Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 198 of 284
Found at i:66460437 original size:15 final size:15
Alignment explanation
Indices: 66460417--66460450 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
66460407 TTTAAATCTT
66460417 AACCCCTAAA-CCATA
1 AACCCC-AAATCCATA
66460432 AACCCCAAATCCATA
1 AACCCCAAATCCATA
66460447 AACC
1 AACC
66460451 TTTAGCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (15 bp):
AACCCCAAATCCATA
Found at i:66460658 original size:16 final size:16
Alignment explanation
Indices: 66460634--66460681 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
66460624 ATCAATAAAC
66460634 TATAAACCCTAAACCA
1 TATAAACCCTAAACCA
*
66460650 TATATACCCTAAACCA
1 TATAAACCCTAAACCA
*
66460666 TGCATAAACCTTAAAC
1 T--ATAAACCCTAAAC
66460682 TATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 16 0.59
18 11 0.41
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (16 bp):
TATAAACCCTAAACCA
Found at i:66461562 original size:41 final size:42
Alignment explanation
Indices: 66461465--66461562 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 42
66461455 AGTTTAGATT
* *
66461465 TATAGCGGCGTTTTTCCAAAAAGCGCCGCTAGAACTTAAATC
1 TATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTTAAATC
*
66461507 TATTA-CGGCGTTTTT-CTAAAAGCGCCACTAAAACTTAAATC
1 TA-TAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTTAAATC
*
66461548 TATAGCGGCATTTTT
1 TATAGCGGCGTTTTT
66461563 GAGGAAGCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
40 2 0.04
41 34 0.68
42 12 0.24
43 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
TATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTTAAATC
Found at i:66461910 original size:3 final size:3
Alignment explanation
Indices: 66461902--66462391 Score: 137
Period size: 3 Copynumber: 159.7 Consensus size: 3
66461892 GTAGTGTTAG
* * ** *
66461902 TAA TAA TAA TAA TAA TAGA AAA TAA TAG TACA TTGT TAA TATA CAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A -TAA TAA TA-A TAA TAA
* * * **
66461951 CAA CAA TAA TAA TATA TAA AAA TAGGA -AA TAA TAA T-A TGG TAA -AA
1 TAA TAA TAA TAA TA-A TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA
* * * * *
66461996 -AA TAA T-A TAT TAA CAA AAA TAA TAG TAG TAA TAA TAA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * *
66462040 TGA TAA TAA AAA TACA TAA TAA TAG TAA -AA CAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
66462085 TAA TAA TAA TAA TAG TAG TAG TGA TAT TAG TAA TAA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * *
66462134 AAA TAA TAG TACA TTGA TAA T-A TACGA TAA TAA CAT TAA TAA TATA
1 TAA TAA TAA TA-A -TAA TAA TAA TA--A TAA TAA TAA TAA TAA TA-A
* ** * * *
66462180 TAA AAA TAGGA -AA TAA TAA T-A TGG TAA -AA AAA TAA TACGT TAA CAA
1 TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA
* * * * * * *
66462226 AAA TAA TAG TAG TAA TAA CAA TAA TTAA TGA TAA TAA AAA TACA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA
* * * *
66462273 TAA TAG TAA -AA CAA TAA TAG TAA TGA TAA TAA TAA TAA TAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * * *
66462318 TTAA GTTA CAA TAG TAA -AG TAA TAA TAG TGA TAA TAA T-A TAT TAGA
1 -TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
*
66462364 TAA TAA TAA -AA -AA TAA CAA GTAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA
66462392 CTAGATTAAA
Statistics
Matches: 354, Mismatches: 95, Indels: 76
0.67 0.18 0.14
Matches are distributed among these distances:
2 27 0.08
3 282 0.80
4 34 0.10
5 11 0.03
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:66462045 original size:13 final size:13
Alignment explanation
Indices: 66462024--66462097 Score: 59
Period size: 13 Copynumber: 6.0 Consensus size: 13
66462014 ATAATAGTAG
66462024 TAATAATAATAAT
1 TAATAATAATAAT
*
66462037 TAATGATAATAA-
1 TAATAATAATAAT
*
66462049 AAATACATAATAA-
1 TAATA-ATAATAAT
* *
66462062 TAGTAA-AACAA-
1 TAATAATAATAAT
*
66462073 TAATAGTAATAA-
1 TAATAATAATAAT
66462085 TAATAATAATAAT
1 TAATAATAATAAT
66462098 AGTAGTAGTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
11 8 0.17
12 19 0.40
13 21 0.44
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:66462187 original size:22 final size:22
Alignment explanation
Indices: 66462144--66462187 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
66462134 AAATAATAGT
* * *
66462144 ACATTGATAATATACGATAATA
1 ACATTAATAATATACAAAAATA
*
66462166 ACATTAATAATATATAAAAATA
1 ACATTAATAATATACAAAAATA
66462188 GGAAATAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.32
Consensus pattern (22 bp):
ACATTAATAATATACAAAAATA
Found at i:66462213 original size:16 final size:17
Alignment explanation
Indices: 66462194--66462233 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
66462184 AATAGGAAAT
*
66462194 AATAATATGGTAA-AAA
1 AATAATACGGTAACAAA
*
66462210 AATAATACGTTAACAAA
1 AATAATACGGTAACAAA
66462227 AATAATA
1 AATAATA
66462234 GTAGTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (17 bp):
AATAATACGGTAACAAA
Found at i:66462304 original size:214 final size:213
Alignment explanation
Indices: 66461898--66462312 Score: 740
Period size: 214 Copynumber: 1.9 Consensus size: 213
66461888 TCTTGTAGTG
*
66461898 TTAGTAATAATAATAATAATAGAAAATAATAGTACATTGTTAATATACAATAACAACAATAATAA
1 TTAGTAATAATAATAATAATAGAAAATAATAGTACATTGATAATATACAATAACAACAATAATAA
*
66461963 TATATAAAAATAGGAAATAATAATATGGTAAAAAATAATATATTAACAAAAATAATAGTAGTAAT
66 TATATAAAAATAGGAAATAATAATATGGTAAAAAATAATACATTAACAAAAATAATAGTAGTAAT
* *
66462028 AATAATAATTAATGATAATAAAAATACATAATAATAGTAAAACAATAATAGTAATAATAATAATA
131 AACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATAATAATAATA
66462093 ATAATAGTAGTAGTGATA
196 ATAATAGTAGTAGTGATA
* * *
66462111 TTAGTAATAATAATAATAATAGAAAATAATAGTACATTGATAATATACGATAATAACATTAATAA
1 TTAGTAATAATAATAATAATAGAAAATAATAGTACATTGATAATATACAATAACAACAATAATAA
*
66462176 TATATAAAAATAGGAAATAATAATATGGTAAAAAAATAATACGTTAACAAAAATAATAGTAGTAA
66 TATATAAAAATAGGAAATAATAATATGGT-AAAAAATAATACATTAACAAAAATAATAGTAGTAA
*
66462241 TAACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATGATAATAAT
130 TAACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATAATAATAAT
66462306 AATAATA
195 AATAATA
66462313 ATACATTAAG
Statistics
Matches: 192, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
213 90 0.47
214 102 0.53
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (213 bp):
TTAGTAATAATAATAATAATAGAAAATAATAGTACATTGATAATATACAATAACAACAATAATAA
TATATAAAAATAGGAAATAATAATATGGTAAAAAATAATACATTAACAAAAATAATAGTAGTAAT
AACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATAATAATAATA
ATAATAGTAGTAGTGATA
Found at i:66462390 original size:214 final size:212
Alignment explanation
Indices: 66461899--66462391 Score: 699
Period size: 214 Copynumber: 2.3 Consensus size: 212
66461889 CTTGTAGTGT
* * *
66461899 TAGTAATAATAATAATAATAGAAAATAATAGTACATTGTTAATATACAATAACAACAATAATAAT
1 TAGTAATAATAATAATAATAGAAAATAATAGTA-ATTGATAATATACAAAAATAACAATAATAAT
*
66461964 ATATAAAAATAGGAAATAATAATATGGTAAAAAATAATATATTAACAAAAATAATAGTAGTAATA
65 ATATAAAAATAGGAAATAATAATATGGTAAAAAATAATACATTAACAAAAATAATAGTAGTAATA
* *
66462029 ATAATAATTAATGATAATAAAAATACATAATAATAGTAAAACAATAATAGTAATAATAATAATAA
130 ACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATAATAATAATAA
* * *
66462094 TAATAGTAGTAGTGATAT
195 TAATAATAGTAGTGACAA
* * *
66462112 TAGTAATAATAATAATAATAGAAAATAATAGTACATTGATAATATACGATAATAACATTAATAAT
1 TAGTAATAATAATAATAATAGAAAATAATAGTA-ATTGATAATATACAAAAATAACAATAATAAT
*
66462177 ATATAAAAATAGGAAATAATAATATGGTAAAAAAATAATACGTTAACAAAAATAATAGTAGTAAT
65 ATATAAAAATAGGAAATAATAATATGGT-AAAAAATAATACATTAACAAAAATAATAGTAGTAAT
*
66462242 AACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATGATAATAATA
129 AACAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATAATAATAATA
* *
66462307 ATAATAATACATTAAGTTACAA
194 ATAATAAT--AGT-AGTGACAA
* * *
66462329 TAGTAA-AGTAATAATAGT-GATAATAATA-T-ATTAGATAATAATA-AAAAATAACAAGTAATA
1 TAGTAATAATAATAATAATAGAAAATAATAGTAATT-GATAAT-ATACAAAAATAACAA-TAATA
66462389 ATA
63 ATA
66462392 CTAGATTAAA
Statistics
Matches: 253, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
212 3 0.01
213 103 0.41
214 115 0.45
215 9 0.04
216 12 0.05
217 11 0.04
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (212 bp):
TAGTAATAATAATAATAATAGAAAATAATAGTAATTGATAATATACAAAAATAACAATAATAATA
TATAAAAATAGGAAATAATAATATGGTAAAAAATAATACATTAACAAAAATAATAGTAGTAATAA
CAATAATTAATGATAATAAAAATACAGAATAATAGTAAAACAATAATAGTAATAATAATAATAAT
AATAATAGTAGTGACAA
Found at i:66463064 original size:9 final size:8
Alignment explanation
Indices: 66463023--66463066 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
66463013 AATAGCCTTT
66463023 AAAAAATA
1 AAAAAATA
66463031 AAAAAATA
1 AAAAAATA
66463039 AAATAACA-A
1 AAA-AA-ATA
66463048 AAAAAATA
1 AAAAAATA
66463056 AAAATAATA
1 AAAA-AATA
66463065 AA
1 AA
66463067 CCTTTTATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 1 0.03
8 18 0.56
9 12 0.38
10 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:66463448 original size:22 final size:23
Alignment explanation
Indices: 66463411--66463460 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
66463401 TGTTTTTGGG
*
66463411 TTGGGCTAGGGTTGAAATTAGGT
1 TTGGGCTAGGGCTGAAATTAGGT
*
66463434 TTGGGCTA-GGCTGAAATTGGGT
1 TTGGGCTAGGGCTGAAATTAGGT
66463456 TTGGG
1 TTGGG
66463461 TTAATGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.18, C:0.06, G:0.42, T:0.34
Consensus pattern (23 bp):
TTGGGCTAGGGCTGAAATTAGGT
Found at i:66463833 original size:45 final size:45
