Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008384.1 Hibiscus syriacus cultivar Beakdansim tig00111146_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: 473027
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:88 original size:20 final size:20
Alignment explanation
Indices: 47--118 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
37 ATGTTTTAGG
* *
47 GGTATCGATACCCTCCTTAA
1 GGTATCGATACCATCCTCAA
67 GGTA-CGATACCATCCCTCAA
1 GGTATCGATACCAT-CCTCAA
*
87 GGTATTGATACCAGT-CTCAA
1 GGTATCGATACCA-TCCTCAA
*
107 CAGTATCGATAC
1 -GGTATCGATAC
119 AACCTTACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 8 0.19
20 18 0.42
21 16 0.37
22 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATCCTCAA
Found at i:2405 original size:23 final size:24
Alignment explanation
Indices: 2368--2413 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
2358 TATAAAATTT
2368 AAATATATCAATAAAAAATATAAAA
1 AAATATATC-ATAAAAAATATAAAA
*
2393 AAATATATC-TAAAATATATAA
1 AAATATATCATAAAAAATATAA
2414 TTGAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATATATCATAAAAAATATAAAA
Found at i:4680 original size:336 final size:336
Alignment explanation
Indices: 3444--5105 Score: 2755
Period size: 330 Copynumber: 5.0 Consensus size: 336
3434 TACCTTATAT
* *
3444 TTTAGATTTTTTTAATGATTTTCTATCAAATATTTGTTTTGACCCCT-GAAATTTATAAGTTTAA
1 TTTAGA-TTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAATTTTATAAGTTTAA
3508 ATTCTCCCCCT-AAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACC
65 ATTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACC
* * *
3572 TACTTATAATATCTTTCATCAACCCGTATTATAATCTTAGATTTCAATTGAAATTAATTTAAATT
130 TGCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTTAATTT
3637 TTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCAAT
195 TTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTC--T
* *
3702 AAAAAAATATTATTTATTCATTGAAAGCGCAAGTTATTCATGATAT-GAAAGATTGTTAGTATTC
258 ATAAAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTC
3766 GTCAATG-AAACAA
323 GTCAATGAAAACAA
* * *
3779 TATAGATTTTTTAATCATTTTCTATC-AATATCTG-TTTGACCCCTTGAATTTTATAAGTTTAAA
1 TTTAGATTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAATTTTATAAGTTTAAA
3842 TTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACCT
66 TTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACCT
3907 GCTTATAATATCTTTCATCAA-CCGTATTATAATCTCAGATTTCAATTGAAATTAATTTAAATTT
131 GCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTT-AATTT
* *
3971 TTTAAATTTCATATTTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTAT
195 TTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTAT
4036 AAAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATG--ATAGAAAGATTGTTAGTATTCGT
260 AAAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTCGT
*
4099 -TATGAAAACAA
325 CAATGAAAACAA
4110 TTTAGA-TTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAA-TTTATAAGTTTAAA
1 TTTAGATTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAATTTTATAAGTTTAAA
4173 TTCTCTCCCC--AAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACC
66 TTCTC-CCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACC
* *
4236 TACTTATAATATC-TTCATCAACCCATATTATAATCTCAGATTTCAATTGAAATTAATTTAAATT
130 TGCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTT-AATT
4300 TTTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTA
194 TTTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTA
4365 TAAAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATGATATAG-AAGATTGTTAGTATTCG
259 TAAAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTCG
4429 TCAATGAAAACAA
324 TCAATGAAAACAA
*
4442 TTTAGATTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCATGGAATTTTATAAGTTTAAA
1 TTTAGATTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAATTTTATAAGTTTAAA
* *
4507 TTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTTTTTACCT
66 TTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACCT
4572 GCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTTAAGTTT
131 GCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTTAA-TTT
*
4637 TTTAAATTTCATCTCTTACAAGTGGTTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTAT
195 TTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTAT
*
4702 AAAAATATTATTTTTTCATTGAAAGCACAAGTTATTCATGATATAGAAAGATTGTTAGTATTCGT
260 AAAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTCGT
4767 CAATGAAAACAA
325 CAATGAAAACAA
*
4779 TTTAGATTTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCTCTGGAATTTTATAAGTTTAA
1 TTTAGA-TTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAATTTTATAAGTTTAA
* *
4844 ATTCT-CCCCTAAAATTTTATAAGTTCAGGTTTACCTCCCTTAACATAAATCCTACGTCTATACC
65 ATTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACC
*
4908 TGCTTAT-ATATCTTTCATCAACCCATATTATAATCTCAGATTT-AA-T----TT--TTTAA---
130 TGCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTTAATTT
* *
4961 --T---TTTCATCTCTTACAAGTGATTAAATAATTTAATATACTAATCTCAGATTTCAATTCTAT
195 TTTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTAT
5021 AAAAAATATTATTTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTC
260 -AAAAATATTA-TTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTC
5086 GTCAATG-AAACAA
323 GTCAATGAAAACAA
5099 TTTAGAT
1 TTTAGAT
5106 ATTTATTTGT
Statistics
Matches: 1268, Mismatches: 37, Indels: 60
0.93 0.03 0.04
Matches are distributed among these distances:
319 57 0.04
320 22 0.02
321 59 0.05
322 1 0.00
328 5 0.00
329 8 0.01
330 235 0.19
331 76 0.06
332 88 0.07
333 116 0.09
334 177 0.14
335 72 0.06
336 192 0.15
337 99 0.08
338 61 0.05
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.42
Consensus pattern (336 bp):
TTTAGATTTTTTAATGATTTTCTATCAAATATCTGTTTTGACCCCTGGAATTTTATAAGTTTAAA
TTCTCCCCCTAAAATTTTATAAGTTCAAGTTTACCTCCCTTAACATAAATCCTACGTCTGTACCT
GCTTATAATATCTTTCATCAACCCGTATTATAATCTCAGATTTCAATTGAAATTAATTTAATTTT
TTAAATTTCATCTCTTACAAGTGATTAAATAAATTAATAGACTAATCTCAGATTTCAATTCTATA
AAAATATTATTTTTTCATTGAAAGCGCAAGTTATTCATGATATAGAAAGATTGTTAGTATTCGTC
AATGAAAACAA
Found at i:5949 original size:28 final size:30
Alignment explanation
Indices: 5912--5967 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
5902 TAAAACGGGA
*
5912 CAAAATTGATAGTTTA-GTAC-AAATGTAT
1 CAAAACTGATAGTTTAGGTACTAAATGTAT
5940 CAAAACTGATAGTTTAGGTACTAAATGT
1 CAAAACTGATAGTTTAGGTACTAAATGT
5968 GTAATTTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 15 0.60
29 4 0.16
30 6 0.24
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (30 bp):
CAAAACTGATAGTTTAGGTACTAAATGTAT
Found at i:8369 original size:20 final size:20
Alignment explanation
Indices: 8346--8384 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8336 TTTCTTATCA
8346 AATTTAACATTTT-ATTATTG
1 AATTTAA-ATTTTAATTATTG
*
8366 AATTTTAATTTTAATTATT
1 AATTTAAATTTTAATTATT
8385 ATTATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
AATTTAAATTTTAATTATTG
Found at i:8375 original size:26 final size:26
Alignment explanation
Indices: 8346--8399 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8336 TTTCTTATCA
*
8346 AATTTAACATT-TTATTATTGAATTTT
1 AATTTAA-ATTATTATTATTGAATGTT
* *
8372 AATTTTAATTATTATTATTTAATGTT
1 AATTTAAATTATTATTATTGAATGTT
8398 AA
1 AA
8400 ATTTCATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
AATTTAAATTATTATTATTGAATGTT
Found at i:9816 original size:60 final size:59
Alignment explanation
Indices: 9725--9839 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
9715 AGTTTGGGGT
* *
9725 CTAATTTAGAATGAGGGTCATAGTTTTAGGATGAAATTATAATATTCAAAAGTTTAAGGG
1 CTAATTTAGAATGAGGATCATAGTTTTAGGAT-AAATTAGAATATTCAAAAGTTTAAGGG
* * * * *
9785 CTAATTTAGAATGAGTATCAT-TTTTTGAGGATTAATTAGAATGTTTAAAAGTTTA
1 CTAATTTAGAATGAGGATCATAGTTTT-AGGATAAATTAGAATATTCAAAAGTTTA
9840 TAGATTAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 23 0.49
60 24 0.51
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.39
Consensus pattern (59 bp):
CTAATTTAGAATGAGGATCATAGTTTTAGGATAAATTAGAATATTCAAAAGTTTAAGGG
Found at i:10245 original size:4 final size:4
Alignment explanation
Indices: 10236--12143 Score: 3480
Period size: 4 Copynumber: 483.8 Consensus size: 4
10226 TACTGTAAAC
10236 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10284 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10330 ACCAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 A-CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10377 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10425 ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT AC-T ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10470 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10518 ACAT ACAT ACAT ACAT ACAT ACAT ACAG ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10566 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10612 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10660 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10706 ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10752 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10800 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10847 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10895 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10943 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10991 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11039 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11087 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
11135 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11183 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11231 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11279 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
11326 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
11373 ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11421 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
11467 ACAT ACAT ACAT ATAC ACAT ACAG ACCT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11514 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11562 ACAT ACAT ACAT ACAT ACAT ACAT ACCAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT
11611 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11659 ACAT ACAT ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11705 ACAT ACAT ACAT ACAT ACACT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11754 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11801 ACAT ACAT ACAT AC-T ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11847 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11895 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
