Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 95 of 147
Found at i:17439516 original size:15 final size:15
Alignment explanation
Indices: 17439496--17439527 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17439486 ATTTATTGTG
17439496 TATGAAGCTTGTGTT
1 TATGAAGCTTGTGTT
*
17439511 TATGAAGTTTGTGTT
1 TATGAAGCTTGTGTT
17439526 TA
1 TA
17439528 GATTTTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (15 bp):
TATGAAGCTTGTGTT
Found at i:17439557 original size:22 final size:22
Alignment explanation
Indices: 17439510--17439557 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17439500 AAGCTTGTGT
* *
17439510 TTATGAAGTTTGTGTTTAGATT
1 TTATGAAGCTTGTGTTTAGATA
17439532 TTATGAAGCTTGTGTTTATGA-A
1 TTATGAAGCTTGTGTTTA-GATA
17439554 TTAT
1 TTAT
17439558 ATGAATTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (22 bp):
TTATGAAGCTTGTGTTTAGATA
Found at i:17444017 original size:31 final size:32
Alignment explanation
Indices: 17443982--17444045 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
17443972 TTAACCTATC
17443982 ATTAGCATCATAGAGGGAAA-TTAAGTAACCA
1 ATTAGCATCATAGAGGGAAAGTTAAGTAACCA
* *
17444013 ATTAGTATCATAGAGGGAAAGTTAAGTGACCA
1 ATTAGCATCATAGAGGGAAAGTTAAGTAACCA
17444045 A
1 A
17444046 CTACCATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (32 bp):
ATTAGCATCATAGAGGGAAAGTTAAGTAACCA
Found at i:17447877 original size:13 final size:13
Alignment explanation
Indices: 17447853--17447926 Score: 71
Period size: 13 Copynumber: 5.8 Consensus size: 13
17447843 ATAAAAATAT
*
17447853 TATAAAAATATCA
1 TATAATAATATCA
*
17447866 TGTAATAATATC-
1 TATAATAATATCA
*
17447878 -ATAATAAAATCA
1 TATAATAATATCA
*
17447890 TGTAATAATATCA
1 TATAATAATATCA
* *
17447903 TACAACAATATCA
1 TATAATAATATCA
*
17447916 TAAAATAATAT
1 TATAATAATAT
17447927 AATAAAAATC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
11 9 0.19
13 39 0.81
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (13 bp):
TATAATAATATCA
Found at i:17447881 original size:24 final size:24
Alignment explanation
Indices: 17447828--17447935 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
17447818 ATGCAAAATG
*
17447828 TATCATAAAAATAT--TATAAAAA
1 TATCATAAAAATATCATATAATAA
* *
17447850 TATTATAAAAATATCATGTAATAA
1 TATCATAAAAATATCATATAATAA
*
17447874 TATCATAATAAA-ATCATGTAATAA
1 TATCATAA-AAATATCATATAATAA
*
17447898 TATCATACAACAATATCATAAAATAA
1 TATCATA-AA-AATATCATATAATAA
*
17447924 TATAATAAAAAT
1 TATCATAAAAAT
17447936 CATACAAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
22 13 0.18
24 36 0.49
25 8 0.11
26 16 0.22
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.32
Consensus pattern (24 bp):
TATCATAAAAATATCATATAATAA
Found at i:17447882 original size:11 final size:11
Alignment explanation
Indices: 17447828--17447931 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
17447818 ATGCAAAATG
*
17447828 TATCATAAAAA
1 TATCATAATAA
* *
17447839 TATTATAAAAA
1 TATCATAATAA
* *
17447850 TATTATAAAAA
1 TATCATAATAA
17447861 TATCATGTAATAA
1 TATCA--TAATAA
17447874 TATCATAATAA
1 TATCATAATAA
*
17447885 AATCATGTAATAA
1 TATCA--TAATAA
*
17447898 TATCATACAACAA
1 TATCAT--AATAA
17447911 TATCATAA-AA
1 TATCATAATAA
17447921 TAAT-ATAATAA
1 T-ATCATAATAA
17447932 AAATCATACA
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
10 7 0.09
11 42 0.53
13 30 0.38
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (11 bp):
TATCATAATAA
Found at i:17447931 original size:13 final size:13
Alignment explanation
Indices: 17447828--17447933 Score: 66
Period size: 13 Copynumber: 8.8 Consensus size: 13
17447818 ATGCAAAATG
17447828 TATCAT-AAA-AA
1 TATCATAAAATAA
*
17447839 TATTAT-AAA-AA
1 TATCATAAAATAA
*
17447850 TATTAT-AAA-AA
1 TATCATAAAATAA
**
17447861 TATCATGTAATAA
1 TATCATAAAATAA
17447874 TATCAT--AATAA
1 TATCATAAAATAA
* **
17447885 AATCATGTAATAA
1 TATCATAAAATAA
* *
17447898 TATCATACAACAA
1 TATCATAAAATAA
17447911 TATCATAAAATAA
1 TATCATAAAATAA
*
17447924 TATAATAAAA
1 TATCATAAAA
17447934 ATCATACAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
11 36 0.45
12 2 0.03
13 42 0.52
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (13 bp):
TATCATAAAATAA
Found at i:17447966 original size:34 final size:35
Alignment explanation
Indices: 17447881--17447972 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 35
17447871 TAATATCATA
* * * *
17447881 ATAAAATCATGTAAT-AATATCATACAACAATATC
1 ATAAAATAATATAATAAAAATCATACAACAAAATC
17447915 ATAAAATAATATAATAAAAATCATACAA-AAAATC
1 ATAAAATAATATAATAAAAATCATACAACAAAATC
* *
17447949 ATGAAATAGTATAATAAAAATCAT
1 ATAAAATAATATAATAAAAATCAT
17447973 GCAATAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
34 40 0.78
35 11 0.22
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (35 bp):
ATAAAATAATATAATAAAAATCATACAACAAAATC
Found at i:17447967 original size:22 final size:22
Alignment explanation
Indices: 17447942--17447991 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
17447932 AAATCATACA
* *
17447942 AAAAATCATGAAATAGTATAAT
1 AAAAATCATGAAATAATATAAG
*
17447964 AAAAATCATGCAATAATATAAG
1 AAAAATCATGAAATAATATAAG
17447986 AAAAAT
1 AAAAAT
17447992 TATAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.24
Consensus pattern (22 bp):
AAAAATCATGAAATAATATAAG
Found at i:17447996 original size:34 final size:34
Alignment explanation
Indices: 17447899--17448020 Score: 102
Period size: 34 Copynumber: 3.5 Consensus size: 34
17447889 ATGTAATAAT
* * * *
17447899 ATCATACAACAATATCATAAAATAATATAATAAAA
1 ATCATACAATAATATAAGAAAA-AGTATAATAAAA
* * *
17447934 ATCATACAA-AAAATCATGAAATAGTATAATAAAA
1 ATCATACAATAATAT-AAGAAAAAGTATAATAAAA
* * *
17447968 ATCATGCAATAATATAAGAAAAATTATAAAAAAAAA
1 ATCATACAATAATATAAGAAAAAGTAT--AATAAAA
*
17448004 ATCATACAATGATATAA
1 ATCATACAATAATATAA
17448021 AAATCATGTA
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
34 32 0.46
35 16 0.23
36 21 0.30
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (34 bp):
ATCATACAATAATATAAGAAAAAGTATAATAAAA
Found at i:17449667 original size:126 final size:123
Alignment explanation
Indices: 17449406--17449830 Score: 381
Period size: 126 Copynumber: 3.4 Consensus size: 123
17449396 ATTTTATTCT
* * * * * * ** *
17449406 TTATTTAAGGTATTTTTTGACAAAAACACCTTAAAAAATCTCCTTTAAAATATATCAGTGAATTT
1 TTATTTAAGGCATTTTTGGA-TAAAATACCTTAAATAATCTCATTTAAAATGCATCAG-G-A-TA
** * * *
17449471 TTTTATGATATTTTTAGTCTAAAAATACCTCAAATAATACCCTTAAATTTTTTTTTATTTGGC
62 TTTTAAAATATTTTTAGTCTAAAAATACCTTAAATAATACCTTTCAA-TTTTTTTTATTTGGC
* *
17449534 TTATTTAATGCATTTTTGGATAAAGATACCTTAAATAAT-TCTTTTAAAAATGCATCAGTGGAT-
1 TTATTTAAGGCATTTTTGGATAAA-ATACCTTAAATAATCTCATTT-AAAATGCATCA--GGATA
* * *
17449597 TTTTAAAAATATTTTTAGTC-CAAAATGCCTTAAATAATACCTTTCAATTTTTTTAAATTTGGC
62 TTTT-AAAATATTTTTAGTCTAAAAATACCTTAAATAATACCTTTCAATTTTTTT-TATTTGGC
* * * * * **
17449660 TTATTTAAGGTATTTTTGAAAAAAAAAATCTTAAATAATCTCATTTAAAATTTATCAGGATATTT
1 TTATTTAAGGCATTTTTG-GATAAAATACCTTAAATAATCTCATTTAAAATGCATCAGGATATTT
** ** * * *
17449725 TAAGGTGCTTTTAGTCTAAAAACACCTTAAATAATATCTTTCAATTTTTTTTATTGGGC
65 TAAAATATTTTTAGTCTAAAAATACCTTAAATAATACCTTTCAATTTTTTTTATTTGGC
* * * *
17449784 TTATTTAAGGCA-TTTTGGATAAAATGCTTTAAATAATCCCCTTTAAA
1 TTATTTAAGGCATTTTTGGATAAAATACCTTAAATAATCTCATTTAAA
17449831 TGTATTAGCA
Statistics
Matches: 242, Mismatches: 45, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
122 22 0.09
123 5 0.02
124 32 0.13
125 41 0.17
126 70 0.29
127 31 0.13
128 39 0.16
129 1 0.00
130 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (123 bp):
TTATTTAAGGCATTTTTGGATAAAATACCTTAAATAATCTCATTTAAAATGCATCAGGATATTTT
AAAATATTTTTAGTCTAAAAATACCTTAAATAATACCTTTCAATTTTTTTTATTTGGC
Found at i:17450231 original size:62 final size:61
Alignment explanation
Indices: 17450165--17450336 Score: 168
Period size: 61 Copynumber: 2.8 Consensus size: 61
17450155 ATTTTAAAAG
* *
17450165 GGATTATTTAA-GTTTTTTTGGATAAAAAATGCCTTAAATAGTCCCCTTTCAAAAAATATTA
1 GGATTATTTAAGGTATTTTTGGATAAAAAATGCCTTAAATAATCCCCTTT-AAAAAATATTA
** ** ** **
17450226 CGGATTATTTAAGGCGTTTTTAAATAAAAAACACCTTAAATAATTTCCTTTAAAAAATATTA
1 -GGATTATTTAAGGTATTTTTGGATAAAAAATGCCTTAAATAATCCCCTTTAAAAAATATTA
* * ** *
17450288 AGATTACTTAAGGTATTTTTGGACCAAAAATAG-CTTAAATAATCTCCTT
1 GGATTATTTAAGGTATTTTTGGATAAAAAAT-GCCTTAAATAATCCCCTT
17450337 ATATTTTTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
61 37 0.42
62 22 0.25
63 29 0.33
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (61 bp):
GGATTATTTAAGGTATTTTTGGATAAAAAATGCCTTAAATAATCCCCTTTAAAAAATATTA
Found at i:17451267 original size:23 final size:21
Alignment explanation
Indices: 17451217--17451316 Score: 67
Period size: 22 Copynumber: 4.6 Consensus size: 21
17451207 AAAAATTCAA
* *
17451217 AAGTTTTCAAAATG-TACCTTG
1 AAGTTTTAAAAATGATA-CTCG
17451238 AAGTTTTAAAAAGTGATACTCG
1 AAGTTTTAAAAA-TGATACTCG
* * *
17451260 AAGATTTTGAAAATGGTACTCAA
1 AAG-TTTTAAAAATGATACTC-G
* * *
17451283 AAGTTTTAAAGATAATACTTG
1 AAGTTTTAAAAATGATACTCG
*
17451304 AAGGTTCTAAAAA
1 AA-GTTTTAAAAA
17451317 AAATATTTGA
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 13 0.21
22 35 0.57
23 13 0.21
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (21 bp):
AAGTTTTAAAAATGATACTCG
Found at i:17451321 original size:22 final size:22
Alignment explanation
Indices: 17451282--17451339 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17451272 ATGGTACTCA
* * *
17451282 AAAGTTTTAAAGATAATACTTG
1 AAAGTTCTAAAAAAAATACTTG
* *
17451304 AAGGTTCTAAAAAAAATATTTG
1 AAAGTTCTAAAAAAAATACTTG
*
17451326 AAAGTTTTAAAAAA
1 AAAGTTCTAAAAAA
17451340 GAAATGTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (22 bp):
AAAGTTCTAAAAAAAATACTTG
Found at i:17451434 original size:67 final size:67
Alignment explanation
Indices: 17451347--17451495 Score: 158
Period size: 67 Copynumber: 2.2 Consensus size: 67
17451337 AAAGAAATGT
* ** *
17451347 AAAGATTTTAGAAATCATACCTA-AAAGATTTTGAAGATGATATTTGGAGGTTTTTG-AGAAAGA
1 AAAG-TTTTA-AAATCATACCTATAAA-ATTTTAAAGATGATACCTAGAGGTTTTTGAAG-AAGA
**
17451410 TACTTG
62 TACTAA
* * *
17451416 AAAGTTTTAAAATGATACCTATATATTTTTAAAGATGATACCTAGAGGTTTTTGAAGAAGATACT
1 AAAGTTTTAAAATCATACCTATAAAATTTTAAAGATGATACCTAGAGGTTTTTGAAGAAGATACT
17451481 AA
66 AA
17451483 AAAGTTGTTAAAA
1 AAAGTT-TTAAAA
17451496 ATTATGTCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
67 49 0.72
68 15 0.22
69 4 0.06
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (67 bp):
AAAGTTTTAAAATCATACCTATAAAATTTTAAAGATGATACCTAGAGGTTTTTGAAGAAGATACT
AA
Found at i:17451467 original size:23 final size:23
Alignment explanation
Indices: 17451420--17451479 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
17451410 TACTTGAAAG
* *
17451420 TTTTAAA-ATGATACCTATATAT
1 TTTTAAAGATGATACCTAGAGAT
*
17451442 TTTTAAAGATGATACCTAGAGGT
1 TTTTAAAGATGATACCTAGAGAT
* *
17451465 TTTTGAAGAAGATAC
1 TTTTAAAGATGATAC
17451480 TAAAAAGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (23 bp):
TTTTAAAGATGATACCTAGAGAT
Found at i:17451687 original size:22 final size:23
Alignment explanation