Alignment explanation
Indices: 66463773--66463893 Score: 206
Period size: 45 Copynumber: 2.7 Consensus size: 45
66463763 TGCTTTAATT
*
66463773 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTC
*
66463818 TGCTCCACTGTAACTTCAGGGAGATAAGACTTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTC
* *
66463863 TGTTCCACTGCAACTTCAGGGAGACAAGACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT
66463894 AGTGACTTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTC
Found at i:66464057 original size:44 final size:44
Alignment explanation
Indices: 66463993--66464322 Score: 233
Period size: 44 Copynumber: 7.5 Consensus size: 44
66463983 AATTTCCAGC
*
66463993 CTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
* * ** ** ** *
66464037 CTGTTTCCCTACTGCTTAGGGGCTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGA-T
* * *
66464080 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCCCTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
** * * * ** *
66464124 CTGTTTTCCTACTACTTAGGAGG-TTAAGACCTAT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGG-GGTTTAAGGCCCATCACCTTCGA-T
* *
66464167 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
* * * * ** * ** * *
66464211 CTGTTTCCCTACTGTTTAGGGGGTT-AGGATCTGTAAATTTAG-C
1 CTGTTACCCTACTGCTTAGGGGTTTAAGG-CCCATCACCTTCGAT
* *
66464254 CTGTTACCCTACTGCTTAGGGGTTTCAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
*
66464298 CTGTTTCCCTACTGCTTAGGAGGTT
1 CTGTTACCCTACTGCTTAGG-GGTT
66464323 AAGATCTGTA
Statistics
Matches: 208, Mismatches: 66, Indels: 23
0.70 0.22 0.08
Matches are distributed among these distances:
42 4 0.02
43 89 0.43
44 107 0.51
45 8 0.04
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
Found at i:66464095 original size:43 final size:43
Alignment explanation
Indices: 66463989--66464368 Score: 178
Period size: 44 Copynumber: 8.7 Consensus size: 43
66463979 TTGTAATTTC
* ** * **
66463989 CAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTAT-AAATT
* * * *
66464033 C-GATCTGTTTCCCTACTGCTTAGGGGCTTAAGATCTGTAAATT
1 CAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTATAAATT
* ** ** ***
66464076 CAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCCTCGCCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTAT-AAATT
* ** * *
66464120 C-GATCTGTTTTCCTACTACTTAGGAGG-TTAAGACCTATAAATT
1 CAG-CCTGTTACCCTACTGCTTAGG-GGTTTAAGATCTATAAATT
* * ***
66464163 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTAT-AAATT
* * * * * *
66464207 C-GATCTGTTTCCCTACTGTTTAGGGGGTTAGGATCTGTAAATT
1 CAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTATAAATT
* * ** * ***
66464250 TAGCCTGTTACCCTACTGCTTAGGGGTTTCAGGCCCATCGCCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTAT-AAATT
* * *
66464294 C-GATCTGTTTCCCTACTGCTTAGGAGG-TTAAGATCTGTAAATT
1 CAG-CCTGTTACCCTACTGCTTAGG-GGTTTAAGATCTATAAATT
* ** * *
66464337 TAGTATGTTACCTTACTGCTTAAGGGTTTAAG
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
66464369 GCTAGTGAAT
Statistics
Matches: 238, Mismatches: 83, Indels: 31
0.68 0.24 0.09
Matches are distributed among these distances:
42 4 0.02
43 114 0.48
44 116 0.49
45 4 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (43 bp):
CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTATAAATT
Found at i:66464135 original size:87 final size:87
Alignment explanation
Indices: 66463980--66464370 Score: 577
Period size: 87 Copynumber: 4.5 Consensus size: 87
66463970 AGAAAAGAAT
* * *
66463980 TGTAATTTCCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCC
1 TGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCC
66464045 CTACTGCTTAGG-GGCTTAAGATC
65 CTACTGCTTAGGAGG-TTAAGATC
* * *
66464068 TGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCCTCGCCTTCGATCTGTTTTCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC
* *
66464133 TACTACTTAGGAGGTTAAGACC
66 TACTGCTTAGGAGGTTAAGATC
* *
66464155 TATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC
* * *
66464220 TACTGTTTAGGGGGTTAGGATC
66 TACTGCTTAGGAGGTTAAGATC
* *
66464242 TGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTCAGGCCCATCGCCTTCGATCTGTTTCCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC
66464307 TACTGCTTAGGAGGTTAAGATC
66 TACTGCTTAGGAGGTTAAGATC
* ** * *
66464329 TGTAAATTTAGTATGTTACCTTACTGCTTAAGGGTTTAAGGC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
66464371 TAGTGAATTC
Statistics
Matches: 272, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
87 263 0.97
88 9 0.03
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (87 bp):
TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC
TACTGCTTAGGAGGTTAAGATC
Found at i:66472425 original size:9 final size:9
Alignment explanation
Indices: 66472403--66472443 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
66472393 TGTAATGCTG
66472403 ATGC-ATGA
1 ATGCAATGA
*
66472411 ATGCAATGC
1 ATGCAATGA
66472420 ATGCAATGA
1 ATGCAATGA
*
66472429 ATACAATGA
1 ATGCAATGA
66472438 ATGCAA
1 ATGCAA
66472444 AAAAAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:66476321 original size:3 final size:3
Alignment explanation
Indices: 66476315--66476418 Score: 59
Period size: 3 Copynumber: 34.0 Consensus size: 3
66476305 TAAAAAAGGA
** * * * *
66476315 AAT AAT AAT -AT GTT AAT AAG AAT AAT AGT AGT AGT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * *
66476360 AAT GAT AAT AAA AAT ACATT AGAT AAT AAT AGT AA- AAC AAT AAT AGT
1 AAT AAT AAT AAT AAT A-A-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT
66476407 AAT AAT AAT AAT
1 AAT AAT AAT AAT
66476419 TGTTAATAAC
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.05
3 66 0.84
4 6 0.08
5 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66476403 original size:14 final size:15
Alignment explanation
Indices: 66476384--66476430 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
66476374 TACATTAGAT
66476384 AATAATAGTAA-AAC
1 AATAATAGTAATAAC
*
66476398 AATAATAGTAATAAT
1 AATAATAGTAATAAC
*
66476413 AATAATTGTTAATAAC
1 AATAATAG-TAATAAC
66476429 AA
1 AA
66476431 CGATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 11 0.39
15 9 0.32
16 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (15 bp):
AATAATAGTAATAAC
Found at i:66476522 original size:3 final size:3
Alignment explanation
Indices: 66476492--66476633 Score: 55
Period size: 3 Copynumber: 47.3 Consensus size: 3
66476482 GTTACTAAAA
* * * *
66476492 AAT AGT AAT AAT -AT ATT AAT AAG GAT AAT AAT AAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * *
66476536 GAA- AGT AAT AAT AAT AAT ACATT AAGT TAC AAT AGT AA- AGT AAT AAT
1 -AAT AAT AAT AAT AAT AAT A-A-T AA-T AAT AAT AAT AAT AAT AAT AAT
* * * *
66476583 AGT GAT AAT AAT AAT -AT ATT AGAT AAT AAT AA- AA- AAT AAC AAGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T
66476627 AAT AAT A
1 AAT AAT A
66476634 CTAGATTAAA
Statistics
Matches: 100, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
2 12 0.12
3 74 0.74
4 12 0.12
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:66477592 original size:24 final size:24
Alignment explanation
Indices: 66477559--66477604 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
66477549 GGTGCAACTG
*
66477559 GCGGTGGCAGGTGGCTGACAAGCA
1 GCGGTAGCAGGTGGCTGACAAGCA
66477583 GCGGTAGCAGGTGGCTGACAAG
1 GCGGTAGCAGGTGGCTGACAAG
66477605 GCTAGGGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.46, T:0.13
Consensus pattern (24 bp):
GCGGTAGCAGGTGGCTGACAAGCA
Found at i:66481040 original size:30 final size:31
Alignment explanation
Indices: 66481004--66481065 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
66480994 TTAATATCAT
66481004 AAATTTATGTCTTAAAAATTATCTACA-TCG
1 AAATTTATGTCTTAAAAATTATCTACAGTCG
66481034 AAATTTATGTCTTAAAAATTATCTACAGTCG
1 AAATTTATGTCTTAAAAATTATCTACAGTCG
66481065 A
1 A
66481066 TGTGTGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (31 bp):
AAATTTATGTCTTAAAAATTATCTACAGTCG
Found at i:66481899 original size:19 final size:18
Alignment explanation
Indices: 66481836--66481899 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 18
66481826 TTTATTTAAT
66481836 AAATTA-AA-ATTTATAA
1 AAATTATAACATTTATAA
* *
66481852 AAATTATAAGACATTAATTA
1 AAATTAT-A-ACATTTATAA
**
66481872 AAACCATAACATTTTATAA
1 AAATTATAACA-TTTATAA
66481891 AAATTATAA
1 AAATTATAA
66481900 AAAATAATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
16 6 0.17
18 4 0.11
19 14 0.40
20 11 0.31
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTATAACATTTATAA
Found at i:66481958 original size:44 final size:43
Alignment explanation
Indices: 66481841--66481958 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 43
66481831 TTAATAAATT
* * *
66481841 AAAATTTATAAAAATTATAAGACAT--T-AATT-AAAACCATA
1 AAAATTTAAAAAAATTATAAAAAATAATAAATTAAAAACCATA
* * * **
66481880 ACATTTTATAAAAATTATAAAAAATAATTTATTAAAAACCATA
1 AAAATTTAAAAAAATTATAAAAAATAATAAATTAAAAACCATA
*
66481923 AAAATTTAGAAAAAATTATAAAAAATTATAAATTAA
1 AAAATTTA-AAAAAATTATAAAAAATAATAAATTAA
66481959 TTAAAAACAA
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 21 0.33
41 1 0.02
42 3 0.05
43 15 0.24
44 23 0.37
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (43 bp):
AAAATTTAAAAAAATTATAAAAAATAATAAATTAAAAACCATA
Found at i:66482231 original size:9 final size:9
Alignment explanation
Indices: 66482139--66482242 Score: 50
Period size: 9 Copynumber: 11.2 Consensus size: 9
66482129 AAAAAATAAT
66482139 ATTTTTATA
1 ATTTTTATA
** *
66482148 AAATTTATG
1 ATTTTTATA
66482157 ATTTTTAATTA
1 ATTTTT-A-TA
