Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 70 of 100
Found at i:12485653 original size:28 final size:28
Alignment explanation
Indices: 12485616--12485678 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
12485606 AGAAAAGGAA
*
12485616 AATAAGATAA-AATAATAATAATAATAAT
1 AATAATATAATAAT-ATAATAATAATAAT
* * *
12485644 AATAATATAATCATTTAGTAATAATAAT
1 AATAATATAATAATATAATAATAATAAT
12485672 AATAATA
1 AATAATA
12485679 GTGACATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (28 bp):
AATAATATAATAATATAATAATAATAAT
Found at i:12485692 original size:3 final size:3
Alignment explanation
Indices: 12485622--12485678 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
12485612 GGAAAATAAG
* * *
12485622 ATA A-A ATA ATA ATA ATA ATA ATA ATA AT- ATA ATC AT- TTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12485667 ATA ATA ATA ATA
1 ATA ATA ATA ATA
12485679 GTGACATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 5 0.11
3 42 0.89
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:12486161 original size:114 final size:113
Alignment explanation
Indices: 12486030--12486339 Score: 329
Period size: 115 Copynumber: 2.7 Consensus size: 113
12486020 AGATGATTGA
* * *
12486030 GATGAAACCATGAATCATAAGAAATGATCTGGCTGAGCTAA-ATTCAAATGATCATGATGAAACC
1 GATGAAACCATGAATCATAAGAAATGATCTGGCTGAGCTAAGA-TCAAATGATCAAGATAAAATC
* * ** *
12486094 ATAAGTCAAAATGAAGCGATTAGGATCAAGTTGAGGCTGAAAATGCC-CGT
65 ATAAGTCAAAATGAAGCGATTAAGATCAAGTAGAGG-T-AAAAAACCACGG
** * ** *
12486144 GATGAAACCATGAATCATAAGAAATGATCTGGACT-AATTCAAGATCAAGTGATCGGGACAAAAT
1 GATGAAACCATGAATCATAAGAAATGATCTGG-CTGAGCT-AAGATCAAATGATCAAGATAAAAT
* * *
12486208 CACAAGTCAAAATAAAACGATTAAGATCAAGTAGAGGTAAAAAACCATCGG
64 CATAAGTCAAAATGAAGCGATTAAGATCAAGTAGAGGTAAAAAACCA-CGG
* * * * *
12486259 GATGAAATCATGAATCATAAGAAATGATATGAACTGAGCTAAGATCAGAGGATCAAGATAAAATC
1 GATGAAACCATGAATCATAAGAAATGATCTG-GCTGAGCTAAGATCAAATGATCAAGATAAAATC
*
12486324 ATGAGTCAAAATGAAG
65 ATAAGTCAAAATGAAG
12486340 TAACCAAGAT
Statistics
Matches: 158, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
113 6 0.04
114 35 0.22
115 114 0.72
116 3 0.02
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (113 bp):
GATGAAACCATGAATCATAAGAAATGATCTGGCTGAGCTAAGATCAAATGATCAAGATAAAATCA
TAAGTCAAAATGAAGCGATTAAGATCAAGTAGAGGTAAAAAACCACGG
Found at i:12497940 original size:17 final size:17
Alignment explanation
Indices: 12497918--12497972 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
12497908 AATTCATGAA
*
12497918 TTTATTTTGTAAGGATT
1 TTTATTTTGAAAGGATT
*
12497935 TTTA-TTTGAAAAAGATT
1 TTTATTTTG-AAAGGATT
*
12497952 TTTTTTATTGAAAGGATT
1 TTTATT-TTGAAAGGATT
12497970 TTT
1 TTT
12497973 TTATATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 4 0.13
17 13 0.42
18 11 0.35
19 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
TTTATTTTGAAAGGATT
Found at i:12497969 original size:18 final size:20
Alignment explanation
Indices: 12497933--12497974 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
12497923 TTTGTAAGGA
12497933 TTTTTATTTGAAAAAGATTT
1 TTTTTATTTGAAAAAGATTT
*
12497953 TTTTTA-TTG-AAAGGATTT
1 TTTTTATTTGAAAAAGATTT
12497971 TTTT
1 TTTT
12497975 ATATATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTTTATTTGAAAAAGATTT
Found at i:12498081 original size:19 final size:18
Alignment explanation
Indices: 12498045--12498078 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12498035 GAAAACTTTG
12498045 TTTGAAAAGATTTTTTTA
1 TTTGAAAAGATTTTTTTA
12498063 TTTGAAAAG-TTTTTTT
1 TTTGAAAAGATTTTTTT
12498079 TTAAATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
TTTGAAAAGATTTTTTTA
Found at i:12498218 original size:21 final size:22
Alignment explanation
Indices: 12498166--12498219 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
12498156 AAATTTCTTA
12498166 AAAATAAAAACAGAAAAATAAAAT
1 AAAATAAAAAC--AAAAATAAAAT
***
12498190 AGGTTAAAAAC-AAAATAAAAT
1 AAAATAAAAACAAAAATAAAAT
12498211 AAAATAAAA
1 AAAATAAAA
12498220 TAAAAAAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 16 0.67
24 8 0.33
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAATAAAAACAAAAATAAAAT
Found at i:12499119 original size:3 final size:3
Alignment explanation
Indices: 12499072--12499103 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
12499062 AAGAAACTAA
12499072 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12499104 GGTGACATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12499176 original size:3 final size:3
Alignment explanation
Indices: 12499163--12499233 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
12499153 AGAAAAGGAA
* *
12499163 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT -AT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12499209 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12499234 GTGACATTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12499779 original size:7 final size:7
Alignment explanation
Indices: 12499767--12499821 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
12499757 TATTTTCATG
12499767 TAATTAA
1 TAATTAA
*
12499774 TAATTATG
1 TAATTA-A
*
12499782 TAATAAA
1 TAATTAA
12499789 TAATTAA
1 TAATTAA
12499796 TAATTAA
1 TAATTAA
12499803 TAA-TAA
1 TAATTAA
12499809 TATATCTAA
1 TA-AT-TAA
12499818 TAAT
1 TAAT
12499822 ACTTTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.12
7 23 0.57
8 7 0.17
9 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (7 bp):
TAATTAA
Found at i:12499784 original size:15 final size:15
Alignment explanation
Indices: 12499764--12499806 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
12499754 AATTATTTTC
12499764 ATGTAATTAATAATT
1 ATGTAATTAATAATT
*
12499779 ATGTAATAAATAATT
1 ATGTAATTAATAATT
*
12499794 A-ATAATTAATAAT
1 ATGTAATTAATAAT
12499807 AATATATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
ATGTAATTAATAATT
Found at i:12499818 original size:22 final size:22
Alignment explanation
Indices: 12499767--12499821 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
12499757 TATTTTCATG
*
12499767 TAATTAATAATTATGTAATAAA
1 TAATTAATAATTATATAATAAA
12499789 TAATTAATAATTA-ATAAT-AA
1 TAATTAATAATTATATAATAAA
12499809 TATATCTAATAAT
1 TA-AT-TAATAAT
12499822 ACTTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATTAATAATTATATAATAAA
Found at i:12500350 original size:11 final size:11
Alignment explanation
Indices: 12500334--12500358 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12500324 ATATTTAAAA
12500334 ATTAAAAAATT
1 ATTAAAAAATT
12500345 ATTAAAAAATT
1 ATTAAAAAATT
12500356 ATT
1 ATT
12500359 TTTAAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:12500437 original size:17 final size:17
Alignment explanation
Indices: 12500405--12500476 Score: 69
Period size: 17 Copynumber: 4.2 Consensus size: 17
12500395 AATATTTATC
*
12500405 AATTTATTAATATAATA
1 AATTTATTTATATAATA
*
12500422 AATTTTATTTAT-TAATT
1 AA-TTTATTTATATAATA
12500439 AATTTA-TTATATAATAA
1 AATTTATTTATATAAT-A
*
12500456 AATTTAATTT-TATATTA
1 AATTT-ATTTATATAATA
12500473 AATT
1 AATT
12500477 AATAAAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
15 4 0.09
16 8 0.17
17 18 0.39
18 14 0.30
19 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTATTTATATAATA
Found at i:12500473 original size:33 final size:34
Alignment explanation
Indices: 12500405--12500473 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
12500395 AATATTTATC
* *
12500405 AATTTATTAATATAATAAATTTTATTTATTAATT
1 AATTTATTAATATAATAAAATTTAATTATTAATT
12500439 AATTTATT-ATATAATAAAATTTAATT-TTATATT
1 AATTTATTAATATAATAAAATTTAATTATTA-ATT
12500472 AA
1 AA
12500474 ATTAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 3 0.09
33 21 0.66
34 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
AATTTATTAATATAATAAAATTTAATTATTAATT
Found at i:12500474 original size:18 final size:17
Alignment explanation
Indices: 12500405--12500461 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
12500395 AATATTTATC
12500405 AATTTATTAATATAATAA
1 AATTTATT-ATATAATAA
* *
12500423 ATTTTATT-TATTAAT-T
1 AATTTATTATA-TAATAA
12500439 AATTTATTATATAATAA
1 AATTTATTATATAATAA
12500456 AATTTA
1 AATTTA
12500462 ATTTTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 13 0.41
17 12 0.38
18 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATTATATAATAA
Found at i:12501983 original size:20 final size:20
Alignment explanation
Indices: 12501954--12502009 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
12501944 AAAGTAAAAA
12501954 AAAATCATAAAAAATAATTTT
1 AAAAT-ATAAAAAATAATTTT
* *
12501975 AAAATATAAAAAAGAGTTTT
1 AAAATATAAAAAATAATTTT
* *
12501995 -AGATATTAAAAATAA
1 AAAATATAAAAAATAA
12502010 AGATATATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 11 0.38
20 13 0.45
21 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAATATAAAAAATAATTTT
Found at i:12502902 original size:10 final size:10
Alignment explanation
Indices: 12502882--12502919 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
12502872 TGTGATAATT
*
12502882 TAAAACATAA
1 TAAAAAATAA
*
12502892 TAAAAAGTAA
1 TAAAAAATAA
12502902 TAAAAAAT-A
1 TAAAAAATAA
12502911 TAAAAAATA
1 TAAAAAATA
12502920 TTATTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:12503999 original size:17 final size:18
Alignment explanation
Indices: 12503963--12504010 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
12503953 GGTTGACAAC
12503963 ATAAAAAATATTATTATAA
1 ATAAAAAATA-TATTATAA
*
12503982 ATAAAAAATA-ATTTTAA
1 ATAAAAAATATATTATAA
*
12503999 ACAAAAAA-ATAT
1 ATAAAAAATATAT
12504011 GTGTTAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 15 0.58
19 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAAATATATTATAA
Found at i:12504024 original size:19 final size:17
Alignment explanation
Indices: 12503960--12504024 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 17
12503950 ATAGGTTGAC
12503960 AACATAAAAAATATTATT
1 AACATAAAAAATATT-TT
*
12503978 ATAAATAAAAAATAATTTT
1 A-ACATAAAAAAT-ATTTT
12503997 AAACA-AAAAAATATGTGTT
1 -AACATAAAAAATAT-T-TT
12504016 AACATAAAA
1 AACATAAAA
12504025 GGGTAAGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 2 0.05
18 13 0.33
19 20 0.51
20 4 0.10
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (17 bp):
AACATAAAAAATATTTT
Found at i:12504228 original size:21 final size:21
Alignment explanation
Indices: 12504204--12504262 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
12504194 AGGAACAAGT
*
12504204 ATAACAAAATATTATT-GTAAC
1 ATAA-AAAATATTATTGGCAAC
* *
12504225 ATAAATAATATTTTTGGCAAC
1 ATAAAAAATATTATTGGCAAC
12504246 ATAAAAGAATTATTATT
1 ATAAAA-AA-TATTATT
12504263 ACAAATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.30
21 13 0.43
22 2 0.07
23 6 0.20
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
ATAAAAAATATTATTGGCAAC
Found at i:12504236 original size:20 final size:21
Alignment explanation
Indices: 12504211--12504276 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 21
12504201 AGTATAACAA
*
12504211 AATATTATT-GTAACATAAAT
1 AATATTATTGGCAACATAAAT
* *
12504231 AATATTTTTGGCAACATAAAAG
1 AATATTATTGGCAACAT-AAAT
*
12504253 AATTATTATT-ACAA-ATAAAT
1 AA-TATTATTGGCAACATAAAT
12504273 AATA
