Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 14 of 79
Found at i:4703862 original size:20 final size:20
Alignment explanation
Indices: 4703839--4703882 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
4703829 AATAATCTTT
*
4703839 AAAAATTC-AAAATTTTATA
1 AAAAATTCTAAAAATTTATA
4703858 AAAAATTCTAAAAATTTATA
1 AAAAATTCTAAAAATTTATA
4703878 AAAAA
1 AAAAA
4703883 AATATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATTCTAAAAATTTATA
Found at i:4705273 original size:20 final size:20
Alignment explanation
Indices: 4705248--4705289 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4705238 ATTTTGAATA
*
4705248 AAGAATATCCTTGGTTATTT
1 AAGAATATCCTCGGTTATTT
4705268 AAGAATATCCTCGGTTATTT
1 AAGAATATCCTCGGTTATTT
4705288 AA
1 AA
4705290 TATCATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (20 bp):
AAGAATATCCTCGGTTATTT
Found at i:4707687 original size:44 final size:44
Alignment explanation
Indices: 4707600--4708565 Score: 703
Period size: 44 Copynumber: 22.0 Consensus size: 44
4707590 ATAAGACTTG
* * * *
4707600 TATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCAC-ACCAGTACATGAAGACAAGATCTGC
* *
4707645 TATCTTTGATCTACTTCACACCAATACATGAAGACAATATCTGC
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * *** *
4707689 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGG
1 TATCTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTGC
*
4707734 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* ****
4707778 T-TTTTTCGATCTACTTCACCACCAGTGTGGGAAGACAAGATCTG-
1 TATCTTT-GATCTACTTCA-CACCAGTACATGAAGACAAGATCTGC
* * *
4707822 TATCTTTGATTTACTTCACGCCAGTACATGAAGATAAGATCTGC
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * * ***
4707866 TTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTGC
** *
4707911 TATCTTTGATCTACTTCATGCCAGTACATGAAGACAATATCTGC
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * *** * *
4707955 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGG
1 TATCTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTGC
*
4708000 TATCTTTGATCTACTT--CA-C-G--CATGAAGA-TA-ATCTGC
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * *** *
4708036 TTTCTTCGATTTACTTCACCACCAGTATGGGAAGACAAGATCTGG
1 TATCTTTGATCTACTTCA-CACCAGTACATGAAGACAAGATCTGC
* *
4708081 TATCTTTGATCTACTTCA-AGCCAGTACATGAAGATAAGATCTAC
1 TATCTTTGATCTACTTCACA-CCAGTACATGAAGACAAGATCTGC
* * * *
4708125 TTTCTTCGATCTACTTCACTCCAATACATGAAGACAAGATCT--
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * ***
4708167 TTTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTG-
1 TAT-CTT-TGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * ** * *
4708212 TCATATTCGATCTACTTCATGCCAATACATGAAGATAAGATCTGC
1 T-ATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * * * *
4708257 TATATTTAATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCAC-ACCAGTACATGAAGACAAGATCTGC
* ** ***
4708302 TTTCTTCAATCTACTTTGC-CACCAGTATGGGAAGACAAGATCTGC
1 TATCTTTGATCTAC-TT-CACACCAGTACATGAAGACAAGATCTGC
* * * *
4708347 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * * *
4708391 TTTCTTTGATCTACTTCACGCCAATACATGAAGGCAAGATCTG-
1 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * ** *
4708434 T-TGGTTCTGATCCACTTCATGTCTA-TACATGAAGACAAGATCTG-
1 TAT-CTT-TGATCTACTTCA-CACCAGTACATGAAGACAAGATCTGC
* * * *
4708478 TCATCTTCGATCTACTTCATACCAATA-ATGAAGATAAGATCTGC
1 T-ATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
* * *** * *
4708522 TATATTTGATCAACTTCGTTGCCAGTACAGGAAGATAAGATCTG
1 TATCTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTG
4708566 TTTCATTTTC
Statistics
Matches: 735, Mismatches: 150, Indels: 72
0.77 0.16 0.08
Matches are distributed among these distances:
36 18 0.02
37 1 0.00
38 5 0.01
39 2 0.00
40 2 0.00
41 2 0.00
42 6 0.01
43 65 0.09
44 374 0.51
45 254 0.35
46 5 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
Found at i:4707725 original size:89 final size:89
Alignment explanation
Indices: 4707630--4708569 Score: 958
Period size: 89 Copynumber: 10.7 Consensus size: 89
4707620 GCCAATACAA
* * *
4707630 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAATACATGAAGACAATATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
4707695 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
4707719 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
4707784 CGATCTACTTCACCACCAGTGTGG
66 CGATCTACTTCGCCACCAGTATGG
* *
4707808 GAAGACAAGATCTG-TATCTTTGATTTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
4707872 CGATTTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
4707896 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGACAATATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
4707961 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
4707985 GAAGATAAGATCTGGTATCTTTGATCTACTTCA---C-G--CATGAAGA-TA-ATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
4708042 CGATTTACTTCACCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * *
4708066 GAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAAGATAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* * * ***
4708131 CGATCTACTTC-ACTCCAATACAT
66 CGATCTACTTCGCCACCAGTATGG
* * * * * *
4708154 GAAGACAAGATCT--TTTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTG-TCAT
1 GAAGACAAGATCTGCTAT-CTT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TT
* ***
4708216 ATTCGATCTACTTCATGCCA--A-TACAT
63 CTTCGATCTACTTC--GCCACCAGTATGG
* * * * * *
4708242 GAAGATAAGATCTGCTATATTTAATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGCTTTCT
* *
4708307 TCAATCTACTTTGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* * *
4708332 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* * * * ***
4708397 TGATCTACTTC-ACGCCAATACAT
66 CGATCTACTTCGCCACCAGTATGG
* * * * * *
4708420 GAAGGCAAGATCTG-T-TGGTTCTGATCCACTTCATGTCTA-TACATGAAGACAAGATCTG-TCA
1 GAAGACAAGATCTGCTAT-CTT-TGATCTACTTCACG-CCAGTACATGAAGACAAGATCTGCT-T
** *
4708481 TCTTCGATCTACTTC-ATACCAATAAT--
62 TCTTCGATCTACTTCGCCACCAGT-ATGG
* * * ** * *
4708507 GAAGATAAGATCTGCTATATTTGATCAACTTCGTTGCCAGTACAGGAAGATAAGATCTG-TTTC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTC
4708570 ATTTTCAACC
Statistics
Matches: 722, Mismatches: 98, Indels: 64
0.82 0.11 0.07
Matches are distributed among these distances:
81 66 0.09
82 1 0.00
83 8 0.01
84 1 0.00
85 2 0.00
86 4 0.01
87 45 0.06
88 266 0.37
89 296 0.41
90 32 0.04
91 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:4708106 original size:170 final size:174
Alignment explanation
Indices: 4707602--4708569 Score: 851
Period size: 177 Copynumber: 5.5 Consensus size: 174
4707592 AAGACTTGTA
** * ***
4707602 TCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCACACC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCTTTGATCTACTT--CACC
* * * *
4707667 AATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
63 -AGACATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCT
*
4707732 GGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
127 GGTATCTTTGATCTACTTCAAGCCAGTACATGAAGACAAGATCTGCTT
* * *
4707780 TTTTCGATCTACTTCACCACCAGTGTGGGAAGACAAGATCTGTATCTTTGATTTACTTCACGCCA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTTGATCTACTTCA--CCA
4707845 GTACATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCTG
64 G-ACATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCTG
* * *
4707910 CTATCTTTGATCTACTTCATGCCAGTACATGAAGACAATATCTGCTT
128 GTATCTTTGATCTACTTCAAGCCAGTACATGAAGACAAGATCTGCTT
* *
4707957 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGGTATCTTTGATCTACTTCA-C-G
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT-GTATCTTTGATCTACTTCACCAG
*
4708020 -CATGAAGAT-A-ATCTGCTTTCTTCGATTTACTTCACCACCAGTATGGGAAGACAAGATCTGGT
65 ACATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCTGGT
* *
4708082 ATCTTTGATCTACTTCAAGCCAGTACATGAAGATAAGATCTACTT
130 ATCTTTGATCTACTTCAAGCCAGTACATGAAGACAAGATCTGCTT
* * *** * * * *
4708127 TCTTCGATCTACTTCA-CTCCAATACATGAAGACAAGATCT-TTTGGTTCTGATCCACTTCATGT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTAT-CTT-TGATCTACTTCA--C
* * * * *** *
4708190 CAGTACATGAAGACAAGATCTG-TCATATTCGATCTACTTCATGCCA--A-TACATGAAGATAAG
62 CAG-ACATGAAGATAAGATCTGCT-TTCTTCGATTTACTTC--GCCACCAGTATGGGAAGACAAG
* * * * ** *
4708251 ATCTGCTATATTTAATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTT
123 ATCTGGTATCTTTGATCTACTTC-AAGCCAGTACATGAAGACAAGATCTGCTT
* ** * *
4708304 TCTTCAATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCTTTGATCTACTTCA--CC
* * * * * * * *** *
4708369 AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTC-ACGCCAATACATGAAGGCAAGATCT
63 -AGACATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCT
* * * * *
4708433 -GT-TGGTTCTGATCCACTTCATGTCTA-TACATGAAGACAAGATCTG-TCA
127 GGTAT-CTT-TGATCTACTTCAAG-CCAGTACATGAAGACAAGATCTGCT-T
* * * * * *
4708481 TCTTCGATCTACTTCA-TACCAATAAT--GAAGATAAGATCTGCTATATTTGATCAACTTCGTTG
1 TCTTCGATCTACTTCACCACCAGT-ATGGGAAGACAAGATCTG-TATCTTTGATCTACTTC---A
*
4708543 CCAGTACAGGAAGATAAGATCTG-TTTC
61 CCAG-ACATGAAGATAAGATCTGCTTTC
4708570 ATTTTCAACC
Statistics
Matches: 657, Mismatches: 98, Indels: 73
0.79 0.12 0.09
Matches are distributed among these distances:
167 2 0.00
168 2 0.00
169 29 0.04
170 106 0.16
171 1 0.00
172 10 0.02
173 1 0.00
174 1 0.00
175 44 0.07
176 57 0.09
177 253 0.39
178 141 0.21
179 7 0.01
180 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (174 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTTGATCTACTTCACCAGA
CATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
TCTTTGATCTACTTCAAGCCAGTACATGAAGACAAGATCTGCTT
Found at i:4708282 original size:347 final size:346
Alignment explanation
Indices: 4707630--4708565 Score: 951
Period size: 347 Copynumber: 2.7 Consensus size: 346
4707620 GCCAATACAA
* * *
4707630 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAATACATGAAGACAATATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTT--CA-C---GCATGAAGA-TA-ATCTGCTTTCTT
* *
4707695 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTA
58 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTA
* * * ***
4707760 CATGAAGACAAGATCTGCTTTTTTCGATCTACTTCACCACCAGTGTGGGAAGACAAGATCTGTAT
123 CATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGTAT
** * * * *
4707825 CTTTGATTTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCTTCGATTTACTTCGCCACCA
188 CTTTGATCCACTTCACGCCAGTACATGAAGACAAGATCTGCTATATTCGATCTACTTCGCCA-CA
** * * * * *
4707890 GTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGACAATATCTGC
252 GTACAGGAAGACAAGATCTGCTATATTTAATCAACTTCATGCCAGTACAGGAAGACAAGATCTGC
*
4707955 TTTCTTCGATCTACTTCGCCACCAGTATGG
317 TTTCTTCAATCTACTTCGCCACCAGTATGG
* * * *
4707985 GAAGATAAGATCTGGTATCTTTGATCTACTTCACGCATGAAGATAATCTGCTTTCTTCGATTTAC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCATGAAGATAATCTGCTTTCTTCGATCTAC
4708050 TTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAAGA
66 TTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAAGA
* * * * *
4708115 TAAGATCTACTTTCTTCGATCTACTTCA-CTCCAATACATGAAGACAAGATCT-TTTGGTTCTGA
131 CAAGATCTACTTTCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGTAT-CTT-TGA
* *
4708178 TCCACTTCATGTCAGTACATGAAGACAAGATCTG-TCATATTCGATCTACTTCATGCCA-A-TAC
194 TCCACTTCACGCCAGTACATGAAGACAAGATCTGCT-ATATTCGATCTACTTC--GCCACAGTAC
* * *
4708240 ATGAAGATAAGATCTGCTATATTTAATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTTT
256 AGGAAGACAAGATCTGCTATATTTAATCAACTTC-ATGCCAGTACAGGAAGACAAGATCTGCTTT
*
4708305 CTTCAATCTACTTTGCCACCAGTATGG
320 CTTCAATCTACTTCGCCACCAGTATGG
* *
4708332 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACG------CATGAAGA-TA-ATCTGCTTTCTT
* * * *** * * * * *
4708397 TGATCTACTTCA-CGCCAATACATGAAGGCAAGATCT-GT-TGGTTCTGATCCACTTCATGTCTA
58 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTAT-CTT-TGATCTACTTCAAG-CCA
* * * * *
4708459 -TACATGAAGACAAGATCT-GTCATCTTCGATCTACTTCA-TACCAATA-ATGAAGATAAGATCT
120 GTACATGAAGACAAGATCTACT-TTCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCT
* * ** * *
4708520 GCTATATTTGATCAACTTCGTTGCCAGTACAGGAAGATAAGATCTG
184 G-TATCTTTGATCCACTTC-ACGCCAGTACATGAAGACAAGATCTG
4708566 TTTCATTTTC
Statistics
Matches: 492, Mismatches: 68, Indels: 43
0.82 0.11 0.07
Matches are distributed among these distances:
345 2 0.00
346 51 0.10
347 236 0.48
348 1 0.00
349 12 0.02
352 2 0.00
353 39 0.08
354 94 0.19
355 55 0.11
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (346 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCATGAAGATAATCTGCTTTCTTCGATCTAC
TTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAAGA
CAAGATCTACTTTCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGTATCTTTGATC
CACTTCACGCCAGTACATGAAGACAAGATCTGCTATATTCGATCTACTTCGCCACAGTACAGGAA
GACAAGATCTGCTATATTTAATCAACTTCATGCCAGTACAGGAAGACAAGATCTGCTTTCTTCAA
TCTACTTCGCCACCAGTATGG
Found at i:4708364 original size:266 final size:263
Alignment explanation
Indices: 4707602--4708569 Score: 1074
Period size: 266 Copynumber: 3.7 Consensus size: 263
4707592 AAGACTTGTA
* * **
4707602 TCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCACACC
1 TCTTCGATCTACTTCACT-CCAATACATGAAGACAAGATCT-CTATCTTTGATCCACTTCATGCC
* * * * *
4707667 AATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
64 AGTACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCA-CAGTATAGGAAGATAAGATCT
* * * * *
4707732 GGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCAC
128 GCTATATTTGATCAACTTCACGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC
* *
4707797 CACCAGTGTGGGAAGACAAGATCTGTATCTTTGATTTACTTCACGCCAGTACATGAAGATAAGAT
193 CACCAGTATGGGAAGACAAGATCTGTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGAT
4707862 CTGCTT
258 CTGCTT
* * * * *** *
4707868 TCTTCGATTTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTTC-ACTCCAATACATGAAGACAAGATCT-CTATCTTTGATCCACTTCATGCC
* * *
4707933 AGTACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCT
64 AGTACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCA-CAGTATAGGAAGATAAGATCT
* * * * *
4707998 GGTATCTTTGATCTACTTCACG-CA-T----GAAGA-TA-ATCTGCTTTCTTCGATTTACTTCAC
128 GCTATATTTGATCAACTTCACGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC
*
4708055 CACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAAGATAAGA
193 CACCAGTATGGGAAGACAAGATCT-GTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGA
*
4708120 TCTACTT
257 TCTGCTT
* * *
4708127 TCTTCGATCTACTTCACTCCAATACATGAAGACAAGATCT-TTTGGTTCTGATCCACTTCATGTC
1 TCTTCGATCTACTTCACTCCAATACATGAAGACAAGATCTCTAT-CTT-TGATCCACTTCATGCC
* * *
4708191 AGTACATGAAGACAAGATCTG-TCATATTCGATCTACTTCATGCCA-A-TACATGAAGATAAGAT
64 AGTACATGAAGACAAGATCTGCT-ATCTTCGATCTACTTC--GCCACAGTATAGGAAGATAAGAT
* * *
4708253 CTGCTATATTTAATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTTTCTTCAATCTACTT
126 CTGCTATATTTGATCAACTTCAC-GCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTT
** * * * *
4708318 TGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
190 CACCACCAGTATGGGAAGACAAGATCTG-TATCTTTGATCTACTTCACGCCAGTACATGAAGATA
4708383 AGATCTGCTT
254 AGATCTGCTT
* * * * *
4708393 TCTTTGATCTACTTCACGCCAATACATGAAGGCAAGATCTGT-TGGTTCTGATCCACTTCATGTC
1 TCTTCGATCTACTTCACTCCAATACATGAAGACAAGATCTCTAT-CTT-TGATCCACTTCATG-C
* * *
4708457 TA-TACATGAAGACAAGATCTG-TCATCTTCGATCTACTTCATACCA-A-TA-ATGAAGATAAGA
63 CAGTACATGAAGACAAGATCTGCT-ATCTTCGATCTACTTC--GCCACAGTATAGGAAGATAAGA
** *
4708517 TCTGCTATATTTGATCAACTTCGTTGCCAGTACAGGAAGATAAGATCTG-TTTC
125 TCTGCTATATTTGATCAACTTC-ACGCCAGTACAGGAAGACAAGATCTGCTTTC
4708570 ATTTTCAACC
Statistics
Matches: 620, Mismatches: 62, Indels: 42
0.86 0.09 0.06
Matches are distributed among these distances:
256 2 0.00
257 34 0.05
258 115 0.19
259 61 0.10
260 10 0.02
264 10 0.02
265 60 0.10
266 325 0.52
267 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (263 bp):
TCTTCGATCTACTTCACTCCAATACATGAAGACAAGATCTCTATCTTTGATCCACTTCATGCCAG
TACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACAGTATAGGAAGATAAGATCTGCT
ATATTTGATCAACTTCACGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCAC
CAGTATGGGAAGACAAGATCTGTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTG
CTT
Found at i:4720849 original size:17 final size:17
Alignment explanation
Indices: 4720807--4720849 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4720797 TGGTATAATG
* *
4720807 ATAATAATATGAAAATA
1 ATAATAAAAGGAAAATA
* *
4720824 AAAAAAAAAGGAAAATA
1 ATAATAAAAGGAAAATA
4720841 ATAATAAAA
1 ATAATAAAA
4720850 TAGCTTGAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (17 bp):
ATAATAAAAGGAAAATA
Found at i:4724945 original size:116 final size:116
Alignment explanation
Indices: 4724741--4724969 Score: 386
Period size: 116 Copynumber: 2.0 Consensus size: 116
4724731 GCAGGCTGGG
* *
4724741 GTTAATCCTTTGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGTTTATTTTTCAGGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
* *
4724806 AATTAAATTTTGTTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
66 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
* * * *
4724857 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTATTTTAGATTGTATGGTTATTTTTCATGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
4724922 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
66 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
4724970 CTAGCTTATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (116 bp):
GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
Found at i:4734375 original size:5 final size:5
Alignment explanation
Indices: 4734365--4734408 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
4734355 TCTGTTACAC
4734365 AATGT AATGT AATGT AATGT AATGT AATGT AATGT AATGT AATG
1 AATGT AATGT AATGT AATGT AATGT AATGT AATGT AATGT AATG
4734409 AGACAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
AATGT
Found at i:4738117 original size:215 final size:216
Alignment explanation
Indices: 4737875--4738308 Score: 852
Period size: 215 Copynumber: 2.0 Consensus size: 216
4737865 CAGCAGGTAT
4737875 GCTACTAATCCTGCAAGCCGCCATTTTTATTCAAAAACCAACTTTTTCAACCCAAAAAAAGTAAT
1 GCTACTAATCCTGCAAGCCGCCATTTTTATTCAAAAACCAACTTTTTCAACCCAAAAAAAGTAAT
4737940 AAAATGAAGGAACTTATATATGCAATATAAACCTTCTCCTTCTCGACATCATAGGGACATCGGGT
66 AAAATGAAGGAACTTATATATGCAATATAAACCTTCTCCTTCTCGACATCATAGGGACATCGGGT
4738005 TGTCTAGTTCTAACCATAGGCTGAAAACACTAAACAAGGGACAAAAATATGTTAATCTTACTCTC
131 TGTCTAGTTCTAACCATAGGCTGAAAACACTAAACAAGGGACAAAAATATGTTAATCTTACTCTC
4738070 AAAGGTATAAGTACATTACAA
196 AAAGGTATAAGTACATTACAA
*
4738091 GCTACTAATCCTG-AAGCCGCCATTTTTATTCAAAAACCAACTTTTTCAACCCCAAAAAAGTAAT
1 GCTACTAATCCTGCAAGCCGCCATTTTTATTCAAAAACCAACTTTTTCAACCCAAAAAAAGTAAT
4738155 AAAATGAAGGAACTTATATATGCAATATAAACCTTCTCCTTCTCGACATCATAGGGACATCGGGT
66 AAAATGAAGGAACTTATATATGCAATATAAACCTTCTCCTTCTCGACATCATAGGGACATCGGGT
4738220 TGTCTAGTTCTAACCATAGGCTGAAAACACTAAACAAGGGACAAAAATATGTTAATCTTACTCTC
131 TGTCTAGTTCTAACCATAGGCTGAAAACACTAAACAAGGGACAAAAATATGTTAATCTTACTCTC
4738285 AAAGGTATAAGTACATTACAA
196 AAAGGTATAAGTACATTACAA
4738306 GCT
1 GCT
4738309 GATCGGATTA
Statistics
Matches: 217, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
215 204 0.94
216 13 0.06
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (216 bp):
GCTACTAATCCTGCAAGCCGCCATTTTTATTCAAAAACCAACTTTTTCAACCCAAAAAAAGTAAT
AAAATGAAGGAACTTATATATGCAATATAAACCTTCTCCTTCTCGACATCATAGGGACATCGGGT
TGTCTAGTTCTAACCATAGGCTGAAAACACTAAACAAGGGACAAAAATATGTTAATCTTACTCTC
AAAGGTATAAGTACATTACAA
Found at i:4744434 original size:20 final size:22
Alignment explanation
Indices: 4744409--4744448 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4744399 TAAGATGAGC
4744409 AACAAAT-AAA-ATACATAATA
1 AACAAATCAAAGATACATAATA
4744429 AACAAATCAAAGATACATAA
1 AACAAATCAAAGATACATAA
4744449 AATAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.17
Consensus pattern (22 bp):
AACAAATCAAAGATACATAATA
Found at i:4744636 original size:3 final size:3
Alignment explanation
Indices: 4744628--4744676 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
4744618 CAAGACATAG
* *
4744628 ATA ATA ATA ATA TTA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4744676 A
1 A
4744677 AACTAAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4747881 original size:18 final size:17
Alignment explanation
Indices: 4747855--4747908 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
4747845 TCAATAATAA
4747855 AAAATAAAATTATAAAAAC
1 AAAA-AAAATTA-AAAAAC
* *
