Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 154 of 226
Found at i:50103111 original size:12 final size:12
Alignment explanation
Indices: 50103072--50103102 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50103062 CTTACATTAG
50103072 TATTTATCTATC
1 TATTTATCTATC
*
50103084 TATCTATCTATC
1 TATTTATCTATC
50103096 TATTTAT
1 TATTTAT
50103103 TTATTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTATCTATC
Found at i:50106157 original size:4 final size:4
Alignment explanation
Indices: 50106148--50106191 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
50106138 TCAAACTTAG
* * * *
50106148 TATT TATT TATT TATC TATC TATC TGTT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
50106192 GGCTTGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:50111174 original size:86 final size:86
Alignment explanation
Indices: 50111029--50111372 Score: 688
Period size: 86 Copynumber: 4.0 Consensus size: 86
50111019 CAAATGTTGT
50111029 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
1 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
50111094 GAAGTGCATGGAAAATCTTTA
66 GAAGTGCATGGAAAATCTTTA
50111115 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
1 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
50111180 GAAGTGCATGGAAAATCTTTA
66 GAAGTGCATGGAAAATCTTTA
50111201 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
1 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
50111266 GAAGTGCATGGAAAATCTTTA
66 GAAGTGCATGGAAAATCTTTA
50111287 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
1 ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
50111352 GAAGTGCATGGAAAATCTTTA
66 GAAGTGCATGGAAAATCTTTA
50111373 TTTAAGCACT
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 258 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (86 bp):
ATATCAAGTTATGTATTTTACTCTAAACATATCAGCATTTACTTATTTTTTCTACAAATTGGGTT
GAAGTGCATGGAAAATCTTTA
Found at i:50115724 original size:9 final size:9
Alignment explanation
Indices: 50115712--50115745 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
50115702 ATTTAAGCCA
50115712 TTTAAAATT
1 TTTAAAATT
*
50115721 TTTAAGATT
1 TTTAAAATT
50115730 TTTAAAA-T
1 TTTAAAATT
50115738 TTTAAAAT
1 TTTAAAAT
50115746 GAGAAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTAAAATT
Found at i:50122234 original size:6 final size:6
Alignment explanation
Indices: 50122223--50122253 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
50122213 TTAAATTTTA
50122223 TAATTT TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT TAATTT T
50122254 TAAACAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:50125453 original size:29 final size:28
Alignment explanation
Indices: 50125412--50125490 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
50125402 TATAATATTT
*
50125412 ATAAATTAAAATATTAAAATAAATTTAA
1 ATAAATTAAAATATTAAAATAAATTGAA
* *
50125440 ATAAATTAACAATATTGAAATAAGTTGAA
1 ATAAATTAA-AATATTAAAATAAATTGAA
* *
50125469 ACAAATTAAAGATGTTAAAATA
1 ATAAATTAAA-ATATTAAAATA
50125491 TTTGAAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 10 0.23
29 33 0.77
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
ATAAATTAAAATATTAAAATAAATTGAA
Found at i:50128215 original size:89 final size:89
Alignment explanation
Indices: 50128025--50128520 Score: 468
Period size: 88 Copynumber: 5.6 Consensus size: 89
50128015 GATAAGACTG
* * * * *
50128025 GTGTCTTCGATTTGCTTCGCTG-CTAGTACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCA
1 GTGTCTTCGATCTGCTTCGCTGTC-AGTACAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCA
* *
50128089 CT--ATTACTCAGGGAGATAAGGCTA
65 CTGCA-AACTCAGGGAGACAAGGCTA
* ** * * * *
50128113 GTGTCTTCGATCTGCTTCGTTGTCAGTTTAGGAAGTCAAGATCTGCTATCTTCATTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCAC
*
50128178 TGCAAACTCAGGGAGGCAAGGCTA
66 TGCAAACTCAGGGAGACAAGGCTA
* * * * *
50128202 GTGTCTTCAATCTGCTTCGCTGCCAGTACATGAAGGCAAGATTTGCTATCTTCAACCTACTCCAC
1 GTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCAC
** *
50128267 TGC-TGCTCAGGGAGATAAGGCTGA
66 TGCAAACTCAGGGAGACAAGGCT-A
* * * * * * *
50128291 G-GTCTTCGATTTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCAC
1 GTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCAC
** *
50128355 T--ATTGCTCAAGGAGACAAGGCTGA
66 TGCA-AACTCAGGGAGACAAGGCT-A
** * * * * *
50128379 G-GTCTTCGATCTATTTCACTGTTAGTATAGGAAGGCAAGATCTGCTATCTTCAATCTACTCTAT
1 GTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCAC
* * * *
50128443 TGCAAACCCAGGGAGGCAAGACTG
66 TGCAAACTCAGGGAGACAAGGCTA
* * *
50128467 GTGTCTTCGATCTGCTTCGCGGTCAGCACAGGGAGGCAAGATCTGCTATCTTCA
1 GTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
50128521 TTGATCTATT
Statistics
Matches: 332, Mismatches: 67, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
88 197 0.59
89 133 0.40
90 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (89 bp):
GTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCAC
TGCAAACTCAGGGAGACAAGGCTA
Found at i:50128332 original size:177 final size:177
Alignment explanation
Indices: 50128025--50128522 Score: 455
Period size: 177 Copynumber: 2.8 Consensus size: 177
50128015 GATAAGACTG
* * * *
50128025 GTGTCTTCGATTTGCTTCGCTGCTAGTACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCAC
1 GTGTCTTCAATCTGCTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
* * * * * ** *
50128090 TATTACTCAGGGAGATAAGGCTAGTGTCTTCGATCTGCTTCGTTGTCAGTTTAGGAAGTCAAGAT
66 TACTACTCAGGGAGATAAGGCTAGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGAT
50128155 CTGCTATCTTCATTCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTA
131 CTGCTATCTTCATTCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTA
* * *
50128202 GTGTCTTCAATCTGCTTCGCTGCCAGTACATGAAGGCAAGATTTGCTATCTTCAACCTACTCCAC
1 GTGTCTTCAATCTGCTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
* * *
50128267 TGCTGCTCAGGGAGATAAGGCTGAG-GTCTTCGATTTACTTCGCTGCCAATACAGGAAGACAAGA
66 TACTACTCAGGGAGATAAGGCT-AGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
* ** * * ** * *
50128331 TCTGCTATTTTCAACCTACTCCACT--ATTGCTCAAGGAGACAAGGCTGA
130 TCTGCTATCTTCATTCTGCTCCGCTGCA-AACTCAGGGAGGCAAGGCT-A
* ** * ** * * * * * *
50128379 G-GTCTTCGATCTATTTCACTGTTAGTATAGGAAGGCAAGATCTGCTATCTTCAATCTACTCTAT
1 GTGTCTTCAATCTGCTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
* * * ** * * * * * ** * *
50128443 TGCAAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCGGTCAGCACAGGGAGGCAAGA
66 TAC-TACTCAGGGAGATAAGGCTAGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
50128508 TCTGCTATCTTCATT
130 TCTGCTATCTTCATT
50128523 GATCTATTCT
Statistics
Matches: 259, Mismatches: 57, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
175 1 0.00
176 70 0.27
177 186 0.72
178 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (177 bp):
GTGTCTTCAATCTGCTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
TACTACTCAGGGAGATAAGGCTAGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGAT
CTGCTATCTTCATTCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTA
Found at i:50128506 original size:265 final size:265
Alignment explanation
Indices: 50128027--50128520 Score: 711
Period size: 265 Copynumber: 1.9 Consensus size: 265
50128017 TAAGACTGGT
* * *
50128027 GTCTTCGATTTGCTTCGCTGCTAGTACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 GTCTTCGATTTACTTCGCTGCCAATACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
* * * ** * *
50128092 TTACTCAGGGAGATAAGGCTAGTGTCTTCGATCTGCTTCGTTGTCAGTTTAGGAAGTCAAGATCT
66 TTACTCAAGGAGACAAGGCTAGTGTCTTCGATCTACTTCACTGTCAGTATAGGAAGGCAAGATCT
* * * * *
50128157 GCTATCTTCATTCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGC
131 GCTATCTTCAATCTACTCCACTGCAAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGCTTCGC
* * * *
50128222 TGCCAGTACATGAAGGCAAGATTTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
196 GGCCAGCACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
50128287 CTGAG
261 CTGAG
*
50128292 GTCTTCGATTTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 GTCTTCGATTTACTTCGCTGCCAATACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
* * *
50128357 TTGCTCAAGGAGACAAGGCTGAG-GTCTTCGATCTATTTCACTGTTAGTATAGGAAGGCAAGATC
66 TTACTCAAGGAGACAAGGCT-AGTGTCTTCGATCTACTTCACTGTCAGTATAGGAAGGCAAGATC
* * * *
50128421 TGCTATCTTCAATCTACTCTATTGCAAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCG
130 TGCTATCTTCAATCTACTCCACTGCAAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGCTTCG
* *
50128486 CGGTCAGCACAGGGAGGCAAGATCTGCTATCTTCA
195 CGGCCAGCACAGGAAGGCAAGATCTGCTATCTTCA
50128521 TTGATCTATT
Statistics
Matches: 199, Mismatches: 29, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
265 197 0.99
266 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (265 bp):
GTCTTCGATTTACTTCGCTGCCAATACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
TTACTCAAGGAGACAAGGCTAGTGTCTTCGATCTACTTCACTGTCAGTATAGGAAGGCAAGATCT
GCTATCTTCAATCTACTCCACTGCAAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGCTTCGC
GGCCAGCACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
CTGAG
Found at i:50130827 original size:25 final size:25
Alignment explanation
Indices: 50130774--50130833 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
50130764 AAGAAAATCC
* *
50130774 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
50130799 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
50130824 AAAA-AATGAA
1 AAAAGAATGAA
50130834 TACAAAGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.58, C:0.05, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:50134533 original size:29 final size:28
Alignment explanation
Indices: 50134492--50134570 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
50134482 TATAATATTT
*
50134492 ATAAATTAAAATATTAAAATAAATTTAA
1 ATAAATTAAAATATTAAAATAAATTGAA
* *
50134520 ATAAATTAACAATATTGAAATAAGTTGAA
1 ATAAATTAA-AATATTAAAATAAATTGAA
* *
50134549 ACAAATTAAAGATGTTAAAATA
1 ATAAATTAAA-ATATTAAAATA
50134571 TTTGAAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 10 0.23
29 33 0.77
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
ATAAATTAAAATATTAAAATAAATTGAA
Found at i:50134978 original size:16 final size:16
Alignment explanation
Indices: 50134959--50135007 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
50134949 TATAAATACG
50134959 TATATAAATTGTATAA
1 TATATAAATTGTATAA
* * *
50134975 TATAAAAAATGTATGTA
1 TATATAAATTGTAT-AA
*
50134992 TATATAAATTATATAA
1 TATATAAATTGTATAA
