Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009576.1 Hibiscus syriacus cultivar Beakdansim tig00116944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1684752
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:786604 original size:16 final size:16
Alignment explanation
Indices: 786579--786643 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
786569 CCAACGTTTA
786579 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
786595 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
786611 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
786627 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
786643 T
1 T
786644 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:786734 original size:16 final size:16
Alignment explanation
Indices: 786713--786745 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
786703 AAAAAAATTT
786713 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
786729 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
786745 T
1 T
786746 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:787696 original size:13 final size:13
Alignment explanation
Indices: 787678--787703 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
787668 TAATTATACC
787678 TATGATAACATAA
1 TATGATAACATAA
787691 TATGATAACATAA
1 TATGATAACATAA
787704 GCAAAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TATGATAACATAA
Found at i:792964 original size:3 final size:3
Alignment explanation
Indices: 792956--792982 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
792946 AGGAATCAGG
792956 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
792983 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:793767 original size:28 final size:25
Alignment explanation
Indices: 793736--793787 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
793726 ATTTCAAAAT
793736 TATAATTATTAGAAAAAAATAATTTATA
1 TATAATTA-TA-AAAAAAAT-ATTTATA
* *
793764 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
793788 TTATTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 2 0.09
28 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:793794 original size:23 final size:26
Alignment explanation
Indices: 793744--793800 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
793734 ATTATAATTA
793744 TTAGAAA-AAAATAATTTATATATAT
1 TTAGAAATAAAATAATTTATATATAT
*
793769 TTATAAATAAAAT-ATTTAT-T-TAT
1 TTAGAAATAAAATAATTTATATATAT
793792 TTAGAAATA
1 TTAGAAATA
793801 TCAGAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.38
24 1 0.03
25 12 0.41
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
TTAGAAATAAAATAATTTATATATAT
Found at i:794006 original size:16 final size:16
Alignment explanation
Indices: 793974--794015 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
793964 AAAAATAAAT
*
793974 AAATAAA-TATGATAA
1 AAATAAATTATGAAAA
*
793989 AAATAATTTATGAAAA
1 AAATAAATTATGAAAA
794005 AAATAAATTAT
1 AAATAAATTAT
794016 TATTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
AAATAAATTATGAAAA
Found at i:795401 original size:3 final size:3
Alignment explanation
Indices: 795395--795453 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
795385 TTATTTTTTT
* *
795395 TAA TAA TAA TAA TAA TAA TAA T-A TATA TTA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
795440 TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA
795454 AAATGGGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:795814 original size:124 final size:121
Alignment explanation
Indices: 795592--795884 Score: 346
Period size: 124 Copynumber: 2.4 Consensus size: 121
795582 GTTGAATAAA
* * *
795592 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGTTGAC
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGATGATGCTAAC
* * * *
795654 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCCTCTCATTATGAAC
63 ATATTTCCTTCTGTGATAAAATCATTCAAAAGGTTGAACAAGCTCCTCTCATTATGAAC
* * *
795713 TTTTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGGAAAGGTTGATGCTAAT
1 ---TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAAC
* * *
795778 ATATCTT-CTTCTGTGATAAAATTATGT-AAAAGGTTGAACAAGCTCTTCTCATTGTGAAC
63 ATAT-TTCCTTCTGTGATAAAATCAT-TCAAAAGGTTGAACAAGCTCCTCTCATTATGAAC
*
795837 TTC-TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
795885 AGCTGATCCA
Statistics
Matches: 149, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
120 43 0.29
121 7 0.05
122 30 0.20
123 5 0.03
124 61 0.41
125 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (121 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACATA
TTTCCTTCTGTGATAAAATCATTCAAAAGGTTGAACAAGCTCCTCTCATTATGAAC
Found at i:796016 original size:112 final size:110
Alignment explanation
Indices: 795805--796177 Score: 439
Period size: 113 Copynumber: 3.4 Consensus size: 110
795795 AAAATTATGT
** *
795805 AAAAGGTTGAACAAGCTCTTCTCATTGTGAAC-TTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
795869 GAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 GAACTCTAC-CTGGAAATGATGATCCATCAAATGATGAATTTAAGC
795914 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCTTCAGATGACGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCTTCTTCAGAT---GAGTTCTTCTCAT
* * * *
795978 TATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAAC
63 TATGAACTCTACCTGGAAATGATGATCCATCAAATGATGAATTTAAGC
* * *
796026 AAAAGGTTAAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAAC-T-TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * ** *
796091 TATGAACTCGAACTGGTAATGATGATCCATTGAATGATGAATTCAAGC
63 TATGAACTCTACCTGGAAATGATGATCCATCAAATGATGAATTTAAGC
* *
796139 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTT-TTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCT
796178 GGAAAAGCTG
Statistics
Matches: 227, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
109 46 0.20
110 2 0.01
111 2 0.01
112 79 0.35
113 81 0.36
114 1 0.00
115 5 0.02
116 11 0.05
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (110 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTACCTGGAAATGATGATCCATCAAATGATGAATTTAAGC
Found at i:796199 original size:186 final size:186
Alignment explanation
Indices: 795966--796363 Score: 519
Period size: 186 Copynumber: 2.1 Consensus size: 186
795956 TCAGATGACG
* ** * * *
795966 AGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAG
* *
796031 GTTAAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGA
66 GTTAAACAAATTCTTCTCATTATAAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * **
796096 ACTCGAACTGGTAATGATGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
131 ACTCGAACTGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACA
* * * *
796152 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAG
* * *
796217 GTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGA
66 GTTAAACAAATTCTTCTCATTATAAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGA
**** * * ** *
796282 ACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACA
131 ACTCGAACTGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACA
*
796338 AATTCTTCTCATTATGAA-TTTCTTCT
1 AGTTCTTCTCATTATGAACTTT-TTCT
796364 TCCTTCTTCA
Statistics
Matches: 182, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
185 3 0.02
186 179 0.98
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (186 bp):
AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAG
GTTAAACAAATTCTTCTCATTATAAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCGAACTGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACA
Found at i:796350 original size:113 final size:113
Alignment explanation
Indices: 796152--796589 Score: 707
Period size: 113 Copynumber: 3.9 Consensus size: 113
796142 AAGTTGAACA
*
796152 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
*
796217 GTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
796265 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
796330 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
* *
796378 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATTCATCAAATGATGGATTTGGGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
796443 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
**** * * ** * ** *
796491 AGTTCTTCTCATTATGAACTCGAACTGGTAATGCTGATCCATTGAATGATGAATTCAAGCAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
*
796556 GTTGAACAAGTTCTTCTCATTATGAACTTT-TTCT
66 GTTGAACAAATTCTTCTCATTATGAA-TTTCTTCT
796590 GGAAAAACTG
Statistics
Matches: 305, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
113 302 0.99