4747874 CAAAAAAATGTAAAATTAC
1 AAAAAAAAT-TAAAA-AAC
4747893 AAAAAAAATTAAAAAA
1 AAAAAAAATTAAAAAA
4747909 TTATGGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.45
19 15 0.52
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAAAAAATTAAAAAAC
Found at i:4747923 original size:18 final size:18
Alignment explanation
Indices: 4747898--4747988 Score: 84
Period size: 18 Copynumber: 5.2 Consensus size: 18
4747888 ATTACAAAAA
*
4747898 AAAT-TAAAAAATTATGG
1 AAATATAAAAAATTATAG
4747915 AAATATAAAAAATT-TAG
1 AAATATAAAAAATTATAG
*
4747932 AAAATTATAAAAATTTATA-
1 -AAA-TATAAAAAATTATAG
*
4747951 AATTTATAAAAAA--ATAG
1 AA-ATATAAAAAATTATAG
*
4747968 AAAAATAAAAAATTATAG
1 AAATATAAAAAATTATAG
4747986 AAA
1 AAA
4747989 ACTATTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
16 11 0.18
17 8 0.13
18 29 0.48
19 10 0.17
20 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AAATATAAAAAATTATAG
Found at i:4747924 original size:26 final size:26
Alignment explanation
Indices: 4747895--4748014 Score: 91
Period size: 27 Copynumber: 4.5 Consensus size: 26
4747885 AAAATTACAA
**
4747895 AAAAAATTAAAAAATTATGGAAATAT
1 AAAAAATTAAAAAATTATAAAAATAT
* *
4747921 AAAAAATTTAGAAAATTATAAAAATTT
1 AAAAAA-TTAAAAAATTATAAAAATAT
* * *
4747948 ATAAATTTATAAAAA-AATAGAAAA-AT
1 AAAAAATTA-AAAAATTATA-AAAATAT
* *
4747974 AAAAAATTATAGAAAACTATTAAAATCAT
1 AAAAAATTA-A-AAAATTATAAAAAT-AT
4748003 AAAAAATTAAAA
1 AAAAAATTAAAA
4748015 NNNNNNNNNN
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
26 22 0.30
27 38 0.51
28 3 0.04
29 11 0.15
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAAAATTAAAAAATTATAAAAATAT
Found at i:4748658 original size:18 final size:17
Alignment explanation
Indices: 4748567--4748658 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 17
4748557 TTATAAGTTT
*
4748567 TTTTATATTTTTAATAA
1 TTTTATAATTTTAATAA
* * *
4748584 TTATATATTTTTTATAA
1 TTTTATAATTTTAATAA
*
4748601 TTTTCTAATATATTCTAA-AA
1 -TTT-T-ATA-ATTTTAATAA
*
4748621 ATTT-TAATTTTAATAA
1 TTTTATAATTTTAATAA
*
4748637 TTTTATAATTTCTAATAG
1 TTTTATAATTT-TAATAA
4748655 TTTT
1 TTTT
4748659 TTTTTAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
15 6 0.10
16 7 0.12
17 21 0.36
18 12 0.21
19 3 0.05
20 5 0.09
21 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (17 bp):
TTTTATAATTTTAATAA
Found at i:4752054 original size:18 final size:17
Alignment explanation
Indices: 4752021--4752059 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4752011 TTTTATAAAT
4752021 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4752039 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4752056 TGTG
1 TGTG
4752060 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4752304 original size:23 final size:23
Alignment explanation
Indices: 4752278--4752398 Score: 136
Period size: 23 Copynumber: 5.3 Consensus size: 23
4752268 GTGTTATTGA
* * *
4752278 TCAGTGGCAACTTCGGCTATATT
1 TCAGTGGTAGCTTCGGCTACATT
* * *
4752301 TCAGTGGTAGCTACTGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
4752324 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
4752347 TCAGTGGTAGCTAT-GGCTACGTA
1 TCAGTGGTAGCT-TCGGCTACATT
* *
4752370 TCAGTGGTAGCTCCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
4752393 TCAGTG
1 TCAGTG
4752399 TGGCACTTAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 82 0.99
24 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:4752348 original size:46 final size:46
Alignment explanation
Indices: 4752277--4752398 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
4752267 AGTGTTATTG
* * *
4752277 ATCAGTGGCAACTTCGGCTATATTTCAGTGGTAGCTACT-GCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTA-TGGCTACAT
*
4752323 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
* *
4752369 ATCAGTGGTAGCTCCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
4752399 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
Found at i:4755430 original size:4 final size:4
Alignment explanation
Indices: 4755421--4755446 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4755411 CTAATATCCC
4755421 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
4755447 GATAACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:4757643 original size:122 final size:123
Alignment explanation
Indices: 4757492--4757729 Score: 442
Period size: 122 Copynumber: 1.9 Consensus size: 123
4757482 GTCTTCATAC
4757492 TTTTTAAAATGTCAAATTAGCCCCTTCTGTTAATTTTATTTGTTAAATGATTATGTAAAACATTA
1 TTTTTAAAATGT-AAATTAGCCCCTTCTGTTAATTTTATTTGTTAAATGATTATGTAAAACATTA
*
4757557 ATTTGAATGGCTAATTACTAATTTAGTCCATGAACTATAGTTAAAATATTATTTTAATT
65 ATTTGAATGGCTAATTACTAATTTAGTCCACGAACTATAGTTAAAATATTATTTTAATT
4757616 TTTTTAAAATGT-AATTAGCCCCTTCTGTTAATTTTATTTGTTAAATGATTATGTAAAACATTAA
1 TTTTTAAAATGTAAATTAGCCCCTTCTGTTAATTTTATTTGTTAAATGATTATGTAAAACATTAA
*
4757680 TTTGAATGGCTAATTACTAATTTAGTCCCCGAACTATAGTTAAAATATTA
66 TTTGAATGGCTAATTACTAATTTAGTCCACGAACTATAGTTAAAATATTA
4757730 AAATTATTGT
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
122 100 0.89
124 12 0.11
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (123 bp):
TTTTTAAAATGTAAATTAGCCCCTTCTGTTAATTTTATTTGTTAAATGATTATGTAAAACATTAA
TTTGAATGGCTAATTACTAATTTAGTCCACGAACTATAGTTAAAATATTATTTTAATT
Found at i:4759903 original size:2 final size:2
Alignment explanation
Indices: 4759896--4759922 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4759886 TTTTTCTCAG
4759896 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
4759923 ATCTTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4761470 original size:11 final size:11
Alignment explanation
Indices: 4761454--4761478 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4761444 ATTGATAAAA
4761454 ATAAGGATGAC
1 ATAAGGATGAC
4761465 ATAAGGATGAC
1 ATAAGGATGAC
4761476 ATA
1 ATA
4761479 GAATGGACTG
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:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (11 bp):
ATAAGGATGAC
Found at i:4779593 original size:30 final size:30
Alignment explanation
Indices: 4779557--4779617 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4779547 TAAAAGAGGT
4779557 TAGTTTCATGGTTTCATTGCTGTTTTCGCA
1 TAGTTTCATGGTTTCATTGCTGTTTTCGCA
4779587 TAGTTTCATGGTTTCATTGCTGTTTTCGCA
1 TAGTTTCATGGTTTCATTGCTGTTTTCGCA
4779617 T
1 T
4779618 CCTTACACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.13, C:0.16, G:0.20, T:0.51
Consensus pattern (30 bp):
TAGTTTCATGGTTTCATTGCTGTTTTCGCA
Found at i:4781118 original size:18 final size:17
Alignment explanation
Indices: 4781079--4781122 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
4781069 CATTGTGTAA
4781079 TTTGATTTTC--TTTCT
1 TTTGATTTTCTTTTTCT
4781094 TTT--TTTTCTTTTTACT
1 TTTGATTTTCTTTTT-CT
4781110 TTTGATTTTCTTT
1 TTTGATTTTCTTT
4781123 GTGACCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
15 6 0.25
16 5 0.21
18 8 0.33
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTGATTTTCTTTTTCT
Found at i:4785126 original size:30 final size:31
Alignment explanation
Indices: 4785058--4785117 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4785048 GACTTAAATA
* *
4785058 AAAACTTTTGAATAGTTCAATGGCTTGAATG
1 AAAACTTTCGAATAGTTCAATGGATTGAATG
4785089 AAAACTTTCGAATAGTTCAAT-GATTGAAT
1 AAAACTTTCGAATAGTTCAATGGATTGAAT
4785118 TGTAACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (31 bp):
AAAACTTTCGAATAGTTCAATGGATTGAATG
Found at i:4786061 original size:22 final size:20
Alignment explanation
Indices: 4786042--4786079 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4786032 GATAAAATTG
*
4786042 TTATTCTCAAAAAATAAAAT
1 TTATACTCAAAAAATAAAAT
*
4786062 TTATACTTAAAAAATAAA
1 TTATACTCAAAAAATAAA
4786080 TTCTCACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTATACTCAAAAAATAAAAT
Found at i:4791242 original size:23 final size:23
Alignment explanation
Indices: 4791216--4791259 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4791206 ATGATATCTG
4791216 TCAACATCATCAACTATCCACTA
1 TCAACATCATCAACTATCCACTA
*
4791239 TCAACATCATCCACTATCCAC
1 TCAACATCATCAACTATCCAC
4791260 ATTTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (23 bp):
TCAACATCATCAACTATCCACTA
Found at i:4791252 original size:16 final size:16
Alignment explanation
Indices: 4791231--4791261 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4791221 ATCATCAACT
4791231 ATCCACTATCAACATC
1 ATCCACTATCAACATC
*
4791247 ATCCACTATCCACAT
1 ATCCACTATCAACAT
4791262 TTAATTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (16 bp):
ATCCACTATCAACATC
Found at i:4804487 original size:2 final size:2
Alignment explanation
Indices: 4804480--4804507 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4804470 GTCATCCAAG
4804480 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
4804508 GCTTACCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4810727 original size:21 final size:21
Alignment explanation
Indices: 4810703--4810755 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4810693 CATTGTTTCT
*
4810703 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* * *
4810724 AATCTCACTGTTACAGTAACT
1 AATCTCACCGCTACAGTAACC
4810745 AATCTCACCGC
1 AATCTCACCGC
4810756 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:4816532 original size:3 final size:3
Alignment explanation
Indices: 4816517--4816575 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
4816507 TATGTATATA
* * *
4816517 ATT ATT ATA ATT ATT AACT ATA ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4816563 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
4816576 AATAAAGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 47 0.96
4 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:4818002 original size:39 final size:38
Alignment explanation
Indices: 4817940--4818043 Score: 103
Period size: 33 Copynumber: 2.9 Consensus size: 38
4817930 TTACTGATCA
* * *
4817940 GGCAC-TTATGTGCCGACTACTGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTA-CGATTC
4817978 GGCACTTTGTGTGTCGAATACTGTTAC----A-GATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACGATTC
* * *
4818011 AGCACTTTGTGTGTTGAATATTGTTACTGTTAC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTAC
4818044 TGTTACTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
33 29 0.54
35 1 0.02
37 1 0.02
38 5 0.09
39 18 0.33
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (38 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACGATTC
Found at i:4818010 original size:33 final size:33
Alignment explanation
Indices: 4817963--4818037 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
4817953 CGACTACTGT
* *
4817963 TACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
4817996 TACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
4818029 TATTGTTAC
1 TACTGTTAC
4818038 TGTTACTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (33 bp):
TACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:4818043 original size:6 final size:6
Alignment explanation
Indices: 4818032--4818078 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
4818022 TGTTGAATAT
*
4818032 TGTTAC TGTTAC TGTTAC TGTTAC TGCTA- TCGTTAC TGATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC T-GTTAC TG-TTAC TGTT
4818079 TATTGGTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 1 0.03
6 28 0.78
7 7 0.19
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGTTAC
Found at i:4820330 original size:64 final size:63
Alignment explanation
Indices: 4820260--4820430 Score: 173
Period size: 64 Copynumber: 2.6 Consensus size: 63
4820250 GCTAGAACAG
* * * * * *
4820260 TAAACACAAAAGAGATAATCTATTGAGACAATAAACATAGAATAGAGATAGT-TCGTTGGGACAA
1 TAAACACAAAAGAGATAGTCTATTG-GACAGTAAACACAGAACAGAGATAGTCT-GTTAGGAAAA
* * ** *
4820324 TAAACACAGAATAGATAGTCCGCTTGGACAGTAAATACAGAACAGAGATAGTCTGTTAGGAAAA
1 TAAACACAAAAGAGATAGT-CTATTGGACAGTAAACACAGAACAGAGATAGTCTGTTAGGAAAA
*
4820388 TAAACACAGAATAGAGATAGTCTGTTGGGACAGTAAACACAGA
1 TAAACACA-AA-AGAGATAGTCTATT-GGACAGTAAACACAGA
4820431 TAAAGTCCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
64 54 0.63
65 9 0.10
66 23 0.27
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (63 bp):
TAAACACAAAAGAGATAGTCTATTGGACAGTAAACACAGAACAGAGATAGTCTGTTAGGAAAA
Found at i:4820397 original size:33 final size:31
Alignment explanation
Indices: 4820237--4820430 Score: 160
Period size: 33 Copynumber: 6.0 Consensus size: 31
4820227 TATGACATTC
* * * *
4820237 AAAGAGATAGTCCGCTAGAACAGTAAACACA-
1 AAAGAGATAGTCTG-TTGGACAATAAACACAG
* * *
4820268 AAAGAGATAATCTATTGAGACAATAAACATAG
1 AAAGAGATAGTCTGTTG-GACAATAAACACAG
4820300 AATAGAGATAGT-TCGTTGGGACAATAAACACAG
1 AA-AGAGATAGTCT-GTT-GGACAATAAACACAG
* * * *
4820333 -AATAGATAGTCCGCTTGGACAGTAAATACAG
1 AAAGAGATAGTCTG-TTGGACAATAAACACAG
*
4820364 AACAGAGATAGTCTGTTAGGAAAATAAACACAG
1 AA-AGAGATAGTCTGTT-GGACAATAAACACAG
*
4820397 AATAGAGATAGTCTGTTGGGACAGTAAACACAG
1 AA-AGAGATAGTCTGTT-GGACAATAAACACAG
4820430 A
1 A
4820431 TAAAGTCCAC
Statistics
Matches: 130, Mismatches: 23, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
30 2 0.02
31 43 0.33
32 9 0.07
33 75 0.58
34 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (31 bp):
AAAGAGATAGTCTGTTGGACAATAAACACAG
Found at i:4820405 original size:97 final size:95
Alignment explanation
Indices: 4820241--4820430 Score: 258
Period size: 97 Copynumber: 2.0 Consensus size: 95
4820231 ACATTCAAAG
* *
4820241 AGATAGTCCGCTAGAACAGTAAACACAAAAGAGATAATCTATTGAGACAATAAACATAGAATAGA
1 AGATAGTCCGCTAGAACAGTAAACACAAAAGAGATAATCTATTGAGAAAATAAACACAGAATAGA
4820306 GATAGT-TCGTTGGGACAATAAACACAGAAT
66 GATAGTCT-GTTGGGACAATAAACACAGAAT
* * * * *
4820336 AGATAGTCCGCTTGGACAGTAAATACAGAACAGAGATAGTCTGTT-AGGAAAATAAACACAGAAT
1 AGATAGTCCGCTAGAACAGTAAACACA-AA-AGAGATAATCTATTGA-GAAAATAAACACAGAAT
*
4820400 AGAGATAGTCTGTTGGGACAGTAAACACAGA
63 AGAGATAGTCTGTTGGGACAATAAACACAGA
4820431 TAAAGTCCAC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
95 24 0.29
96 3 0.04
97 55 0.66
98 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (95 bp):
AGATAGTCCGCTAGAACAGTAAACACAAAAGAGATAATCTATTGAGAAAATAAACACAGAATAGA
GATAGTCTGTTGGGACAATAAACACAGAAT
Found at i:4836931 original size:25 final size:24
Alignment explanation
Indices: 4836903--4836960 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
4836893 TCAAGCTGAA
*
4836903 TATCGGTAAGCTCATACGAGTTGAG
1 TATCGGTAAGCTCATAAGAGTTG-G
* *
4836928 TATCGATAATCTCATAAGAGTTGG
1 TATCGGTAAGCTCATAAGAGTTGG
*
4836952 AATCGGTAA
1 TATCGGTAA
4836961 ACCTAATGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (24 bp):
TATCGGTAAGCTCATAAGAGTTGG
Found at i:4838080 original size:11 final size:11
Alignment explanation
Indices: 4838064--4838088 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4838054 ACATGCTTTA
4838064 AATATTAAAAT
1 AATATTAAAAT
4838075 AATATTAAAAT
1 AATATTAAAAT
4838086 AAT
1 AAT
4838089 TTTTTTGACT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:4840070 original size:23 final size:24
Alignment explanation
Indices: 4840019--4840065 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4840009 TTCGAACCAT
*
4840019 GTAACGGGAAGCTCATGTGAGCTAA
1 GTAACGGGAAGCTCATGAGAGC-AA
4840044 GTAACGGGAAGCTCATGAGAGC
1 GTAACGGGAAGCTCATGAGAGC
4840066 CGTAAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.34, T:0.17
Consensus pattern (24 bp):
GTAACGGGAAGCTCATGAGAGCAA
Found at i:4840103 original size:50 final size:50
Alignment explanation
Indices: 4840048--4840165 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 50
4840038 AGCTAAGTAA
*
4840048 CGGGAAGCTCATGAGAGCCGTAAAT-T-A-GATAGC-TAAGGAGAGCTATTAAT
1 CGGGAAGCTCATGAGAGCC--AAATATCAGGA-AGCTTAA-GAGAGCCATTAAT
*
4840098 GGGGAAGCTCAT-ACGAGCCAAATATCAGGAAGCTTAAGAGAGCCATTAAT
1 CGGGAAGCTCATGA-GAGCCAAATATCAGGAAGCTTAAGAGAGCCATTAAT
*
4840148 CAGGAAGCTCATGAGAGC
1 CGGGAAGCTCATGAGAGC
4840166 TGTGGTGCGT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
48 4 0.07
49 2 0.03
50 46 0.79
51 6 0.10
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (50 bp):
CGGGAAGCTCATGAGAGCCAAATATCAGGAAGCTTAAGAGAGCCATTAAT
Found at i:4840140 original size:25 final size:25
Alignment explanation
Indices: 4840112--4840165 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
4840102 AAGCTCATAC
*
4840112 GAGCCAA-ATATCAGGAAGCTTAAGA
1 GAGCCAATA-ATCAGGAAGCTCAAGA
* *
4840137 GAGCCATTAATCAGGAAGCTCATGA
1 GAGCCAATAATCAGGAAGCTCAAGA
4840162 GAGC
1 GAGC
4840166 TGTGGTGCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.17
Consensus pattern (25 bp):
GAGCCAATAATCAGGAAGCTCAAGA
Found at i:4843158 original size:20 final size:19
Alignment explanation
Indices: 4843126--4843164 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4843116 GTTAGGTTTT
4843126 TTAACAAAAAAAAATATTAA
1 TTAACAAAAAAAAA-ATTAA
4843146 TTAA-AAAATAAAAAATTAA
1 TTAACAAAA-AAAAAATTAA
4843165 AACAACATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAACAAAAAAAAAATTAA
Found at i:4843566 original size:20 final size:19
Alignment explanation
Indices: 4843520--4843571 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
4843510 AAAAAAATTC
* *
4843520 AAAAAAATATAAAATTTTGA
1 AAAAAAATAT-AAATTATAA
4843540 AAAAAAATATAAATTATAA
1 AAAAAAATATAAATTATAA
4843559 AAATAAAAT-TAAA
1 AAA-AAAATATAAA
4843572 AAATGTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAAATATAAATTATAA
Found at i:4843567 original size:14 final size:14
Alignment explanation
Indices: 4843541--4843575 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4843531 AAATTTTGAA
4843541 AAAAAATATAAATT
1 AAAAAATATAAATT
4843555 ATAAAAATA-AAATT
1 A-AAAAATATAAATT
4843569 AAAAAAT
1 AAAAAAT
4843576 GTGATAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATATAAATT
Found at i:4853401 original size:20 final size:19
Alignment explanation
Indices: 4853369--4853407 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4853359 GTTAGGTTTT
4853369 TTAACAAAAAAAAATATTAA
1 TTAACAAAAAAAAA-ATTAA
4853389 TTAA-AAAATAAAAAATTAA
1 TTAACAAAA-AAAAAATTAA
4853408 AACAACATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAACAAAAAAAAAATTAA
Found at i:4853809 original size:20 final size:19
Alignment explanation
Indices: 4853763--4853814 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
4853753 AAAAAAATTC
* *
4853763 AAAAAAATATAAAATTTTGA
1 AAAAAAATAT-AAATTATAA
4853783 AAAAAAATATAAATTATAA
1 AAAAAAATATAAATTATAA
4853802 AAATAAAAT-TAAA
1 AAA-AAAATATAAA
4853815 AAATGTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAAATATAAATTATAA
Found at i:4853810 original size:14 final size:14
Alignment explanation
Indices: 4853784--4853818 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4853774 AAATTTTGAA
4853784 AAAAAATATAAATT
1 AAAAAATATAAATT
4853798 ATAAAAATA-AAATT
1 A-AAAAATATAAATT
4853812 AAAAAAT
1 AAAAAAT
4853819 GTGATAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATATAAATT
Found at i:4860062 original size:17 final size:17
Alignment explanation
Indices: 4859997--4860062 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
4859987 NNNNNNNNNN
*
4859997 AAATTATTAATT-GATA
1 AAATTATTAATTATATA
* *
4860013 AATTGTATTAATGATTAGTA
1 AAAT-TATTAATTA-TA-TA
*
4860033 AAATTATCAAATTATATA
1 AAATTAT-TAATTATATA
4860051 AAATTATTAATT
1 AAATTATTAATT
4860063 GTTAGTACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 3 0.08
17 11 0.29
18 9 0.24
19 6 0.16
20 9 0.24
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (17 bp):
AAATTATTAATTATATA
Found at i:4860158 original size:23 final size:23
Alignment explanation
Indices: 4860130--4860634 Score: 498
Period size: 23 Copynumber: 22.8 Consensus size: 23
4860120 TTAATTTCAT
4860130 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860153 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
* * **
4860174 TTAGAGTTTTTAA-GTAA-CGGG
1 TTAGGGTTTTTAATTTAATTAGG
*
4860195 TTAGGGTTTTTAAGTTT-A--GGG
1 TTAGGGTTTTTAA-TTTAATTAGG
* *
4860216 TTTAAGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTTAATTAGG
*
4860240 TTAGGGTTTTTAAGTTAA--AGG
1 TTAGGGTTTTTAATTTAATTAGG
4860261 TTAGGG-TTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
4860283 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
*
4860306 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860329 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860350 ATAGGG-TTTTAATTTAATTAGA
1 TTAGGGTTTTTAATTTAATTAGG
*
4860372 TTAGGGTTTTTAATTTAACTAGG
1 TTAGGGTTTTTAATTTAATTAGG
