGTGCCAAAACC
1 ATTGGCAGCACCAAAGGTGCCAAAACA
* *
18911794 ATTGGTAGCACCAATGGTGCC-AAACTA
1 ATTGGCAGCACCAAAGGTGCCAAAAC-A
*
18911821 ATTGGCGGCAC
1 ATTGGCAGCAC
18911832 TACTCGTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (27 bp):
ATTGGCAGCACCAAAGGTGCCAAAACA
Found at i:18911930 original size:11 final size:11
Alignment explanation
Indices: 18911914--18911953 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
18911904 GTTGTTGCGG
18911914 AAAAGAAGAGA
1 AAAAGAAGAGA
18911925 AAAAG-AGAGA
1 AAAAGAAGAGA
*
18911935 AAAAGAGGAGA
1 AAAAGAAGAGA
18911946 AAAAGAAG
1 AAAAGAAG
18911954 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:18912016 original size:19 final size:21
Alignment explanation
Indices: 18911978--18912016 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
18911968 AATAATTGAT
*
18911978 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
18911999 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
18912017 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:18912086 original size:3 final size:3
Alignment explanation
Indices: 18912080--18912133 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
18912070 ATTATTATTA
18912080 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG -TTG TTG TTG TTG TTG
18912126 TTG TTG TT
1 TTG TTG TT
18912134 AGTATTAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:18912345 original size:36 final size:36
Alignment explanation
Indices: 18912289--18912373 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
18912279 GTTAGTTAGT
*
18912289 TATTATTTTTAG--TAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
18912323 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
*
18912359 TATTATTTTGTGTAT
1 TATTATTTTGAGTAT
18912374 TATTTTAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 11 0.23
36 36 0.77
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (36 bp):
TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
Found at i:18912372 original size:12 final size:12
Alignment explanation
Indices: 18912355--18912379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18912345 ATAATTTTAG
18912355 TGTGTATTATTT
1 TGTGTATTATTT
18912367 TGTGTATTATTT
1 TGTGTATTATTT
18912379 T
1 T
18912380 AAGTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:18917748 original size:22 final size:22
Alignment explanation
Indices: 18917718--18917762 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18917708 GTTTTTTTTT
18917718 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
*
18917740 ATATGTTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
18917762 A
1 A
18917763 ACTTATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:18918581 original size:45 final size:43
Alignment explanation
Indices: 18918541--18918720 Score: 179
Period size: 39 Copynumber: 4.4 Consensus size: 43
18918531 CTTCCTTCCC
*
18918541 TCTTCTTCTTCTTT-TTTTTTCCTCTTCTCTTCTCATTTCCTTT
1 TCTTCTTCTTCTTTCTTTTTT-CTCTTCTCTTCTCCTTTCCTTT
* *
18918584 TCTT-TCCTTCTTTCTTTCTT-T-TT-TCTTCTCCTTTCCTTT
1 TCTTCTTCTTCTTTCTTTTTTCTCTTCTCTTCTCCTTTCCTTT
18918623 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCTTCTCCTTTCCTTT
1 TCTTCTTC-TTCTTTC-TTTTTTCTCTTCTCTTCTCCTTTCCTTT
* *
18918668 TCTT-TCCTTCTTT-TTCTTTCT-TTC-C-TCTCC-TTCC-TT
1 TCTTCTTCTTCTTTCTTTTTTCTCTTCTCTTCTCCTTTCCTTT
* *
18918704 CCTTCCT-TTCTTTCTTT
1 TCTTCTTCTTCTTTCTTT
18918721 CTCTCTCCTT
Statistics
Matches: 117, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
36 11 0.09
37 6 0.05
38 5 0.04
39 20 0.17
40 7 0.06
41 15 0.13
42 13 0.11
43 16 0.14
44 4 0.03
45 20 0.17
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (43 bp):
TCTTCTTCTTCTTTCTTTTTTCTCTTCTCTTCTCCTTTCCTTT
Found at i:18918583 original size:29 final size:27
Alignment explanation
Indices: 18918551--18918693 Score: 89
Period size: 29 Copynumber: 5.1 Consensus size: 27
18918541 TCTTCTTCTT
*
18918551 CTTTTTTTTTCCTCTTCTCTTCTCATTTC
1 CTTTTTCTTTCCTCTT-TCTTCTC-TTTC
* *
18918580 C-TTTTCTTTCCTTCTTTCTTTCTTTTTT
1 CTTTTTCTTTCC-TCTTTC-TTCTCTTTC
* *
18918608 CTTCTCCTTTCCT-TTTCTTCTTCTTT-
1 CTTTTTCTTTCCTCTTTCTTC-TCTTTC
* *
18918634 CTTTCTTTTTTTCTCTTCTCTTCTCCTTTC
1 CTTT-TTCTTTCCTCTT-TCTTCT-CTTTC
18918664 C-TTTTCTTTCCTTCTTT-TTCTTTCTTTC
1 CTTTTTCTTTCC-TCTTTCTTC--TCTTTC
18918692 CT
1 CT
18918694 CTCCTTCCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 26
0.70 0.09 0.20
Matches are distributed among these distances:
26 6 0.07
27 17 0.19
28 32 0.36
29 33 0.37
30 1 0.01
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTTTCTTTCCTCTTTCTTCTCTTTC
Found at i:18918591 original size:10 final size:10
Alignment explanation
Indices: 18918576--18918693 Score: 70
Period size: 11 Copynumber: 11.6 Consensus size: 10
18918566 TCTCTTCTCA
18918576 TTTCCTTTTC
1 TTTCCTTTTC
18918586 TTTCCTTCTTTC
1 TTTCC-T-TTTC
