Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, 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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 30
Found at i:2286707 original size:39 final size:39
Alignment explanation
Indices: 2286663--2286757 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
2286653 TTTGCTTCAG
* *
2286663 TGTTTGGCTATTGTGGTTTGTTTTGGTTTGATGTTTTGA
1 TGTTTGGCTATTGTGGTTTGTTTCGGTTTGATGTTTCGA
2286702 TGTTTGGCTATTGTGGTTTGTTTCGGTTTGATGTTTCGA
1 TGTTTGGCTATTGTGGTTTGTTTCGGTTTGATGTTTCGA
*
2286741 TGTTTGGCTATCGTGGT
1 TGTTTGGCTATTGTGGT
2286758 CAATCATGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.07, C:0.06, G:0.32, T:0.55
Consensus pattern (39 bp):
TGTTTGGCTATTGTGGTTTGTTTCGGTTTGATGTTTCGA
Found at i:2287178 original size:3 final size:3
Alignment explanation
Indices: 2287170--2287211 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
2287160 AATTAACAAA
* *
2287170 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2287212 CAAAAGATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2287251 original size:34 final size:34
Alignment explanation
Indices: 2287213--2287284 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
2287203 AACAATAATC
*
2287213 AAAAGATATTC-AAACCATATATTATATAATTTTA
1 AAAAG-TATTCAAAACCATATATCATATAATTTTA
* * * *
2287247 AAAAGTTTTCAAAACTATATATCATATAGTTTTC
1 AAAAGTATTCAAAACCATATATCATATAATTTTA
2287281 AAAA
1 AAAA
2287285 TGTTTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAAGTATTCAAAACCATATATCATATAATTTTA
Found at i:2287310 original size:36 final size:37
Alignment explanation
Indices: 2287252--2287429 Score: 159
Period size: 36 Copynumber: 4.8 Consensus size: 37
2287242 TTTTAAAAAG
*
2287252 TTTTCAAAACTATAT-ATCATATA-GTTTTCAAAATGT
1 TTTTAAAAACTATATAAT-ATATATGTTTTCAAAATGT
** *
2287288 TTTTTTAAATTATATAATATATA--TTTTCAAAATGT
1 TTTTAAAAACTATATAATATATATGTTTTCAAAATGT
* * *
2287323 TTTAAAAAAACTATATATTATATATTTTTTCAAAATG-
1 TTT-TAAAAACTATATAATATATATGTTTTCAAAATGT
* *
2287360 TTTTAAAAACTTTATATTATATATATGTTTTCATAAAGGTTT
1 TTTTAAAAAC--TATATAATATATATGTTTTCA-AAA--TGT
* *
2287402 TTTTAAGAACTATATAATATACATGTTT
1 TTTTAAAAACTATATAATATATATGTTT
2287430 GTTGAAAACA
Statistics
Matches: 116, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
35 15 0.13
36 38 0.33
37 5 0.04
38 29 0.25
39 3 0.03
40 16 0.14
41 1 0.01
42 9 0.08
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (37 bp):
TTTTAAAAACTATATAATATATATGTTTTCAAAATGT
Found at i:2287353 original size:38 final size:36
Alignment explanation
Indices: 2287224--2287385 Score: 172
Period size: 34 Copynumber: 4.6 Consensus size: 36
2287214 AAAGATATTC
* * *
2287224 AAACCATATATTATATA-ATTTT-AAAAAGTTTTCA
1 AAACTATATATTATATATATTTTCAAAATGTTTTAA
* * **
2287258 AAACTATATATCATATA-GTTTTCAAAATGTTTTTTT
1 AAACTATATATTATATATATTTTCAAAATG-TTTTAA
*
2287294 AAA-T-TATATAATATATATTTTCAAAATGTTTTAAAA
1 AAACTATATATTATATATATTTTCAAAATGTTTT--AA
*
2287330 AAACTATATATTATATATTTTTTCAAAATGTTTTAA
1 AAACTATATATTATATATATTTTCAAAATGTTTTAA
*
2287366 AAACTTTATATTATATATAT
1 AAACTATATATTATATATAT
2287386 GTTTTCATAA
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
34 33 0.31
35 17 0.16
36 30 0.28
37 1 0.01
38 26 0.24
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (36 bp):
AAACTATATATTATATATATTTTCAAAATGTTTTAA
Found at i:2287391 original size:38 final size:37
Alignment explanation
Indices: 2287224--2287402 Score: 160
Period size: 36 Copynumber: 4.9 Consensus size: 37
2287214 AAAGATATTC
* * *
2287224 AAACCATATATTATATA-A-TTTT-AAAAAGTTTTCA
1 AAACTATATATTATATATATTTTTCAAAATGTTTTAA
* * **
2287258 AAACTATATA-T-CATATAGTTTTCAAAATGTTTTTTT
1 AAACTATATATTATATATATTTTTCAAAATG-TTTTAA
*
2287294 AAA-T-TATATAATATATA-TTTTCAAAATGTTTTAAAA
1 AAACTATATATTATATATATTTTTCAAAATGTTTT--AA
2287330 AAACTATATATTATATAT-TTTTTCAAAATGTTTTAA
1 AAACTATATATTATATATATTTTTCAAAATGTTTTAA
* *
2287366 AAACTTTATATTATATATATGTTTTCATAAAGGTTTT
1 AAACTATATATTATATATAT-TTTTCA-AAATGTTTT
2287403 TTTAAGAACT
Statistics
Matches: 119, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
32 3 0.03
33 2 0.02
34 21 0.18
35 17 0.14
36 34 0.29
37 2 0.02
38 32 0.27
39 8 0.07
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (37 bp):
AAACTATATATTATATATATTTTTCAAAATGTTTTAA
Found at i:2287422 original size:38 final size:36
Alignment explanation
Indices: 2287252--2287422 Score: 143
Period size: 38 Copynumber: 4.6 Consensus size: 36
2287242 TTTTAAAAAG
*
2287252 TTTTCAAAACTATAT-ATCATATAGTTTTCAAAATGTT
1 TTTTAAAAACTATATAAT-ATAT-GTTTTCAAAATGTT
* * *
2287289 TTTT-TAAATTATATAATATATATTTTCAAAATGTT
1 TTTTAAAAACTATATAATATATGTTTTCAAAATGTT
** *
2287324 TTAAAAAAACTATATATTATATATTTTTTCAAAATG--
1 TTTTAAAAACTATATA--ATATATGTTTTCAAAATGTT
*
2287360 TTTTAAAAACTTTATATTATATATATGTTTTCATAAAGGTTT
1 TTTTAAAAAC--TATA-TA-ATATATGTTTTCA-AAATG-TT
*
2287402 TTTTAAGAACTATATAATATA
1 TTTTAAAAACTATATAATATA
2287423 CATGTTTGTT
Statistics
Matches: 110, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
35 15 0.14
36 29 0.26
37 6 0.05
38 39 0.35
39 8 0.07
40 4 0.04
42 9 0.08
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (36 bp):
TTTTAAAAACTATATAATATATGTTTTCAAAATGTT
Found at i:2293572 original size:19 final size:21
Alignment explanation
Indices: 2293548--2293630 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 21
2293538 TTTTGGTGCA
2293548 GAGGGAATCGA-TCCCCC-AT
1 GAGGGAATCGATTCCCCCTAT
* *
2293567 GAGGGAATTGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCTAT
*
2293588 GAAGGGGAATCGATTCCCCCCA-
1 G-A-GGGAATCGATTCCCCCTAT
*
2293610 CAGGGGAATCGATATCCCCCT
1 GA-GGGAATCGAT-TCCCCCT
2293631 GGGGTTCTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
19 10 0.19
20 6 0.12
21 14 0.27
22 7 0.13
23 15 0.29
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.20
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCTAT
Found at i:2295619 original size:17 final size:16
Alignment explanation
Indices: 2295568--2295620 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
2295558 CATTTTTAAT
* *
2295568 ATTTTGGAATGTTTGA
1 ATTTTGGATTGTTTGG
*
2295584 ATTTGTGGATTGATT-G
1 ATTT-TGGATTGTTTGG
2295600 ATTTTGGATTTGTTTGG
1 ATTTTGGA-TTGTTTGG
2295617 ATTT
1 ATTT
2295621 ATGAATGGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.13
16 13 0.43
17 13 0.43
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (16 bp):
ATTTTGGATTGTTTGG
Found at i:2295946 original size:13 final size:14
Alignment explanation
Indices: 2295928--2295957 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2295918 TAAGGGGGAG
2295928 TAATTTCAAAA-CT
1 TAATTTCAAAATCT
2295941 TAATTTCAAAATCT
1 TAATTTCAAAATCT
2295955 TAA
1 TAA
2295958 AGTTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATTTCAAAATCT
Found at i:2297104 original size:12 final size:12
Alignment explanation
Indices: 2297087--2297112 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2297077 TATAATATAT
2297087 ATGTTTTCAAAA
1 ATGTTTTCAAAA
2297099 ATGTTTTCAAAA
1 ATGTTTTCAAAA
2297111 AT
1 AT
2297113 TATATATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:2297111 original size:38 final size:39
Alignment explanation
Indices: 2297049--2297173 Score: 128
Period size: 45 Copynumber: 3.1 Consensus size: 39
2297039 TAACTCAACA
*
2297049 ATGTTTTCAAAAAATATTTT-AAAAACTATATA-ATATAT
1 ATGTTTTC-AAAAATGTTTTCAAAAACTATATATATATAT
*
2297087 ATGTTTTCAAAAATGTTTTCAAAAATTATATATGATATATAT
1 ATGTTTTCAAAAATGTTTTCAAAAA--CTATAT-ATATATAT
* *
2297129 ATATATATATTAAAAATGTTTTCAAAAACTATAATATATATAT
1 ATGT-T-T-TCAAAAATGTTTTCAAAAACTAT-ATATATATAT
2297172 AT
1 AT
2297174 ATATATATAT
Statistics
Matches: 73, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
37 10 0.14
38 13 0.18
40 5 0.07
41 1 0.01
42 9 0.12
43 14 0.19
44 3 0.04
45 18 0.25
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (39 bp):
ATGTTTTCAAAAATGTTTTCAAAAACTATATATATATAT
Found at i:2297146 original size:45 final size:44
Alignment explanation
Indices: 2297075--2297221 Score: 163
Period size: 45 Copynumber: 3.2 Consensus size: 44
2297065 TTTTAAAAAC
* *
2297075 TATATA-ATATATATGTTTTCAAAAATGTTTTCAAAAATTATATA
1 TATATATATATATATATATT-AAAAATGTTTTCAAAAATTATATA
2297119 TGATATATATATATATATATTAAAAATGTTTTCAAAAACTATAATATA
1 T-ATATATATATATATATATTAAAAATGTTTTCAAAAA-T-T-ATATA
*
2297167 TATATATATATATATATATATATTCGAAATGTTTTCAAAAAATTATATA
1 TATATATATATATATATAT-TA---AAAATGTTTTC-AAAAATTATATA
2297216 T-TATAT
1 TATATAT
2297222 TTTTAAAAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 16
0.83 0.03 0.15
Matches are distributed among these distances:
44 1 0.01
45 22 0.24
46 12 0.13
47 19 0.21
48 13 0.14
49 6 0.07
50 1 0.01
51 11 0.12
52 5 0.06
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (44 bp):
TATATATATATATATATATTAAAAATGTTTTCAAAAATTATATA
Found at i:2297169 original size:2 final size:2
Alignment explanation
Indices: 2297158--2297189 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2297148 TTTCAAAAAC
2297158 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2297190 TCGAAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2298372 original size:3 final size:3
Alignment explanation
Indices: 2298333--2298362 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2298323 ACTAAATTAA
2298333 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2298363 GAAATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2298908 original size:25 final size:28
Alignment explanation
Indices: 2298877--2298934 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
2298867 TGTTTTTTAA
*
2298877 TATTTTTTAT-TATAATAT-TATAAATT
1 TATTTTGTATGTATAATATATATAAATT
2298903 TATTTTGTATGGTATAATATAATATAAATT
1 TATTTTGTAT-GTATAATAT-ATATAAATT
2298933 TA
1 TA
2298935 GAAAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 9 0.33
28 8 0.30
30 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (28 bp):
TATTTTGTATGTATAATATATATAAATT
Found at i:2302283 original size:50 final size:48
Alignment explanation
Indices: 2302219--2302314 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 48
2302209 ATTAAATTAA
*
2302219 TATTAAATACATAAATAATATTATTCATGATAATTTATTA-ATATTATTTC
1 TATTAAATACATAAATAATATT-TT--TAATAATTTATTATATATTATTTC
2302269 TATTAAATTA-ATAAATAATATTTTTAATAATTTATTATATATTATT
1 TATTAAA-TACATAAATAATATTTTTAATAATTTATTATATATTATT
2302315 AAAATAGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 12 0.28
48 8 0.19
49 2 0.05
50 19 0.44
51 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (48 bp):
TATTAAATACATAAATAATATTTTTAATAATTTATTATATATTATTTC
Found at i:2302285 original size:24 final size:24
Alignment explanation
Indices: 2302258--2302314 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
2302248 ATAATTTATT
*
2302258 AATATTATTTCTATTAAATTAATA
1 AATATTATTTCTAATAAATTAATA
* * * *
2302282 AATAATATTTTTAATAATTTATTA
1 AATATTATTTCTAATAAATTAATA
*
2302306 TATATTATT
1 AATATTATT
2302315 AAAATAGAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
AATATTATTTCTAATAAATTAATA
Found at i:2303908 original size:32 final size:32
Alignment explanation
Indices: 2303871--2303939 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
2303861 AAAGTTTGAT
* *
2303871 AAATTTAGTGA-TCATTGTATAACAATTAGATA
1 AAATTTAATGATTAATT-TATAACAATTAGATA
*
2303903 AAATTTAATGATTAATTTATAACAATTCGATA
1 AAATTTAATGATTAATTTATAACAATTAGATA
2303935 AAATT
1 AAATT
2303940 AATAACCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 29 0.88
33 4 0.12
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (32 bp):
AAATTTAATGATTAATTTATAACAATTAGATA
Found at i:2305242 original size:34 final size:34
Alignment explanation
Indices: 2305204--2305274 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
2305194 TTTTTTTGCT
*