11943 ACAT ACAT -CAT ACAT ACAT ACCT ACAT ACAT --AT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11988 ACAT ACAT ACAT ACAT A-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12035 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
12083 ACCT ACAT A-AT ACAT ACAT ACAT ACAT ACAT ACAT A-AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
12129 ACAT ACAT ACGT ACA
1 ACAT ACAT ACAT ACA
12144 AGAAGAGTCT
Statistics
Matches: 1849, Mismatches: 22, Indels: 66
0.95 0.01 0.03
Matches are distributed among these distances:
2 16 0.01
3 42 0.02
4 1779 0.96
5 12 0.01
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:13299 original size:15 final size:16
Alignment explanation
Indices: 13263--13305 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 16
13253 CTTTCGTAGA
13263 TATAATCCAATTCTGGGT
1 TATAAT-CAATTCT-GGT
13281 TATAATCAATTCT-GT
1 TATAATCAATTCTGGT
13296 TATAATCAAT
1 TATAATCAAT
13306 AGGAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.48
17 7 0.28
18 6 0.24
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (16 bp):
TATAATCAATTCTGGT
Found at i:14837 original size:24 final size:24
Alignment explanation
Indices: 14810--14866 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
14800 CGAGTTAACT
* * *
14810 AAGTCAACTCAGATTGAGTTGATC
1 AAGTTAACTCAAACTGAGTTGATC
14834 AAGTTAACTCAAACTGAGTTGATC
1 AAGTTAACTCAAACTGAGTTGATC
*
14858 GAGTTAACT
1 AAGTTAACT
14867 AAGAACTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (24 bp):
AAGTTAACTCAAACTGAGTTGATC
Found at i:22987 original size:19 final size:19
Alignment explanation
Indices: 22965--23007 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22955 TTGGATTCTA
22965 TTTATG-ATATATGAATATT
1 TTTATGCATATAT-AATATT
* *
22984 TTTATGCATTTATAATTTT
1 TTTATGCATATATAATATT
23003 TTTAT
1 TTTAT
23008 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTATGCATATATAATATT
Found at i:23016 original size:12 final size:12
Alignment explanation
Indices: 22992--23025 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22982 TTTTTATGCA
22992 TTTATAA-TTTT
1 TTTATAATTTTT
23003 TTTATAATTTTT
1 TTTATAATTTTT
*
23015 TTTATGATTTT
1 TTTATAATTTT
23026 ATATGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTATAATTTTT
Found at i:23025 original size:11 final size:11
Alignment explanation
Indices: 22992--23016 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22982 TTTTTATGCA
22992 TTTATAATTTT
1 TTTATAATTTT
23003 TTTATAATTTT
1 TTTATAATTTT
23014 TTT
1 TTT
23017 TATGATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATAATTTT
Found at i:31255 original size:17 final size:17
Alignment explanation
Indices: 31233--31267 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31223 ACGAATAATT
31233 CTTATTTAGATTGTATG
1 CTTATTTAGATTGTATG
31250 CTTATTTAGATTGTATG
1 CTTATTTAGATTGTATG
31267 C
1 C
31268 CTCGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (17 bp):
CTTATTTAGATTGTATG
Found at i:32286 original size:21 final size:21
Alignment explanation
Indices: 32261--32303 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32251 ATTTAACGTG
32261 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
32282 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
32303 T
1 T
32304 ATTGAGCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TTATTTGTTTTATAATTACAA
Found at i:32709 original size:36 final size:36
Alignment explanation
Indices: 32661--32755 Score: 172
Period size: 36 Copynumber: 2.6 Consensus size: 36
32651 TTAGCCGCGA
*
32661 TAAATGTTATTAAACGATTTTGATATAACAAAGGGC
1 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
*
32697 TAAATGTAATTAAACGATTTTGATATAATAAAGGGC
1 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
32733 TAAATGTAATTAAACGATTTTGA
1 TAAATGTAATTAAACGATTTTGA
32756 AATTTGTAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (36 bp):
TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
Found at i:34257 original size:18 final size:18
Alignment explanation
Indices: 34234--34284 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
34224 AAAGTCAATC
34234 TTTGATTTTGAAAATTGT
1 TTTGATTTTGAAAATTGT
34252 TTTGATTTTGAAAATTGT
1 TTTGATTTTGAAAATTGT
34270 TTTGATTTTGAAAAT
1 TTTGATTTTGAAAAT
34285 AAACTCAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (18 bp):
TTTGATTTTGAAAATTGT
Found at i:38416 original size:21 final size:21
Alignment explanation
Indices: 38392--38452 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
38382 GGCAACCAAC
38392 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
**
38413 TTTGGTAAATG--TTTC----
1 TTTGAAAAATGTTTTTCAAAG
38428 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
38449 TTTG
1 TTTG
38453 GTAAAGTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 9 0.30
17 4 0.13
19 4 0.13
21 13 0.43
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTGAAAAATGTTTTTCAAAG
Found at i:38438 original size:36 final size:35
Alignment explanation
Indices: 38391--38461 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 35
38381 TGGCAACCAA
38391 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAA-GTTT
38427 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
38462 GATAGATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 4 0.11
36 31 0.89
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (35 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
Found at i:39475 original size:21 final size:21
Alignment explanation
Indices: 39449--39491 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39439 ATTTAACGTG
39449 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
39470 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
39491 T
1 T
39492 ATTGAGCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TTATTTGTTTTATAATTACAA
Found at i:47582 original size:20 final size:20
Alignment explanation
Indices: 47535--47590 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
47525 AAAACCAGTA
* *
47535 CCCCAGTGGGGTATCGATTT
1 CCCCAGGGGGGTATCGAATT
47555 CCCCAGGGGGGTATC-AATT
1 CCCCAGGGGGGTATCGAATT
*
47574 CCCCTAGGGGGGAATCG
1 CCCC-AGGGGGGTATCG
47591 GTTCCCCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.18, C:0.27, G:0.34, T:0.21
Consensus pattern (20 bp):
CCCCAGGGGGGTATCGAATT
Found at i:47595 original size:20 final size:20
Alignment explanation
Indices: 47553--47619 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 20
47543 GGGTATCGAT
* **
47553 TTCCCC-AGGGGGGTATCAA
1 TTCCCCTAGGGGGGAATCGG
47572 TTCCCCTAGGGGGGAATCGG
1 TTCCCCTAGGGGGGAATCGG
*
47592 TTCCCCTTCAAAGGGGGAATCGG
1 TTCCCC-T--AGGGGGGAATCGG
47615 TTCCC
1 TTCCC
47620 TCATGAGAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.15
20 16 0.40
21 1 0.03
23 17 0.43
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.22
Consensus pattern (20 bp):
TTCCCCTAGGGGGGAATCGG
Found at i:51339 original size:20 final size:21
Alignment explanation
Indices: 51301--51340 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
51291 GAAGCTTTAA
* *
51301 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACCTTTGAT
51322 GATCATC-ATTTACCTTTGA
1 GATCATCAATTTACCTTTGA
51341 AAGTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACCTTTGAT
Found at i:51653 original size:15 final size:15
Alignment explanation
Indices: 51633--51671 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
51623 TTCTTGTTCC
51633 TCTTCATCGAAACCT
1 TCTTCATCGAAACCT
*
51648 TCTTCATCGGAACCT
1 TCTTCATCGAAACCT
51663 TCTTCATCG
1 TCTTCATCG
51672 CTCCATGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.33, G:0.10, T:0.36
Consensus pattern (15 bp):
TCTTCATCGAAACCT
Found at i:54166 original size:20 final size:21
Alignment explanation
Indices: 54131--54178 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
54121 GTAGTGGGTT
54131 AAACCTACCATAAGGGG-TTCG
1 AAACC-ACCATAAGGGGTTTCG
*
54152 AAACCACCTTAAGGGGTTTCG
1 AAACCACCATAAGGGGTTTCG
54173 AAACCA
1 AAACCA
54179 AGCTCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (21 bp):
AAACCACCATAAGGGGTTTCG
Found at i:55538 original size:23 final size:23
Alignment explanation
Indices: 55494--55538 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
55484 CATTCAATAG
*
55494 CTTCTAGAAGACCCAGTCAGCAA
1 CTTCTAGAAGACCCAATCAGCAA
* *
55517 CTTCTAGAAGATCCAATTAGCA
1 CTTCTAGAAGACCCAATCAGCA
55539 GTGGCGTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (23 bp):
CTTCTAGAAGACCCAATCAGCAA
Found at i:60038 original size:21 final size:21
Alignment explanation
Indices: 60013--60055 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
60003 ATTTAACGTG
60013 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
60034 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
60055 T
1 T
60056 ATTGAGCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TTATTTGTTTTATAATTACAA
Found at i:60454 original size:36 final size:36
Alignment explanation
Indices: 60407--60501 Score: 181
Period size: 36 Copynumber: 2.6 Consensus size: 36
60397 TTAGCCGCGA
60407 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
1 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
*
60443 TAAATGTAATTAAACGATTTTGATATAATAAAGGGC
1 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
60479 TAAATGTAATTAAACGATTTTGA
1 TAAATGTAATTAAACGATTTTGA
60502 AATTTGTAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (36 bp):
TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
Found at i:66154 original size:21 final size:21
Alignment explanation
Indices: 66130--66190 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
66120 GGCAACCAAC
66130 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
**
66151 TTTGGTAAATG--TTTC----
1 TTTGAAAAATGTTTTTCAAAG
66166 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
66187 TTTG
1 TTTG
66191 GTAGATGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 9 0.30
17 4 0.13
19 4 0.13
21 13 0.43
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTGAAAAATGTTTTTCAAAG
Found at i:66176 original size:36 final size:36
Alignment explanation
Indices: 66129--66208 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
66119 TGGCAACCAA
66129 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
66165 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
66201 -GTTGAAAA
1 CTTTGAAAA
66209 TAGGAATGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:67229 original size:21 final size:21
Alignment explanation
Indices: 67204--67246 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