4860395 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860418 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
**
4860439 TTAATGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860462 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
**
4860483 TTAATGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860506 TTAGGGTTTTTTAAGTTAA-GA-G
1 TTAGGG-TTTTTAATTTAATTAGG
4860528 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* * *
4860551 TTAGAGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
* * *
4860572 TTAGGGTTTTTAAGTTAAGT-GT
1 TTAGGGTTTTTAATTTAATTAGG
* *
4860594 TTAAGGTTTTTAA-TTAATTTAGT
1 TTAGGGTTTTTAATTTAA-TTAGG
*
4860617 TTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAATTTAA
4860635 GGGTATTAAT
Statistics
Matches: 404, Mismatches: 53, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
20 23 0.06
21 118 0.29
22 51 0.13
23 195 0.48
24 17 0.04
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (23 bp):
TTAGGGTTTTTAATTTAATTAGG
Found at i:4860344 original size:89 final size:87
Alignment explanation
Indices: 4860130--4860589 Score: 611
Period size: 89 Copynumber: 5.2 Consensus size: 87
4860120 TTAATTTCAT
* * * **
4860130 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAA-GTAA-CG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAG-GGTTTTAATTTAATTA
4860193 GGTTAGGGTTTTTAAGTTT-AGGG
65 GGTTAGGGTTTTTAA-TTTAAGGG
* *
4860216 TTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTAATTTAATTA
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTAATTTAATTA
*
4860281 GGTTAGGGTTTTTAATTTAATTAGG
65 GGTTAGGGTTTTTAATTTAA--GGG
*
4860306 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGATAGGGTTTTAATTTAATTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTAATTTAATTAG
* *
4860371 ATTAGGGTTTTTAATTTAACTAGG
66 GTTAGGGTTTTTAATTTAA--GGG
* * *
4860395 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAATGTTTTTAATTTAATTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT-AGGGTTTTAATTTAATTA
*
4860460 GGTTAGGGTTTTTAAGTTAAGGG
65 GGTTAGGGTTTTTAATTTAAGGG
** * *
4860483 TTAATGTTTTTAATTTAATTAGGTTAGGGTTTTTTAAGTTAAGAGTTAGGGTTTTTAATTTAATT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTTTTAAGTTAAGGGTTAGGG-TTTTAATTTAATT
* *
4860548 AGGTTAGAGTTTTTAAGTTAAGGG
64 AGGTTAGGGTTTTTAATTTAAGGG
4860572 TTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAA-TTAA
4860590 GTGTTTAAGG
Statistics
Matches: 335, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
86 7 0.02
87 51 0.15
88 47 0.14
89 191 0.57
90 39 0.12
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (87 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTAATTTAATTAG
GTTAGGGTTTTTAATTTAAGGG
Found at i:4860638 original size:66 final size:67
Alignment explanation
Indices: 4860130--4860634 Score: 481
Period size: 66 Copynumber: 7.6 Consensus size: 67
4860120 TTAATTTCAT
* *
4860130 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-GGGTTAGAGTTTTTAAG-TAACG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAA-G
4860193 -GG
65 TGG
* *
4860195 TTAGGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AA-TAGGTTAGGGTTTTTAAGTT
*
4860256 AA-AGG
62 AAGTGG
*
4860261 TTAGGG-TTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAAA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTT-AA
*
4860324 TTAGG
64 GT-GG
* * * * * * *
4860329 TTAGGGTTTTTAAGTTAA--GGGATAGGG-TTTTAATTTAATTAGATTAGGGTTTTTAATTTAAC
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAG
4860391 TAGG
65 T-GG
* ** * *
4860395 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-GGGTTAATGTTTTTAATTTAATT
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGT
4860459 AGG
66 -GG
* * ** *
4860462 TTAGGGTTTTTAAGTTAA--GGGTTAATGTTTTTAATTTAATTAGGTTAGGGTTTTTTAAGTTAA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-TAGGTTAGGG-TTTTTAAGTTAA
*
4860525 G-AG
64 GTGG
* *
4860528 TTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGT
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGT
*
4860592 GT
66 GG
* *
4860594 TTAAGGTTTTTAA-TTAATTTAGTTTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAATTTAA-TTAGGTTAGGGTTTTTAAGTTAA
4860635 GGGTATTAAT
Statistics
Matches: 371, Mismatches: 43, Indels: 51
0.80 0.09 0.11
Matches are distributed among these distances:
63 4 0.01
64 17 0.05
65 57 0.15
66 170 0.46
67 60 0.16
68 43 0.12
69 20 0.05
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (67 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGT
GG
Found at i:4860715 original size:25 final size:24
Alignment explanation
Indices: 4860678--4860733 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
4860668 ATCAAAATAT
4860678 TCAAA-AAATTCTATTTTATTACA
1 TCAAATAAATTCTATTTTATTACA
4860701 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAA-TTCTATTTTATTACA
4860726 TCAAATAA
1 TCAAATAA
4860734 TATCAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 5 0.16
24 3 0.10
25 23 0.74
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (24 bp):
TCAAATAAATTCTATTTTATTACA
Found at i:4862428 original size:20 final size:20
Alignment explanation
Indices: 4862391--4862428 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4862381 TTTATTTTTA
*
4862391 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
4862411 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
4862429 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:4869794 original size:24 final size:24
Alignment explanation
Indices: 4869767--4869822 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
4869757 GTACAAGATC
4869767 AAAATTTACTAATTATATTTAATA
1 AAAATTTACTAATTATATTTAATA
4869791 AAAATTTACTAATTATATTTAATA
1 AAAATTTACTAATTATATTTAATA
4869815 AAAATTTA
1 AAAATTTA
4869823 TGTATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATTTACTAATTATATTTAATA
Found at i:4871501 original size:298 final size:290
Alignment explanation
Indices: 4870977--4871521 Score: 661
Period size: 298 Copynumber: 1.8 Consensus size: 290
4870967 TTTTTTTACG
* * * *
4870977 TTTTCAAATCAATCTTTTAATTTGTTTTTGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTA
1 TTTTAAAAACAATCTTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTA
* *
4871042 GATTTAACGTTTTAGGTAATGATTGAGTATTTACTAGCGTCTGGACTCTGTAAAGTCTTCTAATT
66 GATTTAACGTTTTAGGTAATGATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAATT
* ** * * *
4871107 TTATTTTATTGTTTCTGCTAAGCGCTGGATCCAAAAAGTAATAAAAGCACTTCTTTTTCTACGTT
131 TAATTACATCGTTTCTGCTAAGCACTGGATCCAAAAAGTAATAAAAGCA--TCTTATTCTACGTT
*
4871172 TAAGAGCTTATTGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTTCATCTTATATGA
194 TAAGAACTTATTGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTTCATCTTATATGA
4871237 TGAGAGGAAAACCGAATTTGTTTAAGATTTTT
259 TGAGAGGAAAACCGAATTTGTTTAAGATTTTT
*
4871269 TTTTAAAAACAATCTTTTTAATTTCTTTTCGTT-TTTTTTCTCGTAAAAGG-GATATATTAGGTT
1 TTTTAAAAACAATC-TTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAG-TATATTAGGTT
* * * * *
4871332 TAAGGTTTAACATTTTTTAGGTAATGGTTTGAGTATTTTCTAGCGTCTCTGGACCCTGGGAAGTC
64 T-AGATTTAAC--GTTTTAGGTAAT-GATTGAGTATTTACTAGCG--TCTGGACCCTGGAAAGTC
* * *
4871397 -TC--ATATTAATTACATCGTTTCTGCTAATCATTTGATCCAAACTCAAAAGTAATAAAAGCA-C
123 TTCTAAT-TTAATTACATCGTTTCTGCTAAGCACTGGATCC--A---AAAAGTAATAAAAGCATC
* * * * *
4871458 TTATTCTGCGTTTAGGAATTTCTTGATCGATGTATGTTCAAATTTATTGCAGGCATTAGCGTCT
182 TTATTCTACGTTTAAGAACTTATTGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCT
4871522 CCAACTCAGA
Statistics
Matches: 212, Mismatches: 27, Indels: 22
0.81 0.10 0.08
Matches are distributed among these distances:
291 1 0.00
292 40 0.19
293 24 0.11
295 13 0.06
296 42 0.20
297 2 0.01
298 74 0.35
301 16 0.08
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (290 bp):
TTTTAAAAACAATCTTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTA
GATTTAACGTTTTAGGTAATGATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAATT
TAATTACATCGTTTCTGCTAAGCACTGGATCCAAAAAGTAATAAAAGCATCTTATTCTACGTTTA
AGAACTTATTGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTTCATCTTATATGATG
AGAGGAAAACCGAATTTGTTTAAGATTTTT
Found at i:4881309 original size:45 final size:45
Alignment explanation
Indices: 4881251--4881338 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
4881241 ATAATATTCA
* * *
4881251 ATTATTTTTATATGTGAAATATTTCAATTAATTATTTCAAATATC
1 ATTATATTTATATGTGAAATATTTCAAATAATTATTTAAAATATC
4881296 ATTATATTTATATGTGAAATATTTCAAATAATTATTTAAAATA
1 ATTATATTTATATGTGAAATATTTCAAATAATTATTTAAAATA
4881339 CACGTATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (45 bp):
ATTATATTTATATGTGAAATATTTCAAATAATTATTTAAAATATC
Found at i:4892617 original size:20 final size:22
Alignment explanation
Indices: 4892594--4892636 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
4892584 ACAATATAAT
*
4892594 TATTTTTAT-TATG-TTTTAAA
1 TATTTTTATATAGGTTTTTAAA
4892614 TATTTTTATATAGGTTTTTAAA
1 TATTTTTATATAGGTTTTTAAA
4892636 T
1 T
4892637 TTAAACCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTTTTATATAGGTTTTTAAA
Found at i:4895635 original size:5 final size:5
Alignment explanation
Indices: 4895625--4895665 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
4895615 CCCAAGTATT
4895625 CAACC CAACC CAATTACC CAACC CAACC CAACC CAACC CAA
1 CAACC CAACC C-A--ACC CAACC CAACC CAACC CAACC CAA
4895666 TCATAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 27 0.82
6 1 0.03
7 1 0.03
8 4 0.12
ACGTcount: A:0.41, C:0.54, G:0.00, T:0.05
Consensus pattern (5 bp):
CAACC
Found at i:4895636 original size:18 final size:18
Alignment explanation
Indices: 4895613--4895655 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4895603 ACCCAATCTA
**
4895613 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
4895631 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
4895649 AACCCAA
1 AACCCAA
4895656 CCCAACCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:4895790 original size:9 final size:9
Alignment explanation
Indices: 4895773--4895839 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
4895763 GTAGTGATTC
*
4895773 AATTTGGTT
1 AATTCGGTT
4895782 AATTCGGTT
1 AATTCGGTT
*
4895791 AATTCGGGT
1 AATTCGGTT
*
4895800 AATTCGGAT
1 AATTCGGTT
*
4895809 AATTCGGGT
1 AATTCGGTT
4895818 AATTCGGTT
1 AATTCGGTT
4895827 AATTCGGTT
1 AATTCGGTT