*
18918598 TTTCTTTTTTC
1 TTTC-CTTTTC
*
18918609 TTCTCCTTTCC
1 TT-TCCTTTTC
*
18918620 TTTTCTTCTTC
1 TTTCCTT-TTC
18918631 TTT-C-TTTC
1 TTTCCTTTTC
18918639 TTT--TTTTC
1 TTTCCTTTTC
*
18918647 TCTTCTCTTCTCC
1 T-TTC-CTT-TTC
18918660 TTTCCTTTTC
1 TTTCCTTTTC
18918670 TTTCCTTCTT-
1 TTTCCTT-TTC
18918680 TTT-C-TTTC
1 TTTCCTTTTC
18918688 TTTCCT
1 TTTCCT
18918694 CTCCTTCCTT
Statistics
Matches: 86, Mismatches: 7, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
7 2 0.02
8 15 0.17
9 5 0.06
10 22 0.26
11 23 0.27
12 16 0.19
13 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTCCTTTTC
Found at i:18918598 original size:4 final size:4
Alignment explanation
Indices: 18918582--18918722 Score: 78
Period size: 4 Copynumber: 34.2 Consensus size: 4
18918572 CTCATTTCCT
*
18918582 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* *
18918628 -TTC TTTC TTTC TTTT TTTC TCTTC TCTTC -TCC TTTCC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC T-TTC T-TTC TTTC TTT-C -TTTC TTTC
* * * * *
18918674 CTTC -TT- TTTC TTTC TTTCC TCTCC TTCC TTCC TTCC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
18918722 T
1 T
18918723 CTCTCCTTCT
Statistics
Matches: 114, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
3 13 0.11
4 73 0.64
5 21 0.18
6 7 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:18918648 original size:79 final size:81
Alignment explanation
Indices: 18918513--18918732 Score: 217
Period size: 79 Copynumber: 2.7 Consensus size: 81
18918503 AAAAATACCT
* *
18918513 TTTCTTTTCTTTTTT-TTCCTTCCTTCCCTCTTCTTCTTCTTT-TTT-TTTCCTCTTCTCTTCTC
1 TTTC-TTTCTTTTTTCTT-C-TCCTTTCCTTTTCTTCTTCTTTCTTTCTTT-CTCTTCTCTTCTC
*
18918575 ATT-TCCTTTTC-TTTCCTTC
62 -TTCTCCTTTCCTTTTCCTTC
*
18918594 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTT-TTTTCTCTTCTCTTCT
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTCTCTTCTCTTCTCTTCT
*
18918658 CCTTTCCTTTTCTTTC
66 CCTTTCCTTTTCCTTC
* * * *
18918674 CTTCTTT-TTCTTTCTT-TCCTCTCC-TTCCTTCCTTCCTTTCTTTCTTTCTC-TCTCCTTCT
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT-CTT-CTTTCTTTCTTTCTCTTCT-CTTCT
18918733 GGTCCCCCCA
Statistics
Matches: 120, Mismatches: 10, Indels: 19
0.81 0.07 0.13
Matches are distributed among these distances:
77 5 0.04
78 12 0.10
79 61 0.51
80 33 0.28
81 9 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.66
Consensus pattern (81 bp):
TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTCTCTTCTCTTCTCTTCT
CCTTTCCTTTTCCTTC
Found at i:18918727 original size:31 final size:31
Alignment explanation
Indices: 18918671--18918731 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
18918661 TTCCTTTTCT
*
18918671 TTCCTTCTTTTTCTTTCTTTCCTCTCCTTCC
1 TTCCTTCTCTTTCTTTCTTTCCTCTCCTTCC
18918702 TTCCTTC-CTTTCTTTCTTTCTCTCTCCTTC
1 TTCCTTCTCTTTCTTTCTTTC-CTCTCCTTC
18918732 TGGTCCCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (31 bp):
TTCCTTCTCTTTCTTTCTTTCCTCTCCTTCC
Found at i:18918840 original size:27 final size:27
Alignment explanation
Indices: 18918766--18918832 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
18918756 TAATATACAC
18918766 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
18918793 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
18918820 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
18918833 CCCATTGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:18918966 original size:28 final size:22
Alignment explanation
Indices: 18918901--18918945 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18918891 AGTTTTTTTG
18918901 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
18918923 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
18918945 A
1 A
18918946 AGTTATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:18919095 original size:24 final size:24
Alignment explanation
Indices: 18919068--18919113 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18919058 TAGTTGTTTT
* *
18919068 AGGGTTTTGGTTGTTAAAAAAAAG
1 AGGGTTTTGGGTATTAAAAAAAAG
18919092 AGGGTTTTGGGTATTAAAAAAA
1 AGGGTTTTGGGTATTAAAAAAA
18919114 GGTTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (24 bp):
AGGGTTTTGGGTATTAAAAAAAAG
Found at i:18926521 original size:19 final size:19
Alignment explanation
Indices: 18926473--18926532 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
18926463 TAATCATCTG
18926473 AAAATT-TAAAATTTTTATA
1 AAAATTCTAAAATTTTTA-A
*
18926492 TAAAA-TCTAAAATTATTAA
1 -AAAATTCTAAAATTTTTAA
18926511 AAAATTCTAAAACTTTTTAA
1 AAAATTCTAAAA-TTTTTAA
18926531 AA
1 AA
18926533 CTTTATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 4 0.11
19 9 0.26
20 22 0.63
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTCTAAAATTTTTAA
Found at i:18926985 original size:32 final size:32
Alignment explanation