114 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
Found at i:796394 original size:299 final size:296
Alignment explanation
Indices: 795854--796473 Score: 886
Period size: 299 Copynumber: 2.1 Consensus size: 296
795844 TCTTCAGATG
*
795854 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
795919 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAA
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAA
* * *
795984 CTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTC
129 CTCTACCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTC
*
796049 ATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGTAATGAT
194 ATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGAT
796114 GATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
259 GATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
*
796152 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
796217 GTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGAT-GAGTTCTTCTCATTATG
66 GTTGAACAAATTCTTCTCATTATGAATTTC---TT-CTTCTTCAGATAGAGTTCTTCTCATTATG
* * * * * *
796281 AACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTT
127 AACTCTAC-CTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTT
* * **** * *
796345 CTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
191 CTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAAT
* * ** * *** *
796410 GCTGATTCATCAAATGATGGATTTGGGCAAAAGGTTGAACA
256 GATGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
*
796451 AATTCTTCTCATTATGAA-TTTCT
1 AGTTCTTCTCATTATGAACTTTCT
796474 TCTTCCTTCT
Statistics
Matches: 286, Mismatches: 31, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
298 99 0.35
299 174 0.61
301 2 0.01
302 11 0.04
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (296 bp):
AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATAGAGTTCTTCTCATTATGAACT
CTACCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCAT
TATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGATGA
TCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
Found at i:796605 original size:412 final size:407
Alignment explanation
Indices: 795805--796621 Score: 1341
Period size: 412 Copynumber: 2.0 Consensus size: 407
795795 AAAATTATGT
* * *
795805 AAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATG
1 AAAAGGTTGAACAAACTCTTCTCATTATGAACTTATTCTTCTTCAGATGAGTTCTTCTCATTATG
*
795870 AACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTC
66 AACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTC
* * * *
795935 TCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGT
131 TCATTATGAATTTCTTCTTCTTCACATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGC
796000 TAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCATTATAAACTTCTTCT
196 TAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCATTATAAACTTCTTCT
*
796065 TCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGTAATGATGATCCATTGAATGATG
261 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGATGATCCATTGAATGATG
*
796130 AATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATC
326 AATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATC
796195 AAATGATGGATTTGAGC
391 AAATGATGGATTTGAGC
*
796212 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAACTCTTCTCATTATGAA---CTTATT-CTTCTTCAGATGAGTTCTTCTCAT
796277 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATT
62 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATT
* * *
796342 CTTCTCATTATGAATTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACT-TTCTCTG
127 CTTCTCATTATGAATTTCTTCTT-CTTC-ACATGACGAGTTCTTCTCATTATGAACTCTAC-CTG
* * * *** * * *
796405 GAAAAGCTGATTCATCAAATGATGGATTTGGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
189 GAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCATTATAAAC
*
796470 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGCTGATCCATTG
254 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGATGATCCATTG
796535 AATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTG
319 AATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTG
796600 ATCCATCAAATGATGGATTTGA
384 ATCCATCAAATGATGGATTTGA
796622 ATCTTTGCTA
Statistics
Matches: 379, Mismatches: 24, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
407 28 0.07
410 5 0.01
411 113 0.30
412 232 0.61
413 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (407 bp):
AAAAGGTTGAACAAACTCTTCTCATTATGAACTTATTCTTCTTCAGATGAGTTCTTCTCATTATG
AACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTC
TCATTATGAATTTCTTCTTCTTCACATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGC
TAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCATTATAAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGATGATCCATTGAATGATG
AATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATC
AAATGATGGATTTGAGC
Found at i:797485 original size:115 final size:114
Alignment explanation
Indices: 797308--797540 Score: 376
Period size: 115 Copynumber: 2.0 Consensus size: 114
797298 GATCATGCAG
* * * * * *
797308 TTCATCTTTTAATTCCAATGATTGGTTATGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATAATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
797373 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 ACACTTCCAGAAAATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
797422 TTCATCTTTCAAATCTAATAATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATAATTGG-TTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
797487 AACACTTCCAGAAAATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
65 AACACTTCCAGAAAATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
797537 TTCA
1 TTCA
797541 CTTGCTCCAA
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
114 21 0.19
115 88 0.81
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATAATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAAATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:798833 original size:14 final size:14
Alignment explanation
Indices: 798813--798859 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
798803 TCTTGACCCC
*
798813 TTTTTTTCTTT-TT
1 TTTTTTTTTTTCTT
*
798826 TCTTTTTTTTTCTT
1 TTTTTTTTTTTCTT
*
798840 TTTTTTTTGTTCTT
1 TTTTTTTTTTTCTT
798854 TTTTTT
1 TTTTTT
798860 CTTCAAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.00, C:0.09, G:0.02, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTCTT
Found at i:798833 original size:17 final size:17
Alignment explanation
Indices: 798813--798862 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
798803 TCTTGACCCC
798813 TTTTTTTCTTTTTTCTT
1 TTTTTTTCTTTTTTCTT
798830 TTTTTTTCTTTTTT-TT
1 TTTTTTTCTTTTTTCTT
*
798846 TTGTTCTT-TTTTTTCTT
1 TT-TTTTTCTTTTTTCTT
798863 CAAGCATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTTTTTTCTT
Found at i:798841 original size:24 final size:24
Alignment explanation
Indices: 798812--798859 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
798802 ATCTTGACCC
*
798812 CTTTTTTTCTTTTTTCTTTTTTTTT
1 CTTTTTTT-TTTGTTCTTTTTTTTT
798837 CTTTTTTTTTTGTTCTTTTTTTT
1 CTTTTTTTTTTGTTCTTTTTTTT
798860 CTTCAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (24 bp):
CTTTTTTTTTTGTTCTTTTTTTTT
Found at i:810096 original size:28 final size:25
Alignment explanation
Indices: 810065--810116 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
810055 ATTTCAAAAT
810065 TATAATTATTAGAAAAAAATAATTTATA
1 TATAATTA-TA-AAAAAAAT-ATTTATA
* *
810093 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
810117 TTATTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 2 0.09
28 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:810123 original size:23 final size:26
Alignment explanation
Indices: 810073--810129 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
810063 ATTATAATTA
810073 TTAGAAA-AAAATAATTTATATATAT
1 TTAGAAATAAAATAATTTATATATAT
*
810098 TTATAAATAAAAT-ATTTAT-T-TAT
1 TTAGAAATAAAATAATTTATATATAT
810121 TTAGAAATA
1 TTAGAAATA
810130 TCAGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.38
24 1 0.03
25 12 0.41
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
TTAGAAATAAAATAATTTATATATAT
Found at i:811709 original size:3 final size:3
Alignment explanation
Indices: 811703--811786 Score: 125
Period size: 3 Copynumber: 28.0 Consensus size: 3
811693 ATTATTTTTT
* *
811703 TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
811749 TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
811787 AAATGGGTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 69 0.95