4895836 AATT
1 AATT
4895840 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4896533 original size:26 final size:26
Alignment explanation
Indices: 4896454--4896533 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
4896444 GCACACCGCA
* *
4896454 GCTCTTA-TGAACATCCCGTTATATG
1 GCTCTTAGTGAACTTCCCATTATATG
* * * *
4896479 GCTCTTAGAGAGCTTTCCGATTA-AAG
1 GCTCTTAGTGAAC-TTCCCATTATATG
*
4896505 GCTCTTTGTGAACTTCCCATTATATG
1 GCTCTTAGTGAACTTCCCATTATATG
4896531 GCT
1 GCT
4896534 ATTCGGTGTT
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
25 15 0.37
26 20 0.49
27 6 0.15
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
GCTCTTAGTGAACTTCCCATTATATG
Found at i:4896585 original size:24 final size:24
Alignment explanation
Indices: 4896549--4896594 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
4896539 GTGTTTCCCA
4896549 TTAATTGTACTTTGGAGCTACCTG
1 TTAATTGTACTTTGGAGCTACCTG
4896573 TTAATTGCT-CTTTGGAGCTACC
1 TTAATTG-TACTTTGGAGCTACC
4896595 CATTATAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (24 bp):
TTAATTGTACTTTGGAGCTACCTG
Found at i:4896909 original size:15 final size:16
Alignment explanation
Indices: 4896882--4896912 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4896872 CGGGTTACAA
4896882 AAATTCATTCAAATTT
1 AAATTCATTCAAATTT
4896898 AAATTC-TTCAAATTT
1 AAATTCATTCAAATTT
4896913 TTAACATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTCATTCAAATTT
Found at i:4898603 original size:16 final size:16
Alignment explanation
Indices: 4898582--4898613 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4898572 GTTTTGTTGC
*
4898582 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
4898598 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
4898614 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:4904281 original size:48 final size:48
Alignment explanation
Indices: 4904209--4904301 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
4904199 GGGAATTCTG
** * *
4904209 TTGAATCCTTTATCGTTGCGAGTTAAGTTGACTTAGGCGTTTTTACTA
1 TTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTACTA
* *
4904257 TTGAATCCTTTATCACTGCAAGTTAGGCTGACTTATGCGTTTTTA
1 TTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
4904302 AGCAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (48 bp):
TTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTACTA
Found at i:4909089 original size:36 final size:36
Alignment explanation
Indices: 4909049--4909119 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
4909039 AGAAGATATA
*
4909049 ATTATGGAATCTTAGAGTTCTAATTGTATATAGCTG
1 ATTATGGAAGCTTAGAGTTCTAATTGTATATAGCTG
*
4909085 ATTATGTAAGCTTAGAGTTCTAATTGTATATAGCT
1 ATTATGGAAGCTTAGAGTTCTAATTGTATATAGCT
4909120 TTTAATGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAGTTCTAATTGTATATAGCTG
Found at i:4909419 original size:48 final size:48
Alignment explanation
Indices: 4909344--4909439 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
4909334 TAAGGGAATT
** * *
4909344 CTGTTGAATCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCATTTTTA
*
4909392 CTGTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGCATTTTTA
1 CTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCATTTTTA
4909440 AGCAAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCATTTTTA
Found at i:4922941 original size:3 final size:3
Alignment explanation
Indices: 4922935--4922985 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
4922925 GAGAGAAAGG
*
4922935 AGA AGA AG- AGA A-A GAGA AAA AGA AGA AG- AGA AGA AGA AGA AGAA
1 AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A
4922979 AGA AGA A
1 AGA AGA A
4922986 AAAAAGGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 5 0.12
3 32 0.78
4 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4922949 original size:23 final size:20
Alignment explanation
Indices: 4922935--4922984 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4922925 GAGAGAAAGG
4922935 AGAAGAAGAGAAAGAGAAAA
1 AGAAGAAGAGAAAGAGAAAA
*
4922955 AGAAGAAGAG-AAGAAGAAGA
1 AGAAGAAGAGAAAG-AGAAAA
4922975 AGAAAGAAGA
1 AG-AAGAAGA
4922985 AAAAAAGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.11
20 17 0.63
21 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAGAAAGAGAAAA
Found at i:4922951 original size:14 final size:14
Alignment explanation
Indices: 4922934--4922985 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
4922924 AGAGAGAAAG
4922934 GAGAAGAAG-AGAAA
1 GAGAAGAAGAAG-AA
*
4922948 GAGAAAAAGAAGAA
1 GAGAAGAAGAAGAA
4922962 GAGAAGAAGAAGAA
1 GAGAAGAAGAAGAA
4922976 GA-AAGAAGAA
1 GAGAAGAAGAA
4922986 AAAAAGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
13 8 0.23
14 25 0.71
15 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAGAAGAAGAAGAA
Found at i:4923196 original size:19 final size:19
Alignment explanation
Indices: 4923172--4923208 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4923162 TTTAACTTTT
4923172 TTGTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
4923191 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
4923209 TATTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:4923376 original size:49 final size:49
Alignment explanation
Indices: 4923262--4924275 Score: 1822
Period size: 49 Copynumber: 20.7 Consensus size: 49
4923252 TTTTTGTATG
* **
4923262 AATATTGTAATTTTGTATGAATATTATAATTTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAA-TTTTTTTGTATGAATATTGT
* *
4923312 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTACGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * * **
4923361 AATTTTGTAACTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923410 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923459 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923508 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923557 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923606 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923655 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923704 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923753 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923802 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923851 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923900 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923949 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4923998 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4924047 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4924096 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
4924145 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* **
4924194 AATATTATAATTTTGTATGAATATTG-AA--TGTCGGTAT--ATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * *
4924238 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTATAA--TTTTGTATGAATATTGCAATTTTTTT
4924276 ATAATTAATT
Statistics
Matches: 934, Mismatches: 25, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
44 16 0.02
46 22 0.02
47 2 0.00
48 2 0.00
49 867 0.93
50 25 0.03
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.53
Consensus pattern (49 bp):
AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:4924340 original size:19 final size:19
Alignment explanation
Indices: 4924318--4924355 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4924308 TATAAATTTA
*
4924318 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
4924337 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
4924356 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:4924620 original size:22 final size:22
Alignment explanation
Indices: 4924595--4924653 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
4924585 AATAAACACC
4924595 AAAAAAT-TTTTAAAAATAAAA
1 AAAAAATATTTTAAAAATAAAA
*
4924616 AAAAAGTATTTTAAAAATAAAAA
1 AAAAAATATTTTAAAAAT-AAAA
4924639 ATAAAAATATATTTA
1 A-AAAAATAT-TTTA
4924654 TTGTATTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 6 0.19
22 10 0.31
23 5 0.16
24 7 0.22
25 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATATTTTAAAAATAAAA
Found at i:4924823 original size:19 final size:19
Alignment explanation
Indices: 4924801--4924838 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4924791 AATTTAATTT
*
4924801 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
4924820 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
4924839 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:4928492 original size:27 final size:27
Alignment explanation
Indices: 4928462--4928533 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
4928452 CTTTCAGAAT
*
4928462 GGCACCAACATTGGCGCCTCCCAGGTA
1 GGCACCACCATTGGCGCCTCCCAGGTA
*
4928489 GGCACCACCATTGGTGCCTCCCAGGTA
1 GGCACCACCATTGGCGCCTCCCAGGTA
4928516 GGCACCACCATTGGCGCC
1 GGCACCACCATTGGCGCC
4928534 AATACTATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.19, C:0.39, G:0.26, T:0.15
Consensus pattern (27 bp):
GGCACCACCATTGGCGCCTCCCAGGTA
Found at i:4935986 original size:23 final size:22
Alignment explanation
Indices: 4935943--4936000 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4935933 AAAGGGTATC
* *
4935943 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4935964 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4935987 TGCATATCATATCT
1 TACAAATCATATCT
4936001 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4936003 original size:19 final size:19
Alignment explanation
Indices: 4935956--4936089 Score: 169
Period size: 19 Copynumber: 6.8 Consensus size: 19
4935946 AAATTAAATC
*
4935956 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
4935976 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
*
4935998 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
4936017 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
4936036 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
4936055 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
4936074 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
4936090 CCTGAAGATT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
19 82 0.83
22 7 0.07
23 10 0.10
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:4936026 original size:38 final size:38