67194 ATTTAACGTG
67204 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
67225 TTATTTGTTTTATAATTACAA
1 TTATTTGTTTTATAATTACAA
67246 T
1 T
67247 ATTGAGCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TTATTTGTTTTATAATTACAA
Found at i:67645 original size:36 final size:36
Alignment explanation
Indices: 67598--67692 Score: 181
Period size: 36 Copynumber: 2.6 Consensus size: 36
67588 TTAGCCGCGA
67598 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
1 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
*
67634 TAAATGTAATTAAACGATTTTGATATAATAAAGGGC
1 TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
67670 TAAATGTAATTAAACGATTTTGA
1 TAAATGTAATTAAACGATTTTGA
67693 AATTTGTAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (36 bp):
TAAATGTAATTAAACGATTTTGATATAACAAAGGGC
Found at i:78415 original size:21 final size:21
Alignment explanation
Indices: 78391--78433 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
78381 CCTGCTCAAT
78391 ATTGTAATTATAAAACAAATA
1 ATTGTAATTATAAAACAAATA
78412 ATTGTAATTATAAAACAAATA
1 ATTGTAATTATAAAACAAATA
78433 A
1 A
78434 CACGTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTGTAATTATAAAACAAATA
Found at i:80624 original size:65 final size:64
Alignment explanation
Indices: 80488--80624 Score: 139
Period size: 65 Copynumber: 2.1 Consensus size: 64
80478 TGTGATCAAT
* * ** * *
80488 TGATGACGTGACACATGTTACGTCACCCAAAATGATAATGTGGCATGTGGCATGTCACCCATAG
1 TGATGACATGACACATGTTACGTCACCCAAAATGATAACGAAGCATGTGGCATGTCACCCAAAA
* ** * * * **
80552 TGCTGACATGACATGTGTTATGTCACCTCCAAATGATAACGAAGCATGTGTCATGTTGCCCAAAA
1 TGATGACATGACACATGTTACGTCACC-CAAAATGATAACGAAGCATGTGGCATGTCACCCAAAA
80617 TGATGACA
1 TGATGACA
80625 CGGAACATAT
Statistics
Matches: 57, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
64 22 0.39
65 35 0.61
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (64 bp):
TGATGACATGACACATGTTACGTCACCCAAAATGATAACGAAGCATGTGGCATGTCACCCAAAA
Found at i:82998 original size:23 final size:23
Alignment explanation
Indices: 82953--82999 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
82943 GCTAATTGGA
* * *
82953 TCTTCTAGAAGTTGCTGACTGGG
1 TCTTCTAGAAGCTACTGAATGGG
*
82976 TCTTCTAGAAGCTATTGAATGGG
1 TCTTCTAGAAGCTACTGAATGGG
82999 T
1 T
83000 GCCACATCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (23 bp):
TCTTCTAGAAGCTACTGAATGGG
Found at i:84325 original size:20 final size:21
Alignment explanation
Indices: 84291--84338 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
84281 TTTTTGAGCT
84291 TGGTTTCGAAACCCCTTAAGG
1 TGGTTTCGAAACCCCTTAAGG
*
84312 TGGTTTCG-AACCCCTTATGG
1 TGGTTTCGAAACCCCTTAAGG
84332 TAGGTTT
1 T-GGTTT
84339 AACCCACTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (21 bp):
TGGTTTCGAAACCCCTTAAGG
Found at i:90889 original size:19 final size:18
Alignment explanation
Indices: 90867--90914 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
90857 GGAACCAATT
*
90867 CCCCCTAGGGGAATTGATA
1 CCCCCT-GGGGAATCGATA
90886 CCCCCTGTGGGAATCGATA
1 CCCCCTG-GGGAATCGATA
90905 CCCCCTGGGG
1 CCCCCTGGGG
90915 TACTGGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (18 bp):
CCCCCTGGGGAATCGATA
Found at i:101117 original size:18 final size:18
Alignment explanation
Indices: 101094--101144 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
101084 CTCTGAGTTT
101094 ATTTTCAAAATCAAAACA
1 ATTTTCAAAATCAAAACA
*
101112 ATTTTCAAAATTAAAACA
1 ATTTTCAAAATCAAAACA
101130 ATTTTCAAAATCAAA
1 ATTTTCAAAATCAAA
101145 GATTGACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTTTCAAAATCAAAACA
Found at i:102671 original size:36 final size:36
Alignment explanation
Indices: 102624--102718 Score: 172
Period size: 36 Copynumber: 2.6 Consensus size: 36
102614 GTTACAAATT
102624 TCAAAATCGTTTAATTACATTTAGCCCTTTATTATA
1 TCAAAATCGTTTAATTACATTTAGCCCTTTATTATA
*
102660 TCAAAATCGTTTAATTACATTTAGCCCTTTGTTATA
1 TCAAAATCGTTTAATTACATTTAGCCCTTTATTATA
*
102696 TCAAAATCGTTTAATAACATTTA
1 TCAAAATCGTTTAATTACATTTA
102719 TCGCGGCTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (36 bp):
TCAAAATCGTTTAATTACATTTAGCCCTTTATTATA
Found at i:103099 original size:21 final size:21
Alignment explanation
Indices: 103075--103117 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
103065 CCTGCTCAAT
103075 ATTGTAATTATAAAACAAATA
1 ATTGTAATTATAAAACAAATA
103096 ATTGTAATTATAAAACAAATA
1 ATTGTAATTATAAAACAAATA
103117 A
1 A
103118 CACGTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTGTAATTATAAAACAAATA
Found at i:115074 original size:24 final size:24
Alignment explanation
Indices: 115047--115092 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
115037 TTAACTTGGT
115047 CAACTCTA-TCTGAGTTGACTCAAC
1 CAACTC-AGTCTGAGTTGACTCAAC
*
115071 CAACTCAGTTTGAGTTGACTCA
1 CAACTCAGTCTGAGTTGACTCA
115093 GCTTCTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (24 bp):
CAACTCAGTCTGAGTTGACTCAAC
Found at i:115247 original size:22 final size:23
Alignment explanation
Indices: 115200--115247 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
115190 CTCGTGAGGT
* *
115200 AAACAAACACCATAATCATTCGA
1 AAACAAACACCAAAATCATACGA
115223 AAAC-AACACCAAAAATCATAC-A
1 AAACAAACACC-AAAATCATACGA
115245 AAA
1 AAA
115248 TACGATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.60, C:0.25, G:0.02, T:0.12
Consensus pattern (23 bp):
AAACAAACACCAAAATCATACGA
Found at i:119463 original size:25 final size:26
Alignment explanation
Indices: 119424--119477 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
119414 ACTCAAAATG
* *
119424 TTGAAAAAC-ATAAAATATAACATTT
1 TTGAAAAACAAAAAAAAATAACATTT
* *
119449 TTGAAAAAGAAAAAAAAATAACTTTT
1 TTGAAAAACAAAAAAAAATAACATTT
119475 TTG
1 TTG
119478 TTAAAATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (26 bp):
TTGAAAAACAAAAAAAAATAACATTT
Found at i:119615 original size:24 final size:24
Alignment explanation
Indices: 119566--119635 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
119556 ACTAGTTCTT
* * *
119566 AGTTAACTCGGTCAACTC-AGTTTG
1 AGTTAACTTGATCAACTCGA-TCTG
119590 AGTTAACTTGATCAACTCGATCTG
1 AGTTAACTTGATCAACTCGATCTG
* *
119614 AGTTGACTT-AGTTAACTCGATC
1 AGTTAACTTGA-TCAACTCGATC
119636 CAAGTTGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (24 bp):
AGTTAACTTGATCAACTCGATCTG
Found at i:121147 original size:15 final size:15
Alignment explanation
Indices: 121127--121184 Score: 89
Period size: 15 Copynumber: 3.7 Consensus size: 15
121117 TTGTTTTCCT
121127 ATTGATTATAACAGA
1 ATTGATTATAACAGA
121142 ATTGATTATAACAGA
1 ATTGATTATAACAGA
121157 ATTGATTATAACCCAGA
1 ATTGATTATAA--CAGA
121174 ATTGGATTATA
1 ATT-GATTATA
121185 TCTACGAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 26 0.65
17 7 0.17
18 7 0.17
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (15 bp):
ATTGATTATAACAGA
Found at i:122387 original size:4 final size:4
Alignment explanation
Indices: 122378--124523 Score: 4202
Period size: 4 Copynumber: 538.8 Consensus size: 4
122368 AGGTCATTAT
122378 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122426 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122474 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122522 TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122568 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122616 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122664 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122712 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122758 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122806 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122854 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122902 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122950 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
122998 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123046 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123094 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123142 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
123190 TATG TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123238 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123286 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123334 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123382 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123430 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123478 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123526 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123574 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123622 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123670 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123718 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123766 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123814 TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123860 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123908 TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123955 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124003 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124051 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124099 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124147 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124195 TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124241 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124289 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124337 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124385 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124433 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
124481 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
124524 GTTTACAGTA
Statistics
Matches: 2129, Mismatches: 4, Indels: 18
0.99 0.00 0.01
Matches are distributed among these distances:
2 8 0.00
3 3 0.00
4 2118 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:125004 original size:59 final size:60
Alignment explanation
Indices: 124924--125054 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
124914 AATTAATCTA
* *
124924 TAAACTTTTAAACATTCTAA-TTAATCCTCAAAA-AATGATACTCATTCTAAATTAGCCCT
1 TAAACTTTTAAACATTATAATTTAATCCT-AAAACAATGACACTCATTCTAAATTAGCCCT
* * * * * *
124983 TAAACTTTTGAATATTATAATTTCATCCTAAAACTATGACCCTCATTCTAAATTGGACCC-
1 TAAACTTTTAAACATTATAATTTAATCCTAAAACAATGACACTCATTCTAAATTAG-CCCT
*
125043 CAAACTTTTAAA
1 TAAACTTTTAAA
125055 TCTTCCAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