Indices: 18926944--18927005 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
18926934 GCTAGACTAG
18926944 CTGTTGGAATCCCTATAATTAAGGATAGAAAT
1 CTGTTGGAATCCCTATAATTAAGGATAGAAAT
18926976 CTGTTGGAATCCCTATAATTAAGGATAGAA
1 CTGTTGGAATCCCTATAATTAAGGATAGAA
18927006 TTCTTACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (32 bp):
CTGTTGGAATCCCTATAATTAAGGATAGAAAT
Found at i:18933093 original size:16 final size:16
Alignment explanation
Indices: 18933048--18933094 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
18933038 TTAAAATAAT
18933048 ATTATATAATAAAATA
1 ATTATATAATAAAATA
*
18933064 ATGCATATACATAAAA-A
1 AT-TATATA-ATAAAATA
18933081 ATTATATAGATAAA
1 ATTATATA-ATAAA
18933095 TATATGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTATATAATAAAATA
Found at i:18934749 original size:173 final size:173
Alignment explanation
Indices: 18934446--18934769 Score: 395
Period size: 173 Copynumber: 1.9 Consensus size: 173
18934436 TACTCCTCTG
* * *
18934446 CAACTTCAGAGAGATAAGATCTATCATTTCGATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATCATTTCAATCAGCTCCACTGCAACTTCAAGGAGATAGGATT
* * ** ***
18934511 TGCGGTTCTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTGTGTCTACTCCAC
66 TGCGGTTCGAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATGGCTTCAATCTACTCCAC
18934576 TGCAACCTCAGAGAGACAAGACGGGTTGCAATCTGCTCTACTA
131 TGCAACCTCAGAGAGACAAGACGGGTTGCAATCTGCTCTACTA
* * * ** * *
18934619 CAACTTTAGAGAGATAAGATCTGT-AGTTTTAATCAGCTCCTTTGTAACTTCAAGGAGTTAGGAT
1 CAACTTCAGAGAGATAAGATCTATCA-TTTCAATCAGCTCCACTGCAACTTCAAGGAGATAGGAT
* *
18934683 TAT-CGGCTT-GAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-ATCGGCTTCAATCTGCT
65 T-TGCGG-TTCGAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGAT-GGCTTCAATCTACT
* *
18934745 CCACTGCAACCTCAGGGAGATAAGA
127 CCACTGCAACCTCAGAGAGACAAGA
18934770 TTTGCCATCT
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
172 2 0.02
173 121 0.96
174 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATCATTTCAATCAGCTCCACTGCAACTTCAAGGAGATAGGATT
TGCGGTTCGAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATGGCTTCAATCTACTCCAC
TGCAACCTCAGAGAGACAAGACGGGTTGCAATCTGCTCTACTA
Found at i:18934805 original size:45 final size:44
Alignment explanation
Indices: 18934433--18934962 Score: 230
Period size: 44 Copynumber: 12.2 Consensus size: 44
18934423 GTCTGATGCG
* * * * *
18934433 ATCTACTCCTCTGCAACTTCAGAGAGATAAGATCTATCA-TTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * *
18934477 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGC-GGTTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-CAGCTTC-A
* * * ** **
18934521 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTGT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATCAGCTTCA
* * * * * * *
18934565 GTCTACTCCACTGCAACCTCAGAGAGACAAG---A-CGGGTTGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTT-CA
* * * * * * *
18934606 ATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGT-AGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* ** * * * * * *
18934650 ATCAGCTCCTTTGTAACTTCAAGGAGTTAGGATTATCGGCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* *
18934694 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * *
18934738 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--CAGCTTCA
* * * * *
18934783 ATCTGCCCCTCTGCAACTTCAGGGGGATAAGACCTACTTA-C-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTA-TCAGCTTCA
* * * * * * * *
18934827 GTCTGCTCCGCTGCAACTTCGGGGAGATAAG---ACCTGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * * * * * *
18934868 ATCTACTCTACAGCAACTTTAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * * *
18934912 ATCTGCTCCTCTGTAACTTTAGGGAGATAGGATTATC-GACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAG-CTTCA
18934956 ATCTGCT
1 ATCTGCT
18934963 TCCTTACTCT
Statistics
Matches: 355, Mismatches: 104, Indels: 54
0.69 0.20 0.11
Matches are distributed among these distances:
40 3 0.01
41 48 0.14
42 1 0.00
43 11 0.03
44 248 0.70
45 40 0.11
46 3 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
Found at i:18935333 original size:129 final size:129
Alignment explanation
Indices: 18934955--18935904 Score: 1460
Period size: 129 Copynumber: 7.4 Consensus size: 129
18934945 TATCGACTTC
* * *
18934955 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCATCCTT-GATCTGCTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT-CTTCGATCTGCTCCGCTATTGCTTAGG
* * *
18935019 GAGACAAGATCTGTAATTT-CCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTGACTTA
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * * *
18935083 AATCTACTTCCTTACACTTGAAGATAAGATTCACTGTCTTCGATCTGCTCCACTATT-TTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
18935147 AGACAAGATCTGCAATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