*
66482168 ATTTCTAGT-
1 ATTTTTA-TA
*
66482177 ATTTTTATT
1 ATTTTTATA
*
66482186 ATTTTTAAA
1 ATTTTTATA
** *
66482195 AAATATATA
1 ATTTTTATA
*
66482204 ATTTTGATTA
1 ATTTTTA-TA
*
66482214 TTATTTTATA
1 AT-TTTTATA
66482224 ATTTTTATA
1 ATTTTTATA
66482233 A-TTTTATA
1 ATTTTTATA
66482241 AT
1 AT
66482243 GCATTTGCAA
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
8 9 0.13
9 39 0.58
10 9 0.13
11 10 0.15
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:66483825 original size:6 final size:6
Alignment explanation
Indices: 66483818--66483872 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
66483808 CAAACCACAA
* * *
66483818 CAACAA CAACAG CATCAG C-A--G CAACAG CAACAA CAACAG CAACAG
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG
66483863 CAACAG CAAC
1 CAACAG CAAC
66483873 GGGAACATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
3 2 0.05
4 1 0.02
6 38 0.93
ACGTcount: A:0.51, C:0.35, G:0.13, T:0.02
Consensus pattern (6 bp):
CAACAG
Found at i:66483848 original size:24 final size:24
Alignment explanation
Indices: 66483818--66483872 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 24
66483808 CAAACCACAA
66483818 CAACAACAACAGCATCAGCAGCAACAG
1 CAACAACAACAGCA--A-CAGCAACAG
66483845 CAACAACAACAGCAACAGCAACAG
1 CAACAACAACAGCAACAGCAACAG
66483869 CAAC
1 CAAC
66483873 GGGAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 13 0.46
25 1 0.04
27 14 0.50
ACGTcount: A:0.51, C:0.35, G:0.13, T:0.02
Consensus pattern (24 bp):
CAACAACAACAGCAACAGCAACAG
Found at i:66486045 original size:29 final size:29
Alignment explanation
Indices: 66485989--66486058 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
66485979 TTTAATATCT
* * * *
66485989 TATATTTTTA-TACTTTTTAAATATTAAAT
1 TATAATTTTATTA-TTTTTAAAGAGTAAAG
66486018 TA-AATTATTATTATTTTTAAAGAGTAAAG
1 TATAATT-TTATTATTTTTAAAGAGTAAAG
66486047 TATAATTTTATT
1 TATAATTTTATT
66486059 GTTATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.09
29 25 0.74
30 6 0.18
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
TATAATTTTATTATTTTTAAAGAGTAAAG
Found at i:66488782 original size:23 final size:23
Alignment explanation
Indices: 66488735--66488783 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
66488725 AGAAGAATTA
*
66488735 TCAAGTTTAAAGACTAAATCGTG
1 TCAAGTTTAAAGACTAAATAGTG
*
66488758 TCAAGTTT-AAGAACTAAATATTG
1 TCAAGTTTAAAG-ACTAAATAGTG
66488781 TCA
1 TCA
66488784 TATTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (23 bp):
TCAAGTTTAAAGACTAAATAGTG
Found at i:66489605 original size:16 final size:16
Alignment explanation
Indices: 66489574--66489614 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
66489564 GGTCTACCCA
*
66489574 TATTTATTTTTTTAAAT
1 TATTT-TTTATTTAAAT
66489591 TATTTTTTATTTAAAT
1 TATTTTTTATTTAAAT
66489607 T-TTTTTTA
1 TATTTTTTA
66489615 AAAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 11 0.48
17 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTTATTTAAAT
Found at i:66497064 original size:31 final size:29
Alignment explanation
Indices: 66497003--66497065 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
66496993 TGTGATAACG
**
66497003 TAAGTGACTAAAACGTAACATTTTAAACA
1 TAAGTGACTAAAACGTAACATGGTAAACA
*
66497032 TAAGTGACTAAAATGTAACATGAGGTAAACA
1 TAAGTGACTAAAACGTAACAT--GGTAAACA
66497063 TAA
1 TAA
66497066 AAGTAGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
31 9 0.31
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (29 bp):
TAAGTGACTAAAACGTAACATGGTAAACA
Found at i:66498364 original size:9 final size:9
Alignment explanation
Indices: 66498350--66498391 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
66498340 TATAATTCAT
66498350 AAAAATTTA
1 AAAAATTTA
*
66498359 AAAAATGTTT
1 AAAAAT-TTA
66498369 AAAAATTTA
1 AAAAATTTA
*
66498378 ACAAATTTA
1 AAAAATTTA
66498387 AAAAA
1 AAAAA
66498392 AAAGGTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTTA
Found at i:66498392 original size:19 final size:19
Alignment explanation
Indices: 66498350--66498391 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
66498340 TATAATTCAT
*
66498350 AAAAATTTAAAAAATGTTT
1 AAAAATTTAAAAAATGTTA
*
66498369 AAAAATTTAACAAAT-TTA
1 AAAAATTTAAAAAATGTTA
66498387 AAAAA
1 AAAAA
66498392 AAAGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTTAAAAAATGTTA
Found at i:66498660 original size:23 final size:23
Alignment explanation
Indices: 66498634--66498677 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
66498624 TACGCTTGCT
66498634 TTGACTATAACTATACTTGTAGC
1 TTGACTATAACTATACTTGTAGC
* *
66498657 TTGACTATAACTGTATTTGTA
1 TTGACTATAACTATACTTGTA
66498678 ACTGTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (23 bp):
TTGACTATAACTATACTTGTAGC
Found at i:66518065 original size:17 final size:17
Alignment explanation
Indices: 66518043--66518185 Score: 132
Period size: 17 Copynumber: 8.5 Consensus size: 17
66518033 ACGGCTATAC
66518043 TTTATATGCAAGTTGTG
1 TTTATATGCAAGTTGTG
** *
66518060 TTTATATGTGAGTTGTC
1 TTTATATGCAAGTTGTG
* * *
66518077 TTTGTATGTAAGTTATG
1 TTTATATGCAAGTTGTG
* *
66518094 -TTATATGCGAGTTATG
1 TTTATATGCAAGTTGTG
* *
66518110 TTTATATGCGAGTTGTC
1 TTTATATGCAAGTTGTG
66518127 TTTATATGCAAGTTGTG
1 TTTATATGCAAGTTGTG
* *
66518144 -TTATATGCGAA-CTGAG
1 TTTATATGC-AAGTTGTG
66518160 TTTATATGCAAGTTGAT-
1 TTTATATGCAAGTTG-TG
66518177 TTTATATGC
1 TTTATATGC
66518186 GAGCTATGCT
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
16 26 0.25
17 77 0.75
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (17 bp):
TTTATATGCAAGTTGTG
Found at i:66518098 original size:50 final size:50
Alignment explanation
Indices: 66518044--66518185 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 50
66518034 CGGCTATACT
* * * *
66518044 TTATATGCAAGTTGTGTTTATATGTGAGTTGTCTTTGTATGTAAGTTATG
1 TTATATGCAAGTTATGTTTATATGCGAGTTGTCTTTATATGCAAGTTATG
* *
66518094 TTATATGCGAGTTATGTTTATATGCGAGTTGTCTTTATATGCAAGTTGTG
1 TTATATGCAAGTTATGTTTATATGCGAGTTGTCTTTATATGCAAGTTATG
* * *
66518144 TTATATGCGAACTGA-GTTTATATGCAAGTTGAT-TTTATATGC
1 TTATATGC-AAGTTATGTTTATATGCGAGTTG-TCTTTATATGC
66518186 GAGCTATGCT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 76 0.95
51 4 0.05
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (50 bp):
TTATATGCAAGTTATGTTTATATGCGAGTTGTCTTTATATGCAAGTTATG
Found at i:66518151 original size:33 final size:33
Alignment explanation
Indices: 66518094--66518190 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
66518084 GTAAGTTATG
* * * *
66518094 TTATATGCGAGTTATGTTTATATGCGAGTTGTCT
1 TTATATGCAAGTTGTG-TTATATGCGAGCTGACT
* *
66518128 TTATATGCAAGTTGTGTTATATGCGAACTGAGT
1 TTATATGCAAGTTGTGTTATATGCGAGCTGACT
*
66518161 TTATATGCAAGTTGATTTTATATGCGAGCT
1 TTATATGCAAGTTG-TGTTATATGCGAGCT
66518191 ATGCTTATCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 27 0.50
34 27 0.50
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (33 bp):
TTATATGCAAGTTGTGTTATATGCGAGCTGACT
Found at i:66519754 original size:47 final size:47
Alignment explanation
Indices: 66519685--66519780 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
66519675 ATTTCCAAAA
66519685 GATAGATATATAAATGTAACTAACTGGACTAGCAGTACATCAAACAT
1 GATAGATATATAAATGTAACTAACTGGACTAGCAGTACATCAAACAT
66519732 GATAGATATATAAATGTAACTAACTGGACTAGCAGTACATCAAACAT
1 GATAGATATATAAATGTAACTAACTGGACTAGCAGTACATCAAACAT
66519779 GA
1 GA
66519781 CCCAAGTAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.25
Consensus pattern (47 bp):
GATAGATATATAAATGTAACTAACTGGACTAGCAGTACATCAAACAT
Found at i:66519985 original size:30 final size:30
Alignment explanation
Indices: 66519951--66520010 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
66519941 ATACAAGTAC
66519951 TTCGTTACATGAATTTACTTACAATAGTGG
1 TTCGTTACATGAATTTACTTACAATAGTGG
66519981 TTCGTTACATGAATTTACTTACAATAGTGG
1 TTCGTTACATGAATTTACTTACAATAGTGG
66520011 AATTCATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (30 bp):
TTCGTTACATGAATTTACTTACAATAGTGG
Found at i:66526119 original size:50 final size:50
Alignment explanation
Indices: 66526053--66526151 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
66526043 TTTGGAATTC
* *
66526053 TGACTTCTGATATATAAAACATAAGGTAGAATACTTTTTGTTGGTAAAAT
1 TGACTTCTGATATATAAAACATAAGGAAGAATACATTTTGTTGGTAAAAT
* * *
66526103 TGACTTCTGGTGTATAAAACATAAGGAAGGATACATTTTGTTGGTAAAA
1 TGACTTCTGATATATAAAACATAAGGAAGAATACATTTTGTTGGTAAAA
66526152 AACTGACTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (50 bp):
TGACTTCTGATATATAAAACATAAGGAAGAATACATTTTGTTGGTAAAAT
Found at i:66526288 original size:2 final size:2
Alignment explanation
Indices: 66526281--66526306 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66526271 TATGGTATCT
66526281 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
66526307 CAACTCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:66534762 original size:24 final size:24
Alignment explanation
Indices: 66534735--66534786 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
66534725 TGAGGGGATG
*
66534735 TATTGAGAATCTTTGATTATTTGA
1 TATTGAGAATCTTTGATTATTTAA
66534759 TATTGAGAATCTTTGATTATTTAA
1 TATTGAGAATCTTTGATTATTTAA
66534783 TATT
1 TATT
66534787 ATTAAATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (24 bp):
TATTGAGAATCTTTGATTATTTAA
Found at i:66534810 original size:20 final size:22
Alignment explanation
Indices: 66534787--66534831 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
66534777 ATTTAATATT
66534787 ATTAAAT-AG-TATTTTTAGAG
1 ATTAAATCAGATATTTTTAGAG
* *
66534807 ATTACATCTGATATTTTTAGAG