59 21 0.36
60 35 0.59
61 3 0.05
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.36
Consensus pattern (60 bp):
TAAACTTTTAAACATTATAATTTAATCCTAAAACAATGACACTCATTCTAAATTAGCCCT
Found at i:128850 original size:31 final size:31
Alignment explanation
Indices: 128778--128861 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 31
128768 AAATTACACA
*
128778 TTTAGTACCTAAACTATCAGTTTTGATACAT
1 TTTAGTACCTAAACTATCAATTTTGATACAT
* *
128809 TTT-GTACCTAAACTATCAATTTTG-TCCCGT
1 TTTAGTACCTAAACTATCAATTTTGAT-ACAT
*
128839 TTTAGTACCTAAACT-TCCATTTT
1 TTTAGTACCTAAACTATCAATTTT
128862 TTCAAAAGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.02
30 32 0.68
31 14 0.30
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (31 bp):
TTTAGTACCTAAACTATCAATTTTGATACAT
Found at i:131192 original size:339 final size:338
Alignment explanation
Indices: 129645--131327 Score: 2936
Period size: 339 Copynumber: 5.0 Consensus size: 338
129635 ACAAATAAAT
129645 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
* *
129710 ATGAAAAAATAATATTTTTTTATAGAATTGAAATCTGAGATTAGTATATTAAATTATTTAATCAC
66 ATGAAAAAATAATA-TTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
*
129775 TTGTAAGAGATG--------AAAA-TTAAA--AA----AATT-AAATCTGAGATTATAATATGGG
130 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGG
* *
129824 TTGATGAAAGATATTATAAGCAGGTATAGACGTAGGATTTATGTTAAGGGAGGTAAACCTGAACT
195 TTGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
*
129889 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGAGGTCAAAACAGATATTTGATAG
260 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
129954 AAAATCATTAAAAAA
325 AAAATCATT-AAAAA
*
129969 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGTGCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
*
130034 ATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAACCACT
66 ATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCACT
*
130099 TGTAAGAGATGAAATTTAAAAAACTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGGT
131 TGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGGT
* *
130164 TGATGAAAGATATTATAAGCAGGTAAAAACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
196 TGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
*
130229 ATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCATGGGTCAAAACAGATATTTGATAGA
261 ATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAGA
130294 AAATCATTAAAAA
326 AAATCATTAAAAA
130307 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
130372 ATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCACT
66 ATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCACT
*
130437 TGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATATGGGT
131 TGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGGT
*
130502 TGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
196 TGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
130567 ATAAAATTTT-GGGGAGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
261 ATAAAATTTTAGGGG-GAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
130631 AAAATCATT-AAAA
325 AAAATCATTAAAAA
*
130644 ATCTAAATTGTTTTCATTAACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
130709 ATGAAAAAATAATA-TTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCACT
66 ATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCACT
* * *
130773 TGTAAAATATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATATGAGATTATAATACGGGT
131 TGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGGT
130838 TGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
196 TGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
*
130903 ATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCAAGGGGTCAAAACAGATATTTGATAGA
261 ATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAGA
*
130968 AAATGATTAAAAA
326 AAATCATTAAAAA
* *
130981 ATCTATATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCTCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
* *
131046 ATGAATAAATAATATTTTTTTATTGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
66 ATGAAAAAATAATA-TTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
*
131111 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTAAGATTATAATACGGG
130 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGG
*
131176 TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
195 TTGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
* *
131241 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTTCAGGGGTCAAAACAAATATTTGATAG
260 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
131306 AAAATCATTAAAAAA
325 AAAATCATT-AAAAA
131321 ATCTAAA
1 ATCTAAA
131328 ATATAAGGTA
Statistics
Matches: 1296, Mismatches: 41, Indels: 28
0.95 0.03 0.02
Matches are distributed among these distances:
323 59 0.05
324 78 0.06
331 4 0.00
332 5 0.00
334 2 0.00
336 241 0.19
337 169 0.13
338 329 0.25
339 398 0.31
340 11 0.01
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.35
Consensus pattern (338 bp):
ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
ATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCACT
TGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATACGGGT
TGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACTT
ATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAGA
AAATCATTAAAAA
Found at i:131219 original size:675 final size:676
Alignment explanation
Indices: 129645--131319 Score: 2956
Period size: 675 Copynumber: 2.5 Consensus size: 676
129635 ACAAATAAAT
129645 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
* *
129710 ATGAAAAAATAATATTTTTTTATAGAATTGAAATCTGAGATTAGTATATTAAATTATTTAATCAC
66 ATGAAAAAATAATATTTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
129775 TTGTAAGAGATG--------AAAA-TTAAA--AA----AATT-AAATCTGAGATTATAATATGGG
131 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATATGGG
* * *
129824 TTGATGAAAGATATTATAAGCAGGTATAGACGTAGGATTTATGTTAAGGGAGGTAAACCTGAACT
196 TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
*
129889 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGAGGTCAAAACAGATATTTGATAG
261 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
*
129954 AAAATCATTAAAAAAATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAA
326 AAAATCATT--AAAAATCTAAATTGTTTTCATTAACGAATACTAACAATCTTTCTATATCATGAA
*
130019 TAACTTGTGCTTTCAATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTA
389 TAACTTGCGCTTTCAATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTA
* *
130084 ATTTATTTAACCACTTGTAAGAGATGAAATTTAAAAAACTTAAATTAATTTCAATTGAAATCTGA
454 ATTTATTTAACCACTTGTAAAAGATGAAATTTAAAAAACTTAAATTAATTTCAATTGAAATATGA
130149 GATTATAATACGGGTTGATGAAAGATATTATAAGCAGGTAAAAACGTAGGATTTATGTTAAGGGA
519 GATTATAATACGGGTTGATGAAAGATATTATAAGCAGGTAAAAACGTAGGATTTATGTTAAGGGA
* *
130214 GGTAAACTTGAACTTATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCATGGGTCAAAA
584 GGTAAACTTGAACTTATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCAAGGGGTCAAAA
130279 CAGATATTTGATAGAAAATCATTAAAAA
649 CAGATATTTGATAGAAAATCATTAAAAA
130307 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
130372 ATGAAAAAATAATA-TTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
66 ATGAAAAAATAATATTTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
130436 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATATGGG
131 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATATGGG
130501 TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
196 TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
130566 TATAAAATTTT-GGGGAGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATA
261 TATAAAATTTTAGGGG-GAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATA
130630 GAAAATCATTAAAAATCTAAATTGTTTTCATTAACGAATACTAACAATCTTTCTATATCATGAAT
325 GAAAATCATTAAAAATCTAAATTGTTTTCATTAACGAATACTAACAATCTTTCTATATCATGAAT
130695 AACTTGCGCTTTCAATGAAAAAATAATA-TTTTTATAGAATTGAAATCTGAGATTAGTCTATTAA
390 AACTTGCGCTTTCAATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAA
* * *
130759 TTTATTTAATCACTTGTAAAATATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATATGAG
455 TTTATTTAACCACTTGTAAAAGATGAAATTTAAAAAACTTAAATTAATTTCAATTGAAATATGAG
* *
130824 ATTATAATACGGGTTGATGAAAGATATTATAAGCAGGTACAGACGTAGGATTTATGTTAAGGGAG
520 ATTATAATACGGGTTGATGAAAGATATTATAAGCAGGTAAAAACGTAGGATTTATGTTAAGGGAG
130889 GTAAACTTGAACTTATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCAAGGGGTCAAAAC
585 GTAAACTTGAACTTATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCAAGGGGTCAAAAC
*
130954 AGATATTTGATAGAAAATGATTAAAAA
650 AGATATTTGATAGAAAATCATTAAAAA
* *
130981 ATCTATATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCTCTTTCA
1 ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
* *
131046 ATGAATAAATAATATTTTTTTATTGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
66 ATGAAAAAATAATATTTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
* *
131111 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTAAGATTATAATACGGG
131 TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATATGGG
131176 TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
196 TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
* *
131241 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTTCAGGGGTCAAAACAAATATTTGATAG
261 TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
131306 AAAATCATTAAAAA
326 AAAATCATTAAAAA
131320 AATCTAAAAT
Statistics
Matches: 968, Mismatches: 26, Indels: 25
0.95 0.03 0.02
Matches are distributed among these distances:
661 60 0.06
662 79 0.08
669 4 0.00
670 5 0.01
672 2 0.00
674 324 0.33
675 330 0.34
676 12 0.01
677 152 0.16
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.35
Consensus pattern (676 bp):
ATCTAAATTGTTTTCATTGACGAATACTAACAATCTTTCTATATCATGAATAACTTGCGCTTTCA
ATGAAAAAATAATATTTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAATTTATTTAATCAC
TTGTAAGAGATGAAATTTAAAAAATTTAAATTAATTTCAATTGAAATCTGAGATTATAATATGGG
TTGATGAAAGATATTATAAGTAGGTACAGACGTAGGATTTATGTTAAGGGAGGTAAACTTGAACT
TATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCCAGGGGTCAAAACAGATATTTGATAG
AAAATCATTAAAAATCTAAATTGTTTTCATTAACGAATACTAACAATCTTTCTATATCATGAATA
ACTTGCGCTTTCAATGAAAAAATAATATTTTTTATAGAATTGAAATCTGAGATTAGTCTATTAAT
TTATTTAACCACTTGTAAAAGATGAAATTTAAAAAACTTAAATTAATTTCAATTGAAATATGAGA
TTATAATACGGGTTGATGAAAGATATTATAAGCAGGTAAAAACGTAGGATTTATGTTAAGGGAGG
TAAACTTGAACTTATAAAATTTTAGGGGGAGAATTTAAACTTATAAAATTCAAGGGGTCAAAACA
GATATTTGATAGAAAATCATTAAAAA
Found at i:132816 original size:22 final size:21
Alignment explanation