18935211 AATCTACTTCCTTACACTTGAATATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * *
18935276 AGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGTGATATAGAACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * *
18935340 AATCTGCTTCCTTACACTTAAAGATAAGATTCGCCGTTTTCGATCTGCGT-CGCTATTTCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGC-TCCGCTATTGCTTAGG
* * *
18935404 GAGACAAGATCTATAATTTCCCAACCTATTCTACTGCAT-ACCAGAGATATAGGACTTGTGGCTT
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGC-TGACCAGGGATATAGGACTTGTGGCTT
18935468 A
129 A
* *
18935469 AATCTGCTTCCTTATACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
18935534 AGACATGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
18935598 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * *
18935663 AGACAAGATCTGTAATTTCCCAACCTATTCTATTGCTGACCAGGGATATAGAACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* ** *
18935727 AATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTTATCTGCTCTGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
18935792 AGACAAGATCTGTAATTTCCCAACCTATTCCATTACTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * *
18935856 AATATGCTTCCTTACTCTTGAAGATAAGATTCGCTGTCTTCGATTTGCT
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCT
18935905 TTGCTGTCGA
Statistics
Matches: 751, Mismatches: 64, Indels: 13
0.91 0.08 0.02
Matches are distributed among these distances:
127 26 0.03
128 142 0.19
129 581 0.77
130 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (129 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
Found at i:18937202 original size:8 final size:8
Alignment explanation
Indices: 18937191--18937219 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18937181 CTATTTTTAC
18937191 TTTTTTCA
1 TTTTTTCA
18937199 TTTTTTCA
1 TTTTTTCA
18937207 -TTTTTCA
1 TTTTTTCA
18937214 TTTTTT
1 TTTTTT
18937220 TGACTCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:18937203 original size:15 final size:15
Alignment explanation
Indices: 18937183--18937218 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18937173 TAGCCTCTCT
*
18937183 ATTTTTACTTTTTTC
1 ATTTTTACATTTTTC
*
18937198 ATTTTTTCATTTTTC
1 ATTTTTACATTTTTC
18937213 ATTTTT
1 ATTTTT
18937219 TTGACTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTTTACATTTTTC
Found at i:18938136 original size:15 final size:15
Alignment explanation
Indices: 18938118--18938200 Score: 71
Period size: 16 Copynumber: 5.3 Consensus size: 15
18938108 TTTTTTTCTC
18938118 TTTTTTATTTTGA-T
1 TTTTTTATTTTGATT
* *
18938132 TTTTTTACTTTGATCA
1 TTTTTTATTTTGAT-T
18938148 TTTTTTATTTTGATT
1 TTTTTTATTTTGATT
*
18938163 TTGATTT-TTTTGATTT
1 TT-TTTTATTTTGA-TT
*
18938179 TGTTTTTATTTTTTATT
1 T-TTTTTA-TTTTGATT
18938196 TTTTT
1 TTTTT
18938201 GATTAAATCT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 12 0.22
15 8 0.15
16 26 0.47
17 4 0.07
18 5 0.09
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTTGATT
Found at i:18938172 original size:21 final size:21
Alignment explanation
Indices: 18938148--18938204 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
18938138 ACTTTGATCA
18938148 TTTTTTATTTTGATTTTGATT
1 TTTTTTATTTTGATTTTGATT
* *
18938169 TTTTTGATTTTG-TTTTTATT
1 TTTTTTATTTTGATTTTGATT
*
18938189 TTTTATTTTTTTGATT
1 TTTT-TTATTTTGATT
18938205 AAATCTGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 17 0.57
22 2 0.07
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (21 bp):
TTTTTTATTTTGATTTTGATT
Found at i:18938199 original size:20 final size:20
Alignment explanation
Indices: 18938147--18938198 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
18938137 TACTTTGATC
18938147 ATTTTTTA-TTTTGATTTTG
1 ATTTTTTATTTTTGATTTTG
*
18938166 ATTTTTT-TGATTTTG-TTTTT
1 ATTTTTTAT--TTTTGATTTTG
18938186 ATTTTTTATTTTT
1 ATTTTTTATTTTT
18938199 TTGATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 11 0.39
20 11 0.39
21 6 0.21
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
ATTTTTTATTTTTGATTTTG
Found at i:18942661 original size:12 final size:13
Alignment explanation
Indices: 18942643--18942684 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
18942633 AGGAAAGATT
18942643 TAATAATAATATA
1 TAATAATAATATA
18942656 -AATAATAACATATA
1 TAATAAT-A-ATATA
18942670 TACATAATAATATA
1 TA-ATAATAATATA
18942684 T
1 T
18942685 TAAAGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:18942676 original size:16 final size:16
Alignment explanation
Indices: 18942651--18942688 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18942641 TTTAATAATA
18942651 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
18942667 ATATACATAATAATAT
1 ATATAAATAATAACAT
18942683 AT-TAAA
1 ATATAAA
18942689 GTTGATGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:18942923 original size:16 final size:16
Alignment explanation