50135008 AAAATATGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
TATATAAATTGTATAA
Found at i:50135023 original size:28 final size:31
Alignment explanation
Indices: 50134955--50135024 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
50134945 TATATATAAA
50134955 TACGTATATAAATTGTATAATATAAAAAATG
1 TACGTATATAAATTGTATAATATAAAAAATG
* *
50134986 TATGTATATATAAAT-TAT-ATA-AAAAATATG
1 TACGTATATA-AATTGTATAATATAAAAA-ATG
50135016 TACGTATAT
1 TACGTATAT
50135025 TTTAAAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 12 0.35
32 3 0.09
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.39
Consensus pattern (31 bp):
TACGTATATAAATTGTATAATATAAAAAATG
Found at i:50139035 original size:28 final size:28
Alignment explanation
Indices: 50138983--50139036 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
50138973 CTCACCATTC
* *
50138983 TTTCTTTTGTTTTTCTTTATGCTTTCTT
1 TTTCTTTTCTTTTTCTTTATCCTTTCTT
50139011 TTTCTTTTCTTTTTCTGTTA-CCTTTC
1 TTTCTTTTCTTTTTCT-TTATCCTTTC
50139037 AAATCACGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTCTTTTCTTTTTCTTTATCCTTTCTT
Found at i:50139793 original size:7 final size:7
Alignment explanation
Indices: 50139781--50139809 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50139771 TTCTATAAAG
50139781 ATTTTGA
1 ATTTTGA
50139788 ATTTTGA
1 ATTTTGA
50139795 ATTTTGA
1 ATTTTGA
50139802 ATTTTGA
1 ATTTTGA
50139809 A
1 A
50139810 GCAAATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (7 bp):
ATTTTGA
Found at i:50141527 original size:20 final size:20
Alignment explanation
Indices: 50141474--50141527 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
50141464 GTTGTTGCAA
50141474 GTAAATTTTAAAAAAAATTAG
1 GTAAATTTT-AAAAAAATTAG
****
50141495 GTAAAAAGAAAAAAAATTAG
1 GTAAATTTTAAAAAAATTAG
50141515 GTAAATTTTAAAA
1 GTAAATTTTAAAA
50141528 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (20 bp):
GTAAATTTTAAAAAAATTAG
Found at i:50141837 original size:28 final size:28
Alignment explanation
Indices: 50141785--50141838 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
50141775 CTCACCATTC
* *
50141785 TTTCTTTTGTTTTTCTTTATGCTTTCTT
1 TTTCTTTTCTTTTTCTTTATCCTTTCTT
50141813 TTTCTTTTCTTTTTCTGTTA-CCTTTC
1 TTTCTTTTCTTTTTCT-TTATCCTTTC
50141839 AAGTCACGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTCTTTTCTTTTTCTTTATCCTTTCTT
Found at i:50155812 original size:10 final size:10
Alignment explanation
Indices: 50155775--50155819 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
50155765 AGTTTCTAAT
50155775 AATTTTT-AC
1 AATTTTTAAC
* *
50155784 AATATTTAGC
1 AATTTTTAAC
50155794 AATTTTTAAC
1 AATTTTTAAC
*
50155804 AATTTTTAAT
1 AATTTTTAAC
50155814 AATTTT
1 AATTTT
50155820 CTAAAGTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.20
10 24 0.80
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (10 bp):
AATTTTTAAC
Found at i:50155817 original size:20 final size:19
Alignment explanation
Indices: 50155771--50155819 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
50155761 TTATAGTTTC
50155771 TAATAATTTTTACAATATT
1 TAATAATTTTTACAATATT
** *
50155790 TAGCAATTTTTAACAATTTT
1 TAATAATTTTT-ACAATATT
50155810 TAATAATTTT
1 TAATAATTTT
50155820 CTAAAGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATAATTTTTACAATATT
Found at i:50164080 original size:28 final size:30
Alignment explanation
Indices: 50164043--50164099 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
50164033 AATTCATCTA
*
50164043 CATTTGCAAATGA-ATCATTTCT-CATTTT
1 CATTTCCAAATGATATCATTTCTCCATTTT
*
50164071 CATTTCCAAATGATTTCATTTCTCCATTT
1 CATTTCCAAATGATATCATTTCTCCATTT
50164100 CGAAGAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
29 8 0.32
30 5 0.20
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (30 bp):
CATTTCCAAATGATATCATTTCTCCATTTT
Found at i:50169493 original size:35 final size:35
Alignment explanation
Indices: 50169447--50169514 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
50169437 ATAACACATT
50169447 TTCTACTCTGCTCT-ATTTTGTTATGCTCT-CTTCGG
1 TTCTACTCTGCT-TGA-TTTGTTATGCTCTGCTTCGG
* *
50169482 TTCTATTCTGCTTGATTTGTTATGTTCTGCTTC
1 TTCTACTCTGCTTGATTTGTTATGCTCTGCTTC
50169515 ATTCTGTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.09, C:0.22, G:0.15, T:0.54
Consensus pattern (35 bp):
TTCTACTCTGCTTGATTTGTTATGCTCTGCTTCGG
Found at i:50169511 original size:19 final size:20
Alignment explanation
Indices: 50169487--50169527 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
50169477 TTCGGTTCTA
*
50169487 TTCTGCTTGATT-TGTTATG
1 TTCTGCTTCATTCTGTTATG
*
50169506 TTCTGCTTCATTCTGTTGTG
1 TTCTGCTTCATTCTGTTATG
50169526 TT
1 TT
50169528 TGGTTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.07, C:0.15, G:0.20, T:0.59
Consensus pattern (20 bp):
TTCTGCTTCATTCTGTTATG
Found at i:50171151 original size:20 final size:20
Alignment explanation
Indices: 50171126--50171171 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
50171116 GTACTGGATC
*
50171126 ACACTTTGGTGCCTCTCTTT
1 ACACTTTGGTCCCTCTCTTT
50171146 ACACTTTGGTCCCTCTCTTT
1 ACACTTTGGTCCCTCTCTTT
*
50171166 GCACTT
1 ACACTT
50171172 CAGTGCCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.33, G:0.13, T:0.43
Consensus pattern (20 bp):
ACACTTTGGTCCCTCTCTTT
Found at i:50173837 original size:17 final size:16
Alignment explanation
Indices: 50173799--50173841 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
50173789 TAAATAGTGG
50173799 AAGATGGA-ATGAATA
1 AAGATGGATATGAATA
50173814 AACGATGGATATGACATA
1 AA-GATGGATATGA-ATA
*
50173832 TAGATGGATA
1 AAGATGGATA
50173842 AGTGTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 6 0.25
17 12 0.50
18 4 0.17
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.23
Consensus pattern (16 bp):
AAGATGGATATGAATA
Found at i:50179682 original size:38 final size:38
Alignment explanation
Indices: 50179640--50179714 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
50179630 ATGCTTCCAC
50179640 TAATGAGATATACTAAAGAAAAGAGTAACTTTCTTTTA
1 TAATGAGATATACTAAAGAAAAGAGTAACTTTCTTTTA
*
50179678 TAATGAGATATACTCAAGAAAAGAGTAACTTTCTTTT
1 TAATGAGATATACTAAAGAAAAGAGTAACTTTCTTTT
50179715 TAGGATAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (38 bp):
TAATGAGATATACTAAAGAAAAGAGTAACTTTCTTTTA
Found at i:50182144 original size:4 final size:4
Alignment explanation
Indices: 50182135--50182174 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
50182125 CTTACATTAG
* *
50182135 TATT TATT TATT TATC TATC TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
50182175 GGCTTGTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:50186286 original size:15 final size:15
Alignment explanation
Indices: 50186263--50186293 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50186253 CTAATATTTA
*
50186263 AAACTTATTAAAAAT
1 AAACATATTAAAAAT
50186278 AAACATATTAAAAAT
1 AAACATATTAAAAAT
50186293 A
1 A
50186294 CTAAGCTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACATATTAAAAAT
Found at i:50187312 original size:22 final size:19
Alignment explanation
Indices: 50187287--50187335 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
50187277 TATGGAGGCA
*
50187287 GAGGCTGGCGTGGAGCGGCTCG
1 GAGGCTGGC-TGCAGC-GCT-G
50187309 GAGGCGTGGCTGCAGCGCTG
1 GAGGC-TGGCTGCAGCGCTG
50187329 GAGGCTG
1 GAGGCTG
50187336 AATGCTGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.24
21 3 0.12
22 10 0.40
23 4 0.16
ACGTcount: A:0.10, C:0.22, G:0.53, T:0.14
Consensus pattern (19 bp):
GAGGCTGGCTGCAGCGCTG
Found at i:50188336 original size:16 final size:16
Alignment explanation
Indices: 50188307--50188376 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
50188297 TTTGGTTCGC
* *
50188307 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
50188323 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
50188339 TGTAATGGATTAGAGG
1 TGTAATGGAATAGAGG
50188355 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
50188371 TGTAAT
1 TGTAAT
50188377 AGCAAATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:50188348 original size:32 final size:32
Alignment explanation
Indices: 50188307--50188376 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
50188297 TTTGGTTCGC
*
50188307 TGTATTGGATTAGAGGCGTAATGGAATAGAGG
1 TGTAATGGATTAGAGGCGTAATGGAATAGAGG
*
50188339 TGTAATGGATTAGAGGTGTAATGGAATAGAGG
1 TGTAATGGATTAGAGGCGTAATGGAATAGAGG
50188371 TGTAAT
1 TGTAAT
50188377 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.30
Consensus pattern (32 bp):
TGTAATGGATTAGAGGCGTAATGGAATAGAGG
Found at i:50188460 original size:39 final size:43
Alignment explanation
Indices: 50188355--50188464 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
50188345 GGATTAGAGG
50188355 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
50188400 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
50188440 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
50188465 TAATGGGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:50188627 original size:16 final size:16
Alignment explanation
Indices: 50188590--50188631 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50188580 TTAATCATAT
*
50188590 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50188606 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50188621 TTAAAATATAT
1 TTAAAATATAT
50188632 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50188638 original size:14 final size:15
Alignment explanation
Indices: 50188599--50188640 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50188589 TTTAAACATA
*
50188599 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50188614 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50188628 A-TATAATTTAATA
1 ATTATAATTAAATA
50188641 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50190600 original size:11 final size:11
Alignment explanation
Indices: 50190586--50190612 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50190576 AAAAATCAAT
50190586 ACAAAAGTTTC
1 ACAAAAGTTTC
50190597 ACAAAAGTTTC
1 ACAAAAGTTTC
50190608 ACAAA
1 ACAAA
50190613 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:50192326 original size:32 final size:32
Alignment explanation
Indices: 50192285--50192407 Score: 131
Period size: 32 Copynumber: 3.5 Consensus size: 32
50192275 CTAATTTCAA
50192285 AATAAATAAAATGAAGAATGAAGATTTGGTTT
1 AATAAATAAAATGAAGAATGAAGATTTGGTTT
50192317 AATAAATAAAATGAAGAATGAAGATTTGGTTTTCT
1 AATAAATAAAATGAAGAATGAAGATTTGG--TT-T
50192352 AATTTCAAAATAAATAAAATGAAGAATGAAGATTTGGTTT
1 AA--T------AAATAAAATGAAGAATGAAGATTTGGTTT