Indices: 132791--132833 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
132781 AACAACCGAG
*
132791 AAAGAAGAACAAAAATGTGCCA
1 AAAGAAG-ACAAAAACGTGCCA
* *
132813 AAAGTAGAGAAAAACGTGCCA
1 AAAGAAGACAAAAACGTGCCA
132834 CAAATACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.14, G:0.21, T:0.09
Consensus pattern (21 bp):
AAAGAAGACAAAAACGTGCCA
Found at i:134781 original size:22 final size:20
Alignment explanation
Indices: 134756--134809 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
134746 TGTTGAGACT
* *
134756 GGTATCAATACCTTGAGGGATG
1 GGTATCGATACCTT-AAGGA-G
*
134778 GGTATCGGTACCTTAAGGAG
1 GGTATCGATACCTTAAGGAG
134798 GGTATCGATACC
1 GGTATCGATACC
134810 CCTAAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCTTAAGGAG
Found at i:135334 original size:21 final size:21
Alignment explanation
Indices: 135291--135340 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
135281 GCGTTATGAA
* *
135291 AATATGAACTTTGAACATGTG
1 AATATGAACTTCGAACATATG
135312 AATATGAACTTCGAATCA-ATG
1 AATATGAACTTCGAA-CATATG
*
135333 AATGTGAA
1 AATATGAA
135341 TATACTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (21 bp):
AATATGAACTTCGAACATATG
Found at i:135550 original size:23 final size:22
Alignment explanation
Indices: 135495--135568 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
135485 TCAGGACAAT
* *
135495 TATGTGGTCCTCCGG-GACAAA-
1 TATGTGGTACTTCGGTG-CAAAC
* *
135516 TATGTGGCACTTCGGTGCAACC
1 TATGTGGTACTTCGGTGCAAAC
* *
135538 TTATGTGGTACTTTGGTGTAAAC
1 -TATGTGGTACTTCGGTGCAAAC
135561 TATGTGGT
1 TATGTGGT
135569 CCTTTGGGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.36
22 9 0.21
23 18 0.43
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (22 bp):
TATGTGGTACTTCGGTGCAAAC
Found at i:135567 original size:22 final size:23
Alignment explanation
Indices: 135516--135575 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
135506 CCGGGACAAA
* * *
135516 TATGTGGCACTTCGGTGCAACCT
1 TATGTGGTACTTTGGTGCAAACT
*
135539 TATGTGGTACTTTGGTGTAAAC-
1 TATGTGGTACTTTGGTGCAAACT
*
135561 TATGTGGTCCTTTGG
1 TATGTGGTACTTTGG
135576 GACAATTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (23 bp):
TATGTGGTACTTTGGTGCAAACT
Found at i:135587 original size:21 final size:21
Alignment explanation
Indices: 135474--135588 Score: 92
Period size: 21 Copynumber: 5.3 Consensus size: 21
135464 GTTGAGGGTA
*
135474 TATGTGGTCCTTCAGGACAAT
1 TATGTGGTCCTTCGGGACAAT
* *
135495 TATGTGGTCCTCCGGGACAAA
1 TATGTGGTCCTTCGGGACAAT
135516 TATGTGG-CACTTCGGTG-CAACCT
1 TATGTGGTC-CTTCGG-GACAA--T
* * *
135539 TATGTGGTACTTTGGTGTA-AAC
1 TATGTGGTCCTTCGG-G-ACAAT
*
135561 TATGTGGTCCTTTGGGACAAT
1 TATGTGGTCCTTCGGGACAAT
135582 TATGTGG
1 TATGTGG
135589 CAATTCGATG
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
20 2 0.03
21 43 0.57
22 15 0.20
23 14 0.18
24 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAT
Found at i:141786 original size:54 final size:54
Alignment explanation
Indices: 141717--141831 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
141707 GGGATGAGTG
*
141717 TCGGTACCTTAAGGAGGGTATCAATACCC-TAAAACATCGAATGCCA-TTTGTGTA
1 TCGGTACCTTAAGGA-GGTATCAATACCCTTAAAACATCGAATGCAATTTTG-GTA
* * **
141771 TCGGTACCTTGAGGAGGTATCGATACCCTTGCAACATCGAATGCAATTTTGGTA
1 TCGGTACCTTAAGGAGGTATCAATACCCTTAAAACATCGAATGCAATTTTGGTA
141825 TCGGTAC
1 TCGGTAC
141832 ATGCGTAGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 12 0.22
54 38 0.70
55 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (54 bp):
TCGGTACCTTAAGGAGGTATCAATACCCTTAAAACATCGAATGCAATTTTGGTA
Found at i:141842 original size:53 final size:54
Alignment explanation
Indices: 141717--141851 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 54
141707 GGGATGAGTG
* * * ** *
141717 TCGGTACCTTAAGGAGGGTATCAATACCC-TAAAACATCGAATGCCATTTGTGTA
1 TCGGTACCATGAGGA-GGTATCGATACCCTTGCAACATCGAATGCAATTTGTGTA
*
141771 TCGGTACCTTGAGGAGGTATCGATACCCTTGCAACATCGAATGCAATTT-TGGTA
1 TCGGTACCATGAGGAGGTATCGATACCCTTGCAACATCGAATGCAATTTGT-GTA
* * *
141825 TCGGTA-CATGCGTAGGTATTGATACCC
1 TCGGTACCATGAGGAGGTATCGATACCC
141852 CTGAAGGGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 30 0.43
54 40 0.57
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (54 bp):
TCGGTACCATGAGGAGGTATCGATACCCTTGCAACATCGAATGCAATTTGTGTA
Found at i:142254 original size:21 final size:21
Alignment explanation
Indices: 142230--142279 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
142220 GTGTTATGAA
*
142230 AATATGAACTTTGAA-CATGTG
1 AATATGAACTTCGAATCA-GTG
142251 AATATGAACTTCGAATCAGTG
1 AATATGAACTTCGAATCAGTG
*
142272 AATGTGAA
1 AATATGAA
142280 TATTCTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (21 bp):
AATATGAACTTCGAATCAGTG
Found at i:142486 original size:23 final size:23
Alignment explanation
Indices: 142456--142517 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
142446 GGGACAAATG
142456 TGGCACTTCGGTGCAACCTTATA
1 TGGCACTTCGGTGCAACCTTATA
*
142479 TGGCACTTCGGTGCAACCTTATG
1 TGGCACTTCGGTGCAACCTTATA
142502 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
142518 ACTATATAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAACCTTATA
Found at i:147702 original size:20 final size:20
Alignment explanation
Indices: 147677--147809 Score: 124
Period size: 20 Copynumber: 6.6 Consensus size: 20
147667 TAATTGAAAA
*
147677 TCGCGTTGCGCTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
147697 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
147717 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
147738 TCGCGTTGCG-CTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
147757 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
147778 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
147798 TCGCATTGCGAT
1 TCGCGTTGCGAT
147810 AGTCTACAGT
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
19 13 0.15
20 45 0.52
21 28 0.33
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:147721 original size:61 final size:60
Alignment explanation
Indices: 147652--147768 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 60
147642 ATTCTCGTTG
147652 CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGC-TTTCCATTTCGCGTTGCGATTTTC
*
147713 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGCTTTCCATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTCCATTTCGCGTTGCGAT
147769 AGTTGAAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
60 20 0.36
61 35 0.64
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (60 bp):
CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTCCATTTCGCGTTGCGATTTTC
Found at i:147753 original size:40 final size:41
Alignment explanation
Indices: 147697--147812 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 41
147687 CTTTTCCATT
147697 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
147738 TCGCGTTGCG-CTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
147778 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
147813 CTACAGTTGT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 39 0.55
41 32 0.45
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:147782 original size:61 final size:61
Alignment explanation
Indices: 147656--147789 Score: 198
Period size: 61 Copynumber: 2.2 Consensus size: 61
147646 TCGTTGCATT
* * **
147656 TCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGATGTTCAAAA
* *
147717 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGC-TTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGAT-GTTCAAAA
147778 TCGCGTTGCGAT
1 TCGCGTTGCGAT
147790 TTTCCATTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 20 0.30
61 46 0.70
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (61 bp):
TCGCGTTGCGATAATTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGATGTTCAAAA
Found at i:147831 original size:22 final size:22
Alignment explanation
Indices: 147803--147853 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
147793 CCATTTCGCA
147803 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
147825 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
147847 TTGCGAT
1 TTGCGAT
147854 TTTCCAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (22 bp):
TTGCGATAGTCTACAGTTGTCG
Found at i:147974 original size:6 final size:6
Alignment explanation
Indices: 147963--148007 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
147953 GACACGTATT
147963 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
148008 CGAGACGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:150289 original size:16 final size:16
Alignment explanation
Indices: 150268--150299 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
150258 TCTATTTTGG
150268 AACGTTAATCATTCGT
1 AACGTTAATCATTCGT
150284 AACGTTAATCATTCGT
1 AACGTTAATCATTCGT
150300 GTGTTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
AACGTTAATCATTCGT
Found at i:151229 original size:14 final size:16
Alignment explanation
Indices: 151200--151231 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
151190 CGTTCGTGAA
151200 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
151216 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
151230 CG
1 CG
151232 AACTGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:151537 original size:10 final size:10
Alignment explanation
Indices: 151507--151537 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
151497 TGTTTATGTT
151507 TGTTCGTTTA
1 TGTTCGTTTA
*
151517 CGTTCGTTTA
1 TGTTCGTTTA
151527 TGTTCGTTTA
1 TGTTCGTTTA
151537 T
1 T
151538 CATTTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:151628 original size:16 final size:16
Alignment explanation
Indices: 151603--151643 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
151593 AAAAAAAATT
*
151603 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
151619 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
151635 T-TT-ATTTAT
1 TGTTCATTTAT
151644 TAAATGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:156924 original size:23 final size:23
Alignment explanation
Indices: 156873--156923 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
156863 TAAGAAAATA
**
156873 AAAAAGCGTACCAAAAGCCAGAG
1 AAAAAGCGTACCAAAAAACAGAG
*
156896 AAAAAGCGTACTATAAAAACAGAG
1 AAAAAGCGTACCA-AAAAACAGAG
156920 AAAA
1 AAAA
156924 GTGTGCTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.59, C:0.16, G:0.18, T:0.08
Consensus pattern (23 bp):
AAAAAGCGTACCAAAAAACAGAG
Found at i:162469 original size:30 final size:31
Alignment explanation
Indices: 162435--162508 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