4 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:816306 original size:31 final size:30
Alignment explanation
Indices: 816226--816308 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
816216 TTTTGTCAAC
* ***
816226 AAACTTTCAAAT-ATTACAAACTGGCTATT
1 AAACTTTCAAATAATTACAAAATAATTATT
816255 AAACTTTCAAATAATTACAAAATAATTATT
1 AAACTTTCAAATAATTACAAAATAATTATT
* * *
816285 AAATTTATCAATTCATTACAAAAT
1 AAACTT-TCAAATAATTACAAAAT
816309 GATCACTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 12 0.27
30 18 0.40
31 15 0.33
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.36
Consensus pattern (30 bp):
AAACTTTCAAATAATTACAAAATAATTATT
Found at i:816326 original size:31 final size:31
Alignment explanation
Indices: 816268--816326 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
816258 CTTTCAAATA
* * * *
816268 ATTACAAAATAATTATTAAATTTATCAATTC
1 ATTACAAAATAATCACTAAAATCATCAATTC
*
816299 ATTACAAAATGATCACTAAAATCATCAA
1 ATTACAAAATAATCACTAAAATCATCAA
816327 AATATTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.34
Consensus pattern (31 bp):
ATTACAAAATAATCACTAAAATCATCAATTC
Found at i:834916 original size:2 final size:2
Alignment explanation
Indices: 834868--834897 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
834858 ACATATGCGC
834868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
834898 GCATATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:835864 original size:11 final size:11
Alignment explanation
Indices: 835845--835929 Score: 72
Period size: 11 Copynumber: 7.8 Consensus size: 11
835835 AAAATCTTTA
835845 ATTTAATAATG
1 ATTTAATAATG
*
835856 ATTTGATAAT-
1 ATTTAATAATG
*
835866 ATTTAATGAT-
1 ATTTAATAATG
835876 -TTGATAATAATG
1 ATT--TAATAATG
835888 ATTACTAATAATG
1 ATT--TAATAATG
835901 ATTTAATAATG
1 ATTTAATAATG
835912 A--TAATAATG
1 ATTTAATAATG
*
835921 ATTTGATAA
1 ATTTAATAA
835930 CATTTTTGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
9 11 0.18
10 8 0.13
11 29 0.48
13 13 0.21
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.44
Consensus pattern (11 bp):
ATTTAATAATG
Found at i:836188 original size:11 final size:11
Alignment explanation
Indices: 836158--836210 Score: 61
Period size: 11 Copynumber: 4.4 Consensus size: 11
836148 TAAAAATATT
836158 TAATGATTTCATA
1 TAATGATTT-A-A
836171 CTAATGATTTAA
1 -TAATGATTTAA
836183 TAATGATTACTAA
1 TAATGATT--TAA
836196 TAATGATTTAA
1 TAATGATTTAA
836207 TAAT
1 TAAT
836211 TATTATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 15 0.41
12 1 0.03
13 12 0.32
14 9 0.24
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:836203 original size:24 final size:24
Alignment explanation
Indices: 836158--836220 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
836148 TAAAAATATT
* *
836158 TAATGATTTCATACTAATGATTTAA
1 TAATGATTAC-TAATAATGATTTAA
836183 TAATGATTACTAATAATGATTTAA
1 TAATGATTACTAATAATGATTTAA
* *
836207 TAATTATTATTAAT
1 TAATGATTACTAAT
836221 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 25 0.74
25 9 0.26
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (24 bp):
TAATGATTACTAATAATGATTTAA
Found at i:837748 original size:24 final size:24
Alignment explanation
Indices: 837716--837822 Score: 83
Period size: 24 Copynumber: 4.4 Consensus size: 24
837706 GACCACAATG
837716 AAATCATTATTAATAATCATTACT
1 AAATCATTATTAATAATCATTACT
* *
837740 AAATCATTAGT-ATCAAATCATTTCT
1 AAATCATTATTAAT--AATCATTACT
* ** * *
837765 -TATTTTTAAATTAATAATAATTATT
1 AAATCATT--ATTAATAATCATTACT
* *
837790 AAATCATTATTAATTATCATTATT
1 AAATCATTATTAATAATCATTACT
837814 AAATCATTA
1 AAATCATTA
837823 GTATCAAATC
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.03
24 37 0.59
25 16 0.25
26 6 0.10
27 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (24 bp):
AAATCATTATTAATAATCATTACT
Found at i:837800 original size:11 final size:11
Alignment explanation
Indices: 837784--837836 Score: 61
Period size: 11 Copynumber: 4.4 Consensus size: 11
837774 ATTAATAATA
837784 ATTATTAAATC
1 ATTATTAAATC
837795 ATTATTAATTATC
1 ATTATTAA--ATC
837808 ATTATTAAATC
1 ATTATTAAATC
837819 ATTAGTATCAAATC
1 ATTA-T-T-AAATC
837833 ATTA
1 ATTA
837837 AATATTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 15 0.41
12 1 0.03
13 12 0.32
14 9 0.24
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:837808 original size:13 final size:12
Alignment explanation
Indices: 837774--837822 Score: 57
Period size: 11 Copynumber: 4.1 Consensus size: 12
837764 TTATTTTTAA
*
837774 ATTAATAATAATT
1 ATTAAT-ATCATT
837787 ATTAA-ATCATT
1 ATTAATATCATT
837798 ATTAATTATCATT
1 ATTAA-TATCATT
837811 ATTAA-ATCATT
1 ATTAATATCATT
837822 A
1 A
837823 GTATCAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 17 0.52
13 16 0.48
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTAATATCATT
Found at i:838082 original size:14 final size:14
Alignment explanation
Indices: 838079--838173 Score: 81
Period size: 14 Copynumber: 6.7 Consensus size: 14
838069 AATCATTATT
838079 ATCATTATTATCAA
1 ATCATTATTATCAA
838093 ATCATTATTA--ATA
1 ATCATTATTATCA-A
838106 ATCATTATTAGT--A
1 ATCATTATTA-TCAA
838119 ATCATTATTATCAA
1 ATCATTATTATCAA
*
838133 ATCATTAAATATTTCAA
1 ATCATT--AT-TATCAA
* *
838150 ATTATTATTATTAA
1 ATCATTATTATCAA
*
838164 ATTATTATTA
1 ATCATTATTA
838174 AATATTATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
12 2 0.03
13 22 0.32
14 31 0.45
15 2 0.03
16 2 0.03
17 10 0.14
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.47
Consensus pattern (14 bp):
ATCATTATTATCAA
Found at i:838089 original size:23 final size:23
Alignment explanation
Indices: 838063--838131 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
838053 ATCAAAAATG
*
838063 TTATCAAATCATTATTATCATTA
1 TTATCAAATCATTATTATCATCA
*
838086 TTATCAAATCATTATTAATAATCA
1 TTATCAAATCATTATT-ATCATCA
*
838110 TTATTAGTAATCATTATTATCA
1 TTATCA--AATCATTATTATCA
838132 AATCATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.41
24 10 0.26
25 3 0.08
26 10 0.26
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (23 bp):
TTATCAAATCATTATTATCATCA
Found at i:838169 original size:11 final size:11
Alignment explanation
Indices: 838153--838191 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
838143 ATTTCAAATT
838153 ATTATTATTAA
1 ATTATTATTAA
838164 ATTATTATTAA
1 ATTATTATTAA
838175 A-TATTATTAA
1 ATTATTATTAA
*
838185 AATATTA
1 ATTATTA
838192 AATTAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTATTATTAA
Found at i:838179 original size:24 final size:23
Alignment explanation
Indices: 838136--838190 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
838126 TTATCAAATC
838136 ATTAAATATTTCAAATTATTATT
1 ATTAAATATTTCAAATTATTATT
*
838159 ATTAAATTATTATTAAA-TATTATT
1 ATTAAA-TATT-TCAAATTATTATT
838183 A--AAATATT
1 ATTAAATATT
838191 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 3 0.10
23 6 0.21
24 12 0.41
25 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTAAATATTTCAAATTATTATT
Found at i:838182 original size:13 final size:14
Alignment explanation
Indices: 838079--838183 Score: 87
Period size: 13 Copynumber: 7.7 Consensus size: 14
838069 AATCATTATT
*
838079 ATCATTATTATCAA
1 ATCATTATTATTAA
*
838093 ATCATTATTAAT-A
1 ATCATTATTATTAA
*
838106 ATCATTATTAGT-A
1 ATCATTATTATTAA
*
838119 ATCATTATTATCAA
1 ATCATTATTATTAA
*
838133 ATCATTAAATATTTCAA
1 ATCATT-ATTA-TT-AA
*
838150 ATTATTATTATT-A
1 ATCATTATTATTAA
838163 A--ATTATTATTAA
1 ATCATTATTATTAA
838175 AT-ATTATTA
1 ATCATTATTA
838184 AAATATTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
11 9 0.12
12 2 0.03
13 32 0.42
14 17 0.22
15 5 0.07
16 4 0.05
17 7 0.09
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.48
Consensus pattern (14 bp):
ATCATTATTATTAA
Found at i:839170 original size:14 final size:14
Alignment explanation
Indices: 839147--839185 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
839137 TTGATAGTTG
*
839147 AAAATATTTTTTGA
1 AAAATGTTTTTTGA
839161 AAAATGTTTTTTGA
1 AAAATGTTTTTTGA
839175 AAAATGTTTTT
1 AAAATGTTTTT
839186 CTCATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (14 bp):
AAAATGTTTTTTGA
Found at i:839263 original size:41 final size:42
Alignment explanation
Indices: 839227--839305 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
839217 TATTTTTCGA
* *
839227 AAAATATTTT-CAGTATTTGATAAATGTACTTGATTTTACAT
1 AAAATATTTTACAATATTTGATAAATGTAATTGATTTTACAT
**
839268 AAAATATTTTACAATATTTGATAGTTGTAATTGATTTT
1 AAAATATTTTACAATATTTGATAAATGTAATTGATTTT