50192392 AAT-AATGAAAATGAAG
1 AATAAAT-AAAATGAAG
50192408 TTTTAAAACT
Statistics
Matches: 79, Mismatches: 0, Indels: 24
0.77 0.00 0.23
Matches are distributed among these distances:
31 3 0.04
32 38 0.48
34 2 0.03
35 3 0.04
37 1 0.01
38 1 0.01
40 3 0.04
41 2 0.03
43 26 0.33
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (32 bp):
AATAAATAAAATGAAGAATGAAGATTTGGTTT
Found at i:50192392 original size:75 final size:75
Alignment explanation
Indices: 50192269--50192407 Score: 262
Period size: 75 Copynumber: 1.9 Consensus size: 75
50192259 ATTTAATTAA
50192269 GGTTTTCTAATTTCAAAATAAATAAAATGAAGAATGAAGATTTGGTTTAATAAAT-AAAATGAAG
1 GGTTTTCTAATTTCAAAATAAATAAAATGAAGAATGAAGATTTGGTTTAAT-AATGAAAATGAAG
50192333 AATGAAGATTT
65 AATGAAGATTT
50192344 GGTTTTCTAATTTCAAAATAAATAAAATGAAGAATGAAGATTTGGTTTAATAATGAAAATGAAG
1 GGTTTTCTAATTTCAAAATAAATAAAATGAAGAATGAAGATTTGGTTTAATAATGAAAATGAAG
50192408 TTTTAAAACT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
74 3 0.05
75 60 0.95
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (75 bp):
GGTTTTCTAATTTCAAAATAAATAAAATGAAGAATGAAGATTTGGTTTAATAATGAAAATGAAGA
ATGAAGATTT
Found at i:50192719 original size:13 final size:13
Alignment explanation
Indices: 50192701--50192725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50192691 ATCAAATTTG
50192701 TATGTACTCTTTA
1 TATGTACTCTTTA
50192714 TATGTACTCTTT
1 TATGTACTCTTT
50192726 CACTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:50195419 original size:18 final size:19
Alignment explanation
Indices: 50195396--50195438 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
50195386 GATCTTTTAC
**
50195396 ATATTTTTTTTTAT-AAAT
1 ATATTTTTTAATATAAAAT
50195414 ATATTTTTTAATATAAAAT
1 ATATTTTTTAATATAAAAT
50195433 ATATTT
1 ATATTT
50195439 GTTCACACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTTTTTAATATAAAAT
Found at i:50213293 original size:21 final size:21
Alignment explanation
Indices: 50213238--50213297 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
50213228 GAAAAGGGCG
50213238 GCTCAAACATTGATCAGAATA
1 GCTCAAACATTGATCAGAATA
** * *
50213259 GGGCATAAGA-TGATCAGAGTA
1 GCTCA-AACATTGATCAGAATA
*
50213280 GCTCAAATATTGATCAGA
1 GCTCAAACATTGATCAGA
50213298 CTGGGGCATG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (21 bp):
GCTCAAACATTGATCAGAATA
Found at i:50214633 original size:45 final size:45
Alignment explanation
Indices: 50214529--50214887 Score: 194
Period size: 44 Copynumber: 8.2 Consensus size: 45
50214519 TTGCATCAGG
* ** * * * **
50214529 TCTTATCTCCCTGAATTTATAGCGGAGCAGACTGAATA-AGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* * *
50214573 TCTTATC-CCTTTGAAGTTGCAGTGGGGCAGACTGAAGATGGAAAA
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* ** * *
50214618 TCTTATCTCCCTGAAGTTGTAGTAAAGCAGA-TTAA-A-GCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGC-A-AA
* * * * * *
50214662 TCCTATCTCTCTGAAGTTGCAGCGGAGCGGA-TTAAAAT-G---A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* * * * **
50214702 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGA-TG--GCAT--CAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATGGCAAA
* * * **
50214743 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAATA-AGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* * * *
50214787 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGGATGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* *
50214832 TCTTATACT-TCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAA
1 TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
*
50214877 TCCTATCTCCC
1 TCTTATCTCCC
50214888 CGACATTGCG
Statistics
Matches: 241, Mismatches: 55, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 27 0.11
41 26 0.11
42 3 0.01
43 5 0.02
44 100 0.41
45 75 0.31
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
Found at i:50214712 original size:214 final size:214
Alignment explanation
Indices: 50214343--50214852 Score: 806
Period size: 214 Copynumber: 2.4 Consensus size: 214
50214333 TTAAGTTCAT
*
50214343 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTT
1 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTT
* ** *
50214408 TTCTCCCTGAAGTTGCACTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGCAG
66 ATCTCCCTGAAGTTGCACTAAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGCAG
* * *
50214473 AGCGGATTAAAATGATCTTATCTCTCTGAAGTTACAGTAGGGTAGATTGCATCAGGTCTTATCTC
131 AGCGGATTAAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATGGCATCAGGTCTTATCTC
* *
50214538 CCTGAATTTATAGCGGAGC
196 CCTGAAGTTACAGCGGAGC
** *
50214557 AGACTGAATAAGCAGGTCTTATCCCTTTGAAGTTGCAGTGGGGCAGACTGAAGATGGAAAATCTT
1 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTT
* * * *
50214622 ATCTCCCTGAAGTTGTAGTAAAGCAGATTAAAGCCAATAATCCTATCTCTCTGAAGTTGCAGCGG
66 ATCTCCCTGAAGTTGCACTAAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGCAG
*
50214687 AGCGGATTAAAATGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATGGCATCAGGTCTTATCTC
131 AGCGGATTAAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATGGCATCAGGTCTTATCTC
*
50214752 CCTGAAGTTGCAGCGGAGC
196 CCTGAAGTTACAGCGGAGC
* *
50214771 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGGATGGCAAGTCTT
1 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTT
*
50214836 ATACT-TCTGAAGTTGCA
66 AT-CTCCCTGAAGTTGCA
50214853 GTGGGGCAGA
Statistics
Matches: 269, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
214 267 0.99
215 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (214 bp):
AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTT
ATCTCCCTGAAGTTGCACTAAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGCAG
AGCGGATTAAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATGGCATCAGGTCTTATCTC
CCTGAAGTTACAGCGGAGC
Found at i:50214792 original size:44 final size:44
Alignment explanation
Indices: 50214343--50214867 Score: 172
Period size: 44 Copynumber: 12.2 Consensus size: 44
50214333 TTAAGTTCAT
* * *
50214343 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAG-TGAGGC
1 AGACTGAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGA-GC
* * * * *
50214387 AGACTGAAGATGGCAAATCTTTTCTCCCTGAAGTTGCA-CTGGAGT
1 AGACTGAATA-AGCAAGTCTTATCTCCCTGAAGTTGCAGC-GGAGC
* * * *
50214432 AGA-T-TA-AAGCCAATAATCCTATCTCCCTGAAGTTGCAGCAGAGC
1 AGACTGAATAAG-C-A-AGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* * * * * *
50214476 GGA-TTAA-AATG--A-TCTTATCTCTCTGAAGTTACAGTAGG-GT
1 AGACTGAATAA-GCAAGTCTTATCTCCCTGAAGTTGCAG-CGGAGC
* * * * **
50214516 AGATTGCAT---CAGGTCTTATCTCCCTGAATTTATAGCGGAGC
1 AGACTGAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* * * *
50214557 AGACTGAATAAGCAGGTCTTATC-CCTTTGAAGTTGCAGTGGGGC
1 AGACTGAATAAGCAAGTCTTATCTCC-CTGAAGTTGCAGCGGAGC
* * * * * ***
50214601 AGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAAAGC
1 AGACTGAATA-AGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* * * *
50214646 AGA-T-TA-AAGCCAATAATCCTATCTCTCTGAAGTTGCAGCGGAGC
1 AGACTGAATAAG-C-A-AGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* * * * ** *
50214690 GGA-TTAA-AATG--A-TCTTATCTCTCTAAAGTTGCAGTAGAGT
1 AGACTGAATAA-GCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* *
50214730 AGA-TGGCAT---CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGC
1 AGACT-GAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* * * *
50214771 AGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
1 AGACTGAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGC
* * * *
50214815 AGACTGAGGAT-GGCAAGTCTTATACT-TCTGAAGTTGCAGTGGGGC
1 AGACTGA--ATAAGCAAGTCTTAT-CTCCCTGAAGTTGCAGCGGAGC
50214860 AGACTGAA
1 AGACTGAA
50214868 GATGGCAAAT
Statistics
Matches: 360, Mismatches: 82, Indels: 79
0.69 0.16 0.15
Matches are distributed among these distances:
40 50 0.14
41 64 0.18
42 4 0.01
43 7 0.02
44 133 0.37
45 93 0.26
46 9 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
AGACTGAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGC
Found at i:50217897 original size:30 final size:30
Alignment explanation
Indices: 50217861--50217920 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
50217851 CACAAACCAA
50217861 TATTTAGGTTATACTTCAGTGCTTGACAAG
1 TATTTAGGTTATACTTCAGTGCTTGACAAG
50217891 TATTTAGGTTATACTTCAGTGCTTGACAAG
1 TATTTAGGTTATACTTCAGTGCTTGACAAG
50217921 CACTTTCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (30 bp):
TATTTAGGTTATACTTCAGTGCTTGACAAG
Found at i:50219302 original size:16 final size:15
Alignment explanation
Indices: 50219266--50219310 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
50219256 ATGAAAAATT
50219266 TAATAATA-ATATGAA
1 TAATAATATATAT-AA
*
50219281 TGATAATATATATACA
1 TAATAATATATATA-A
50219297 TAATAATATATATA
1 TAATAATATATATA
50219311 TATATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (15 bp):
TAATAATATATATAA
Found at i:50227138 original size:17 final size:18
Alignment explanation
Indices: 50227103--50227137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50227093 GGAAAATGAG
*
50227103 CAAAAAATGAGTGAAAAA
1 CAAAAAATGAGGGAAAAA
*
50227121 CAAAAAATGGGGGAAAA
1 CAAAAAATGAGGGAAAA
50227138 CTATAGGACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.23, T:0.09
Consensus pattern (18 bp):
CAAAAAATGAGGGAAAAA
Found at i:50228538 original size:61 final size:61
Alignment explanation
Indices: 50228443--50228565 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
50228433 AAGTGACCTA
50228443 AACCGACTTATGGAATAATCAAAAGTATTATTTTAGTCTTTGTCTTAGGTATGAATGATAT
1 AACCGACTTATGGAATAATCAAAAGTATTATTTTAGTCTTTGTCTTAGGTATGAATGATAT
50228504 AACCGACTTATGGAATAATCAAAAGTATTATTTTAGTCTTTGTCTTAGGTATGAATGATAT
1 AACCGACTTATGGAATAATCAAAAGTATTATTTTAGTCTTTGTCTTAGGTATGAATGATAT
50228565 A
1 A
50228566 TTCTAGATTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (61 bp):
AACCGACTTATGGAATAATCAAAAGTATTATTTTAGTCTTTGTCTTAGGTATGAATGATAT
Found at i:50239467 original size:29 final size:27
Alignment explanation
Indices: 50239406--50239467 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
50239396 ATACGGACTA
*
50239406 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAACT
*
50239433 ATAATAATAAATTTA-AACATTATTGAAATT
1 A-AATAAT-AATTTATAACATT-TT-AAACT
50239463 AAATA
1 AAATA
50239468 CTATAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 12 0.41
30 5 0.17
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAACT
Found at i:50242700 original size:601 final size:593
Alignment explanation
Indices: 50241157--50242774 Score: 2398