2305204 CACCAAATTCAAAAAGAGATAAGTTTTGATTATC
1 CACCAAATTCAAAAAGAGACAAGTTTTGATTATC
2305238 CACCAAATTCAAAAAGAGACAAGTTTTGATTATC
1 CACCAAATTCAAAAAGAGACAAGTTTTGATTATC
2305272 CAC
1 CAC
2305275 GTCATTGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (34 bp):
CACCAAATTCAAAAAGAGACAAGTTTTGATTATC
Found at i:2308518 original size:37 final size:37
Alignment explanation
Indices: 2308424--2308528 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
2308414 CATTTTCGTC
*
2308424 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAACT
* * * *
2308461 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGCT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAACT
* * * *
2308498 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2308529 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAACT
Found at i:2308924 original size:18 final size:17
Alignment explanation
Indices: 2308885--2308927 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2308875 ATTATATGGA
2308885 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
2308901 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
2308919 TATTATTAT
1 TATTATTAT
2308928 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:2309015 original size:21 final size:21
Alignment explanation
Indices: 2308964--2309015 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
2308954 TTTCATTTAT
* *
2308964 TTTTAC-TATATTTTTTATTA
1 TTTTACTTATATTCTTTAATA
*
2308984 TTATA-TATATATTCTTTAATA
1 TTTTACT-TATATTCTTTAATA
2309005 TTTTACTTATA
1 TTTTACTTATA
2309016 AGTCTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTACTTATATTCTTTAATA
Found at i:2309424 original size:2 final size:2
Alignment explanation
Indices: 2309417--2309456 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2309407 TAATACTTTG
2309417 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2309457 TTTTTCCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2309562 original size:25 final size:25
Alignment explanation
Indices: 2309517--2309564 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2309507 TTTTATCTTA
*
2309517 CTTATTTATTTATTTTCCCTTGTAT
1 CTTATTTATTTATTTTACCTTGTAT
*
2309542 CTTATTTGTTT-TCTTTACCTTGT
1 CTTATTTATTTAT-TTTACCTTGT
2309565 TTATCTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.12, C:0.17, G:0.06, T:0.65
Consensus pattern (25 bp):
CTTATTTATTTATTTTACCTTGTAT
Found at i:2315338 original size:183 final size:183
Alignment explanation
Indices: 2315030--2315566 Score: 970
Period size: 183 Copynumber: 2.9 Consensus size: 183
2315020 ATTAAATCCG
2315030 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
2315095 ATAGATTATGTTCAAACTATGACACTGCTCGGATACTTGGCAATTCAGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
2315160 TTGTTAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTTAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTA
2315213 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
2315278 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
2315343 TT-TTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTA
131 TTGTT-AGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTA
*
2315396 TAAAGCTGAGCTATTCCACTAAGGTAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
2315461 ATAGATTATATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
2315525 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTTAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
2315567 TAAACCTGAT
Statistics
Matches: 342, Mismatches: 9, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
182 3 0.01
183 338 0.99
184 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTTAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTA
Found at i:2316749 original size:36 final size:35
Alignment explanation
Indices: 2316707--2316818 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 35
2316697 CAGATGATTA
2316707 TCTCACTCAAATTTGTTTTTCTTAAAACATA-ATTTG
1 TCTCACTCAAA-TTGTTTTTCTTAAAACA-AGATTTG
* * * ** * *
2316743 TCTCACTTGAGACTGTTTTTCTCGAAAGAAGATTTA
1 TCTCAC-TCAAATTGTTTTTCTTAAAACAAGATTTG
*
2316779 TTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTG
1 TCTCACTCAA-ATTGTTTTTCTTAAAACAAGATTTG
2316815 TCTC
1 TCTC
2316819 GCTTGAGACC
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
35 3 0.05
36 51 0.89
37 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.44
Consensus pattern (35 bp):
TCTCACTCAAATTGTTTTTCTTAAAACAAGATTTG
Found at i:2316797 original size:72 final size:75
Alignment explanation
Indices: 2316704--2316878 Score: 227
Period size: 72 Copynumber: 2.4 Consensus size: 75
2316694 ATGCAGATGA
* * *
2316704 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-ATTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
2316766 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
2316776 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
2316841 AAGAAGGCAT
66 AAGAAGGCAT
**
2316851 TTCATTTCACTCAAGGCTGTTTTT-TTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
2316879 GAAGATTTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
71 1 0.01
72 51 0.56
73 11 0.12
74 1 0.01
75 8 0.09
76 19 0.21
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:2316833 original size:36 final size:36
Alignment explanation
Indices: 2316720--2316833 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 36
2316710 CACTCAAATT
2316720 TGTTTTTCTTAAAACATA-ATTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGAC
** * * * ** *
2316756 TGTTTTTCTCGAAAGAAGATTTATTTCACTCAAGAT
1 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
*
2316792 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
*
2316828 CGTTTT
1 TGTTTT
2316834 CACTCGAAAG
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
35 1 0.02
36 58 0.98
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (36 bp):
TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
Found at i:2316913 original size:73 final size:72
Alignment explanation
Indices: 2316720--2316915 Score: 186
Period size: 72 Copynumber: 2.7 Consensus size: 72
2316710 CACTCAAATT
* * * *
2316720 TGTTTTTCTTAAAACATA-ATTTGTCTCACTTGAGACTGTTTT-TCTCGAAAGAAGATTTATTTC
1 TGTTTTTCTT-AAACA-AGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTC
*
2316783 ACTCAAGAT
64 ACTCAAGAC
* *
2316792 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TGTTTTTCTT-AAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAA-G-ATTT-ATT
*
2316857 TCACTCAAGGC
62 TCACTCAAGAC
* * * *
2316868 TGTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGATAG-TTTCCCTCGAAA
1 TGTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGACAGTTTTCACTCGAAA
2316916 CAGAAAATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
71 1 0.01
72 38 0.36
73 27 0.25
74 16 0.15
75 6 0.06
76 19 0.18
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (72 bp):
TGTTTTTCTTAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTCAC
TCAAGAC
Found at i:2317127 original size:102 final size:101
Alignment explanation
Indices: 2316952--2317264 Score: 443
Period size: 102 Copynumber: 3.1 Consensus size: 101
2316942 GTTTCTCTTA
* *
2316952 AAAACATTTCCCTTGAAATTA-ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATTT
1 AAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCT----ACAGAAAATTT
*
2317016 TGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATTG
62 TGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
*
2317056 AAAACATTTCCCTTGAAATGATTTTTTTTTCTCTCTTGAGATAGTTTCCCTACAGAAAATTTTGT
1 AAAACATTTCCCTTGAAATGA-TATTTTTTCTCTCTTGAGATAGTTTCCCTACAGAAAATTTTGT
2317121 CTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
65 CTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
* * **
2317158 AAAACATTTCCCTTGAAATGA-ATTTTATCTCGCTTGAGATAGTTTCCCTTGA-AACGAATTTTG
1 AAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTACAGAA--AATTTTG
** *
2317221 TCTCCCTTGAGACAGTTTCTCTCCAAACATAAACTTTG
64 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
2317259 AAAACA
1 AAAACA
2317265 ATTTAACGAA
Statistics
Matches: 193, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
99 2 0.01
100 26 0.13
101 48 0.25
102 71 0.37
104 20 0.10
106 26 0.13
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (101 bp):
AAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTACAGAAAATTTTGTC
TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
Found at i:2317211 original size:36 final size:36
Alignment explanation
Indices: 2317164--2317239 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
2317154 ATTGAAAACA
* * *
2317164 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
2317200 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
2317236 TTTC
1 TTTC
2317240 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:2317643 original size:105 final size:105
Alignment explanation
Indices: 2317439--2318069 Score: 975
Period size: 105 Copynumber: 6.0 Consensus size: 105
2317429 ATATCGTGAC
* * * ** *
2317439 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAAGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
*
2317504 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
2317545 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
2317610 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2317650 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCACA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
2317715 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
2317755 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
2317820 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
2317860 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
2317921 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
2317960 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
** * * *
2318025 GGTTTCAGAGCTAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
2318066 ACTC
1 ACTC
2318070 AGAACAATGC
Statistics
Matches: 490, Mismatches: 29, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
100 82 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 4 0.01
105 310 0.63
106 84 0.17
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:2318637 original size:37 final size:37
Alignment explanation
Indices: 2318587--2318725 Score: 206
Period size: 37 Copynumber: 3.8 Consensus size: 37
2318577 TTTCGTCCTA
2318587 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTTTG
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTTTG
2318624 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTTTG
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTTTG
* * * *
2318661 CTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTA
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTTTG
* * * *
2318698 CTAAGATTTAAATTCCTAAAGATAGGAT
1 CTAGGATTCAAACTCCTAAAAATAGGAT
2318726 CCACAAGCAC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAAAATTTTG
Found at i:2319108 original size:17 final size:18
Alignment explanation
Indices: 2319082--2319121 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2319072 ATTATATGGA
2319082 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
2319098 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
2319116 TATTAT
1 TATTAT
2319122 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:2319156 original size:40 final size:40
Alignment explanation
Indices: 2319102--2319197 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
2319092 ATTTATTTTT
*
2319102 ATTA-TTCATGTTATTATTA-TATGTATATATATATATATAA
1 ATTATTTCAT-TTATTATTACTATAT-TATATATATATATAA
* *
2319142 ATTATTTCATTTATTTTTACTATATTATATATATATATAT
1 ATTATTTCATTTATTATTACTATATTATATATATATATAA
*
2319182 A-TATTTC-TTTAATATT
1 ATTATTTCATTTATTATT
2319198 TACTTATAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