Indices: 17451638--17451700 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
17451628 AAAGGTACTA
* *
17451638 GAAGGTTTTAAAAATCATGCATT
1 GAAGGTTTTATAAATCATGCATC
17451661 G-AGGTTTTATAAATCATGCA-C
1 GAAGGTTTTATAAATCATGCATC
*
17451682 GAAGGTATTT-TAGATCATG
1 GAAGGT-TTTATAAATCATG
17451701 TTTTGAGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 30 0.86
23 4 0.11
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (23 bp):
GAAGGTTTTATAAATCATGCATC
Found at i:17452303 original size:29 final size:29
Alignment explanation
Indices: 17452270--17452329 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17452260 TATTCATGGA
17452270 TCTTTTCTAATCCTTTACTTTAGACATTC
1 TCTTTTCTAATCCTTTACTTTAGACATTC
17452299 TCTTTTCTAATCCTTTACTTTAGACATTC
1 TCTTTTCTAATCCTTTACTTTAGACATTC
17452328 TC
1 TC
17452330 CTTGTCCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.03, T:0.52
Consensus pattern (29 bp):
TCTTTTCTAATCCTTTACTTTAGACATTC
Found at i:17456916 original size:18 final size:17
Alignment explanation
Indices: 17456895--17456929 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17456885 TTTTTTTATT
17456895 TTCCTTACTTTTCTCTTC
1 TTCCTTAC-TTTCTCTTC
*
17456913 TTCCTTTCTTTCTCTTC
1 TTCCTTACTTTCTCTTC
17456930 AATTGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCCTTACTTTCTCTTC
Found at i:17457327 original size:11 final size:11
Alignment explanation
Indices: 17457295--17457333 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17457285 TTTTGCTACC
17457295 ATTTTTTTCTTG
1 ATTTTTTT-TTG
*
17457307 ATTCTTTTTTG
1 ATTTTTTTTTG
*
17457318 ATTTTTTTTTA
1 ATTTTTTTTTG
17457329 ATTTT
1 ATTTT
17457334 CCTAATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (11 bp):
ATTTTTTTTTG
Found at i:17457991 original size:16 final size:17
Alignment explanation
Indices: 17457955--17458001 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
17457945 AAAATAACCA
17457955 AAAATAGAATAAAACAT
1 AAAATAGAATAAAACAT
17457972 AAAAT-GAAATAAAA-AT
1 AAAATAG-AATAAAACAT
17457988 AAAATAGAATAAAA
1 AAAATAGAATAAAA
17458002 GAAGTACGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAGAATAAAACAT
Found at i:17459104 original size:10 final size:10
Alignment explanation
Indices: 17459071--17459108 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
17459061 AAAATACGAT
17459071 ATGAAAATAA
1 ATGAAAATAA
17459081 TATGAAAA-AA
1 -ATGAAAATAA
17459091 ATGAAAATAA
1 ATGAAAATAA
17459101 ATGAAAAT
1 ATGAAAAT
17459109 CAAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 7 0.27
10 12 0.46
11 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (10 bp):
ATGAAAATAA
Found at i:17463872 original size:13 final size:12
Alignment explanation
Indices: 17463840--17463912 Score: 62
Period size: 12 Copynumber: 6.0 Consensus size: 12
17463830 AATTTTGCAC
*
17463840 AAAATATTATAA
1 AAAATATCATAA
17463852 AAAA-ATCATAA
1 AAAATATCATAA
* *
17463863 AAGAATATCACAG
1 AA-AATATCATAA
17463876 AAAATATCATAA
1 AAAATATCATAA
17463888 TAAAATATGCA-AA
1 -AAAATAT-CATAA
17463901 AATAAT-TCATAA
1 AA-AATATCATAA
17463913 TGAAATTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
11 10 0.20
12 19 0.38
13 19 0.38
14 2 0.04
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (12 bp):
AAAATATCATAA
Found at i:17464530 original size:19 final size:19
Alignment explanation
Indices: 17464488--17464531 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17464478 AGCTTTCATA
17464488 AAAAAATTCAACAAAAACC
1 AAAAAATTCAACAAAAACC
* * * *
17464507 CAAAAATTCAATAAATAGC
1 AAAAAATTCAACAAAAACC
17464526 AAAAAA
1 AAAAAA
17464532 ACTAAAAACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.68, C:0.16, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAATTCAACAAAAACC
Found at i:17465082 original size:13 final size:13
Alignment explanation
Indices: 17465064--17465089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17465054 ACAAAAATAG
17465064 TAAAAATAATAAA
1 TAAAAATAATAAA
17465077 TAAAAATAATAAA
1 TAAAAATAATAAA
17465090 ATGAATAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAAATAATAAA
Found at i:17465084 original size:22 final size:22
Alignment explanation
Indices: 17465056--17465098 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17465046 ATCAAATAAC
*
17465056 AAAAATAGTAAAAAT-AATAAAT
1 AAAAATAAT-AAAATGAATAAAT
17465078 AAAAATAATAAAATGAATAAA
1 AAAAATAATAAAATGAATAAA
17465099 GGCATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAAATAATAAAATGAATAAAT
Found at i:17473302 original size:17 final size:18
Alignment explanation
Indices: 17473274--17473317 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
17473264 TATAGGGACT
17473274 TTTTTATTTAAA-AAA-GA
1 TTTTT-TTTAAAGAAAGGA
17473291 TTATTTTTTAAAGAAAGGA
1 TT-TTTTTTAAAGAAAGGA
17473310 TTTTTTTT
1 TTTTTTTT
17473318 TGTTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
TTTTTTTTAAAGAAAGGA
Found at i:17473318 original size:19 final size:17
Alignment explanation
Indices: 17473273--17473318 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
17473263 TTATAGGGAC
17473273 TTTTTTATTTAAAAAAGA
1 TTTTTT-TTTAAAAAAGA
*
17473291 TTATTTTTTAAAGAAAGGA
1 TTTTTTTTTAAA-AAA-GA
17473310 TTTTTTTTT
1 TTTTTTTTT
17473319 GTTTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (17 bp):
TTTTTTTTTAAAAAAGA
Found at i:17473491 original size:11 final size:11
Alignment explanation
Indices: 17473477--17473510 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
17473467 TAAAATTTCT
17473477 CAAAAATAAAA
1 CAAAAATAAAA
*
17473488 CAAAAAAAAAA
1 CAAAAATAAAA
17473499 CTAAAAATAAAA
1 C-AAAAATAAAA
17473511 TGAGCTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
CAAAAATAAAA
Found at i:17473976 original size:20 final size:21
Alignment explanation
Indices: 17473951--17473994 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17473941 ACTCCTGAAT
*
17473951 CCTCC-AAAACCTTAATCCAA
1 CCTCCAAAAACCTAAATCCAA
*
17473971 CCTCCAAAAACCTAAATCTAA
1 CCTCCAAAAACCTAAATCCAA
17473992 CCT
1 CCT
17473995 AGAATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTCCAAAAACCTAAATCCAA
Found at i:17474372 original size:3 final size:3
Alignment explanation
Indices: 17474366--17474410 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
17474356 AAAAAAAATA
* *
17474366 AAT AAT AAC AAT CAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17474411 TATAGTAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17474419 original size:3 final size:3
Alignment explanation
Indices: 17474413--17474442 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17474403 TAATAATATA
*
17474413 TAG TAG TAG TAG TTG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
17474443 CAATCATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (3 bp):
TAG
Found at i:17474454 original size:3 final size:3
Alignment explanation
Indices: 17474448--17474477 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17474438 AGTAGCAATC
*
17474448 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17474478 TGATATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17474533 original size:27 final size:26
Alignment explanation
Indices: 17474480--17474580 Score: 69
Period size: 29 Copynumber: 3.6 Consensus size: 26
17474470 TAATAATATG
*
17474480 ATATGATATACTAATAATGATAAATAAAA
1 ATATAATATACTAAT-ATGAT--ATAAAA
17474509 ATATAATAGTACTAATATGATATAATATA
1 ATATAATA-TACTAATATGATATAA-A-A
* * * *
17474538 TTATACTATA-TAATGTGATATAATA
1 ATATAATATACTAATATGATATAAAA
*
17474563 ATACTAATAGTAATAATA
1 ATA-TAATA-TACTAATA
17474581 ACATACTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
25 3 0.05
26 4 0.07
27 18 0.31
28 7 0.12
29 19 0.33
30 7 0.12
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (26 bp):
ATATAATATACTAATATGATATAAAA
Found at i:17475129 original size:23 final size:23
Alignment explanation
Indices: 17475103--17475164 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
17475093 AAAAAATATC
*
17475103 ATTTA-AAAAACATCATGCAATAA
1 ATTTATAAAAA-ATCATACAATAA
*
17475126 ATTTATACAAAATCATACAATAA
1 ATTTATAAAAAATCATACAATAA
*
17475149 A-TCATAAACAAATCAT
1 ATTTATAAA-AAATCAT
17475165 CAAAAAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.15
23 24 0.73
24 4 0.12
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (23 bp):
ATTTATAAAAAATCATACAATAA
Found at i:17475483 original size:9 final size:9
Alignment explanation
Indices: 17475471--17475500 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17475461 TTTTTTATTT
17475471 TTTTGTTCC
1 TTTTGTTCC
17475480 TTTTGTTCC
1 TTTTGTTCC
*
17475489 TTTTGTTTC
1 TTTTGTTCC
17475498 TTT
1 TTT
17475501 CTAGCTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.73
Consensus pattern (9 bp):
TTTTGTTCC
Found at i:17476129 original size:12 final size:12
Alignment explanation
Indices: 17476093--17476134 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
17476083 ACTTTTGACC
17476093 AAAAATAAAATTA
1 AAAAAT-AAATTA
*
17476106 AATAATTAAATTA
1 AA-AAATAAATTA
17476119 AAAAATAAATTA
1 AAAAATAAATTA
17476131 AAAA
1 AAAA
17476135 CATTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 13 0.50
13 10 0.38
14 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATAAATTA
Found at i:17476232 original size:22 final size:22
Alignment explanation
Indices: 17476170--17476222 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
17476160 TCTTTGACCA
* *
17476170 AATAACAAAAGT-AGTAAAAAT
1 AATAAGAAAAGTAACTAAAAAT
17476191 AATAAGAAAAGTAACTAAAAAT
1 AATAAGAAAAGTAACTAAAAAT
*
17476213 AATAATAAAA
1 AATAAGAAAA
17476223 TGAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAAGAAAAGTAACTAAAAAT
Found at i:17477430 original size:236 final size:233
Alignment explanation
Indices: 17476837--17477737 Score: 948
Period size: 236 Copynumber: 3.8 Consensus size: 233
17476827 TTTTTATCAT
* * * * *
17476837 TTTTTTTATTTTAGGTGATGTTATAATTTTGTCA-CAAATCAAAAATTTTATTTGTGATGAATTT
1 TTTTTTTATTTTAAGTGACGTTATAATTTTGTCACCAATTC-AAAATTTTATCTATGATGAA-TT
*
17476901 TTTTCTTATAGATTTTAAGTGACGTTATTAATTTTTGTTACAAATTGAACACTTTTA-TTAACTA
64 TTTTC-TATAGATTTTAAGTGACGTTATTAATTTTTGTCACAAATTGAACAC-TTTAGTTAACTA
* * *** * * *
17476965 TAAATGACATTAAAATTTCGTCGTGTCAATTTATGGTGTTATATGATGATAACATAAATGTCAAA
127 TTAATGACATTACAATTTCGTCACATCAA--TATGGTATTATATGATGATAACATAAATATCACA
*
17477030 AACTCTTATCACCAAATTTATTTGGTGAAAAATTTTTTGTGAC-
190 AACTTTTATCACCAAATTTATTTGGTGAAAAATTTTTTGTGACG
* * * * * * *
17477073 ATTTTTTAATTTAGGTGAAGTTACAATTTTGTCACCAATTTAAAATTTTATCTATGACG-ATTTT
1 TTTTTTTATTTTAAGTGACGTTATAATTTTGTCACCAATTCAAAATTTTATCTATGATGAATTTT
* * *
17477137 TT-TATAGATTTTAGGTGACGTTATTAATTTTTGTCACAAATTAAACATTTTAGTTAACTATTAA
66 TTCTATAGATTTTAAGTGACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAA
* * *
17477201 TGACATTGCAATTTTGTCACATC-ATATGGTATTATATGATGATAGCATAAATATCACAAACTTT
131 TGACATTACAATTTCGTCACATCAATATGGTATTATATGATGATAACATAAATATCACAAACTTT
* * * *
17477265 TATCATCGAATTTATTTGATGGAAAATATTTTTGTGACG
196 TATCACCAAATTTATTTGGTGAAAAAT-TTTTTGTGACG
* *
17477304 TTTTTTTTTTATTTTAAGTGACGTTATAATTTTATCA-TAATTCAAAATTTTATCTATGATGAAT