Period size: 597 Copynumber: 2.7 Consensus size: 593
50241147 ATTTTGCCTT
* * * *
50241157 AAATGAAATAAAATGCTCTTACTTTTGTTATCTATTACAAATCAAACTCTTTTATGAAAAAAATA
1 AAATGAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTAT-AAAAAAATA
* * * * * * * * ** * *
50241222 TTTTAAATTAAAGAAA-CAAAGAAAATTCAATATCTTCTAAGTTATTCCACTCCACA-TAATTTT
65 CTTTAAATTCAAGAAATC-AAGGAAATTGATTACCTT-AAAATTATTAAACTCCAAATTAATTCT
* * ** *
50241285 TTGAGTCGTGTCAGATTTCCAATACTTCTTGGAATGATCCCTGTAAATTGATTCA-AGGACAATG
128 TGGAGTCGTGTTAGATTTCCAATACTTCTTGGAATGATCCCCATAAATTGATT-ATAGGACAACG
* * * *** * ***
50241349 ATAAATTTTTAAGGTTGTTGCATATGCCCATACTTGATGGAATGTTACCAAATAATTCATTTTTA
192 ACAAATTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAA
* *
50241414 TTCAAGTAAAGCCCTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAATCTACCTGATAA
257 CTCAGGTAAAGCCCTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAATCTACCTGATAA
*
50241479 GCTATTGTTGGAGAGAACAATGGTTTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATCTGAC
322 GCTATTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATCTGAC
* *
50241544 CTGTAAGACCTTTAATTGCTTGAATATTAAGCAAGTCAAAACGAAGAAGATTACCGATTTGCTCA
387 CTGTAAGGCCTTTAATTGCTTGAATATTAAGC-AGTCAAAACCAAGAAGATTACCGATTTGCTCA
* *
50241609 GGAATTTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAG
451 GGAATTTGACCTACACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAACATAAG
*
50241674 TCAAAGAGGTTTTCGTTTCTATTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCT
516 TCAAAGAAGTTTTCGTTTCTATTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCT
*
50241739 TATGTTTTTCATT
581 TATGTTTTTCATC
**
50241752 AAATGAAATGAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAAAAAAGCA
1 AAATGAAAT-AAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAAAAAAATA
* *
50241817 CTTTAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACTCCAAATATAATTCT
65 CTTTAAATTCAAGAAATCAAGGAAATTGATTACCTT-AAAATTATTAAACTCCAAAT-TAATTCT
* *
50241882 TGGAGTCGTGTTAGATTTCCAATACTTCTTGGAATGATCCCCATAAATTAATTATAGGACAACAA
128 TGGAGTCGTGTTAGATTTCCAATACTTCTTGGAATGATCCCCATAAATTGATTATAGGACAACGA
** * * *
50241947 CAAACATTTAAAGTTGCTGCATTTGCCTATGCCAAATGGAATGTTACCAGATAATTCATTCCAAC
193 CAAATTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAAC
* *
50242012 TCAGATAAAGCCCTTCAAGCTTGGGAATATGTTGACACATATCATTAGGCAATCTACCTGATAAG
258 TCAGGTAAAGCCCTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAATCTACCTGATAAG
50242077 CTATTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTGAAGATC-AGAGTCGGAATCTGAC
323 CTATTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTGAAGATCGA-AGTCGGAATCTGAC
*
50242141 CTGTAAGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTGCTCA
387 CTGTAAGGCCTTTAATTGCTTGAATATTAAGCAG-TCAAAACCAAGAAGATTACCGATTTGCTCA
50242206 GGAATTTGACCTACACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAACATAAG
451 GGAATTTGACCTACACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAACATAAG
* *
50242271 TCAAAGAAGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCA
516 TCAAAGAAGTTTTCGTTTCTATTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGC-
*
50242336 TATATATGTTTTTTATC
580 --T-TATGTTTTTCATC
50242353 AAATGAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAAAAAAAATA
1 AAATGAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTAT-AAAAAAATA
*
50242418 CTTTAAATTCAAGAAATCAAGGAAATTGATTACCTTAAATATTATTAAACCCCAAATGTAATTCT
65 CTTTAAATTCAAGAAATCAAGGAAATTGATTACCTTAAA-ATTATTAAACTCCAAAT-TAATTCT
* * * *
50242483 TGGAGTCGTGTTACATTTCCAATACTTTTTGGAATGATCCCCATAAATTGATTATAGGGCAAGGA
128 TGGAGTCGTGTTAGATTTCCAATACTTCTTGGAATGATCCCCATAAATTGATTATAGGACAACGA
50242548 CAAATTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAAC
193 CAAATTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAAC
* * * *
50242613 TCAGGTAAAGCCCTTCAAGCTTAGGAAGATGTTGACGCATATCATTAGGCAAACTACCTGATAGG
258 TCAGGTAAAGCCCTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAATCTACCTGATAAG
* * * *
50242678 CTATTGTTGGAGAGATCAATGGTCTTCAGTGAAGGAATGTTGAAGATCGAAGTTGGAATCTGACC
323 CTATTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATCTGACC
* * *
50242743 TGTAAAGCCTTTAATTTCTTTAATATTAAGCA
388 TGTAAGGCCTTTAATTGCTTGAATATTAAGCA
50242775 TTTCTAAATT
Statistics
Matches: 924, Mismatches: 85, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
595 59 0.06
596 47 0.05
597 417 0.45
600 48 0.05
601 352 0.38
602 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (593 bp):
AAATGAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAAAAAAATAC
TTTAAATTCAAGAAATCAAGGAAATTGATTACCTTAAAATTATTAAACTCCAAATTAATTCTTGG
AGTCGTGTTAGATTTCCAATACTTCTTGGAATGATCCCCATAAATTGATTATAGGACAACGACAA
ATTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAACTCA
GGTAAAGCCCTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAATCTACCTGATAAGCTA
TTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATCTGACCTGT
AAGGCCTTTAATTGCTTGAATATTAAGCAGTCAAAACCAAGAAGATTACCGATTTGCTCAGGAAT
TTGACCTACACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAACATAAGTCAAA
GAAGTTTTCGTTTCTATTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCTTATGT
TTTTCATC
Found at i:50243700 original size:19 final size:18
Alignment explanation
Indices: 50243673--50243723 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
50243663 TTTAACTTTT
*
50243673 TTTTA-AATTTTTATCGTC
1 TTTTATAATTTTTAT-ATC
* *
50243691 TTTTATAATTTCTAATATT
1 TTTTATAATTT-TTATATC
50243710 TTTTATAATTTTTA
1 TTTTATAATTTTTA
50243724 CAATATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 17 0.63
20 3 0.11
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTATATC
Found at i:50243758 original size:10 final size:10
Alignment explanation
Indices: 50243691--50243760 Score: 56
Period size: 10 Copynumber: 7.3 Consensus size: 10
50243681 TTTTATCGTC
50243691 TTTT-ATAAT
1 TTTTAATAAT
*
50243700 TTCTAAT-AT
1 TTTTAATAAT
*
50243709 TTTTTATAAT
1 TTTTAATAAT
*
50243719 TTTT-ACAAT
1 TTTTAATAAT
* *
50243728 ATTTAAAAAT
1 TTTTAATAAT
* *
50243738 TTCTAACAAT
1 TTTTAATAAT
50243748 TTTTAATAAT
1 TTTTAATAAT
50243758 TTT
1 TTT
50243761 CTAAAGTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
9 17 0.36
10 30 0.64
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:50245749 original size:40 final size:41
Alignment explanation
Indices: 50245676--50245757 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
50245666 NNNNNNGCTT
50245676 TGTCCACGTGGACACAAAGCGCACCCTCAAGGAAGCGTTTTC
1 TGTCCACGTGGA-ACAAAGCGCACCCTCAAGGAAGCGTTTTC
** **
50245718 TGTCCACGTGG-ACAAAGCGCTTCCTTGAGGAAGCGTTTTC
1 TGTCCACGTGGAACAAAGCGCACCCTCAAGGAAGCGTTTTC
50245758 CTGCTTTATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 25 0.69
42 11 0.31
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (41 bp):
TGTCCACGTGGAACAAAGCGCACCCTCAAGGAAGCGTTTTC
Found at i:50250347 original size:23 final size:23
Alignment explanation
Indices: 50250314--50250361 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
50250304 ATTTTTTTGT
* *
50250314 TTTGAGATGCTAAGATTAAAAAA
1 TTTGAGATGCTAAAACTAAAAAA
*
50250337 TTTGAGTTGCTAAAACTAAAAAA
1 TTTGAGATGCTAAAACTAAAAAA
50250360 TT
1 TT
50250362 GTATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (23 bp):
TTTGAGATGCTAAAACTAAAAAA
Found at i:50253017 original size:3 final size:3
Alignment explanation
Indices: 50253009--50253071 Score: 94
Period size: 3 Copynumber: 21.3 Consensus size: 3
50252999 TATTTGTTCG
50253009 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
50253057 TGA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA T
50253072 AGTTATCGGA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 3 0.05
3 51 0.93
4 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:50254309 original size:19 final size:19
Alignment explanation
Indices: 50254282--50254342 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
50254272 AAAAAAACTA
*
50254282 AAATGAGAAATTTAAGAAT
1 AAATAAGAAATTTAAGAAT
*
50254301 AAATAAGAAATATTAAAAAT
1 AAATAAGAAAT-TTAAGAAT
50254321 -AATAAAGAAA-TTATAGAAT
1 AAAT-AAGAAATTTA-AGAAT
50254340 AAA
1 AAA
50254343 AAGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 3 0.09
19 17 0.49
20 15 0.43
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.25
Consensus pattern (19 bp):
AAATAAGAAATTTAAGAAT
Found at i:50254382 original size:17 final size:17
Alignment explanation
Indices: 50254360--50254392 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50254350 AAATGGAATG
*
50254360 AATAAATGATGGATATA
1 AATAAAAGATGGATATA
50254377 AATAAAAGATGGATAT
1 AATAAAAGATGGATAT
50254393 GACATATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (17 bp):
AATAAAAGATGGATATA
Found at i:50256563 original size:19 final size:19
Alignment explanation
Indices: 50256539--50256577 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50256529 ATAGTTGAAG
* *
50256539 AATTTATTATAATTTATTC
1 AATTTATGACAATTTATTC
50256558 AATTTATGACAATTTATTC
1 AATTTATGACAATTTATTC
50256577 A
1 A
50256578 GACCTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (19 bp):
AATTTATGACAATTTATTC
Found at i:50257621 original size:11 final size:11
Alignment explanation
Indices: 50257605--50257632 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
50257595 GGAATTGATA
50257605 TGTTTTAAATG
1 TGTTTTAAATG
50257616 TGTTTTAAATG
1 TGTTTTAAATG
50257627 TGTTTT
1 TGTTTT
50257633 GATTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (11 bp):
TGTTTTAAATG
Found at i:50259101 original size:20 final size:21
Alignment explanation
Indices: 50259056--50259101 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
50259046 AACTAAAATG
*
50259056 AGAAAT-TTAAGAATAAATAA
1 AGAAATATTAAAAATAAATAA
*
50259076 TG-AATATTAAAAAT-AATAA
1 AGAAATATTAAAAATAAATAA
50259095 AGAAATA
1 AGAAATA
50259102 AAGAAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
AGAAATATTAAAAATAAATAA
Found at i:50264200 original size:2 final size:2
Alignment explanation
Indices: 50264193--50264219 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50264183 TTCATTACAT
50264193 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50264220 TTACTTTTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50265575 original size:45 final size:46
Alignment explanation
Indices: 50265516--50265606 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
50265506 GCTTACACTA
* * *
50265516 TTCATACGAAATAAATGATGA-CCTCCTAAGCATGAATTTAAATTG
1 TTCATACGAAATAAATGATGATACTCCTAAACATGAACTTAAATTG
*
50265561 TTCATAC-ATAATAAATGATGATACTCCTAAACATGAGCTTAAATTG