38 7 0.14
39 6 0.12
40 27 0.55
41 9 0.18
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (40 bp):
ATTATTTCATTTATTATTACTATATTATATATATATATAA
Found at i:2319416 original size:33 final size:32
Alignment explanation
Indices: 2319368--2319429 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
2319358 ATATATTTAT
* *
2319368 ATTATTTTTTATTATT-TTCGTTTTTTTTATTC
1 ATTATTTTATATTATTATT-ATTTTTTTTATTC
2319400 ATTATTATTATATTATTATTATTTTTTTTA
1 ATTATT-TTATATTATTATTATTTTTTTTA
2319430 AAAACCTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 6 0.23
33 18 0.69
34 2 0.08
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (32 bp):
ATTATTTTATATTATTATTATTTTTTTTATTC
Found at i:2319620 original size:2 final size:2
Alignment explanation
Indices: 2319613--2319644 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2319603 TAATACTTTG
2319613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2319645 TTTCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2320465 original size:17 final size:18
Alignment explanation
Indices: 2320440--2320473 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2320430 CAAATAAATC
2320440 ATTC-ATTTTTTATTAAA
1 ATTCTATTTTTTATTAAA
*
2320457 ATTCTTTTTTTTATTAA
1 ATTCTATTTTTTATTAA
2320474 TCAGATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTCTATTTTTTATTAAA
Found at i:2320762 original size:16 final size:17
Alignment explanation
Indices: 2320729--2320762 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2320719 ATTAATCTAT
*
2320729 TCTATTTTTGTCACTTA
1 TCTATTTTTGTCAATTA
2320746 TCTATTTTTGT-AATTA
1 TCTATTTTTGTCAATTA
2320762 T
1 T
2320763 ATTTTGGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (17 bp):
TCTATTTTTGTCAATTA
Found at i:2331972 original size:18 final size:18
Alignment explanation
Indices: 2331949--2331983 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2331939 CAAAATTAAT
*
2331949 AATATTTTATATATTTTA
1 AATATTTCATATATTTTA
*
2331967 AATATTTCATTTATTTT
1 AATATTTCATATATTTT
2331984 TGTTTTAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTCATATATTTTA
Found at i:2332074 original size:9 final size:9
Alignment explanation
Indices: 2332060--2332119 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
2332050 AAAAATATAT
2332060 TATTTAAAA
1 TATTTAAAA
2332069 TATTTAAAA
1 TATTTAAAA
* *
2332078 T-GTAAAAA
1 TATTTAAAA
2332086 TATTTTAAATA
1 TA-TTTAAA-A
*
2332097 TTTTTAAAA
1 TATTTAAAA
2332106 TATATATAAAA
1 TAT-T-TAAAA
2332117 TAT
1 TAT
2332120 ATTTTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 11 0.28
11 10 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (9 bp):
TATTTAAAA
Found at i:2336482 original size:17 final size:17
Alignment explanation
Indices: 2336457--2336498 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
2336447 AAAAAATTTT
*
2336457 GTTGCTCGACTCAACTC
1 GTTGTTCGACTCAACTC
2336474 GTTGTTCGACTCAACTC
1 GTTGTTCGACTCAACTC
2336491 GTTGTTCG
1 GTTGTTCG
2336499 TTAAGGTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (17 bp):
GTTGTTCGACTCAACTC
Found at i:2337211 original size:17 final size:17
Alignment explanation
Indices: 2337189--2337223 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2337179 AAAAGAACAA
2337189 GGATCTATCAAATATTT
1 GGATCTATCAAATATTT
*
2337206 GGATCTGTCAAATATTT
1 GGATCTATCAAATATTT
2337223 G
1 G
2337224 ATTAATATTT
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:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (17 bp):
GGATCTATCAAATATTT
Found at i:2340274 original size:88 final size:87
Alignment explanation
Indices: 2340173--2340462 Score: 411
Period size: 88 Copynumber: 3.3 Consensus size: 87
2340163 AATCTAATTT
* * * * * *
2340173 CACTACTCTTTCGTGAAGATCAGACTCACA-ATTGGATTACTTCACTACTCTTCCATGGAGGTTT
1 CACTACTCTTTCGTGGAGATCA-AATCA-AGGTTGGATTGCTTCACTACTCTTCCGTGAAGGTTT
*
2340237 CATACTTTGCTAAAAAATTTGTTC
64 CATACTTTGCTAAAAAATTCGTTC
*
2340261 TACTACTCTTTCGTGGAGATCAAATCTAAGGTTGGATTGCTTCACTACTCTTCCGTGAAGGTTTC
1 CACTACTCTTTCGTGGAGATCAAATC-AAGGTTGGATTGCTTCACTACTCTTCCGTGAAGGTTTC
2340326 ATACTTTGCTAAAAAATTCGTTC
65 ATACTTTGCTAAAAAATTCGTTC
* *
2340349 CACTACTCTTCCGTGGAGATCAAATTTAAGGTTGGATTGCTTCACTACTCTTCCGTGAAGGTTTC
1 CACTACTCTTTCGTGGAGATCAAA-TCAAGGTTGGATTGCTTCACTACTCTTCCGTGAAGGTTTC
* *
2340414 ATACTTTGCTGAAAAATCCGTTC
65 ATACTTTGCTAAAAAATTCGTTC
*
2340437 CACTACTCTTTCCATGGAGATCAAAT
1 CACTACTCTTT-CGTGGAGATCAAAT
2340463 TTTGATCTTG
Statistics
Matches: 183, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
87 4 0.02
88 166 0.91
89 13 0.07
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (87 bp):
CACTACTCTTTCGTGGAGATCAAATCAAGGTTGGATTGCTTCACTACTCTTCCGTGAAGGTTTCA
TACTTTGCTAAAAAATTCGTTC
Found at i:2340405 original size:42 final size:42
Alignment explanation
Indices: 2340262--2340405 Score: 123
Period size: 42 Copynumber: 3.3 Consensus size: 42
2340252 AATTTGTTCT
* *
2340262 ACTACTCTTTCGTGGAGATCAAATCTAAGGTTGGATTGCTTC
1 ACTACTCTTCCGTGGAGATCAAATTTAAGGTTGGATTGCTTC
* * * * ***
2340304 ACTACTCTTCCGTGAAGGTTTCATACTTT--GCTAAAAAATT-CGTTCC
1 ACTACTCTTCCGTGGA-G-ATCA-AATTTAAGGT--TGGATTGC-TT-C
2340350 ACTACTCTTCCGTGGAGATCAAATTTAAGGTTGGATTGCTTC
1 ACTACTCTTCCGTGGAGATCAAATTTAAGGTTGGATTGCTTC
2340392 ACTACTCTTCCGTG
1 ACTACTCTTCCGTG
2340406 AAGGTTTCAT
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
42 29 0.38
43 12 0.16
44 8 0.11
45 11 0.14
46 16 0.21
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (42 bp):
ACTACTCTTCCGTGGAGATCAAATTTAAGGTTGGATTGCTTC
Found at i:2346379 original size:33 final size:35
Alignment explanation
Indices: 2346342--2346408 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 35
2346332 ATATATACAT
*
2346342 CCTAACCTCATGATTTCTAGTTC-CATGC-TTTAA
1 CCTAACCGCATGATTTCTAGTTCGCATGCATTTAA
2346375 CCTAACCGCATGATTTCTAGTTCGCATGCATTTA
1 CCTAACCGCATGATTTCTAGTTCGCATGCATTTA
2346409 TTCAGAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 22 0.71
34 5 0.16
35 4 0.13
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (35 bp):
CCTAACCGCATGATTTCTAGTTCGCATGCATTTAA
Found at i:2351125 original size:32 final size:32
Alignment explanation
Indices: 2351021--2351136 Score: 112
Period size: 32 Copynumber: 3.6 Consensus size: 32
2351011 ATAATACATG
2351021 AAAAATTACTATACA-ATATGACATCTTAACAC
1 AAAAATTA-TATACATATATGACATCTTAACAC
* * * ***
2351053 AAAAATTATATATATATAT-ATAGTTTATAATTT
1 AAAAATTATATACATATATGACA-TCT-TAACAC
*
2351086 ATAAATTAGTATACA-ATATGACATCTTAACAC
1 AAAAATTA-TATACATATATGACATCTTAACAC
2351118 AAAAATTATATACATATAT
1 AAAAATTATATACATATAT
2351137 TTTATAATTA
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
31 13 0.20
32 28 0.44
33 16 0.25
34 7 0.11
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.36
Consensus pattern (32 bp):
AAAAATTATATACATATATGACATCTTAACAC
Found at i:2351209 original size:6 final size:6
Alignment explanation
Indices: 2351198--2351238 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
2351188 TGACTTAAAT
2351198 ACAAAA ACAAAA ACAAAA ACAAAA A-AAAA ACAAAA ACAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
2351239 GCATAACCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:2351221 original size:17 final size:17
Alignment explanation
Indices: 2351198--2351238 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
2351188 TGACTTAAAT
2351198 ACAAAAACAAAAACAAAA
1 ACAAAAA-AAAAACAAAA
2351216 ACAAAAAAAAAACAAAA
1 ACAAAAAAAAAACAAAA
2351233 ACAAAA
1 ACAAAA
2351239 GCATAACCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAACAAAA
Found at i:2353874 original size:55 final size:54
Alignment explanation
Indices: 2353456--2354056 Score: 552
Period size: 55 Copynumber: 11.0 Consensus size: 54
2353446 AAAATATTCG
* * * * **
2353456 GAAAACAGGTACGCTCCCTATTCTTTCAGGGAGTATAGGACTTGAACAAATATTGG
1 GAAAAC-GGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAAC-AATCTTCT
* * * *
2353512 GAAAACAGG-TCTGCTCCATATTTTTTCAGGGAGTATAGGACTTGAACAATCTTC-
1 GAAAAC-GGTTC-GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* ** * *
2353566 GAAAAATGGGTTCGCTCCCTATTCTTTCAGAAAGTTATAGAACTCGAACAATCATAT
1 G-AAAA-CGGTTCGCTCCCTATTCTTTCAGGGAG-TATAGAACTCGAACAATCTTCT
* *
2353623 GAATATA-AGTACGCTCCCTA-TCTTTCAGGGAGTATAGAACTCGAACAATCATT-T
1 GAA-A-ACGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATC-TTCT
* * *
2353677 GAAAACGAGTTCGCTCCTTATTTTTTAAGGGAGTATAGAACTCGAACAATCTT-T
1 GAAAACG-GTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* * * * *
2353731 GGCAAACAGTCCGCT-CCTTTTCTTTTAGGGAGTATAGAACTCGAACAATCTTCT
1 -GAAAACGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* ** * * *
2353785 GAAAAGGGACCGCTCCCTATTCTTTCAAGGAGTATAAAACTCAAACAATCTTCT
1 GAAAACGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* * *
2353839 GAAAACGGATTTC-CTCCCTATTCTTTCAGGGAGTATAAAACTCGAACAATTTTCG
1 GAAAACGG--TTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* * * *
2353894 GCAAACTGGTCCACTCCCTATTCTTTCATGGAGTATAGAACTCGAACAATCTTCT
1 GAAAAC-GGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* * * * * *
2353949 GAAAATAGGTTCACTCACTATTCTTTCAAGGAGTATAGAACTCGAAAAATCTTCA
1 GAAAA-CGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
* * * * *
2354004 AAAAACGTGTCCGCTCCCTATTATTTCAGAGAGTATAGGACTCGAACAATCTT
1 GAAAACG-GTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTT
2354057 AATAAATCGA
Statistics
Matches: 454, Mismatches: 70, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.00
53 44 0.10
54 87 0.19
55 242 0.53
56 77 0.17
57 2 0.00
58 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
GAAAACGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT
Found at i:2364291 original size:20 final size:22
Alignment explanation
Indices: 2364268--2364347 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 22
2364258 TTGGTGCAGA
*
2364268 GGGAATCGA-TCCCCCCATGA-
1 GGGAACCGATTCCCCCCATGAG
**
2364288 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATG-AG
*
2364311 GGGAACCGATTCCCCCCA-CAG
1 GGGAACCGATTCCCCCCATGAG
* *
2364332 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
2364348 ATGGGGTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.16
21 24 0.49
22 1 0.02
23 16 0.33
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCATGAG
Found at i:2369519 original size:28 final size:28
Alignment explanation
Indices: 2369482--2369562 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
2369472 AAACATTTGC
2369482 CCTTTATTGTTATTTATAAACAACTTTAT
1 CCTTT-TTGTTATTTATAAACAACTTTAT
* * *
2369511 CCTTTTTGTAATTTAGAAACAA-ATTAT
1 CCTTTTTGTTATTTATAAACAACTTTAT
*
2369538 CCTTTTTTCTTAATTTATAAA-AACT
1 CC-TTTTTGTT-ATTTATAAACAACT
2369563 GTCCTAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
27 6 0.14
28 23 0.55
29 13 0.31
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (28 bp):
CCTTTTTGTTATTTATAAACAACTTTAT
Found at i:2375444 original size:18 final size:19
Alignment explanation
Indices: 2375406--2375444 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2375396 GGGTCATGAT
* *
2375406 AAATTTTCAAACACAAGTA
1 AAATTTTCAAACAAAAATA
2375425 AAATTTT-AAACAAAAATA
1 AAATTTTCAAACAAAAATA
2375443 AA
1 AA
2375445 GTAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (19 bp):
AAATTTTCAAACAAAAATA
Found at i:2376078 original size:16 final size:17
Alignment explanation
Indices: 2376047--2376079 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2376037 TAATCAAATA
*
2376047 TTTAAATTTGATATTTT
1 TTTAAATTTAATATTTT
2376064 TTTAAA-TTAATATTTT
1 TTTAAATTTAATATTTT
2376080 CAAAATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTAAATTTAATATTTT
Found at i:2386273 original size:2 final size:2
Alignment explanation
Indices: 2386268--2386327 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