1 ---TTTTTTTATTTTAAGTGACGTTATAATTTTGTCACCAATTCAAAATTTTATCTATGATGAAT
* * * * *
17477368 TTTTTCTAATAGGTTTTAAGCGATGTTATTAATATTTGTCACAAAGTGAACACTTTAGTTAACTA
63 TTTTTCT-ATAGATTTTAAGTGACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTA
** * ** * * * * * *
17477433 TTAATGATGTTACAATTTCATCATGTCAATATATGATGTTATATGATAATAACATAAATGTTATA
127 TTAATGACATTACAATTTCGTCACATC-A-ATATGGTATTATATGATGATAACATAAATATCACA
* *
17477498 AACTTTTA-CAGCTAAATTTATTTGGTGAAAAATTTTTTTATGACG
190 AACTTTTATCA-CCAAATTTATTTGGTGAAAAA-TTTTTTGTGACG
* * *
17477543 -TTTTTTATTTTAAGTGACGTTATAATTTTGTAACCAATGT-AAAATTTTATCTGTGATGAATGT
1 TTTTTTTATTTTAAGTGACGTTATAATTTTGTCACCAAT-TCAAAATTTTATCTATGATGAATTT
* * * * * *
17477606 TTTCTGATAGATTTTAGGTGATGTTATGAATTTTTATCAC--A--GAATACTTTTGTTAACTATT
65 TTTCT-ATAGATTTTAAGTGACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATT
* * *
17477667 AATGACATTGCAATTTCATCGCATCAATATATGGTATTATATGATGATAACATAAATATCACAAA
129 AATGACATTACAATTTCGTCACATC-A-ATATGGTATTATATGATGATAACATAAATATCACAAA
*
17477732 TTTTTA
192 CTTTTA
17477738 AATAATGTTA
Statistics
Matches: 555, Mismatches: 93, Indels: 38
0.81 0.14 0.06
Matches are distributed among these distances:
229 58 0.10
230 10 0.02
231 5 0.01
232 145 0.26
233 21 0.04
234 42 0.08
235 33 0.06
236 171 0.31
237 5 0.01
238 2 0.00
239 62 0.11
240 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (233 bp):
TTTTTTTATTTTAAGTGACGTTATAATTTTGTCACCAATTCAAAATTTTATCTATGATGAATTTT
TTCTATAGATTTTAAGTGACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAA
TGACATTACAATTTCGTCACATCAATATGGTATTATATGATGATAACATAAATATCACAAACTTT
TATCACCAAATTTATTTGGTGAAAAATTTTTTGTGACG
Found at i:17482078 original size:193 final size:193
Alignment explanation
Indices: 17481749--17482134 Score: 763
Period size: 193 Copynumber: 2.0 Consensus size: 193
17481739 TATATGTATA
17481749 TGTCTGAAAGTGATTAAGATTATTGCCACGCATCACAAAATAATACTTATAGGCTTTTAAAATAA
1 TGTCTGAAAGTGATTAAGATTATTGCCACGCATCACAAAATAATACTTATAGGCTTTTAAAATAA
17481814 CAGGCTTGGATTAGTTGTAGGCTTTCAAAAAGAGAAAAGTTACATATAGTTTCAGGATAGGGACT
66 CAGGCTTGGATTAGTTGTAGGCTTTCAAAAAGAGAAAAGTTACATATAGTTTCAGGATAGGGACT
17481879 CATGATTGGCAAATTATTAAGGAATATATATATATGACGAATTAAAACAGCTCAATATTTCTT
131 CATGATTGGCAAATTATTAAGGAATATATATATATGACGAATTAAAACAGCTCAATATTTCTT
*
17481942 TGTCTGAAAGTGATTAAGATTATTGCCACGCATCACAAAATAATACTTATGGGCTTTTAAAATAA
1 TGTCTGAAAGTGATTAAGATTATTGCCACGCATCACAAAATAATACTTATAGGCTTTTAAAATAA
17482007 CAGGCTTGGATTAGTTGTAGGCTTTCAAAAAGAGAAAAGTTACATATAGTTTCAGGATAGGGACT
66 CAGGCTTGGATTAGTTGTAGGCTTTCAAAAAGAGAAAAGTTACATATAGTTTCAGGATAGGGACT
17482072 CATGATTGGCAAATTATTAAGGAATATATATATATGACGAATTAAAACAGCTCAATATTTCTT
131 CATGATTGGCAAATTATTAAGGAATATATATATATGACGAATTAAAACAGCTCAATATTTCTT
17482135 GTTGAAGTTT
Statistics
Matches: 192, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 192 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (193 bp):
TGTCTGAAAGTGATTAAGATTATTGCCACGCATCACAAAATAATACTTATAGGCTTTTAAAATAA
CAGGCTTGGATTAGTTGTAGGCTTTCAAAAAGAGAAAAGTTACATATAGTTTCAGGATAGGGACT
CATGATTGGCAAATTATTAAGGAATATATATATATGACGAATTAAAACAGCTCAATATTTCTT
Found at i:17485235 original size:3 final size:3
Alignment explanation
Indices: 17485222--17485262 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
17485212 TAAAACCATA
*
17485222 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17485263 GTATAACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:17485511 original size:16 final size:17
Alignment explanation
Indices: 17485490--17485524 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17485480 TTAAGCCTTA
17485490 TATTTATGT-AAAATTT
1 TATTTATGTAAAAATTT
*
17485506 TATTTATTTAAAAATTT
1 TATTTATGTAAAAATTT
17485523 TA
1 TA
17485525 ACTAGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTTATGTAAAAATTT
Found at i:17486015 original size:19 final size:19
Alignment explanation
Indices: 17485991--17486028 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17485981 CTCTGTTGGC
*
17485991 AGTAGCTATGAACCAACAA
1 AGTAGCTATGAAACAACAA
17486010 AGTAGCTATGAAACAACAA
1 AGTAGCTATGAAACAACAA
17486029 GCTCGGGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (19 bp):
AGTAGCTATGAAACAACAA
Found at i:17487433 original size:144 final size:145
Alignment explanation
Indices: 17487170--17487561 Score: 357
Period size: 144 Copynumber: 2.7 Consensus size: 145
17487160 GATTTTAAAG
* * * ** * * * **
17487170 CATGAAATATTATAACACTAAGATTTGAAAAGTTTCGTGAAATTTTAAG-TTCGAAAAAG-TCAA
1 CATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTTCG-AAAAGCT-AA
* * * * * * **
17487233 ATTATAAAAATACCTCT-TAAAAGATATTTTGATAATTTCA-CACTTTTCG-GGATACTGCTGTG
64 ATTACAAAAATACCCCTAT-AAGGGTATTTTGATAATTTTATC-CTTTTTGAGG-TACTGCTACG
*
17487295 GTTTCAAACT-CACCAAAAAT
126 ATTTCAAA-TACACCAAAAAT
*
17487315 TATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGC-TCGAAAAGCTAAAT
1 CATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTTCGAAAAGCTAAAT
* *
17487379 TACAAAAATACCCCTATAAGGGTATTTTGGTAATTTTATCCTTTTTGAGGTACTGCTACGATTTT
66 TACAAAAATACCCCTATAAGGGTATTTTGATAATTTTATCCTTTTTGAGGTACTGCTACGATTTC
*
17487444 AAATACTCCAAAAAT
131 AAATACACCAAAAAT
* ** ** * * * * * * *
17487459 CATGAAATATTATAAAATTAAGATTTGAAACTTTTTATGAAAATCCAAGCTTGGTAAGGTTAATT
1 CATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTTCGAAAAGCTAAAT
*
17487524 TACAAAAATACCCTTATAAGGGTATTTTGATAATTTTA
66 TACAAAAATACCCCTATAAGGGTATTTTGATAATTTTA
17487562 CTTTTCTCGG
Statistics
Matches: 202, Mismatches: 38, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
143 1 0.00
144 110 0.54
145 91 0.45
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (145 bp):
CATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTTCGAAAAGCTAAAT
TACAAAAATACCCCTATAAGGGTATTTTGATAATTTTATCCTTTTTGAGGTACTGCTACGATTTC
AAATACACCAAAAAT
Found at i:17487601 original size:144 final size:143
Alignment explanation
Indices: 17487307--17487589 Score: 327
Period size: 145 Copynumber: 2.0 Consensus size: 143
17487297 TTCAAACTCA
*
17487307 CCAAAAATTATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTCGAAAA
1 CCAAAAATCATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTCGAAAA
* * *
17487372 GCTAAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTTATCCTTTTTGAGGTACTGCTA
66 GCTAAATTACAAAAATACCCCTATAAGGGTATTTTGATAATTTTA-CCTTTTTGAGGCACTGATA
**
17487437 CGATTTTAAATACT
130 AAATTTTAAATACT
* ** ** * * * *
17487451 CCAAAAATCATGAAATATTATAAAATTAAGATTTGAAACTTTTTATGAAAATCCAAGCTTGGTAA
1 CCAAAAATCATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGC-TCGAAA
* * * * *
17487516 GGTTAATTTACAAAAATACCCTTATAAGGGTATTTTGATAATTTTA-CTTTTCTCGGGGCA-TGA
65 AGCTAAATTACAAAAATACCCCTATAAGGGTATTTTGATAATTTTACCTTTT-T-GAGGCACTGA
17487579 TGAAAATTTTA
128 T-AAAATTTTA
17487590 GTATTTTAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
143 5 0.04
144 54 0.47
145 56 0.49
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (143 bp):
CCAAAAATCATGAAATATTATAAAATTAAAATCCGAAAAGTTTCATAAAAATCCAAGCTCGAAAA
GCTAAATTACAAAAATACCCCTATAAGGGTATTTTGATAATTTTACCTTTTTGAGGCACTGATAA
AATTTTAAATACT
Found at i:17490288 original size:34 final size:34
Alignment explanation
Indices: 17490242--17490310 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
17490232 CACTTTAAAA
*
17490242 TTTTCATATGAACCTTAAAATTGTTATGTGAATG
1 TTTTCATATGAACCTCAAAATTGTTATGTGAATG
* *
17490276 TTTTCATTTGAACCTCAAAGTTGTTATGTGAATG
1 TTTTCATATGAACCTCAAAATTGTTATGTGAATG
17490310 T
1 T
17490311 ATCTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (34 bp):
TTTTCATATGAACCTCAAAATTGTTATGTGAATG
Found at i:17495761 original size:24 final size:24
Alignment explanation
Indices: 17495723--17495768 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17495713 GGCAAGGTTC
* *
17495723 AACCCAAAGATTGCTTTAACTTAT
1 AACCCAAAGACTGCTCTAACTTAT
*
17495747 AACCCAAATACTGCTCTAACTT
1 AACCCAAAGACTGCTCTAACTT
17495769 GTGCTTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (24 bp):
AACCCAAAGACTGCTCTAACTTAT
Found at i:17506247 original size:3 final size:3
Alignment explanation
Indices: 17506239--17506264 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17506229 TTATATCTAG
17506239 ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC AC
17506265 TACTACTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:17507129 original size:25 final size:25
Alignment explanation
Indices: 17507090--17507137 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
17507080 CGAATTTTTG
17507090 AATTTTTTATATTACTTATTTAAAA
1 AATTTTTTATATTACTTATTTAAAA
*
17507115 AATTTTTTGAT-TTACTTCTTTAA
1 AATTTTTT-ATATTACTTATTTAA
17507138 TTTTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (25 bp):
AATTTTTTATATTACTTATTTAAAA
Found at i:17509291 original size:15 final size:15
Alignment explanation
Indices: 17509268--17509297 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17509258 ATTAAAAAAA
*
17509268 TTAATTAATTTAATT
1 TTAAATAATTTAATT
17509283 TTAAATAATTTAATT
1 TTAAATAATTTAATT
17509298 CGAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAATAATTTAATT
Found at i:17511030 original size:15 final size:15
Alignment explanation
Indices: 17511010--17511050 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
17511000 TAATAAAATT
17511010 TAATATAAAAATTAA
1 TAATATAAAAATTAA
17511025 TAATATATAAAA-TAA
1 TAATATA-AAAATTAA
*
17511040 TTAT-TAAAAAT
1 TAATATAAAAAT
17511051 ATTATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 4 0.17
14 2 0.09
15 13 0.57
16 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATATAAAAATTAA
Found at i:17511039 original size:22 final size:22
Alignment explanation
Indices: 17510996--17511039 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17510986 TTAAATTGAT
* *
17510996 AAATTAATAAAATTTAATATAA
1 AAATTAATAAAATATAAAATAA
*
17511018 AAATTAATAATATATAAAATAA
1 AAATTAATAAAATATAAAATAA
17511040 TTATTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATTAATAAAATATAAAATAA
Found at i:17511135 original size:14 final size:14
Alignment explanation
Indices: 17511116--17511147 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17511106 ATATTTTTAT
17511116 TAAAAATATATATA
1 TAAAAATATATATA
17511130 TAAAAATATATATA
1 TAAAAATATATATA
17511144 -AAAA
1 TAAAA
17511148 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATATATATA
Found at i:17511140 original size:12 final size:12
Alignment explanation
Indices: 17511118--17511148 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
17511108 ATTTTTATTA
17511118 AAAATATATATAT
1 AAAA-ATATATAT
17511131 AAAAATATATAT
1 AAAAATATATAT
17511143 AAAAAT
1 AAAAAT
17511149 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATATATAT
Found at i:17515777 original size:147 final size:146
Alignment explanation
Indices: 17515510--17515778 Score: 344
Period size: 147 Copynumber: 1.8 Consensus size: 146
17515500 TTTTATGTTT
* * ** * *
17515510 TATTTTTTCATATTTTCAACAAAAAATATGTTTTTTATTTTAAAATTTTCATCTTTATTTAATTC
1 TATTTTTTCATATTTTCAACAAAAAATACGTTTTCTATTTTAAAATCATCATCTTAATTGAATTC