1 AATA
12504277 ATTCTAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.05
20 13 0.35
21 8 0.22
22 8 0.22
23 6 0.16
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (21 bp):
AATATTATTGGCAACATAAAT
Found at i:12504705 original size:16 final size:16
Alignment explanation
Indices: 12504686--12504737 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
12504676 TAAAAAAATT
12504686 ATAATTATAAATAAAA
1 ATAATTATAAATAAAA
*
12504702 ATAATTTTAAATAAAAA
1 ATAATTATAAAT-AAAA
*
12504719 ATAAGTATTAAAGTAAAA
1 ATAATTA-TAAA-TAAAA
12504737 A
1 A
12504738 GATAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
17 9 0.30
18 9 0.30
19 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
ATAATTATAAATAAAA
Found at i:12505008 original size:216 final size:218
Alignment explanation
Indices: 12504246--12505009 Score: 598
Period size: 217 Copynumber: 3.5 Consensus size: 218
12504236 TTTTGGCAAC
* * * * *
12504246 ATAAAAGAATTATTATTACAAATAAATAATAATTCTAAA-T-AAAA-AAGTGTTAATATAAAAAA
1 ATAAAAAAATTATTATTATAAATAAA-AATAATTTTAAACTAAAAATAAGTATTAACAT-AAAAA
* * * ** * * * * * * *
12504308 GGTGTGAGTAATTGTAAAACTGATATCATTTCACATAAAATG-GTTAAAAGTGTCATAACACCTT
64 TGTGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTGTTAAAAATATCACAACACC-T
** * ** ** ** * * * *
12504372 TAA-GAAAAGGTTATGATAATCCTAAACGTAATGAAAGGTAACAATAAACATAAAAATATATTAT
128 TAACGAAAAAATTATAATAATTTTAAAAATAATGAAAAATAAAAACAAACGTAAAAAAATATTAT
* *
12504436 TATAATATAAAT-ATTAAGTTAATAAT
193 TGTAA-ATAAATAATTAAATTAATAAT
* * *
12504462 ATAAAAAAATTATTATTACAAATAAAAATAATTTTAAACAAAAAATAAGAATTAACAT-AAAATA
1 ATAAAAAAATTATTATTATAAATAAAAATAATTTTAAACTAAAAATAAGTATTAACATAAAAAT-
** * * * * ****
12504526 GTGAGAATAATTGTAAAATTGATATTATTTTACGTAAGATG-GTTAAAAGTATTGTTACACCTTA
65 GTGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTGTTAAAAATATCACAACACCTTA
* ** * * *
12504590 ACTAAAAAATTATAATAATTTTAAATGTAATGAAAAGTAATAACAAACGTAAAAAAATATCATTG
130 ACGAAAAAATTATAATAATTTTAAAAATAATGAAAAATAAAAACAAACGTAAAAAAATATTATTG
** *
12504655 --AA-ACGTAA-TAAATTTATAAT
195 TAAATAAATAATTAAATTAATAAT
* *
12504675 GTAAAAAAATTATAATTATAAATAAAAATAATTTTAAA-TAAAAAATAAGTATTAA-AGTAAAAA
1 ATAAAAAAATTATTATTATAAATAAAAATAATTTTAAACT-AAAAATAAGTATTAACA-TAAAAA
* * * ** * ** *
12504738 -GATAAAAATAATCATAAAATTAATATAATTTAATATAAAATATGTTTGAAATATCACAATA-CT
64 TG-TGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTGTTAAAAATATCACAACACCT
* * * * *
12504801 TAA-GAAAAAATTATGATAATTTTAAAAATAAT-AAAATATAAAAAC-AAGGT-AACAGATTTTA
128 TAACGAAAAAATTATAATAATTTTAAAAATAATGAAAA-ATAAAAACAAACGTAAAAAAATATTA
*
12504862 TTGTAACATAAATAATTAAATTGATAAT
192 TTGTAA-ATAAATAATTAAATTAATAAT
* * *
12504890 AT-TAAAAATTATTATTATAAATAAAAAATAATTATAAACCTAAAAATAAGTGTTAACATAAAAA
1 ATAAAAAAATTATTATTATAAAT-AAAAATAATTTTAAA-CTAAAAATAAGTATTAACATAAAAA
*
12504954 TGTGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTATTAAAAATATCA
64 TGTGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTGTTAAAAATATCA
12505010 TAACGTATAA
Statistics
Matches: 438, Mismatches: 88, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
210 10 0.02
211 8 0.02
212 34 0.08
213 97 0.22
214 38 0.09
215 38 0.09
216 98 0.22
217 106 0.24
218 9 0.02
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (218 bp):
ATAAAAAAATTATTATTATAAATAAAAATAATTTTAAACTAAAAATAAGTATTAACATAAAAATG
TGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTGTTAAAAATATCACAACACCTTAA
CGAAAAAATTATAATAATTTTAAAAATAATGAAAAATAAAAACAAACGTAAAAAAATATTATTGT
AAATAAATAATTAAATTAATAAT
Found at i:12505178 original size:926 final size:919
Alignment explanation
Indices: 12503506--12505220 Score: 2016
Period size: 926 Copynumber: 1.9 Consensus size: 919
12503496 ACGCACAAAG
** *
12503506 ATATTATTAGAATATAAATAATTAAGTTGGCATTATAAAAAAATTATTGTAAAAAGTAAAAAAAT
1 ATATTATTAGAATATAAATAATTAAGTTAACAATATAAAAAAATTATTGTAAAAAGT-AAAAAAT
* *
12503571 AATTTTAAATAAAAAATTAAGAGTAACCATAAAACAGTGAGAATAATCATAAAATTGGTATTATT
65 AATTTTAAACAAAAAATTAAGAGTAACCATAAAACAGTGAGAATAATCATAAAATTGATATTATT
* *
12503636 TAACGTAAAATAATTAGAAGTATTATTACACTTTAAAAATTGTAATAATTTTAAATGTAATGAAA
130 TAACGTAAAATAATTAAAAGTATTATTACACTTTAAAAATTATAATAATTTTAAATGTAATGAAA
* *
12503701 AGATAATAAACATAAAAAAAATACTATTGAAACATAATAAATTGGTAACGTAAAAAATTAGTACT
195 AGATAACAAACATAAAAAAAATACTATTGAAACATAATAAATTGATAACGTAAAAAATTAGTACT
* * *
12503766 ATAAATAAAAAATAATTTAATAAAAAAATAAGTGTTAACATGAAAAAGTGAGAATAATCATAAAA
260 ATAAATAAAAAATAATTTAATAAAAAAATAAGTATTAACATGAAAAAGTAAAAATAATCATAAAA
* ** * * * * *
12503831 TTAATATTATTTGGCATAAAATATACTAGAAATATCATAATACATTAAGAGAAACTTGTGGTAAT
325 TTAATATAATTTAACATAAAATATACTAGAAATATCACAATACATTAAGAAAAAATTATGATAAT
* * **
12503896 TCTAAACATAATAAAAATAAGAACAAGCATAAAAGACTTTATTGTAAAATAAATATAGGTTGACA
390 TCTAAAAATAATAAAAATAAAAACAAGCATAAAAGACTTTATTGTAAAATAAATATAAATTGACA
* * *
12503961 ACATAAAAAATATTATTATAAATAAAAAATAATTTTAAACAAAAAAATATGTGTTAACATAAAAG
455 ACATAAAAAATATTATTATAAATAAAAAATAATTATAAACAAAAAAATAAGTGTTAACATAAAAA
* * **** * ** * ** *
12504026 GGTAAGAATAATTAAAAAATTGAAATCATTTTGTTTAAAATATGTTACTATGTTGTAATGCAAAA
520 GGTAAGAATAATCAAAAAATTGAAATAATTTAACGTAAAATATATTAAAATATCATAACGCAAAA
* * * ** * * * * * **
12504091 TTTAGGAATAGTTGTACAATTGGTATCATTTGGCATAAATTGAATTAGAAATGTTGTAACATCTT
585 GTGAGGAATAATCATAAAATTAGTATCATTTGACATAAATAGAATTAGAAATATCATAACATCTT
* *
12504156 AACAAAAAGTTGTGATAATTTTAAACATAATAAAAAGTAGGAACAAGTATAACAAAATATTATTG
650 AACAAAAAGTTATGATAATTTTAAACATAATAAAAAGTAAGAACAAG-ATAACAAAATATTATTG
** * *
12504221 TAACATAAATAATATTTTTGGCAACATAAAAGAATTATTATTACAAATAAATAATAATTCTAAAT
714 TAACATAAATAATATAGTTGACAACATAAAAGAATTATTATTACAAATAAAAAATAATT-T-AAT
12504286 AAAAAAGTGTTAATATAAAAAAGGTGTGAGTAATTGTAAAACTGATATCATTTCACATAAAATGG
777 AAAAAAGTGTTAATATAAAAAAGGTGTGAGTAATTGTAAAACTGATATCATTTCACATAAAATGG
12504351 TTAAAAGTGTCATAACACCTTTAAGAAAAGGTTATGATAATCCTAAACGTAATGAAAGGTAACAA
842 TTAAAAGTGTCATAACACCTTTAAGAAAAGGTTATGATAATCCTAAACGTAATGAAAGGTAACAA
12504416 TAAACATAAAAAT
907 TAAACATAAAAAT
* * * *
12504429 ATATTATTATAATATAAAT-ATTAAGTTAATAATATAAAAAAATTATTATTACAAA-T-AAAAAT
1 ATATTATTAGAATATAAATAATTAAGTTAACAATATAAAAAAATTATT-GTAAAAAGTAAAAAAT
* * **
12504491 AATTTTAAACAAAAAA-TAAGAATTAA-CATAAAATAGTGAGAATAATTGTAAAATTGATATTAT
65 AATTTTAAACAAAAAATTAAG-AGTAACCATAAAACAGTGAGAATAATCATAAAATTGATATTAT
* * ** *
12504554 TTTACGTAAGATGGTTAAAAGTATTGTTACACCTTAACTAAAAAATTATAATAATTTTAAATGTA
129 TTAACGTAAAATAATTAAAAGTATTATTACA-CTT---T-AAAAATTATAATAATTTTAAATGTA
* * * *
12504619 ATGAAAAGTAATAACAAACGT-AAAAAAATA-TCATTGAAACGTAATAAATTTATAATGTAAAAA
189 ATGAAAAG--ATAACAAACATAAAAAAAATACT-ATTGAAACATAATAAATTGATAACGT-AAAA
*
12504682 AATTA-TAATTATAAAT-AAAAATAATTTTAA-ATAAAAAATAAGTATTAA-A-GTAAAAAGATA
250 AATTAGT-ACTATAAATAAAAAATAA-TTTAATA-AAAAAATAAGTATTAACATG-AAAAAG-TA
* ** *
12504742 AAAATAATCATAAAATTAATATAATTTAATATAAAATATGTTTGAAATATCACAATAC-TTAAGA
310 AAAATAATCATAAAATTAATATAATTTAACATAAAATATACTAGAAATATCACAATACATTAAGA
* * * * *
12504806 AAAAATTATGATAATTTTAAAAATAATAAAATATAAAAACAAG-GTAACAGATTTTATTGTAACA
375 AAAAATTATGATAATTCTAAAAATAATAAAA-ATAAAAACAAGCATAAAAGACTTTATTGTAAAA
* * * **
12504870 TAAATAATTAAATTGATAATATTAAAAATTATTATTATAAATAAAAAATAATTATAAACCTAAAA
439 TAAAT-A-TAAATTGACAACA-TAAAAAATATTATTATAAATAAAAAATAATTATAAACAAAAAA
* * * * *
12504935 ATAAGTGTTAACATAAAAATGTGAGAATAATCATAAAATTGATATAATTTAACGTAAAATGTATT
501 ATAAGTGTTAACATAAAAAGGTAAGAATAATCAAAAAATTGAAATAATTTAACGTAAAATATATT
* *
12505000 AAAAATATCATAACGTATAAAGGTGA-GAATAATCATAAAATTAGTATCATTTGATATAAAATAG
566 -AAAATATCATAACGCA-AAA-GTGAGGAATAATCATAAAATTAGTATCATTTGACAT-AAATAG
* * * * * *
12505064 -ATTAGAACTATCATAATATCTTTAAGAAATAGTTATGATAATTTTAAACGTAATGAAATA-TAA
627 AATTAGAAATATCATAACATC-TTAACAAAAAGTTATGATAATTTTAAACATAAT-AAAAAGTAA
* * * **
12505127 GAACAA-A-AA-AAAA-ATTATTTTAACGTAAATAAT-TAAGTTGATATTATAAAAGAATTATTA
690 GAACAAGATAACAAAATATTATTGTAACATAAATAATAT-AGTTGACAACATAAAAGAATTATTA
*
12505187 TTATAAATAAAAAATAATTTAATAAAAAAGTGTT
754 TTACAAATAAAAAATAATTTAATAAAAAAGTGTT
12505221 TACGTAAAAA
Statistics
Matches: 656, Mismatches: 109, Indels: 53
0.80 0.13 0.06
Matches are distributed among these distances:
919 62 0.09
920 28 0.04
922 25 0.04
923 24 0.04
924 48 0.07
925 103 0.16
926 161 0.25
927 13 0.02
928 92 0.14
929 10 0.02
930 42 0.06
931 44 0.07
932 4 0.01
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (919 bp):
ATATTATTAGAATATAAATAATTAAGTTAACAATATAAAAAAATTATTGTAAAAAGTAAAAAATA
ATTTTAAACAAAAAATTAAGAGTAACCATAAAACAGTGAGAATAATCATAAAATTGATATTATTT
AACGTAAAATAATTAAAAGTATTATTACACTTTAAAAATTATAATAATTTTAAATGTAATGAAAA
GATAACAAACATAAAAAAAATACTATTGAAACATAATAAATTGATAACGTAAAAAATTAGTACTA
TAAATAAAAAATAATTTAATAAAAAAATAAGTATTAACATGAAAAAGTAAAAATAATCATAAAAT
TAATATAATTTAACATAAAATATACTAGAAATATCACAATACATTAAGAAAAAATTATGATAATT
CTAAAAATAATAAAAATAAAAACAAGCATAAAAGACTTTATTGTAAAATAAATATAAATTGACAA
CATAAAAAATATTATTATAAATAAAAAATAATTATAAACAAAAAAATAAGTGTTAACATAAAAAG
GTAAGAATAATCAAAAAATTGAAATAATTTAACGTAAAATATATTAAAATATCATAACGCAAAAG
TGAGGAATAATCATAAAATTAGTATCATTTGACATAAATAGAATTAGAAATATCATAACATCTTA
ACAAAAAGTTATGATAATTTTAAACATAATAAAAAGTAAGAACAAGATAACAAAATATTATTGTA
ACATAAATAATATAGTTGACAACATAAAAGAATTATTATTACAAATAAAAAATAATTTAATAAAA
AAGTGTTAATATAAAAAAGGTGTGAGTAATTGTAAAACTGATATCATTTCACATAAAATGGTTAA
AAGTGTCATAACACCTTTAAGAAAAGGTTATGATAATCCTAAACGTAATGAAAGGTAACAATAAA
CATAAAAAT
Found at i:12506180 original size:5 final size:5
Alignment explanation
Indices: 12506172--12506209 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
12506162 TACTCTTCTC
*
12506172 TTCAT TTCAT TTCAT TTCGT TTCAT TTCAT TTCAT TTC
1 TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTC
12506210 TTCCCGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.03, T:0.61
Consensus pattern (5 bp):
TTCAT
Found at i:12506867 original size:3 final size:3
Alignment explanation
Indices: 12506861--12506888 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12506851 CATGCTGCTG
12506861 CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA C
12506889 CTTGAGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:12512164 original size:29 final size:29
Alignment explanation
Indices: 12512122--12512181 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
12512112 TTTGTAGTCA
12512122 TTGAAGTATCAAATAGAGATCCCAAGATG
1 TTGAAGTATCAAATAGAGATCCCAAGATG
12512151 TTGAAGTATCAAATAGAGATCCCAAGATG
1 TTGAAGTATCAAATAGAGATCCCAAGATG
12512180 TT
1 TT
12512182 ATAGTGTTCT
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:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (29 bp):
TTGAAGTATCAAATAGAGATCCCAAGATG
Found at i:12512384 original size:123 final size:123
Alignment explanation
Indices: 12512165--12512413 Score: 480
Period size: 123 Copynumber: 2.0 Consensus size: 123
12512155 AGTATCAAAT
12512165 AGAGATCCCAAGATGTTATAGTGTTCTAATTGAATATCCGCTTGTTTGAGGGTAAGAGTGTATGG
1 AGAGATCCCAAGATGTTATAGTGTTCTAATTGAATATCCGCTTGTTTGAGGGTAAGAGTGTATGG
* *
12512230 TACCTAAATTTCTGTATCTCCTAATGTGAACTTGAAAAATTGAAAGGTTTCACTTGAA
66 TACCTAAATTTCTGTATCTCCTAATGTGAACTTAAAAAATTGAAAGGTTTCACTCGAA
12512288 AGAGATCCCAAGATGTTATAGTGTTCTAATTGAATATCCGCTTGTTTGAGGGTAAGAGTGTATGG
1 AGAGATCCCAAGATGTTATAGTGTTCTAATTGAATATCCGCTTGTTTGAGGGTAAGAGTGTATGG
12512353 TACCTAAATTTCTGTATCTCCTAATGTGAACTTAAAAAATTGAAAGGTTTCACTCGAA