839306 CTTTAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 10 0.30
42 23 0.70
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (42 bp):
AAAATATTTTACAATATTTGATAAATGTAATTGATTTTACAT
Found at i:841699 original size:20 final size:20
Alignment explanation
Indices: 841674--841712 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
841664 AGATTTCTAC
841674 TGAGAATTTTAGGATTCACT
1 TGAGAATTTTAGGATTCACT
841694 TGAGAATTTTAGGATTCAC
1 TGAGAATTTTAGGATTCAC
841713 CTTTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
TGAGAATTTTAGGATTCACT
Found at i:851028 original size:85 final size:85
Alignment explanation
Indices: 850938--851240 Score: 389
Period size: 85 Copynumber: 3.6 Consensus size: 85
850928 GCGCAATTGT
* * * * * *
850938 GTCATAAATCTATGACGCGCAT-TAATGACGTT-CTTTGAGTGTTATTGAAGCCCCCGTCATAAA
1 GTCATAAATTTATGACACGCATGT-ATGAC-TTACATTGCGCGTCATTGAAGCCCCCGTCATAAA
*
851001 TTAAGATGATACACATTTGTGC
64 TTAAGATGACACACATTTGTGC
* * *
851023 GTCATAAATTTATGACACGCATGTATAACTTACATTGCGCATCATTGAAGCCTCCGTCATAAATT
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATT
851088 AAGATGACACACATTTGTGC
66 AAGATGACACACATTTGTGC
*
851108 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCTCGTCATAAATC
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-
* * *
851173 T--GCTTGACATACATTTGTGT
65 TAAG-ATGACACACATTTGTGC
* * *
851193 GTCATAAATTTATAACACGCATATATGACTTACATTGCGTGTCATTGA
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGA
851241 TGCACACGTC
Statistics
Matches: 194, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
84 3 0.02
85 189 0.97
86 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (85 bp):
GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATT
AAGATGACACACATTTGTGC
Found at i:851308 original size:2 final size:2
Alignment explanation
Indices: 851301--851362 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
851291 TTCGGAAAAT
851301 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
851343 TA TA TA TA TA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
851363 TGTAGATTGA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:853362 original size:39 final size:39
Alignment explanation
Indices: 853309--853395 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 39
853299 TCTTTCTTTC
* *
853309 TTTCCTTCTTCGGTGTCCCTTCTTCTTT-CTCCTCTTCCTT
1 TTTCCTTCTGCGGTGTCCCTTCTCCTTTAC-CCTCTT-CTT
853349 TTTCCTT-TGCGGTGTCCCTTCTCCTTTACCCTCTTCTT
1 TTTCCTTCTGCGGTGTCCCTTCTCCTTTACCCTCTTCTT
*
853387 TTTCTTTCT
1 TTTCCTTCT
853396 CTTTTTTCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 9 0.21
39 25 0.60
40 8 0.19
ACGTcount: A:0.01, C:0.36, G:0.08, T:0.55
Consensus pattern (39 bp):
TTTCCTTCTGCGGTGTCCCTTCTCCTTTACCCTCTTCTT
Found at i:853384 original size:51 final size:51
Alignment explanation
Indices: 853329--853439 Score: 122
Period size: 51 Copynumber: 2.2 Consensus size: 51
853319 CGGTGTCCCT
*
853329 TCTTCTTTCTCCTCTTC-C-TTTTTCCT-TTGCGGTGTCCCTTCTCCTTTACCC
1 TCTTCTTT-TCCT-TTCTCTTTTTTCCTGTT-CGATGTCCCTTCTCCTTTACCC
* *
853380 TCTTCTTTTTCTTTCTCTTTTTTCGTGTTCGATGTCCCTTCTCCTTT-CTCC
1 TCTTCTTTTCCTTTCTCTTTTTTCCTGTTCGATGTCCCTTCTCCTTTAC-CC
*
853431 TTTTCTTTT
1 TCTTCTTTT
853440 TCAACAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
49 3 0.06
50 5 0.10
51 42 0.81
52 2 0.04
ACGTcount: A:0.02, C:0.33, G:0.07, T:0.58
Consensus pattern (51 bp):
TCTTCTTTTCCTTTCTCTTTTTTCCTGTTCGATGTCCCTTCTCCTTTACCC
Found at i:867538 original size:23 final size:23
Alignment explanation
Indices: 867504--867550 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
867494 ACGTAAAGAA
867504 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
867527 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
867550 A
1 A
867551 CATATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:868996 original size:106 final size:106
Alignment explanation
Indices: 868806--870088 Score: 2066
Period size: 106 Copynumber: 12.1 Consensus size: 106
868796 GTAAGTAGCA
* * * * * * *
868806 TTGTTTCGAGTCCAATATCCTCCG-TCGTGAAGTTAAAATTGGCTCTGGAATCGGGAAATTATTT
1 TTGTCTCGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
* * *
868870 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
65 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * * *
868912 TTGTCTCGAGTCCAATATCATTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
868977 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
869018 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
869083 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
869124 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
869189 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
869230 TTGTCT-GTAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCAGAAATTGGGAAATTGTTT
1 TTGTCTCG-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
869294 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
65 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
869336 TTGTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
*
869401 TTGACAACCAGCGGTCCCTTCGTCGTGACGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
869442 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGCTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
869507 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
869548 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
*
869613 TTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
869654 TTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTA
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
* *
869719 TTGACAATCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* ** * * *
869760 TAGTCTTTAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTA
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
869825 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
869866 TTGTCTAGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
869931 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * *
869972 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
* * *
870037 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
870078 TTGTCTCGAGT
1 TTGTCTCGAGT
870089 GGCACGATAT
Statistics
Matches: 1102, Mismatches: 72, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
105 1 0.00
106 1099 1.00
107 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
Found at i:871057 original size:22 final size:22
Alignment explanation
Indices: 871030--871106 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
871020 TTATGTTTGA
871030 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
871052 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
871074 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
871096 TCAACGGTTTG
1 TCAAAGGTTTG
871107 ATGGGGTAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:871805 original size:172 final size:173
Alignment explanation
Indices: 871502--871848 Score: 583
Period size: 172 Copynumber: 2.0 Consensus size: 173
871492 TAAATAGGCC
*
871502 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTCCGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTACGATGCCTTCAA-CA-GTCCTG
*
871567 CTCAAGATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGAGATTCGGGAATG
64 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGAGATTCGGGAATG
871632 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
* *
871677 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTGCT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTACGATGCCTTCAACAGTCCTGCT
* *
871739 CAAAATGTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGTGAATG
66 CAAAATG--TCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGAGATTCGGGAATG
871804 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
871849 TTTTAGGGAA
Statistics
Matches: 164, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
170 13 0.08
172 100 0.61
174 1 0.01
175 50 0.30
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTACGATGCCTTCAACAGTCCTGCT
CAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGAGATTCGGGAATGAT
TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:871910 original size:23 final size:22
Alignment explanation
Indices: 871884--871939 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
871874 TTTGTCCCTT
871884 TTTCTTTTTGATT-TTTGTTCTTG
1 TTTCTTTTT--TTCTTTGTTCTTG
* *
871907 TTTCTCTTTTTTCTTTGTTTTTT
1 TTTCT-TTTTTTCTTTGTTCTTG
871930 TTTCTTTTTT
1 TTTCTTTTTT
871940 GCTTCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 18 0.62
24 4 0.14