2386258 GCCAAAAACA
2386268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2386310 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2386328 CAGAGATAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2391365 original size:81 final size:79
Alignment explanation
Indices: 2391174--2391441 Score: 401
Period size: 80 Copynumber: 3.3 Consensus size: 79
2391164 TATAAGTCGT
*
2391174 TACGAACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTCGTTTCCTTTGCTGTG
1 TACG-ACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTG
*
2391239 TGCATAAGGTAACCT
65 TGCATAAGGTAACCC
2391254 TACAGACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTTGCTGT
1 TAC-GACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTTCC-TTTGCTGT
2391319 GTGCATAAGGTAACCC
64 GTGCATAAGGTAACCC
* * *
2391335 TACGTACCTAAGGATATATTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTCCCTTAGCTGTG
1 TACG-ACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTG
* *
2391400 TGCTTAAGGTAACTC
65 TGCATAAGGTAACCC
* *
2391415 TACGGATCTAAGGATGTCCTTGGGTAG
1 TAC-GACCTAAGGATAT-CTTGGGTAG
2391442 ATCTAATGTA
Statistics
Matches: 173, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
80 88 0.51
81 85 0.49
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (79 bp):
TACGACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTGT
GCATAAGGTAACCC
Found at i:2392707 original size:48 final size:48
Alignment explanation
Indices: 2392636--2392731 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
2392626 ATGGATGGGC
2392636 ACTAAGTGCAGGGTTGGCACATAAATATCAATGATCATAGGTTTGGTG
1 ACTAAGTGCAGGGTTGGCACATAAATATCAATGATCATAGGTTTGGTG
2392684 ACTAAGTGCAGGGTTGGCACATAAATATCAATGATCATAGGTTTGGTG
1 ACTAAGTGCAGGGTTGGCACATAAATATCAATGATCATAGGTTTGGTG
2392732 GATGCTCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (48 bp):
ACTAAGTGCAGGGTTGGCACATAAATATCAATGATCATAGGTTTGGTG
Found at i:2393889 original size:19 final size:19
Alignment explanation
Indices: 2393865--2393943 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
2393855 GCCTAAATTG
**
2393865 TTTAGGTTGGAAGTCAGAT
1 TTTAGGTTGGAAACCAGAT
* * *
2393884 TTTAGGTTGCAACCCAGAA
1 TTTAGGTTGGAAACCAGAT
*
2393903 TTTAAGTTGGAAACCAGATT
1 TTTAGGTTGGAAACCAGA-T
* *
2393923 TTTAGGTTGCAACCCAGAT
1 TTTAGGTTGGAAACCAGAT
2393942 TT
1 TT
2393944 GGGGGTAGAG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (19 bp):
TTTAGGTTGGAAACCAGAT
Found at i:2393936 original size:39 final size:38
Alignment explanation
Indices: 2393865--2393940 Score: 116
Period size: 39 Copynumber: 2.0 Consensus size: 38
2393855 GCCTAAATTG
* **
2393865 TTTAGGTTGGAAGTCAGATTTTAGGTTGCAACCCAGAA
1 TTTAAGTTGGAAACCAGATTTTAGGTTGCAACCCAGAA
2393903 TTTAAGTTGGAAACCAGATTTTTAGGTTGCAACCCAGA
1 TTTAAGTTGGAAACCAGA-TTTTAGGTTGCAACCCAGA
2393941 TTTGGGGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.44
39 19 0.56
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTTAAGTTGGAAACCAGATTTTAGGTTGCAACCCAGAA
Found at i:2394083 original size:23 final size:23
Alignment explanation
Indices: 2394056--2394101 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2394046 TCCATTAACA
*
2394056 CATTGTCACATACCATTCAAATC
1 CATTGACACATACCATTCAAATC
*
2394079 CATTGACACATATCATTCAAATC
1 CATTGACACATACCATTCAAATC
2394102 AACCATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.30
Consensus pattern (23 bp):
CATTGACACATACCATTCAAATC
Found at i:2394213 original size:27 final size:26
Alignment explanation
Indices: 2394169--2394219 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
2394159 GTGACTGAAA
*
2394169 GGGGAGGAGGAGAGTTTCAGGAAGAAC
1 GGGGAGGAGGACAGTTTCA-GAAGAAC
2394196 GGGGAAGGAGGACA-TTTCAGAAGA
1 GGGG-AGGAGGACAGTTTCAGAAGA
2394220 GAATGAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 9 0.41
28 8 0.36
ACGTcount: A:0.35, C:0.08, G:0.45, T:0.12
Consensus pattern (26 bp):
GGGGAGGAGGACAGTTTCAGAAGAAC
Found at i:2394222 original size:28 final size:27
Alignment explanation
Indices: 2394169--2394222 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
2394159 GTGACTGAAA
* *
2394169 GGGGAGGAGGAGAGTTTCAGGAAGAAC
1 GGGGAGGAGGACAGTTTCAGAAAGAAC
2394196 GGGGAAGGAGGACA-TTTCAGAAGAGAA
1 GGGG-AGGAGGACAGTTTCAGAA-AGAA
2394223 TGAGAGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.37, C:0.07, G:0.44, T:0.11
Consensus pattern (27 bp):
GGGGAGGAGGACAGTTTCAGAAAGAAC
Found at i:2395608 original size:13 final size:13
Alignment explanation
Indices: 2395590--2395634 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
2395580 GTCATAAATA
*
2395590 TATGACACGCATT
1 TATGACACACATT
2395603 TATGACACACATT
1 TATGACACACATT
*
2395616 TATGACGCACATT
1 TATGACACACATT
*
2395629 AATGAC
1 TATGAC
2395635 GTTCATTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (13 bp):
TATGACACACATT
Found at i:2395772 original size:85 final size:85
Alignment explanation
Indices: 2395667--2395827 Score: 250
Period size: 85 Copynumber: 1.9 Consensus size: 85
2395657 TAAATTAAGA
2395667 TGACACACATTTGTGCGTCATAAATTTATGACACACATGCATGACTTACATTGCGCGTCATTGAA
1 TGACACACATTTGTGCGTCATAAATTTATGACACACATGCATGACTTACATTGCGCGTCATTGAA
* *
2395732 GCCCCCGTCATAAATCTGCT
66 GCACACGTCATAAATCTGCT
* * * * * *
2395752 TGACATACATTTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGTGTGTCATTGAA
1 TGACACACATTTGTGCGTCATAAATTTATGACACACATGCATGACTTACATTGCGCGTCATTGAA
2395817 GCACACGTCAT
66 GCACACGTCAT
2395828 TAAAAAAGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (85 bp):
TGACACACATTTGTGCGTCATAAATTTATGACACACATGCATGACTTACATTGCGCGTCATTGAA
GCACACGTCATAAATCTGCT
Found at i:2395886 original size:6 final size:6
Alignment explanation
Indices: 2395875--2398218 Score: 979
Period size: 6 Copynumber: 401.8 Consensus size: 6
2395865 TTTCGTAAAT
* * * * *
2395875 TATATA TATATA TATATA AATATA AATATA AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2395923 AATATA AATATA AATATA AATA-A AATATA AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2395970 AATATA AATATA AATATA AATATA AATAAA TATAAA TATAAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * *
2396018 TATA-A TAT-TA AATATA AATATA AATATA AATATA AATATA -ATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2396063 AAAATA TAAATA -ATATA AATATA AATATA AATATA AAAATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396110 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396158 TAAAT- TAAATA TAAATA TAAATA TAAATA TAAATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2396205 AATAAA TATAAA TATAAA TATAAA T-TAAA TATAAA TA-AAA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396251 TAAATA TAAATA TAAATA TAAATA TATAAA TATAAA TATA-A TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396298 TAAATA AATATA -AAATA TAAATA TAAATA TAAATA TAAATA -AAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2396344 TA-ATA TAAATA -AAATA AATATA -ATATA AATATA TATAAA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396389 TA-ATA AATA-A AATATA AATATA AATATA AATATA AATATA AAT-TA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2396434 AATATA -ATATA AATATA AATAAA TATAAA TAAATA AATAAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396481 TATAAA TATAAA TATAAA TA-AAA TATA-A TATAAA TATAAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396527 TATAAA TATAAA TATAAA TATAAA T-TAAA TATAAA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * *
2396574 TAAATA TA-ATA TAAATA TATA-A TATAAA TATAAA TATAAA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396620 AATAAA TATAAA TATAAA TATA-A TATAAA TATAAA TATAAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396667 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396715 AATATA AATATA AATA-A AATATA AATATA AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396762 AATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATA-A TATA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396808 TATA-A AATATA AATATA -AAATA AATATA AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396854 AATATA AATATA AATATA AATATA AATA-A AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2396901 AATATA AATATA AATATA AATATA -ATATA -ATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2396947 -ATATA AATATA AATATA AATAAA TATAAA TATAAA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2396994 TAAATA TAAATA AATATA AATATA AATATA AATATA -ATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2397041 AATATA AATATA -ATATA AATATA AATATA AATATA AATATA -AAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397087 -ATATA AATATA AATATA AATAAA TATAAA TATAAA TATAAA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397134 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2397182 TA-ATA TA-AAA TATAAA TATAAA TAAATA TAAATA TAAATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2397228 AATATA AATATA AATATA AATA-A AATAAA TAAATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2397275 TAAATA TAAATA TAAATA TA-ATA TATAAA TATAAA TATAAA TATA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397321 AATAAA TATAAA TA-AAA TATAAA TATAAA TATAAA TATA-A TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397367 TA-AAA TATAAA TATAAA TATAAA TATAAA TATAAA TA-AAA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397413 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397461 TATAAA TATAAA TATAAA TATAAA TAAATA TA-AAA TA-AAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2397507 TATAAA TATAAA TATA-A TATAAA TA-AAA TATAAA TATA-A TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397552 TATAAA TATAAA TATAAA TATAAA TATAAA TAAATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397600 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2397648 TAAATA TAAATA TA-ATA TAAATA TAAATA TA-ATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2397694 AATATA AATATA AATATA AATATA AATATA AATATA -ATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397741 AATA-A AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2397788 AATATA AATATA AATAAA TATAAA TATAAA TATAAA TAAATA -AAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2397835 TAAATA TAAATA TAAATA TA-ATA TAAATA TAAATA TAAATA -ATA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2397880 AATATA AATATA AATATA -ATATA AATATA AATATA -ATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2397926 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2397974 AATATA AATATA AATATA AATA-A AATATA AATATA AATAAA TATAAA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2398021 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2398068 TATAAA TATAAA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * *
2398116 TATATA TATATA TAAATA TA-ATA TA-AAA TATATA TATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
2398162 -ATATA TATATA TATATA TATATA TA-ATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
2398208 TATATA TATAT
1 TATATA TATAT
2398219 TGTAGATTGA
Statistics
Matches: 2180, Mismatches: 98, Indels: 120
0.91 0.04 0.05
Matches are distributed among these distances:
4 1 0.00
5 316 0.14
6 1863 0.85
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TATATA
Found at i:2395897 original size:18 final size:18
Alignment explanation
Indices: 2395876--2398217 Score: 3553
Period size: 18 Copynumber: 134.3 Consensus size: 18
2395866 TTCGTAAATT
* *
2395876 ATATATATATATATATAA
1 ATATAAATATAAATATAA
2395894 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2395912 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2395930 ATATAAATATAAATA-AA
1 ATATAAATATAAATATAA
2395947 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2395965 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2395983 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2395999 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396017 ATAT-AATATTAAATATAA