162425 AAATTACGTG
162435 TTTAGTATTTAAATTATTAATTTTGATCT-T
1 TTTAGTATTTAAATTATTAATTTTGATCTGT
*
162465 TTTAGTACTTAAATTATTAATTTTGATCTGT
1 TTTAGTATTTAAATTATTAATTTTGATCTGT
*
162496 TTTAGTATCTAAA
1 TTTAGTATTTAAA
162509 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 28 0.70
31 12 0.30
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.55
Consensus pattern (31 bp):
TTTAGTATTTAAATTATTAATTTTGATCTGT
Found at i:162704 original size:22 final size:22
Alignment explanation
Indices: 162672--162713 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
162662 CAACGGAGTC
* *
162672 TTAAAATAAAATAAAAATTATA
1 TTAAAACAAAACAAAAATTATA
162694 TTAAAACAAAACAAAAATTA
1 TTAAAACAAAACAAAAATTA
162714 AACGTTATGT
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:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAACAAAACAAAAATTATA
Found at i:175697 original size:33 final size:33
Alignment explanation
Indices: 175659--175726 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
175649 AAGACTTTAA
175659 AAAATGATATATTTTTATCATATTATTAAAATC
1 AAAATGATATATTTTTATCATATTATTAAAATC
175692 AAAATGATATATTTTTATCATATTATTAAAATC
1 AAAATGATATATTTTTATCATATTATTAAAATC
175725 AA
1 AA
175727 TAATTGCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (33 bp):
AAAATGATATATTTTTATCATATTATTAAAATC
Found at i:176365 original size:28 final size:28
Alignment explanation
Indices: 176325--176378 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
176315 AAACCAATCC
176325 GTCGGTAAATAATGATGTATTTTGATCT
1 GTCGGTAAATAATGATGTATTTTGATCT
176353 GTCGGTAAATAATGATGTATTTTGAT
1 GTCGGTAAATAATGATGTATTTTGAT
176379 GAAGTGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.43
Consensus pattern (28 bp):
GTCGGTAAATAATGATGTATTTTGATCT
Found at i:177040 original size:21 final size:22
Alignment explanation
Indices: 177007--177048 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
176997 ATGCACAAAG
*
177007 TCGGATAAAAAACTGATCCGGA
1 TCGGATAAAAAACCGATCCGGA
177029 TCGGAT-AAAAACCGATCCGG
1 TCGGATAAAAAACCGATCCGG
177049 TTTTTTCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (22 bp):
TCGGATAAAAAACCGATCCGGA
Found at i:178375 original size:29 final size:29
Alignment explanation
Indices: 178309--178507 Score: 165
Period size: 29 Copynumber: 7.0 Consensus size: 29
178299 CCGTTGACCG
* *
178309 GGTGGTATTTTGGTAATTATTTTGAAATT
1 GGTGCTATTTTGGTAATTATTTTGAAAAT
* * *
178338 GTTGGTATTCTGGTAATTATTTTGAAAAT
1 GGTGCTATTTTGGTAATTATTTTGAAAAT
* * *
178367 GGTGTTATTTTTGT-ATT-TTTT-AAAAA
1 GGTGCTATTTTGGTAATTATTTTGAAAAT
** **
178393 AATGCTATTTTCCTAATT-TTTTGAAAAAAT
1 GGTGCTATTTTGGTAATTATTTTG--AAAAT
* * * *
178423 GGTGATATTTTAGTAAATATTTTTAAAAT
1 GGTGCTATTTTGGTAATTATTTTGAAAAT
* *
178452 GGTGCTATTTTGCTAATTATTTTTAAAAT
1 GGTGCTATTTTGGTAATTATTTTGAAAAT
* *
178481 GGTGCTATTTTTGTAATT-TTTTAAAAA
1 GGTGCTATTTTGGTAATTATTTTGAAAA
178508 AAAGTGATAA
Statistics
Matches: 137, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
26 13 0.09
27 11 0.08
28 11 0.08
29 82 0.60
30 16 0.12
31 4 0.03
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.51
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTATTTTGAAAAT
Found at i:179317 original size:15 final size:15
Alignment explanation
Indices: 179281--179310 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
179271 ACAGTATTTT
*
179281 ATACTGATTCTCTGA
1 ATACTGATTATCTGA
179296 ATACTGATTATCTGA
1 ATACTGATTATCTGA
179311 TATCTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
ATACTGATTATCTGA
Found at i:180679 original size:5 final size:5
Alignment explanation
Indices: 180669--180701 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
180659 AACGGTCAAC
180669 GGTCG GGTCG GGTCG GGTCG GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
180702 AAACCGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.21, G:0.58, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:180689 original size:15 final size:14
Alignment explanation
Indices: 180669--180701 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
180659 AACGGTCAAC
180669 GGTCGGGTCGGGTCG
1 GGTCGGGTC-GGTCG
180684 GGTCGGGTCGGTCG
1 GGTCGGGTCGGTCG
180698 GGTC
1 GGTC
180702 AAACCGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.21, G:0.58, T:0.21
Consensus pattern (14 bp):
GGTCGGGTCGGTCG
Found at i:182248 original size:17 final size:17
Alignment explanation
Indices: 182226--182260 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
182216 AAATTACACA
182226 ACTCCTCGTTGAACTTT
1 ACTCCTCGTTGAACTTT
182243 ACTCCTCGTTGAACTTT
1 ACTCCTCGTTGAACTTT
182260 A
1 A
182261 TTCTCTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.11, T:0.40
Consensus pattern (17 bp):
ACTCCTCGTTGAACTTT
Found at i:185116 original size:15 final size:15
Alignment explanation
Indices: 185095--185133 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
185085 GTAATTTTTT
*
185095 CTCTCTTCCCCTTC-
1 CTCTCTTCCCCGTCA
185109 CTTCTCTTCCCCGTCA
1 C-TCTCTTCCCCGTCA
185125 CTCTCTTCC
1 CTCTCTTCC
185134 TATTCTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.03, C:0.54, G:0.03, T:0.41
Consensus pattern (15 bp):
CTCTCTTCCCCGTCA
Found at i:186153 original size:21 final size:21
Alignment explanation
Indices: 186127--186172 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
186117 CTCTAAATTA
* *
186127 TTGGCCTTTTGATGGGAAGCT
1 TTGGCCTCTTGATGGGAAACT
186148 TTGGCCTCTTGATGGGAAACT
1 TTGGCCTCTTGATGGGAAACT
186169 TTGG
1 TTGG
186173 ATCAATGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGGCCTCTTGATGGGAAACT
Found at i:187700 original size:23 final size:23
Alignment explanation
Indices: 187660--187706 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
187650 TTTTCTTTTA
187660 ATGAACAGTACCCATGAACAGTG
1 ATGAACAGTACCCATGAACAGTG
* * * *
187683 ATGAACTGTATCCGTGAATAGTG
1 ATGAACAGTACCCATGAACAGTG
187706 A
1 A
187707 CTAGTGCATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (23 bp):
ATGAACAGTACCCATGAACAGTG
Found at i:188276 original size:44 final size:44
Alignment explanation
Indices: 188222--188396 Score: 287
Period size: 44 Copynumber: 4.0 Consensus size: 44
188212 TCATTTAATT
*
188222 CATAAACTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
* *
188266 CATAAGCTCGTAAGCTTATTTTACCAATATTCTTACCCTTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
* *
188310 TATAAGCTCGTAAGCATATTTTACCAATATACTTACCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
* *
188354 CATAAGCTCATAAGCTTATTTTACCAATATACTCACCATTATT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATT
188397 TACATCACTG
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 120 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
Found at i:188597 original size:59 final size:60
Alignment explanation
Indices: 188534--188661 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 60
188524 ATATACTTAA
* * *
188534 TATGATTTCCTCCT-CA-TTTTAACACACGAAGTGCCCTATGCGAGAATCCATACCATTAG
1 TATGATTTCCT-CTACATTTTTAACACACAAAGTGCCCTATACGAAAATCCATACCATTAG
* * * * *
188593 TATGA-TTCCTTTACCATTTTTAGCACATAAAGTGCCCTATATGAAAATCCATACTATTAG
1 TATGATTTCCTCTA-CATTTTTAACACACAAAGTGCCCTATACGAAAATCCATACCATTAG
188653 TATGATTTC
1 TATGATTTC
188662 TTTATCCTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
57 1 0.02
58 5 0.09
59 7 0.12
60 41 0.72
61 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (60 bp):
TATGATTTCCTCTACATTTTTAACACACAAAGTGCCCTATACGAAAATCCATACCATTAG
Found at i:188735 original size:59 final size:59
Alignment explanation
Indices: 188474--188969 Score: 419
Period size: 59 Copynumber: 8.5 Consensus size: 59
188464 TGTACAATTC
* * * * * * * * *
188474 GTATAATTTCCTTATAATATTAACACTCTCAGTGCTCTATCTGGAATAT-CATATACTTA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAA-ATCCATACACTCA
* ** * ** *
188533 ATATGATTTCCTCCTCATTTTAACACACGAAGTGC-CC-TATGCGAGAATCCATAC-CATTA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATG-GA-AATCCATACAC-TCA
* * * *
188592 GTATGA-TTCCTTTACCATTTTTAGCACA-TAAAGTGC-CCTATATGAAAATCCATACTA-TTA
1 GTATGATTTCC-TTATCA-TTTTAGCACACT-CAGTGCTCC-ATATGGAAATCCATAC-ACTCA
* * * * * *** *
188652 GTATGATTTCTTTATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCA
* * * * * *
188711 GTATGATTCCCTTACCATTTTAGCACA-TATAATGC-CCTATATGGAAATCCATATATTCA
1 GTATGATTTCCTTATCATTTTAGCACACT-CAGTGCTCC-ATATGGAAATCCATACACTCA
* *
188770 ATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCA
*
188829 GTATGATTTCCTTATCTTTTTAGCACACTCAGTGCTCCATATGG--A---ATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCA
* *
188883 GTATGATTTCCTTATCTTTTTAGCACACTCGGTGCTCCATATGGAAATCCATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCA
*
188942 ATATGATTTCCTTATCATTTTAGCACAC
1 GTATGATTTCCTTATCATTTTAGCACAC
188970 ATATAGTTCC
Statistics
Matches: 356, Mismatches: 57, Indels: 48
0.77 0.12 0.10
Matches are distributed among these distances:
54 52 0.15
56 1 0.00
57 4 0.01
58 12 0.03
59 236 0.66
60 43 0.12
61 4 0.01
62 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (59 bp):
GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCA
Found at i:188981 original size:113 final size:115
Alignment explanation
Indices: 188693--188981 Score: 356
Period size: 113 Copynumber: 2.5 Consensus size: 115
188683 GTGCTTTTTC
* * * *
188693 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAG--CACATATAATGCCCTATATGGA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACATATAGT-TCC-ATATGG-
* *
188756 AATCCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
63 AA--CATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
* * *
188811 TGGAAATTCATACACTCAGTATGATTTCCTTATCTTTTTAGCACAC-TCAGT-GCTCCATATGG-
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACAT-A-TAGTTCCATATGGA
* * *
188873 A-ATACACTCAGTATGATTTCCTTATCTTTTTAGCACACTCGGTGCTCCATA
64 ACATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
*
188924 TGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACATATAGTTCCAT
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACATATAGTTCCAT
188982 TTGGTAATCA
Statistics
Matches: 149, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
112 1 0.01
113 95 0.64
114 1 0.01
116 1 0.01
118 43 0.29
119 3 0.02
120 4 0.03
121 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (115 bp):
TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACATATAGTTCCATATGGAAC
ATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
Found at i:189946 original size:7 final size:7
Alignment explanation
Indices: 189934--189961 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
189924 CCCTTCTTCA
189934 TCTTATC