1 ATTAAATCAGATATTTTTAGAG
66534829 ATT
1 ATT
66534832 CTAATTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (22 bp):
ATTAAATCAGATATTTTTAGAG
Found at i:66548794 original size:23 final size:24
Alignment explanation
Indices: 66548741--66548794 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
66548731 ACTTGAATTT
* *
66548741 TTTAAAATTTTAAATTTAAATTAA
1 TTTAAATTTTTAAATTCAAATTAA
*
66548765 ATTAAATTTTTAAATTCAAA-TAA
1 TTTAAATTTTTAAATTCAAATTAA
66548788 TTTAAAT
1 TTTAAAT
66548795 AAATCAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTAAATTTTTAAATTCAAATTAA
Found at i:66550560 original size:13 final size:14
Alignment explanation
Indices: 66550542--66550583 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
66550532 TTTCAATTTT
66550542 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
66550555 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
66550570 ATTTTAAATAATAT
1 ATTTT-AATAATAT
66550584 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:66550568 original size:16 final size:16
Alignment explanation
Indices: 66550546--66550582 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
66550536 AATTTTATTT
66550546 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
66550563 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
66550578 TAATA
1 TAATA
66550583 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:66551444 original size:22 final size:23
Alignment explanation
Indices: 66551419--66551463 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
66551409 TTAAAAATAA
66551419 TATATAAT-AAAAA-TTATATTTT
1 TATAT-ATCAAAAATTTATATTTT
*
66551441 TATATTTCAAAAATTTATATTTT
1 TATATATCAAAAATTTATATTTT
66551464 AATTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 10 0.50
23 9 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATATATCAAAAATTTATATTTT
Found at i:66551464 original size:22 final size:21
Alignment explanation
Indices: 66551427--66551468 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
66551417 AATATATAAT
66551427 AAAAATTATATTTTTATATTTC
1 AAAAATTATATTTTTA-ATTTC
66551449 AAAAATT-TATATTTTAATTT
1 AAAAATTATAT-TTTTAATTT
66551469 TAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AAAAATTATATTTTTAATTTC
Found at i:66551616 original size:37 final size:37
Alignment explanation
Indices: 66551566--66551676 Score: 222
Period size: 37 Copynumber: 3.0 Consensus size: 37
66551556 GAGGTAGTGG
66551566 GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
1 GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
66551603 GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
1 GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
66551640 GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
1 GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
66551677 CTTTCTTAGG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (37 bp):
GTGCTAACCCTAAACCTCTCACATCAGCTAAATGGGA
Found at i:66560353 original size:9 final size:9
Alignment explanation
Indices: 66560341--66560397 Score: 55
Period size: 10 Copynumber: 6.2 Consensus size: 9
66560331 TACATTGACC
66560341 ATTAAAAAT
1 ATTAAAAAT
66560350 ATTAAAAAATT
1 ATT-AAAAA-T
*
66560361 ATGAAAAAGT
1 ATTAAAAA-T
*
66560371 ATAAAAAAT
1 ATTAAAAAT
66560380 ATT--AAAT
1 ATTAAAAAT
66560387 ATTAAAAAT
1 ATTAAAAAT
66560396 AT
1 AT
66560398 ATAATCACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 7 0.17
9 12 0.30
10 18 0.45
11 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:66566676 original size:13 final size:13
Alignment explanation
Indices: 66566656--66566688 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
66566646 AAGTATAGAT
66566656 AAAAATTTTAAAA
1 AAAAATTTTAAAA
*
66566669 ACAAATTTTAAAA
1 AAAAATTTTAAAA
66566682 AAAAATT
1 AAAAATT
66566689 AACCATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTTTAAAA
Found at i:66568464 original size:14 final size:16
Alignment explanation
Indices: 66568434--66568466 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
66568424 TATTTCTATG
66568434 TTTTTACAAATAATTA
1 TTTTTACAAATAATTA
66568450 TTTTTA-AAA-AATTA
1 TTTTTACAAATAATTA
66568464 TTT
1 TTT
66568467 ATGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTACAAATAATTA
Found at i:66577028 original size:178 final size:178
Alignment explanation
Indices: 66576729--66577083 Score: 647
Period size: 178 Copynumber: 2.0 Consensus size: 178
66576719 TATCTCCTGA
*
66576729 TTTGTTGAGGATGGTAGAACAAGACGATAAACAAATCCTACCTCACAAAGAACCAGTGGAAATTG
1 TTTGTTGAGGATGGTAGAACAAGACGAGAAACAAATCCTACCTCACAAAGAACCAGTGGAAATTG
* *
66576794 TGAGCTTAGGAGAGGGACAAGAGGTGAAGATCGGGACTTGTATCACCATGGAGATGAAGCGAAAC
66 TGAGCTTAGGAGAGGGACAAAAGGTGAAGATCGAGACTTGTATCACCATGGAGATGAAGCGAAAC
* *
66576859 CTTATTGAATTACTTCAGGAATTCAAATATGTCTTCGCATGTATATGC
131 CTTATTGAATTACTTCAGGAATTCAAAGATGTCTTCGCATGGATATGC
*
66576907 TTTGTTGAGGATGGTAGAACAAGACGAGAAACAAATCCTACCTCACAAAGAACTAGTGGAAATTG
1 TTTGTTGAGGATGGTAGAACAAGACGAGAAACAAATCCTACCTCACAAAGAACCAGTGGAAATTG
66576972 TGAGCTTAGGAGAGGGACAAAAGGTGAAGATCGAGACTTGTATCACCATGGAGATGAAGCGAAAC
66 TGAGCTTAGGAGAGGGACAAAAGGTGAAGATCGAGACTTGTATCACCATGGAGATGAAGCGAAAC
*
66577037 CTTATTGAATTACTTCAGGAATTCAAAGATGTCTTCGTATGGATATG
131 CTTATTGAATTACTTCAGGAATTCAAAGATGTCTTCGCATGGATATG
66577084 TCCGGGTTGA
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
178 170 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (178 bp):
TTTGTTGAGGATGGTAGAACAAGACGAGAAACAAATCCTACCTCACAAAGAACCAGTGGAAATTG
TGAGCTTAGGAGAGGGACAAAAGGTGAAGATCGAGACTTGTATCACCATGGAGATGAAGCGAAAC
CTTATTGAATTACTTCAGGAATTCAAAGATGTCTTCGCATGGATATGC
Found at i:66581276 original size:45 final size:44
Alignment explanation
Indices: 66581225--66581688 Score: 185
Period size: 45 Copynumber: 10.5 Consensus size: 44
66581215 ACCATCCTAG
* *
66581225 CTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTACAGATCTTGT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTGC-GATCTTGT
* * * * *
66581270 CTCCCTAAAGTTACAGTGGAGCA-GATCGAAGATGGCAAATCTTGT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCT-GAAGATTGC-GATCTTGT
* * *** * * *
66581315 CTTCCTAAAGTTGCAGTGAAGTATATTTAAGCCA-T-C-ATCCT-A
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAG--ATTGCGATCTTGT
* * *
66581357 CTCCCTAAAGTTGTAGTGGAGTGGGCTGAAGATTGTAGATCTTGT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTG-CGATCTTGT
* * * ** *
66581402 TTCCCTAAAGTTACAGTGGAGTA-GATCGAAGACGGCGAATCTTTT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCT-GAAGATTGCG-ATCTTGT
* * ** ** * *** * *
66581447 CTCTCTGAAGTTGCAGTGGAGCCGATTTAAG-CCACCATCCTAG-
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTGCGAT-CTTGT
* * *
66581490 CTTCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTG-CGATCTTGT
* * * * * *
66581535 TTCCCTGAAGTTCCAGTGGAGCA-GATCGAAGATGGCGAATCTTGT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCT-GAAGATTGCG-ATCTTGT
* * ** * * * * *
66581580 CTCTCTGAAGTTGCAGTGGAGTAGATTTAAG-CTACCATCCTAG-
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTGCGAT-CTTGT
* **
66581623 CTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAAATCTTGT
1 CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTG-CGATCTTGT
* * *
66581668 TTCCCTGAAGTTGTAGTGGAG
1 CTCCCTAAAGTTGCAGTGGAG
66581689 CAGATCGAAG
Statistics
Matches: 296, Mismatches: 100, Indels: 46
0.67 0.23 0.10
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 23 0.08
43 55 0.19
44 27 0.09
45 185 0.62
46 3 0.01
47 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
CTCCCTAAAGTTGCAGTGGAGTAGGCTGAAGATTGCGATCTTGT
Found at i:66581621 original size:265 final size:265
Alignment explanation
Indices: 66581128--66581747 Score: 929
Period size: 265 Copynumber: 2.3 Consensus size: 265
66581118 CTGGTTCTAC
* * * * *
66581128 AGATATTGTCTCCCTGAAGTTACAGTAGAGCAGATTGAAGACGGTAAATCTTGTCTTTCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTTGTC-TTCTGAAGT
66581193 TACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
65 TACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66581258 TACAGATCTTGTCTCCCTAAAGTTACAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTTCCTAA
130 TACAGATCTTGTCTCCCTAAAGTTACAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTTCCTAA
* * *
66581323 AGTTGCAGTGAAGTATATTTAAGCCATCATCCTA-CTCCCTAAAGTTGTAGTGGAGTGGGCTGAA
195 AGTTGCAGTGAAGTAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
66581387 GATTGT
260 GATTGT
* * * *
66581393 AGATCTTGTTTCCCTAAAGTTACAGTGGAGTAGATCGAAGACGGCGAATCTTTTCTCTCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTTGTCT-TCTGAAGT
* * * *
66581458 TGCAGTGGAGCCGATTTAAGCCACCATCCTAGCTTCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
65 TACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
** * * * * *
66581523 TGTAGATCTTGTTTCCCTGAAGTTCCAGTGGAGCAGATCGAAGATGGCGAATCTTGTC-TCTCTG
130 TACAGATCTTGTCTCCCTAAAGTTACAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTTC-CTA
* *
66581587 AAGTTGCAGTGGAGTAGATTTAAGCTACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
194 AAGTTGCAGTGAAGTAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
66581652 AGATTGT
259 AGATTGT
* ** *
66581659 AAATCTTGTTTCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGT
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTT-CTGAAGT
66581724 TACAGTGAAGCAGATTTAAGCCAC
65 TACAGTGAAGCAGATTTAAGCCAC
66581748 TATCTTATCC
Statistics
Matches: 315, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
264 3 0.01
265 201 0.64
266 111 0.35
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (265 bp):
AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCTGAAGTT
ACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
ACAGATCTTGTCTCCCTAAAGTTACAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTTCCTAAA
GTTGCAGTGAAGTAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
ATTGT
Found at i:66581699 original size:45 final size:46
Alignment explanation
Indices: 66581624--66581724 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 46
66581614 CCATCCTAGC
* **
66581624 TCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAAATCTTGT-T
1 TCCCTAAAGTTGTAGTGGAGCAGGCTGAAGACGGTAAATCTTGTCT
* * *
66581669 TCCCTGAAGTTGTAGTGGAGCA-GATCGAAGACGGTGAATCTTGTCT
1 TCCCTAAAGTTGTAGTGGAGCAGGCT-GAAGACGGTAAATCTTGTCT
66581715 T-CCTAAAGTT
1 TCCCTAAAGTT
66581725 ACAGTGAAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 2 0.04
45 43 0.91
46 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (46 bp):
TCCCTAAAGTTGTAGTGGAGCAGGCTGAAGACGGTAAATCTTGTCT
Found at i:66581775 original size:133 final size:133
Alignment explanation
Indices: 66581128--66581747 Score: 877
Period size: 133 Copynumber: 4.7 Consensus size: 133
66581118 CTGGTTCTAC
* * * * ** *
66581128 AGATATTGTCTCCCTGAAGTTACAGTAGAGCAGATTGAAGACGGTAAATCTTGTCTTTCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
*
66581193 TACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
**
66581258 TAC
131 TGT
* * * * *
66581261 AGATCTTGTCTCCCTAAAGTTACAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTTCCTAAAGT
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * * *
66581326 TGCAGTGAAGTATATTTAAGCCATCATCCTA-CTCCCTAAAGTTGTAGTGGAGTGGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66581390 TGT
131 TGT
* * *
66581393 AGATCTTGTTTCCCTAAAGTTACAGTGGAGTAGATCGAAGACGGCGAATCTTTTC-TCTCTGAAG
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTC-CTGAAG
* * *
66581457 TTGCAGTGGAGCCGATTTAAGCCACCATCCTAGCTTCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
66581522 TTGT
130 TTGT
* *
66581526 AGATCTTGTTTCCCTGAAGTTCCAGTGGAGCAGATCGAAGATGGCGAATCTTGTC-TCTCTGAAG
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTC-CTGAAG
* * *
66581590 TTGCAGTGGAGTAGATTTAAGCTACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
66581655 TTGT
130 TTGT
* ** * *
66581659 AAATCTTGTTTCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGT
1 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
*
66581724 TACAGTGAAGCAGATTTAAGCCAC
66 TGCAGTGAAGCAGATTTAAGCCAC
66581748 TATCTTATCC
Statistics
Matches: 437, Mismatches: 47, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
131 2 0.00
132 115 0.26
133 318 0.73
134 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (133 bp):
AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:66582349 original size:132 final size:132
Alignment explanation
Indices: 66582106--66582356 Score: 324
Period size: 132 Copynumber: 1.9 Consensus size: 132
66582096 ATCATTCTTT
* * * * * * *
66582106 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTTGTGGAATCGTGCCCTAACGT
1 TAAAAACCCTTCAAAACGAAGGCAATATTCAATATTTGGCAATTCGGGGAATCGTGCCCTAACGT
* * *
66582171 GTTGGGTTACAATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATTTCATTCATGTTT
66 GCTGGGTTACAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCATTCATGTTT
66582236 CC
131 CC
* * * *
66582238 TAAAAACCCTTCAAAACGAAGGTAATATTCAATGTTTGGTAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAACCCTTCAAAACGAAGGCAATATTCAATATTTGGCAATTCGGGGAATCGTGCCCTAACGT
* * * *
66582303 GCTGGGTTGCGATTTCTTGTTTG-TCCAAAATAATCGAATATTCCTTTAGAATTT
66 GCTGGGTTACAATTTCTCGTTTGCT-CAAAATAATCGAATATCCCTTTAGAATTT
66582357 TACTCATGCT
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
131 1 0.01
132 99 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (132 bp):
TAAAAACCCTTCAAAACGAAGGCAATATTCAATATTTGGCAATTCGGGGAATCGTGCCCTAACGT
GCTGGGTTACAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCATTCATGTTT
CC
Found at i:66592589 original size:9 final size:8
Alignment explanation
Indices: 66592560--66592586 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
66592550 ATATTAAATA
66592560 TTTAATTT
1 TTTAATTT
66592568 TTTAATTT
1 TTTAATTT
66592576 TTTAATTT
1 TTTAATTT
66592584 TTT
1 TTT
66592587 TAAAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTAATTT
Found at i:66593280 original size:19 final size:19
Alignment explanation
Indices: 66593258--66593296 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
66593248 TTTTAAATAG
*
66593258 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
66593277 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
66593296 A
1 A
66593297 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:66593892 original size:18 final size:19
Alignment explanation
Indices: 66593869--66593909 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
66593859 AATGAAATGA
66593869 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
66593887 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
66593906 GAAA
1 GAAA
66593910 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:66593907 original size:13 final size:13
Alignment explanation
Indices: 66593857--66593896 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
66593847 TTGAGCTATT
66593857 AGAA-TGAAA-TG
1 AGAATTGAAATTG
66593868 AGAAATTG-AATTG
1 AG-AATTGAAATTG
66593881 AGAATTGAAATTG
1 AGAATTGAAATTG
66593894 AGA
1 AGA
66593897 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:66594969 original size:22 final size:22
Alignment explanation
Indices: 66594941--66595034 Score: 88
Period size: 22 Copynumber: 4.3 Consensus size: 22
66594931 AGGTTAGAGT
66594941 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
66594963 TTTAA-GGTTTAGGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
66594985 -TTAA-GGTTTATCGTTTTTAG-
1 TTTAAGGGTTTAT-GATTTGAGA
66595005 TCTTAAGGGTTTATGATTTGAGA
1 T-TTAAGGGTTTATGATTTGAGA
66595028 TTTAAGG
1 TTTAAGG
66595035 TCTCGTGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
21 21 0.37
22 28 0.49
23 8 0.14
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:66595921 original size:40 final size:40
Alignment explanation
Indices: 66595794--66595946 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
66595784 ATATTTTTGT
66595794 GGCG-TTT-TTAAGAAAGCGCCGCTAATGCTCGATCTTTAGC
1 GGCGCTTTCTTAA-AAA-CGCCGCTAATGCTCGATCTTTAGC
66595834 GGCGCTTTCTTAAAAACGCCGCTAA--CTCGATCTTTAGC
1 GGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTTTAGC
*
66595872 GGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTTTAGT
1 GGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTTTAGC
* * *
66595912 GGCGTTTTCTTAAAAACGCCGCTAATACTCAATCT
1 GGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCT
66595947 ATTCGATTTT
Statistics
Matches: 105, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
38 38 0.36
40 57 0.54
41 6 0.06
42 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (40 bp):
GGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTTTAGC
Found at i:66600770 original size:22 final size:22
Alignment explanation
Indices: 66600744--66600791 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
66600734 TATTTTTCAC
*
66600744 TATTGTTTTGCTGCCATTTTGA
1 TATTGTTTTGCTACCATTTTGA
* *
66600766 TATTGTTTTGCTACTATTTTGC
1 TATTGTTTTGCTACCATTTTGA
66600788 TATT
1 TATT
66600792 ATATTCCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (22 bp):
TATTGTTTTGCTACCATTTTGA
Found at i:66603451 original size:31 final size:31
Alignment explanation
Indices: 66603415--66603476 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
66603405 TTTTTTTGGG
* * *
66603415 TCTAATTTGATACCTAAACTTGACACTTTTT
1 TCTAATTTCACACCGAAACTTGACACTTTTT
66603446 TCTAATTTCACACCGAAACTTGACACTTTTT
1 TCTAATTTCACACCGAAACTTGACACTTTTT
66603477 CTTAACTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (31 bp):
TCTAATTTCACACCGAAACTTGACACTTTTT
Found at i:66603721 original size:24 final size:24
Alignment explanation
Indices: 66603689--66603738 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
66603679 TAATATGTTT
* *
66603689 TTTTTATTTTATATGTTCAATTAA
1 TTTTAATTTTATATATTCAATTAA
* *
66603713 TTTTAATTTTATTTATTTAATTAA
1 TTTTAATTTTATATATTCAATTAA
66603737 TT
1 TT
66603739 GTTTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTAATTTTATATATTCAATTAA
Found at i:66605609 original size:30 final size:30
Alignment explanation
Indices: 66605573--66605671 Score: 189
Period size: 30 Copynumber: 3.3 Consensus size: 30
66605563 TTAGCCTTTG
66605573 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66605603 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
66605633 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66605663 CCACCACCA
1 CCACCACCA
66605672 CTTGTACCTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.26, C:0.52, G:0.06, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:66606200 original size:24 final size:23
Alignment explanation
Indices: 66606152--66606203 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
66606142 TTTTTTTTGT
*
66606152 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
66606175 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
66606199 TATTA
1 TATTA
66606204 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:66606257 original size:25 final size:25
Alignment explanation
Indices: 66606219--66606287 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
66606209 ATTCTAAATT
*
66606219 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