* * * * *
17515575 TAATATATATATCTTCATATTTTCAATAAAAATTGTGTTTTTTTATTTTAAAAACGTCGTTTTTA
66 TAAAATATATATCTTCATATTTTCAACAAAAA-TCTATATTTTTATTTTAAAAACGTCGTTTTTA
17515640 TTAAACGCTGAAAAATA
130 TTAAACGCTGAAAAATA
* *
17515657 TATTTTTTCATATTTTCAACAAATACTACGTTTTCTATTTTAGAAA-CATCATCTTAATTGAATT
1 TATTTTTTCATATTTTCAACAAAAAATACGTTTTCTATTTTA-AAATCATCATCTTAATTGAATT
* * *
17515721 TTGAAAAATATATATTTTTATATTTTCAACAAAAA-CTATATTTTTATTTTAAAAACGT
65 CT--AAAATATATATCTTCATATTTTCAACAAAAATCTATATTTTTATTTTAAAAACGT
17515779 TGTATTTTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
147 73 0.71
148 3 0.03
149 27 0.26
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.49
Consensus pattern (146 bp):
TATTTTTTCATATTTTCAACAAAAAATACGTTTTCTATTTTAAAATCATCATCTTAATTGAATTC
TAAAATATATATCTTCATATTTTCAACAAAAATCTATATTTTTATTTTAAAAACGTCGTTTTTAT
TAAACGCTGAAAAATA
Found at i:17515929 original size:227 final size:225
Alignment explanation
Indices: 17515664--17516313 Score: 600
Period size: 228 Copynumber: 2.9 Consensus size: 225
17515654 ATATATTTTT
* * * * * * *
17515664 TCATATTTTCAACAAATACTACGTTTTCTATTTTAGAAACATCATCTTAATTGAATTTTGAAAAA
1 TCATCTTTTCAACAAAAACTGCGTTTTTTATATTAGAAACATAATCTTTATTGAATTTTGAAAAA
* * * * *
17515729 TATATATTTTT-ATATTTTCAACAAAAACTATATTTTTATTTTAAAAACGTTGTATTTTCAATAA
66 TATAT-TTTTTCATATTTTCAACAAAAACTATATTTTTATCTAAAAAACATCGTATTTTCAACAA
* ** * * *
17515793 AGATTGCATTTTTTATCTTAGGAAT-TAATCTTTATTGAATTCTAAAAAATTTATTTTTTCATGT
130 AGATTGCATTTTCTATCTTAAAAATGTAATCTTAAATGAATTCTAAAAAATAT-TTTTTTCATG-
*
17515857 TTTTAACAA-AGAT-TATATTTTTATCTTAGAAACA
193 TTTT--CAATA-ATCTATATTTTTATCTTACAAACA
* * * **
17515891 TTATCTTTTCAACAAAGACTGCGTTTTTTATATTAGAAATATTGTCTTTATTGAATTTTGAAAAA
1 TCATCTTTTCAACAAAAACTGCGTTTTTTATATTAGAAACATAATCTTTATTGAATTTTGAAAAA
* * * *
17515956 TATATTGTTTTCATATTTTTAACAAAAATTATGTTTTTATCTAAAAAACATCGTCTTTTCAACAA
66 TATATT-TTTTCATATTTTCAACAAAAACTATATTTTTATCTAAAAAACATCGTATTTTCAACAA
* * ** * *
17516021 AGATTGTATTTTCTATTTTAAAAATGTCGTCTTAAATGAATTTTGAAAAATATTTTTTTCATGTT
130 AGATTGCATTTTCTATCTTAAAAATGTAATCTTAAATGAATTCTAAAAAATATTTTTTTCATGTT
*
17516086 TTCAATAATCTATATTTTTATCTTACAAATA
195 TTCAATAATCTATATTTTTATCTTACAAACA
* * * * * * *
17516117 TCATCTTTTCTACAAAAACTGAG--TTTTCTCTTAGATACGTAACCTTTATTGAATTTTGAAAAA
1 TCATCTTTTCAACAAAAACTGCGTTTTTTATATTAGAAACATAATCTTTATTGAATTTTGAAAAA
* * * * * * * * *
17516180 TATATTTTTTCATGTTCTCAACAAAGATTGTATTTTTTTCTTAGAAA-A---TATTTTCTTACAA
66 TATATTTTTTCATATTTTCAACAAAAACTATATTTTTATCTAAAAAACATCGTATTTTC-AACAA
** * ** *** * * *
17516241 AGATTGCGGTTTCTATCTTAGAAATGTCGTCTTTGTTGAATTCTAGAAAATACTTTTTTCATGTC
130 AGATTGCATTTTCTATCTTAAAAATGTAATCTTAAATGAATTCTAAAAAATATTTTTTTCATGTT
17516306 TTCAATAA
195 TTCAATAA
17516314 AAACTACGTT
Statistics
Matches: 348, Mismatches: 69, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
219 6 0.02
220 64 0.18
222 1 0.00
223 32 0.09
224 38 0.11
225 5 0.01
226 40 0.11
227 68 0.20
228 74 0.21
229 20 0.06
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (225 bp):
TCATCTTTTCAACAAAAACTGCGTTTTTTATATTAGAAACATAATCTTTATTGAATTTTGAAAAA
TATATTTTTTCATATTTTCAACAAAAACTATATTTTTATCTAAAAAACATCGTATTTTCAACAAA
GATTGCATTTTCTATCTTAAAAATGTAATCTTAAATGAATTCTAAAAAATATTTTTTTCATGTTT
TCAATAATCTATATTTTTATCTTACAAACA
Found at i:17515993 original size:115 final size:114
Alignment explanation
Indices: 17515669--17516282 Score: 523
Period size: 113 Copynumber: 5.5 Consensus size: 114
17515659 TTTTTTCATA
* * * ** *
17515669 TTTTCAACAAATACTACGTTTTCTATTTTAGAAACATCATCTTAATTGAATTTTGAAAAATATAT
1 TTTTCAACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATTTTGAAAAATATAT
* * * * * *
17515734 ATTTTT-ATATTTTCAACAAAAACTATATTTTTATTTTAAAAACGTTGTA
66 -TTTTTCATATTTTTAACAAAAATTATATTTTTATCTTAAAAACATTATC
* * * * * * * * *
17515783 TTTTCAATAAAGATTGCATTTTTTATCTTAGGAAT-TAATCTTTATTGAATTCTAAAAAATTTAT
1 TTTTCAACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATTTTGAAAAATATAT
* * *
17515847 TTTTTCATGTTTTTAACAAAGATTATATTTTTATCTTAGAAACATTATC
66 TTTTTCATATTTTTAACAAAAATTATATTTTTATCTTAAAAACATTATC
* * * **
17515896 TTTTCAACAAAGACTGCGTTTTTTATATTAGAAATATTGTCTTTATTGAATTTTGAAAAATATAT
1 TTTTCAACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATTTTGAAAAATATAT
* * **
17515961 TGTTTTCATATTTTTAACAAAAATTATGTTTTTATCTAAAAAACATCGTC
66 T-TTTTCATATTTTTAACAAAAATTATATTTTTATCTTAAAAACATTATC
* ** * * * * *
17516011 TTTTCAACAAAGATTGTATTTTCTATTTTAAAAATGTCGTCTTAAATGAATTTTGAAAAATAT-T
1 TTTTCAACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATTTTGAAAAATATAT
* * * * *
17516075 TTTTTCAT-GTTTT--CAATAATCTATATTTTTATCTTACAAATATCATC
66 TTTTTCATATTTTTAACAAAAAT-TATATTTTTATCTTAAAAACATTATC
* * * * * * *
17516122 TTTTCTACAAAAACTGAGTTTTC--TCTTAGATACGTAACCTTTATTGAATTTTGAAAAATATAT
1 TTTTCAACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATTTTGAAAAATATAT
* * * * * * *
17516185 TTTTTCATGTTCTCAACAAAGATTGTATTTTTTTCTTAGAAA-A-TA--
66 TTTTTCATATTTTTAACAAAAATTATATTTTTATCTTAAAAACATTATC
* * * * *
17516230 TTTTCTTACAAAGATTGCGGTTTCTATCTTAGAAATGTCGTCTTTGTTGAATT
1 TTTTC-AACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATT
17516283 CTAGAAAATA
Statistics
Matches: 399, Mismatches: 90, Indels: 25
0.78 0.18 0.05
Matches are distributed among these distances:
108 5 0.01
109 43 0.11
110 16 0.04
111 63 0.16
112 25 0.06
113 100 0.25
114 53 0.13
115 94 0.24
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (114 bp):
TTTTCAACAAAGACTGCGTTTTCTATCTTAGAAATGTCATCTTTATTGAATTTTGAAAAATATAT
TTTTTCATATTTTTAACAAAAATTATATTTTTATCTTAAAAACATTATC
Found at i:17518594 original size:52 final size:52
Alignment explanation
Indices: 17518491--17518594 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
17518481 TATAACTATA
* *
17518491 CAAACTTACCTATTAAGAATCTCTTTCCTCTCAGAATTCTTCTTTTATAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTCAAAATTCTTCTTCTATAAGT
* * * * *
17518543 CAAACTTGCCTTTTAAGAAT-TCATTTTCTCTTAAAATTCTTCTTCTGTAAGT
1 CAAACTTACCTATTAAGAATCTC-TTTCCTCTCAAAATTCTTCTTCTATAAGT
17518595 TTTTTGTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.05
52 42 0.95
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTCCTCTCAAAATTCTTCTTCTATAAGT
Found at i:17519533 original size:51 final size:52
Alignment explanation
Indices: 17519440--17519540 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 52
17519430 TATAATCATA
*
17519440 CAAACTTACCTATTAAGAATCTCTTTCCTTTTAAAATTCTTCTTCTGTAAAT
1 CAAACTTACCTATTAAAAATCTCTTTCCTTTTAAAATTCTTCTTCTGTAAAT
* *
17519492 CAAACTTACCT-TTAAAAAATCT-TTTTCTTTTAAAATTCTTCTTTTGTAA
1 CAAACTTACCTATT-AAAAATCTCTTTCCTTTTAAAATTCTTCTTCTGTAA
17519541 GTCTTTTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 27 0.60
52 18 0.40
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.47
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATCTCTTTCCTTTTAAAATTCTTCTTCTGTAAAT
Found at i:17520503 original size:944 final size:946
Alignment explanation
Indices: 17517970--17521500 Score: 3947
Period size: 944 Copynumber: 3.7 Consensus size: 946
17517960 TGGTGGAGAG
* * *
17517970 TGTTAAGCAAAAAGCCTCTAATCAATCAAACCAACGAAAA--AAAATGAAATAATTAATCAAACA
1 TGTTAGGCAAAAAGCCTCTAATCAATCAAACCAAC-AAAAGCAAAATCAAACAATTAATCAAACA
* * * * * * * * * * *
17518033 AT-AAGAGACAACAATGTAACATGGTTTGGTCTAATCGATCTATATCCATGAATGATAAACATGA
65 ATCAAGAGATAACAATTTAACGTGGTTCGATCTAATCGACCTACATCCACGAATAAAAAACAAGA
* * * *
17518097 TCCACTAGTTGT-AGGAAATTACAAACATATAAATTATATCAACCTCACTCAATAATCAATACTC
130 TCCACTAGTTGTAAAG-AATTACAAACATACAAATCATATCAACCTCACTCAACAATCAATACTC
* * * * * * * *
17518161 ATAAAACAATTTTAATC-TCTTCTAGTCCTATGAAGTATT-TTTTATCCAAACAAACGCATA-CC
194 ATAAAACACTCTCAATCTTC-TCTAGTCCTATAAAGTATTCTTCTATCCAAAAAAACACAAACCC
* ** * * *
17518223 -TATGCACCCTTTCAATACAAACAAACTCATACCCATATATACCCGTTTATCATACTTATGTAGA
258 ATATGCA-CCTTTCAACACAAACAAAAACATACCCATATGTACCCATTCATCATACTTATGTAGA
*
17518287 TCTTTTCAGTCTCCTCTAGTCTACTCACATGCACCATACCTATGTAGACCCTCTTAATCTCCTCT
322 TC-TTTCAGTCTCCTCTAGTCTACTCACATGCACCATACCTATGTAGACCCTCTCAATCTCCTCT
** * * *
17518352 AAT-TCACTCAAACATACACACATATAAGATGTAAATCTCCAGTAGTCATATGGAGTGTCTATCC
386 AATCT-ACTCAAACATACACACCCATAAGATGTAAATCTCCAATAGTCTTATGGGGTGTCTATCC
* * * * * *
17518416 CATAAAATCTTACAACTCTCTTACATTTTTTTCTTATACCTAACCTTGCAGAGACTTCACCTATT
450 TATAAAATCTTACAACTCTCTTATATATTTTTCTCATACCAAACCCTGCAGAGACTTCACCTATT
* * *
17518481 TATAA-CTATACAAACTTACCTATTAAGAATCTCTTTCCTCTCAGAATTCTTCTTTTATAAGTCA
515 TATAATC-ATACAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTTTGTAAGTCA
* * *
17518545 AACTTGCCTTTTAAGAAT-TCATTTTCTCTTAAAATTCTTCTTCTGTAAGT-TTTTTGTTCATTA
579 AACTTACCTTTTAAGAATCTC-TTTTCTTTTAAAATTCTTCTTCTGTAAGTCTTTTTGTTCATCA
* * * * * * *
17518608 AGTAATATTTAATCAATCCTAAACAAATCTTTTATGAGATTTGAGTCACTATTCTCAACAATCTC
643 AGCAATATCTAAACAATCCCAAACAAATCTCTTATGAGATTTGAGTCACTATTCCCAATAATCTC
* * * *
17518673 CATTTTGACTCAAATTCCATCAAATTATCTGTCTTTATGCTAAACATGATTGG-TTCACCTATAA
708 CAATTTGACTCAAATTCCATCAAATCATCTATCTTCA-GCTAAACATGATTGGCTTCACCTATAA
* * ** *** ** **
17518737 TGGAAGTCTCACAATCATCTTCTCTTGTGTGTCATCACATTTTATGTAAACTGATTTTCAATCCT
772 TAGAAGTCTCACAATCA-CTTCT-TTATGTGTTTTCATGCTTTATGTAAACCAATCCTCAATCCT
* * * * * **
17518802 CAAAATATGAACTCAAACGCTTCTTTTGAATTAAGCTTTTCTAAACTTGTCTCTTTCTATGATTT
835 CAAAATATGAACTCAAACTCTTCTATTGAATCAAGCTTTT-TGAACTTGTCTCTTTTTATGGCTT
*
17518867 GAACCTTTAGCTCTTCGT-ATGTCTTGAACCTTAAGCTCTAATACCTTT
899 GAACCTTTAGCTCTTC-TCATGTCTTGAACCTTTAGCTCTAATACCTTT
* * * * * ***
17518915 TGTTAGGTAAAAAACCTCTAATCAGTCGAACTAGTGAAAGCAAAATCAAACAATTAATCAAACAA
1 TGTTAGGCAAAAAGCCTCTAATCAATCAAACCAACAAAAGCAAAATCAAACAATTAATCAAACAA
* * *
17518980 TGAAGAGATAATAATTTAACGTGGTTCGATCTAATCGACCTACATCCACGAATTAGAAAA-AAGA
66 TCAAGAGATAACAATTTAACGTGGTTCGATCTAATCGACCTACATCCACGAA-TAAAAAACAAGA
* * * *
17519044 TTCACTAGTTGTAGAGAATTACAAACATACAAATCATATCAACCTCACTCAATAATCAATACTTA
130 TCCACTAGTTGTAAAGAATTACAAACATACAAATCATATCAACCTCACTCAACAATCAATACTCA
* * * * * ***
17519109 TAAGATC-CTCTCAATCTTCTTTAGTCCTATAAAGTATTC-TCTATCCAAACAAATACATACTTG
195 TAA-AACACTCTCAATCTTCTCTAGTCCTATAAAGTATTCTTCTATCCAAAAAAACACAAACCCA
* * * * *
17519172 TATACACTTTTTGAACA-TAA-ATAAACATACATCCATATGTACCCATTCATCATACTTATGTAG
259 TATGCAC-CTTTCAACACAAACAAAAACATAC--CCATATGTACCCATTCATCATACTTATGTAG
* * *
17519235 ATCCTTTCAGTCTTCTCTAGTCCACTCACATGCACCATACCTATGTAGACCATCTCAATCTCCTC
321 AT-CTTTCAGTCTCCTCTAGTCTACTCACATGCACCATACCTATGTAGACCCTCTCAATCTCCTC
* * **
17519300 TAGTCTACTCAAACATACACACCCATAAGATATAAATCTCCAATAGTCTTATATGGTGTCTAT-C
385 TAATCTACTCAAACATACACACCCATAAGATGTAAATCTCCAATAGTCTTATGGGGTGTCTATCC
* * * * *
17519364 TGATAAAATTTTACAACTTTCTTAGATATTTTTCTCATA-CATAACCCTGCAGAGATTTTACCTA
450 T-ATAAAATCTTACAACTCTCTTATATATTTTTCTCATACCA-AACCCTGCAGAGACTTCACCTA
* * *
17519428 TTTATAATCATACAAACTTACCTATTAAGAATCTCTTTCCTTTTAAAATTCTTCTTCTGTAAATC
513 TTTATAATCATACAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTTTGTAAGTC
* * * *
17519493 AAACTTACCTTTAAAAAATCT-TTTTCTTTTAAAATTCTTCTTTTGTAAGTCTTTTTGTTTATCA
578 AAACTTACCTTTTAAGAATCTCTTTTCTTTTAAAATTCTTCTTCTGTAAGTCTTTTTGTTCATCA