66 TACCTAAATTTCTGTATCTCCTAATGTGAACTTAAAAAATTGAAAGGTTTCACTCGAA
12512411 AGA
1 AGA
12512414 CATTTTTATA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (123 bp):
AGAGATCCCAAGATGTTATAGTGTTCTAATTGAATATCCGCTTGTTTGAGGGTAAGAGTGTATGG
TACCTAAATTTCTGTATCTCCTAATGTGAACTTAAAAAATTGAAAGGTTTCACTCGAA
Found at i:12513097 original size:58 final size:59
Alignment explanation
Indices: 12513001--12513116 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 59
12512991 GAGTGTAATT
* * *
12513001 ATGGTTACCTTGCCACCTTTTTTGGTCGCGTCCATCTTTGAAGATTTCATTATCCTTTG
1 ATGGTTACCTTGCCACCTTTTATGGTCGCGTCAATCTTTGAAGATCTCATTATCCTTTG
*
12513060 ATGGTTACCTTGCCA-CTTTTATGGTTGCGTCAATCTTTGAAGATCTCATTATCCTTT
1 ATGGTTACCTTGCCACCTTTTATGGTCGCGTCAATCTTTGAAGATCTCATTATCCTTT
12513117 AATACCACTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 38 0.72
59 15 0.28
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (59 bp):
ATGGTTACCTTGCCACCTTTTATGGTCGCGTCAATCTTTGAAGATCTCATTATCCTTTG
Found at i:12523725 original size:20 final size:21
Alignment explanation
Indices: 12523688--12523730 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
12523678 TTTTTCTTTT
*
12523688 TTTAAAAAATCAACTTTT-AA
1 TTTAAAAAATCAAATTTTGAA
12523708 TTTAAAAAAT-AATATTTTGAA
1 TTTAAAAAATCAA-ATTTTGAA
12523729 TT
1 TT
12523731 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 14 0.70
21 4 0.20
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAAAAATCAAATTTTGAA
Found at i:12524196 original size:41 final size:41
Alignment explanation
Indices: 12524134--12524213 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
12524124 ATAAAAGTAG
* * * *
12524134 AATTGTTGTTTATATATACTTAATTTTGTTCGAATTGATCT
1 AATTATTGTTTATATACACTTAATTTTATCCGAATTGATCT
*
12524175 AATTATTGTTTGTATACACTTAATTTTATCCGAATTGAT
1 AATTATTGTTTATATACACTTAATTTTATCCGAATTGAT
12524214 TGACATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (41 bp):
AATTATTGTTTATATACACTTAATTTTATCCGAATTGATCT
Found at i:12525088 original size:13 final size:11
Alignment explanation
Indices: 12525056--12525080 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12525046 AATAATATAT
12525056 AAAATTAATAA
1 AAAATTAATAA
12525067 AAAATTAATAA
1 AAAATTAATAA
12525078 AAA
1 AAA
12525081 TGATTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTAATAA
Found at i:12526029 original size:11 final size:10
Alignment explanation
Indices: 12526009--12526036 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
12525999 AAGTAGCGCC
12526009 AAAAATAAAA
1 AAAAATAAAA
12526019 AAAAATAAAA
1 AAAAATAAAA
12526029 AAAAATAA
1 AAAAATAA
12526037 TCTTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:12526818 original size:15 final size:15
Alignment explanation
Indices: 12526798--12526828 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12526788 GGTATTTATT
*
12526798 TAAATAATAATGAAA
1 TAAATAATAATAAAA
12526813 TAAATAATAATAAAA
1 TAAATAATAATAAAA
12526828 T
1 T
12526829 TATGAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAATAATAATAAAA
Found at i:12526959 original size:74 final size:74
Alignment explanation
Indices: 12526862--12527035 Score: 226
Period size: 74 Copynumber: 2.4 Consensus size: 74
12526852 AATCTTTTGC
* * * * *
12526862 ATAATAATAAT-TTTATCATAAAATTTAACAAATTTTAATGAACAAGAATAAATAAAAAATATAG
1 ATAATAATAATAATAATCATAAAATATAACAAATTTTAATAAACAAAAATAAATAAAAAATATAG
*
12526926 GGTTTAGGT-
66 GGTTTA-ATA
* * *
12526935 ATAATAATAATAATAATCATAAAATATAACAAATTTTATTAAACAAAAATAAATAAAAACTTTAG
1 ATAATAATAATAATAATCATAAAATATAACAAATTTTAATAAACAAAAATAAATAAAAAATATAG
12527000 GGTTTAATA
66 GGTTTAATA
*
12527009 ATAATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATCATAA-AATA
12527036 ATAATAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
73 12 0.14
74 72 0.82
75 4 0.05
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (74 bp):
ATAATAATAATAATAATCATAAAATATAACAAATTTTAATAAACAAAAATAAATAAAAAATATAG
GGTTTAATA
Found at i:12527012 original size:3 final size:3
Alignment explanation
Indices: 12527004--12527059 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
12526994 CTTTAGGGTT
12527004 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12527052 TAA TAA TA
1 TAA TAA TA
12527060 GAATCTCCCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12534572 original size:16 final size:16
Alignment explanation
Indices: 12534553--12534595 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
12534543 TTTTCTATAT
*
12534553 TTATTTTAT-TTTTCTA
1 TTATTTTATATATT-TA
*
12534569 TTATTTGATATATTTA
1 TTATTTTATATATTTA
12534585 TTATTTTATAT
1 TTATTTTATAT
12534596 GATGCATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTTTATATATTTA
Found at i:12534582 original size:20 final size:19
Alignment explanation
Indices: 12534542--12534583 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
12534532 ATGTACTATT
*
12534542 TTTTTCTATATTTATTTTA
1 TTTTTCTATATTTATTATA
12534561 TTTTTCTATTATTTGA-TATA
1 TTTTTCTA-TATTT-ATTATA
12534581 TTT
1 TTT
12534584 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 11 0.55
21 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTCTATATTTATTATA
Found at i:12536795 original size:17 final size:17
Alignment explanation
Indices: 12536773--12536807 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12536763 TCAATACGAG
*
12536773 ACACATGGTATAATAAC
1 ACACATAGTATAATAAC
12536790 ACACATAGTATAATAAC
1 ACACATAGTATAATAAC
12536807 A
1 A
12536808 TACGAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (17 bp):
ACACATAGTATAATAAC
Found at i:12539074 original size:24 final size:22
Alignment explanation
Indices: 12539047--12539093 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
12539037 ACTAATAAAA
12539047 TATTAATAAAATATTTTATATTTT
1 TATTAAT-AAAT-TTTTATATTTT
**
12539071 TATTAATTTATTTTTATATTTT
1 TATTAATAAATTTTTATATTTT
12539093 T
1 T
12539094 TTTACTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 2 0.10
24 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTAATAAATTTTTATATTTT
Found at i:12540207 original size:23 final size:23
Alignment explanation
Indices: 12540180--12540235 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
12540170 TTCACATAAA
12540180 GGCCATATTTGGGCCGT-TAAAAG
1 GGCCATATTTGGGCC-TATAAAAG
* *
12540203 GGCCA-ACTTTGGGTCTATAAATG
1 GGCCATA-TTTGGGCCTATAAAAG
12540226 GGCCATATTT
1 GGCCATATTT
12540236 AGGCTGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 25 0.89
24 1 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCCATATTTGGGCCTATAAAAG
Found at i:12546424 original size:16 final size:17
Alignment explanation
Indices: 12546398--12546429 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12546388 AGAGATGAAT
12546398 TTTTAGAAAAAAAATTA
1 TTTTAGAAAAAAAATTA
12546415 TTTT-GAAAAAAAATT
1 TTTTAGAAAAAAAATT
12546430 TGATGAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
TTTTAGAAAAAAAATTA
Found at i:12547478 original size:9 final size:9
Alignment explanation
Indices: 12547464--12547491 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12547454 AATGAGTTTC
12547464 AAAATATAA
1 AAAATATAA
12547473 AAAATATAA
1 AAAATATAA
12547482 AAAATATAA
1 AAAATATAA
12547491 A
1 A
12547492 TCTTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATATAA
Found at i:12549931 original size:16 final size:16
Alignment explanation
Indices: 12549912--12549946 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12549902 TGTGATAACA
*
12549912 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
12549928 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
12549944 TAT
1 TAT
12549947 AAGTTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:12550546 original size:23 final size:25
Alignment explanation
Indices: 12550494--12550547 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
12550484 ATATGGACAA
*
12550494 ATTTGCTTGTGCTTGATATGCATAT
1 ATTTGATTGTGCTTGATATGCATAT
* *
12550519 GTTTGATTGTGCTT-AT-TTCATAT
1 ATTTGATTGTGCTTGATATGCATAT
12550542 ATTTGA
1 ATTTGA
12550548 GTAACATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 12 0.48
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (25 bp):
ATTTGATTGTGCTTGATATGCATAT
Found at i:12550928 original size:401 final size:401
Alignment explanation
Indices: 12550185--12550980 Score: 1457
Period size: 401 Copynumber: 2.0 Consensus size: 401
12550175 TATTACACTT
12550185 GATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCATTTTGTCCTATGCCTTGAA
1 GATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCATTTTGTCCTATGCCTTGAA
* *
12550250 TTGTTCTCTATTTCTTTTGAAATGACAAACTGGGGGAGAATTTGTAGATATTTCTTCTTGTATGC
66 TTGTTCTCTATTTCCTTTGAAATGACAAACTGGGGGAGAATTTATAGATATTTCTTCTTGTATGC
*
12550315 TTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAAAAAAAAAAAGG
131 TTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAAAAAAAAAAAGG
*
12550380 GAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTATGTTTATTGGCTCATTAATATGC
196 GAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTATGTTTATTGGCTCATTAATATGC
* *
12550445 TCATGCCTTTTTGCTATAACAAAAAAAAGGAGAAATATCATATGGACAAATTTGCTTGTGCTTGA
261 TCATACCTTTTTGCTATAACAAAAAAAAGGAGAAATATCATATGGAAAAATTTGCTTGTGCTTGA
*
12550510 TATGCATATGTTTGATTGTGCTTATTTCATATATTTGAGTAACATATGTTTGTTGAGTTGTGTTG
326 TATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAGTTGTGTTG
12550575 AATTGTTATAG
391 AATTGTTATAG
12550586 GATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCATTTTGTCCTATGCCTTGAA
1 GATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCATTTTGTCCTATGCCTTGAA
* * *
12550651 TTGTTCTCTCTTTCCTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTCTTCTTGTATGC
66 TTGTTCTCTATTTCCTTTGAAATGACAAACTGGGGGAGAATTTATAGATATTTCTTCTTGTATGC
12550716 TTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAAAAAAAAAAAGG
131 TTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAAAAAAAAAAAGG
*
12550781 GAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCATTAATATGC
196 GAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTATGTTTATTGGCTCATTAATATGC
**
12550846 TCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATATGGAAAAATTTGCTTGTGCTTGA
261 TCATACCTTTTTGCTATAACAAAAAAAAGGAGAAATATCATATGGAAAAATTTGCTTGTGCTTGA
* *
12550911 TATGCATATGTTTGATTGTGTTTATTTCATATATTTGACTGACATATGTTTGTTGAGTTGTGTTG
326 TATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAGTTGTGTTG
12550976 AATTG
391 AATTG
12550981 ACTAACATAT
Statistics
Matches: 380, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
401 380 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (401 bp):
GATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCATTTTGTCCTATGCCTTGAA
TTGTTCTCTATTTCCTTTGAAATGACAAACTGGGGGAGAATTTATAGATATTTCTTCTTGTATGC
TTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAAAAAAAAAAAGG
GAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTATGTTTATTGGCTCATTAATATGC
TCATACCTTTTTGCTATAACAAAAAAAAGGAGAAATATCATATGGAAAAATTTGCTTGTGCTTGA
TATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAGTTGTGTTG
AATTGTTATAG
Found at i:12551274 original size:345 final size:346
Alignment explanation
Indices: 12550640--12551325 Score: 1257
Period size: 345 Copynumber: 2.0 Consensus size: 346