1 TTCATACGA-AATAAATGATGATACTCCTAAACATGAACTTAAATTG
50265607 CAGTCCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.03
45 19 0.47
46 20 0.50
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (46 bp):
TTCATACGAAATAAATGATGATACTCCTAAACATGAACTTAAATTG
Found at i:50265605 original size:46 final size:45
Alignment explanation
Indices: 50265498--50265606 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
50265488 TGATCCAATG
* * * * *
50265498 AAACACGAGCTTACACTATTCATACGAAATAAATGATGACCTCCT
1 AAACATGAGCTTAAATTGTTCATACGAAATAAATGATGAACTCCT
* **
50265543 AAGCATGAATTTAAATTGTTCATAC-ATAATAAATGATGATACTCCT
1 AAACATGAGCTTAAATTGTTCATACGA-AATAAATGATGA-ACTCCT
50265589 AAACATGAGCTTAAATTG
1 AAACATGAGCTTAAATTG
50265607 CAGTCCAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
44 1 0.02
45 30 0.59
46 20 0.39
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (45 bp):
AAACATGAGCTTAAATTGTTCATACGAAATAAATGATGAACTCCT
Found at i:50267041 original size:34 final size:34
Alignment explanation
Indices: 50266995--50267080 Score: 163
Period size: 34 Copynumber: 2.5 Consensus size: 34
50266985 TATTCATAGC
*
50266995 TAGGCAGTCCACTTTGGGTCAAGAAGTTTGTAGT
1 TAGGCAGCCCACTTTGGGTCAAGAAGTTTGTAGT
50267029 TAGGCAGCCCACTTTGGGTCAAGAAGTTTGTAGT
1 TAGGCAGCCCACTTTGGGTCAAGAAGTTTGTAGT
50267063 TAGGCAGCCCACTTTGGG
1 TAGGCAGCCCACTTTGGG
50267081 ACAGGATTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (34 bp):
TAGGCAGCCCACTTTGGGTCAAGAAGTTTGTAGT
Found at i:50268478 original size:4 final size:4
Alignment explanation
Indices: 50268469--50268512 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
50268459 CTTACATTAG
* * * *
50268469 TATT TATT TATT TATC TATC TATC TGTT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
50268513 GGCTTGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:50278520 original size:9 final size:9
Alignment explanation
Indices: 50278508--50278541 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
50278498 ATTTAAGCCA
50278508 TTTAAAATT
1 TTTAAAATT
*
50278517 TTTAAGATT
1 TTTAAAATT
50278526 TTTAAAA-T
1 TTTAAAATT
50278534 TTTAAAAT
1 TTTAAAAT
50278542 GAGAAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTAAAATT
Found at i:50282455 original size:20 final size:19
Alignment explanation
Indices: 50282426--50282496 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
50282416 ATTTATCGTC
*
50282426 TTTT-ATAATTTCTAATAA
1 TTTTAATAATTTCTAACAA
* *
50282444 TTTCTAATAATTTTTTACAA
1 TTT-TAATAATTTCTAACAA
*
50282464 TATTTAACAATTTCTAACAA
1 T-TTTAATAATTTCTAACAA
50282484 TTTTTAATAATTT
1 -TTTTAATAATTT
50282497 TATTATTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
20 35 0.83
21 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATAATTTCTAACAA
Found at i:50282460 original size:30 final size:29
Alignment explanation
Indices: 50282426--50282498 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
50282416 ATTTATCGTC
* *
50282426 TTTTATAATTTCTAATAATTTCTAATAATT
1 TTTTATAATTT-TAACAATTTCTAACAATT
*
50282456 TTTTACAATATTTAACAATTTCTAACAATT
1 TTTTATAAT-TTTAACAATTTCTAACAATT
*
50282486 TTTAATAATTTTA
1 TTTTATAATTTTA
50282499 TTATTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.11
30 31 0.84
31 2 0.05
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTTATAATTTTAACAATTTCTAACAATT
Found at i:50282497 original size:10 final size:10
Alignment explanation
Indices: 50282426--50282497 Score: 65
Period size: 10 Copynumber: 7.3 Consensus size: 10
50282416 ATTTATCGTC
50282426 TTTT-ATAAT
1 TTTTAATAAT
*
50282435 TTCTAATAAT
1 TTTTAATAAT
*
50282445 TTCTAATAAT
1 TTTTAATAAT
* *
50282455 TTTTTACAAT
1 TTTTAATAAT
* *
50282465 ATTTAACAAT
1 TTTTAATAAT
* *
50282475 TTCTAACAAT
1 TTTTAATAAT
50282485 TTTTAATAAT
1 TTTTAATAAT
50282495 TTT
1 TTT
50282498 ATTATTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
9 3 0.06
10 49 0.94
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:50282741 original size:15 final size:15
Alignment explanation
Indices: 50282721--50282749 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50282711 AACACCCGAT
50282721 AATGTTAGAGACTAA
1 AATGTTAGAGACTAA
50282736 AATGTTAGAGACTA
1 AATGTTAGAGACTA
50282750 CACTAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (15 bp):
AATGTTAGAGACTAA
Found at i:50293055 original size:17 final size:19
Alignment explanation
Indices: 50293023--50293069 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
50293013 AAGAATAAAT
50293023 AATAAATATTAAAAATGATA-
1 AATAAATA--AAAAATGATAG
*
50293043 AA-AAATAAAAAATTATAG
1 AATAAATAAAAAATGATAG
50293061 AATAAATAA
1 AATAAATAA
50293070 TGGAAGATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 11 0.46
20 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AATAAATAAAAAATGATAG
Found at i:50298598 original size:280 final size:276
Alignment explanation
Indices: 50298101--50298659 Score: 1073
Period size: 280 Copynumber: 2.0 Consensus size: 276
50298091 ACATAATAAC
50298101 AACACTAAATTAAAAACATAATAGCATTCATTACATTACAAAGCATATATATATATATATTTACT
1 AACACTAAATTAAAAACATAATAGCATTCATTACATTACAAAGCATATATATATATATATTTACT
*
50298166 TTTTCTTCACTTTTTAGTTTTATTTTATTTTTTTCAAATATTTTTAGTTTTCATATTTTTGTTAA
66 TTTTCTTCACTTTTTAGTTTAATTTTATTTTTTTCAAATATTTTTAGTTTTCATATTTTTGTTAA
50298231 GCTTATTATAAGAAAACTTATAAATCCATTAGTTTTTATATATTGGGTTTGTATAATGTATTGGA
131 GCTTATTATAAGAAAACTTATAAATCCATTAGTTTTTATATATTGGGTTTGTATAATGTATTGGA
50298296 CTTATCTCTAATATATTTGGCCTATAATATATTTTTATTGATTTCGGTTAATCAATTAATTCAGT
196 CTTATCTCTAATATATTTGGCCTATAATATATTTTTATTGATTTCGGTTAATCAATTAATTCAGT
50298361 TAATTAGTCGATTTCA
261 TAATTAGTCGATTTCA
50298377 AACACTAAATTAAAAACATAATAGCATTCATTACATTACAAAGCATATATATATATATATATATT
1 AACACTAAATTAAAAACATAATAGCATTCATTACATTACAAAGC----ATATATATATATATATT
50298442 TACTTTTTCTTCACTTTTTAGTTTAATTTTATTTTTTTCAAATATTTTTAGTTTTCATATTTTTG
62 TACTTTTTCTTCACTTTTTAGTTTAATTTTATTTTTTTCAAATATTTTTAGTTTTCATATTTTTG
50298507 TTAAGCTTATTATAAGAAAACTTATAAATCCATTAGTTTTTATATATTGGGTTTGTATAATGTAT
127 TTAAGCTTATTATAAGAAAACTTATAAATCCATTAGTTTTTATATATTGGGTTTGTATAATGTAT
50298572 TGGACTTATCTCTAATATATTTGGCCTATAATATATTTTTATTGATTTCGGTTAATCAATTAATT
192 TGGACTTATCTCTAATATATTTGGCCTATAATATATTTTTATTGATTTCGGTTAATCAATTAATT
50298637 CAGTTAATTAGTCGATTTCA
257 CAGTTAATTAGTCGATTTCA
50298657 AAC
1 AAC
50298660 TAAACTATTT
Statistics
Matches: 278, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
276 44 0.16
280 234 0.84
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (276 bp):
AACACTAAATTAAAAACATAATAGCATTCATTACATTACAAAGCATATATATATATATATTTACT
TTTTCTTCACTTTTTAGTTTAATTTTATTTTTTTCAAATATTTTTAGTTTTCATATTTTTGTTAA
GCTTATTATAAGAAAACTTATAAATCCATTAGTTTTTATATATTGGGTTTGTATAATGTATTGGA
CTTATCTCTAATATATTTGGCCTATAATATATTTTTATTGATTTCGGTTAATCAATTAATTCAGT
TAATTAGTCGATTTCA
Found at i:50299850 original size:46 final size:45
Alignment explanation
Indices: 50299748--50299851 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
50299738 CAATGAAACT
* * *
50299748 CGAGCTTAAACTATTCATACGAAATAAATGATGACCTCCTAAGCA
1 CGAGCTTAAATTGTTCATACGAAATAAATGATGAACTCCTAAGCA
* **
50299793 TGAATTTAAATTGTTCATAC-ATAATAAATGATGATACTCCTAAGCA
1 CGAGCTTAAATTGTTCATACGA-AATAAATGATGA-ACTCCTAAGCA
50299839 CGAGCTTAAATTG
1 CGAGCTTAAATTG
50299852 CAGTCCAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.02
45 27 0.56
46 20 0.42
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (45 bp):
CGAGCTTAAATTGTTCATACGAAATAAATGATGAACTCCTAAGCA
Found at i:50313478 original size:9 final size:9
Alignment explanation
Indices: 50313464--50313490 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
50313454 GTGCTTATCC
50313464 ATGCTTATA
1 ATGCTTATA
50313473 ATGCTTATA
1 ATGCTTATA
50313482 ATGCTTATA
1 ATGCTTATA
50313491 CTATATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (9 bp):
ATGCTTATA
Found at i:50316143 original size:30 final size:30
Alignment explanation
Indices: 50316102--50316209 Score: 119
Period size: 30 Copynumber: 3.5 Consensus size: 30
50316092 TTATAATTTA
50316102 ATGTTTTATTATTTATGTTATGTACATACT
1 ATGTTTTATTATTTATGTTATGTACATACT
* * * *
50316132 ATGTCTTATTATTTTATTATTTATGTTA-TTATTT
1 ATGTTTTATTA-TTTA-T-GTTATG-TACATA-CT
*
50316166 ATGTTTTATTATTTATGTTATGTACATTCT
1 ATGTTTTATTATTTATGTTATGTACATACT
50316196 ATGTTTTATTATTT
1 ATGTTTTATTATTT
50316210 TATTTAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
30 27 0.43
31 10 0.16
32 2 0.03
33 11 0.17
34 13 0.21
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (30 bp):
ATGTTTTATTATTTATGTTATGTACATACT
Found at i:50316160 original size:12 final size:12
Alignment explanation
Indices: 50316140--50316186 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
50316130 CTATGTCTTA
*
50316140 TTATTTTATTAT
1 TTATGTTATTAT
50316152 TTATGTTATTAT
1 TTATGTTATTAT
50316164 TTATGTTTTATTAT
1 TTATG--TTATTAT
50316178 TTATGTTAT
1 TTATGTTAT
50316187 GTACATTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATGTTATTAT
Found at i:50316172 original size:26 final size:29
Alignment explanation
Indices: 50316143--50316209 Score: 104
Period size: 26 Copynumber: 2.4 Consensus size: 29
50316133 TGTCTTATTA
50316143 TTTTATTATTTATGTTAT-T-ATT-TATG
1 TTTTATTATTTATGTTATGTAATTCTATG
50316169 TTTTATTATTTATGTTATGTACATTCTATG
1 TTTTATTATTTATGTTATGTA-ATTCTATG
50316199 TTTTATTATTT
1 TTTTATTATTT
50316210 TATTTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 18 0.49
27 1 0.03
29 3 0.08
30 15 0.41
ACGTcount: A:0.22, C:0.03, G:0.07, T:0.67
Consensus pattern (29 bp):
TTTTATTATTTATGTTATGTAATTCTATG
Found at i:50316198 original size:64 final size:65
Alignment explanation
Indices: 50316091--50316213 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 65
50316081 CCCCGGCATG
50316091 GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATTTAT
1 GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATTTAT
* * *
50316156 GTTATTATTT-ATGTTTTATTATTTATGTTATGTACATTCTATGTTTTATTATTTTATT
1 GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATT
50316214 TAATTTATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 46 0.84
65 9 0.16
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (65 bp):
GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATTTAT
Found at i:50319015 original size:40 final size:37
Alignment explanation
Indices: 50318961--50319054 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 37
50318951 TAACTAACAC
* * **
50318961 AATAATTAATAATAATAA-TAGTTTTTTCACTAAAAAT
1 AATAACTAACAATAATAATTAGGATTTT-ACTAAAAAT
50318998 AATACTAACTAACAATAATAATTAGGATTTTACTAAAAAT