66606242 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
*
66606267 CTATATTATTTATATATATTT
1 CTATATTATGTATATATATTT
66606288 TTTTTCTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.39
24 2 0.05
25 21 0.55
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:66606279 original size:29 final size:28
Alignment explanation
Indices: 66606246--66606355 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 28
66606236 ATTATACTAT
66606246 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
66606275 TTTATATATATTTTTTTTCTAC-ATGTTA
1 TTTATGTATA-TATTTTAATACTATATTA
66606303 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
66606330 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
66606355 T
1 T
66606356 GTACATATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 6 0.09
28 12 0.19
29 23 0.36
30 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:66606356 original size:25 final size:24
Alignment explanation
Indices: 66606306--66606368 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
66606296 CATGTTATCT
*
66606306 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
66606332 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
66606357 TACATATTTTTT
1 TATGTATTTTTT
66606369 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:66606458 original size:25 final size:24
Alignment explanation
Indices: 66606430--66606485 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
66606420 GTTATATTTT
*
66606430 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
66606455 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
66606478 CACTATTA
1 CACTATTA
66606486 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:66607559 original size:27 final size:27
Alignment explanation
Indices: 66607521--66607575 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
66607511 TTGGTCGATT
66607521 TCACCCTCTTAAGTGGAAGTGAAAAAC
1 TCACCCTCTTAAGTGGAAGTGAAAAAC
66607548 TCACCCTCTTAAGTGGAAGTGAAAAAC
1 TCACCCTCTTAAGTGGAAGTGAAAAAC
66607575 T
1 T
66607576 ACTCCTTCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (27 bp):
TCACCCTCTTAAGTGGAAGTGAAAAAC
Found at i:66610621 original size:151 final size:151
Alignment explanation
Indices: 66610339--66610638 Score: 510
Period size: 151 Copynumber: 2.0 Consensus size: 151
66610329 TTACAAGAAC
*
66610339 AACTAGCTAAGCCACAGTAAGAAACGAGAGATTTGATAGTAAGATCTCGAGAGGAATCACTTGAA
1 AACTAGCTAAGCCACAGCAAGAAACGAGAGATTTGATAGTAAGATCTCGAGAGGAATCACTTGAA
* * *
66610404 CAAAATGATCAAATGGCTAGAATGATGGAGATGATATCAGTTTTGGTCAAAGGAAAAAGACTCAT
66 CAAAAGGATCAAATGGCTAGAATGATGGAGACGATATCAGTTTTGGTCAAAGGAAAAAGACCCAT
66610469 GCAGAACCCCGACAGTATGTA
131 GCAGAACCCCGACAGTATGTA
* * *
66610490 AACTGGCTAAGTCACAGCAAGAAACGAGGGATTTGATAGTAAGATCTCGAGAGGAATCACTTGAA
1 AACTAGCTAAGCCACAGCAAGAAACGAGAGATTTGATAGTAAGATCTCGAGAGGAATCACTTGAA
* * *
66610555 CAAAAGGATCAAATGGCTAGATTGATGGAGACGATGTCAGTTTTGGTCAAAGGAAAAGGACCCAT
66 CAAAAGGATCAAATGGCTAGAATGATGGAGACGATATCAGTTTTGGTCAAAGGAAAAAGACCCAT
66610620 GCAGAACCCCGACAGTATG
131 GCAGAACCCCGACAGTATG
66610639 GAACCTCAAT
Statistics
Matches: 139, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 139 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (151 bp):
AACTAGCTAAGCCACAGCAAGAAACGAGAGATTTGATAGTAAGATCTCGAGAGGAATCACTTGAA
CAAAAGGATCAAATGGCTAGAATGATGGAGACGATATCAGTTTTGGTCAAAGGAAAAAGACCCAT
GCAGAACCCCGACAGTATGTA
Found at i:66616107 original size:232 final size:232
Alignment explanation
Indices: 66615701--66616164 Score: 928
Period size: 232 Copynumber: 2.0 Consensus size: 232
66615691 AAGACTCAGG
66615701 CAATATATGTTGTATCATACGACATGACTAATTTCAAAGTTGGACCCAATAAAGTACATGATGGA
1 CAATATATGTTGTATCATACGACATGACTAATTTCAAAGTTGGACCCAATAAAGTACATGATGGA
66615766 ATCACCTGCACTCCCAGGAAGAATAACACGATGGTAGATCTTACTATCAGAAAATGATATCGTCT
66 ATCACCTGCACTCCCAGGAAGAATAACACGATGGTAGATCTTACTATCAGAAAATGATATCGTCT
66615831 ATGTGAGCCAAAAGTCGATAAAAGGGAGCGCAATAGCTGACTTCTTAGCAACTCGAACAACGGAG
131 ATGTGAGCCAAAAGTCGATAAAAGGGAGCGCAATAGCTGACTTCTTAGCAACTCGAACAACGGAG
66615896 GAATACGAGCCATTGAGATTTGATTTCCCAGATTAAC
196 GAATACGAGCCATTGAGATTTGATTTCCCAGATTAAC
66615933 CAATATATGTTGTATCATACGACATGACTAATTTCAAAGTTGGACCCAATAAAGTACATGATGGA
1 CAATATATGTTGTATCATACGACATGACTAATTTCAAAGTTGGACCCAATAAAGTACATGATGGA
66615998 ATCACCTGCACTCCCAGGAAGAATAACACGATGGTAGATCTTACTATCAGAAAATGATATCGTCT
66 ATCACCTGCACTCCCAGGAAGAATAACACGATGGTAGATCTTACTATCAGAAAATGATATCGTCT
66616063 ATGTGAGCCAAAAGTCGATAAAAGGGAGCGCAATAGCTGACTTCTTAGCAACTCGAACAACGGAG
131 ATGTGAGCCAAAAGTCGATAAAAGGGAGCGCAATAGCTGACTTCTTAGCAACTCGAACAACGGAG
66616128 GAATACGAGCCATTGAGATTTGATTTCCCAGATTAAC
196 GAATACGAGCCATTGAGATTTGATTTCCCAGATTAAC
66616165 ACTTGATGTG
Statistics
Matches: 232, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
232 232 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (232 bp):
CAATATATGTTGTATCATACGACATGACTAATTTCAAAGTTGGACCCAATAAAGTACATGATGGA
ATCACCTGCACTCCCAGGAAGAATAACACGATGGTAGATCTTACTATCAGAAAATGATATCGTCT
ATGTGAGCCAAAAGTCGATAAAAGGGAGCGCAATAGCTGACTTCTTAGCAACTCGAACAACGGAG
GAATACGAGCCATTGAGATTTGATTTCCCAGATTAAC
Found at i:66617999 original size:11 final size:11
Alignment explanation
Indices: 66617983--66618013 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
66617973 AGGGCATCTT
66617983 AAAAAAAAGAA
1 AAAAAAAAGAA
66617994 AAAAAAAAGAA
1 AAAAAAAAGAA
66618005 AAAAGAAAA
1 AAAA-AAAA
66618014 AGAGAGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:66619704 original size:87 final size:87
Alignment explanation
Indices: 66619558--66619717 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
66619548 TATGCTTTGC
* * *
66619558 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
66619623 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTACAAATTTTGTTTT
* * * * * **
66619645 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
66619710 TCTGTTTT
66 TCTGTTTT
66619718 TAATGTTTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
TCTGTTTTACAAATTTTGTTTT
Found at i:66619731 original size:87 final size:86
Alignment explanation
Indices: 66619558--66619763 Score: 225
Period size: 87 Copynumber: 2.4 Consensus size: 86
66619548 TATGCTTTGC
* * * *
66619558 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
66619623 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTA-AAATTTTGTTTT
* * * * **
66619645 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
*
66619710 TCTGTTTT-TAATGTTTAGTTTT
66 TCTGTTTTAAAAT-TTT-GTTTT
* * * * *
66619732 AAAGAGTTAATTTATATTGCGAGAAATGAGTT
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTT
66619764 AAGCTCAGGA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 71 0.71
88 23 0.23
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
TCTGTTTTAAAATTTTGTTTT
Found at i:66620442 original size:30 final size:30
Alignment explanation
Indices: 66620401--66620496 Score: 156
Period size: 30 Copynumber: 3.2 Consensus size: 30
66620391 AGCCTTTGCC
* * *
66620401 ACCACCAACTCCACTAGCCACACTTGCTCT
1 ACCACCTACTCCATTAGCCACACTTGCTCA
*
66620431 ACCACCTACTCCATTAGCCACACTTGCTCC
1 ACCACCTACTCCATTAGCCACACTTGCTCA
66620461 ACCACCTACTCCATTAGCCACACTTGCTCA
1 ACCACCTACTCCATTAGCCACACTTGCTCA
66620491 ACCACC
1 ACCACC
66620497 ACTTGTACCT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.26, C:0.47, G:0.06, T:0.21
Consensus pattern (30 bp):
ACCACCTACTCCATTAGCCACACTTGCTCA
Found at i:66621081 original size:25 final size:26
Alignment explanation
Indices: 66621053--66621112 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
66621043 CTATATTACG
*
66621053 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
66621078 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
66621103 TATATATATT
1 TATATATATT
66621113 TTTTCTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:66621103 original size:29 final size:28
Alignment explanation
Indices: 66621070--66621179 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
66621060 ATTATACTAT
66621070 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
66621099 TTTATATATATATTTTTTCTAC-ATGTTA
1 TTTATGTATATA-TTTTAATACTATATTA
66621127 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
66621154 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
66621179 T
1 T
66621180 GTACATATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 6 0.09
28 11 0.17
29 27 0.41
30 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:66621175 original size:80 final size:82
Alignment explanation
Indices: 66621052--66621227 Score: 189
Period size: 80 Copynumber: 2.2 Consensus size: 82
66621042 TCTATATTAC
* * * * *
66621052 GTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATATATTTTTT
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATAT-T-TTTTTT
* *
66621117 CTA-C-ATGTTAT-CTTAT
64 ATATCTATGTTATACATAT
* * * *
66621133 GTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTTTAT
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTAT
*
66621197 ATCTATTTTATACATAT
66 ATCTATGTTATACATAT
*
66621214 GTATATATTATATA
1 GTATATATTTTATA
66621228 TATCTTAACA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
78 8 0.10
79 2 0.03
80 41 0.53
81 26 0.33
82 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (82 bp):
GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTAT
ATCTATGTTATACATAT
Found at i:66621180 original size:25 final size:24
Alignment explanation
Indices: 66621130--66621192 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
66621120 CATGTTATCT
*
66621130 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