Indices: 18942878--18942924 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
18942868 TTAAAATAAT
18942878 ATTATATAATAAAATA
1 ATTATATAATAAAATA
*
18942894 ATGCATATACATAAAA-A
1 AT-TATATA-ATAAAATA
18942911 ATTATATAGATAAA
1 ATTATATA-ATAAA
18942925 TATATGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTATATAATAAAATA
Found at i:18942994 original size:3 final size:3
Alignment explanation
Indices: 18942941--18942979 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
18942931 AACTGATATA
* * *
18942941 AAT AAT AAC ACT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18942980 GGTAGTAGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18943454 original size:10 final size:9
Alignment explanation
Indices: 18943429--18943485 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
18943419 TTACGCACAG
18943429 AGAAAGAAAA
1 AGAAA-AAAA
*
18943439 GGAAAAAAA
1 AGAAAAAAA
*
18943448 TGAAAAAAA
1 AGAAAAAAA
18943457 ATGGAGAAAAAA
1 A--GA-AAAAAA
18943469 AGAAAAACAA
1 AGAAAAA-AA
18943479 AGAAAAA
1 AGAAAAA
18943486 CTGTAAATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 16 0.40
10 15 0.38
11 2 0.05
12 7 0.17
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:18948074 original size:18 final size:19
Alignment explanation
Indices: 18948048--18948087 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18948038 CAATCAGGGC
* *
18948048 ATTATGGACTTGA-ATTTG
1 ATTAGGGACTTCAGATTTG
18948066 ATTAGGGACTTCAGATTTG
1 ATTAGGGACTTCAGATTTG
18948085 ATT
1 ATT
18948088 GCCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGACTTCAGATTTG
Found at i:18950804 original size:16 final size:16
Alignment explanation
Indices: 18950783--18950834 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
18950773 TTTGGTTCGC
18950783 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18950799 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
18950815 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
18950831 TGTA
1 TGTA
18950835 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18950881 original size:45 final size:44
Alignment explanation
Indices: 18950815--18950909 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
18950805 GGATTAGAGG
* *
18950815 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
18950860 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
18950904 TGTAAT
1 TGTAAT
18950910 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:18951092 original size:18 final size:17
Alignment explanation
Indices: 18951071--18951105 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18951061 TTATTATTTA
*
18951071 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18951089 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18951106 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18951099 original size:28 final size:27
Alignment explanation
Indices: 18951029--18951101 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
18951019 TTTATTATCA
*
18951029 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
18951057 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
18951084 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
18951102 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:18951196 original size:147 final size:149
Alignment explanation
Indices: 18950990--18951264 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
18950980 ATGATTATTG
*
18950990 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
18951055 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
18951120 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
18951139 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
18951202 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
18951265 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:18951239 original size:18 final size:17
Alignment explanation
Indices: 18951218--18951252 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18951208 TTATTATTAA
*
18951218 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18951236 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18951253 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18951296 original size:54 final size:54
Alignment explanation
Indices: 18951238--18951416 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
18951228 ATTAAAATAT
*
18951238 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
18951292 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
18951355 TAT
53 -AC
*
18951358 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
18951412 ATAAT
1 ATAAT
18951417 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:18951359 original size:18 final size:17
Alignment explanation
Indices: 18951338--18951372 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18951328 TTATTATTAA