1 ATATAAATA-TAAATATAA
2396035 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
*
2396053 ATAT-AATATAAAAATATA
1 ATATAAATATAAATATA-A
2396071 A-AT-AATATAAATATAA
1 ATATAAATATAAATATAA
*
2396087 ATATAAATATAAAAATAAA
1 ATATAAATATAAATAT-AA
2396106 TATATAAATATAAATATAA
1 -ATATAAATATAAATATAA
2396125 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396143 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396161 AT-TAAATATAAATATAA
1 ATATAAATATAAATATAA
2396178 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2396194 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2396210 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396228 AT-TAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2396243 A-ATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396260 ATATAAATATAAATATATAA
1 ATATAAATAT-AA-ATATAA
2396280 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2396297 ATAAATAAATATAAAATATAA
1 AT--ATAAATAT-AAATATAA
2396318 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396336 ATA-AAATAT-AATAT-A
1 ATATAAATATAAATATAA
2396351 A-ATAAA-ATAAATAT-A
1 ATATAAATATAAATATAA
2396366 ATATAAATAT--ATATAA
1 ATATAAATATAAATATAA
2396382 ATA-AATATAATAAATA-AA
1 ATATAA-AT-ATAAATATAA
2396400 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396418 ATATAAATATAAAT-TAA
1 ATATAAATATAAATATAA
2396435 ATAT-AATATAAATAT-A
1 ATATAAATATAAATATAA
2396451 A-ATAAATATAAATA-AA
1 ATATAAATATAAATATAA
*
2396467 TAAATAAATATAAATATAA
1 -ATATAAATATAAATATAA
2396486 ATATAAATATAAATA-AA
1 ATATAAATATAAATATAA
2396503 ATAT-AATATAAATATAA
1 ATATAAATATAAATATAA
2396520 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396538 ATATAAATATAAAT-TAA
1 ATATAAATATAAATATAA
2396555 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2396571 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2396588 ATATATAATATAAATATAA
1 ATATA-AATATAAATATAA
2396607 ATATAAATATATAA-ATAA
1 ATATAAATATA-AATATAA
2396625 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2396642 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396660 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396678 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396696 ATATAAATATATAAATATAA
1 ATAT-AA-ATATAAATATAA
2396716 ATATAAATATAAATA-AA
1 ATATAAATATAAATATAA
2396733 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396751 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2396767 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396785 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2396802 ATAT-AATATAAAATATAA
1 ATATAAATAT-AAATATAA
2396820 ATATAAA-ATAAATATAA
1 ATATAAATATAAATATAA
2396837 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396855 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396873 ATATAAATA-AAATATAA
1 ATATAAATATAAATATAA
2396890 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2396908 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2396925 ATAT-AATATAAATATAA
1 ATATAAATATAAATATAA
2396942 ATAT-AATATAAATATAA
1 ATATAAATATAAATATAA
2396959 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2396975 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2396991 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2397007 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397025 ATAT-AATATAAATATAA
1 ATATAAATATAAATATAA
2397042 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2397059 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397077 ATATAAA-AT-AATATAA
1 ATATAAATATAAATATAA
2397093 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2397109 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2397126 A-ATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397143 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397161 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397179 ATAT-AATATAAAATATAA
1 ATATAAATAT-AAATATAA
2397197 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2397213 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2397229 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397247 ATA-AAATAAATAAATATAA
1 ATATAAAT--ATAAATATAA
2397266 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397284 ATATAAATATAATATATAA
1 ATATAAATATAA-ATATAA
2397303 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397321 A-ATAAATATAAATA-AA
1 ATATAAATATAAATATAA
2397337 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397355 ATAT-AATATAAATA-AA
1 ATATAAATATAAATATAA
2397371 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397389 ATATAAATATAAATA-AA
1 ATATAAATATAAATATAA
2397406 ATA-AATATATAAATATAA
1 ATATAA-ATATAAATATAA
2397424 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397442 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397460 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397478 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2397494 A-ATAAAATATAAATATAA
1 ATAT-AAATATAAATATAA
2397512 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2397529 ATA-AAATATAAATAT-A
1 ATATAAATATAAATATAA
2397545 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397563 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2397580 A-ATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397597 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397615 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397633 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397651 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2397668 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2397685 ATAT-AA-ATAAATATAA
1 ATATAAATATAAATATAA
2397701 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397719 ATATAAATAT-AATATAA
1 ATATAAATATAAATATAA
2397736 ATATAAATA-AAATATAA
1 ATATAAATATAAATATAA
2397753 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397771 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397789 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2397805 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2397822 A-ATAAATA-AAATATAA
1 ATATAAATATAAATATAA
2397838 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2397855 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397873 ATAATAAAATATAAATATAA
1 AT-AT-AAATATAAATATAA
2397893 ATAT-AATATAAATATAA
1 ATATAAATATAAATATAA
2397910 ATAT-AATATAAATATAA
1 ATATAAATATAAATATAA
2397927 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397945 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397963 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2397981 ATATAAATATAAATA-AA
1 ATATAAATATAAATATAA
2397998 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2398014 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2398032 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
2398050 ATATAAATATAAATAT-A
1 ATATAAATATAAATATAA
2398067 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
2398083 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
*
2398101 ATATAAATATAAATATAT
1 ATATAAATATAAATATAA
*
2398119 ATATATATATAAATAT-A
1 ATATAAATATAAATATAA
2398136 ATATAAAATATATATATATAA
1 ATAT-AAATATA-A-ATATAA
* *
2398157 ATATAATATATATATATAT
1 ATATAA-ATATAAATATAA
* *
2398176 ATATATATATAATATATAT
1 ATATAAATATAA-ATATAA
* * *
2398195 ATATATATATATATATAT
1 ATATAAATATAAATATAA
2398213 ATATA
1 ATATA
2398218 TTGTAGATTG
Statistics
Matches: 2187, Mismatches: 16, Indels: 242
0.89 0.01 0.10
Matches are distributed among these distances:
14 3 0.00
15 51 0.02
16 360 0.16
17 580 0.27
18 981 0.45
19 120 0.05
20 73 0.03
21 19 0.01
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATAAATATAAATATAA
Found at i:2404559 original size:15 final size:15
Alignment explanation
Indices: 2404534--2404575 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
2404524 GATGCTTTCT
*
2404534 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTAGACG
2404550 TTTTCTTCTTAGACG
1 TTTTCTTCTTAGACG
2404565 TTTTCTTCTTA
1 TTTTCTTCTTA
2404576 CCCCATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTCTTCTTAGACG
Found at i:2411178 original size:17 final size:17
Alignment explanation
Indices: 2411158--2411194 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2411148 ATACTATAGA
* *
2411158 CATGTATGTATGTTTAT
1 CATGTATATATGTCTAT
2411175 CATGTATATATGTCTAT
1 CATGTATATATGTCTAT
2411192 CAT
1 CAT
2411195 ACATGCATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (17 bp):
CATGTATATATGTCTAT
Found at i:2411227 original size:24 final size:25
Alignment explanation
Indices: 2411193--2411261 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
2411183 TATGTCTATC
* *
2411193 ATACATGCATACATGCAT-CAAAAT
1 ATACATACATACATGCATGAAAAAT
* *
2411217 ATACATACATATATGTATGAAAAAT
1 ATACATACATACATGCATGAAAAAT
*
2411242 ATATATACATACCATGCATG
1 ATACATACATA-CATGCATG
2411262 TATGTATGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 15 0.42
25 15 0.42
26 6 0.17
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (25 bp):
ATACATACATACATGCATGAAAAAT
Found at i:2411289 original size:29 final size:28
Alignment explanation
Indices: 2411254--2411322 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 28
2411244 ATATACATAC
2411254 CATGCATGTATGTATGGATGATATGTA-TA
1 CATGCATGTATGTAT-GAT-ATATGTATTA
2411283 CATGCATGTATGTATGATATATGTATTA
1 CATGCATGTATGTATGATATATGTATTA
*
2411311 CATGCATATATG
1 CATGCATGTATG
2411323 CATATATGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 7 0.18
28 16 0.42
29 15 0.39
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (28 bp):
CATGCATGTATGTATGATATATGTATTA
Found at i:2411292 original size:25 final size:25
Alignment explanation
Indices: 2411258--2411339 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
2411248 ACATACCATG
* *
2411258 CATGTATGTATGGATGATATGTATA
1 CATGCATGTATGCATGATATGTATA
*
2411283 CATGCATGTATGTATGATATATGTATTA
1 CATGCATGTATGCATG--ATATGTA-TA
* *
2411311 CATGCATATATGCAT-ATATGCATAA
1 CATGCATGTATGCATGATATGTAT-A
2411336 CATG
1 CATG
2411340 TGTATTAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.02
25 25 0.52
27 7 0.15
28 15 0.31
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (25 bp):
CATGCATGTATGCATGATATGTATA
Found at i:2411584 original size:22 final size:22
Alignment explanation
Indices: 2411551--2411592 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2411541 GTATGATACA
2411551 TATGTTATATGCATATATTATG
1 TATGTTATATGCATATATTATG
2411573 TATG-TATGATGCATATATTA
1 TATGTTAT-ATGCATATATTA
2411593 AAATTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
TATGTTATATGCATATATTATG
Found at i:2411928 original size:34 final size:35
Alignment explanation
Indices: 2411885--2411995 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 35
2411875 AAAATAGTCC
*
2411885 TCAATTTCATTATAAACCTCAATTTCC-AAAGAAT
1 TCAATTTCATTATAAACCTCAAATTCCAAAAGAAT
* * *
2411919 TCAATTTCATTCTAAACCTTAAATTCCAAAATAAT
1 TCAATTTCATTATAAACCTCAAATTCCAAAAGAAT
** * * * * *
2411954 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTATAAACCTCAAATTCCAAAAGAAT
2411989 TCAATTT
1 TCAATTT
2411996 AAGGTTTAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 24 0.38
35 40 0.62
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTATAAACCTCAAATTCCAAAAGAAT
Found at i:2412059 original size:35 final size:35
Alignment explanation
Indices: 2411991--2412065 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
2411981 AAAATACTTC
* * *
2411991 AATTTAAGGTTTAGAATGTAATTAAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
* * *
2412026 AATTTAGGGTTTAGAATGAAATTAAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
2412061 AATTT
1 AATTT