1 TCTTATC
189941 TCTTATC
1 TCTTATC
189948 TCTTATC
1 TCTTATC
189955 TCTTATC
1 TCTTATC
189962 CTAACCCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (7 bp):
TCTTATC
Found at i:190802 original size:30 final size:30
Alignment explanation
Indices: 190768--190839 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
190758 ATCAAACTTG
*
190768 GGCACTAAATTGGACCCGAGACAAATATTA
1 GGCACTAAATTGGACCCGAGACAAAGATTA
* *
190798 GGCACTAAACTGGACCCGAGACAAAGGTTA
1 GGCACTAAATTGGACCCGAGACAAAGATTA
*
190828 GACACTAAATTG
1 GGCACTAAATTG
190840 AAAAACAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (30 bp):
GGCACTAAATTGGACCCGAGACAAAGATTA
Found at i:192285 original size:29 final size:29
Alignment explanation
Indices: 192203--192335 Score: 80
Period size: 28 Copynumber: 4.7 Consensus size: 29
192193 AATTTGAATA
*
192203 ACCTAAAAATATCAATATAGTTAATAGCT
1 ACCTAAAAATATCAATATAGTTAACAGCT
* * * * *
192232 A-ATAAACAAAAT-AATTTAATCAACATGC-
1 ACCTAAA-AATATCAATATAGTTAACA-GCT
*
192260 ACCTAAAAATATCAATATAGTTAACAGTT
1 ACCTAAAAATATCAATATAGTTAACAGCT
** * * *
192289 AATTAACAAA-AT-AATTTAATCAACATG-T
1 ACCTAA-AAATATCAATATAGTTAACA-GCT
192317 ACCTAAAAATATCAATATA
1 ACCTAAAAATATCAATATA
192336 ATTAGCAGTT
Statistics
Matches: 75, Mismatches: 20, Indels: 18
0.66 0.18 0.16
Matches are distributed among these distances:
27 3 0.04
28 36 0.48
29 33 0.44
30 3 0.04
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (29 bp):
ACCTAAAAATATCAATATAGTTAACAGCT
Found at i:192297 original size:57 final size:57
Alignment explanation
Indices: 192203--192374 Score: 290
Period size: 57 Copynumber: 3.0 Consensus size: 57
192193 AATTTGAATA
* *
192203 ACCTAAAAATATCAATATAGTTAATAGCTAATAAACAAAATAATTTAATCAACATGC
1 ACCTAAAAATATCAATATAGTTAACAGTTAATAAACAAAATAATTTAATCAACATGC
* *
192260 ACCTAAAAATATCAATATAGTTAACAGTTAATTAACAAAATAATTTAATCAACATGT
1 ACCTAAAAATATCAATATAGTTAACAGTTAATAAACAAAATAATTTAATCAACATGC
* *
192317 ACCTAAAAATATCAATATAATTAGCAGTTAATAAACAAAATAATTTAATCAACATGC
1 ACCTAAAAATATCAATATAGTTAACAGTTAATAAACAAAATAATTTAATCAACATGC
192374 A
1 A
192375 ACAAAATAAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 107 1.00
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.29
Consensus pattern (57 bp):
ACCTAAAAATATCAATATAGTTAACAGTTAATAAACAAAATAATTTAATCAACATGC
Found at i:192365 original size:28 final size:28
Alignment explanation
Indices: 192231--192370 Score: 90
Period size: 28 Copynumber: 4.9 Consensus size: 28
192221 AGTTAATAGC
192231 TAATAAACAAAATAATTTAATCAACA-T
1 TAATAAACAAAATAATTTAATCAACAGT
* * * * * *
192258 GCACCTAAA-AATATCAATATAGTTAACAGT
1 -TA-ATAAACAAAAT-AATTTAATCAACAGT
*
192288 TAATTAACAAAATAATTTAATCAACA-T
1 TAATAAACAAAATAATTTAATCAACAGT
* * * * *
192315 GTACCTAAA-AATATCAATATAATTAGCAGT
1 -TA-ATAAACAAAAT-AATTTAATCAACAGT
192345 TAATAAACAAAATAATTTAATCAACA
1 TAATAAACAAAATAATTTAATCAACA
192371 TGCAACAAAA
Statistics
Matches: 79, Mismatches: 24, Indels: 18
0.65 0.20 0.15
Matches are distributed among these distances:
27 1 0.01
28 38 0.48
29 38 0.48
30 2 0.03
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (28 bp):
TAATAAACAAAATAATTTAATCAACAGT
Found at i:192448 original size:28 final size:29
Alignment explanation
Indices: 192404--192460 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
192394 ATATTTTAAC
*
192404 AGTTAAGAAACACCACCAAA-ACACCAAA
1 AGTTAAGAAACAACACCAAATACACCAAA
* *
192432 AGTTAATAAACAACACCAAATGCACCAAA
1 AGTTAAGAAACAACACCAAATACACCAAA
192461 TAACCAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.56, C:0.26, G:0.07, T:0.11
Consensus pattern (29 bp):
AGTTAAGAAACAACACCAAATACACCAAA
Found at i:199099 original size:21 final size:21
Alignment explanation
Indices: 199054--199099 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
199044 TACCACCTCG
*
199054 ATTGCCATGTCAGCACCATGG
1 ATTGCCATGTCAGCACCATGA
* *
199075 ATTGCTATGTCAGCACCGTGA
1 ATTGCCATGTCAGCACCATGA
199096 ATTG
1 ATTG
199100 TCACATTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (21 bp):
ATTGCCATGTCAGCACCATGA
Found at i:203498 original size:293 final size:293
Alignment explanation
Indices: 202923--203505 Score: 895
Period size: 293 Copynumber: 2.0 Consensus size: 293
202913 AATGCTCGAG
*
202923 GAAAATTCATATATGTTACGACTCGATTCATTACTGATAATGTTGAAGAAAAAGAAAACCAACTT
1 GAAAATTCATATATGTTACGACTCGATTCATTACTGAAAATGTTGAAGAAAAAGAAAACCAACTT
* * *
202988 TTCTTAGAAGTTCTAGTTGAATCCATCAAACTGTATTTGTAAGTGTCTTTAGGATATAAATTCGT
66 CTCTTAAAAGTTCTAGTTGAATCCATCAAACTGTATTTGCAAGTGTCTTTAGGATATAAATTCGT
*
203053 CGAAGAAGAAATCATTTGTGTATCTGATAAATGGATCATGTCTTTTCTGGTTGTTTTAGCAAGAT
131 CGAAGAAGAAATCATTTGTGTATCTGATAAATGGATCATATCTTTTCTGGTTGTTTTAGCAAGAT
* * * *
203118 TTTTGTTTATTTTTAACTTTTGTTGCTGTGTTAAATCTATAGATTGACCTTGTTTTGGTGTTAAA
196 TTTCGTTTAGTTTTAACTTTTGTTGCTGTATTAAATCTATAGATTGACCTTGTTTAGGTGTTAAA
* *
203183 TTTCATGTTATCCATAGAATTGAGGATGTTATT
261 TTTCACGTTAGCCATAGAATTGAGGATGTTATT
* * *
203216 GAAAATTCATATATGTTACGACTTGATTCATTACTGAAAATGTTGAAGAAGAAGGAAACCAACTT
1 GAAAATTCATATATGTTACGACTCGATTCATTACTGAAAATGTTGAAGAAAAAGAAAACCAACTT
* *
203281 CTCTTAAAAGTTCTAGTTGAA-CCTTCAAACTGTATTTGCAAGTGTCTTTAGGATATATATTCGT
66 CTCTTAAAAGTTCTAGTTGAATCCATCAAACTGTATTTGCAAGTGTCTTTAGGATATAAATTCGT
* * * **
203345 CGAATAGGAAATCCTTTGTGTAT-TCGATCTATGGATCATATCTTTTCATGGTTTGTTTTAGCAA
131 CGAAGAAGAAATCATTTGTGTATCT-GATAAATGGATCATATCTTTTC-TGG-TTGTTTTAGCAA
* *
203409 GATTTTCGTTTAGTTTT-ACATTTTGTTGCTGTATTTATTCTATAGATTGACCTTGTTTAGGTGT
193 GATTTTCGTTTAGTTTTAAC-TTTTGTTGCTGTATTAAATCTATAGATTGACCTTGTTTAGGTGT
203473 TAAATTTCACGTTAGCCAT-GAATTGAGGATGTT
257 TAAATTTCACGTTAGCCATAGAATTGAGGATGTT
203506 GTCAAGTGTC
Statistics
Matches: 263, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
291 1 0.00
292 79 0.30
293 99 0.38
294 84 0.32
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (293 bp):
GAAAATTCATATATGTTACGACTCGATTCATTACTGAAAATGTTGAAGAAAAAGAAAACCAACTT
CTCTTAAAAGTTCTAGTTGAATCCATCAAACTGTATTTGCAAGTGTCTTTAGGATATAAATTCGT
CGAAGAAGAAATCATTTGTGTATCTGATAAATGGATCATATCTTTTCTGGTTGTTTTAGCAAGAT
TTTCGTTTAGTTTTAACTTTTGTTGCTGTATTAAATCTATAGATTGACCTTGTTTAGGTGTTAAA
TTTCACGTTAGCCATAGAATTGAGGATGTTATT
Found at i:206022 original size:2 final size:2
Alignment explanation
Indices: 206015--206056 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
206005 TGTCAGAACC
206015 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
206057 CGATCACTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:207767 original size:60 final size:60
Alignment explanation
Indices: 207656--207768 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
207646 TATAAGATAC
* * * ** *
207656 TACTTTTTAGAATCCCTTGACTGTTAAAAGTTACAAAATTATCTTTTGACTATAGGAAAT
1 TACTTTTTAGAATCCCGTGACTATTAAAAGTTACAAAATGATCACTCGACTATAGGAAAT
* *
207716 TACTTTTTTGAGA-CCCGTGACTATTAAAAGTTACAAAATGGTCACTCGACTAT
1 TACTTTTTAGA-ATCCCGTGACTATTAAAAGTTACAAAATGATCACTCGACTAT
207769 TCATTATGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 43 0.98
61 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (60 bp):
TACTTTTTAGAATCCCGTGACTATTAAAAGTTACAAAATGATCACTCGACTATAGGAAAT
Found at i:209755 original size:21 final size:21
Alignment explanation
Indices: 209705--209755 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
209695 AAAATCAAAA
* *
209705 AATAAAAGAAAATAAAAATAT
1 AATAAAAAAAAATAAAAAGAT
* * *
209726 GATATAAAAAAATAAAACGAT
1 AATAAAAAAAAATAAAAAGAT
209747 AATAAAAAA
1 AATAAAAAA
209756 TACCGACGAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (21 bp):
AATAAAAAAAAATAAAAAGAT
Found at i:212518 original size:26 final size:27
Alignment explanation
Indices: 212480--212577 Score: 96
Period size: 26 Copynumber: 3.7 Consensus size: 27
212470 CAATTTTAAA
212480 TTGTGTTATTTTAATTATTTTGAATGTT
1 TTGT-TTATTTTAATTATTTTGAATGTT
* * *
212508 TTGTTTA-TTTATTTATTTAGTAT-TAT
1 TTGTTTATTTTAATTATTTTGAATGT-T
* *
212534 AT-TATATTTTAATTATTTTGAATGTT
1 TTGTTTATTTTAATTATTTTGAATGTT
*
212560 TTGTTTA-TTTATTTATTT
1 TTGTTTATTTTAATTATTT
212578 AGTATTATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
25 4 0.07
26 40 0.73
27 7 0.13
28 4 0.07
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (27 bp):
TTGTTTATTTTAATTATTTTGAATGTT
Found at i:212548 original size:52 final size:52
Alignment explanation
Indices: 212486--212599 Score: 219
Period size: 52 Copynumber: 2.2 Consensus size: 52
212476 TAAATTGTGT
212486 TATTTTAATTATTTTGAATGTTTTGTTTATTTATTTATTTAGTATTATATTA
1 TATTTTAATTATTTTGAATGTTTTGTTTATTTATTTATTTAGTATTATATTA
*
212538 TATTTTAATTATTTTGAATGTTTTGTTTATTTATTTATTTAGTATTATTTTA
1 TATTTTAATTATTTTGAATGTTTTGTTTATTTATTTATTTAGTATTATATTA
212590 TATTTTAATT
1 TATTTTAATT
212600 TGTATACTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (52 bp):
TATTTTAATTATTTTGAATGTTTTGTTTATTTATTTATTTAGTATTATATTA
Found at i:212596 original size:18 final size:19
Alignment explanation
Indices: 212515--212596 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 19
212505 GTTTTGTTTA
*
212515 TTTATTTATTTAGTATTAT
1 TTTATATATTTAGTATTAT
*
212534 ATTATAT-TTTA--ATTAT
1 TTTATATATTTAGTATTAT
* *
212550 TTTGA-ATGTTTTGT-TTA-
1 TTT-ATATATTTAGTATTAT
*
212567 TTTATTTATTTAGTATTAT
1 TTTATATATTTAGTATTAT
212586 TTTATAT-TTTA
1 TTTATATATTTA
212597 ATTTGTATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
16 10 0.21
17 13 0.27
18 14 0.29
19 11 0.23
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTATATATTTAGTATTAT
Found at i:212596 original size:26 final size:26
Alignment explanation
Indices: 212515--212596 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
212505 GTTTTGTTTA
*
212515 TTTATTTATTTAGTATTATATTATAT
1 TTTATTTATTTAGTATTATTTTATAT
* * * *
212541 TTTAATTATTTTGAATGT-TTTGTTTA-
1 TTTATTTATTTAGTAT-TATTT-TATAT
212567 TTTATTTATTTAGTATTATTTTATAT
1 TTTATTTATTTAGTATTATTTTATAT
212593 TTTA
1 TTTA
212597 ATTTGTATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
25 4 0.09
26 35 0.81
27 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (26 bp):
TTTATTTATTTAGTATTATTTTATAT
Found at i:216798 original size:38 final size:37
Alignment explanation
Indices: 216721--216798 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
216711 TTTTTATATT
*
216721 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
216758 TTTAATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAAAAAAATTATATAAATATTAT-CAA
216796 TTT
1 TTT
216799 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:218803 original size:16 final size:17
Alignment explanation
Indices: 218768--218808 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
218758 TTATCATATA
*
218768 ATTTATTAGATAAATTT
1 ATTTATTTGATAAATTT