66621156 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
66621181 TACATATTTTTT
1 TATGTATTTTTT
66621193 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:66621282 original size:25 final size:24
Alignment explanation
Indices: 66621254--66621309 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
66621244 GTTATATTTT
*
66621254 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
66621279 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
66621302 CACTATTA
1 CACTATTA
66621310 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:66629473 original size:18 final size:20
Alignment explanation
Indices: 66629431--66629467 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66629421 ATATTTTATG
*
66629431 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
66629450 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
66629468 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:66631680 original size:46 final size:46
Alignment explanation
Indices: 66631628--66631763 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
66631618 AGTGTGCTCT
*
66631628 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66631674 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
66631720 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
66631764 TCATGTCAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:66637580 original size:73 final size:74
Alignment explanation
Indices: 66637484--66637623 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 74
66637474 ATTGTCTCAG
* * * * *
66637484 GGTAAGTCACTTTTATAACCTTACCCTCAATTGGGAGTAGGCAATTGTTATCAACACCTTGTCAT
1 GGTAAGTCACTTTTATAACCTTACCATCAATTGGGAGAAAGAAATTGTTATCAACACCTTGCCAT
66637549 AACAAACAT
66 AACAAACAT
* ** * *
66637558 GGTAGGTCAC-TTTATAACCTTACCATTGATTGGGGGAAAGAAATTGTTATCAATACCTTGCCAT
1 GGTAAGTCACTTTTATAACCTTACCATCAATTGGGAGAAAGAAATTGTTATCAACACCTTGCCAT
66637622 AA
66 AA
66637624 TAGACCTTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
73 47 0.84
74 9 0.16
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (74 bp):
GGTAAGTCACTTTTATAACCTTACCATCAATTGGGAGAAAGAAATTGTTATCAACACCTTGCCAT
AACAAACAT
Found at i:66638750 original size:23 final size:24
Alignment explanation
Indices: 66638711--66638755 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
66638701 AGTAATTTTA
*
66638711 TATATTTTTATTTTTATGAAATAT
1 TATATTTTTATTATTATGAAATAT
66638735 TATA-TTTTATTATTATGAAAT
1 TATATTTTTATTATTATGAAAT
66638756 TACAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TATATTTTTATTATTATGAAATAT
Found at i:66638880 original size:31 final size:31
Alignment explanation
Indices: 66638813--66638880 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
66638803 AAATTTTATA
* * *
66638813 AAAAATATAAAATATATATTTCCAAATATAT
1 AAAAATAAAAAATATATATTTACAAATACAT
*
66638844 AAAAATAAAAAATATATATTGTATAAA-ACAT
1 AAAAATAAAAAATATATATT-TACAAATACAT
*
66638875 CAAAAT
1 AAAAAT
66638881 TTATAAACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (31 bp):
AAAAATAAAAAATATATATTTACAAATACAT
Found at i:66643996 original size:22 final size:20
Alignment explanation
Indices: 66643957--66643996 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
66643947 CAAACCATAA
66643957 ATTAATCTTAGATTTAAATC
1 ATTAATCTTAGATTTAAATC
*
66643977 ATTAAGTCTTTGATATTAAA
1 ATTAA-TCTTAGAT-TTAAA
66643997 AGTGTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTAATCTTAGATTTAAATC
Found at i:66644380 original size:33 final size:33
Alignment explanation
Indices: 66644342--66644411 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
66644332 TATTCCCTCA
66644342 TTTTCTACATGTTGACTAACCTATTTTTCCCTT
1 TTTTCTACATGTTGACTAACCTATTTTTCCCTT
66644375 TTTTCTACATGTTGACTAACCTATTTTTCCCTT
1 TTTTCTACATGTTGACTAACCTATTTTTCCCTT
66644408 TTTT
1 TTTT
66644412 TTATTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (33 bp):
TTTTCTACATGTTGACTAACCTATTTTTCCCTT
Found at i:66645980 original size:50 final size:50
Alignment explanation
Indices: 66645884--66645982 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 50
66645874 CTTTTAAAAA
* * *
66645884 ATTAATGAGAATTTTAAAAAAATTTGGAGAACTAATTAAATATTTTTAGG
1 ATTAATGAGAATCTTAAAAAAATTTAGAGAACTAACTAAATATTTTTAGG
*
66645934 ATTAATGAGAA-CTTAAAAAAATTTA-AGAAAGCTTAACTAAATTTTTTTA
1 ATTAATGAGAATCTTAAAAAAATTTAGAG-AA-C-TAACTAAATATTTTTA
66645983 AAATTTTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 2 0.05
49 14 0.33
50 12 0.29
51 14 0.33
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.37
Consensus pattern (50 bp):
ATTAATGAGAATCTTAAAAAAATTTAGAGAACTAACTAAATATTTTTAGG
Found at i:66653011 original size:24 final size:24
Alignment explanation
Indices: 66652974--66653028 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
66652964 GGGTACACAA
* *
66652974 ACATATCTCCTCATCTC-TATCACC
1 ACATATCTCATCATATCATATCA-C
* *
66652998 ACATATCTGATCATATCATATCAT
1 ACATATCTCATCATATCATATCAC
66653022 ACATATC
1 ACATATC
66653029 AGAAGCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.35
Consensus pattern (24 bp):
ACATATCTCATCATATCATATCAC
Found at i:66654939 original size:27 final size:27
Alignment explanation
Indices: 66654909--66654966 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
66654899 ATGTATATAT
*
66654909 ATTTAAGTCCATAATCTAATATTTTTC
1 ATTTAAGTCCATAATCTAACATTTTTC
* **
66654936 ATTTAAGTCTATTGTCTAACATTTTTC
1 ATTTAAGTCCATAATCTAACATTTTTC
66654963 ATTT
1 ATTT
66654967 TCTTAATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (27 bp):
ATTTAAGTCCATAATCTAACATTTTTC
Found at i:66656779 original size:21 final size:21
Alignment explanation
Indices: 66656731--66656779 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
66656721 ATCTGTGAAT
*
66656731 AAATTGAATAAATTCTGAAGA
1 AAATTGCATAAATTCTGAAGA
* *
66656752 ACATTGCATCAATTCTGAAGA
1 AAATTGCATAAATTCTGAAGA
66656773 AAATTGC
1 AAATTGC
66656780 TCTTCAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (21 bp):
AAATTGCATAAATTCTGAAGA
Found at i:66660747 original size:15 final size:15
Alignment explanation
Indices: 66660727--66660756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66660717 TTTTTGCATA
*
66660727 ATGATGATGGTGGTG
1 ATGATGATGATGGTG
66660742 ATGATGATGATGGTG
1 ATGATGATGATGGTG
66660757 CCATTTGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (15 bp):
ATGATGATGATGGTG
Found at i:66663320 original size:30 final size:30
Alignment explanation
Indices: 66663274--66663457 Score: 314
Period size: 30 Copynumber: 6.1 Consensus size: 30
66663264 TTTTATTATG
*
66663274 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
66663305 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66663335 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66663365 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66663395 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
66663425 CTATTATTTAATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66663455 CCA
1 CCA
66663458 TAAATATGGA
Statistics
Matches: 147, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 140 0.95
31 7 0.05
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:66666684 original size:30 final size:30
Alignment explanation
Indices: 66666638--66666731 Score: 170
Period size: 30 Copynumber: 3.1 Consensus size: 30
66666628 TTTTATAATG
*
66666638 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
66666669 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66666699 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66666729 CCA
1 CCA
66666732 TAAATATGGA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 55 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.40
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:66666693 original size:15 final size:15
Alignment explanation
Indices: 66666648--66666724 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
66666638 CCAATATCTC
66666648 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
66666663 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
66666678 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
66666693 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
66666708 GATACCCATATCTTT
1 GATACCCATATCTTT
66666723 GA
1 GA
66666725 CTTTCCATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 30 0.65
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:66674233 original size:18 final size:18
Alignment explanation
Indices: 66674210--66674245 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
66674200 TAACATATAA
*
66674210 AAGTATGTAATACATACC
1 AAGTATATAATACATACC
66674228 AAGTATATAATACATACC
1 AAGTATATAATACATACC
66674246 TGACCAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:66674672 original size:39 final size:39
Alignment explanation
Indices: 66674378--66674650 Score: 442
Period size: 39 Copynumber: 7.0 Consensus size: 39
66674368 AGAAAGCATG
* * *
66674378 CGGGACTTTAAGCCCGGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTT
* *
66674418 CGGGACTTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACAAATGCCTT
66674458 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
66674497 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
66674536 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
66674575 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* *
66674614 CGGGACTTAGCCCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCT
66674651 GCGAACCTCA
Statistics
Matches: 227, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.02
39 204 0.90
40 19 0.08