2412066 TGAACATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
Found at i:2413090 original size:10 final size:9
Alignment explanation
Indices: 2413068--2413097 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2413058 CTGAATAGTT
2413068 AAAAAACCG
1 AAAAAACCG
2413077 AAAAAACCG
1 AAAAAACCG
*
2413086 AAAAAATCG
1 AAAAAACCG
2413095 AAA
1 AAA
2413098 TCGGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.70, C:0.17, G:0.10, T:0.03
Consensus pattern (9 bp):
AAAAAACCG
Found at i:2413125 original size:19 final size:19
Alignment explanation
Indices: 2413098--2413149 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
2413088 AAAATCGAAA
* *
2413098 TCGGTTTTTTCGGTTCGGT
1 TCGGGTTTTTCGGTTCGAT
2413117 TCGGGTTTTTCGGTTCGAT
1 TCGGGTTTTTCGGTTCGAT
*
2413136 TC-GGTTTATCGGTT
1 TCGGGTTTTTCGGTT
2413150 TTTCAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.04, C:0.15, G:0.31, T:0.50
Consensus pattern (19 bp):
TCGGGTTTTTCGGTTCGAT
Found at i:2413316 original size:5 final size:5
Alignment explanation
Indices: 2413308--2413332 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2413298 TTTAAAGCCA
2413308 AACCG AACCG AACCG AACCG AACCG
1 AACCG AACCG AACCG AACCG AACCG
2413333 TTTTACTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.20, T:0.00
Consensus pattern (5 bp):
AACCG
Found at i:2414893 original size:32 final size:33
Alignment explanation
Indices: 2414857--2414918 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
2414847 TAACATGGAC
* *
2414857 TATTTGCAGGTCATTGTA-TTTAATTTATTTTA
1 TATTTACAGGTAATTGTATTTTAATTTATTTTA
* *
2414889 TATTTATAGGTAATTTTATTTTAATTTATT
1 TATTTACAGGTAATTGTATTTTAATTTATT
2414919 AAAATTAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 14 0.56
33 11 0.44
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (33 bp):
TATTTACAGGTAATTGTATTTTAATTTATTTTA
Found at i:2415641 original size:35 final size:34
Alignment explanation
Indices: 2415582--2415693 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
2415572 AAAACATTCC
* *
2415582 TCAATTTCATTATAAATCCCAAATTTCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCAAATTTCAAAATAAT
*
2415617 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTTCAAAATAAT
* * *
2415652 TCAATTACATTCTAAACCCCAAATTTTAAAATACT
1 TCAATTTCATTCTAAA-CCCAAATTTCAAAATAAT
2415687 TCAATTT
1 TCAATTT
2415694 AAGGAGAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
34 3 0.04
35 61 0.91
36 3 0.04
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTTCAAAATAAT
Found at i:2416787 original size:36 final size:34
Alignment explanation
Indices: 2416711--2416823 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
2416701 AAAAAGACAA
* * *
2416711 AAATTGAAGTATTTTAGATTTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
*
2416746 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
2416781 AAAATTGAATTACTTTGGAATTTGTGGTTTAGAATG
1 -AAATTGAATTATTTTGGAATTTG-GGTTTAGAATG
2416817 AAATTGA
1 AAATTGA
2416824 GAATTGTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
35 35 0.51
36 34 0.49
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:2419598 original size:23 final size:23
Alignment explanation
Indices: 2419572--2419618 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
2419562 GCAAAGGCAG
* *
2419572 AGATAAATGTGCAACACATGCAT
1 AGATAAACGTGCAACACATACAT
2419595 AGATAAACGTGCAACACATACAT
1 AGATAAACGTGCAACACATACAT
2419618 A
1 A
2419619 ATTACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (23 bp):
AGATAAACGTGCAACACATACAT
Found at i:2420178 original size:26 final size:25
Alignment explanation
Indices: 2420145--2420213 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
2420135 AAATAAAAAA
2420145 TAAAATATTTTAAATTAAGTTAATAG
1 TAAAATATTTTAAATTAAGTTAAT-G
2420171 TAAAATATATTT-AA-TAAGTTAATG
1 TAAAATAT-TTTAAATTAAGTTAATG
* *
2420195 TAAAAACATTTTAAGTTAA
1 T-AAAATATTTTAAATTAA
2420214 TATATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 5 0.14
25 16 0.43
26 13 0.35
27 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (25 bp):
TAAAATATTTTAAATTAAGTTAATG
Found at i:2420192 original size:25 final size:25
Alignment explanation
Indices: 2420145--2420215 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 25
2420135 AAATAAAAAA
2420145 TAAAATAT-TTTAAATTAAGTTAATAG
1 TAAAATATATTT-AA-TAAGTTAATAG
2420171 TAAAATATATTTAATAAGTTAAT-G
1 TAAAATATATTTAATAAGTTAATAG
*
2420195 TAAAA-ACATTT--TAAGTTAATA
1 TAAAATATATTTAATAAGTTAATA
2420216 TATATAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 9 0.21
23 5 0.12
24 6 0.14
25 9 0.21
26 10 0.24
27 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (25 bp):
TAAAATATATTTAATAAGTTAATAG
Found at i:2421019 original size:31 final size:30
Alignment explanation
Indices: 2420952--2421011 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2420942 ACTCGAGGTG
* *
2420952 ACCACATCTTAATTAAATAAAACGAAAGTA
1 ACCATATCTTAATTAAATAAAACAAAAGTA
2420982 ACCATATCTTAATTAAATAAAAACAAAAGT
1 ACCATATCTTAATTAAAT-AAAACAAAAGT
2421012 GGCCATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
ACCATATCTTAATTAAATAAAACAAAAGTA
Found at i:2421123 original size:7 final size:7
Alignment explanation
Indices: 2421111--2421152 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
2421101 ATTATAATTA
2421111 TATTTTT
1 TATTTTT
*
2421118 TATTTTG
1 TATTTTT
2421125 TATTTTT
1 TATTTTT
*
2421132 TAATTTTG
1 T-ATTTTT
2421140 TATTTTT
1 TATTTTT
2421147 TATTTT
1 TATTTT
2421153 GAATGGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:2421131 original size:15 final size:14
Alignment explanation
Indices: 2421111--2421153 Score: 77
Period size: 14 Copynumber: 3.0 Consensus size: 14
2421101 ATTATAATTA
2421111 TATTTTTTATTTTG
1 TATTTTTTATTTTG
2421125 TATTTTTTAATTTTG
1 TATTTTTT-ATTTTG
2421140 TATTTTTTATTTTG
1 TATTTTTTATTTTG
2421154 AATGGTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TATTTTTTATTTTG
Found at i:2429903 original size:13 final size:13
Alignment explanation
Indices: 2429885--2429909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2429875 AGTCCTTATA
2429885 GGCATGTTCGGGG
1 GGCATGTTCGGGG
2429898 GGCATGTTCGGG
1 GGCATGTTCGGG
2429910 TATTTAATCT
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:0.08, C:0.16, G:0.52, T:0.24
Consensus pattern (13 bp):
GGCATGTTCGGGG
Found at i:2430232 original size:27 final size:23
Alignment explanation
Indices: 2430199--2430270 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 23
2430189 GATCATGGTT
*
2430199 CTGAATCATTCATAATGTACTTTAATG
1 CTGAATCATTCAGAA-GTA-TTT--TG
*
2430226 CTGAATCATTCAGCAGTATTTTG
1 CTGAATCATTCAGAAGTATTTTG
2430249 CTGAATCATTCAGCTAAGTATT
1 CTGAATCATTCAG--AAGTATT
2430271 CATTCTGAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 15 0.38
25 9 0.22
26 3 0.08
27 13 0.32
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (23 bp):
CTGAATCATTCAGAAGTATTTTG
Found at i:2432287 original size:23 final size:23
Alignment explanation
Indices: 2432257--2432322 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
2432247 TCGAGGGTTC
*
2432257 TATGTGGTCCTTCGGGACAAACT
1 TATGTGGTTCTTCGGGACAAACT
*
2432280 TATGTGGTTCTTTGGGACAAACT
1 TATGTGGTTCTTCGGGACAAACT
*
2432303 TATGTGGTTCTTCTGGACAA
1 TATGTGGTTCTTCGGGACAA
2432323 TTATATGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (23 bp):
TATGTGGTTCTTCGGGACAAACT
Found at i:2443258 original size:103 final size:103
Alignment explanation
Indices: 2443077--2443271 Score: 336
Period size: 103 Copynumber: 1.9 Consensus size: 103
2443067 TCACGAGATG
* *
2443077 ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTATGGGATGGTAGT
1 ACTCTACCTGACTAGCTCGGGAGTGGAAGGTATGCTCCCTTTAACTTAGAGTATGGGATGGTAGT
* *
2443142 GTGATGAGTTGACTTCCCTTAAAGTATGCTTAAAAAAA
66 GTGATGAGATGACTCCCCTTAAAGTATGCTTAAAAAAA
*
2443180 ACTCTACCTGACTAGCTCGGGAGTGGAAGGTATGCTCCCTTTAACTTAGAGTGTGGGATGGTAGT
1 ACTCTACCTGACTAGCTCGGGAGTGGAAGGTATGCTCCCTTTAACTTAGAGTATGGGATGGTAGT
*
2443245 GTGATGAGATGACTCCCCTTGAAGTAT
66 GTGATGAGATGACTCCCCTTAAAGTAT
2443272 AAAAAAAAAG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (103 bp):
ACTCTACCTGACTAGCTCGGGAGTGGAAGGTATGCTCCCTTTAACTTAGAGTATGGGATGGTAGT
GTGATGAGATGACTCCCCTTAAAGTATGCTTAAAAAAA
Found at i:2447806 original size:18 final size:18
Alignment explanation
Indices: 2447807--2447890 Score: 102
Period size: 18 Copynumber: 4.7 Consensus size: 18
2447797 TTTAAAATAA
*
2447807 AAAAATAAATAATTTATTC
1 AAAA-TAAATAAATTATTC
*
2447826 AAAATAAAT-TATTA--C
1 AAAATAAATAAATTATTC
2447841 ATAAATAAATAAATTATTC
1 A-AAATAAATAAATTATTC
2447860 AAAATAAATAAATTATTC
1 AAAATAAATAAATTATTC
*
2447878 AAAGTAAATAAAT
1 AAAATAAATAAAT
2447891 AAATAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.04
16 8 0.14
17 7 0.12
18 34 0.60
19 6 0.11
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATAAATAAATTATTC
Found at i:2447823 original size:26 final size:26
Alignment explanation
Indices: 2447783--2447897 Score: 97
Period size: 26 Copynumber: 4.4 Consensus size: 26
2447773 CCCTTCAAAT
*
2447783 AAATAAATAAATTATTTAAAATAAAA
1 AAATAAATAAATTATTCAAAATAAAA
* *
2447809 AAATAAATAATTTATTCAAAATAAAT
1 AAATAAATAAATTATTCAAAATAAAA
* * * * * * **
2447835 TATTACATAAATAAAT-AAATTATTCA
1 AAATAAATAAATTATTCAAAATA-AAA
* *
2447861 AAATAAATAAATTATTCAAAGTAAAT
1 AAATAAATAAATTATTCAAAATAAAA
2447887 AAATAAATAAA
1 AAATAAATAAA
2447898 AATTACCTTC
Statistics
Matches: 65, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
25 5 0.08
26 55 0.85
27 5 0.08
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (26 bp):
AAATAAATAAATTATTCAAAATAAAA
Found at i:2449482 original size:2 final size:2
Alignment explanation
Indices: 2449475--2449520 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2449465 AATGTATTTA
2449475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2449516 AT AT A
1 AT AT A
2449521 AATAATTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2456403 original size:30 final size:30
Alignment explanation
Indices: 2456362--2456450 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
2456352 ATCAGATTAG
2456362 CACTATAGTGTGTAAGGACACTTAGTGCAA
1 CACTATAGTGTGTAAGGACACTTAGTGCAA
*
2456392 CACTGTAGTGTGTAAGGACACTTAGTGCAA
1 CACTATAGTGTGTAAGGACACTTAGTGCAA
*
2456422 CACTATAGAGTGTAAGGACACTTAGTGCA
1 CACTATAGTGTGTAAGGACACTTAGTGCA
2456451 TATGGTAAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (30 bp):
CACTATAGTGTGTAAGGACACTTAGTGCAA
Found at i:2462796 original size:30 final size:30
Alignment explanation
Indices: 2462752--2462812 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
2462742 ATATCGAATG
*
2462752 AACACTATATTGTGTAAGGACACTTAGTGC
1 AACACTATAGTGTGTAAGGACACTTAGTGC
*
2462782 AACACTGTAGTGTGTAAGGACACTTAGTGC
1 AACACTATAGTGTGTAAGGACACTTAGTGC
2462812 A
1 A
2462813 TATGGTAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (30 bp):
AACACTATAGTGTGTAAGGACACTTAGTGC
Found at i:2465709 original size:32 final size:32
Alignment explanation
Indices: 2465664--2465725 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2465654 AACAATATTA
2465664 AAGCTAAGAACACCAGGTGAGTGCAAATTTTC
1 AAGCTAAGAACACCAGGTGAGTGCAAATTTTC
*
2465696 AAGCTAAGGACACCAGGTGAGTGCAAATTT
1 AAGCTAAGAACACCAGGTGAGTGCAAATTT
2465726 AACTTGTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (32 bp):
AAGCTAAGAACACCAGGTGAGTGCAAATTTTC
Found at i:2469925 original size:22 final size:22
Alignment explanation
Indices: 2469900--2469941 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2469890 TCCAAAAATA
2469900 TTTTTTTCCAAAACAACAACTC
1 TTTTTTTCCAAAACAACAACTC
* *
2469922 TTTTTTTCCAGACCAACAAC
1 TTTTTTTCCAAAACAACAAC
2469942 CCTCCTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTTTTTCCAAAACAACAACTC
Found at i:2472469 original size:24 final size:24