* *
17519557 AGCAATATCTAAACAATCCCAAACAAATATCTTATGGGATTTGAGTCACTATTCCCAATAATCTC
643 AGCAATATCTAAACAATCCCAAACAAATCTCTTATGAGATTTGAGTCACTATTCCCAATAATCTC
* * * **
17519622 CACTTTGACTCAAATTCCATCAAATCATCTATCTTCAGCTAAACATGCTTGGCTCCACCTGCAAT
708 CAATTTGACTCAAATTCCATCAAATCATCTATCTTCAGCTAAACATGATTGGCTTCACCTATAAT
* *
17519687 AAAAGTCTCACAATCA-TTGTTTATGTGTTTTCATGCTTTATGTAAACCAATCCTCAATCCTCAA
773 AGAAGTCTCACAATCACTTCTTTATGTGTTTTCATGCTTTATGTAAACCAATCCTCAATCCTCAA
* * * **
17519751 AACATGAACTCAAACTCTTCTCTTGAATCAAGCTTCTTGAACTTACCTCTTTTTATGGCTTGAAC
838 AATATGAACTCAAACTCTTCTATTGAATCAAGCTTTTTGAACTTGTCTCTTTTTATGGCTTGAAC
* * *
17519816 TTTTAGCTCTTCTCATGTCTTAAACCTTTAGCTCTAATACCTCT
903 CTTTAGCTCTTCTCATGTCTTGAACCTTTAGCTCTAATACCTTT
* * * *
17519860 TGTTAGGCAAAAAGCCTCTAATCAATCGAGCCAGCAAAAGCAAAATCAAATAATTAATCAAACAA
1 TGTTAGGCAAAAAGCCTCTAATCAATCAAACCAACAAAAGCAAAATCAAACAATTAATCAAACAA
* * * *
17519925 TCAAGAGATAATAATTTAACG-GGTTCGGTCTAATCGACCTACATTCACGGATAAAAAACAAGAT
66 TCAAGAGATAACAATTTAACGTGGTTCGATCTAATCGACCTACATCCACGAATAAAAAACAAGAT
* * * * *
17519989 CCATTAGTTGTAAAGACTTATAAATATACAAATCATATCAACTTCACTCAACAATCAATACTCAT
131 CCACTAGTTGTAAAGAATTACAAACATACAAATCATATCAACCTCACTCAACAATCAATACTCAT
* * * *
17520054 AAAACACTCTTAATCTTCTCTAGTCTTATAAAGTATTCTTC-A-CCAAAAAAAAAAAAAACCCAT
196 AAAACACTCTCAATCTTCTCTAGTCCTATAAAGTATTCTTCTATCC-AAAAAAACACAAACCCAT
* * * *
17520117 ATGCACCATTTTAACACAAACAAAAACATACCCATATGTACCTATTCATCATACCTATATAGACT
260 ATGCACC-TTTCAACACAAACAAAAACATACCCATATGTACCCATTCATCATACTTATGTAGA-T
* *
17520182 CTTTTAGTCTCCTCTAGTCTACTCACATGCACCATACC-ATGT-GAACCCTCTCAATCTCTTCTA
323 CTTTCAGTCTCCTCTAGTCTACTCACATGCACCATACCTATGTAG-ACCCTCTCAATCTCCTCTA
* * * * *
17520245 GTCTACTCAAACATACATACCCATAAAATGTAAATCTCCAGTAGTTTTATGGGGTGTCTATCCTA
387 ATCTACTCAAACATACACACCCATAAGATGTAAATCTCCAATAGTCTTATGGGGTGTCTATCCTA
* * * * * *
17520310 TAAAATCTTACAACTTTTTTATATATTTTTCTCATACCAAACCCTACGGAGATTTTACCTATTTA
452 TAAAATCTTACAACTCTCTTATATATTTTTCTCATACCAAACCCTGCAGAGACTTCACCTATTTA
** * * *
17520375 TAATCATACAAACTTGTCTATTAAGAATCTATTTTCTCTTAAAATTCTTATTTTGTAAGTCAAAC
517 TAATCATACAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTTTGTAAGTCAAAC
*
17520440 TTACCTTTTAAGAATCTCTTTTCTTTTAAAATTCTTCTTCTGTAAGTCTTCTTGTTCATCAAGCA
582 TTACCTTTTAAGAATCTCTTTTCTTTTAAAATTCTTCTTCTGTAAGTCTTTTTGTTCATCAAGCA
* * * *
17520505 ATATCT-AACTAATTCCAAACAAATCTCTTATGAGATTTGAGTCATTTTTTCCAATAATCTCCAA
647 ATATCTAAAC-AATCCCAAACAAATCTCTTATGAGATTTGAGTCACTATTCCCAATAATCTCCAA
* * *
17520569 TTTGACTTAAATTACATCAAATCATCTATCTTCAGCTAAACAT-ATTGGCTTTACCTATAATAGA
711 TTTGACTCAAATTCCATCAAATCATCTATCTTCAGCTAAACATGATTGGCTTCACCTATAATAGA
* * * * *
17520633 AGTCTCACAATTATCTTCTTTTATGTGTTTTTATGCTTCACGTAAACCAATCCTCAATCCTTAAA
776 AGTCTCACAATCA-CTTC-TTTATGTGTTTTCATGCTTTATGTAAACCAATCCTCAATCCTCAAA
* * * *
17520698 ATATGAACTTAAACTCTTCTATTGAATCAAGCTCTTTTGAACTTGTTTCTTTTTATAGCTCGAAC
839 ATATGAACTCAAACTCTTCTATTGAATCAAGCT-TTTTGAACTTGTCTCTTTTTATGGCTTGAAC
* * * * *
17520763 CTTTAGCTCTTTTCATGTTTTGAACCTTTAACTTTGATACCTTT
903 CTTTAGCTCTTCTCATGTCTTGAACCTTTAGCTCTAATACCTTT
* * ** *
17520807 TGTTAGACAAAAAGCCTCCAATCAATCAAACCAACGGAAGCAAAATCAAACAATTAATCAAATAA
1 TGTTAGGCAAAAAGCCTCTAATCAATCAAACCAACAAAAGCAAAATCAAACAATTAATCAAACAA
* ** * * * *
17520872 TCAAAAGATAACAATACAACGTGGTTCGATCTAATCGACCTACGTTCATGGATAAAAAACAAGAT
66 TCAAGAGATAACAATTTAACGTGGTTCGATCTAATCGACCTACATCCACGAATAAAAAACAAGAT
* * * * * *
17520937 CAACTAGTTATAAAAAATTACAAATATACAAATCATATCAACCTCACTTAACAATCAATACACAT
131 CCACTAGTTGTAAAGAATTACAAACATACAAATCATATCAACCTCACTCAACAATCAATACTCAT
* * * * * * *
17521002 AAGACACTCTCAATCTCCTCTAGT-CT-TAAGGGATATT-TGCTA-CCCAAAAAACATAAATCCA
196 AAAACACTCTCAATCTTCTCTAGTCCTATAA-AG-TATTCTTCTATCCAAAAAAACACAAACCCA
* * * * *
17521063 TGTGCACTCTTTCAACATAAACAAAAATATACCTATATGTACCCACTT-ATCATACTTATGTAAA
259 TATGCAC-CTTTCAACACAAACAAAAACATACCCATATGTACCCA-TTCATCATACTTATGTAGA
* * * * * * * *
17521127 CCTTATCAATCTCTTTTAGT-TCACTCACATGCACCATACCTATGTAGACCTTCTCAGTCTCTTT
322 TCTT-TCAGTCTCCTCTAGTCT-ACTCACATGCACCATACCTATGTAGACCCTCTCAATCTCCTC
* * * * * *
17521191 TAATCCACTCAAACATATATACTCATAAGATGTAAATCTCCAATAGTCTTAT-AGGTGTTTATCC
385 TAATCTACTCAAACATACACACCCATAAGATGTAAATCTCCAATAGTCTTATGGGGTGTCTATCC
* * * * * ** **
17521255 TATAAAATCTTATAACTCTATT-T-T-TTTTTCTTATACCTAATCCTGTTGAGACTTCATTTATT
450 TATAAAATCTTACAACTCTCTTATATATTTTTCTCATACCAAACCCTGCAGAGACTTCACCTATT
* ** * * * * * **
17521317 TATAACCATACAATGTTACCTATTAAAAATCTTTTTTCTTTTAGAATTCTTCTTTTGCGAGTCAA
515 TATAATCATACAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTTTGTAAGTC-A
* * * * * * * *
17521382 AATTTACCTTTTAAGAATTTTTTTTCTTTTAAAATTCTTTTTTTGCAAGTCTTATTATTCATCAA
579 AACTTACCTTTTAAGAATCTCTTTTCTTTTAAAATTCTTCTTCTGTAAGTCTTTTTGTTCATCAA
* * *
17521447 ACAATATCTAATCAATCCCAAATAAATCTCTTATGAGATTTGAGTCACTATTCC
644 GCAATATCTAAACAATCCCAAACAAATCTCTTATGAGATTTGAGTCACTATTCC
17521501 TAACAGAGAG
Statistics
Matches: 2192, Mismatches: 343, Indels: 102
0.83 0.13 0.04
Matches are distributed among these distances:
942 1 0.00
943 245 0.11
944 432 0.20
945 274 0.12
946 180 0.08
947 413 0.19
948 245 0.11
949 398 0.18
950 4 0.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (946 bp):
TGTTAGGCAAAAAGCCTCTAATCAATCAAACCAACAAAAGCAAAATCAAACAATTAATCAAACAA
TCAAGAGATAACAATTTAACGTGGTTCGATCTAATCGACCTACATCCACGAATAAAAAACAAGAT
CCACTAGTTGTAAAGAATTACAAACATACAAATCATATCAACCTCACTCAACAATCAATACTCAT
AAAACACTCTCAATCTTCTCTAGTCCTATAAAGTATTCTTCTATCCAAAAAAACACAAACCCATA
TGCACCTTTCAACACAAACAAAAACATACCCATATGTACCCATTCATCATACTTATGTAGATCTT
TCAGTCTCCTCTAGTCTACTCACATGCACCATACCTATGTAGACCCTCTCAATCTCCTCTAATCT
ACTCAAACATACACACCCATAAGATGTAAATCTCCAATAGTCTTATGGGGTGTCTATCCTATAAA
ATCTTACAACTCTCTTATATATTTTTCTCATACCAAACCCTGCAGAGACTTCACCTATTTATAAT
CATACAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTTTGTAAGTCAAACTTAC
CTTTTAAGAATCTCTTTTCTTTTAAAATTCTTCTTCTGTAAGTCTTTTTGTTCATCAAGCAATAT
CTAAACAATCCCAAACAAATCTCTTATGAGATTTGAGTCACTATTCCCAATAATCTCCAATTTGA
CTCAAATTCCATCAAATCATCTATCTTCAGCTAAACATGATTGGCTTCACCTATAATAGAAGTCT
CACAATCACTTCTTTATGTGTTTTCATGCTTTATGTAAACCAATCCTCAATCCTCAAAATATGAA
CTCAAACTCTTCTATTGAATCAAGCTTTTTGAACTTGTCTCTTTTTATGGCTTGAACCTTTAGCT
CTTCTCATGTCTTGAACCTTTAGCTCTAATACCTTT
Found at i:17521412 original size:18 final size:18
Alignment explanation
Indices: 17521389--17521424 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
17521379 CAAAATTTAC
17521389 CTTTTAAGAATT-TTTTTT
1 CTTTTAA-AATTCTTTTTT
17521407 CTTTTAAAATTCTTTTTT
1 CTTTTAAAATTCTTTTTT
17521425 TGCAAGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (18 bp):
CTTTTAAAATTCTTTTTT
Found at i:17521412 original size:53 final size:53
Alignment explanation
Indices: 17521332--17521432 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 53
17521322 CCATACAATG
* *
17521332 TTACCTATTAAAAATCTTTTTTCTTTTAGAATTCTTCTTTTGCGAGTCAAAAT
1 TTACCTATTAAAAATCTTTTTTCTTTTAAAATTCTTCTTTTGCAAGTCAAAAT
* * * *
17521385 TTACCTTTTAAGAATTTTTTTTCTTTTAAAATTCTTTTTTTGCAAGTC
1 TTACCTATTAAAAATCTTTTTTCTTTTAAAATTCTTCTTTTGCAAGTC
17521433 TTATTATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (53 bp):
TTACCTATTAAAAATCTTTTTTCTTTTAAAATTCTTCTTTTGCAAGTCAAAAT
Found at i:17521422 original size:17 final size:18
Alignment explanation
Indices: 17521389--17521423 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17521379 CAAAATTTAC
*
17521389 CTTTTAAGAATTTTTTTT
1 CTTTTAAGAATTCTTTTT
17521407 CTTTTAA-AATTCTTTTT
1 CTTTTAAGAATTCTTTTT
17521424 TTGCAAGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (18 bp):
CTTTTAAGAATTCTTTTT
Found at i:17526144 original size:20 final size:20
Alignment explanation
Indices: 17526119--17526156 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17526109 TTTTACTTTT
17526119 TTTTATAATTTTATTTTACC
1 TTTTATAATTTTATTTTACC
17526139 TTTTATAATTTTATTTTA
1 TTTTATAATTTTATTTTA
17526157 TAGTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTATTTTACC
Found at i:17527297 original size:49 final size:49
Alignment explanation
Indices: 17527241--17527340 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
17527231 TTATATGTTT
* * * *
17527241 TAATTTTTTTTATCTATACCGACGGTTAATGCTCGTCAGTATAGACTTG
1 TAATTTTTTTTACCTATACCGACGCTTAAAGCTCGTCAATATAGACTTG
* * *
17527290 TAATTTTTTTTACCTATACTGACGCTTAAAGCTCGTTAATATAGATTTG
1 TAATTTTTTTTACCTATACCGACGCTTAAAGCTCGTCAATATAGACTTG
17527339 TA
1 TA
17527341 TGTTTTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (49 bp):
TAATTTTTTTTACCTATACCGACGCTTAAAGCTCGTCAATATAGACTTG
Found at i:17527363 original size:55 final size:55
Alignment explanation
Indices: 17527294--17527418 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 55
17527284 GACTTGTAAT
* * * * *
17527294 TTTTTTTACCTATACTGAC-GCTTAAAGCTCGTTAATATAGATTTGTATGTTTTAA
1 TTTTTTCACCTATACTAACGGC-TAAAGCTCATTAATATAGACTTATATGTTTTAA
* ** *
17527349 TTTTTTCACTTATACTAACGGCTAGTGCTCATTAGTATAGACTTATATGTTTTAA
1 TTTTTTCACCTATACTAACGGCTAAAGCTCATTAATATAGACTTATATGTTTTAA
*
17527404 TTTTTCTTACCTATA
1 TTTTT-TCACCTATA
17527419 TTGACGGTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
55 48 0.84
56 9 0.16
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.48
Consensus pattern (55 bp):
TTTTTTCACCTATACTAACGGCTAAAGCTCATTAATATAGACTTATATGTTTTAA
Found at i:17530018 original size:186 final size:182
Alignment explanation
Indices: 17529688--17530039 Score: 530
Period size: 186 Copynumber: 1.9 Consensus size: 182
17529678 TAATAGGGAT
17529688 TGACTTTTGTCTACTCGAGAATCATCAACCTTTGCAGCCATTTCCTTCGGTGTCTTGTGTTCATC
1 TGACTTTTGTCTACTCGAGAATCATCAACCTTTGCAGCCATTTCCTTCGGTGTCTTGTGTTCATC
*
17529753 ATAAAATTTAGATTCGTTTTTCCATTGCCTCAATTTAGCACCCATGTTTTTTATTACCCAAGACT
66 ATAAAATTTAGATTCGTTTTTCCATTGCCTCAATTTAGCACCCATGTTTCTTATTACCCAAGACT
17529818 TAATTTTTTGAAATATTTCTTCATCAACAAGCTCATTAGCACTCGAGATTCC
131 TAATTTTTTGAAATATTTCTTCATCAACAAGCTCATTAGCACTCGAGATTCC
* * *
17529870 TGACTTTTGTCTACTCGAGATTCCT-GA-CTTTGCAGCCATTTCC-TCTGGTGTCTTGTGTTCAT
1 TGACTTTTGTCTACTCGAGAATCATCAACCTTTGCAGCCATTTCCTTC-GGTGTCTTGTGTTCAT
* * *
17529932 CATAAAATTTAGACTTCAATTCATTCTTCCATTGCCTCCATTTAGCACCCATGTTTCTTATTGCC
65 CATAAAATTTAGA-TTC--GT--TT-TTCCATTGCCTCAATTTAGCACCCATGTTTCTTATTACC
* * *
17529997 CAAGGCTTAATTTTTTGAAATATTTTTTCATCAAGAAGCTCAT
124 CAAGACTTAATTTTTTGAAATATTTCTTCATCAACAAGCTCAT
17530040 CAAAATCAAA
Statistics
Matches: 153, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
179 2 0.01
180 45 0.29
181 4 0.03
182 23 0.15
183 1 0.01
185 2 0.01
186 76 0.50
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (182 bp):
TGACTTTTGTCTACTCGAGAATCATCAACCTTTGCAGCCATTTCCTTCGGTGTCTTGTGTTCATC
ATAAAATTTAGATTCGTTTTTCCATTGCCTCAATTTAGCACCCATGTTTCTTATTACCCAAGACT
TAATTTTTTGAAATATTTCTTCATCAACAAGCTCATTAGCACTCGAGATTCC
Found at i:17532785 original size:3 final size:3
Alignment explanation
Indices: 17532777--17532823 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
17532767 GATTTCAAAG
17532777 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17532824 AAAATAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17534124 original size:62 final size:62