1 -A-A-TAACTAACAATAATAATTAGGATTTTACTAAAAAT
50319038 AATAACTAACAATAATA
1 AATAACTAACAATAATA
50319055 TAATGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
37 15 0.31
38 2 0.04
39 2 0.04
40 23 0.47
41 7 0.14
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (37 bp):
AATAACTAACAATAATAATTAGGATTTTACTAAAAAT
Found at i:50319016 original size:37 final size:34
Alignment explanation
Indices: 50318961--50319054 Score: 84
Period size: 37 Copynumber: 2.6 Consensus size: 34
50318951 TAACTAACAC
* *
50318961 AATAATTAA-TAATAATAATAGTT-TTTTCACTAAA
1 AATAA-TAACTAACAATAATAATTATTTT-ACTAAA
50318995 AATAATACTAACTAACAATAATAATTAGGATTTTACTAAA
1 AAT-A-A-TAACTAACAATAATAATT---ATTTTACTAAA
50319035 AATAATAACTAACAATAATA
1 AATAATAACTAACAATAATA
50319055 TAATGTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
34 3 0.06
35 1 0.02
36 4 0.08
37 27 0.54
38 1 0.02
39 1 0.02
40 9 0.18
41 4 0.08
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (34 bp):
AATAATAACTAACAATAATAATTATTTTACTAAA
Found at i:50319170 original size:16 final size:16
Alignment explanation
Indices: 50319149--50319184 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
50319139 AGTTTTTTAC
50319149 TAACAATAA-TATTAA
1 TAACAATAATTATTAA
50319164 GTAACAATAATTATTAA
1 -TAACAATAATTATTAA
50319181 TAAC
1 TAAC
50319185 TAAACCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (16 bp):
TAACAATAATTATTAA
Found at i:50319377 original size:24 final size:24
Alignment explanation
Indices: 50319350--50319414 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 24
50319340 ATACCTTTTT
50319350 TTTCTTTTTTTTTTCTTCTCTTTC
1 TTTCTTTTTTTTTTCTTCTCTTTC
** * * *
50319374 TTTCTCATTTCTCTATTCTCTTTC
1 TTTCTTTTTTTTTTCTTCTCTTTC
* * *
50319398 TCTCGTTTTCTTTTCTT
1 TTTCTTTTTTTTTTCTT
50319415 TTTCTGGCAC
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.03, C:0.25, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTCTTTTTTTTTTCTTCTCTTTC
Found at i:50319459 original size:3 final size:3
Alignment explanation
Indices: 50319440--50319492 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
50319430 TCTCTTTTTC
*
50319440 CTT CTT C-T CATT C-T CTT CTT CTT CTT CTT CTT CTC CTT -TT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
50319483 -TT CTTT CTT C
1 CTT C-TT CTT C
50319493 CCTTTCGTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 8 0.19
3 29 0.69
4 5 0.12
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:50321109 original size:68 final size:69
Alignment explanation
Indices: 50321025--50321187 Score: 175
Period size: 68 Copynumber: 2.4 Consensus size: 69
50321015 CTGCAATCTT
* * * * * * * * *
50321025 AAGGCTTGCCGATTTAATATTGCGACCTCCAAAATAGCTCGTGGACCTAC-TTTCCAGCTGATAT
1 AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACGTTCCCAGCTCATAT
50321089 TCTA
66 TCTA
* *
50321093 AAGGCTCGCCGGTTTAATATCGCAACATCCAAAACAACTTGCGGACCTACGTTCCCAGCTCATAT
1 AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACGTTCCCAGCTCATAT
*
50321158 TATA
66 TCTA
* * * *
50321162 GAGGTTAGCCGATTTAAAATCGCAAC
1 AAGGCTCGCCGATTTAATATCGCAAC
50321188 CTTCAATTAT
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
68 41 0.53
69 36 0.47
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (69 bp):
AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACGTTCCCAGCTCATAT
TCTA
Found at i:50325647 original size:20 final size:20
Alignment explanation
Indices: 50325597--50325653 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
50325587 CAATTTCAGT
*
50325597 AAATTTTATAATTTTTTTGA
1 AAATTTTATAATATTTTTGA
**
50325617 ATGTTTTATAATATTTTTGA
1 AAATTTTATAATATTTTTGA
*
50325637 AAATTTAATAA-ATTTTT
1 AAATTTTATAATATTTTT
50325654 ATTTATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
AAATTTTATAATATTTTTGA
Found at i:50325686 original size:21 final size:22
Alignment explanation
Indices: 50325646--50325686 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50325636 AAAATTTAAT
*
50325646 AAATTTTTATTTATATATTTCA
1 AAATTTTCATTTATATATTTCA
50325668 AAATTTTCATTTATA-ATTT
1 AAATTTTCATTTATATATTT
50325687 TTTTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTTTCATTTATATATTTCA
Found at i:50334479 original size:9 final size:8
Alignment explanation
Indices: 50334457--50334482 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
50334447 TTATTATTTA
50334457 TTAAAAAT
1 TTAAAAAT
50334465 TTAAAAAT
1 TTAAAAAT
50334473 TTAAAAAT
1 TTAAAAAT
50334481 TT
1 TT
50334483 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTAAAAAT
Found at i:50334913 original size:23 final size:23
Alignment explanation
Indices: 50334870--50334915 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
50334860 ATTATTGAAA
50334870 TTTTTATTTTAAATATATATATT
1 TTTTTATTTTAAATATATATATT
*
50334893 TTTTTACTTTTAAGATTTATATA
1 TTTTTA-TTTTAA-ATATATATA
50334916 AGAATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTATTTTAAATATATATATT
Found at i:50337334 original size:596 final size:597
Alignment explanation
Indices: 50335970--50337353 Score: 2277
Period size: 597 Copynumber: 2.3 Consensus size: 597
50335960 TTAAGCATAT
* * *** * * *
50335970 TTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATT-CTGACTCA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCT-ACGCA
* *
50336034 GGTAAAGCATTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTA
65 AGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTA
* * *
50336099 TTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTAAAGATCGAAGTTGGAATCCGACCTGT
130 TTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACCTGT
* *
50336164 AAGGCCTTTAATTGCTTGAATATTAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAA
195 AAGGCATTTAATTGCTTGAATATCAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAA
** *
50336229 TTTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAA
260 TTTGACCTGCACACATAGTAAAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCAAAAGTCAA
50336294 AAAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATG
325 AAAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATG
50336359 TTTTTCATCAATTTAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATA
390 TTTTTCATCAATTTAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATA
50336424 AAAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
455 AAAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
50336489 TATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
520 TATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
50336554 GGACAAGGACAAA
585 GGACAAGGACAAA
* *
50336567 TTTTTAAGGTTGCTGCATTTGCTCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTACGCAA
* * * * * *
50336632 ATAAAGCAGTTCAAGCTTGGGAAGATATTGACACATATCAGTAGGCAAACTCCCTGAGAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
*
50336697 TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATTGAAGTTGGAATCTGACCTGTA
131 TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACCTGTA
* *
50336762 AGGCATTTAATTGCTTGAATATCAAGCATTTCCAAACCAAGAAGATTACCGATTTCCTCAGGAAT
196 AGGCATTTAATTGCTTGAATATCAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAAT
* * * *
50336827 TTGACCTGCACGCATAGTAAAAAAATCAATGTGTCAAACTATCTATTTTGTTAGTAAAAGTCAAA
261 TTGACCTGCACACATAGTAAAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCAAAAGTCAAA
* *
50336892 GAGGTTTTCTTTTTTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATGT
326 AAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATGT
*
50336957 TTTTCATCAATTTAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTAT-A
391 TTTTCATCAATTTAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATAA
* *
50337021 AAAAAATAGTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAAT
456 AAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAAT
50337086 ATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAAG
521 ATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAAG
*
50337151 TACAAGGACAAA
586 GACAAGGACAAA
* *
50337163 TTTTTAAGGTTGCTACATTTGCCCATACTTGACGGAATGTTACCAGATAGCTCATTGCTACGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTACGCAA
* *
50337228 GTAAAACACTTCAAGCTTGGGAAGATGTTGACACATATCATTTGGCAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
* * ** * * * * *
50337293 TATTGGAGAGAATAATAATCTTCAGAGAAGATATCTTGAAGATGGAAGATGGAACCTGACC
131 TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACC
50337354 AGATAATTGA
Statistics
Matches: 727, Mismatches: 59, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
596 310 0.43
597 415 0.57
598 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (597 bp):
TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTACGCAA
GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACCTGTA
AGGCATTTAATTGCTTGAATATCAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAAT
TTGACCTGCACACATAGTAAAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCAAAAGTCAAA
AAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATGT
TTTTCATCAATTTAAATAAAAAGTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATAA
AAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAAT
ATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAAG
GACAAGGACAAA
Found at i:50344372 original size:68 final size:68
Alignment explanation
Indices: 50344282--50344485 Score: 390
Period size: 68 Copynumber: 3.0 Consensus size: 68
50344272 TTTCAATCAC
* *
50344282 AATCAATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
50344347 CGG
66 CGG
50344350 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
50344415 CGG
66 CGG
50344418 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
50344483 CGG
66 CGG
50344486 GTCTTTAGGG
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 134 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (68 bp):
AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
CGG
Found at i:50346663 original size:22 final size:23
Alignment explanation
Indices: 50346615--50346663 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
50346605 TGTATCATCT
*
50346615 CGATTTGTTTTTATAGTGGTGGA
1 CGATTTGTTTTTATAGTAGTGGA
50346638 -GATTTGTTTTT-T-GTAGTGGCA
1 CGATTTGTTTTTATAGTAGTGG-A
50346659 CGATT
1 CGATT
50346664 GCCAGAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
22 15 0.65
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.49
Consensus pattern (23 bp):
CGATTTGTTTTTATAGTAGTGGA
Found at i:50346782 original size:19 final size:18
Alignment explanation
Indices: 50346743--50346782 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