218785 A-TTATTTGAT-AATTAT
1 ATTTATTTGATAAATT-T
218801 ATTTATTT
1 ATTTATTT
218809 ATCTCGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTATTTGATAAATTT
Found at i:221858 original size:15 final size:15
Alignment explanation
Indices: 221838--221873 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
221828 TCTATTATTC
*
221838 CCCTTCAATTATTGT
1 CCCTTCAACTATTGT
*
221853 CCCTTCCACTATTGT
1 CCCTTCAACTATTGT
221868 CCCTTC
1 CCCTTC
221874 CACGATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.39, G:0.06, T:0.42
Consensus pattern (15 bp):
CCCTTCAACTATTGT
Found at i:221874 original size:15 final size:15
Alignment explanation
Indices: 221847--221876 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
221837 CCCCTTCAAT
221847 TATTGTCCCTTCCAC
1 TATTGTCCCTTCCAC
221862 TATTGTCCCTTCCAC
1 TATTGTCCCTTCCAC
221877 GATGTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.40, G:0.07, T:0.40
Consensus pattern (15 bp):
TATTGTCCCTTCCAC
Found at i:229834 original size:30 final size:30
Alignment explanation
Indices: 229798--229941 Score: 121
Period size: 30 Copynumber: 4.5 Consensus size: 30
229788 TAATAAGGTT
229798 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
229828 ATTTATTATAAAATAATTTACTT-TAAAATA
1 ATTTATTTTAAAATAATTTA-TTATAAAATA
* * *
229858 AATTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATT-TTAAA-AT--A---ATTTATTATAAAATA
* *
229895 ATTTATTTT-AAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATAATTTATTA-TA--AAATA
229927 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
229942 TGAATTGATT
Statistics
Matches: 92, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
29 7 0.08
30 34 0.37
31 5 0.05
32 15 0.16
33 5 0.05
34 3 0.03
35 2 0.02
36 3 0.03
37 18 0.20
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:229909 original size:14 final size:15
Alignment explanation
Indices: 229798--229915 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
229788 TAATAAGGTT
229798 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
229813 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
229828 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
229843 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
229858 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
229877 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
229895 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
229909 ATTTATT
1 ATTTATT
229916 AGTATGAATT
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.14
15 56 0.64
16 4 0.05
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.05
22 6 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:229934 original size:22 final size:22
Alignment explanation
Indices: 229918--229960 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
229908 AATTTATTAG
229918 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
229940 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
229961 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:229934 original size:32 final size:32
Alignment explanation
Indices: 229895--230186 Score: 277
Period size: 32 Copynumber: 10.4 Consensus size: 32
229885 TTTTAAAATA
*
229895 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
229927 ATTTATTTT-AA-AA--TA-T-G-A---ATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
229949 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
229981 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
230003 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
230035 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
230057 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
230089 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
230111 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
230143 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
230175 ATTTATTTTAAA
1 ATTTATTTTAAA
230187 ATATGGATTG
Statistics
Matches: 218, Mismatches: 2, Indels: 80
0.73 0.01 0.27
Matches are distributed among these distances:
22 54 0.25
23 14 0.06
24 2 0.01
25 4 0.02
26 12 0.06
27 2 0.01
28 12 0.06
29 4 0.02
30 2 0.01
31 14 0.06
32 98 0.45
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:229960 original size:54 final size:54
Alignment explanation
Indices: 229895--230445 Score: 663
Period size: 54 Copynumber: 10.1 Consensus size: 54
229885 TTTTAAAATA
*
229895 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
229949 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
230003 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
230057 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* *
230111 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* * ** * * * * ***
230161 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGAATTGATTTA-T-TT-TA-AAATATGGATTG
*
230223 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* *
230277 ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* * * * * **
230331 ATTTATTTTAAAATATGGATTAATTTA-TTTTAAATAATTTA--TTAGTATAT--ATTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
230385 ATTTATTTTAAATAATTTATTTGTAT-AGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATGGATTG
230439 ATTTATT
1 ATTTATT
230446 ATTGTAGTTG
Statistics
Matches: 432, Mismatches: 42, Indels: 46
0.83 0.08 0.09
Matches are distributed among these distances:
49 3 0.01
50 29 0.07
52 9 0.02
53 10 0.02
54 309 0.72
55 8 0.02
56 11 0.03
57 2 0.00
58 29 0.07
59 4 0.01
60 2 0.00
62 16 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
Found at i:229997 original size:22 final size:22
Alignment explanation
Indices: 229972--230014 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
229962 AATTTATTAG
229972 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
229994 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
230015 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:230051 original size:22 final size:22
Alignment explanation
Indices: 230026--230068 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
230016 AATTTATTAG
230026 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
230048 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
230069 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:230105 original size:22 final size:22
Alignment explanation
Indices: 230080--230122 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
230070 AATTTATTAG
230080 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
230102 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
230123 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:230254 original size:32 final size:32
Alignment explanation
Indices: 230213--230428 Score: 150
Period size: 32 Copynumber: 7.7 Consensus size: 32
230203 TATTGTAGTT
230213 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
230245 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
230268 -TATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
230299 GTATGAATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
230325 G-A---ATTGATTTATTTTAAAA---------
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
230344 -TATGGATTAATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
** *
230375 GTATATATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
230407 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
230429 ATATGGATTG
Statistics
Matches: 149, Mismatches: 9, Indels: 52
0.71 0.04 0.25
Matches are distributed among these distances:
19 1 0.01
22 42 0.28
23 6 0.04
25 2 0.01
26 4 0.03
27 1 0.01
28 5 0.03
29 1 0.01
30 2 0.01
31 5 0.03
32 80 0.54
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:230271 original size:22 final size:22
Alignment explanation
Indices: 230246--230288 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
230236 AATTTATTAG
230246 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
230268 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
230289 TAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:230325 original size:22 final size:22
Alignment explanation
Indices: 230300--230364 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
230290 AATTTATTTG
230300 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
230322 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
* *
230344 TATGGATTAATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
230365 TAATTTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:230342 original size:242 final size:246
Alignment explanation
Indices: 230080--230588 Score: 877
Period size: 242 Copynumber: 2.1 Consensus size: 246
230070 AATTTATTAG
* * *
230080 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGAATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTATTAGTATAGATTGAT
*
230145 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
230210 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATAT
131 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGAAATAT
*
230271 GGATTGATTTATTTTAAATAATTTATTTGTAT-GAATTGATTTATTTTAAAA
196 GGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAA
*
230322 TATGAATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTATTAGTATATATTGAT
1 TATGAATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTATTAGTATAGATTGAT
230387 TTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
***
230452 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTAT
131 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGAAATAT
230517 GGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
196 GGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
230568 TAT-AGATTGATTTATTTTAAA
1 TATGA-ATTGATTTATTTTAAA
230589 TAATTTATTA
Statistics
Matches: 252, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
242 175 0.69
243 1 0.00
244 2 0.01
245 3 0.01
246 70 0.28
247 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (246 bp):
TATGAATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTATTAGTATAGATTGAT
TTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGAAATAT
GGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
Found at i:230370 original size:14 final size:14
Alignment explanation
Indices: 230351--230406 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
230341 AAATATGGAT
230351 TAATTTATTTTAAA
1 TAATTTATTTTAAA
*
230365 TAATTTATTAGTATATAT
1 TAATTTATT--T-TA-AA
*
230383 TGATTTATTTTAAA
1 TAATTTATTTTAAA
230397 TAATTTATTT
1 TAATTTATTT
230407 GTATAGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.56
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TAATTTATTTTAAA
Done.