12550630 CATTTTGTCC
12550640 TATGCCTTGAATTGTTCTCTCTTTCCTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
1 TATGCCTTGAATTGTTCTCTCTTTCCTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
12550705 TTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
66 TTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAAC--AA
*
12550770 AAAAAAAAAGGGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCT
129 AAAAAAAAAGAGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCT
*
12550835 CATTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATATGGAAAAATTTG
194 CATTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCACATGGAAAAATTTG
* *
12550900 CTTGTGCTTGATATGCATATGTTTGATTGTGTTTATTTCATATATTTGACTGACATATGTTTGTT
259 CTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTT
12550965 GAGTTGTGTTGAATTGACTAACA
324 GAGTTGTGTTGAATTGACTAACA
*
12550988 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
1 TATGCCTTGAATTGTTCTCTCTTTCCTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
*
12551053 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAAC-AAA
66 TTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
*
12551117 AAAAAAAGAGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCA
131 AAAAAAAGAGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCA
* **
12551182 TTAATATGCTCATGCCTTTTTGCTATAACAAAAAAGGGGAGAAATATCACATGGGCAAATTTGCT
196 TTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCACATGGAAAAATTTGCT
12551247 TGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGA
261 TGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGA
12551312 GTTGTGTTGAATTG
326 GTTGTGTTGAATTG
12551326 TTATAGGATT
Statistics
Matches: 328, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
345 204 0.62
348 124 0.38
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (346 bp):
TATGCCTTGAATTGTTCTCTCTTTCCTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
TTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
AAAAAAAGAGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCA
TTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCACATGGAAAAATTTGCT
TGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGA
GTTGTGTTGAATTGACTAACA
Found at i:12551292 original size:23 final size:25
Alignment explanation
Indices: 12551240--12551293 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
12551230 ACATGGGCAA
*
12551240 ATTTGCTTGTGCTTGATATGCATAT
1 ATTTGATTGTGCTTGATATGCATAT
* *
12551265 GTTTGATTGTGCTT-AT-TTCATAT
1 ATTTGATTGTGCTTGATATGCATAT
12551288 ATTTGA
1 ATTTGA
12551294 CTAACATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 12 0.48
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (25 bp):
ATTTGATTGTGCTTGATATGCATAT
Found at i:12551673 original size:746 final size:745
Alignment explanation
Indices: 12550239--12552069 Score: 3394
Period size: 746 Copynumber: 2.5 Consensus size: 745
12550229 CATTTTGTCC
* * * *
12550239 TATGCCTTGAATTGTTCTCTATTTCTTTTGAAATGACAAACTGGGGGAGAATTTGTAGATATTTC
1 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
12550304 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
66 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAAC---A
*
12550369 AAAAAAAAAGGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTATGTTTATTGGCT
128 AAAAAAAAA-GGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCT
*
12550434 CATTAATATGCTCATGCCTTTTTGCTATAACAAAAAAAAGGAGAAATATCATATGGACAAATTTG
192 CATTAATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTG
*
12550499 CTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGAGTAACATATGTTTGTT
257 CTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTT
12550564 GAGTTGTGTTGAATTGTTATAGGATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCAT
322 GAGTTGTGTTGAATTGTTATAGGATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCAT
* *
12550629 GCATTTTGTCCTATGCCTTGAATTGTTCTCTCTTTCCTTTGAAATGACAAACTGGGGGAGAGTTT
387 GCATTTTGTCCTATGCCTTGAATTATTCTCTCTTTCCTTTGAAATGACAAACTAGGGGAGAGTTT
12550694 ATGGATATTTCTTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAG
452 ATGGATATTTCTTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAG
12550759 CTTAAACAAAAAAAAAAAAAGGGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGT
517 CTTAAACAAAAAAAAAAAAAGGGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGT
12550824 GTTTATTGGCTCATTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATAT
582 GTTTATTGGCTCATTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATAT
* *
12550889 GGAAAAATTTGCTTGTGCTTGATATGCATATGTTTGATTGTGTTTATTTCATATATTTGACTGAC
647 GGAAAAATTTGCTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAAC
12550954 ATATGTTTGTTGAGTTGTGTTGAATTGACTAACA
712 ATATGTTTGTTGAGTTGTGTTGAATTGACTAACA
12550988 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
1 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
12551053 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
66 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
12551118 AAAAAAGAGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCAT
131 AAAAAAG-GAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCAT
* * *
12551183 TAATATGCTCATGCCTTTTTGCTATAACAAAAAAGGGGAGAAATATCACATGGGCAAATTTGCTT
195 TAATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTGCTT
12551248 GTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAG
260 GTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAG
12551313 TTGTGTTGAATTGTTATAGGATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCA
325 TTGTGTTGAATTGTTATAGGATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCA
*
12551378 TTTTGTCCTATGCCTTGAATTATTCTCTCTTT-CTTTCGAAATGGCAAACTAGGGGAGAGTTTAT
390 TTTTGTCCTATGCCTTGAATTATTCTCTCTTTCCTTT-GAAATGACAAACTAGGGGAGAGTTTAT
*
12551442 GGATATTTCTTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCT
454 GGATATTTCTTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCT
*
12551507 TAAACAAAAAAAAAAAAAGGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGT
519 TAAACAAAAAAAAAAAAAGGGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGT
*
12551572 TTATTGGCTCATTAATATGCTCATGCCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATATGG
584 TTATTGGCTCATTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATATGG
*
12551637 ACAAATTTGCTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACAT
649 AAAAATTTGCTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACAT
12551702 ATGTTTGTTGAGTTGTGTTGAATTGACTAACA
714 ATGTTTGTTGAGTTGTGTTGAATTGACTAACA
*
12551734 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGATAAACTGGGGGAGAGTTTATGGATATTTC
1 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
12551799 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
66 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
*
12551864 AAAAATGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCATT
131 AAAAAAGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCATT
* *
12551929 AATATGCTCATGCCTTTTTGCTATAACAAAAACGAGGAGAAATATCATATGGATAAATTTGCTTG
196 AATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTGCTTG
12551994 TGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAGT
261 TGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAGT
12552059 TGTGTTGAATT
326 TGTGTTGAATT
12552070 AGGATACATA
Statistics
Matches: 1054, Mismatches: 26, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
745 199 0.19
746 733 0.70
749 122 0.12
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (745 bp):
TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGACAAACTGGGGGAGAGTTTATGGATATTTC
TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
AAAAAAGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCATT
AATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTGCTTG
TGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAGT
TGTGTTGAATTGTTATAGGATTACATGCATTCAAAAATACTCTTGATATTATTGGTATCATGCAT
TTTGTCCTATGCCTTGAATTATTCTCTCTTTCCTTTGAAATGACAAACTAGGGGAGAGTTTATGG
ATATTTCTTCTTGTATGCTTATAAAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTA
AACAAAAAAAAAAAAAGGGAAAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTT
ATTGGCTCATTAATATGCTCATACCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATATGGAA
AAATTTGCTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATAT
GTTTGTTGAGTTGTGTTGAATTGACTAACA
Found at i:12551693 original size:23 final size:25
Alignment explanation
Indices: 12551641--12551694 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
12551631 ATATGGACAA
*
12551641 ATTTGCTTGTGCTTGATATGCATAT
1 ATTTGATTGTGCTTGATATGCATAT
* *
12551666 GTTTGATTGTGCTT-AT-TTCATAT
1 ATTTGATTGTGCTTGATATGCATAT
12551689 ATTTGA
1 ATTTGA
12551695 CTAACATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 12 0.48
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (25 bp):
ATTTGATTGTGCTTGATATGCATAT
Found at i:12552017 original size:344 final size:345
Alignment explanation
Indices: 12551386--12552069 Score: 1253
Period size: 344 Copynumber: 2.0 Consensus size: 345
12551376 CATTTTGTCC
*
12551386 TATGCCTTGAATTATTCTCTCTTTCTTTCGAAATGGCAAACTAGGGGAGAGTTTATGGATATTTC
1 TATGCCTTGAATTATTCTCTCTTTCTTTCGAAATGACAAACTAGGGGAGAGTTTATGGATATTTC
12551451 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
66 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAAC---A
12551516 AAAAAAAAAGGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCT
128 AAAAAAAAAGGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCT
*
12551581 CATTAATATGCTCATGCCTTTTTGCTATAACAAAAAAGGGGAGAAATATCATATGGACAAATTTG
193 CATTAATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTG
12551646 CTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTT
258 CTTGTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTT
12551711 GAGTTGTGTTGAATTGACTAACA
323 GAGTTGTGTTGAATTGACTAACA
* * * *
12551734 TATGCCTTGAATTGTTCTCTCTTTCTTTTGAAATGATAAACTGGGGGAGAGTTTATGGATATTTC
1 TATGCCTTGAATTATTCTCTCTTTCTTTCGAAATGACAAACTAGGGGAGAGTTTATGGATATTTC
12551799 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAAC-AAA
66 TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
*
12551863 AAAAAATGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCAT
131 AAAAAAGGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCAT
* *
12551928 TAATATGCTCATGCCTTTTTGCTATAACAAAAACGAGGAGAAATATCATATGGATAAATTTGCTT
196 TAATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTGCTT
12551993 GTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAG
261 GTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAG
12552058 TTGTGTTGAATT
326 TTGTGTTGAATT
12552070 AGGATACATA
Statistics
Matches: 327, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
344 206 0.63
348 121 0.37
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (345 bp):
TATGCCTTGAATTATTCTCTCTTTCTTTCGAAATGACAAACTAGGGGAGAGTTTATGGATATTTC
TTCTTGTATGCTTATAGAAATTGTTATAGGAGTTTAAACATTTGGTATAAAGAGCTTAAACAAAA
AAAAAAGGGAGAAATGTTTCATGAATAAATTTGTTAGTGATGCCTCTTTGTGTTTATTGGCTCAT
TAATATGCTCATGCCTTTTTGCTATAACAAAAAAGAGGAGAAATATCATATGGACAAATTTGCTT
GTGCTTGATATGCATATGTTTGATTGTGCTTATTTCATATATTTGACTAACATATGTTTGTTGAG
TTGTGTTGAATTGACTAACA
Found at i:12552037 original size:23 final size:25