Alignment explanation
Indices: 4935979--4936082 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
4935969 AATCATATCT
4935979 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
4936017 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
4936055 TCTAAGATTACATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
4936083 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:4936476 original size:43 final size:44
Alignment explanation
Indices: 4936372--4936478 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 44
4936362 AAGAATTGGT
*
4936372 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGC-ATACCAAGGAGATAGGACTTACAA
* * * * *
4936417 TCTTCAACCTATTCCACTGC-TGACCAAGGAGATATGA-TTACTA
1 GCTTCAATCTACTCCACTGCAT-ACCAAGGAGATAGGACTTACAA
*
4936460 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
4936479 TAACCACAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
43 21 0.41
44 13 0.25
45 17 0.33
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCATACCAAGGAGATAGGACTTACAA
Found at i:4940949 original size:24 final size:24
Alignment explanation
Indices: 4940921--4940966 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4940911 ATCATTTTTT
* *
4940921 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
4940945 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
4940967 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:4944256 original size:22 final size:21
Alignment explanation
Indices: 4944220--4944354 Score: 79
Period size: 19 Copynumber: 6.7 Consensus size: 21
4944210 TAAAGGGTAT
* *
4944220 TTACAAATTAAATCTCTAAGA
1 TTACAAATCATATCTCTAAGA
4944241 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATC-TCTAAGA
* *
4944264 TTACATATCATA--TCTAAAA
1 TTACAAATCATATCTCTAAGA
* *
4944283 TTATATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
* *
4944302 TTGCATATCATAT-T-TAAGA
1 TTACAAATCATATCTCTAAGA
* * *
4944321 TTATATAT--TATATCTAAGA
1 TTACAAATCATATCTCTAAGA
* *
4944340 TTGCATATCATATCT
1 TTACAAATCATATCT
4944355 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
17 3 0.03
18 1 0.01
19 55 0.59
20 1 0.01
21 8 0.09
22 15 0.16
23 11 0.12
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.40
Consensus pattern (21 bp):
TTACAAATCATATCTCTAAGA
Found at i:4944264 original size:23 final size:22
Alignment explanation
Indices: 4944220--4944278 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
4944210 TAAAGGGTAT
* *
4944220 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
4944241 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
*
4944264 TTACATATCATATCT
1 TTACAAATCATATCT
4944279 AAAATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
23 11 0.33
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:4944285 original size:19 final size:19
Alignment explanation
Indices: 4944234--4944367 Score: 151
Period size: 19 Copynumber: 6.8 Consensus size: 19
4944224 AAATTAAATC
*
4944234 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
4944254 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
4944276 TCTAAAATTATATATCATA
1 TCTAAGATTACATATCATA
*
4944295 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* * *
4944314 TTTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
*
4944333 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
4944352 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
4944368 CCTGAAGATT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
19 79 0.81
22 7 0.07
23 11 0.11
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:4944334 original size:57 final size:57
Alignment explanation
Indices: 4944259--4944367 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
4944249 TCATATCTTC
*
4944259 TAAGATTACATATCATATCTAAAATTATATATCATATCTAAGATTGCATATCATATT
1 TAAGATTACATATCATATCTAAAATTACATATCATATCTAAGATTGCATATCATATT
* * * *
4944316 TAAGATTATATATTATATCTAAGATTGCATATCATATCTAAGATTGCATATC
1 TAAGATTACATATCATATCTAAAATTACATATCATATCTAAGATTGCATATC
4944368 CCTGAAGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (57 bp):
TAAGATTACATATCATATCTAAAATTACATATCATATCTAAGATTGCATATCATATT
Found at i:4944358 original size:38 final size:38
Alignment explanation
Indices: 4944257--4944360 Score: 172
Period size: 38 Copynumber: 2.7 Consensus size: 38
4944247 AATCATATCT
* *
4944257 TCTAAGATTACATATCATATCTAAAATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
4944295 TCTAAGATTGCATATCATATTTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
4944333 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
4944361 GCATATCCCT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:4948003 original size:28 final size:28
Alignment explanation
Indices: 4947938--4947999 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4947928 AATAAACACC
*
4947938 AAAAAATTATTTTAAAAATAAAAACATT
1 AAAAAAATATTTTAAAAATAAAAACATT
** *
4947966 TTAAAAATATTTTAAAATTAAAAA-ATT
1 AAAAAAATATTTTAAAAATAAAAACATT
4947993 AAAAAAA
1 AAAAAAA
4948000 ATATATTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAAAAATATTTTAAAAATAAAAACATT
Found at i:4948432 original size:24 final size:24
Alignment explanation
Indices: 4948417--4948468 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4948407 AATCAAAGTC
4948417 AAATATATTATACTAAAAAATGCT
1 AAATATATTATACTAAAAAATGCT
* * *
4948441 AAATATATTATACTTATAAATACT
1 AAATATATTATACTAAAAAATGCT
4948465 AAAT
1 AAAT
4948469 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAAAAAATGCT
Found at i:4951214 original size:21 final size:21
Alignment explanation
Indices: 4951180--4951222 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4951170 ATATCAAAAA
*
4951180 TAATATTATTTTAATAG-ATT
1 TAATATTATCTTAATAGTATT
4951200 TAATATTTATCTTAATAGTATT
1 TAATA-TTATCTTAATAGTATT
4951222 T
1 T
4951223 TATTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TAATATTATCTTAATAGTATT
Found at i:4951258 original size:31 final size:29
Alignment explanation
Indices: 4951223--4951280 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
4951213 AATAGTATTT
*
4951223 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
4951254 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
4951281 GTAGATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:4951365 original size:59 final size:62
Alignment explanation
Indices: 4951250--4951366 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
4951240 AGTGATTATC
* * * *
4951250 TTAATATTAAATTAAATTTAATGTTTATCTTGTAGATGAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
* *
4951312 TTAATATTAAGTTTAATCTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
4951367 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 21 0.43
60 2 0.04
61 1 0.02
62 25 0.51
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:4953891 original size:53 final size:54
Alignment explanation
Indices: 4953817--4953923 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
4953807 ATTGCTAGGT
4953817 CTAATATTAAACATGTAAAATTTTAAACTTCTCTTTAAAATTACAATCCAGTTA
1 CTAATATTAAACATGTAAAATTTTAAACTTCTCTTTAAAATTACAATCCAGTTA
4953871 CTAATATT-AACATGTAAAATTTTAAACTTCTCTTTAAAATTACAATCCAGTTA
1 CTAATATTAAACATGTAAAATTTTAAACTTCTCTTTAAAATTACAATCCAGTTA
4953924 AAGCATAAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 45 0.85
54 8 0.15
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (54 bp):
CTAATATTAAACATGTAAAATTTTAAACTTCTCTTTAAAATTACAATCCAGTTA
Found at i:4954827 original size:41 final size:41
Alignment explanation
Indices: 4954739--4954872 Score: 139
Period size: 41 Copynumber: 3.2 Consensus size: 41
4954729 TTTAAACAGA
* * * *
4954739 TTCACTGGCACTTAGCCTGCTAGACTTAAAGCCTG-ATTCAG-
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAAT--GT
* *
4954780 TACACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATGT
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATGT
* *
4954821 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCACTT-AGCCTGCTAGACATAAAGTCTGAAA-TGT
4954863 TTCACCGGCA
1 TTCACCGGCA
4954873 TTAAGNNNNN
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
40 3 0.04
41 62 0.78
42 14 0.18
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATGT
Found at i:4957963 original size:28 final size:30
Alignment explanation
Indices: 4957903--4957963 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
4957893 CTGGGCATTT
* *
4957903 CCACACGAGCTGGGCACACACCCGTGTGAG
1 CCACACGAGCTGGGCACACACCCCTATGAG
* *
4957933 CCACACGGGCT-GGC-CACACCCCTATGTG
1 CCACACGAGCTGGGCACACACCCCTATGAG
4957961 CCA
1 CCA
4957964 GCCCATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.11
Consensus pattern (30 bp):
CCACACGAGCTGGGCACACACCCCTATGAG
Found at i:4962266 original size:25 final size:25
Alignment explanation
Indices: 4962235--4962303 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
4962225 GGAAACTCAT
4962235 GCGAGCCAATATCGGGAAGGTTCAA
1 GCGAGCCAATATCGGGAAGGTTCAA
* *
4962260 GCGAGCCAATATCAGGAAGGTTTAA
1 GCGAGCCAATATCGGGAAGGTTCAA
4962285 GCGAGCCAATATCGGGAAG
1 GCGAGCCAATATCGGGAAG
4962304 CTCATGAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.32, T:0.16
Consensus pattern (25 bp):
GCGAGCCAATATCGGGAAGGTTCAA
Found at i:4962350 original size:25 final size:27
Alignment explanation
Indices: 4962287--4962359 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 27
4962277 AGGTTTAAGC
*
4962287 GAGCCA-ATATCGGGAAGCTCATGAAA
1 GAGCCATATATCGGGAAGCTCACGAAA
*
4962313 GAGCC-TTTAATCGGGAAGCTC-CG-AA
1 GAGCCATAT-ATCGGGAAGCTCACGAAA
* *
4962338 GAGCCATATATCGAGACGCTCA
1 GAGCCATATATCGGGAAGCTCA
4962360 TAAGATTTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
25 17 0.45
26 9 0.24
27 12 0.32
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
GAGCCATATATCGGGAAGCTCACGAAA
Found at i:4962460 original size:25 final size:25
Alignment explanation
Indices: 4962426--4962485 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
4962416 AAAAAGTTGT
*
4962426 TAACGGGAAGATCGCAAGAACCATA
1 TAACGGGAAGATCGCAAAAACCATA
4962451 TAACGGGAAGATCGCAAAAACCATA
1 TAACGGGAAGATCGCAAAAACCATA
*
4962476 TAACAGGAAG
1 TAACGGGAAG
4962486 CTCATGAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (25 bp):
TAACGGGAAGATCGCAAAAACCATA
Found at i:4982642 original size:9 final size:9
Alignment explanation