50346733 CAACTTTATT
50346743 TCATTTTCATTTTCTTTG
1 TCATTTTCATTTTCTTTG
50346761 TCATTTTCTATGTTTC-TTG
1 TCATTTTC-AT-TTTCTTTG
50346780 TCA
1 TCA
50346783 CATACAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.62
Consensus pattern (18 bp):
TCATTTTCATTTTCTTTG
Found at i:50354575 original size:51 final size:48
Alignment explanation
Indices: 50354444--50354576 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 48
50354434 AAGGAGAAGG
* * * *
50354444 GACCAATGTGAAAAATCGCAAAGAGCGCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCTAAAAAAAAGA
* * **
50354492 GACCAAGATGAAAACCCGCAAAGGGCATCTTGAGTCCTACAAAAAAAAAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCT---AAAAAAAAGA
*
50354543 GGCCAAGGTGAAAACTCGCAAAGGGCGCCTTGAG
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAG
50354577 ACCAAAGGGG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 30 0.43
51 39 0.57
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (48 bp):
GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCTAAAAAAAAGA
Found at i:50356347 original size:181 final size:174
Alignment explanation
Indices: 50356141--50356590 Score: 524
Period size: 181 Copynumber: 2.5 Consensus size: 174
50356131 CTACCATTAT
*
50356141 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCTCTAAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAAAGT
** *
50356206 TACGGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
66 TACACTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
* *
50356271 TCATAG-AAAACCTTATCTCCTTGAACTTCCATTGGAGCAGGTTGAAG
131 TCATAGCAAAA-CTTATCTCCCTGAACTTCCAGTGGAGCAGGTT---G
* ** * *
50356318 TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGTGAATCTTATTTCCCTG
1 ----AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTA
* * * **
50356383 AAGTTGCACTGGAACGGATTGAAGCTATAAATTATAGATCTTATCTCTTTGAAGTTGCAGTAGAG
62 AAGTTACACTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAG
* * **
50356448 TAGATCATAGCAAAACTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTG
127 CAGATCATAGCAAAACTTATCTCCCTGAACTTCCAGTGGAGCAGGTTG
* * * ** * ***
50356496 AAGTCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGACAGCAAATTTTATTTCCCTGGTGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAAAGT
* * * *
50356561 TGCAGTGGAACAGATTAAAGCTACAAATTA
66 TACACTGGAACAGATTGAAGCTATAAATTA
50356591 TGGTGAATCT
Statistics
Matches: 232, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
174 79 0.34
178 1 0.00
181 148 0.64
182 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (174 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAAAGT
TACACTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
TCATAGCAAAACTTATCTCCCTGAACTTCCAGTGGAGCAGGTTG
Found at i:50356452 original size:96 final size:96
Alignment explanation
Indices: 50355781--50356452 Score: 296
Period size: 96 Copynumber: 7.3 Consensus size: 96
50355771 TTACGGCAAG
* * * * *
50355781 TCTTATCTCCCTGAAGTTACAATAAAGCAGATT-AA-ATCGAGT-AATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT--AGTGAATCTTATTTCCCTGAAGTT
* * * *
50355843 GCAGTGGAGCGGATTGAAG-T-T--A-CA-AG-
64 ACACTGGAACGGATTGAAGCTATAAATTATAGA
* * * * *
50355869 TCTTACCCCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCTTGAAGCTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTAC
* * * *
50355934 AGTAGAACAGATTGAAGCTATAAATTACAGA
66 ACTGGAACGGATTGAAGCTATAAATTATAGA
* ** * * * *
50355965 TCTTATCTCTCTGAAGTTGCAGTAGAG-A-A--GATCATA-TCAAACCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGT-GAATCTTATTTCCCTGAAGTTA
* * * **
50356025 TAGTGGAGCAGG-TTGAAG--AT--A--CCA-A
65 CACTGGAAC-GGATTGAAGCTATAAATTATAGA
* * ** * * * * *
50356050 TCTTATATCTCTGAAGTTATAGTGGAACAGATT-AA-A-ACGATGAATCCTA-TACCTCTAAAGT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATA-G-TGAATCTTATTTCC-CTGAAGT
* * * * * **
50356111 TATAGTAGG-TCGGATTAAATCTA-CCATTATA-A
63 TACACT-GGAACGGATTGAAGCTATAAATTATAGA
* * *
50356143 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCTCTAAAGTTA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTA
** ** *
50356208 CGGTGGAATAGATTGAAGCTATAAATTACAGA
65 CACTGGAACGGATTGAAGCTATAAATTATAGA
* * * * * * * *
50356240 TCTTATCTCTCAGAAGTTGCAGTAGAGCAGA-TCATAGA-A---AACCTTATCTCCTTGAACTTC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGA-AGATAGTGAATCTTATTTCCCTGAAGTTA
* * *
50356300 CATTGGAGCAGG-TTGAAG-T-T--A-CA-AG-
65 CACTGGAAC-GGATTGAAGCTATAAATTATAGA
* ** *
50356325 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTAC
50356390 ACTGGAACGGATTGAAGCTATAAATTATAGA
66 ACTGGAACGGATTGAAGCTATAAATTATAGA
** *
50356421 TCTTATCTCTTTGAAGTTGCAGTAGAGTAGAT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
50356453 CATAGCAAAA
Statistics
Matches: 433, Mismatches: 100, Indels: 94
0.69 0.16 0.15
Matches are distributed among these distances:
85 52 0.12
86 9 0.02
87 7 0.02
88 57 0.13
89 66 0.15
90 8 0.02
91 5 0.01
92 59 0.14
93 6 0.01
94 31 0.07
95 38 0.09
96 93 0.21
97 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (96 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTAC
ACTGGAACGGATTGAAGCTATAAATTATAGA
Found at i:50356535 original size:37 final size:37
Alignment explanation
Indices: 50356463--50356535 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
50356453 CATAGCAAAA
** **
50356463 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGT
1 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGT
50356500 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAG
1 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAG
50356536 ACAGCAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (37 bp):
CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGT
Found at i:50356714 original size:143 final size:143
Alignment explanation
Indices: 50356500--50357535 Score: 1478
Period size: 143 Copynumber: 7.2 Consensus size: 143
50356490 AGGTTGAAGT
* * * *
50356500 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGACAGCAAATTTTATTTCCCTGGTGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * * *
50356565 GTGGAACAGATTAAAGCTACAAATTATGGTGAATCTTATCTTCCTGAAGTTACACTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
50356630 TGAAGCCACCAGA
131 TGAAGCCACCAGC
* * *
50356643 CTTATCTCCTTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* *
50356708 GTGGAACAGATTAAAGCTACAAATTATGACGGATCTTATTTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
50356773 TGAATCCACCAGC
131 TGAAGCCACCAGC
* * * *
50356786 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAAGACAGCGAATCTTATTTCTCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
50356851 GTGGAACAGATTAAAGTTACAAATTATGGCGGATCATATATTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
50356916 TGAAGCCACTAGC
131 TGAAGCCACCAGC
** * * * * * * *
50356929 CTTATCTCCCTGAAGTTATAGCAGAGTAGACTGAAGACAGTGAATTTTACTTCCATAGCGTTACA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
50356994 GTGGAACAGGTTAAAGCTACAAATTATAGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
50357059 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * * * *
50357072 CTTATCTCCCAGAAGTTGCAGTAGAGCAGACTGAATACAGTGAATCTTATTTCCCTGGCATTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
50357137 GTGGAACAAATTAAAGCTATAAATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
50357202 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * ** * * * *
50357215 CTTATCTCCTTTAAGTTATAGCAGAGTAGACTAAAGACAGCAAATCTTGTTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* *
50357280 GTGGAATAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAAAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* *
50357345 TGAAGCTACCAAC
131 TGAAGCCACCAGC
* * *
50357358 CTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
50357423 GTGGAACAGATTAAAGCCACAAGTTATGGCGGATCTTATCTTCCTGAAGTTGCAATGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
50357488 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * ** *
50357501 CTTGTCTCCCTGAAGTTACAGTGGAGCAGATTGAA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAA
50357536 AGTAGTGAAT
Statistics
Matches: 788, Mismatches: 105, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
143 788 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAGC
Found at i:50359143 original size:3 final size:3
Alignment explanation
Indices: 50359129--50359197 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
50359119 GACTATTTAT
*
50359129 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50359177 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
50359198 CTACTACTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50368594 original size:12 final size:12
Alignment explanation
Indices: 50368573--50368607 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
50368563 TTTTGTTTAA
*
50368573 ATTGGATTGTAG
1 ATTGGTTTGTAG
50368585 ATTGGTTTGTAG
1 ATTGGTTTGTAG
*
50368597 ACTGGTTTGTA
1 ATTGGTTTGTA
50368608 TACTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (12 bp):
ATTGGTTTGTAG
Found at i:50371756 original size:43 final size:43
Alignment explanation
Indices: 50371702--50371927 Score: 317
Period size: 43 Copynumber: 5.3 Consensus size: 43
50371692 ATTTGTTCTA
* *
50371702 TAGCGGCGTTTGTGGGAACAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* * * *
50371745 TAGCAGCGTTTGTGGGAACAGCGTCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* *
50371788 TAACGGCGTTTCTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* * * *
50371831 TACCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* * *
50371874 TAGCGGCATTTGTGGGAAAAGCGCGGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
50371917 TAGCGGCGTTT
1 TAGCGGCGTTT
50371928 ATTTCCAAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 165 1.00
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
Found at i:50372053 original size:22 final size:22
Alignment explanation
Indices: 50372021--50372063 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50372011 TAGCGGCACT
* *
50372021 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
50372043 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
50372064 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:50372121 original size:43 final size:43
Alignment explanation
Indices: 50372073--50372182 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
50372063 TGTTTTGGTG
50372073 TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
1 TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
* * *
50372116 TAGCGGCTCTTTATCCACAAACGCCGCTAAAGAACATGACCTT