Alignment explanation
Indices: 12551975--12552038 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
12551965 GAGAAATATC
* * *
12551975 ATATGGATAAATTTGCTTGTGCTTG
1 ATATGCATATATTTGATTGTGCTTG
*
12552000 ATATGCATATGTTTGATTGTGCTT-
1 ATATGCATATATTTGATTGTGCTTG
*
12552024 AT-TTCATATATTTGA
1 ATATGCATATATTTGA
12552039 CTAACATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 11 0.33
24 2 0.06
25 20 0.61
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (25 bp):
ATATGCATATATTTGATTGTGCTTG
Found at i:12557687 original size:13 final size:13
Alignment explanation
Indices: 12557652--12557701 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
12557642 TTACTAAATC
*
12557652 TTTATATAAT-TT
1 TTTATATTATATT
12557664 TTTATA-T-TATT
1 TTTATATTATATT
*
12557675 TTTGTATTATATT
1 TTTATATTATATT
*
12557688 ATTATATTATATT
1 TTTATATTATATT
12557701 T
1 T
12557702 AAAATTATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 7 0.23
13 15 0.50
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
TTTATATTATATT
Found at i:12560529 original size:26 final size:25
Alignment explanation
Indices: 12560500--12560558 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
12560490 AAAAAGAATT
*
12560500 TTTTGTAGAAAATTACTCGTTCATAA
1 TTTTCTAG-AAATTACTCGTTCATAA
12560526 TTTTCTAG-AATTACTCGTTCATAA
1 TTTTCTAGAAATTACTCGTTCATAA
12560550 TTTTCTAGA
1 TTTTCTAGA
12560559 TTTCTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 24 0.77
26 7 0.23
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (25 bp):
TTTTCTAGAAATTACTCGTTCATAA
Found at i:12560542 original size:24 final size:24
Alignment explanation
Indices: 12560510--12560558 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12560500 TTTTGTAGAA
12560510 AATTACTCGTTCATAATTTTCTAG
1 AATTACTCGTTCATAATTTTCTAG
12560534 AATTACTCGTTCATAATTTTCTAG
1 AATTACTCGTTCATAATTTTCTAG
12560558 A
1 A
12560559 TTTCTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (24 bp):
AATTACTCGTTCATAATTTTCTAG
Found at i:12560594 original size:27 final size:27
Alignment explanation
Indices: 12560558--12560615 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
12560548 AATTTTCTAG
*
12560558 ATTTCTTTAT-TGTTAGTTTTTATTTTTT
1 ATTTCTTTATCT-TTAG-TTTTAATTTTT
*
12560586 ATTT-TTTATCTTTTGTTTTAATTTTT
1 ATTTCTTTATCTTTAGTTTTAATTTTT
12560612 ATTT
1 ATTT
12560616 ATGTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 14 0.52
27 8 0.30
28 5 0.19
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (27 bp):
ATTTCTTTATCTTTAGTTTTAATTTTT
Found at i:12560610 original size:19 final size:18
Alignment explanation
Indices: 12560576--12560624 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
12560566 ATTGTTAGTT
* *
12560576 TTTATTTTTTATTTTTTA
1 TTTATGTTTTAATTTTTA
*
12560594 TCTTTTGTTTTAATTTTTA
1 T-TTATGTTTTAATTTTTA
12560613 TTTATGTTTTAA
1 TTTATGTTTTAA
12560625 AAAATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTATGTTTTAATTTTTA
Found at i:12560867 original size:17 final size:18
Alignment explanation
Indices: 12560845--12560881 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12560835 AATTTTAATT
12560845 TAAATA-TTTCTATTTTA
1 TAAATATTTTCTATTTTA
*
12560862 TAAATATTTTGTATTTTA
1 TAAATATTTTCTATTTTA
12560880 TA
1 TA
12560882 TGTTAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TAAATATTTTCTATTTTA
Found at i:12560948 original size:15 final size:16
Alignment explanation
Indices: 12560930--12560962 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12560920 AATAATATAT
12560930 AAAAAATAAA-TAAAA
1 AAAAAATAAATTAAAA
*
12560945 AAAAATTAAATTAAAA
1 AAAAAATAAATTAAAA
12560961 AA
1 AA
12560963 TAATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAATTAAAA
Found at i:12560959 original size:16 final size:15
Alignment explanation
Indices: 12560930--12560974 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
12560920 AATAATATAT
12560930 AAAAAA-TAAATAAA
1 AAAAAATTAAATAAA
12560944 AAAAAATTAAATTAAA
1 AAAAAATTAAA-TAAA
*
12560960 AAATAATTAAA-AAA
1 AAAAAATTAAATAAA
12560974 A
1 A
12560975 TACAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 10 0.36
15 4 0.14
16 14 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAAATTAAATAAA
Found at i:12561207 original size:15 final size:14
Alignment explanation
Indices: 12561187--12561216 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12561177 TGTCATTTTG
12561187 TGTTTTGTTTTGTTT
1 TGTTTTG-TTTGTTT
12561202 TGTTTTGTTTGTTT
1 TGTTTTGTTTGTTT
12561216 T
1 T
12561217 TTTGGGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (14 bp):
TGTTTTGTTTGTTT
Found at i:12561214 original size:4 final size:5
Alignment explanation
Indices: 12561187--12561216 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
12561177 TGTCATTTTG
12561187 TGTTT TGTTT TGTTT TGTTT TG-TT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT T
12561217 TTTGGGTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:12562174 original size:43 final size:44
Alignment explanation
Indices: 12562081--12562176 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
12562071 GCTCAACAAC
* * * *
12562081 TTTAAAA-G-TTCTTCTAAGTAAAGGTTTAACAACTTTTAACAA
1 TTTAAAAGGCTTCTTCTAAGTAAAAGCTTAACAACTTTCAAAAA
*
12562123 TTTAAAAGGCTTCTT-TAAGTAAAAGCTTGACAACTTTCAAAAA
1 TTTAAAAGGCTTCTTCTAAGTAAAAGCTTAACAACTTTCAAAAA
12562166 TTTAAAAGGCT
1 TTTAAAAGGCT
12562177 CATCGAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
42 7 0.15
43 35 0.74
44 5 0.11
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (44 bp):
TTTAAAAGGCTTCTTCTAAGTAAAAGCTTAACAACTTTCAAAAA
Found at i:12562409 original size:123 final size:123
Alignment explanation
Indices: 12562232--12562487 Score: 309
Period size: 124 Copynumber: 2.1 Consensus size: 123
12562222 AGGCTCGATG
* **
12562232 ACTTTTAAAAATTTAAAAGGCTTATCTAAGTAGAGGCTCAACAAATTTTGAAAATTTAAAATATT
1 ACTTTTAAAAACTTAAAAGGCTTATCTAAACAGAGGCTCAACAAATTTTGAAAATTTAAAATATT
* * * * * * *
12562297 TTTC-TAGAGGACTTACAAATTTTGATAATGAATGCTT-TTCTAAGTAAATGCTTAACA
66 CTGCTTAGAGGACTTACAAATCTTAATAATGAAAG-TTCTTCTAACTAAAGGCTTAACA
* * * *
12562354 ACTTTTAAAAACTTAAAATGGTTTCTCTAAACAGAGGCTCGACAACTTTTGAAAATTTAAAATAT
1 ACTTTTAAAAACTTAAAA-GGCTTATCTAAACAGAGGCTCAACAAATTTTGAAAATTTAAAATAT
* ** *
12562419 TCTGCTTGGAGGACTTATGAATCTTAATAATGAAAGTTCTTCTAACTAGAGGCTTAACA
65 TCTGCTTAGAGGACTTACAAATCTTAATAATGAAAGTTCTTCTAACTAAAGGCTTAACA
12562478 ACTTTATAAA
1 ACTTT-TAAA
12562488 GCTCTTTTAG
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
122 17 0.15
123 45 0.40
124 46 0.41
125 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (123 bp):
ACTTTTAAAAACTTAAAAGGCTTATCTAAACAGAGGCTCAACAAATTTTGAAAATTTAAAATATT
CTGCTTAGAGGACTTACAAATCTTAATAATGAAAGTTCTTCTAACTAAAGGCTTAACA
Found at i:12562563 original size:114 final size:113
Alignment explanation
Indices: 12562386--12562648 Score: 336
Period size: 114 Copynumber: 2.3 Consensus size: 113
12562376 TTCTCTAAAC
*
12562386 AGAGGCTCGACAAC-TTTTGAAAATTTAAAATATTCTGCTTGGAGGACTTATGAATCTTAATAAT
1 AGAGGTTC-ACAACTTTTTGAAAATTTAAAATATTCT-CTTGGAGGACTTATGAATCTTAATAAT
* * * * *
12562450 GAAAGTTCTTCTAACTAGAGGCTTAACAACTTTATAAA-GCTC-TTTTAGAA
64 GAAAGCTCCTCTAAATAAAGGCTTAACAACTTTA-AAATGCTCATTTAAG-A
* *
12562500 AGAGGTTCACAACTTTTTGATAATTTAAAATATTCT-TTCGGGAGGACTTATGAATCTTGATAAT
1 AGAGGTTCACAACTTTTTGAAAATTTAAAATATTCTCTT--GGAGGACTTATGAATCTTAATAAT
*
12562564 GAAAGCTCCTCTAAATAAAGGGTTAACAACTTTAAAATGCTCATTTAAGA
64 GAAAGCTCCTCTAAATAAAGGCTTAACAACTTTAAAATGCTCATTTAAGA
* *
12562614 AGATGCTTCACAACTTTTTGACAATTTAAAATATT
1 AGA-GGTTCACAACTTTTTGAAAATTTAAAATATT
12562649 TTGCCCGGAA
Statistics
Matches: 132, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
112 2 0.02
113 8 0.06
114 88 0.67
115 34 0.26
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (113 bp):
AGAGGTTCACAACTTTTTGAAAATTTAAAATATTCTCTTGGAGGACTTATGAATCTTAATAATGA
AAGCTCCTCTAAATAAAGGCTTAACAACTTTAAAATGCTCATTTAAGA
Found at i:12564532 original size:18 final size:18
Alignment explanation
Indices: 12564509--12564548 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12564499 AATAAAAGCC
*
12564509 AGCCCTCCCAATTTGTCT
1 AGCCCTCACAATTTGTCT
*
12564527 AGCCCTCATAATTTGTCT
1 AGCCCTCACAATTTGTCT
12564545 AGCC
1 AGCC
12564549 ATGATGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (18 bp):
AGCCCTCACAATTTGTCT
Found at i:12568250 original size:134 final size:132
Alignment explanation
Indices: 12567951--12568307 Score: 411
Period size: 132 Copynumber: 2.7 Consensus size: 132
12567941 AAATGTTGTG
* *
12567951 TTCCTTAAAAAGAATGGATAAATACTACGTTTCTTAAGACAAAATGTCATCTTTGTTTAA-TTTA
1 TTCCTTAAAAAGAATGGATAAATACTATGTTTTTTAAGACAAAATGTCATCTTTG-TTAAGTTT-
* * * *
12568015 AATGTAGAATAATAAGCTGA-TTTATTATTCACCATAATAAATATTGCATTTTTCGAATAAAACA
64 AATTTAGAATAATAAG-TTATTTTATTATTCACCACAATAAATACTGCATTTTTCGAATAAAACA
***
12568079 CTGTG
128 CTACA
* * * * * *
12568084 TTTCTT-AAAAGAATGTATAGATACTGTGTTTTTTAAGACAAAAAGTCACCTTTGTTAAGTTTAA
1 TTCCTTAAAAAGAATGGATAAATACTATGTTTTTTAAGACAAAATGTCATCTTTGTTAAGTTTAA
*
12568148 TTTAGAATAATAAGTTATTTTATTATTCA-CAGCACTAAATACTGCATTATTTTC-AAGTAAAAC
66 TTTAGAATAATAAGTTATTTTATTATTCACCA-CAATAAATACTGCA-T-TTTTCGAA-TAAAAC
*
12568211 ATTACA
127 ACTACA
*
12568217 TTCCTTAAAAAGAATGGATAAATACTATGTTTTTTAAGACAACAATGAT-GTCTTTGTTAAGTTT
1 TTCCTTAAAAAGAATGGATAAATACTATGTTTTTTAAGACAA-AATG-TCATCTTTGTTAAGTTT
* *
12568281 AATTTAGAACAATAATTTATTTTATTA
64 AATTTAGAATAATAAGTTATTTTATTA
12568308 ATAAATGGAC
Statistics
Matches: 189, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
130 4 0.02
131 41 0.22
132 47 0.25
133 23 0.12
134 32 0.17
135 41 0.22
136 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (132 bp):
TTCCTTAAAAAGAATGGATAAATACTATGTTTTTTAAGACAAAATGTCATCTTTGTTAAGTTTAA
TTTAGAATAATAAGTTATTTTATTATTCACCACAATAAATACTGCATTTTTCGAATAAAACACTA
CA
Found at i:12570982 original size:26 final size:27
Alignment explanation
Indices: 12570936--12570987 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
12570926 AAATAAAATT
*
12570936 TTGATAAAACTCTTTATTT-AAGAATA
1 TTGAGAAAACTCTTTATTTAAAGAATA
12570962 TTGAGAAAA-TCTTTATGTTAAAGAAT
1 TTGAGAAAACTCTTTAT-TTAAAGAAT
12570988 TATCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 10 0.43
27 6 0.26
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (27 bp):
TTGAGAAAACTCTTTATTTAAAGAATA
Found at i:12571762 original size:14 final size:16
Alignment explanation
Indices: 12571691--12571763 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 16
12571681 CAAAACTTTG
*
12571691 GATTTTAGGG-TTTAG
1 GATTTTAGGGTTTTAC
*
12571706 GATTTT-GGATTTTAC
1 GATTTTAGGGTTTTAC
* *
12571721 GATTTTGGGGTTTGA-
1 GATTTTAGGGTTTTAC
* *
12571736 G-GTTTGGGGTTTTA-
1 GATTTTAGGGTTTTAC
12571750 G-TTTTAGGGTTTTA
1 GATTTTAGGGTTTTA
12571764 AGGGTTTAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
14 25 0.52
15 17 0.35
16 6 0.12
ACGTcount: A:0.15, C:0.01, G:0.33, T:0.51
Consensus pattern (16 bp):
GATTTTAGGGTTTTAC
Found at i:12571809 original size:21 final size:21
Alignment explanation
Indices: 12571766--12571812 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12571756 GGGTTTTAAG
* *
12571766 GGTTTAAGGTTTCAATTTTGA
1 GGTTTAAGGGTTCAATTTCGA
* *