Alignment explanation
Indices: 17533744--17534140 Score: 168
Period size: 62 Copynumber: 6.4 Consensus size: 62
17533734 AAGGCGTTTA
* * * *
17533744 TGGCTAAAAATGCCTTGAATAATCCCCTTT-AATTTTTATGAAG-GAATTATTCAAGGCATTTT
1 TGGCCAAAAATGCCTTGAATAAT-CCCTTTAAATTTTTATG-AGTGGATTATTGAAGGTATTTT
** * * ** * * * * *
17533806 TGGTAAAAAATACCTTGAATAATTCCTAAAAATTTTTTAT-AGGGGAATACTGAAAGCATTTTT
1 TGGCCAAAAATGCCTTGAATAATCCCTTTAAA-TTTTTATGAGTGGATTATTGAAGGTA-TTTT
* * * * ** * * **
17533869 TTGTCAAAAATGCCTTCAGTAAT-CC-TCCATTTTTTATGAG-GAGATTATTTAAGGCGTTTT
1 TGGCCAAAAATGCCTTGAATAATCCCTTTAAATTTTTATGAGTG-GATTATTGAAGGTATTTT
** * * * **** * * * *
17533929 ATCTCAAAAAACGCCTTTAATAATCCC-TTACAAAAAAT-TGAATGGGTTATTGAGGGTATTTC
1 -TGGCCAAAAATGCCTTGAATAATCCCTTTA-AATTTTTATGAGTGGATTATTGAAGGTATTTT
* * ** *
17533991 TAGCCAGAAACACCTTGAATAATCTCTTTAAATTTTTATGAGTGGATTATTGAAGGTATTTT
1 TGGCCAAAAATGCCTTGAATAATCCCTTTAAATTTTTATGAGTGGATTATTGAAGGTATTTT
** * * *
17534053 TGGTGAAAAATGCCTTGCATAATCCCTTTCAATTTTT-T-AGATGGGATTATTCG-AGGTGTTTT
1 TGGCCAAAAATGCCTTGAATAATCCCTTTAAATTTTTATGAG-T-GGATTATT-GAAGGTATTTT
** *
17534115 TGGCCAAAAACACCTTTAATAATCCC
1 TGGCCAAAAATGCCTTGAATAATCCC
17534141 CTCCCTTTTT
Statistics
Matches: 243, Mismatches: 77, Indels: 30
0.69 0.22 0.09
Matches are distributed among these distances:
60 14 0.06
61 57 0.23
62 139 0.57
63 33 0.14
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (62 bp):
TGGCCAAAAATGCCTTGAATAATCCCTTTAAATTTTTATGAGTGGATTATTGAAGGTATTTT
Found at i:17534346 original size:62 final size:62
Alignment explanation
Indices: 17534184--17534369 Score: 180
Period size: 62 Copynumber: 3.0 Consensus size: 62
17534174 TGTTTTCTCA
* * * * * *
17534184 CTTAAAAAAAATTGAATGGGATTACTCAAGATGTTTATGGCCAAAAACACCTTGAATAATCC
1 CTTACAAAATATTGAATGGGATTATTAAAGGTGTTTTTGGCCAAAAACACCTTGAATAATCC
* * * * *
17534246 CTTTC-AATTTTATGAA-GGGATTATTAAAGGTGTTTTTTGGTCATAAATC-CCTTGAATAATCC
1 CTTACAAAATAT-TGAATGGGATTATTAAAGGTG-TTTTTGGCCA-AAAACACCTTGAATAATCC
* * * * *
17534308 CTTACAAAATATTGAATGAGATTATTGAAGGTGTTTTTGGCTAAAAACGCCTTTAATAATCC
1 CTTACAAAATATTGAATGGGATTATTAAAGGTGTTTTTGGCCAAAAACACCTTGAATAATCC
17534370 ATGAATTATC
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
61 20 0.20
62 56 0.57
63 22 0.22
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (62 bp):
CTTACAAAATATTGAATGGGATTATTAAAGGTGTTTTTGGCCAAAAACACCTTGAATAATCC
Found at i:17534919 original size:16 final size:16
Alignment explanation
Indices: 17534900--17534935 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
17534890 ATTTATTAAT
17534900 AATTATAGTTTTTGAA
1 AATTATAGTTTTTGAA
17534916 AATTATAGTTTTTGAA
1 AATTATAGTTTTTGAA
17534932 AATT
1 AATT
17534936 TTTATTAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
AATTATAGTTTTTGAA
Found at i:17537007 original size:63 final size:64
Alignment explanation
Indices: 17536801--17537032 Score: 193
Period size: 63 Copynumber: 3.6 Consensus size: 64
17536791 TTAATGGAGG
* * * * * * * * * *
17536801 TTATTGAAGGCATTTATGGCTAAAAATACTTTCAATAAT-CTCCTCGTAAAAATTTATTAAAGGG
1 TTATTAAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCTCTTC-CAATAATTT-TTATATGG
17536865 A
64 A
* * * * *
17536866 TTAATAAAGGCCTTTTTGGCCAAAATTACTTTCAATAAT-CTCTTCCAATAATTTTTATATGGA
1 TTATTAAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCTCTTCCAATAATTTTTATATGGA
* * * *
17536929 TTATTGAAA-GCATTTTTGGCCAAAAACGCATTCAATAATCCT-TTCCAATATTTTTTGTGTGGA
1 TTATT-AAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCTCTTCCAATAATTTTTATATGGA
* * ** *
17536992 TTATTAAAGGTATTTTTAGATAAAAATGTATTCAATAATCC
1 TTATTAAAGGCATTTTTGGCCAAAAATGCATTCAATAATCC
17537033 CCACGTAAAA
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
62 3 0.02
63 85 0.62
64 12 0.09
65 38 0.28
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (64 bp):
TTATTAAAGGCATTTTTGGCCAAAAATGCATTCAATAATCCTCTTCCAATAATTTTTATATGGA
Found at i:17537239 original size:132 final size:132
Alignment explanation
Indices: 17537072--17537335 Score: 384
Period size: 132 Copynumber: 2.0 Consensus size: 132
17537062 GGTAATTTTG
* * * * **
17537072 GCCAAAAAGGTCTTCATTAATCCCCTTAATAAATTTTTATGAGGGGATTATTAAAAGTATTTTTA
1 GCCAAAAACGTCTTCAATAATCCCCTAAATAAATTTTTACGAAAGGATTATTAAAAGTATTTTTA
* *
17537137 GCCATAAATACCTTCAATAACCTCCATTAAATTTTTTGTAATATTGTTATCAACTTATTATTATT
66 GCCAGAAATACCTTCAATAACCTCCATTAAATTTTTTGTAATATTGTTATCAACTTATTAATATT
17537202 AT
131 AT
* * * * *
17537204 GCCAAAATCGTCTTCAATAATCCTCTAAATAAATTTTTACGAAAGGATTATTGAAGGTATTTTTG
1 GCCAAAAACGTCTTCAATAATCCCCTAAATAAATTTTTACGAAAGGATTATTAAAAGTATTTTTA
* * *
17537269 GCTAGAAATGCCTTCAATAATCTCCATTAAATTTTTTGTAATATTGTTATCAACTTATTAATATT
66 GCCAGAAATACCTTCAATAACCTCCATTAAATTTTTTGTAATATTGTTATCAACTTATTAATATT
17537334 AT
131 AT
17537336 AATTATTATT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (132 bp):
GCCAAAAACGTCTTCAATAATCCCCTAAATAAATTTTTACGAAAGGATTATTAAAAGTATTTTTA
GCCAGAAATACCTTCAATAACCTCCATTAAATTTTTTGTAATATTGTTATCAACTTATTAATATT
AT
Found at i:17551295 original size:21 final size:21
Alignment explanation
Indices: 17551269--17551313 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
17551259 AATTCCCTTT
17551269 CCCCTC-CCCTCTCCCACTCTC
1 CCCCTCTCCCT-TCCCACTCTC
*
17551290 CCCCTCTCCCTTCCCTCTCTC
1 CCCCTCTCCCTTCCCACTCTC
17551311 CCC
1 CCC
17551314 ACCATTGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.02, C:0.71, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCCTCTCCCTTCCCACTCTC
Found at i:17551495 original size:53 final size:54
Alignment explanation
Indices: 17551435--17551568 Score: 144
Period size: 59 Copynumber: 2.4 Consensus size: 54
17551425 GGTTTAATTT
* *
17551435 TTTGTTATAAATTTGTTGAAATG-GATTTTGGTTGCCAATGTGTTGAGTTTTTG
1 TTTGTTATATATTTGTTGAAATGTGATTTTGGTTACCAATGTGTTGAGTTTTTG
* * * *
17551488 TTTGTTATTTATTTTTTGAAATTTGTTTAGGTTTTGGTTACCAATTTGTTGAGTTTTTG
1 TTTGTTATATATTTGTTGAAA--TG--T-GATTTTGGTTACCAATGTGTTGAGTTTTTG
* *
17551547 TTGGTTTTATATTTGTTGAAAT
1 TTTGTTATATATTTGTTGAAAT
17551569 TTATTTGGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
53 18 0.28
55 2 0.03
57 1 0.02
59 44 0.68
ACGTcount: A:0.19, C:0.03, G:0.21, T:0.57
Consensus pattern (54 bp):
TTTGTTATATATTTGTTGAAATGTGATTTTGGTTACCAATGTGTTGAGTTTTTG
Found at i:17551532 original size:59 final size:59
Alignment explanation
Indices: 17551460--17551579 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 59
17551450 TTGAAATGGA
* * * *
17551460 TTTTGGTTGCCAATGTGTTGAGTTTTTGTTTGTTATT-TATTTTTTGAAATTTGTTTAGG
1 TTTTGGTTACCAATGTGTTGAGTTTTTGTTGGTT-TTATATTTGTTGAAATTTATTTAGG
* *
17551519 TTTTGGTTACCAATTTGTTGAGTTTTTGTTGGTTTTATATTTGTTGAAATTTATTTGGG
1 TTTTGGTTACCAATGTGTTGAGTTTTTGTTGGTTTTATATTTGTTGAAATTTATTTAGG
17551578 TT
1 TT
17551580 CTTGTTATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 2 0.04
59 52 0.96
ACGTcount: A:0.16, C:0.03, G:0.22, T:0.59
Consensus pattern (59 bp):
TTTTGGTTACCAATGTGTTGAGTTTTTGTTGGTTTTATATTTGTTGAAATTTATTTAGG
Found at i:17551670 original size:12 final size:12
Alignment explanation
Indices: 17551653--17551677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17551643 TAATGTTGAG
17551653 TATTATTTTTTT
1 TATTATTTTTTT
17551665 TATTATTTTTTT
1 TATTATTTTTTT
17551677 T
1 T
17551678 TAGTATTGTT
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:0.00, T:0.84
Consensus pattern (12 bp):
TATTATTTTTTT
Found at i:17551948 original size:15 final size:14
Alignment explanation
Indices: 17551924--17551957 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
17551914 TTGATTTGAG
17551924 ATTATAATTTATAT
1 ATTATAATTTATAT
17551938 ATTACTAATTTATAT
1 ATTA-TAATTTATAT
17551953 ATTAT
1 ATTAT
17551958 TTTGAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATAATTTATAT
Found at i:17551974 original size:37 final size:38
Alignment explanation
Indices: 17551927--17552015 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
17551917 ATTTGAGATT
17551927 ATAATTTATATATTACT-A-ATTTATATATTATTTTGAA
1 ATAATTTATATATTACTAAGATTTATAT-TTATTTTGAA
* * * *
17551964 GTAATTTATATATTATTAAGATTTATATTTGTTTTTAA
1 ATAATTTATATATTACTAAGATTTATATTTATTTTGAA
17552002 ATAATTTATATATT
1 ATAATTTATATATT
17552016 TGATAGTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 15 0.33
38 22 0.49
39 8 0.18
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (38 bp):
ATAATTTATATATTACTAAGATTTATATTTATTTTGAA
Found at i:17552959 original size:49 final size:49
Alignment explanation
Indices: 17552897--17552991 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
17552887 AAACTTGAGA
*
17552897 GGTTCTTGCTTATTCTTAGTATACTAAACCTAGCATAATTGAAAACGGT
1 GGTTCTTGCTTATTCTTAGTAGACTAAACCTAGCATAATTGAAAACGGT
*
17552946 GGTTCTTGCTTATTCTTAGTAGACTTAACCTAGCATAATTGAAAAC
1 GGTTCTTGCTTATTCTTAGTAGACTAAACCTAGCATAATTGAAAAC
17552992 AGTGTTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (49 bp):
GGTTCTTGCTTATTCTTAGTAGACTAAACCTAGCATAATTGAAAACGGT
Found at i:17554308 original size:10 final size:11
Alignment explanation
Indices: 17554291--17554334 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
17554281 ATGATATGGG
17554291 CTTTTTTTTTT
1 CTTTTTTTTTT
17554302 CTTTTTTTTTTT
1 C-TTTTTTTTTT
* *
17554314 CGTTTTGTTTT
1 CTTTTTTTTTT
17554325 CTTTTGTTTT
1 CTTTT-TTTT
17554335 GGCCAAATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:17554493 original size:16 final size:15
Alignment explanation
Indices: 17554451--17554503 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
17554441 AAATCTATTT
17554451 TTTATATTTTATGTT-
1 TTTATATTTTA-GTTA
17554466 TTTA-A-TTT-GTTA
1 TTTATATTTTAGTTA
17554478 TTTATATTTTAAGTTA
1 TTTATATTTT-AGTTA
*
17554494 TTTTTATTTT
1 TTTATATTTT
17554504 GATTAAAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
11 3 0.09
12 4 0.12
13 4 0.12
14 4 0.12
15 4 0.12
16 13 0.41
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTATATTTTAGTTA
Found at i:17556008 original size:12 final size:12
Alignment explanation
Indices: 17555988--17556029 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
17555978 AAGTTTTTCA
17555988 AATTAATTTTTAT
1 AATT-ATTTTTAT
17556001 AATTATTTTTCAT
1 AATTATTTTT-AT
*
17556014 -ATTATTTGTAT
1 AATTATTTTTAT
17556025 AATTA
1 AATTA
17556030 ATTAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.08
12 18 0.69
13 6 0.23
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
AATTATTTTTAT
Found at i:17556009 original size:24 final size:24
Alignment explanation
Indices: 17555981--17556029 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17555971 TAATATAAAG
*
17555981 TTTTTCAAATTAATTTTTATAATTA
1 TTTTTCAAATT-ATTTGTATAATTA
*
17556006 TTTTTCATATTATTTGTATAATTA
1 TTTTTCAAATTATTTGTATAATTA
17556030 ATTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTTCAAATTATTTGTATAATTA
Found at i:17556059 original size:20 final size:20
Alignment explanation
Indices: 17556023--17556061 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17556013 TATTATTTGT
*
17556023 ATAATTAATTAATAATTAAA
1 ATAATAAATTAATAATTAAA
17556043 ATAATAAATATAA-AATTAA