18951338 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
18951356 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
18951373 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:18951487 original size:18 final size:17
Alignment explanation
Indices: 18951448--18951479 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18951438 TTTTAAATAA
18951448 TTAATATTAAATATATT
1 TTAATATTAAATATATT
18951465 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
18951480 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:18951504 original size:120 final size:120
Alignment explanation
Indices: 18951201--18951493 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
18951191 ATCATATTTA
18951201 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
18951266 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
18951321 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
18951386 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
18951442 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
18951494 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:18951604 original size:91 final size:91
Alignment explanation
Indices: 18951509--18951716 Score: 249
Period size: 91 Copynumber: 2.3 Consensus size: 91
18951499 TAATTATAAC
* * * *
18951509 TAATAAATTATATTTTATGAATTTGTATAATTTAAAA-TAATAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATTAATAA-TATTAAATATAATTTAATAA
*
18951573 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * * *
18951600 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATTATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATTAATAATATTAAATATAATTTAATAAT
* * * *
18951665 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
*
18951691 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
18951717 CTAAAATCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
91 76 0.75
92 24 0.24
93 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATTAATAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:18955658 original size:12 final size:12
Alignment explanation
Indices: 18955643--18955672 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18955633 AATACAAACA
18955643 ACAGAAGCTGCT
1 ACAGAAGCTGCT
18955655 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
18955667 AAAGAA
1 ACAGAA
18955673 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:18966184 original size:64 final size:64
Alignment explanation
Indices: 18966101--18966382 Score: 223
Period size: 64 Copynumber: 4.4 Consensus size: 64
18966091 ACATCTACAG
* * *
18966101 AGAAATTCCGCTGGGACAGTAAACACAGAATAGATAATTCGCTGGGATAGTAAACACAGAATAA
1 AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATTCGCTGGGACAGTAAACACAGAATAA
* ** * * **
18966165 AGAAAGTCTGCTGGGACAGTAAACACATAATAGATAACCCGTTGGGACAATAAACACAGAATGG
1 AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATTCGCTGGGACAGTAAACACAGAATAA
* * * * *
18966229 AGAAAGT-TCGCTAGGACAATAACCATAGAATAGATAGTTCGCTGGGACAGTAAACA-A-AATAC
1 AGAAAGTCT-GCTGGGACAGTAAACACAGAATAGATAATTCGCTGGGACAGTAAACACAGAATA-
18966291 A
64 A
* * * * * * * * *
18966292 GAGATAG-C-CCATGGCTACAGTAAACACATAATAGATAGTTTGCTGGGACAATAAACATAGAAC
1 -AGAAAGTCTGC-TGG-GACAGTAAACACAGAATAGATAATTCGCTGGGACAGTAAACACAGAAT
18966355 AA
63 AA
* ** * *
18966357 ATAAAGTCCACCGAGACAGTAAACAC
1 AGAAAGTCTGCTGGGACAGTAAACAC
18966383 GAGGTAAGTC
Statistics
Matches: 169, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
62 4 0.02
63 4 0.02
64 153 0.91
65 4 0.02
66 4 0.02
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (64 bp):
AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATTCGCTGGGACAGTAAACACAGAATAA
Found at i:18966347 original size:31 final size:31
Alignment explanation
Indices: 18966109--18966353 Score: 181
Period size: 31 Copynumber: 7.7 Consensus size: 31
18966099 AGAGAAATTC
*
18966109 CGCTGGGACAGTAAACACAGAATAGATAATT
1 CGCTGGGACAGTAAACACAGAATAGATAGTT
* *
18966140 CGCTGGGATAGTAAACACAGAATAAAGAAAG-T
1 CGCTGGGACAGTAAACACAGAAT--AGATAGTT
* ***
18966172 CTGCTGGGACAGTAAACACATAATAGATAACC
1 C-GCTGGGACAGTAAACACAGAATAGATAGTT
* * *
18966204 CGTTGGGACAATAAACACAGAATGGAGAAAGTT
1 CGCTGGGACAGTAAACACAGAAT--AGATAGTT
* * * *
18966237 CGCTAGGACAATAACCATAGAATAGATAGTT
1 CGCTGGGACAGTAAACACAGAATAGATAGTT
* * *
18966268 CGCTGGGACAGTAAACA-A-AATACAGAGATAG
1 CGCTGGGACAGTAAACACAGAATAGATAG-T-T
* * *
18966299 CCCATGGCTACAGTAAACACATAATAGATAGTT
1 CGC-TGG-GACAGTAAACACAGAATAGATAGTT
* * *
18966332 TGCTGGGACAATAAACATAGAA
1 CGCTGGGACAGTAAACACAGAA
18966354 CAAATAAAGT
Statistics
Matches: 165, Mismatches: 37, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
29 7 0.04
30 2 0.01
31 80 0.48
32 9 0.05
33 58 0.35
34 2 0.01
35 7 0.04
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (31 bp):
CGCTGGGACAGTAAACACAGAATAGATAGTT
Found at i:18966427 original size:28 final size:28