Indices: 4982628--4982691 Score: 69
Period size: 9 Copynumber: 7.2 Consensus size: 9
4982618 AAACTTAACC
4982628 AATTAACTA
1 AATTAACTA
4982637 AATTAACTA
1 AATTAACTA
4982646 AATTTAACTA
1 AA-TTAACTA
* **
4982656 ATTTAGGT-
1 AATTAACTA
4982664 AATTAACTA
1 AATTAACTA
*
4982673 AATTAAC-C
1 AATTAACTA
4982681 AATTAACTA
1 AATTAACTA
4982690 AA
1 AA
4982692 ATAAATAATG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
8 12 0.27
9 24 0.55
10 8 0.18
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (9 bp):
AATTAACTA
Found at i:4982647 original size:27 final size:26
Alignment explanation
Indices: 4982617--4982691 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
4982607 TTTTCATATA
4982617 TAAACTTAACCAATTAACTAAATTAAC
1 TAAA-TTAACCAATTAACTAAATTAAC
* **
4982644 TAAATTTAACTAATTTAGGT-AATTAAC
1 TAAA-TTAACCAA-TTAACTAAATTAAC
4982671 TAAATTAACCAATTAACTAAA
1 TAAATTAACCAATTAACTAAA
4982692 ATAAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 4 0.10
26 9 0.23
27 22 0.56
28 4 0.10
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (26 bp):
TAAATTAACCAATTAACTAAATTAAC
Found at i:4982684 original size:17 final size:17
Alignment explanation
Indices: 4982617--4982691 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
4982607 TTTTCATATA
4982617 TAAACTTAACCAATTAAC
1 TAAA-TTAACCAATTAAC
*
4982635 TAAATTAACTAAATTTAAC
1 TAAATTAAC-CAA-TTAAC
* ***
4982654 TAATTTAGGTAATTAAC
1 TAAATTAACCAATTAAC
4982671 TAAATTAACCAATTAAC
1 TAAATTAACCAATTAAC
4982688 TAAA
1 TAAA
4982692 ATAAATAATG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
17 27 0.59
18 8 0.17
19 11 0.24
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAATTAACCAATTAAC
Found at i:4991527 original size:24 final size:24
Alignment explanation
Indices: 4991492--4991564 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
4991482 CGGACCCGCA
4991492 GCAAGAGTCAGAGCCAAAACCGGAG
1 GCAAGAGTCAGAG-CAAAACCGGAG
* *
4991517 GC-AGAGCCAGAGCAAGAACC-GAA
1 GCAAGAGTCAGAGCAA-AACCGGAG
*
4991540 GCAAGAGTTAGAGGCAAAACCGGAG
1 GCAAGAGTCAGA-GCAAAACCGGAG
4991565 CCGGATCCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 7 0.18
24 24 0.62
25 8 0.21
ACGTcount: A:0.41, C:0.22, G:0.33, T:0.04
Consensus pattern (24 bp):
GCAAGAGTCAGAGCAAAACCGGAG
Found at i:4991615 original size:66 final size:66
Alignment explanation
Indices: 4991500--4991647 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
4991490 CAGCAAGAGT
* * * **
4991500 CAGAGCCAAAACCGGAGGCAGAGCCAGAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGGAG
1 CAGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCAAAG
4991565 C
66 C
* ** * *
4991566 CGGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAATGGGAGCCAA-AGTTAGAGGGAAAACCAAA
1 CAGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAACCGAAG-CAAGAGTTAGAGGCAAAACCAAA
4991630 GC
65 GC
4991632 CAGATCCAGAACCGGA
1 CAGATCCAGAACCGGA
4991648 ACCAAAACCG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
66 67 0.96
67 3 0.04
ACGTcount: A:0.41, C:0.24, G:0.31, T:0.05
Consensus pattern (66 bp):
CAGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCAAAG
C
Found at i:4991687 original size:30 final size:30
Alignment explanation
Indices: 4991653--4991713 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4991643 CCGGAACCAA
* *
4991653 AACCGGAGACAGAGCCAGAGTTAGAGGCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
* * *
4991683 AACCGAAGTCGGATCCAGAGTTAGAGCCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
4991713 A
1 A
4991714 GTCAGAACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (30 bp):
AACCGAAGACAGAGCCAGAGTTAGAGCCAG
Found at i:4991782 original size:24 final size:24
Alignment explanation
Indices: 4991755--4991803 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4991745 CCAGAATCGA
* *
4991755 AGTCAGACCCGCAGCTAGAGTCAG
1 AGTCAGACCCGCAGCCAGAGACAG
**
4991779 AGTCAGAGTCGCAGCCAGAGACAG
1 AGTCAGACCCGCAGCCAGAGACAG
4991803 A
1 A
4991804 ACCAGTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.31, T:0.10
Consensus pattern (24 bp):
AGTCAGACCCGCAGCCAGAGACAG
Found at i:4995298 original size:20 final size:19
Alignment explanation
Indices: 4995260--4995298 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4995250 AGCATATGCG
*
4995260 AATTTGTATTTTGATAATT
1 AATTTGTATTTTGAAAATT
*
4995279 AATTTTTATGTTTGAAAATT
1 AATTTGTAT-TTTGAAAATT
4995299 TTGATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
AATTTGTATTTTGAAAATT
Found at i:4996298 original size:42 final size:42
Alignment explanation
Indices: 4996236--4996318 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
4996226 ATAAGATGTA
* * *
4996236 TTAATATGATAAGTAAAAACCGGTATCTCTCATTGATCAGCG
1 TTAATATGATAAGTAAAAACCGGCATCTCACACTGATCAGCG
* *
4996278 TTAATATGATTAGTAGAAACCGGCATCTCACACTGATCAGC
1 TTAATATGATAAGTAAAAACCGGCATCTCACACTGATCAGC
4996319 CGCAACAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (42 bp):
TTAATATGATAAGTAAAAACCGGCATCTCACACTGATCAGCG
Found at i:5001365 original size:25 final size:25
Alignment explanation
Indices: 5001335--5001389 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
5001325 AGTGGAAGCA
* *
5001335 GTGGCAGTATATCTGCAAATCAGTG
1 GTGGCAATATATCTACAAATCAGTG
* *
5001360 GTGGCAATATATCTATAATTCAGTG
1 GTGGCAATATATCTACAAATCAGTG
5001385 GTGGC
1 GTGGC
5001390 TTTCCACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (25 bp):
GTGGCAATATATCTACAAATCAGTG
Found at i:5005125 original size:3 final size:3
Alignment explanation
Indices: 5005117--5005143 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5005107 CAAACGTCGG
5005117 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
5005144 TCAAGTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:5005142 original size:72 final size:72
Alignment explanation
Indices: 5005064--5005206 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
5005054 ATCGTCGTTG
*
5005064 TCATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
5005129 ATCATCA
66 ATCATCA
* *
5005136 TCATCATCTCAAGTTCCTTCTTGTTTACGAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
5005201 ATCATC
66 ATCATC
5005207 TCCTCAAGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.25, C:0.34, G:0.10, T:0.31
Consensus pattern (72 bp):
TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
ATCATCA
Found at i:5011058 original size:93 final size:93
Alignment explanation
Indices: 5010940--5011131 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 93
5010930 GAGTGTTAGC
5010940 TTAATGCTACACTTACTTGGGACATGTTAGACTC-TATGAGTCATTAGTGTAATAGAGATCTATG
1 TTAATGCTACACTTACTTGGGACATGTTAGACTCATATGAGTCATTAGTGTAATAGAGATCTATG
5011004 TATCCGATGTGCTGTATTTTTATACATA
66 TATCCGATGTGCTGTATTTTTATACATA
5011032 TTAATGCTACACTTTACTTGGGACATGTTAGACTCTATGATATGAGTCATTAGTGTAATAGAGAT
1 TTAATGCTACAC-TTACTTGGGACATGTTAGACTC----ATATGAGTCATTAGTGTAATAGAGAT
5011097 CTATGTATCCGATGTGCTGTATTTTTATACATA
61 CTATGTATCCGATGTGCTGTATTTTTATACATA
5011130 TT
1 TT
5011132 TCATAATCAC
Statistics
Matches: 94, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
92 12 0.13
93 22 0.23
98 60 0.64
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (93 bp):
TTAATGCTACACTTACTTGGGACATGTTAGACTCATATGAGTCATTAGTGTAATAGAGATCTATG
TATCCGATGTGCTGTATTTTTATACATA
Found at i:5015171 original size:57 final size:57
Alignment explanation
Indices: 5015083--5015191 Score: 218
Period size: 57 Copynumber: 1.9 Consensus size: 57
5015073 GACAATCTCT
5015083 TGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCATTTTCG
1 TGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCATTTTCG
5015140 TGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
5015192 AACCGTTCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (57 bp):
TGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCATTTTCG
Found at i:5021864 original size:5 final size:5
Alignment explanation
Indices: 5021854--5021882 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
5021844 AAGAATACTT
5021854 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
5021883 TACAGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:5024917 original size:92 final size:91
Alignment explanation
Indices: 5024760--5024968 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
5024750 TTGATTTTAG
* * *
5024760 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
5024825 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
5024852 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
5024916 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
5024944 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
5024969 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:5024931 original size:24 final size:25
Alignment explanation
Indices: 5024896--5024943 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
5024886 TTATGAAATT
5024896 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
5024920 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
5024944 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:5025139 original size:16 final size:16
Alignment explanation
Indices: 5025118--5025159 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5025108 TTATTAAATT
*
5025118 ATATATTTTAATTATA
1 ATATATTTTAATAATA
5025134 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
5025149 AT-TATGTTTAA
1 ATATAT-TTTAA
5025160 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:5025144 original size:15 final size:15
Alignment explanation
Indices: 5025109--5025150 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5025099 TTAAGAATTT
*
5025109 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5025123 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5025137 TATTTAATAATAAT
1 TATTTAATTATAAT
5025151 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5025391 original size:16 final size:16
Alignment explanation
Indices: 5025370--5025416 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
5025360 TTGATTTGCT
5025370 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
5025386 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
5025402 ATTACACCTCTATTC
1 ATTACGCCTCTATTC
5025417 TAATACAGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Done.