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
Found at i:66675536 original size:24 final size:24
Alignment explanation
Indices: 66675504--66675549 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
66675494 GCTAACTCTG
66675504 AATGTCATCTTATCAACATTTAGC
1 AATGTCATCTTATCAACATTTAGC
66675528 AATGTCATCTTATCAACATTTA
1 AATGTCATCTTATCAACATTTA
66675550 CCACAATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (24 bp):
AATGTCATCTTATCAACATTTAGC
Found at i:66675737 original size:7 final size:7
Alignment explanation
Indices: 66675725--66675754 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
66675715 CACATAGCCA
66675725 AAACCCT
1 AAACCCT
66675732 AAACCCT
1 AAACCCT
66675739 AAACCCT
1 AAACCCT
66675746 AAACCCT
1 AAACCCT
66675753 AA
1 AA
66675755 CTCACATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:66679231 original size:46 final size:46
Alignment explanation
Indices: 66679179--66679318 Score: 192
Period size: 46 Copynumber: 3.0 Consensus size: 46
66679169 GCCATAGTGC
* * * *
66679179 CTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCTATGGTAT
1 CTTTCAACAATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTAT
**
66679225 CTTTCAACAATGGTCTTGTTCATTTCATATCAGGTTGCCATGGTAT
1 CTTTCAACAATGGTCTTACTCATTTCATATCAGGTTGCCATGGTAT
* *
66679271 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
1 CTTTCAACAATGGTCTTACTCATTTCATATCAGGTTGCCATGGTAT
66679317 CT
1 CT
66679319 CGCCATGGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 4 0.05
46 79 0.95
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (46 bp):
CTTTCAACAATGGTCTTACTCATTTCATATCAGGTTGCCATGGTAT
Found at i:66679325 original size:13 final size:13
Alignment explanation
Indices: 66679307--66679331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66679297 ATATCAGGTT
66679307 GCCATGGTATCTC
1 GCCATGGTATCTC
66679320 GCCATGGTATCT
1 GCCATGGTATCT
66679332 TTCAACCATG
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:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
GCCATGGTATCTC
Found at i:66682740 original size:48 final size:47
Alignment explanation
Indices: 66682617--66682749 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 47
66682607 TCTCATATCG
* **** * *
66682617 ATGCCATGCCCCAGACATGGTCTTACACAAAATCACATGTCGATGCAA
1 ATGCCATG-TCCAGACATGGTCTTACATGGGATCACATATCAATGCAA
* *
66682665 ATGCCATGTCCTAGACATGGTATTACATGGGATCACATATCAATGCCA
1 ATGCCATGTCC-AGACATGGTCTTACATGGGATCACATATCAATGCAA
*
66682713 ATTCCATGTGCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGT-CCAGACATGGTCTTACATGGGATCACA
66682750 CATAACTCTA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
47 2 0.03
48 68 0.94
49 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCAGACATGGTCTTACATGGGATCACATATCAATGCAA
Found at i:66685525 original size:21 final size:21
Alignment explanation
Indices: 66685476--66685525 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
66685466 AATGCGTAGG
*
66685476 CCGTGTGG-GGGTCAACACGC
1 CCGTGTGGAGGGGCAACACGC
*
66685496 CCATGTGGAGGGGCACACAC-C
1 CCGTGTGGAGGGGCA-ACACGC
66685517 CCGTGTGGA
1 CCGTGTGGA
66685526 AAGAGGCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.18, C:0.30, G:0.38, T:0.14
Consensus pattern (21 bp):
CCGTGTGGAGGGGCAACACGC
Found at i:66686251 original size:5 final size:6
Alignment explanation
Indices: 66686229--66686265 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
66686219 CAGAAGAAGA
66686229 AAAAAT AAAAAT AGAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT
66686266 CCAAACTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:66686251 original size:19 final size:18
Alignment explanation
Indices: 66686229--66686265 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
66686219 CAGAAGAAGA
66686229 AAAAATAAAAATAGAAAAT
1 AAAAATAAAAATA-AAAAT
66686248 AAAAATAAAAATAAAAAT
1 AAAAATAAAAATAAAAAT
66686266 CCAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAATAAAAAT
Found at i:66689581 original size:16 final size:16
Alignment explanation
Indices: 66689562--66689595 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
66689552 AATGAAAATA
66689562 TATTATT-TATTATTAT
1 TATTATTATATT-TTAT
66689578 TATTATTATATTTTAT
1 TATTATTATATTTTAT
66689594 TA
1 TA
66689596 ATAATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTATTATATTTTAT
Found at i:66690187 original size:7 final size:7
Alignment explanation
Indices: 66690175--66690199 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66690165 ATATGATATC
66690175 ATATCAT
1 ATATCAT
66690182 ATATCAT
1 ATATCAT
66690189 ATATCAT
1 ATATCAT
66690196 ATAT
1 ATAT
66690200 AATTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATCAT
Found at i:66690601 original size:31 final size:31
Alignment explanation
Indices: 66690543--66690601 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
66690533 GCCATATATG
*
66690543 TATTAATATTTTTAGTAATAGTGATATATTA
1 TATTAATATTTTTAGTAATAGTAATATATTA
* *
66690574 TATTATTA-TTTTATGTATTAGTAATATA
1 TATTAATATTTTTA-GTAATAGTAATATA
66690602 CTAATTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.54
Consensus pattern (31 bp):
TATTAATATTTTTAGTAATAGTAATATATTA
Found at i:66691444 original size:4 final size:4
Alignment explanation
Indices: 66691435--66691480 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
66691425 CTCTGTAACT
*
66691435 TTTA TTTA TTTA TTTA -TTA TTTCT TTTA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTT
66691481 CTTGCCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 6 0.16
4 28 0.76
5 3 0.08
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:66691460 original size:24 final size:24
Alignment explanation
Indices: 66691433--66691483 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
66691423 TGCTCTGTAA
66691433 CTTTTATTTATTTATTTATTATTT
1 CTTTTATTTATTTATTTATTATTT
66691457 CTTTTATTTATTTATTTATTATTT
1 CTTTTATTTATTTATTTATTATTT
66691481 CTT
1 CTT
66691484 GCCATAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (24 bp):
CTTTTATTTATTTATTTATTATTT
Found at i:66692174 original size:38 final size:38
Alignment explanation
Indices: 66692123--66692204 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
66692113 AAATTCAACT
66692123 GTACCAATCTGAGTTCAAGAAGAAAAAAGTACGTGAAA
1 GTACCAATCTGAGTTCAAGAAGAAAAAAGTACGTGAAA
66692161 GTACCAATCTGAGTTCAAGAAGAAAAAAGTACGTGAAA
1 GTACCAATCTGAGTTCAAGAAGAAAAAAGTACGTGAAA
66692199 GT-CCAA
1 GTACCAA
66692205 GACTTAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 40 0.91
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (38 bp):
GTACCAATCTGAGTTCAAGAAGAAAAAAGTACGTGAAA
Found at i:66692925 original size:10 final size:9
Alignment explanation
Indices: 66692909--66692988 Score: 87
Period size: 9 Copynumber: 8.9 Consensus size: 9
66692899 TTTTTTTAAG
66692909 TAATTTTTA
1 TAATTTTTA
66692918 TAATTTTT-
1 TAATTTTTA
*
66692926 TACATATTTA
1 TA-ATTTTTA
66692936 -AATTTTTA
1 TAATTTTTA
66692944 TAATTTTTAA
1 TAATTTTT-A
66692954 GTAATTTTTAA
1 -TAATTTTT-A
66692965 TAATTTTTA
1 TAATTTTTA
66692974 T-ATTTTTA
1 TAATTTTTA
66692982 -AATTTTT
1 TAATTTTT
66692989 TTATAGTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
8 21 0.33
9 23 0.37
10 9 0.14
11 10 0.16
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TAATTTTTA
Found at i:66692972 original size:46 final size:46
Alignment explanation
Indices: 66692901--66692988 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
66692891 TGTAGTGCTT
66692901 TTTTTAAGTAATTTTTATAATTTTTTACATATTTAAATTTTTATAA
1 TTTTTAAGTAATTTTTATAATTTTTTACATATTTAAATTTTTATAA
* *
66692947 TTTTTAAGTAATTTTTAATAA-TTTTTATATTTTTAAATTTTT
1 TTTTTAAGTAATTTTT-ATAATTTTTTACATATTTAAATTTTT
66692989 TTATAGTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 35 0.90
47 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (46 bp):
TTTTTAAGTAATTTTTATAATTTTTTACATATTTAAATTTTTATAA
Found at i:66692989 original size:9 final size:8
Alignment explanation
Indices: 66692910--66692988 Score: 59
Period size: 8 Copynumber: 8.9 Consensus size: 8
66692900 TTTTTTAAGT
66692910 AATTTTTA
1 AATTTTTA
66692918 TAATTTTTTA
1 -AA-TTTTTA
* *
66692928 CATATTTA
1 AATTTTTA
66692936 AATTTTTA
1 AATTTTTA
66692944 TAATTTTTAA
1 -AATTTTT-A
66692954 GTAATTTTTAA
1 --AATTTTT-A
66692965 TAATTTTTA
1 -AATTTTTA
*
66692974 TATTTTTA
1 AATTTTTA
66692982 AATTTTT
1 AATTTTT
66692989 TTATAGTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
8 24 0.40
9 11 0.18
10 15 0.25
11 10 0.17
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (8 bp):
AATTTTTA
Found at i:66693986 original size:30 final size:30
Alignment explanation
Indices: 66693940--66694033 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
66693930 TTTTATTATG
*
66693940 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
66693971 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
66694001 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66694031 CCA
1 CCA
66694034 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:66693995 original size:15 final size:15
Alignment explanation
Indices: 66693950--66694027 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
66693940 CCAATATCTC
66693950 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
66693965 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
66693980 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
66693995 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
66694010 GATACCCATATCTTT
1 GATACCCATATCTTT
66694025 GAT
1 GAT
66694028 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Done.