12571787 GGTTTAAGGGTTGAGTTTCGA
1 GGTTTAAGGGTTCAATTTCGA
12571808 GGTTT
1 GGTTT
12571813 GGAGGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (21 bp):
GGTTTAAGGGTTCAATTTCGA
Found at i:12571838 original size:14 final size:14
Alignment explanation
Indices: 12571819--12571896 Score: 70
Period size: 15 Copynumber: 5.5 Consensus size: 14
12571809 GTTTGGAGGA
*
12571819 TTTAGGGTTTCGAT
1 TTTAGGGTTTAGAT
*
12571833 TTTAGGATTTGAGAT
1 TTTAGGGTTT-AGAT
* *
12571848 TTTACGGTTTAGAGGG
1 TTTAGGGTTTAGA--T
*
12571864 TTTA-GGTTTTGAT
1 TTTAGGGTTTAGAT
12571877 TTTAGGGTTTA-AT
1 TTTAGGGTTTAGAT
12571890 TTTAGGG
1 TTTAGGG
12571897 ATTGGAGGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 13 0.25
14 17 0.33
15 18 0.35
16 4 0.08
ACGTcount: A:0.19, C:0.03, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:12571851 original size:29 final size:29
Alignment explanation
Indices: 12571819--12571922 Score: 74
Period size: 29 Copynumber: 3.6 Consensus size: 29
12571809 GTTTGGAGGA
*
12571819 TTTAGGGTTTCGATTTTAGGATTTGAGAT
1 TTTACGGTTTCGATTTTAGGATTTGAGAT
* * *
12571848 TTTACGGTTTAGAGGGTTTAGG-TTT-TGAT
1 TTTACGGTTTCGA--TTTTAGGATTTGAGAT
* * *
12571877 TTTAGGGTTT-AATTTTAGGGATTGGAGGA-
1 TTTACGGTTTCGATTTTA-GGATTTGA-GAT
12571906 TTTACGGTTTCG-TTTTA
1 TTTACGGTTTCGATTTTA
12571923 TAGTTTGGGG
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
26 4 0.07
27 2 0.04
28 3 0.05
29 37 0.65
30 5 0.09
31 6 0.11
ACGTcount: A:0.19, C:0.04, G:0.29, T:0.48
Consensus pattern (29 bp):
TTTACGGTTTCGATTTTAGGATTTGAGAT
Found at i:12571966 original size:36 final size:36
Alignment explanation
Indices: 12571933--12572039 Score: 187
Period size: 36 Copynumber: 3.0 Consensus size: 36
12571923 TAGTTTGGGG
*
12571933 TTTAGGGTTTATGGTTTTGATTTTTGGATTTTGGAT
1 TTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGAT
*
12571969 TTTAGGATTTATGGTTTTAATTTTTGGATTTTGGAT
1 TTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGAT
*
12572005 TTTAGGGTTTATGATTTTAATTTTTGGATTTTGGA
1 TTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGA
12572040 CCATTCTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (36 bp):
TTTAGGGTTTATGGTTTTAATTTTTGGATTTTGGAT
Found at i:12573529 original size:11 final size:11
Alignment explanation
Indices: 12573513--12573541 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12573503 GCAGCCCCTA
12573513 CTTTTTTTTCT
1 CTTTTTTTTCT
12573524 CTTTTTTTTCT
1 CTTTTTTTTCT
12573535 -TTTTTTT
1 CTTTTTTT
12573542 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:12574105 original size:35 final size:34
Alignment explanation
Indices: 12574066--12574209 Score: 98
Period size: 34 Copynumber: 4.2 Consensus size: 34
12574056 ACCACAAGTC
*
12574066 AAAAAATAAAAATGATCAGGATTGAACAGCGAGTT
1 AAAAAATAAAAA-GATCAGGATTAAACAGCGAGTT
* * *
12574101 AAAAAATAAAGAGACCAAGATTAAACGATG-G-GTT
1 AAAAAATAAAAAGATCAGGATTAAAC-A-GCGAGTT
* * * * *
12574135 AAAAAATAAAAACGAT-GGAGATTGAACTGCAAGTC
1 AAAAAATAAAAA-GATCAG-GATTAAACAGCGAGTT
** *
12574170 AAAAAATAAGGAGA-CTAGGATTAAACTGCGAGTT
1 AAAAAATAAAAAGATC-AGGATTAAACAGCGAGTT
12574204 AAAAAA
1 AAAAAA
12574210 AATGAAACTA
Statistics
Matches: 83, Mismatches: 18, Indels: 17
0.70 0.15 0.14
Matches are distributed among these distances:
33 1 0.01
34 46 0.55
35 35 0.42
36 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.20, T:0.18
Consensus pattern (34 bp):
AAAAAATAAAAAGATCAGGATTAAACAGCGAGTT
Found at i:12574142 original size:69 final size:69
Alignment explanation
Indices: 12574066--12574195 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 69
12574056 ACCACAAGTC
* * *
12574066 AAAAAATAAAAATGATCAG-GATTGAACAGCGAGTTAAAAAATAAAGAGACCAAGATTAAACGAT
1 AAAAAATAAAAACGAT-AGAGATTGAACAGCAAGTCAAAAAATAAAGAGACCAAGATTAAACGAT
12574130 GGGTT
65 GGGTT
* * * * *
12574135 AAAAAATAAAAACGATGGAGATTGAACTGCAAGTCAAAAAATAAGGAGACTAGGATTAAAC
1 AAAAAATAAAAACGATAGAGATTGAACAGCAAGTCAAAAAATAAAGAGACCAAGATTAAAC
12574196 TGCGAGTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 1 0.02
69 51 0.98
ACGTcount: A:0.53, C:0.09, G:0.20, T:0.18
Consensus pattern (69 bp):
AAAAAATAAAAACGATAGAGATTGAACAGCAAGTCAAAAAATAAAGAGACCAAGATTAAACGATG
GGTT
Found at i:12574220 original size:33 final size:34
Alignment explanation
Indices: 12574154--12574229 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
12574144 AAACGATGGA
* *
12574154 GATTGAACTGCAAGTCAAAAAATAAGGAGACTAG
1 GATTAAACTGCAAGTCAAAAAATAAGGAAACTAG
* * *
12574188 GATTAAACTGCGAGTTAAAAAA-AATGAAACTAG
1 GATTAAACTGCAAGTCAAAAAATAAGGAAACTAG
12574221 GATTAAACT
1 GATTAAACT
12574230 ATAAGTAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.21
Consensus pattern (34 bp):
GATTAAACTGCAAGTCAAAAAATAAGGAAACTAG
Found at i:12574332 original size:35 final size:34
Alignment explanation
Indices: 12574276--12574394 Score: 98
Period size: 35 Copynumber: 3.5 Consensus size: 34
12574266 CAAGTCAAAA
* *
12574276 AATAAAGAGATCAGGATTAAACTACGAGTTAGAG
1 AATAAAGAGATCAAGACTAAACTACGAGTTAGAG
* * *
12574310 AATAACGATGATCAAGACTAAACTGCGATTTAGA-
1 AATAAAGA-GATCAAGACTAAACTACGAGTTAGAG
* * * * * *
12574344 ATTAAAGAGATCGAGATTGAACCACGAGTT-GAAA
1 AATAAAGAGATCAAGACTAAACTACGAGTTAG-AG
12574378 AATAAAGACGATCAAGA
1 AATAAAGA-GATCAAGA
12574395 TTGAACTGCA
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
32 1 0.02
33 17 0.26
34 20 0.30
35 28 0.42
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (34 bp):
AATAAAGAGATCAAGACTAAACTACGAGTTAGAG
Found at i:12574513 original size:102 final size:102
Alignment explanation
Indices: 12574352--12574600 Score: 306
Period size: 102 Copynumber: 2.4 Consensus size: 102
12574342 GAATTAAAGA
* * * * * * *
12574352 GATCGAGATTGAACCACGAGTTGAAAAATAAAGACGATCAAGATTGAA-CTGCAAGTCAAAAAAT
1 GATCGAGATTAAACCACTA-TTGAGAATTAAA-AAGATCAGGATTAAATC-GCAAGTCAAAAAAT
*
12574416 AAAAAGA-TCGGGATTAAACCGTGAGTCAGAGAATAGCAAC
63 AAAAAGACT-GGGATTAAACCGCGAGTCAGAGAATAGCAAC
* * *
12574456 GATCGAGATTAAA-CTCTAATTTAGAATTAAAAAGATCGGGATTAAATCGCAAGTCAAAAAATAA
1 GATCGAGATTAAACCACT-ATTGAGAATTAAAAAGATCAGGATTAAATCGCAAGTCAAAAAATAA
* *
12574520 AGAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAT
65 AAAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAC
*
12574558 GATCGAGATTAAACCACTATTGAGAATTAAAAGGATCAGGATT
1 GATCGAGATTAAACCACTATTGAGAATTAAAAAGATCAGGATT
12574601 GAACCATGAG
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
102 95 0.77
103 16 0.13
104 13 0.10
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.20
Consensus pattern (102 bp):
GATCGAGATTAAACCACTATTGAGAATTAAAAAGATCAGGATTAAATCGCAAGTCAAAAAATAAA
AAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAC
Found at i:12574516 original size:137 final size:137
Alignment explanation
Indices: 12574266--12574522 Score: 318
Period size: 137 Copynumber: 1.9 Consensus size: 137
12574256 GATTGAATCA
* * * * *
12574266 CAAGTCAAAAAATAAAGAGATCAGGATTAAACTACGAGTTAGAGAATAACGATGATCAAGACTAA
1 CAAGTCAAAAAATAAAAAGATCAGGATTAAACCACGAGTCAGAGAATAACAACGATCAAGACTAA
* * * * **
12574331 ACTGCGATTTAGAATTAAAGAGATCGAGATTGAACCACGAGTTGAAAAATAAAGACGATCAAGAT
66 ACTGCAATTTAGAATTAAAAAGATCGAGATTAAACCACAAGTCAAAAAATAAAGACGATCAAGAT
12574396 TGAACTG
131 TGAACTG
* ** * * *
12574403 CAAGTCAAAAAATAAAAAGATCGGGATTAAACCGTGAGTCAGAGAATAGCAACGATCGAGATTAA
1 CAAGTCAAAAAATAAAAAGATCAGGATTAAACCACGAGTCAGAGAATAACAACGATCAAGACTAA
* * *
12574468 ACT-CTAATTTAGAATTAAAAAGATCGGGATTAAATCGCAAGTCAAAAAATAAAGA
66 ACTGC-AATTTAGAATTAAAAAGATCGAGATTAAACCACAAGTCAAAAAATAAAGA
12574523 GACTGGGATT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
136 1 0.01
137 98 0.99
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (137 bp):
CAAGTCAAAAAATAAAAAGATCAGGATTAAACCACGAGTCAGAGAATAACAACGATCAAGACTAA
ACTGCAATTTAGAATTAAAAAGATCGAGATTAAACCACAAGTCAAAAAATAAAGACGATCAAGAT
TGAACTG
Found at i:12574613 original size:102 final size:102
Alignment explanation
Indices: 12574352--12574638 Score: 291
Period size: 102 Copynumber: 2.8 Consensus size: 102
12574342 GAATTAAAGA
* * * * * *
12574352 GATCGAGATTGAACCACGAGTTGAAAAATAAAGACGATCAAGATTGAA-C-TGCAAGTCAAAAAA
1 GATCGAGATTAAACCACTA-TTGAGAATTAAA-AAGATCAGGATTGAACCATG--AGTCAAAAAA
* *
12574415 TAAAAAGA-TCGGGATTAAACCGTGAGTCAGAGAATAGCAAC
62 TAAAGAGACT-GGGATTAAACCGCGAGTCAGAGAATAGCAAC
* * * *
12574456 GATCGAGATTAAA-CTCTAATTTAGAATTAAAAAGATCGGGATTAAATCGCA--AGTCAAAAAAT
1 GATCGAGATTAAACCACT-ATTGAGAATTAAAAAGATCAGGATTGAA-C-CATGAGTCAAAAAAT
*
12574518 AAAGAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAT
63 AAAGAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAC
* * *
12574558 GATCGAGATTAAACCACTATTGAGAATTAAAAGGATCAGGATTGAACCATGAGTCAAGAACT-AA
1 GATCGAGATTAAACCACTATTGAGAATTAAAAAGATCAGGATTGAACCATGAGTCAAAAAATAAA
12574622 GAACGACTGGGATTAAA
66 G-A-GACTGGGATTAAA
12574639 TCGCAAGTTG
Statistics
Matches: 152, Mismatches: 20, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
100 2 0.01
101 4 0.03
102 104 0.68
103 28 0.18
104 13 0.09
105 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (102 bp):
GATCGAGATTAAACCACTATTGAGAATTAAAAAGATCAGGATTGAACCATGAGTCAAAAAATAAA
GAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAC
Found at i:12574702 original size:69 final size:68
Alignment explanation
Indices: 12574493--12574703 Score: 180
Period size: 69 Copynumber: 3.1 Consensus size: 68
12574483 TAAAAAGATC
*** * *
12574493 GGGATTAAATCGCAAGTCAAAAAATAAAGAGACTGGGATTAAACCGCGAGTCAGAGAATAGCAAT
1 GGGATTAAATCGCAAGT-TGGAAATAAAGAGACTGGGATTAAACCGTGAGTCAGAGAATAGCAAC
*
12574558 GATC
65 GATT
* * * * * * * *
12574562 GAGATTAAACCACTA-TTGAGAATTAAA-AGGA-TCAGGATTGAACCATGAGTCA-AGAACTAAG
1 GGGATTAAATCGCAAGTTG-GAAATAAAGA-GACT-GGGATTAAACCGTGAGTCAGAGAA-T-AG
*
12574623 -AACGACT
61 CAACGATT
*
12574630 GGGATTAAATCGCAAGTTGGATAATAAAGAGACTGGGATTAAACCGTGAGTTAGAGAATAGCAAC
1 GGGATTAAATCGCAAGTTGGA-AATAAAGAGACTGGGATTAAACCGTGAGTCAGAGAATAGCAAC
12574695 GATT
65 GATT
12574699 GGGAT
1 GGGAT
12574704 GAAACTAAGA
Statistics
Matches: 106, Mismatches: 25, Indels: 22
0.69 0.16 0.14
Matches are distributed among these distances:
67 6 0.06
68 44 0.42
69 50 0.47
70 6 0.06
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (68 bp):
GGGATTAAATCGCAAGTTGGAAATAAAGAGACTGGGATTAAACCGTGAGTCAGAGAATAGCAACG
ATT
Found at i:12574808 original size:36 final size:36
Alignment explanation
Indices: 12574751--12574844 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
12574741 CTGTGAGTCA
*
12574751 AAAAGTAAAGAATCAACTGGGACAACACCACAAGTC-
1 AAAAGTAAAGAATCAATTGGGACAACACCACAA-TCG
* * *
12574787 TAAATTAAAGAATCAATTGGGACAACACCGCAATCG
1 AAAAGTAAAGAATCAATTGGGACAACACCACAATCG
*
12574823 AAAAGTAAAGAATCGATTGGGA
1 AAAAGTAAAGAATCAATTGGGA
12574845 TAGCATCACG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 2 0.04
36 48 0.96
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (36 bp):
AAAAGTAAAGAATCAATTGGGACAACACCACAATCG
Found at i:12574972 original size:37 final size:37
Alignment explanation
Indices: 12574924--12575014 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 37
12574914 CAACACTGCA
* *
12574924 AGTCAAAAAGT-AAGAAAACGATTGAGACAACACCACG
1 AGTCAAGAAGTAAAG-AAACGATCGAGACAACACCACG
* * * * *
12574961 AGTCGAGAAGTAAAGAATCGATCGGGACAATACCATG
1 AGTCAAGAAGTAAAGAAACGATCGAGACAACACCACG