Alignment explanation
Indices: 2472448--2472495 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2472438 AACATTATAT
*
2472448 TTATAATTATT-TTGATTATTATTA
1 TTATAAGTATTGTTG-TTATTATTA
2472472 TTATAAGTATTGTTGTTATTATTA
1 TTATAAGTATTGTTGTTATTATTA
2472496 ATAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (24 bp):
TTATAAGTATTGTTGTTATTATTA
Found at i:2475837 original size:135 final size:135
Alignment explanation
Indices: 2475523--2475839 Score: 404
Period size: 135 Copynumber: 2.3 Consensus size: 135
2475513 AAAGAGAGCG
** * * * **
2475523 GAAATCATTCACTAGTGATTTTGAACAGAGATCGAGTACCACAGCTTGTGACGGCAATGATGTTG
1 GAAATCATTCACTAGTGATTTTGAAGTGAGACCAAGCACCACTTCTTGTGACGGCAATGATGTTG
** * * *
2475588 ATCTTAAACGAGTGAAGAAATCAATCACTAGTGAATTTGAACCAAGACCGAGCATCACGTCTTAT
66 ATCTTAAAAAAGTGAACAAAACAATCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTAT
**
2475653 GGTTA
131 GGCAA
* * * * **
2475658 GAAATCATTCACTAGTGATTTTG-AGTCG-GAACTAATCACTACTTCTTTTGGTGGCAATGATGT
1 GAAATCATTCACTAGTGATTTTGAAGT-GAG-ACCAAGCACCACTTCTTGTGACGGCAATGATGT
*
2475721 TGATCTTAAAAAAGTGAACAAAACATTCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTT
64 TGATCTTAAAAAAGTGAACAAAACAATCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTT
2475786 ATGGCAA
129 ATGGCAA
*
2475793 GAAATCATTCACTAGTGATTTCGAAGTGAGACCAAGCACCACTTCTT
1 GAAATCATTCACTAGTGATTTTGAAGTGAGACCAAGCACCACTTCTT
2475840 ATGGCAACAA
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
134 2 0.01
135 147 0.96
136 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (135 bp):
GAAATCATTCACTAGTGATTTTGAAGTGAGACCAAGCACCACTTCTTGTGACGGCAATGATGTTG
ATCTTAAAAAAGTGAACAAAACAATCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTAT
GGCAA
Found at i:2475882 original size:57 final size:54
Alignment explanation
Indices: 2475744--2475954 Score: 203
Period size: 54 Copynumber: 3.9 Consensus size: 54
2475734 GTGAACAAAA
* * * *
2475744 CATTCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTATGGCAAGAAAT
1 CATTCACTAGTGAATTTGAATCAAGACCAAGCACCACTTCTTATGGCAAGAAAT
* *
2475798 CATTCACTAGTG-ATTTCGAAGT-GAGACCAAGCACCACTTCTTATGGCAACAATAAAT
1 CATTCACTAGTGAATTT-GAA-TCAAGACCAAGCACCACTTCTTATGG---CAAGAAAT
* * * * *
2475855 CAATCACTAGTGAATTTGAATCAAGACCGAGCATCACGTCTTATAGTC-AGAAAT
1 CATTCACTAGTGAATTTGAATCAAGACCAAGCACCACTTCTTAT-GGCAAGAAAT
* ** * *
2475909 CATTCACAAGTGGTTTTGAGTCTAGACCAAGCACCACTTCTTATGG
1 CATTCACTAGTGAATTTGAATCAAGACCAAGCACCACTTCTTATGG
2475955 TGGCAATGAT
Statistics
Matches: 126, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
53 5 0.04
54 75 0.60
55 1 0.01
56 1 0.01
57 39 0.31
58 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (54 bp):
CATTCACTAGTGAATTTGAATCAAGACCAAGCACCACTTCTTATGGCAAGAAAT
Found at i:2475886 original size:111 final size:111
Alignment explanation
Indices: 2475747--2475954 Score: 321
Period size: 111 Copynumber: 1.9 Consensus size: 111
2475737 AACAAAACAT
*
2475747 TCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTAT-GGCAAGAAATCATTCACTAGTGA
1 TCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTATAGGC-AGAAATCATTCACAAGTGA
2475811 TTTCGAAGT-GAGACCAAGCACCACTTCTTATGGCAACAATAAATCAA
65 TTTCG-AGTCGAGACCAAGCACCACTTCTTATGGCAACAATAAATCAA
* * * *
2475858 TCACTAGTGAATTTGAATCAAGACCGAGCATCACGTCTTATAGTCAGAAATCATTCACAAGTGGT
1 TCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTATAGGCAGAAATCATTCACAAGTGAT
* *
2475923 TTTGAGTCTAGACCAAGCACCACTTCTTATGG
66 TTCGAGTCGAGACCAAGCACCACTTCTTATGG
2475955 TGGCAATGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
110 3 0.03
111 83 0.94
112 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (111 bp):
TCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTATAGGCAGAAATCATTCACAAGTGAT
TTCGAGTCGAGACCAAGCACCACTTCTTATGGCAACAATAAATCAA
Found at i:2476043 original size:246 final size:246
Alignment explanation
Indices: 2475605--2476082 Score: 733
Period size: 246 Copynumber: 1.9 Consensus size: 246
2475595 ACGAGTGAAG
* *
2475605 AAATCAATCACTAGTGAATTTGAACCAAGACCGAGCATCACGTCTTATGGTTAGAAATCATTCAC
1 AAATCAATCACTAGTGAATTTGAACCAAGACCGAGCATCACGTCTTATAGTCAGAAATCATTCAC
* * * * * * *
2475670 TAGTGATTTTGAGTCGGAACTAATCACTACTTCTTTTGGTGGCAATGATGTTGATCTTAAAAAAG
66 AAGTGATTTTGAGTCAGAACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCATAAAAAAG
* *
2475735 TGAACAAAACATTCACTAGTGAATTTGAACCAAGACCGAGCATCACATCTTATGGCAAGAAATCA
131 TGAACAAAACATTCACTAATGAATTTGAACCAAGACCGAACATCACATCTTATGGCAAGAAATCA
**
2475800 TTCACTAGTGATTTCGAAGTGAGACCAAGCACCACTTCTTATGGCAACAAT
196 TTCACTAGTGATTTCGAACCGAGACCAAGCACCACTTCTTATGGCAACAAT
*
2475851 AAATCAATCACTAGTGAATTTGAATCAAGACCGAGCATCACGTCTTATAGTCAGAAATCATTCAC
1 AAATCAATCACTAGTGAATTTGAACCAAGACCGAGCATCACGTCTTATAGTCAGAAATCATTCAC
* **
2475916 AAGTGGTTTTGAGTCTAG-ACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCATAAAGGA
66 AAGTGATTTTGAGTC-AGAACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCATAAAAAA
* ** *
2475980 GTGAAGAAAACATTCACTAATGAATTTGAACTGAGACCGAACATCACATCTTATGGTAAGAAATC
130 GTGAACAAAACATTCACTAATGAATTTGAACCAAGACCGAACATCACATCTTATGGCAAGAAATC
* *
2476045 ATTCACTAGTGATTTCGAACCGAGACCGAGCACTACTT
195 ATTCACTAGTGATTTCGAACCGAGACCAAGCACCACTT
2476083 TTTACAGTAG
Statistics
Matches: 208, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
246 207 1.00
247 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (246 bp):
AAATCAATCACTAGTGAATTTGAACCAAGACCGAGCATCACGTCTTATAGTCAGAAATCATTCAC
AAGTGATTTTGAGTCAGAACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCATAAAAAAG
TGAACAAAACATTCACTAATGAATTTGAACCAAGACCGAACATCACATCTTATGGCAAGAAATCA
TTCACTAGTGATTTCGAACCGAGACCAAGCACCACTTCTTATGGCAACAAT
Found at i:2476357 original size:54 final size:54
Alignment explanation
Indices: 2476255--2476360 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
2476245 AAAGAAGTGA
* * *
2476255 AGAAATCAATCACTAGTGAATTTGAACCGAGGTCGAGCATCACGTCTTATGGCC
1 AGAAATCAATCACTAGTGAATTTGAACCGAGCTCAAGCACCACGTCTTATGGCC
* * * *
2476309 AGAAATCATTCACTAGTGATTTTGAGCCGAGACT-AAGCACCACTTCTTATGG
1 AGAAATCAATCACTAGTGAATTTGAACCGAG-CTCAAGCACCACGTCTTATGG
2476361 AGGAAATGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (54 bp):
AGAAATCAATCACTAGTGAATTTGAACCGAGCTCAAGCACCACGTCTTATGGCC
Found at i:2476387 original size:271 final size:270
Alignment explanation
Indices: 2475861--2476610 Score: 797
Period size: 271 Copynumber: 2.8 Consensus size: 270
2475851 AAATCAATCA
** * * * *
2475861 CTAGTGAATTTGAATCAAGACCGAGCATCACGTCTTATAGTC-AGAAATCATTCACAAGTGGTTT
1 CTAGTGAATTTGAAAAAAGACCGAGCACCACGTCTTAT-GGCAAGAAATCATTCACTAGTGATTT
* * * * * ** *
2475925 TGAGTCTAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCATAAAGGAGTGAAGAAAA
65 CGAATCGAGACCAAACAACACAGCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAAAA
* * * **
2475990 CATTCACTAATGAATTTGAACTGAGACCGAACATCACATCTTATGGTAAGAAATCATTCACTAGT
130 CATTCACTAGTGAATTTGAACCGAGACCGAGCATCACATCTTATGGCCAGAAATCATTCACTAGT
* * * * * * **
2476055 GATTTCGAACCGAGACCGAGCACTACTTTTTACAGTAGCAATGATGTTGATGTTAAAGGAGTGAA
195 GATTTTGAACCGAGACCAAGCACCACTTCTTACAGGAGAAATGATGTTGATCATAAAGGAGTGAA
* *
2476120 GAAATC-TTTT
260 GAAAACATTCT
* * * * *
2476130 ACTAGTGATTTTGAAAAAAAGATCGAGCACCGCTTCTTATGGCCAGAAATCATTCACTAGTGATT
1 -CTAGTGAATTTG-AAAAAAGACCGAGCACCACGTCTTATGGCAAGAAATCATTCACTAGTGATT
* * * *
2476195 TCG-ATCCGAGGCCAAATAACACAGCTTATGGCGGCAATGATGTTGATCTTAAAGAAGTGAAGAA
64 TCGAAT-CGAGACCAAACAACACAGCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAA
* * ** *
2476259 ATCAATCACTAGTGAATTTGAACCGAGGTCGAGCATCACGTCTTATGGCCAGAAATCATTCACTA
128 AACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACATCTTATGGCCAGAAATCATTCACTA
* * * *
2476324 GTGATTTTGAGCCGAGACTAAGCACCACTTCTTA-TGGAGGAAATGATGTTGATCATGAAGGAGT
193 GTGATTTTGAACCGAGACCAAGCACCACTTCTTACAGGA-GAAATGATGTTGATCATAAAGGAGT
2476388 GAAGAAAACATTCT
257 GAAGAAAACATTCT
*** * * * *
2476402 CTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAAGAAATCATTGAGTAGTGATTTC
1 CTAGTGAATTTGAAAAAAGACCGAGCACCACGTCTTATGGCAAGAAATCATTCACTAGTGATTTC
* * * ** * *
2476467 GAATTGAGACCAAGCACCACTTCTTATGGTGGAAAAGATGTTGATCTTAAAGGAGTGAAGAAAAC
66 GAATCGAGACCAAACAACACAGCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAAAAC
* ** * * * * *
2476532 TTTTTCAAGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTGCCAGAAATCATTCACTAGTG
131 ATTCACTAGTGAATTTGAACCGAGACCGAGCATCACATCTTATGGCCAGAAATCATTCACTAGTG
*
2476597 ATTTTGAACTGAGA
196 ATTTTGAACCGAGA
2476611 TCGAGTACCA
Statistics
Matches: 391, Mismatches: 83, Indels: 12
0.80 0.17 0.02
Matches are distributed among these distances:
270 174 0.45
271 214 0.55
272 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (270 bp):
CTAGTGAATTTGAAAAAAGACCGAGCACCACGTCTTATGGCAAGAAATCATTCACTAGTGATTTC
GAATCGAGACCAAACAACACAGCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAAAAC
ATTCACTAGTGAATTTGAACCGAGACCGAGCATCACATCTTATGGCCAGAAATCATTCACTAGTG
ATTTTGAACCGAGACCAAGCACCACTTCTTACAGGAGAAATGATGTTGATCATAAAGGAGTGAAG
AAAACATTCT
Found at i:2476598 original size:54 final size:53
Alignment explanation
Indices: 2476539--2476731 Score: 178
Period size: 54 Copynumber: 3.7 Consensus size: 53
2476529 AACTTTTTCA
2476539 AGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTGCCAGAAATCATTCACT
1 AGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTG-CAGAAATCATTCACT
* * * ** * * *
2476593 AGTGATTTTGAACTGAGATCGAGTACCA----GGAGTGAAGAAATCAATCACT
1 AGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTGCAGAAATCATTCACT
* * * * * *
2476642 AGTGAATTTGAACCGAGACTGAACATCACATCTTATGGTCAGAAATCATTCACT
1 AGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTG-CAGAAATCATTCACT
* * * *
2476696 AGTAATTTTGAGCCGAGACCAAGCACAACTTCTTAT
1 AGTGATTTTGAACCGAGACCGAGCACCACTTCTTAT
2476732 GGTGGCAATG
Statistics
Matches: 104, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
49 34 0.33
50 3 0.03
53 2 0.02
54 65 0.62
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (53 bp):
AGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTGCAGAAATCATTCACT
Found at i:2476610 original size:135 final size:135
Alignment explanation
Indices: 2475858--2476610 Score: 831
Period size: 135 Copynumber: 5.6 Consensus size: 135
2475848 AATAAATCAA
* * * * * *
2475858 TCACTAGTGAATTTGAATCAAGACCGAGCATCACGTCTTATAGTCAGAAATCATTCACAAGTGGT
1 TCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
* ** * *
2475923 TTTGAGTCTAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCATAAAGGAGTGAAGAA
66 TTCGAACCGAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAA
2475988 AACAT
131 AACAT
* * * * **
2475993 TCACTAATGAATTTGAACTGAGACCGAACATCACATCTTATGGTAAGAAATCATTCACTAGTGAT
1 TCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
* * * ** * *
2476058 TTCGAACCGAGACCGAGCACTACTTTTTACAGTAGCAATGATGTTGATGTTAAAGGAGTGAAGAA
66 TTCGAACCGAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAA
* *
2476123 ATCTT
131 AACAT
* * *** * * * *
2476128 TTACTAGTGATTTTGAAAAAAAGATCGAGCACCGCTTCTTATGGCCAGAAATCATTCACTAGTGA
1 TCACTAGTGAATTTG-AACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGA
* * ** * ** * *
2476193 TTTCGATCCGAGGCCAAATAACACAGCTTATGGCGGCAATGATGTTGATCTTAAAGAAGTGAAGA
65 TTTCGAACCGAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGA
* *
2476258 AATCAA
130 AAACAT
**
2476264 TCACTAGTGAATTTGAACCGAGGTCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
1 TCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
* * * * * * *
2476329 TTTGAGCCGAGACTAAGCACCACTTCTTATGGAGGAAATGATGTTGATCATGAAGGAGTGAAGAA
66 TTCGAACCGAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAA
2476394 AACAT
131 AACAT
* ** * *
2476399 TCTCTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAAGAAATCATTGAGTAGTGAT
1 TCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