Alignment explanation
Indices: 18966371--18966428 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
18966361 AGTCCACCGA
* *
18966371 GACAGTAAACACGAGGTAAGTCTGTTGG
1 GACAGTAAACACGAGGTAAGTCCGATGG
* *
18966399 GACAGTAAGCACGGGGTAAGTCCGATGG
1 GACAGTAAACACGAGGTAAGTCCGATGG
18966427 GA
1 GA
18966429 TGAAAAGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.17
Consensus pattern (28 bp):
GACAGTAAACACGAGGTAAGTCCGATGG
Found at i:18980334 original size:29 final size:29
Alignment explanation
Indices: 18980218--18980334 Score: 139
Period size: 29 Copynumber: 4.0 Consensus size: 29
18980208 CACATAGACA
* *
18980218 TCCTTTTAACAAAGATCACCACAAAGGCT
1 TCCTTATAACAGAGATCACCACAAAGGCT
18980247 TCCTTATAACAGAGATCACCA-AAATGGCT
1 TCCTTATAACAGAGATCACCACAAA-GGCT
* *
18980276 TCCTTATAACAGGGATCACCACAAATGCT
1 TCCTTATAACAGAGATCACCACAAAGGCT
* **
18980305 TCCTTAT-ACTAAAGATTGCCACAAAGGCT
1 TCCTTATAAC-AGAGATCACCACAAAGGCT
18980334 T
1 T
18980335 TTTTTTAGAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
28 5 0.07
29 68 0.89
30 3 0.04
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (29 bp):
TCCTTATAACAGAGATCACCACAAAGGCT
Found at i:18980353 original size:26 final size:26
Alignment explanation
Indices: 18980317--18980414 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
18980307 CTTATACTAA
* *
18980317 AGATTGCCACAAAGGCTTTTTTTTAG
1 AGATAGCCACAAAGGCTTTCTTTTAG
*
18980343 AGATAGCCACAAAGGCTTCCTTTTAG
1 AGATAGCCACAAAGGCTTTCTTTTAG
* * * * *
18980369 AAATAGCCACAAAGACGTTCATTCAG
1 AGATAGCCACAAAGGCTTTCTTTTAG
*
18980395 AGATAGGCACAAAGGTCTTT
1 AGATAGCCACAAAGG-CTTT
18980415 TATACGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 55 0.95
27 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
AGATAGCCACAAAGGCTTTCTTTTAG
Found at i:18981625 original size:16 final size:17
Alignment explanation
Indices: 18981604--18981635 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18981594 GCCTCATACC
18981604 TCATAACCATC-CTTTT
1 TCATAACCATCACTTTT
18981620 TCATAACCATCACTTT
1 TCATAACCATCACTTT
18981636 CACTTCGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (17 bp):
TCATAACCATCACTTTT
Found at i:18982513 original size:15 final size:15
Alignment explanation
Indices: 18982493--18982535 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
18982483 CATCAGTGTA
*
18982493 TGATATGTGTTGATG
1 TGATATGTGATGATG
*
18982508 TGATATATGATGATG
1 TGATATGTGATGATG
*
18982523 TTATATGTGATGA
1 TGATATGTGATGA
18982536 AGAAGAAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (15 bp):
TGATATGTGATGATG
Found at i:18991587 original size:20 final size:20
Alignment explanation
Indices: 18991562--18991626 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 20
18991552 ACGCTCTGGT
18991562 TGTATGAAAGCTTGTATCTA
1 TGTATGAAAGCTTGTATCTA
* *
18991582 TGTATGCTACAAG-ATGCAATACTA
1 TGTATG--A-AAGCTTG-TAT-CTA
18991606 TGTATGAAAGCTTGTATCTA
1 TGTATGAAAGCTTGTATCTA
18991626 T
1 T
18991627 CTAGTTGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
20 10 0.29
21 5 0.14
22 6 0.17
23 5 0.14
24 9 0.26
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATGAAAGCTTGTATCTA
Found at i:18995632 original size:18 final size:18
Alignment explanation
Indices: 18995606--18995650 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
18995596 GCAATAAGAA
18995606 AATGTTTTG-AAATTGAAT
1 AATGTTTTGTAAA-TGAAT
*
18995624 AATGATTTGTAAATGAAT
1 AATGTTTTGTAAATGAAT
18995642 AATGTTTTG
1 AATGTTTTG
18995651 GAAACGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (18 bp):
AATGTTTTGTAAATGAAT
Found at i:19009303 original size:50 final size:49
Alignment explanation
Indices: 19009115--19009305 Score: 161
Period size: 50 Copynumber: 3.9 Consensus size: 49
19009105 GATAATAACA
* * ** * * * *
19009115 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
* * * **
19009164 TGCCAATGCCATATCCCAGATATGGTCTT-CTATAGGAGTTCTCATATTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATA-TAG
* ** * *
19009214 TGCCCATGCCATGTCTTAGACATGGTCTTAC-GGGAGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATAT-AG
*
19009264 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19009306 TTACCCAAAT
Statistics
Matches: 110, Mismatches: 26, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.01
49 36 0.33
50 70 0.64
51 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
Found at i:19012220 original size:6 final size:6
Alignment explanation
Indices: 19012205--19012234 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
19012195 GTGTGAGCAT
*
19012205 TTACAA TTACAG TTACAG TTACAG TTACAG
1 TTACAG TTACAG TTACAG TTACAG TTACAG
19012235 GCACACTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (6 bp):
TTACAG
Found at i:19014706 original size:24 final size:24
Alignment explanation
Indices: 19014674--19014741 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