12574998 AGTCAAGAAGTAAAGAA
1 AGTCAAGAAGTAAAGAA
12575015 TCGACTGGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
37 42 0.93
38 3 0.07
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.13
Consensus pattern (37 bp):
AGTCAAGAAGTAAAGAAACGATCGAGACAACACCACG
Found at i:12575267 original size:147 final size:148
Alignment explanation
Indices: 12574998--12575280 Score: 401
Period size: 147 Copynumber: 1.9 Consensus size: 148
12574988 CAATACCATG
* * * ** * * *
12574998 AGTCAAGAAGTAAAGAATCGACTGGATAACACCACGAATTGAAATTATGCCCGGAGGTCTTACAG
1 AGTCAAGAAATAAAGAATAGACGGGATAACACCACGAATCAAAATTAAGCCCGAAGCTCTTACAG
* *
12575063 AATCGATCGGGACAACACCGCAAGTCAAAAAATAAAGAATCAATTAGGACAACACCACGAAT-CA
66 AATCGATCGGGACAACACCGCAAGTCAAAAAATAAAGAATCAATTAGGACAAAACCACAAATACA
12575127 AAATTAGAGAATGTCGTA
131 AAATTAGAGAATGTCGTA
*
12575145 AGTCAA-AAATAAAGAATAGATCGGGATAACACCATGAATCAAAATTAAGCCCGAAGCTCTTACA
1 AGTCAAGAAATAAAGAATAGA-CGGGATAACACCACGAATCAAAATTAAGCCCGAAGCTCTTACA
* * *
12575209 GAATCGA-CTGGGACAATACCGCAAGTCAAAAAATAAAGAATCGATTGGGACAAAACCACAAATA
65 GAATCGATC-GGGACAACACCGCAAGTCAAAAAATAAAGAATCAATTAGGACAAAACCACAAATA
12575273 CAAAATTA
129 CAAAATTA
12575281 TGCCCGAAGG
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
146 13 0.11
147 98 0.82
148 8 0.07
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.17
Consensus pattern (148 bp):
AGTCAAGAAATAAAGAATAGACGGGATAACACCACGAATCAAAATTAAGCCCGAAGCTCTTACAG
AATCGATCGGGACAACACCGCAAGTCAAAAAATAAAGAATCAATTAGGACAAAACCACAAATACA
AAATTAGAGAATGTCGTA
Found at i:12575523 original size:22 final size:22
Alignment explanation
Indices: 12575493--12575541 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
12575483 CTGTGAATCA
* * *
12575493 AAATTATGCCAGGAGGTCTTAG
1 AAATCATGCCAGGAGATCTTAC
**
12575515 AAATCATGCTTGGAGATCTTAC
1 AAATCATGCCAGGAGATCTTAC
12575537 AAATC
1 AAATC
12575542 TCAAAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (22 bp):
AAATCATGCCAGGAGATCTTAC
Found at i:12591689 original size:17 final size:17
Alignment explanation
Indices: 12591667--12591710 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
12591657 GATAAGAGGA
*
12591667 AAAAACCTTGAAACCCT
1 AAAAACCTTAAAACCCT
12591684 AAAAA-CTCTAAAACCCT
1 AAAAACCT-TAAAACCCT
12591701 -AAAACCTTAA
1 AAAAACCTTAA
12591711 GATCTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAAACCTTAAAACCCT
Found at i:12592820 original size:104 final size:106
Alignment explanation
Indices: 12592614--12592807 Score: 243
Period size: 104 Copynumber: 1.8 Consensus size: 106
12592604 TAACTCACTC
* * *
12592614 AATAAATATAAAAAATTTAAATAAAATGATAACTTTTAGTGACATTTTAAAATACTGTTAAATAC
1 AATAAATATAAAAAAATTAAATAAAATGAGAACTTTTAGTGACATTTTAAAATACTGTTAAATAA
* *
12592679 TTTTTTACTTATAAAATCAGTTAAACCCATCAGAAAAAGTT
66 TTGTTTACTTATAAAATAAGTTAAACCCATCAGAAAAAGTT
* * * *
12592720 AATAAAT-TAAAAAAATTAAATAAAATG-GGATTTTTATTGATATTTTAAAATAACT-TTAAA-A
1 AATAAATATAAAAAAATTAAATAAAATGAGAACTTTTAGTGACATTTTAAAAT-ACTGTTAAATA
* *
12592781 ATTGTTTATTTATAACAATAATTTAAA
65 ATTGTTTACTTATAA-AATAAGTTAAA
12592808 GCCTTAGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
103 13 0.17
104 33 0.44
105 22 0.29
106 7 0.09
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (106 bp):
AATAAATATAAAAAAATTAAATAAAATGAGAACTTTTAGTGACATTTTAAAATACTGTTAAATAA
TTGTTTACTTATAAAATAAGTTAAACCCATCAGAAAAAGTT
Found at i:12595317 original size:17 final size:19
Alignment explanation
Indices: 12595286--12595322 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
12595276 AGTTTAAACC
*
12595286 ATTAGAAAAAGTT-AATAA
1 ATTAGAAAAAATTAAATAA
12595304 ATTA-AAAAAATTAAATAA
1 ATTAGAAAAAATTAAATAA
12595322 A
1 A
12595323 ATGGGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
ATTAGAAAAAATTAAATAA
Found at i:12598872 original size:52 final size:52
Alignment explanation
Indices: 12598805--12598961 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 52
12598795 TATAACCATA
*
12598805 CAAATTTG-CTCATTAAGAATCCCTCTTCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAATTTGCCT-ATTAAGAATCCCTCTTCTCTTAGAATTCTTCTCCTGCAAGT
* *
12598857 CAAATTTGCCTATTAAGAATCCCT-TTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAATTTGCCTATTAAGAATCCCTCTT-CTCTTAGAATTCTTCTCCTGCAAGT
* * * **
12598909 CAAACTTACCTATTAAGAAT-CCTCTTTCTCTTAGAATTATTCTTTTGCAAGT
1 CAAATTTGCCTATTAAGAATCCCTC-TTCTCTTAGAATTCTTCTCCTGCAAGT
12598961 C
1 C
12598962 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
51 5 0.05
52 84 0.90
53 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (52 bp):
CAAATTTGCCTATTAAGAATCCCTCTTCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:12599024 original size:11 final size:11
Alignment explanation
Indices: 12598988--12599027 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
12598978 AATATCTGAC
12598988 AAATCTCAAAT
1 AAATCTCAAAT
* * *
12598999 AAATTTCTAAC
1 AAATCTCAAAT
12599010 AAATCTCAAAT
1 AAATCTCAAAT
12599021 AAATCTC
1 AAATCTC
12599028 TTATGGGATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATCTCAAAT
Found at i:12601700 original size:32 final size:31
Alignment explanation
Indices: 12601662--12601743 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
12601652 ATATAATTTA
12601662 AAAAATTAAGTAAAAATTTCTATA-ATGCTTT
1 AAAAATTAAGTAAAAATTTCTATATA-GCTTT
* * *
12601693 AAGAAATTAAATAAAAA-CTCTATATAGTTTT
1 AA-AAATTAAGTAAAAATTTCTATATAGCTTT
*
12601724 AAAATATTATGTAAAAATTT
1 AAAA-ATTAAGTAAAAATTT
12601744 TCATAGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.05
31 24 0.59
32 15 0.37
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (31 bp):
AAAAATTAAGTAAAAATTTCTATATAGCTTT
Found at i:12601906 original size:14 final size:14
Alignment explanation
Indices: 12601889--12601919 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12601879 CATTTTTCAT
12601889 TTTTATAAAACATA
1 TTTTATAAAACATA
*
12601903 TTTTATAAAATATA
1 TTTTATAAAACATA
12601917 TTT
1 TTT
12601920 GAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:12604712 original size:22 final size:22
Alignment explanation
Indices: 12604684--12604727 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12604674 TCTAAAAGGG
*
12604684 TGATGCTCGTATTGTTTAATAC
1 TGATGCTCGTATTGTTCAATAC
12604706 TGATGCTCGTATTGTTCAATAC
1 TGATGCTCGTATTGTTCAATAC
12604728 AAAAGCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (22 bp):
TGATGCTCGTATTGTTCAATAC
Found at i:12606109 original size:12 final size:12
Alignment explanation
Indices: 12606094--12606131 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
12606084 TTTAAATAAA
12606094 TATTTTATTTAT
1 TATTTTATTTAT
12606106 TA-TTTATTTATT
1 TATTTTATTTA-T
*
12606118 TATTTTAGTTAT
1 TATTTTATTTAT
12606130 TA
1 TA
12606132 AATTAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 8 0.35
12 8 0.35
13 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:12606603 original size:26 final size:27
Alignment explanation
Indices: 12606563--12606613 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
12606553 AGAAACAAAT
* *
12606563 AAAAAATCAACAAAATAACAAAACTAA
1 AAAAAATCAACAAAAAAAAAAAACTAA
*
12606590 AAAAAATC-AGAAAAAAAAAAAACT
1 AAAAAATCAACAAAAAAAAAAAACT
12606614 TGCAAACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.76, C:0.12, G:0.02, T:0.10
Consensus pattern (27 bp):
AAAAAATCAACAAAAAAAAAAAACTAA
Found at i:12606604 original size:27 final size:26
Alignment explanation
Indices: 12606563--12606613 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
12606553 AGAAACAAAT
*
12606563 AAAAAATCAACAAAATAACAAAACTAA
1 AAAAAATCAACAAAA-AAAAAAACTAA
12606590 AAAAAATCAGA-AAAAAAAAAAACT
1 AAAAAATCA-ACAAAAAAAAAAACT
12606614 TGCAAACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 13 0.59
28 1 0.05
ACGTcount: A:0.76, C:0.12, G:0.02, T:0.10
Consensus pattern (26 bp):
AAAAAATCAACAAAAAAAAAAACTAA
Found at i:12611711 original size:16 final size:17
Alignment explanation
Indices: 12611676--12611713 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12611666 TTTAATAAAA
*
12611676 TTATTTATTTGATGTTT
1 TTATTTATATGATGTTT
*
12611693 TTATTTATAT-ATTTTT
1 TTATTTATATGATGTTT
12611709 TTATT
1 TTATT
12611714 GATCGATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTATTTATATGATGTTT
Found at i:12615031 original size:28 final size:28
Alignment explanation
Indices: 12614974--12615033 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
12614964 ATTTTTAATT
* *
12614974 TTTAAATAATTTTTTGTTTAAATACTAA
1 TTTAAATAATTATTTGTTTAAATAATAA
12615002 TTTAAATAA-TATTT-TTTAAATAAATAA
1 TTTAAATAATTATTTGTTTAAAT-AATAA
*
12615029 ATTAA
1 TTTAA
12615034 GCACATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.25
27 12 0.43
28 9 0.32
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTAAATAATTATTTGTTTAAATAATAA
Found at i:12618387 original size:43 final size:43
Alignment explanation
Indices: 12618223--12618514 Score: 351
Period size: 43 Copynumber: 6.9 Consensus size: 43
12618213 AAACTCAACA
** **
12618223 ACTTTGAAAAAT-AA-ATTGCTCCTCTAAACAGAGGCTCAACC
1 ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
* * *
12618264 ACTTTAGAAAAATAAACAAAGCTTCTCTAAATAGAGGCTTAATG
1 ACTTT-GAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
* * *
12618308 ACTTTGGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATG
1 ACTTT-GAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
* * * *
12618352 ATTTTAAAAAATAAACAAAGCTCCTCTAGACAGAGGCTCAACG
1 ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
* * *
12618395 ACTTTGAAAAAT--A-AATGCTCCTCTAAACATAGGCACAATG
1 ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
*
12618435 ACTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATG
1 ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
* *
12618478 ACTTTGAAAAATAAACAAAGCTCATCTAAACAAAGGC
1 ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGC
12618515 ACCACAATTT
Statistics
Matches: 213, Mismatches: 32, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
40 34 0.16
41 6 0.03
42 8 0.04
43 102 0.48
44 63 0.30
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (43 bp):
ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
Found at i:12618460 original size:83 final size:83
Alignment explanation
Indices: 12618216--12618492 Score: 356
Period size: 83 Copynumber: 3.3 Consensus size: 83
12618206 ACAACAGAAA
* **
12618216 CTCAACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCTCAACCACTTTAGAAAAATAAAC
1 CTCAACGACTTTGAAAAATAAA-TGCTCCTCTAAACAGAGGCTCAATGACTTT-GAAAAATAAAC
* *
12618281 AAAGCTTCTCTAAATAGAGG
64 AAAGCTCCTCTAAACAGAGG
* * * * * *
12618301 CTTAATGACTTTGGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATGATTTTAAAAAATAA
1 CTCAACGACTTT-GAAAAATAAAT---GCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAATAA
*
12618366 ACAAAGCTCCTCTAGACAGAGG
62 ACAAAGCTCCTCTAAACAGAGG
* * *
12618388 CTCAACGACTTTGAAAAATAAATGCTCCTCTAAACATAGGCACAATGACTTTGAAAAATAAATAA
1 CTCAACGACTTTGAAAAATAAATGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAATAAACAA
12618453 AGCTCCTCTAAACAGAGG
66 AGCTCCTCTAAACAGAGG
*
12618471 CTCAATGACTTTGAAAAATAAA
1 CTCAACGACTTTGAAAAATAAA
12618493 CAAAGCTCAT
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
83 73 0.44
85 10 0.06
86 21 0.13
87 37 0.22