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTCTTTTTTTCTTTGTTCTTG
Found at i:871921 original size:7 final size:7
Alignment explanation
Indices: 871882--871955 Score: 53
Period size: 7 Copynumber: 9.7 Consensus size: 7
871872 TTTTTGTCCC
871882 TTTTTCT
1 TTTTTCT
871889 TTTTGAT-T
1 TTTT--TCT
871897 TTTGTTCT
1 TTT-TTCT
871905 TGTTTCTCT
1 T-TTT-TCT
871914 TTTTTCT
1 TTTTTCT
871921 TTGTTT-T
1 TT-TTTCT
871928 TTTTTCT
1 TTTTTCT
871935 TTTTTGCT
1 TTTTT-CT
*
871943 TCTTTTAT
1 T-TTTTCT
871951 TTTTT
1 TTTTT
871956 GTTCTTGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
6 3 0.05
7 23 0.41
8 18 0.32
9 12 0.21
ACGTcount: A:0.03, C:0.11, G:0.07, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:871935 original size:30 final size:32
Alignment explanation
Indices: 871881--871958 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 32
871871 TTTTTTGTCC
*
871881 CTTTTTCTTTTTGATTTTTGTTCTTGTTT-C-T
1 CTTTTT-TTTTTGTTTTTTGTTCTTGTTTGCTT
* * *
871912 CTTTTTTCTTTGTTTTTTTTTCTTTTTTGCTT
1 CTTTTTTTTTTGTTTTTTGTTCTTGTTTGCTT
871944 CTTTTATTTTTTGTT
1 CTTTT-TTTTTTGTT
871959 CTTGATTGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
30 18 0.46
31 7 0.18
32 6 0.15
33 8 0.21
ACGTcount: A:0.03, C:0.12, G:0.08, T:0.78
Consensus pattern (32 bp):
CTTTTTTTTTTGTTTTTTGTTCTTGTTTGCTT
Found at i:871960 original size:15 final size:16
Alignment explanation
Indices: 871929--871961 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
871919 CTTTGTTTTT
*
871929 TTTTCTTTTTTGCTTC
1 TTTTATTTTTTGCTTC
871945 TTTTATTTTTTG-TTC
1 TTTTATTTTTTGCTTC
871960 TT
1 TT
871962 GATTGGATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTGCTTC
Found at i:875365 original size:19 final size:19
Alignment explanation
Indices: 875332--875368 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
875322 TGCAGATGAT
875332 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
875351 GGAAA-AAAATAAAA-AGA
1 GGAAATAAAATAAAAGAGA
875368 G
1 G
875369 TTAGTAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:876553 original size:19 final size:17
Alignment explanation
Indices: 876531--876576 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
876521 TGAAACAAAT
876531 ATAAAAAAAATGAAATTGA
1 ATAAAAAAAAT-AAA-TGA
876550 ATAAAATAAAATAAATGA
1 ATAAAA-AAAATAAATGA
*
876568 AGAAAAAAA
1 ATAAAAAAA
876577 TATATATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 8 0.32
19 9 0.36
20 5 0.20
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
ATAAAAAAAATAAATGA
Found at i:876716 original size:29 final size:30
Alignment explanation
Indices: 876658--876733 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
876648 AACTAAAAAC
876658 ATAATGAAAATA-AATAAATAGTATAAATAAA
1 ATAAT-AAAATATAA-AAATAGTATAAATAAA
** *
876689 ATAATAAAATATAAAAAT-GTATGTATAAT
1 ATAATAAAATATAAAAATAGTATAAATAAA
876718 ATAATAAAATACTAAA
1 ATAATAAAATA-TAAA
876734 TAGTAACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 19 0.47
30 14 0.35
31 7 0.17
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (30 bp):
ATAATAAAATATAAAAATAGTATAAATAAA
Found at i:876745 original size:29 final size:27
Alignment explanation
Indices: 876671--876756 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 27
876661 ATGAAAATAA
*
876671 ATAAATAGTATAAATAAAATAATAAAAT
1 ATAAATAGTA-AAATAATATAATAAAAT
* **
876699 ATAAAAATGTATGTATAATATAATAAAAT
1 ATAAATA-GTA-AAATAATATAATAAAAT
876728 ACTAAATAGTAACAATAATAATAAATAAA
1 A-TAAATAGTAA-AATAAT-AT-AATAAA
876757 TGAAAAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
28 6 0.13
29 27 0.59
30 7 0.15
31 6 0.13
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (27 bp):
ATAAATAGTAAAATAATATAATAAAAT
Found at i:876907 original size:2 final size:2
Alignment explanation
Indices: 876902--876926 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
876892 AAAAATAATA
876902 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
876927 ATAGGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:876992 original size:23 final size:23
Alignment explanation
Indices: 876958--877004 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
876948 ACGTAAAGAA
876958 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
876981 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
877004 A
1 A
877005 TATATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:877509 original size:37 final size:37
Alignment explanation
Indices: 877416--877517 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
877406 ATGCTTGTGG
* * ** * * *
877416 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
*
877453 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
877490 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
877518 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
Found at i:882624 original size:14 final size:14
Alignment explanation
Indices: 882605--882632 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
882595 TATATGCATA
882605 TATACATACATAAG
1 TATACATACATAAG
882619 TATACATACATAAG
1 TATACATACATAAG
882633 AGCGAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TATACATACATAAG
Found at i:884013 original size:31 final size:30
Alignment explanation
Indices: 883978--884082 Score: 86
Period size: 31 Copynumber: 3.3 Consensus size: 30
883968 AAGGATCATA
883978 TTATAATAGTCTTATAAGTTTAAAGATTATT
1 TTATAATAGT-TTATAAGTTTAAAGATTATT
* * *
884009 TTATAATAGTTTGATAATAAATTTTAATGATCATT
1 TTATAATAG-TT--T-AT-AAGTTTAAAGATTATT
* *
884044 TTATAATCGTTTAGAAAGTTTAATA-ATTATT
1 TTATAATAGTTTA-TAAGTTTAA-AGATTATT
884075 TTATAATA
1 TTATAATA
884083 TTTGACAAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
31 30 0.52
32 2 0.03
33 1 0.02
34 4 0.07
35 21 0.36
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (30 bp):
TTATAATAGTTTATAAGTTTAAAGATTATT
Found at i:884041 original size:66 final size:65
Alignment explanation
Indices: 883965--884087 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 65
883955 TTTTAAAAAA
*
883965 TTTAAGGATCATATTATAATAGTCTTA-TAAGTTTAA-AGATTATTTTATAATAGTTTGATAATA
1 TTTAAGGATCATATTATAATAGT-TTAGAAAGTTTAATA-ATTATTTTATAATA-TTTGATAATA
884028 AAT
63 AAT
* * *
884031 TTTAATGATCATTTTATAATCGTTTAGAAAGTTTAATAATTATTTTATAATATTTGA
1 TTTAAGGATCATATTATAATAGTTTAGAAAGTTTAATAATTATTTTATAATATTTGA
884088 CAAGTTATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
65 8 0.16
66 42 0.82
67 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (65 bp):
TTTAAGGATCATATTATAATAGTTTAGAAAGTTTAATAATTATTTTATAATATTTGATAATAAAT
Found at i:885358 original size:30 final size:31
Alignment explanation
Indices: 885324--885398 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
885314 ATATATTTTA
* *
885324 TCCTCAATATTTATATA-TTTATCAATTTGG
1 TCCTCAATACTTACATATTTTATCAATTTGG
* *
885354 TCCTCAGTACTTACATATTTTATTAATTTGG
1 TCCTCAATACTTACATATTTTATCAATTTGG
*
885385 T-ATCAATACTTACA
1 TCCTCAATACTTACA
885399 CAAAATACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 25 0.66
31 13 0.34
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (31 bp):
TCCTCAATACTTACATATTTTATCAATTTGG
Found at i:885382 original size:31 final size:31
Alignment explanation
Indices: 885336--885398 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
885326 CTCAATATTT
* *
885336 ATATATTTATCAATTTGGTCCTCAGTACTTAC
1 ATATATTTATCAATTTGGT-ATCAATACTTAC
*
885368 ATAT-TTTATTAATTTGGTATCAATACTTAC
1 ATATATTTATCAATTTGGTATCAATACTTAC
885398 A
1 A
885399 CAAAATACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 11 0.39
31 13 0.46
32 4 0.14
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (31 bp):
ATATATTTATCAATTTGGTATCAATACTTAC
Found at i:885461 original size:31 final size:31
Alignment explanation
Indices: 885410--885473 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
885400 AAAATACTTA
*
885410 TTTACCAAACTATTATAAATAATCATTAAAT
1 TTTACCAAACTATTACAAATAATCATTAAAT
* * * *
885441 TTTATCAAACTGTTACAAATAGTTATTAAAT
1 TTTACCAAACTATTACAAATAATCATTAAAT
885472 TT
1 TT
885474 ATCGAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTACCAAACTATTACAAATAATCATTAAAT
Found at i:891823 original size:11 final size:11
Alignment explanation
Indices: 891809--891834 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
891799 ATAGTAATTT
891809 ACAGTAATATG
1 ACAGTAATATG
891820 ACAGTAATATG
1 ACAGTAATATG
891831 ACAG
1 ACAG
891835 ACTATTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (11 bp):
ACAGTAATATG
Found at i:902074 original size:27 final size:27
Alignment explanation