** * *
2476464 TTCGAATTGAGACCAAGCACCACTTCTTATGGTGGAAAAGATGTTGATCTTAAAGGAGTGAAGAA
66 TTCGAACCGAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAA
*
2476529 AACTT
131 AACAT
** * * * * *
2476534 TTTCAAGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTGCCAGAAATCATTCACTAGTGAT
1 TCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
* *
2476599 TTTGAACTGAGA
66 TTCGAACCGAGA
2476611 TCGAGTACCA
Statistics
Matches: 508, Mismatches: 109, Indels: 2
0.82 0.18 0.00
Matches are distributed among these distances:
135 403 0.79
136 105 0.21
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (135 bp):
TCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGCCAGAAATCATTCACTAGTGAT
TTCGAACCGAGACCAAGCACCACTTCTTATGGTGGCAATGATGTTGATCTTAAAGGAGTGAAGAA
AACAT
Found at i:2476800 original size:238 final size:238
Alignment explanation
Indices: 2476382--2476848 Score: 673
Period size: 238 Copynumber: 2.0 Consensus size: 238
2476372 TTGATCATGA
* * * *
2476382 AGGAGTGAAGAAAACATTCTCTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAAGA
1 AGGAGTGAAGAAAACAATCACTAGTGAATTTGAACCGAGACCGAACATCACATCTTATGGTAAGA
* * * ** *
2476447 AATCATTGAGTAGTGATTTCGAATTGAGACCAAGCACCACTTCTTATGGTGGAAAAGATGTTGAT
66 AATCATTCACTAGTAATTTCGAACCGAGACCAAGCACAACTTCTTATGGTGGAAAAGATGTTGAT
* ** * * *
2476512 CTTAAAGGAGTGAAGAAAACTTTTTCAAGTGATTTTGAACCGAGACCGAGCACCACTTCTTATTG
131 CTTAAAGGAGTGAAGAAAACATTCACAAGTGAATTTGAACCGAGACCGAGCACCACGTCTTATGG
* *
2476577 CCAGAAATCATTCACTAGTGATTTTGAACTGAGATCGAGTACC
196 CAAGAAATCATTCACTAGTGATTTTGAACCGAGATCGAGTACC
* * *
2476620 AGGAGTGAAGAAATCAATCACTAGTGAATTTGAACCGAGACTGAACATCACATCTTATGGTCAGA
1 AGGAGTGAAGAAAACAATCACTAGTGAATTTGAACCGAGACCGAACATCACATCTTATGGTAAGA
* * * *
2476685 AATCATTCACTAGTAATTTTGAGCCGAGACCAAGCACAACTTCTTATGGTGGCAATGATGTTGAT
66 AATCATTCACTAGTAATTTCGAACCGAGACCAAGCACAACTTCTTATGGTGGAAAAGATGTTGAT
* * *
2476750 CTTGAAGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGG
131 CTTAAAGGAGTGAAGAAAACATTCACAAGTGAATTTGAACCGAGACCGAGCACCACGTCTTATGG
*
2476815 TAAGAAATCATTCACTAGTGATTTTGAACCGAGA
196 CAAGAAATCATTCACTAGTGATTTTGAACCGAGA
2476849 CTGAGCACCA
Statistics
Matches: 200, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
238 200 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (238 bp):
AGGAGTGAAGAAAACAATCACTAGTGAATTTGAACCGAGACCGAACATCACATCTTATGGTAAGA
AATCATTCACTAGTAATTTCGAACCGAGACCAAGCACAACTTCTTATGGTGGAAAAGATGTTGAT
CTTAAAGGAGTGAAGAAAACATTCACAAGTGAATTTGAACCGAGACCGAGCACCACGTCTTATGG
CAAGAAATCATTCACTAGTGATTTTGAACCGAGATCGAGTACC
Found at i:2476875 original size:135 final size:135
Alignment explanation
Indices: 2476620--2476979 Score: 465
Period size: 135 Copynumber: 2.7 Consensus size: 135
2476610 ATCGAGTACC
* * *
2476620 AGGAGTGAAGAAATCAATCACTAGTGAATTTGAACCGAGACTGAACATCACATCTTATGGTCAGA
1 AGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACTGAGCATCACATCTTATGGTCAGA
* * * *
2476685 AATCATTCACTAGTAATTTTGAGCCGAGACCAAGCACAACTTCTTATGGTGGCAATGATGTTGAT
66 AATCATTCACTAGTGATTTTGAACCGAGACCAAGCACAACCTATTATGGTGGCAATGATGTTGAT
*
2476750 CTTGA
131 CTTAA
* * *
2476755 AGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAAGA
1 AGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACTGAGCATCACATCTTATGGTCAGA
** * *
2476820 AATCATTCACTAGTGATTTTGAACCGAGACTGAGCACCACCTATTTTGGCT-GCAATGATGTTGA
66 AATCATTCACTAGTGATTTTGAACCGAGACCAAGCACAACCTATTATGG-TGGCAATGATGTTGA
2476884 TCTTAA
130 TCTTAA
* * * * * * * *
2476890 AGGAGTGAAGAAAACTTTTC-CTAGCGATTTTGAACCAAGACTGAGAACCACTTCTTATGGCCAG
1 AGGAGTGAAGAAAAC-ATTCACTAGTGAATTTGAACCGAGACTGAGCATCACATCTTATGGTCAG
2476954 AAATCATTCAC-AGGTGATTTTGAACC
65 AAATCATTCACTA-GTGATTTTGAACC
2476980 CATACCGAGC
Statistics
Matches: 197, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
134 1 0.01
135 192 0.97
136 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (135 bp):
AGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACTGAGCATCACATCTTATGGTCAGA
AATCATTCACTAGTGATTTTGAACCGAGACCAAGCACAACCTATTATGGTGGCAATGATGTTGAT
CTTAA
Found at i:2476942 original size:373 final size:373
Alignment explanation
Indices: 2476250--2476978 Score: 1140
Period size: 373 Copynumber: 2.0 Consensus size: 373
2476240 ATCTTAAAGA
* * *
2476250 AGTGAAGAAATCAATCACTAGTGAATTTGAACCGAGGTCGAGCATCACGTCTTATGGCCAGAAAT
1 AGTGAAGAAATCAATCACTAGTGAATTTGAACCGAGCTCGAACATCACATCTTATGGCCAGAAAT
* * *
2476315 CATTCACTAGTGATTTTGAGCCGAGACTAAGCACCACTTCTTATGGAGGAAATGATGTTGATCAT
66 CATTCACTAGTAATTTTGAGCCGAGACCAAGCACAACTTCTTATGGAGGAAATGATGTTGATCAT
*
2476380 GAAGGAGTGAAGAAAACATTCTCTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAA
131 GAAGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAA
* * ** * *
2476445 GAAATCATTGAGTAGTGATTTCGAATTGAGACCAAGCACCACTTCTTATGGTGGAAAAGATGTTG
196 GAAATCATTCACTAGTGATTTCGAACCGAGACCAAGCACCACCTATTATGGTGGAAAAGATGTTG
* * * *
2476510 ATCTTAAAGGAGTGAAGAAAACTTTTTCAAGTGATTTTGAACCGAGACCGAGCACCACTTCTTAT
261 ATCTTAAAGGAGTGAAGAAAACTTTTCCAAGCGATTTTGAACCAAGACCGAGAACCACTTCTTAT
*
2476575 TGCCAGAAATCATTCACTA-GTGATTTTGAACTGAGATCGAGTACCAGG
326 GGCCAGAAATCATTCAC-AGGTGATTTTGAACTGAGATCGAGTACCAGG
*
2476623 AGTGAAGAAATCAATCACTAGTGAATTTGAACCGAGACT-GAACATCACATCTTATGGTCAGAAA
1 AGTGAAGAAATCAATCACTAGTGAATTTGAACCGAG-CTCGAACATCACATCTTATGGCCAGAAA
* * *
2476687 TCATTCACTAGTAATTTTGAGCCGAGACCAAGCACAACTTCTTATGGTGGCAATGATGTTGATCT
65 TCATTCACTAGTAATTTTGAGCCGAGACCAAGCACAACTTCTTATGGAGGAAATGATGTTGATCA
2476752 TGAAGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTA
130 TGAAGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTA
* ** * * *
2476817 AGAAATCATTCACTAGTGATTTTGAACCGAGACTGAGCACCACCTATTTTGGCT-GCAATGATGT
195 AGAAATCATTCACTAGTGATTTCGAACCGAGACCAAGCACCACCTATTATGG-TGGAAAAGATGT
* *
2476881 TGATCTTAAAGGAGTGAAGAAAACTTTTCCTAGCGATTTTGAACCAAGACTGAGAACCACTTCTT
259 TGATCTTAAAGGAGTGAAGAAAACTTTTCCAAGCGATTTTGAACCAAGACCGAGAACCACTTCTT
2476946 ATGGCCAGAAATCATTCACAGGTGATTTTGAAC
324 ATGGCCAGAAATCATTCACAGGTGATTTTGAAC
2476979 CCATACCGAG
Statistics
Matches: 323, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
372 1 0.00
373 320 0.99
374 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (373 bp):
AGTGAAGAAATCAATCACTAGTGAATTTGAACCGAGCTCGAACATCACATCTTATGGCCAGAAAT
CATTCACTAGTAATTTTGAGCCGAGACCAAGCACAACTTCTTATGGAGGAAATGATGTTGATCAT
GAAGGAGTGAAGAAAACATTCACTAGTGAATTTGAACCGAGACCGAGCATCACGTCTTATGGTAA
GAAATCATTCACTAGTGATTTCGAACCGAGACCAAGCACCACCTATTATGGTGGAAAAGATGTTG
ATCTTAAAGGAGTGAAGAAAACTTTTCCAAGCGATTTTGAACCAAGACCGAGAACCACTTCTTAT
GGCCAGAAATCATTCACAGGTGATTTTGAACTGAGATCGAGTACCAGG
Found at i:2476973 original size:54 final size:54
Alignment explanation
Indices: 2476910--2477031 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 54
2476900 AAAACTTTTC
* * *
2476910 CTAGCGATTTTGAACCAAGACTGAGAACCACTTCTTA-TGGCCAGAAATCATTCA
1 CTAGTGATTTTGAACCAAGACCGAGAACCACTTCTTACT-GCAAGAAATCATTCA
* * * * *
2476964 C-AGGTGATTTTGAACCCATACCGAGCATCACTTCTTACTGTAAGAAATCATTCA
1 CTA-GTGATTTTGAACCAAGACCGAGAACCACTTCTTACTGCAAGAAATCATTCA
2477018 CTAGT-ATTTTGAAC
1 CTAGTGATTTTGAAC
2477032 TGATACCGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
53 10 0.18
54 45 0.79
55 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (54 bp):
CTAGTGATTTTGAACCAAGACCGAGAACCACTTCTTACTGCAAGAAATCATTCA
Found at i:2477053 original size:53 final size:54
Alignment explanation
Indices: 2476952--2477053 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 54
2476942 TCTTATGGCC
* *
2476952 AGAAATCATTCACAGGTGATTTTGAACCCATACCGAGCATCACTTCTTACTGTA
1 AGAAATCATTCACAGGTGATTTTGAACCCATACCGAGCATAACATCTTACTGTA
** *
2477006 AGAAATCATTCACTA-GT-ATTTTGAACTGATACCGAGTATAACATCTTA
1 AGAAATCATTCAC-AGGTGATTTTGAACCCATACCGAGCATAACATCTTA
2477054 TGGTGGCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 26 0.62
54 15 0.36
55 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (54 bp):
AGAAATCATTCACAGGTGATTTTGAACCCATACCGAGCATAACATCTTACTGTA
Found at i:2480459 original size:31 final size:32
Alignment explanation
Indices: 2480423--2480504 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 32
2480413 GATTCTTAGC
*
2480423 TTAAATTGATATTTTATCTAT-ATTTTAAGAG
1 TTAAATTGATATTTTATCTATAAATTTAAGAG
* * *
2480454 TTAAATTGATAATTTATCT-TAAATTTAGGGG
1 TTAAATTGATATTTTATCTATAAATTTAAGAG
2480485 TTAAATT-AGTATTTTATCTA
1 TTAAATTGA-TATTTTATCTA
2480505 GTTTGGGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (32 bp):
TTAAATTGATATTTTATCTATAAATTTAAGAG
Found at i:2480620 original size:31 final size:31
Alignment explanation
Indices: 2480582--2480646 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
2480572 ACATCTCAGG
* *
2480582 GACCAAATTGTTATATA-TCGATAACGTAAGT
1 GACCAAATAGTTATAAACT-GATAACGTAAGT
*
2480613 GACCAAATAGTTATAAACTGATAATGTAAGT
1 GACCAAATAGTTATAAACTGATAACGTAAGT
2480644 GAC
1 GAC
2480647 AAAAATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (31 bp):
GACCAAATAGTTATAAACTGATAACGTAAGT
Found at i:2482023 original size:6 final size:6
Alignment explanation
Indices: 2482012--2482038 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2482002 TAAATCTGAT
2482012 TTGTGA TTGTGA TTGTGA TTGTGA TTG
1 TTGTGA TTGTGA TTGTGA TTGTGA TTG
2482039 ATCTCTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (6 bp):
TTGTGA
Found at i:2482395 original size:25 final size:28
Alignment explanation
Indices: 2482340--2482401 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
2482330 CTGCATGCAA
*
2482340 TTATTATTTTCTCTATTGAAAATTAATT
1 TTATTATTTTCTCTAATGAAAATTAATT
**
2482368 TTATTATTTTCT-TAATGGTAA-TAA-T
1 TTATTATTTTCTCTAATGAAAATTAATT
2482393 TTATTATTT
1 TTATTATTT
2482402 AAAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.32
26 3 0.10
27 6 0.19
28 12 0.39
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (28 bp):
TTATTATTTTCTCTAATGAAAATTAATT
Found at i:2489697 original size:23 final size:23
Alignment explanation
Indices: 2489666--2489719 Score: 85
Period size: 21 Copynumber: 2.4 Consensus size: 23
2489656 GGATTGACAT
*
2489666 CTTTCATACACAACTACTAAAAG
1 CTTTTATACACAACTACTAAAAG
2489689 CTTTTAT--ACAACTACTAAAAG
1 CTTTTATACACAACTACTAAAAG
2489710 CTTTTATACA
1 CTTTTATACA
2489720 ACATTTGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 21 0.75
23 7 0.25
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
CTTTTATACACAACTACTAAAAG
Found at i:2489701 original size:21 final size:21
Alignment explanation
Indices: 2489675--2489721 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2489665 TCTTTCATAC
2489675 ACAACTACTAAAAGCTTTTAT
1 ACAACTACTAAAAGCTTTTAT
2489696 ACAACTACTAAAAGCTTTTAT
1 ACAACTACTAAAAGCTTTTAT
2489717 ACAAC
1 ACAAC
2489722 ATTTGTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (21 bp):
ACAACTACTAAAAGCTTTTAT
Found at i:2491595 original size:52 final size:49
Alignment explanation
Indices: 2491517--2491617 Score: 148
Period size: 52 Copynumber: 2.0 Consensus size: 49
2491507 TGGTAATCGA
*
2491517 TGATTGGCAATCGACCATCCTTTTACAATCAAAGCGATTTATTTTCAAAAAG
1 TGATTGGCAATCGACCATCCTTTTACAATCAAAG-G-TGTA-TTTCAAAAAG
* *
2491569 TGATTGGTAATCGACCATCCTTTTACAATTAAAGGTGTATTTCAAAAAG
1 TGATTGGCAATCGACCATCCTTTTACAATCAAAGGTGTATTTCAAAAAG
2491618 CAATTTCTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 10 0.22
50 3 0.07
51 1 0.02
52 32 0.70
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (49 bp):
TGATTGGCAATCGACCATCCTTTTACAATCAAAGGTGTATTTCAAAAAG
Found at i:2492455 original size:12 final size:12
Alignment explanation
Indices: 2492440--2492469 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2492430 TTTTTAATTC
2492440 GTTTTTATTTTT
1 GTTTTTATTTTT
2492452 GTTTTTATTTTT
1 GTTTTTATTTTT
*
2492464 ATTTTT
1 GTTTTT
2492470 CAGGTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (12 bp):
GTTTTTATTTTT
Done.