1 ATAATAAAT-TAATAATTAA
17556062 TAAATCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATAAATTAATAATTAAA
Found at i:17556064 original size:15 final size:14
Alignment explanation
Indices: 17556029--17556066 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
17556019 TTGTATAATT
17556029 AATTAAT-AATTAA
1 AATTAATAAATTAA
17556042 AA-TAATAAATATAA
1 AATTAATAAAT-TAA
17556056 AATTAATAAAT
1 AATTAATAAAT
17556067 CAATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.18
13 5 0.23
14 5 0.23
15 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAATAAATTAA
Found at i:17570476 original size:19 final size:21
Alignment explanation
Indices: 17570448--17570486 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
17570438 TTAATGCTAA
17570448 TATAACCTAT-TG-ACAATAG
1 TATAACCTATATGCACAATAG
*
17570467 TATAAGCTATATGCACAATA
1 TATAACCTATATGCACAATA
17570487 TGCACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (21 bp):
TATAACCTATATGCACAATAG
Found at i:17570801 original size:6 final size:6
Alignment explanation
Indices: 17570790--17570842 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
17570780 AAGGCCAAAA
* * * * *
17570790 AATTTT AATTTT AATTTT AGTTAT CATTTT -GTTTT AATTTT AATCTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
17570837 AATTTT
1 AATTTT
17570843 GCTTTGGTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:17570841 original size:23 final size:23
Alignment explanation
Indices: 17570798--17570843 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
17570788 AAAATTTTAA
* *
17570798 TTTTAATTTTAGTTATCATTTTG
1 TTTTAATTTTAATTATAATTTTG
17570821 TTTTAATTTTAATCT-TAATTTTG
1 TTTTAATTTTAAT-TATAATTTTG
17570844 CTTTGGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (23 bp):
TTTTAATTTTAATTATAATTTTG
Found at i:17570852 original size:29 final size:30
Alignment explanation
Indices: 17570792--17570861 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
17570782 GGCCAAAAAA
* * *
17570792 TTTTAATTTTAATTTTAGTTATCATTTTG-
1 TTTTAATTTTAATCTTAATTATCATTTGGT
*
17570821 TTTTAATTTTAATCTTAATTTTGC-TTTGGT
1 TTTTAATTTTAATCTTAATTAT-CATTTGGT
17570851 TTTTAATTTTA
1 TTTTAATTTTA
17570862 GATTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.23, C:0.04, G:0.07, T:0.66
Consensus pattern (30 bp):
TTTTAATTTTAATCTTAATTATCATTTGGT
Found at i:17572006 original size:20 final size:20
Alignment explanation
Indices: 17571967--17572009 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17571957 TGATAATTTC
* **
17571967 TATATTATATTATTGTATGA
1 TATACTATATTATTACATGA
17571987 TATACTATATTATTACATGA
1 TATACTATATTATTACATGA
17572007 TAT
1 TAT
17572010 TGCATGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
TATACTATATTATTACATGA
Found at i:17573062 original size:34 final size:35
Alignment explanation
Indices: 17572997--17573066 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 35
17572987 ATGGGCTAGC
*
17572997 GAAATACTCCTACTCAAATTGAACATTTTCCATTT
1 GAAATACTCCTACTCAAATTGAACATCTTCCATTT
17573032 GAAATACTCC-ACTCAAATTGAACCA-CTTCCATTT
1 GAAATACTCCTACTCAAATTGAA-CATCTTCCATTT
17573066 G
1 G
17573067 TAGCTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (35 bp):
GAAATACTCCTACTCAAATTGAACATCTTCCATTT
Found at i:17576478 original size:22 final size:23
Alignment explanation
Indices: 17576444--17576493 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17576434 TGAAAGGTGT
*
17576444 AAAG-AAAAAAAAAAGAATGGAAA
1 AAAGCAAAAAAAAAA-AATGAAAA
17576467 AAAGCAAAAAAAAAAAATGAAAA
1 AAAGCAAAAAAAAAAAATGAAAA
17576490 AAAG
1 AAAG
17576494 AGAAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (23 bp):
AAAGCAAAAAAAAAAAATGAAAA
Found at i:17576805 original size:12 final size:12
Alignment explanation
Indices: 17576788--17576852 Score: 57
Period size: 12 Copynumber: 5.6 Consensus size: 12
17576778 TGATGGTGCA
17576788 AAAAAAAAAGGC
1 AAAAAAAAAGGC
*
17576800 AAAAAAAAAGAC
1 AAAAAAAAAGGC
17576812 AAACAAAAAA--C
1 AAA-AAAAAAGGC
*
17576823 AAAGAAAAAGAG-
1 AAAAAAAAAG-GC
*
17576835 AAAAAATAA-GC
1 AAAAAAAAAGGC
17576846 AAAAAAA
1 AAAAAAA
17576853 GAAAACTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
10 6 0.14
11 10 0.23
12 21 0.49
13 6 0.14
ACGTcount: A:0.80, C:0.08, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGGC
Found at i:17576825 original size:23 final size:23
Alignment explanation
Indices: 17576799--17576852 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
17576789 AAAAAAAAGG
17576799 CAAAAAAAAAGACAAACAAA-AAA
1 CAAAAAAAAAGACAAA-AAATAAA
* * *
17576822 CAAAGAAAAAGAGAAAAAATAAG
1 CAAAAAAAAAGACAAAAAATAAA
17576845 CAAAAAAA
1 CAAAAAAA
17576853 GAAAACTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (23 bp):
CAAAAAAAAAGACAAAAAATAAA
Found at i:17577981 original size:24 final size:23
Alignment explanation
Indices: 17577957--17578074 Score: 89
Period size: 24 Copynumber: 5.1 Consensus size: 23
17577947 TTTCAAATGA
17577957 AAATCTTTAAAATTTTGGATGTG
1 AAATCTTTAAAATTTTGGATGTG
* * * *
17577980 AAACCTTAAAAAGTTTTTGA-ATG
1 AAATCTTTAAAA-TTTTGGATGTG
*
17578003 AGAATCATTAAAATTTTGGATGTG
1 A-AATCTTTAAAATTTTGGATGTG
* *
17578027 -AATCTCTAAAACTTTTTGAATGTG
1 AAATCTTTAAAA--TTTTGGATGTG
* * *
17578051 -AATCATTGAAATATTGGATGTG
1 AAATCTTTAAAATTTTGGATGTG
17578073 AA
1 AA
17578075 TCCTCAAATT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 18 0.25
23 20 0.28
24 34 0.47
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (23 bp):
AAATCTTTAAAATTTTGGATGTG
Found at i:17578029 original size:22 final size:22
Alignment explanation
Indices: 17577958--17578076 Score: 105
Period size: 22 Copynumber: 5.2 Consensus size: 22
17577948 TTCAAATGAA
*
17577958 AATCTTTAAAATTTTGGATGTG
1 AATCATTAAAATTTTGGATGTG
* * * *
17577980 AAACCTTAAAAAGTTTTTGAATGAG
1 AATCATT-AAAA--TTTTGGATGTG
17578005 AATCATTAAAATTTTGGATGTG
1 AATCATTAAAATTTTGGATGTG
*
17578027 AATC-TCTAAAACTTTTTGAATGTG
1 AATCAT-TAAAA--TTTTGGATGTG
* *
17578051 AATCATTGAAATATTGGATGTG
1 AATCATTAAAATTTTGGATGTG
17578073 AATC
1 AATC
17578077 CTCAAATTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
21 1 0.01
22 36 0.46
23 4 0.05
24 22 0.28
25 15 0.19
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.39
Consensus pattern (22 bp):
AATCATTAAAATTTTGGATGTG
Found at i:17578068 original size:46 final size:47
Alignment explanation
Indices: 17577952--17578078 Score: 168
Period size: 46 Copynumber: 2.7 Consensus size: 47
17577942 AAATTTTTCA
* * * *
17577952 AATGAAAATCTTTAAAATTTTGGATGTGAAACCTTAAAAAGTTTTTG
1 AATGAGAATCATTAAAATTTTGGATGTGAATCCTTAAAAACTTTTTG
17577999 AATGAGAATCATTAAAATTTTGGATGTGAAT-CTCT-AAAACTTTTTG
1 AATGAGAATCATTAAAATTTTGGATGTGAATCCT-TAAAAACTTTTTG
* * *
17578045 AATGTGAATCATTGAAATATTGGATGTGAATCCT
1 AATGAGAATCATTAAAATTTTGGATGTGAATCCT
17578079 CAAATTTTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
46 40 0.56
47 31 0.44
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (47 bp):
AATGAGAATCATTAAAATTTTGGATGTGAATCCTTAAAAACTTTTTG
Found at i:17578106 original size:22 final size:22
Alignment explanation
Indices: 17578080--17578151 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
17578070 GTGAATCCTC
17578080 AAATTTTTCAAATGAAAATCTTT
1 AAATTTTTCAAATG-AAATCTTT
**
17578103 -AATTTTTCGATTTG-AATCTTT
1 AAATTTTTC-AAATGAAATCTTT
*
17578124 AAAATTTTCAAATGAGAATCTTT
1 AAATTTTTCAAATGA-AATCTTT
*
17578147 GAATT
1 AAATT
17578152 CTAGAAAGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
21 10 0.26
22 15 0.39
23 13 0.34
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (22 bp):
AAATTTTTCAAATGAAATCTTT
Found at i:17578378 original size:17 final size:17
Alignment explanation
Indices: 17578280--17578379 Score: 71
Period size: 17 Copynumber: 5.8 Consensus size: 17
17578270 ATTTTGGATG
17578280 TTGAAATTCTTTACGAATC
1 TTGAAATTC-TTACGAA-C
**
17578299 TTG-AATTCTTGTGAA-
1 TTGAAATTCTTACGAAC
*
17578314 TATGAAATTCTTGCGAATC
1 T-TGAAATTCTTACGAA-C
** *
17578333 TAAAAATTCTTAGGAAAC
1 TTGAAATTCTTACG-AAC
*
17578351 -TGAAATTCTTATGAAC
1 TTGAAATTCTTACGAAC
17578367 TTGAAATTCTTAC
1 TTGAAATTCTTAC
17578380 AAATCTTGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
15 1 0.02
16 5 0.08
17 37 0.58
18 15 0.23
19 6 0.09
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (17 bp):
TTGAAATTCTTACGAAC
Found at i:17578455 original size:17 final size:17
Alignment explanation
Indices: 17578415--17578462 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
17578405 TGAATTTTCT
*
17578415 ATTCTTGCAAATCTGAAA
1 ATTCTTGCAAAT-TTAAA
*
17578433 A-CCTTGCAAATTTAAA
1 ATTCTTGCAAATTTAAA
17578449 ATTCTTGCAAATTT
1 ATTCTTGCAAATTT
17578463 TTATATCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 20 0.77
18 1 0.04
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (17 bp):
ATTCTTGCAAATTTAAA
Found at i:17578495 original size:33 final size:33
Alignment explanation
Indices: 17578447--17578509 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
17578437 TGCAAATTTA
*
17578447 AAATTCTTGCAAATTTTTATATCTTATGAACCT
1 AAATTCTTACAAATTTTTATATCTTATGAACCT
* *
17578480 AAATTCTTACGAATTTTTATGTCTTATGAA
1 AAATTCTTACAAATTTTTATATCTTATGAA
17578510 TCTTTGTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (33 bp):
AAATTCTTACAAATTTTTATATCTTATGAACCT
Found at i:17578785 original size:42 final size:42
Alignment explanation
Indices: 17578670--17578798 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 42
17578660 ATTTAAAGTC
*
17578670 TTAAAGTTGTTTAGCCTCTGTATAAAGGAGCTCATTTCGTTAT
1 TTAAAGTTGTTTAGCCTCTGTATAGAGGAGC-CATTTCGTTAT
* * *
17578713 TTAAAGTTTTTTAACCTTTGTATAGAGGAGCCATTTC-TTAAT
1 TTAAAGTTGTTTAGCCTCTGTATAGAGGAGCCATTTCGTT-AT
* * *
17578755 TTAAAGTTG-TTATGCCTCTGTTTAGTGGAGCCCATTTCCTTAT
1 TTAAAGTTGTTTA-GCCTCTGTATAGAGGAG-CCATTTCGTTAT
17578798 T
1 T
17578799 CATATTTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 5 0.07
42 29 0.40
43 37 0.51
44 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (42 bp):
TTAAAGTTGTTTAGCCTCTGTATAGAGGAGCCATTTCGTTAT
Found at i:17579054 original size:12 final size:12
Alignment explanation
Indices: 17579039--17579082 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
17579029 TTGATTTCGG
17579039 TTTTAGTTTTAA
1 TTTTAGTTTTAA
*
17579051 TTTTGGTTTTTAA
1 TTTTAG-TTTTAA
*
17579064 TTTTAGTTTTAT
1 TTTTAGTTTTAA
17579076 TTTTAGT
1 TTTTAGT
17579083 AAAACAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (12 bp):
TTTTAGTTTTAA
Found at i:17579128 original size:16 final size:16
Alignment explanation
Indices: 17579080--17579128 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
17579070 TTTTATTTTT
17579080 AGTAAAACAAAAGTAAA
1 AGTAAAA-AAAAGTAAA
17579097 A--AAAAAAAAGTCAAA
1 AGTAAAAAAAAGT-AAA
*
17579112 AGTAAAAAAAGGTAAA
1 AGTAAAAAAAAGTAAA
17579128 A
1 A
17579129 TTAGAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 6 0.21
15 8 0.29
16 4 0.14
17 10 0.36
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.10
Consensus pattern (16 bp):
AGTAAAAAAAAGTAAA
Found at i:17580210 original size:21 final size:21
Alignment explanation