Indices: 902036--902103 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
902026 TTATAAAAAT
902036 ATTTGAGTTTACTAAGCTAGGGCTACA
1 ATTTGAGTTTACTAAGCTAGGGCTACA
902063 ATTTGAGTTTACTAAGCTAGGGCTACA
1 ATTTGAGTTTACTAAGCTAGGGCTACA
902090 ATTTGAGTTTACTA
1 ATTTGAGTTTACTA
902104 GCACTTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTTGAGTTTACTAAGCTAGGGCTACA
Found at i:902872 original size:25 final size:25
Alignment explanation
Indices: 902842--902902 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
902832 AAGCCCCTAA
902842 TCTTCAACCTTTTCCCAAATAAATC
1 TCTTCAACCTTTTCCCAAATAAATC
902867 TCTTCAACCTTTTCCCAAATAAATC
1 TCTTCAACCTTTTCCCAAATAAATC
902892 TCTT-AACCTTT
1 TCTTCAACCTTT
902903 AACTTTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 7 0.19
25 29 0.81
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (25 bp):
TCTTCAACCTTTTCCCAAATAAATC
Found at i:916641 original size:46 final size:46
Alignment explanation
Indices: 916574--916665 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
916564 AAATTACTTG
916574 TGTATTCCTTCTCTGGCAGCCAGTAGGATTGGGAAAGATAGCCAAA
1 TGTATTCCTTCTCTGGCAGCCAGTAGGATTGGGAAAGATAGCCAAA
916620 TGTATTCCTTCTCTGGCAGCCAGTAGGATTGGGAAAGATAGCCAAA
1 TGTATTCCTTCTCTGGCAGCCAGTAGGATTGGGAAAGATAGCCAAA
916666 CTAATAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (46 bp):
TGTATTCCTTCTCTGGCAGCCAGTAGGATTGGGAAAGATAGCCAAA
Found at i:917985 original size:23 final size:26
Alignment explanation
Indices: 917959--918015 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
917949 GGTCGGGGAA
* *
917959 CGGTTAA-GG-ATTT-TTTTGGAATT
1 CGGTTAACGGTATTTCTTTTCGAAAT
917982 CGGTTAACGGTTATTTCTTTTCGAAAT
1 CGGTTAACGG-TATTTCTTTTCGAAAT
918009 CGGTTAA
1 CGGTTAA
918016 TTAATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.25
24 2 0.07
26 4 0.14
27 15 0.54
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.44
Consensus pattern (26 bp):
CGGTTAACGGTATTTCTTTTCGAAAT
Found at i:918176 original size:17 final size:17
Alignment explanation
Indices: 918154--918192 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
918144 TGAATCAAAT
918154 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
918171 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
918188 -AATTA
1 TAATTA
918193 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:931678 original size:2 final size:2
Alignment explanation
Indices: 931671--931727 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
931661 CAGAAAATGT
931671 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
931711 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
931728 TCATTCACTG
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:932405 original size:18 final size:17
Alignment explanation
Indices: 932379--932422 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
932369 AAGATTTGTT
*
932379 TTTGTGAAAAAGGAAAAAA
1 TTTG-GAAAAAAG-AAAAA
*
932398 TTTGGAAAAAAGAGAAA
1 TTTGGAAAAAAGAAAAA
932415 TTTGGAAA
1 TTTGGAAA
932423 TTACAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 7 0.30
19 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
TTTGGAAAAAAGAAAAA
Found at i:933700 original size:20 final size:21
Alignment explanation
Indices: 933646--933763 Score: 70
Period size: 20 Copynumber: 5.8 Consensus size: 21
933636 ATTTCTTTTC
*
933646 CGCAACGCGATTTTC-CAAATT
1 CGCAACGCGAATTTCTC-AATT
* * *
933667 CTCAACTC-AGTTTCTGCAA-T
1 CGCAACGCGAATTTCT-CAATT
933687 CGCAACGCG-ATTTC-CAAATT
1 CGCAACGCGAATTTCTC-AATT
* * *
933707 CGCAACACAGAATTTC-AAATC
1 CGCAACGC-GAATTTCTCAATT
* *
933728 CGCAACTCG-ATTTCTGAATT
1 CGCAACGCGAATTTCTCAATT
933748 CGCAACGCGAATTTCT
1 CGCAACGCGAATTTCT
933764 TTTTCGCAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 7 0.09
20 36 0.48
21 25 0.33
22 6 0.08
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.28
Consensus pattern (21 bp):
CGCAACGCGAATTTCTCAATT
Found at i:933732 original size:41 final size:42
Alignment explanation
Indices: 933644--933762 Score: 122
Period size: 41 Copynumber: 2.9 Consensus size: 42
933634 GAATTTCTTT
* * *
933644 TCCGCAACGCGATTTTCCAAATTCTCAACTCAG--TTTCTGCAA
1 TCCGCAACGCGA-TTTCCAAATTCGCAACACAGAATTTC-GAAA
933686 T-CGCAACGCGATTTCCAAATTCGCAACACAGAATTTC-AAA
1 TCCGCAACGCGATTTCCAAATTCGCAACACAGAATTTCGAAA
* ** *
933726 TCCGCAACTCGATTTCTGAATTCGCAACGC-GAATTTC
1 TCCGCAACGCGATTTCCAAATTCGCAACACAGAATTTC
933763 TTTTTCGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
40 28 0.42
41 34 0.51
42 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (42 bp):
TCCGCAACGCGATTTCCAAATTCGCAACACAGAATTTCGAAA
Found at i:933769 original size:20 final size:19
Alignment explanation
Indices: 933746--933893 Score: 99
Period size: 20 Copynumber: 7.5 Consensus size: 19
933736 GATTTCTGAA
*
933746 TTCGCAACGCGAATTTCTTT
1 TTCGCAACACGAATTT-TTT
*
933766 TTCGCAACAC-AAGTTTCCTT
1 TTCGCAACACGAA-TTT-TTT
*
933786 TTCGCAACAAG-ATTTTTT
1 TTCGCAACACGAATTTTTT
933804 AATTCGCAACACGAATTTTGTT
1 --TTCGCAACACGAATTTT-TT
* *
933826 TTCGCAACTCG-ATTTTTGAA
1 TTCGCAACACGAATTTTT--T
* *
933846 TTCGTAACACGAATTTTAAT
1 TTCGCAACACGAATTTT-TT
*
933866 TTCGCAACA-G-CTTTTATT
1 TTCGCAACACGAATTTT-TT
933884 TTCGCAACAC
1 TTCGCAACAC
933894 AAATGTTTTG
Statistics
Matches: 103, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
18 18 0.17
19 11 0.11
20 62 0.60
21 10 0.10
22 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (19 bp):
TTCGCAACACGAATTTTTT
Found at i:933770 original size:61 final size:61
Alignment explanation
Indices: 933603--933833 Score: 163
Period size: 61 Copynumber: 3.8 Consensus size: 61
933593 AATTTCCCAG
* ** * * *
933603 ATTCGCAACTC-AGTTT-TGAAATTCACAATTCGAATTTCTTTTCCGCAACGC-GATTTTCCAA
1 ATTCGCAACTCGA-TTTCTG-AATTCGCAACGCGAATTTCTTTTTCGCAACACAGAATTT-CAA
* ***
933664 ATTCTCAACTC-AGTTTCTGCAA-TCGCAACGCG-ATTTCCAAATTCGCAACACAGAATTTCAA
1 ATTCGCAACTCGA-TTTCTG-AATTCGCAACGCGAATTT-CTTTTTCGCAACACAGAATTTCAA
* * **
933725 ATCCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTTCGCAACACA-AGTTTCCT
1 ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTTCGCAACACAGAATTTCAA
* ** * * *
933785 TTTCGCAACAAGATTTTTTAATTCGCAACACGAATTT-TGTTTTCGCAAC
1 ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCT-TTTTCGCAAC
933834 TCGATTTTTG
Statistics
Matches: 137, Mismatches: 26, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
59 1 0.01
60 51 0.37
61 71 0.52
62 14 0.10
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (61 bp):
ATTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTCTTTTTCGCAACACAGAATTTCAA
Found at i:933862 original size:40 final size:40
Alignment explanation
Indices: 933766--933874 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
933756 GAATTTCTTT
** *
933766 TTCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTTTTAA
1 TTCGCAACACGAA-TTTTATTTTCGCAACAAGATTTTTGAA
* **
933806 TTCGCAACACGAATTTTGTTTTCGCAACTCGATTTTTGAA
1 TTCGCAACACGAATTTTATTTTCGCAACAAGATTTTTGAA
* *
933846 TTCGTAACACGAATTTTAATTTCGCAACA
1 TTCGCAACACGAATTTTATTTTCGCAACA
933875 GCTTTTATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 57 0.97
41 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (40 bp):
TTCGCAACACGAATTTTATTTTCGCAACAAGATTTTTGAA
Found at i:934050 original size:14 final size:15
Alignment explanation
Indices: 934031--934068 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
934021 TCCCCATCTC
934031 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
934045 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
934061 TAATTTTT
1 TAATTTTT
934069 CTCCAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:934684 original size:12 final size:12
Alignment explanation
Indices: 934663--934696 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
934653 ACCACATTTC
*
934663 CAATACCAAACA
1 CAATATCAAACA
934675 CAATATCAAACA
1 CAATATCAAACA
*
934687 CAATCTCAAA
1 CAATATCAAA
934697 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:937492 original size:16 final size:16
Alignment explanation
Indices: 937471--937506 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
937461 TGCAGATTGA
*
937471 AATTAAACAAAAAATC
1 AATTAAACAAAAAAAC
937487 AATTAAACAAAAAAAC
1 AATTAAACAAAAAAAC
937503 AATT
1 AATT
937507 CTTATTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (16 bp):
AATTAAACAAAAAAAC
Found at i:938143 original size:11 final size:11
Alignment explanation
Indices: 938124--938158 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
938114 GAGACCTTAC
*
938124 CCGCCCCGCAT
1 CCGCACCGCAT
938135 CCGCACCGCAT
1 CCGCACCGCAT