19014664 ATAGTCAGGG
*
19014674 TATTCTGTAAGTTCCTTTGTGGCA
1 TATTCTGTAAGTACCTTTGTGGCA
*
19014698 TATTCTGTAAGTACCTTTGCGGCA
1 TATTCTGTAAGTACCTTTGTGGCA
* *
19014722 TATTCTATAAGTGCCTTTGT
1 TATTCTGTAAGTACCTTTGT
19014742 ATTAAGATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (24 bp):
TATTCTGTAAGTACCTTTGTGGCA
Found at i:19025075 original size:29 final size:29
Alignment explanation
Indices: 19024988--19025075 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 29
19024978 ACTCTACGCT
* *
19024988 GGTGATTATAGTTCCAGGTACTATGTATC
1 GGTGATTATAGTTCCAGGTATTATGTACC
* * * * * * *
19025017 GATGTTTCTA-TTCCAGGCATTTTCTGCC
1 GGTGATTATAGTTCCAGGTATTATGTACC
19025045 GGTGATTATAGTTCCAGGTATTATGTACC
1 GGTGATTATAGTTCCAGGTATTATGTACC
19025074 GG
1 GG
19025076 CTAAAATCTA
Statistics
Matches: 42, Mismatches: 16, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (29 bp):
GGTGATTATAGTTCCAGGTATTATGTACC
Found at i:19032145 original size:9 final size:10
Alignment explanation
Indices: 19032125--19032161 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
19032115 TTATCAGCTT
19032125 TTTCCTAAATG
1 TTTCC-AAATG
19032136 -TTCCAAATG
1 TTTCCAAATG
19032145 TTTCCAAATG
1 TTTCCAAATG
19032155 TTTCCAA
1 TTTCCAA
19032162 TTTAGTCTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (10 bp):
TTTCCAAATG
Found at i:19033273 original size:13 final size:13
Alignment explanation
Indices: 19033255--19033292 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
19033245 CGGCCCGCCC
19033255 ATATTAATTTTTT
1 ATATTAATTTTTT
19033268 ATATT-ATTTTTT
1 ATATTAATTTTTT
19033280 ATA-TAATTTTTT
1 ATATTAATTTTTT
19033292 A
1 A
19033293 AAAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.04
12 18 0.75
13 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:19033502 original size:22 final size:22
Alignment explanation
Indices: 19033468--19033510 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
19033458 GAGTTATACA
19033468 ATAATAACAAAAT-AGTAGAAAC
1 ATAATAACAAAATGA-TAGAAAC
**
19033490 ATAATAATGAAATGATAGAAA
1 ATAATAACAAAATGATAGAAA
19033511 AATAGTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATGATAGAAAC
Found at i:19035846 original size:27 final size:27
Alignment explanation
Indices: 19035813--19036061 Score: 234
Period size: 27 Copynumber: 9.2 Consensus size: 27
19035803 GTGAACTTTG
19035813 AAGGAATGGTATTCATGGAGAACTCTA
1 AAGGAATGGTATTCATGGAGAACTCTA
* * * * *
19035840 AAAGAATGGTACTCATGGTGAAATCTG
1 AAGGAATGGTATTCATGGAGAACTCTA
*
19035867 AAGGAATGGTATTCATGGCA-AACTCAA
1 AAGGAATGGTATTCATGG-AGAACTCTA
* * *
19035894 AAGGAATGGTATTCATGGCGAACTGTT
1 AAGGAATGGTATTCATGGAGAACTCTA
* * * *
19035921 AAGGAATGGTATTCATTGAAAACTTTG
1 AAGGAATGGTATTCATGGAGAACTCTA
* * * *
19035948 AAGGAATGGTTTTCGTGGTGACCTCTA
1 AAGGAATGGTATTCATGGAGAACTCTA
* * *
19035975 AAGGAATGGTATTCGTGGTGACCTCTA
1 AAGGAATGGTATTCATGGAGAACTCTA
*
19036002 AAGGAATGGTACTCATGGCA-AACTCTGA
1 AAGGAATGGTATTCATGG-AGAACTCT-A
* * *
19036030 AA-GAATGGTATTCATAGTGAACTTTA
1 AAGGAATGGTATTCATGGAGAACTCTA
19036056 AAGGAA
1 AAGGAA
19036062 AGACATGCAA
Statistics
Matches: 179, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.02
27 173 0.97
28 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (27 bp):
AAGGAATGGTATTCATGGAGAACTCTA
Found at i:19036058 original size:81 final size:81
Alignment explanation
Indices: 19035803--19036061 Score: 295
Period size: 81 Copynumber: 3.2 Consensus size: 81
19035793 ACCCCATGTT
* * * *
19035803 GTGAACTTTGAAGGAATGGTATTCATGGAGAACTCTAAAAGAATGGTACTCATGGTGAAA-TCTG
1 GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGG-AAAACTCTG
19035867 AAGGAATGGTATTCATG
65 AAGGAATGGTATTCATG
** * * * * * * *
19035884 GCAAACTCAAAAGGAATGGTATTCATGGCGAACTGTTAAGGAATGGTATTCATTGAAAACTTTGA
1 GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGGAAAACTCTGA
* *
19035949 AGGAATGGTTTTCGTG
66 AGGAATGGTATTCATG
* * * * *
19035965 GTGACCTCTAAAGGAATGGTATTCGTGGTGACCTCTAAAGGAATGGTACTCATGGCAAACTCTGA
1 GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGGAAAACTCTGA
* *
19036030 AAGAATGGTATTCATA
66 AGGAATGGTATTCATG
*
19036046 GTGAACTTTAAAGGAA
1 GTGAACTCTAAAGGAA
19036062 AGACATGCAA
Statistics
Matches: 143, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
80 3 0.02
81 140 0.98
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (81 bp):
GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGGAAAACTCTGA
AGGAATGGTATTCATG
Found at i:19038318 original size:18 final size:18
Alignment explanation
Indices: 19038295--19038329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19038285 CAAGAATAGT
*
19038295 AAGCATCAAAATGGTTTC
1 AAGCATCAAAATAGTTTC
*
19038313 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
19038330 GGTACATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Done.