88 24 0.15
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (83 bp):
CTCAACGACTTTGAAAAATAAATGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAATAAACAA
AGCTCCTCTAAACAGAGG
Found at i:12618470 original size:126 final size:126
Alignment explanation
Indices: 12618240--12618577 Score: 408
Period size: 126 Copynumber: 2.6 Consensus size: 126
12618230 AAAATAAATT
* * * **
12618240 GCTCCTCTAAACAGAGGCTCAACCACTTTAGAAAAATAAACAAAGCTTCTCTAAATAGAGGCTTA
1 GCTCCTCTAAACAGAGGCTCAACAACTTT-GAAAAAT--A-AATGCTCCTCTAAATAGAGGCACA
* * *
12618305 ATGACTTTGGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATGATTTTAAAAAATAAACAA
62 ATGACTTT-GAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTAAAAAATAAACAA
12618370 A
126 A
* * * *
12618371 GCTCCTCTAGACAGAGGCTCAACGACTTTGAAAAATAAATGCTCCTCTAAACATAGGCACAATGA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATGCTCCTCTAAATAGAGGCACAATGA
*
12618436 CTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAATAAACAAA
66 CTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTAAAAAATAAACAAA
* * * * * * * * *
12618497 GCTCATCTAAACAAAGGCACCACAATTTTGGAAATTAAATTGCTCCTCTAAATAGAGGCACCATA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAA-TGCTCCTCTAAATAGAGGCACAATG
12618562 ACTTT-AGAAAATAAAT
65 ACTTTGA-AAAATAAAT
12618578 TGCTGTTCTA
Statistics
Matches: 180, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
126 84 0.47
127 61 0.34
128 1 0.01
130 7 0.04
131 27 0.15
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (126 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATGCTCCTCTAAATAGAGGCACAATGA
CTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTAAAAAATAAACAAA
Found at i:12618597 original size:41 final size:41
Alignment explanation
Indices: 12618222--12618624 Score: 170
Period size: 43 Copynumber: 9.5 Consensus size: 41
12618212 GAAACTCAAC
* * *
12618222 AACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCTCAAC
1 AACTTTAG-AAAATAAATTGCTCCTCTAAACAGAGGCACCAT
* ** * * ***
12618263 CACTTTAGAAAAATAAACAAAGCTTCTCTAAATAGAGGCTTAAT
1 AACTTTAG-AAAAT-AA-ATTGCTCCTCTAAACAGAGGCACCAT
* * * * * * *
12618307 GACTTTGGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAAT
1 AACTTTAG-AAAATAAAT--TGCTCCTCTAAACAGAGGCACCAT
* * * ** * * * *
12618351 GATTTTAAAAAATAAACAAAGCTCCTCTAGACAGAGGCTCAAC
1 AACTTTAGAAAAT-AA-ATTGCTCCTCTAAACAGAGGCACCAT
* * *
12618394 GACTTT-GAAAAATAAA-TGCTCCTCTAAACATAGGCACAAT
1 AACTTTAG-AAAATAAATTGCTCCTCTAAACAGAGGCACCAT
* * * *
12618434 GACTTT-GAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAAT
1 AACTTTAG-AAAATAAAT--TGCTCCTCTAAACAGAGGCACCAT
* ** * * *
12618477 GACTTT-GAAAAATAAACAAAGCTCATCTAAACAAAGGCACCAC
1 AACTTTAG-AAAAT-AA-ATTGCTCCTCTAAACAGAGGCACCAT
* * * *
12618520 AATTTTGGAAATTAAATTGCTCCTCTAAATAGAGGCACCAT
1 AACTTTAGAAAATAAATTGCTCCTCTAAACAGAGGCACCAT
** *
12618561 AACTTTAGAAAATAAATTGCTGTTCTAAACAGAGGCAACAT
1 AACTTTAGAAAATAAATTGCTCCTCTAAACAGAGGCACCAT
*
12618602 AACTTTTTA-AAAATAAATGGCTC
1 AAC--TTTAGAAAATAAATTGCTC
12618625 ATTGACAATC
Statistics
Matches: 291, Mismatches: 55, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
40 35 0.12
41 63 0.22
42 24 0.08
43 104 0.36
44 63 0.22
45 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (41 bp):
AACTTTAGAAAATAAATTGCTCCTCTAAACAGAGGCACCAT
Found at i:12619269 original size:21 final size:21
Alignment explanation
Indices: 12619222--12619269 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
12619212 ACTTTAAGAT
*
12619222 TTTTC-TTTGAAATTCAAAGA
1 TTTTCATTTGAAATTCAAAAA
*
12619242 TTCTCATTTGAAATTCAAAAA
1 TTTTCATTTGAAATTCAAAAA
12619263 TTTTCAT
1 TTTTCAT
12619270 CAAAAGGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (21 bp):
TTTTCATTTGAAATTCAAAAA
Found at i:12619774 original size:63 final size:63
Alignment explanation
Indices: 12619670--12619854 Score: 325
Period size: 63 Copynumber: 2.9 Consensus size: 63
12619660 GTTTATCAGC
* * *
12619670 ACTAACCATTTCAAAATAAATTTCATCTTCTGTTACTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
12619733 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
* *
12619796 ACTAGCCATTTCAAGATAAATTTCATCATCTGTCACTTGGTCATCATTCATAAGCTTCT
1 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCT
12619855 AAGCACTAGT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 117 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (63 bp):
ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
Found at i:12620562 original size:17 final size:16
Alignment explanation
Indices: 12620542--12620613 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 16
12620532 TTTGAATCTT
12620542 TTTTTTTTATTTTCTC
1 TTTTTTTTATTTTCTC
12620558 ATTTTTTCTT-TTTTCT-
1 -TTTTTT-TTATTTTCTC
*
12620574 TTTTCTTTTTTTTTCCTC
1 TTTT-TTTTATTTT-CTC
*
12620592 TATTTTTTATTTT-T-
1 TTTTTTTTATTTTCTC
12620606 TTTTTTTT
1 TTTTTTTT
12620614 TCATCATCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
14 7 0.15
15 7 0.15
16 6 0.13
17 22 0.47
18 5 0.11
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTTATTTTCTC
Found at i:12620576 original size:13 final size:13
Alignment explanation
Indices: 12620560--12620584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12620550 ATTTTCTCAT
12620560 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
12620573 TTTTTCTTTTTT
1 TTTTTCTTTTTT
12620585 TTTCCTCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:12620577 original size:23 final size:24
Alignment explanation
Indices: 12620542--12620588 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
12620532 TTTGAATCTT
*
12620542 TTTTTTTTATTTTCTCATTTTTTC
1 TTTTTTCTATTTTCTCATTTTTTC
**
12620566 TTTTTTCT-TTTTCTTTTTTTTTC
1 TTTTTTCTATTTTCTCATTTTTTC
12620589 CTCTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTCTATTTTCTCATTTTTTC
Found at i:12620597 original size:35 final size:33
Alignment explanation
Indices: 12620538--12620614 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 33
12620528 TCATTTTGAA
*
12620538 TCTTTTTTTTTTATTTTCTCATTTTTTCTTTTT
1 TCTTTTTTTTTTATTTTCTCATTTTTTATTTTT
12620571 TCTTTTTCTTTTT-TTTTCCTCTATTTTTTATTTTT
1 TCTTTTT-TTTTTATTTT-CTC-ATTTTTTATTTTT
12620606 T-TTTTTTTT
1 TCTTTTTTTT
12620615 CATCATCTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
33 14 0.35
34 13 0.32
35 13 0.32
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (33 bp):
TCTTTTTTTTTTATTTTCTCATTTTTTATTTTT
Found at i:12620635 original size:30 final size:29
Alignment explanation
Indices: 12620540--12620648 Score: 96
Period size: 30 Copynumber: 3.7 Consensus size: 29
12620530 ATTTTGAATC
* * *
12620540 TTTTTTTTTTATTTTCTCATTTTTTCTTTTT
1 TTTTTTTTTT-TTTT-TCATCTATTCTTTTA
*
12620571 TCTTTTTCTTTTTTTTTCCTCTATT-TTTTA
1 T-TTTTT-TTTTTTTTTCATCTATTCTTTTA
*
12620601 -TTTTTTTTTTTTTTCATCATCTTCTTTTA
1 TTTTTTTTTTTTTTTCATC-TATTCTTTTA
* *
12620630 TTTTTTCTTATTTTTCATC
1 TTTTTTTTTTTTTTTCATC
12620649 CATTGTTGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 12 0.18
28 8 0.12
29 5 0.08
30 20 0.31
31 7 0.11
32 9 0.14
33 4 0.06
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTTTTTTTTTTTTCATCTATTCTTTTA
Found at i:12620647 original size:27 final size:27
Alignment explanation
Indices: 12620563--12620648 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 27
12620553 TTCTCATTTT
* *
12620563 TTCTTTTTTCTTTTTCTTTTTTTTTCCTC
1 TTCTTTTAT-TTTTTC-TTTTTTTTCATC
* *
12620592 TATTTTTTATTTTTTTTTTTTTTCATCATC
1 T-TCTTTTATTTTTTCTTTTTTT--TCATC
*
12620622 TTCTTTTATTTTTTCTTATTTTTCATC
1 TTCTTTTATTTTTTCTTTTTTTTCATC
12620649 CATTGTTGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
27 5 0.11
28 7 0.15
29 24 0.51
30 11 0.23
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (27 bp):
TTCTTTTATTTTTTCTTTTTTTTCATC
Found at i:12622257 original size:5 final size:5
Alignment explanation
Indices: 12622242--12622281 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
12622232 GGACATCACA
* * *
12622242 CATAT CCTAT CATAT CATAT CATTT TATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
12622282 AAGCTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (5 bp):
CATAT
Found at i:12623567 original size:31 final size:31
Alignment explanation
Indices: 12623494--12623583 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
12623484 TTTAAATTAC
* * *
12623494 ATATAATTTTAAAAATTAAGTAAAAATTTCT
1 ATATAGTTTTAAAAATTAAATAAAAATCTCT
*
12623525 ATA-ATGCTTTAAGAAATTAAATAAAAA-CTCT
1 ATATA-GTTTTAA-AAATTAAATAAAAATCTCT
**
12623556 ATATAGTTTTAAAATATTATGTAAAAAT
1 ATATAGTTTTAAAA-ATTAAATAAAAAT
12623584 TTTCATAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
30 3 0.06
31 30 0.64
32 14 0.30
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (31 bp):
ATATAGTTTTAAAAATTAAATAAAAATCTCT
Found at i:12623750 original size:14 final size:14
Alignment explanation
Indices: 12623731--12623761 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12623721 TTATTTTTCT
12623731 TTTTATAAAACATA
1 TTTTATAAAACATA
*
12623745 TTTTATAAAATATA
1 TTTTATAAAACATA
12623759 TTT
1 TTT
12623762 ACAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:12625659 original size:31 final size:32
Alignment explanation
Indices: 12625589--12625662 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
12625579 CATTAAATAT
* **
12625589 GATTTCATTTGATAAAATATTAACGCACATTT
1 GATTTCATTTGATAAAATATTAAAGCACATAG
12625621 GATTTCATTTGATAAAATATTAATAG-AC-TAG
1 GATTTCATTTGATAAAATATTAA-AGCACATAG
12625652 GATTTCATTTG
1 GATTTCATTTG
12625663 TAATGCTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 12 0.32
32 25 0.66
33 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (32 bp):
GATTTCATTTGATAAAATATTAAAGCACATAG
Found at i:12626529 original size:22 final size:22
Alignment explanation
Indices: 12626501--12626543 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
12626491 TTTGAAAGGG
*
12626501 TGATGCTCGTATTGTTTAATAA
1 TGATGCTCGTATTGTTCAATAA
12626523 TGATGCTCGTATTGTTCAATA
1 TGATGCTCGTATTGTTCAATA
12626544 CAAAAGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.44
Consensus pattern (22 bp):
TGATGCTCGTATTGTTCAATAA
Found at i:12628385 original size:12 final size:12
Alignment explanation
Indices: 12628368--12628399 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12628358 TCATTCAAAA
12628368 ATTTTATTAATT
1 ATTTTATTAATT
12628380 ATTTTATTAATT
1 ATTTTATTAATT
*
12628392 TTTTTATT
1 ATTTTATT
12628400 TAAAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:12630173 original size:17 final size:18
Alignment explanation
Indices: 12630143--12630176 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12630133 AAAACAAATA
*
12630143 AAAAATCAACAAAATAAC
1 AAAAATCAAAAAAATAAC
12630161 AAAAAT-AAAAAAATAA
1 AAAAATCAAAAAAATAA
12630177 AATCAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAATCAAAAAAATAAC
Found at i:12631418 original size:11 final size:12
Alignment explanation
Indices: 12631396--12631433 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12631386 TTTATTAATT
12631396 AATCATTAAAAA
1 AATCATTAAAAA
12631408 AATCATTAAAAA
1 AATCATTAAAAA
*
12631420 AGT-ATATAAAAA
1 AATCAT-TAAAAA
12631432 AA
1 AA
12631434 AAAAAGTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (12 bp):
AATCATTAAAAA
Done.