*
938146 CCGCACTGCAT
1 CCGCACCGCAT
938157 CC
1 CC
938159 ACCCGCCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.57, G:0.17, T:0.11
Consensus pattern (11 bp):
CCGCACCGCAT
Found at i:938171 original size:15 final size:15
Alignment explanation
Indices: 938153--938211 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
938143 CATCCGCACT
938153 GCATCCACCCGCCCC
1 GCATCCACCCGCCCC
* **
938168 GCATCCGCCCGTACC
1 GCATCCACCCGCCCC
938183 GCATCCACCCGCCCC
1 GCATCCACCCGCCCC
* *
938198 ACATCCGCCCGCCC
1 GCATCCACCCGCCC
938212 AACTAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.14, C:0.63, G:0.15, T:0.08
Consensus pattern (15 bp):
GCATCCACCCGCCCC
Found at i:940216 original size:21 final size:21
Alignment explanation
Indices: 940190--940244 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
940180 GTGAATCGGG
* *
940190 CTCTTGAACGGTGGGAGGGGT
1 CTCTTGAACGATGGGAGGGGA
940211 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGA
940232 CTCTTGAACGATG
1 CTCTTGAACGATG
940245 ACAGGTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGA
Found at i:941168 original size:21 final size:21
Alignment explanation
Indices: 941142--941196 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
941132 GTGAATCGGG
*
941142 CTCTTGAACGATGGGAGGGGT
1 CTCTTGAACGATGGGAGGGGC
941163 CTCTTGAACGATGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
941184 CTCTTGAACGATG
1 CTCTTGAACGATG
941197 ACAGGTGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:941223 original size:952 final size:943
Alignment explanation
Indices: 939388--941284 Score: 3587
Period size: 952 Copynumber: 2.0 Consensus size: 943
939378 ATGATCGCTC
*
939388 TATCCCCTAAAAATAATATCTTTCAAATCAGACAATGGTATATAATTCAACATGCTGTCATATAC
1 TATCCCCTAAAAATAATATCTTTCAAATCAGACAATGGTATATAATTCAACATGATGTCATATAC
*
939453 TATCGTCTTTAGGGATGGGAGATGAAGCTCGACGAGAATCCAATGACGATGTTCCATAACAGGGA
66 CATCGTCTTTAGGGATGGGAGATGAAGCTCGACGAGAATCCAATGACGATGTTCCATAACAGGGA
*
939518 TAAACACCTGTAATCATAAATAATAATTCAATTGCGCACATCAAATAAAATTTATGAACACCTTT
131 TAAACACCTGCAATCATAAATAATAATTCAATTGCGCACATCAAATAAAATTTATGAACACCTTT
939583 AAATATGCAAAAATAAATACTAACCTTATCCACCTCCCACCACGCAGGATAAAGGCAGGCTTTTC
196 AAATATGCAAAAATAAATACTAACCTTATCCACCTCCCACCACGCAGGATAAAGGCAGGCTTTTC
939648 CATTACCCAACGCATATGAAGAGTCTCTCTGATCCTTCAAGTGAGCTGCGTGAAAAGACGAATGC
261 CATTACCCAACGCATATGAAGAGTCTCTCTGATCCTTCAAGTGAGCTGCGTGAAAAGACGAATGC
939713 ATAATAGTCCATCGCGTCTTTTTTATTTTCTTCAATTTCCTTATAATCAGAAGACGTGACACCCA
326 ATAATAGTCCATCGCGTCTTTTTTATTTTCTTCAATTTCCTTATAATCAGAAGACGTGACACCCA
*
939778 TATATCAATATGTTGTTTTATAAAAAATATGTATATATATATAGTGAATTTAGTAAATTTAAAAA
391 TATATCAATATGCTGTTTTATAAAAAATATGTATATATATATAGTGAATTTAGTAAATTTAAAAA
939843 AAATAATCAAAATCAATATAAGAAGAATATAAGACTTACCCCCATTCGAAATAGTCATTCTCTTC
456 AAATAATCAAAATCAATATAAGAAGAATATAAGACTTACCCCCATTCGAAATAGTCATTCTCTTC
939908 AACCCCTAATAAAACACCCCACCAAGACCGCTCAAGAAACAAATGTATATCGTCGATTTTGCATA
521 AACCCCTAATAAAACACCCCACCAAGACCGCTCAAGAAACAAATGTATATCGTCGATTTTGCATA
939973 TGTCATCGTAGCACCCATTGATCCGCTCATTTAGATAAAAATCAACTTCAGTCTTAGCCCAAAGG
586 TGTCATCGTAGCACCCATTGATCCGCTCATTTAGATAAAAATCAACTTCAGTCTTAGCCCAAAGG
940038 GTATTATCCATAATTGTATCCGGTAGTGTGCTCATATCATGCTGAGGAATGGCACTGGTCGGTAA
651 GTATTATCCATAATTGTATCCGGTAGTGTGCTCATATCATGCTGAGGAATGGCACTGGTCGGTAA
940103 CTGATACGAAAGCCAACTCTGATCCATCATACTGGGCACGAGAGGGGGTTTATCAATATGTCGAC
716 CTGATACGAAAGCCAACTCTGATCCATCATACTGGGCACGAGAGGGGGTTTATCAATATGTCGAC
*
940168 ATAGTATGCCATGTGAATCGGGCTCTTGAACGGTGGGAGGGGTCTCTTGAACGATGGGAGGGGAC
781 ATAGTATGCCATGTGAATCGGGCTCTTGAACGATGGGAGGGGTCTCTTGAACGATGGGAGGGGAC
940233 TCTTGAACGATGACAGGTGAATCGGGCTTCTTCTTACGTAGTCTTGGAACTATTGGGGTGAAAGG
846 TCTTGAACGATGACAGGTGAATCGGGCTTCTTCTTACGTAGTCTTGGAACTATTGGGGTGAAAGG
*
940298 AGACGTAATGGCACGTCCACGACGTCTGATGCA
911 AAACGTAATGGCACGTCCACGACGTCTGATGCA
*
940331 TATCCCCTAAAAATAATATCTTTCAAATCAGACAATGGTATGTAATTCAACATGATGTCATATAC
1 TATCCCCTAAAAATAATATCTTTCAAATCAGACAATGGTATATAATTCAACATGATGTCATATAC
* *
940396 CATCGTCTTTAGGGATGGGAGCTGAAGCTCGACGAGAATCCAATGACGATGTTCCATAAGAGGGA
66 CATCGTCTTTAGGGATGGGAGATGAAGCTCGACGAGAATCCAATGACGATGTTCCATAACAGGGA
*
940461 TAAACACCTGCAATCATAAATAATAATTTAATTGCGCACATCAAATAAAATTTATGAACACCTTT
131 TAAACACCTGCAATCATAAATAATAATTCAATTGCGCACATCAAATAAAATTTATGAACACCTTT
*
940526 AAATATGCAAAAATAAATACTAACCTTATCGACCTCCCACCACGCAGGATAAAGGCAGGCTTTTC
196 AAATATGCAAAAATAAATACTAACCTTATCCACCTCCCACCACGCAGGATAAAGGCAGGCTTTTC
*
940591 CATTACCCAACGTATATGAAGAGTCTCTCTGATCCTTCAAGTGAGCTGCGTGAAAAGACGAATGC
261 CATTACCCAACGCATATGAAGAGTCTCTCTGATCCTTCAAGTGAGCTGCGTGAAAAGACGAATGC
940656 ATAATAGTCCATCGCGTCTTTTTTATTTTCTTCAATTTCCTTATAATCAGAAGACGTGACACCCA
326 ATAATAGTCCATCGCGTCTTTTTTATTTTCTTCAATTTCCTTATAATCAGAAGACGTGACACCCA
940721 TATATCAATATGCTGTTTTATAAAAAATATGTATATATATATATATATATTAGTGAATTTAGTAA
391 TATATCAATATGCTGTTTTATAAAAAATATG--------TATATATATA-TAGTGAATTTAGTAA
940786 ATTTAAAAAAAATAATCAAAATCAATATAAGAAGAATATAAGACTTACCCCCATTCGAAATAGTC
447 ATTTAAAAAAAATAATCAAAATCAATATAAGAAGAATATAAGACTTACCCCCATTCGAAATAGTC
940851 ATTCTCTTCAACCCCTAATAAAACACCCCACCAAGACCGCTCAAGAAACAAATGTATATCGTCGA
512 ATTCTCTTCAACCCCTAATAAAACACCCCACCAAGACCGCTCAAGAAACAAATGTATATCGTCGA
*
940916 TTTTGCATATGTCATCGTAGCACCCCTTGATCCGCTCATTTAGATAAAAATCAACTTCAGTCTTA
577 TTTTGCATATGTCATCGTAGCACCCATTGATCCGCTCATTTAGATAAAAATCAACTTCAGTCTTA
940981 GCCCAAAGGGTATTATCCATAATTGTATCCGGTAGTGTGCTCATATCATGCTGAGGAATGGCACT
642 GCCCAAAGGGTATTATCCATAATTGTATCCGGTAGTGTGCTCATATCATGCTGAGGAATGGCACT
941046 GGTCGGTAACTGATACGAAAGCCAACTCTGATCCATCATACTGGGCACGAGAGGGGGTTTATCAA
707 GGTCGGTAACTGATACGAAAGCCAACTCTGATCCATCATACTGGGCACGAGAGGGGGTTTATCAA
941111 TATGTCGACATAGTATGCCATGTGAATCGGGCTCTTGAACGATGGGAGGGGTCTCTTGAACGATG
772 TATGTCGACATAGTATGCCATGTGAATCGGGCTCTTGAACGATGGGAGGGGTCTCTTGAACGATG
*
941176 GGAGGGGCCTCTTGAACGATGACAGGTGAATCGGGCTTCTTCTTACGTAGTCTTGGAACTATTGG
837 GGAGGGGACTCTTGAACGATGACAGGTGAATCGGGCTTCTTCTTACGTAGTCTTGGAACTATTGG
941241 GGTGAAAGGAAACGTAATGGCACGTCCACGACGTCTGATGCA
902 GGTGAAAGGAAACGTAATGGCACGTCCACGACGTCTGATGCA
941283 TA
1 TA
941285 AACCCTGTCG
Statistics
Matches: 931, Mismatches: 14, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
943 411 0.44
951 10 0.01
952 510 0.55
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (943 bp):
TATCCCCTAAAAATAATATCTTTCAAATCAGACAATGGTATATAATTCAACATGATGTCATATAC
CATCGTCTTTAGGGATGGGAGATGAAGCTCGACGAGAATCCAATGACGATGTTCCATAACAGGGA
TAAACACCTGCAATCATAAATAATAATTCAATTGCGCACATCAAATAAAATTTATGAACACCTTT
AAATATGCAAAAATAAATACTAACCTTATCCACCTCCCACCACGCAGGATAAAGGCAGGCTTTTC
CATTACCCAACGCATATGAAGAGTCTCTCTGATCCTTCAAGTGAGCTGCGTGAAAAGACGAATGC
ATAATAGTCCATCGCGTCTTTTTTATTTTCTTCAATTTCCTTATAATCAGAAGACGTGACACCCA
TATATCAATATGCTGTTTTATAAAAAATATGTATATATATATAGTGAATTTAGTAAATTTAAAAA
AAATAATCAAAATCAATATAAGAAGAATATAAGACTTACCCCCATTCGAAATAGTCATTCTCTTC
AACCCCTAATAAAACACCCCACCAAGACCGCTCAAGAAACAAATGTATATCGTCGATTTTGCATA
TGTCATCGTAGCACCCATTGATCCGCTCATTTAGATAAAAATCAACTTCAGTCTTAGCCCAAAGG
GTATTATCCATAATTGTATCCGGTAGTGTGCTCATATCATGCTGAGGAATGGCACTGGTCGGTAA
CTGATACGAAAGCCAACTCTGATCCATCATACTGGGCACGAGAGGGGGTTTATCAATATGTCGAC
ATAGTATGCCATGTGAATCGGGCTCTTGAACGATGGGAGGGGTCTCTTGAACGATGGGAGGGGAC
TCTTGAACGATGACAGGTGAATCGGGCTTCTTCTTACGTAGTCTTGGAACTATTGGGGTGAAAGG
AAACGTAATGGCACGTCCACGACGTCTGATGCA
Found at i:941604 original size:63 final size:63
Alignment explanation
Indices: 941510--941631 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 63
941500 ACCACGTAAA
* * * * * *
941510 GCACCATTGTCATCGCGTAAAACATCTACCTCACCATGTAAAG-ACCGTACCTCATCACGCTAT
1 GCACCATTGTCATCACATAAAACACCGACCTCACCACGCAAAGCACCG-ACCTCATCACGCTAT
** * *
941573 GCACCATTGTCATCACATAAAGTACCGACCTCATCACGCAAAGCACTGACCTCATCACG
1 GCACCATTGTCATCACATAAAACACCGACCTCACCACGCAAAGCACCGACCTCATCACG
941632 TAACTCCCCT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 45 0.94
64 3 0.06
ACGTcount: A:0.31, C:0.34, G:0.13, T:0.21
Consensus pattern (63 bp):
GCACCATTGTCATCACATAAAACACCGACCTCACCACGCAAAGCACCGACCTCATCACGCTAT
Found at i:941606 original size:21 final size:21
Alignment explanation
Indices: 941582--941630 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
941572 TGCACCATTG
* *
941582 TCATCACATAAAGTACCGACC
1 TCATCACACAAAGCACCGACC
* *
941603 TCATCACGCAAAGCACTGACC
1 TCATCACACAAAGCACCGACC
941624 TCATCAC
1 TCATCAC
941631 GTAACTCCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.37, G:0.10, T:0.18
Consensus pattern (21 bp):
TCATCACACAAAGCACCGACC
Found at i:943307 original size:20 final size:20
Alignment explanation