Indices: 17580185--17580224 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17580175 TTTTTTATTA
*
17580185 ATTAATTGCATGATAATTTAT
1 ATTAATTACATGATAATTTAT
17580206 ATTAATTACATGATAATTT
1 ATTAATTACATGATAATTT
17580225 CTATGCTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTAATTACATGATAATTTAT
Found at i:17584603 original size:142 final size:142
Alignment explanation
Indices: 17584111--17584672 Score: 691
Period size: 145 Copynumber: 3.9 Consensus size: 142
17584101 TATGCATTAT
* * * * *
17584111 AGAAGTATAAAATTACTAAAATA-CCCTTTAAGGGGTATTTTCATAATTTAATCTTTTAGAGTTC
1 AGAAGTATAAAATTACTAAAATACCCCTATAA-GGGTATTTTCGTAATTTGACCTTTT-GAGCTC
* * * *
17584175 AAATTTTTATCAAACTTTTTAGATCTTAGTTTCATAATATTTCATGATTTTTGGTCTATTTGAAA
64 AAATTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGT-GATTTGAAA
*
17584240 TCACAGCAGTACTCCG
128 TCACAGCAGTACT-TG
* * * * * * * *
17584256 AGAAGTGTGAAATTACCAAAATACCTCTATAAGGGTATATTT-GTAATTTGGCCTTTCTAATCTT
1 AGAAGTATAAAATTACTAAAATACCCCTATAAGGGTAT-TTTCGTAATTTGACCTTT-TGAGCTC
* * *
17584320 AAATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTTGAGCATTTGAAA
64 AAATTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTG-ATTTGAAA
* * *
17584385 TCACAGTATTACCCTG
128 TCACAGCAGTA-CTTG
* *
17584401 AAAAGTATGAAATTACTAAAATACCCCTATAAGGGTATTTTCGTAATTT-AGCCTTCTTGAGCTC
1 AGAAGTATAAAATTACTAAAATACCCCTATAAGGGTATTTTCGTAATTTGA-CCTT-TTGAGCTC
17584465 AAATTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGATTTGAAAT
64 AAATTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGATTTGAAAT
*
17584530 CATAG-AGTACTTG
129 CACAGCAGTACTTG
*
17584543 GGAAGTATAAAATTACTAAAATACCCCTATAAGGGTATTTTCGTAATTTGACCTATTTGAGCTCA
1 AGAAGTATAAAATTACTAAAATACCCCTATAAGGGTATTTTCGTAATTTGACCT-TTTGAGCTCA
* * * * * *
17584608 GATTTTTATGAAACTTTTCGGATCTTAATTTTATAATATTTCATGATTTTTAGTGTTTTAAAATC
65 AATTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGATTTGAAATC
17584673 CCAAAAATGA
Statistics
Matches: 360, Mismatches: 47, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
142 120 0.33
143 5 0.01
144 16 0.04
145 207 0.57
146 12 0.03
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (142 bp):
AGAAGTATAAAATTACTAAAATACCCCTATAAGGGTATTTTCGTAATTTGACCTTTTGAGCTCAA
ATTTTTATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGATTTGAAATCA
CAGCAGTACTTG
Found at i:17586236 original size:22 final size:22
Alignment explanation
Indices: 17586193--17586236 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17586183 TAATAACTCT
* *
17586193 TTTAATAATAAAATTGGTATAA
1 TTTAATAATAAAATTAGAATAA
17586215 TTTAGATAA-AAAATTAGAATAA
1 TTTA-ATAATAAAATTAGAATAA
17586237 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
TTTAATAATAAAATTAGAATAA
Found at i:17594143 original size:362 final size:360
Alignment explanation
Indices: 17593496--17594404 Score: 886
Period size: 362 Copynumber: 2.5 Consensus size: 360
17593486 CCAACCTGCG
* ** * *
17593496 AGGTATTTTCTGCTTTGA-TCCAAAGGTCTCACAATTTTGTCCCATAAAAGGTGCCTCACAAGTT
1 AGGTATTATCTGCTTTGACT-CAAAGGTCTCATGATTTTGTCCCACAAAAGATGCCTCACAAGTT
* * * *
17593560 TTGGATTTAGATCTCTACATATATATCATACCATATCCACATATTTTTCCAATGTGGGATTAGG-
65 TAGG-TTTAAATCTTTACATATATATCATACCATATCCACACATTTTT-CAATGTGGGATT-GGA
* * * *
17593624 GGCATTATAATCTCCCTACCTTTAAAACTTGATGTTCCTATCAAGCTGAGTCCAACCACGAAACT
127 GGCATTACAATCTCTC-ACCTTTAAAGCTTGACGTTCCTATCAAGCTGAGTCCAACCACGAAACT
* * ** * ** * *
17593689 AATATCACACTAGATGTTGGGATTCTAGAGGTGACTTTCCATCGTGTAGCATTTAGTGACTCTCA
191 AAGATCACACCAGACATTGAGATTCTAGAGGTGACTACCCACCATGTAGCATTTAGTGACTCTCA
* * * * ** **
17593754 CAGCCCCACCATTTAGCATTTAGTGACT-TTATGACGTAGCACTTAGTTTTTGTTTACTAGTGAC
256 CAACCCCACCATATAGCATTTAGTGACTCTTATAACGTAGCACTTAGTTCTCATCGACTAGTGAC
* * * * * * * *
17593818 TACTTTGATATCATTTGTGGATACCCATACCCGACCTATA
321 CACTCTAATACCATTTATGGAGACCCACACCCAACCTATA
* * * * * *
17593858 ATGTATTATCTGCTTTGACTCGAAGGTCTCATGATTTTATCGCACAAAAGATGCCTCACGAGATC
1 AGGTATTATCTGCTTTGACTCAAAGGTCTCATGATTTTGTCCCACAAAAGATGCCTCACAAG-TT
* * * *
17593923 TAGGTTTAAATCTTTACATGTATATCATATCATATCTACACATTCTTTCAATATGGGATTGGAGG
65 TAGGTTTAAATCTTTACATATATATCATACCATATCCACACATT-TTTCAATGTGGGATTGGAGG
* * * * *
17593988 CATTACAATCTCTTCACCTTTAAAGCTTGACGTTCTTGTCAA-ATCGAGTCTAACCA-TAAGACT
129 CATTACAATCTC-TCACCTTTAAAGCTTGACGTTCCTATCAAGCT-GAGTCCAACCACGAA-ACT
*
17594051 AAGATCACACCAGACATTGAGATTCTAGAGGTGGCTACCCACCATGTAGCATTTAGTGACTC-CT
191 AAGATCACACCAGACATTGAGATTCTAGAGGTGACTACCCACCATGTAGCATTTAGTGACTCTC-
*** * * *
17594115 ACAATGGCACCGTATAGCATTTAGTGACTCTTATAATGTAGCACTTAGTTCTCATCGACTGGTGA
255 ACAACCCCACCATATAGCATTTAGTGACTCTTATAACGTAGCACTTAGTTCTCATCGACTAGTGA
* *
17594180 CCACTCTAATACCATTTATGGAGACCTACACCCAACCTATG
320 CCACTCTAATACCATTTATGGAGACCCACACCCAACCTATA
* * * * *
17594221 AGGTTTTGTCAGCTTTGACCCAAAGGTCTCATGGTTTTGTCCCACAAAA-AGTGCCTCACAAGTT
1 AGGTATTATCTGCTTTGACTCAAAGGTCTCATGATTTTGTCCCACAAAAGA-TGCCTCACAAG-T
* * * * * **
17594285 TTAGGTTTACA--TTTATATATATATAATGCCATATCCACACATTTTTTTAATGTAAGATT-GAG
64 TTAGGTTTAAATCTTTACATATATATCATACCATATCCACACA-TTTTTCAATGTGGGATTGGA-
* * **
17594347 GGTATTACAATCTCCTCACCTTTAAAGCTTGATG-TCCTTATCAAGCCAAGTCCAACCA
127 GGCATTACAATCT-CTCACCTTTAAAGCTTGACGTTCC-TATCAAGCTGAGTCCAACCA
17594405 TAAGATCAAG
Statistics
Matches: 439, Mismatches: 93, Indels: 31
0.78 0.17 0.06
Matches are distributed among these distances:
360 4 0.01
361 85 0.19
362 223 0.51
363 127 0.29
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (360 bp):
AGGTATTATCTGCTTTGACTCAAAGGTCTCATGATTTTGTCCCACAAAAGATGCCTCACAAGTTT
AGGTTTAAATCTTTACATATATATCATACCATATCCACACATTTTTCAATGTGGGATTGGAGGCA
TTACAATCTCTCACCTTTAAAGCTTGACGTTCCTATCAAGCTGAGTCCAACCACGAAACTAAGAT
CACACCAGACATTGAGATTCTAGAGGTGACTACCCACCATGTAGCATTTAGTGACTCTCACAACC
CCACCATATAGCATTTAGTGACTCTTATAACGTAGCACTTAGTTCTCATCGACTAGTGACCACTC
TAATACCATTTATGGAGACCCACACCCAACCTATA
Found at i:17595657 original size:41 final size:42
Alignment explanation
Indices: 17595596--17595681 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 42
17595586 TGTAAGACAT
* * *
17595596 TACACAAGAATAGTTAAGGCTT-TCTATCCAGTACTTTTCCA
1 TACACAAGAATAGTGAAGGCTTATCTATCCAGTACATATCCA
*
17595637 TACACAAGAATAGTGGAGGCTTATCTATCCAGTACATATCCA
1 TACACAAGAATAGTGAAGGCTTATCTATCCAGTACATATCCA
17595679 TAC
1 TAC
17595682 TAGTGTTAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 20 0.50
42 20 0.50
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
TACACAAGAATAGTGAAGGCTTATCTATCCAGTACATATCCA
Found at i:17612285 original size:41 final size:42
Alignment explanation
Indices: 17612240--17612328 Score: 146
Period size: 41 Copynumber: 2.1 Consensus size: 42
17612230 TTAATAATTA
*
17612240 TTATAT-ATATTTAATAAATTAAAAAATATAT-TTTTATTTTT
1 TTATATGA-ATTTAATAAATTAAAAAATATATATTTTATATTT
17612281 TTATATGAATTTAATAAATTAAAAAATATATATTTTATATTT
1 TTATATGAATTTAATAAATTAAAAAATATATATTTTATATTT
17612323 TTATAT
1 TTATAT
17612329 CGACATAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 29 0.64
42 16 0.36
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (42 bp):
TTATATGAATTTAATAAATTAAAAAATATATATTTTATATTT
Found at i:17612395 original size:39 final size:40
Alignment explanation
Indices: 17612348--17612424 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
17612338 TTATAATATA
* *
17612348 TAATTTTTATATAA-A-ATATAATATAAATATATAAATTT
1 TAATTTTTATATAATATAAATAATATAAATATACAAATTT
*
17612386 TAATATTTTATATAATATAAATAATATGAATATACAAAT
1 TAAT-TTTTATATAATATAAATAATATAAATATACAAAT
17612425 CGTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 4 0.12
39 10 0.30
40 1 0.03
41 18 0.55
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (40 bp):
TAATTTTTATATAATATAAATAATATAAATATACAAATTT
Found at i:17612597 original size:23 final size:23
Alignment explanation
Indices: 17612569--17612615 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
17612559 TATATATGTT
* *
17612569 AAAATATAAATTTTAAATTTTAA
1 AAAATAAAAATTATAAATTTTAA
*
17612592 AAAATAAAAATTATATATTTTAA
1 AAAATAAAAATTATAAATTTTAA
17612615 A
1 A
17612616 TTTTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATAAAAATTATAAATTTTAA
Found at i:17612612 original size:30 final size:29
Alignment explanation
Indices: 17612569--17612629 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
17612559 TATATATGTT
17612569 AAAATATAAATTTTAAATTTTAAAAAATA
1 AAAATATAAATTTTAAATTTTAAAAAATA
* *
17612598 AAAATTATATATTTTAAATTTTAAATAATA
1 AAAA-TATAAATTTTAAATTTTAAAAAATA
17612628 AA
1 AA
17612630 TTTATTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATATAAATTTTAAATTTTAAAAAATA
Found at i:17617328 original size:15 final size:14
Alignment explanation
Indices: 17617308--17617363 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
17617298 CTTACGAAAT
17617308 TTTTAAAAATTTTAA
1 TTTT-AAAATTTTAA
*
17617323 TTTTAATATATTTAA
1 TTTTAAAAT-TTTAA
*
17617338 TATT-AAATTTTAA
1 TTTTAAAATTTTAA
17617351 TTTTAATAATTTT
1 TTTTAA-AATTTT
17617364 TAATATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 8 0.24
14 8 0.24
15 18 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAATTTTAA
Found at i:17617347 original size:28 final size:29
Alignment explanation
Indices: 17617314--17617369 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
17617304 AAATTTTTAA
17617314 AAATTTTAATTTTAAT-ATATTTAATATT
1 AAATTTTAATTTTAATAATATTTAATATT
*
17617342 AAATTTTAATTTTAATAATTTTTAATAT
1 AAATTTTAATTTTAATAATATTTAATAT
17617370 CAAAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATTTTAATTTTAATAATATTTAATATT
Found at i:17617399 original size:21 final size:20
Alignment explanation
Indices: 17617371--17617417 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
17617361 TTTTAATATC
17617371 AAAA-AATTAAAAAATCATAA
1 AAAATAATTAAAAAAT-ATAA
* **
17617391 GAAATAATTTTAAAATATAA
1 AAAATAATTAAAAAATATAA
17617411 AAAATAA
1 AAAATAA
17617418 AAATTTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAATTAAAAAATATAA
Found at i:17617422 original size:23 final size:24
Alignment explanation
Indices: 17617396--17617441 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
17617386 CATAAGAAAT
17617396 AATTTTA-AAATATAAAAA-ATAAA
1 AATTTTATAAAT-TAAAAATATAAA
17617419 AATTTTATAAATTAAAAATATAA
1 AATTTTATAAATTAAAAATATAA
17617442 TTATGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTTTATAAATTAAAAATATAAA
Found at i:17619600 original size:15 final size:15
Alignment explanation
Indices: 17619580--17619608 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17619570 GCCAAACTTA
17619580 TTTTTATTTTTTTTC
1 TTTTTATTTTTTTTC
17619595 TTTTTATTTTTTTT
1 TTTTTATTTTTTTT
17619609 AATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTATTTTTTTTC
Found at i:17620095 original size:21 final size:21
Alignment explanation
Indices: 17620057--17620096 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17620047 ATGCATTATA
*
17620057 TTAATAAAATTATTTTTTAAC
1 TTAATAAAATTATATTTTAAC
17620078 TTAAT-AAATTAATATTTTA
1 TTAATAAAATT-ATATTTTA
17620097 TGCTCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATAAAATTATATTTTAAC
Done.