1 TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
* *
50372159 TAGCGACGCTTTACCCACAAACGC
1 TAGCGGCGCTTTATCCACAAACGC
50372183 AGCTAAATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
Found at i:50377255 original size:13 final size:13
Alignment explanation
Indices: 50377234--50377289 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
50377224 ATTTTACTTC
50377234 ATATAATTAAAAA
1 ATATAATTAAAAA
*
50377247 ATATTATT-AAAA
1 ATATAATTAAAAA
* *
50377259 ATAATAAATAATAA
1 AT-ATAATTAAAAA
*
50377273 ATATAATTAAAAT
1 ATATAATTAAAAA
50377286 ATAT
1 ATAT
50377290 CACTAATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
12 6 0.18
13 23 0.68
14 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAATTAAAAA
Found at i:50377485 original size:15 final size:17
Alignment explanation
Indices: 50377447--50377496 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
50377437 ATTAATATAA
50377447 ATAT-AATATATTAGATC
1 ATATAAATATATTA-ATC
50377464 ATATAAATATATT-ATC
1 ATATAAATATATTAATC
* *
50377480 -TATAAATTTATTCATC
1 ATATAAATATATTAATC
50377496 A
1 A
50377497 ATTGGGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 11 0.38
16 6 0.21
17 4 0.14
18 8 0.28
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATAAATATATTAATC
Found at i:50380006 original size:15 final size:15
Alignment explanation
Indices: 50379986--50380045 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
50379976 ATCAATACGG
50379986 CCCAATTAGCCTAAA
1 CCCAATTAGCCTAAA
*
50380001 CCCAATTAGCCTAAG
1 CCCAATTAGCCTAAA
* *
50380016 CCCAA-TACCCT-AG
1 CCCAATTAGCCTAAA
*
50380029 CCCAACTAGCCTAAA
1 CCCAATTAGCCTAAA
50380044 CC
1 CC
50380046 AGAAGTCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.18
14 10 0.26
15 22 0.56
ACGTcount: A:0.35, C:0.40, G:0.08, T:0.17
Consensus pattern (15 bp):
CCCAATTAGCCTAAA
Found at i:50380983 original size:5 final size:5
Alignment explanation
Indices: 50380968--50381012 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
50380958 ATTTTAGTCA
* *
50380968 TTTAT TCTAT TTTAT TTTAT TTTAT TTTA- TTAAT TTT-T TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
50381013 CAATTTACTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:50381017 original size:15 final size:15
Alignment explanation
Indices: 50380975--50381018 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
50380965 TCATTTATTC
*
50380975 TATTTTATTTTATTT
1 TATTTTATTTAATTT
50380990 TATTTTA-TTAATTT
1 TATTTTATTTAATTT
50381004 T-TTTTATTTCAATTT
1 TATTTTATTT-AATTT
50381019 ACTCCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTTTATTTAATTT
Found at i:50381336 original size:12 final size:12
Alignment explanation
Indices: 50381301--50381339 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50381291 GTTATTAAAC
50381301 ATTTATATTATT
1 ATTTATATTATT
* *
50381313 ATATATACTATT
1 ATTTATATTATT
*
50381325 ATTTAAATTATT
1 ATTTATATTATT
50381337 ATT
1 ATT
50381340 AAACTTTTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:50381352 original size:24 final size:25
Alignment explanation
Indices: 50381300--50381352 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
50381290 TGTTATTAAA
* *
50381300 CATTTATATTATTATATATACTATT
1 CATTTAAATTATTATATAAACTATT
*
50381325 -ATTTAAATTATTAT-TAAACTTTT
1 CATTTAAATTATTATATAAACTATT
50381348 CATTT
1 CATTT
50381353 TATATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (25 bp):
CATTTAAATTATTATATAAACTATT
Found at i:50383323 original size:10 final size:10
Alignment explanation
Indices: 50383308--50383380 Score: 58
Period size: 10 Copynumber: 7.3 Consensus size: 10
50383298 AATAAATAAT
50383308 AAAATTATTA
1 AAAATTATTA
*
50383318 AAAATTGTTA
1 AAAATTATTA
* *
50383328 GAAATTGTTA
1 AAAATTATTA
* * *
50383338 AATATTGTAA
1 AAAATTATTA
*
50383348 AAAATTATAA
1 AAAATTATTA
50383358 AAAATTTATTA
1 AAAA-TTATTA
*
50383369 GAAATTA-TA
1 AAAATTATTA
50383378 AAA
1 AAA
50383381 GGCGATAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
9 4 0.08
10 40 0.77
11 8 0.15
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:50383338 original size:20 final size:20
Alignment explanation
Indices: 50383309--50383380 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
50383299 ATAAATAATA
50383309 AAATTATTAAAAATTGTTAG
1 AAATTATTAAAAATTGTTAG
* * * *
50383329 AAATTGTTAAATATTGTAAA
1 AAATTATTAAAAATTGTTAG
* *
50383349 AAATTATAAAAAATTTATTAG
1 AAATTATTAAAAA-TTGTTAG
50383370 AAATTA-TAAAA
1 AAATTATTAAAA
50383381 GGCGATAATT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 30 0.75
21 10 0.25
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
AAATTATTAAAAATTGTTAG
Found at i:50385686 original size:18 final size:18
Alignment explanation
Indices: 50385663--50385697 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50385653 TTGTTCATCC
50385663 ACGGTACTATTCACGTAG
1 ACGGTACTATTCACGTAG
*
50385681 ACGGTACTGTTCACGTA
1 ACGGTACTATTCACGTA
50385698 TACAGTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
ACGGTACTATTCACGTAG
Found at i:50387968 original size:15 final size:15
Alignment explanation
Indices: 50387948--50388000 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
50387938 CCGACCCCTG
50387948 AATCCCTAAACCTTA
1 AATCCCTAAACCTTA
50387963 AATCCCT-AACTCTTA
1 AATCCCTAAAC-CTTA
50387978 AA-CCCTAAACCTTA
1 AATCCCTAAACCTTA
*
50387992 AACCCCTAA
1 AATCCCTAA
50388001 CCCCTAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.37
15 22 0.63
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (15 bp):
AATCCCTAAACCTTA
Found at i:50387985 original size:14 final size:14
Alignment explanation
Indices: 50387951--50388002 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
50387941 ACCCCTGAAT
*
50387951 CCCTAAACCTTAAAT
1 CCCT-AACCTTAAAC
50387966 CCCTAACTCTTAAA-
1 CCCTAAC-CTTAAAC
50387980 CCCTAAACCTTAAAC
1 CCCT-AACCTTAAAC
50387995 CCCTAACC
1 CCCTAACC
50388003 CCTAAACCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 17 0.50
15 17 0.50
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACCTTAAAC
Found at i:50387988 original size:7 final size:7
Alignment explanation
Indices: 50387951--50388015 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
50387941 ACCCCTGAAT
50387951 CCCTAAA
1 CCCTAAA
*
50387958 CCTTAAA
1 CCCTAAA
50387965 TCCCT-AA
1 -CCCTAAA
*
50387972 CTCTTAAA
1 C-CCTAAA
50387980 CCCTAAA
1 CCCTAAA
*
50387987 CCTTAAA
1 CCCTAAA
*
50387994 CCCCTAAC
1 -CCCTAAA
50388002 CCCTAAA
1 CCCTAAA
*
50388009 CCTTAAA
1 CCCTAAA
50388016 TCCCAACCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
6 1 0.02
7 33 0.73
8 11 0.24
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAA
Found at i:50387988 original size:29 final size:29
Alignment explanation
Indices: 50387941--50388015 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
50387931 CCTTAACCCG
* *
50387941 ACCCCTGAATCCCTAAACCTTAAATCCCTA
1 ACCCCT-AAACCCTAAACCTTAAACCCCTA
* *
50387971 ACTCTTAAACCCTAAACCTTAAACCCCTA
1 ACCCCTAAACCCTAAACCTTAAACCCCTA
*
50388000 ACCCCTAAACCTTAAA
1 ACCCCTAAACCCTAAA
50388016 TCCCAACCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.23
Consensus pattern (29 bp):
ACCCCTAAACCCTAAACCTTAAACCCCTA
Found at i:50388005 original size:22 final size:21
Alignment explanation
Indices: 50387980--50388031 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
50387970 AACTCTTAAA
50387980 CCCTAAACCTTAAACCCCTAAC
1 CCCTAAACCTTAAACCCC-AAC
*
50388002 CCCTAAACCTTAAATCCCAAC
1 CCCTAAACCTTAAACCCCAAC
*
50388023 CCTTAAACC
1 CCCTAAACC
50388032 ATAATCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
CCCTAAACCTTAAACCCCAAC
Found at i:50388008 original size:15 final size:15
Alignment explanation
Indices: 50387951--50388010 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
50387941 ACCCCTGAAT
* *
50387951 CCCTAAACCTTAAAT
1 CCCTAACCCTTAAAC
*
50387966 CCCTAACTCTTAAA-
1 CCCTAACCCTTAAAC
*
50387980 CCCTAAACCTTAAAC
1 CCCTAACCCTTAAAC
*
50387995 CCCTAACCCCTAAAC
1 CCCTAACCCTTAAAC
50388010 C
1 C
50388011 TTAAATCCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 12 0.32
15 26 0.68
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.22
Consensus pattern (15 bp):
CCCTAACCCTTAAAC
Found at i:50388282 original size:23 final size:24
Alignment explanation
Indices: 50388243--50388293 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
50388233 CCTAACTTTT
50388243 AACCCCTAACACGTCTAACCCCTA
1 AACCCCTAACACGTCTAACCCCTA
*
50388267 AACCCCTAAC-CTTCTAACCCCTA
1 AACCCCTAACACGTCTAACCCCTA
50388290 AACC
1 AACC
50388294 TTAAATCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (24 bp):
AACCCCTAACACGTCTAACCCCTA
Found at i:50388326 original size:14 final size:14
Alignment explanation
Indices: 50388309--50388356 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
50388299 TCCCAGCCCT
50388309 TAAACCATAATCCC
1 TAAACCATAATCCC
*
50388323 TAAACCCATACTCCC
1 TAAA-CCATAATCCC
* * *
50388338 TAAACTAAAAACCC
1 TAAACCATAATCCC
50388352 TAAAC
1 TAAAC
50388357 TATAGTGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:50388686 original size:41 final size:41
Alignment explanation
Indices: 50388628--50388778 Score: 227
Period size: 41 Copynumber: 3.8 Consensus size: 41
50388618 TAAATTGTTT
*
50388628 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
50388669 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
*
50388710 TTAGCGGCGCTTATTC---AACGCCACTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
* * * *
50388748 TTAGTGGCGCTTCTTAAAAAATGCCGCTAAA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAA
50388779 TCCCCAAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
38 34 0.34
41 66 0.66
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
Found at i:50388768 original size:79 final size:80
Alignment explanation
Indices: 50388628--50388778 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 80
50388618 TAAATTGTTT
* * *
50388628 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGC
1 TTAGCGGCGCTTATTC--AAACGCCACTAAAGACCAGAGCATTAGCGGCGCTTATTAAAAAACGC
50388693 CGCTAAAGACCAGAGCA
64 CGCTAAAGACCAGAGCA
* * *
50388710 TTAGCGGCGCTTATTC-AACGCCACTAAAGACCAGAGCATTAGTGGCGCTTCTTAAAAAATGCCG
1 TTAGCGGCGCTTATTCAAACGCCACTAAAGACCAGAGCATTAGCGGCGCTTATTAAAAAACGCCG
50388774 CTAAA
66 CTAAA
50388779 TCCCCAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 48 0.76
82 15 0.24
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (80 bp):
TTAGCGGCGCTTATTCAAACGCCACTAAAGACCAGAGCATTAGCGGCGCTTATTAAAAAACGCCG
CTAAAGACCAGAGCA
Done.