Indices: 943284--943326 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
943274 TTTGAAACTT
943284 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
* *
943304 AAATTGGCAACGCGAAAATG
1 AAATTCGCAACACGAAAATG
943324 AAA
1 AAA
943327 ACTGCAACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:943333 original size:20 final size:20
Alignment explanation
Indices: 943290--943340 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
943280 ACTTAAATTC
* *
943290 GCAACACGAAAATGAAATTG
1 GCAACGCGAAAATGAAACTG
943310 GCAACGCGAAAATGAAAACT-
1 GCAACGCGAAAATG-AAACTG
943330 GCAACGCGAAA
1 GCAACGCGAAA
943341 CTAAATTCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (20 bp):
GCAACGCGAAAATGAAACTG
Found at i:943926 original size:41 final size:40
Alignment explanation
Indices: 943880--943973 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
943870 TTTGATTTCT
943880 GTGTTGCGAATTTCAAAACTGAGTTGCG-AATCTGGAAATTC
1 GTGTTGCGAATTTCAAAACTGAGTTGCGAAAT-TGG-AATTC
** * * *
943921 GTGTTGCGAATTTGGAAAGTGTGTTGCGAAATTGGAGTTC
1 GTGTTGCGAATTTCAAAACTGAGTTGCGAAATTGGAATTC
*
943961 GCGTTGCGAATTT
1 GTGTTGCGAATTT
943974 GTTGGTCATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 16 0.35
41 27 0.59
42 3 0.07
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (40 bp):
GTGTTGCGAATTTCAAAACTGAGTTGCGAAATTGGAATTC
Found at i:943928 original size:21 final size:20
Alignment explanation
Indices: 943902--943972 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
943892 TCAAAACTGA
943902 GTTGCGAATCTGGAAATTCGT
1 GTTGCGAAT-TGGAAATTCGT
*
943923 GTTGCGAATTTGGAAAGT-GT
1 GTTGCGAA-TTGGAAATTCGT
* *
943943 GTTGCGAAATTGG-AGTTCGC
1 GTTGCG-AATTGGAAATTCGT
943963 GTTGCGAATT
1 GTTGCGAATT
943973 TGTTGGTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.14
20 19 0.44
21 17 0.40
22 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTGGAAATTCGT
Found at i:943946 original size:20 final size:20
Alignment explanation
Indices: 943878--943956 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
943868 AATTTGATTT
**
943878 CTGTGTTGCGAATTTCAAAA
1 CTGTGTTGCGAATTTGGAAA
* *
943898 CTGAGTTGCGAATCTGGAAA
1 CTGTGTTGCGAATTTGGAAA
*
943918 TTCGTGTTGCGAATTTGGAAA
1 CT-GTGTTGCGAATTTGGAAA
* *
943939 GTGTGTTGCGAAATTGGA
1 CTGTGTTGCGAATTTGGA
943957 GTTCGCGTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 32 0.65
21 17 0.35
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (20 bp):
CTGTGTTGCGAATTTGGAAA
Found at i:944865 original size:12 final size:12
Alignment explanation
Indices: 944841--944880 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
944831 CAAGAAATGA
*
944841 TAACAAATTTCT
1 TAACAAATATCT
*
944853 TAATAAATATCT
1 TAACAAATATCT
*
944865 TAACAAATATTT
1 TAACAAATATCT
944877 TAAC
1 TAAC
944881 TATTAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (12 bp):
TAACAAATATCT
Found at i:945550 original size:16 final size:16
Alignment explanation
Indices: 945529--945563 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
945519 GTCGTTCAAC
*
945529 ATAGAACATCATTTAT
1 ATAGAACATCACTTAT
945545 ATAGAACATCACTTAT
1 ATAGAACATCACTTAT
945561 ATA
1 ATA
945564 CTTTATCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAGAACATCACTTAT
Found at i:947830 original size:2 final size:2
Alignment explanation
Indices: 947797--947822 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
947787 TGGGATGATC
947797 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
947823 TCTATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:950711 original size:18 final size:18
Alignment explanation
Indices: 950688--950741 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
950678 TTTAGAGAAC
950688 GAAAATAAATAATCAACA
1 GAAAATAAATAATCAACA
950706 G---A-AAAT-A-CAA-A
1 GAAAATAAATAATCAACA
950717 GAAAATAAATAATCAACA
1 GAAAATAAATAATCAACA
950735 GAAAATA
1 GAAAATA
950742 CAAAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
13 1 0.03
14 5 0.17
15 5 0.17
16 1 0.03
17 3 0.10
18 9 0.31
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.15
Consensus pattern (18 bp):
GAAAATAAATAATCAACA
Found at i:950730 original size:29 final size:29
Alignment explanation
Indices: 950688--950754 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
950678 TTTAGAGAAC
950688 GAAAATAAATAATCAACAGAAAATACAAA
1 GAAAATAAATAATCAACAGAAAATACAAA
950717 GAAAATAAATAATCAACAGAAAATACAAA
1 GAAAATAAATAATCAACAGAAAATACAAA
950746 GAAAATAAA
1 GAAAATAAA
950755 AATTTGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.70, C:0.09, G:0.07, T:0.13
Consensus pattern (29 bp):
GAAAATAAATAATCAACAGAAAATACAAA
Found at i:955808 original size:210 final size:210
Alignment explanation
Indices: 955463--956552 Score: 1262
Period size: 210 Copynumber: 5.2 Consensus size: 210
955453 TTGACATTGG
* * * * ** *
955463 CCTGAATTGCACAATCCATGTATTAAACAACTGAAGGTGACAATGT-TGGGTTTTATATCCCTCT
1 CCTGAACTGCACAATCCATGTATTAAACAACTGTAGGTGACAACGTCT-GGTTTTACATTTCTTT
* * * ** * * *
955527 GA-ATCATTAGTTCAAACATTGTAATGGCTTCTTTAGTCCTCTTTTCATTGCATAAAGCATCAAT
65 GACA-CATTAGTTCCAACATGGTATTGGCTTCTTCGGTTCTCTTTTCCTTGCATAAAGCATCGAT
* *
955591 TAAAGAATTGAAGGTTACTACATCAAGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTG
129 TAAAGAATTGAAAGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTG
955656 TCGCTTCTGT-CCATTTA
194 TCGCTTCT-TCCCATTTA
** * *
955673 TTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTGGTTTTACATTTCTTTG
1 CCTGAACTGCACAATCCATGTATTAAACAACTGTAGGTGACAACGTCTGGTTTTACATTTCTTTG
* * * * *
955738 ACACATTAATTCCAACATGGAATTGGCTTCTTCGGTTCTCCTTTCCTTGCATAAAGCATTGATAA
66 ACACATTAGTTCCAACATGGTATTGGCTTCTTCGGTTCTCTTTTCCTTGCATAAAGCATCGATTA
* *
955803 AAGAATTGAAAGTTACTACATCAGGAACG-ACTCCTTCATTCATCATTGTA-TGTAGCAAGCTTG
131 AAGAATTGAAAGTTACTACATCAGG-ATGAACTCCTTCATTCATCATTCTATTG-AGCAAGCTTG
* *
955866 TCGCTTCTTCCCAGTTC
194 TCGCTTCTTCCCATTTA
* * * * * *
955883 CCTGAA-TGACAAAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACATTTCTTT
1 CCTGAACTG-CACAATCCATGTATTAAACAACTGTAGGTGACAACGTCTGGTTTTACATTTCTTT
* * *** * *
955947 GACACATTAGTTCCAACATGGTATTTGCTGCTTCAAATCTTTTTTCCCTGCATAAAGCATCGATT
65 GACACATTAGTTCCAACATGGTATTGGCTTCTTCGGTTCTCTTTTCCTTGCATAAAGCATCGATT
* * * *
956012 AAAGAATTGAAGGTTACTACATTAGGATGGACTCCTTCATTCATCATTCTATTAAGCAAGCTTGT
130 AAAGAATTGAAAGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGT
*
956077 CCCTTCTGT-CCATTTA
195 CGCTTCT-TCCCATTTA
** * * *
956093 TTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTGGTTTTACATTTCTTTC
1 CCTGAACTGCACAATCCATGTATTAAACAACTGTAGGTGACAACGTCTGGTTTTACATTTCTTTG
* * *
956158 ACACATTAATTCCAACATGGTATTGGCTTCTTCGGTTCTCCTTTCCTTGCATAAAGCATCAATTA
66 ACACATTAGTTCCAACATGGTATTGGCTTCTTCGGTTCTCTTTTCCTTGCATAAAGCATCGATTA
* * * * * * *
956223 AAGAATTGAAAGTCACTACATTAGGATGGATTCCTTCATTCATCATTCTATCGAGCAACCTTGTA
131 AAGAATTGAAAGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGTC
*
956288 GCTTCTTCCCATTTC
196 GCTTCTTCCCATTTA
* * * * * *
956303 CCTGAACTGCACAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACGTTTCTTTG
1 CCTGAACTGCACAATCCATGTATTAAACAACTGTAGGTGACAACGTCTGGTTTTACATTTCTTTG
* * * *
956368 ACACATTAGTTCCAACATAGTATTGGCTTCTTCGGTCCTCTTTTCCTGGCATAAAGC-TTGTATT
66 ACACATTAGTTCCAACATGGTATTGGCTTCTTCGGTTCTCTTTTCCTTGCATAAAGCATCG-ATT
* * * * *
956432 AAAGAACTGAAAGTCACAACATCAGGATGAACTCCTTCATTCATCATTCTATCGAGCAACCTTGT
130 AAAGAATTGAAAGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGT
* *
956497 AGCTTCTTCCCATTTC
195 CGCTTCTTCCCATTTA
* * * * *
956513 CCTGAAC-GACAAAATCCATGAATCAAAGAACTATAGGTGA
1 CCTGAACTG-CACAATCCATGTATTAAACAACTGTAGGTGA
956553 TGACAGTTGG
Statistics
Matches: 751, Mismatches: 116, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
209 10 0.01
210 733 0.98
211 8 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (210 bp):
CCTGAACTGCACAATCCATGTATTAAACAACTGTAGGTGACAACGTCTGGTTTTACATTTCTTTG
ACACATTAGTTCCAACATGGTATTGGCTTCTTCGGTTCTCTTTTCCTTGCATAAAGCATCGATTA
AAGAATTGAAAGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGTC
GCTTCTTCCCATTTA
Found at i:956552 original size:420 final size:417
Alignment explanation
Indices: 955463--956511 Score: 1476
Period size: 420 Copynumber: 2.5 Consensus size: 417
955453 TTGACATTGG
* * * * * * * * ** *
955463 CCTGAATTGCACAATCCATGTATTAAACAACTGAAGGTGACAATGTTGGGTTTTATATCCCTCTG
1 CCTGAA-TGCACAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACATTTCTTTG
* * * * * **
955528 A-ATCATTAGTTCAAACATTGTAATGGCTTCTTTAGTCCTCTTTTCATTGCATAAAGCATCAATT
65 ACA-CATTAGTTCCAACATAGTATTGGCTTCTTCAGTCCTCTTTTC-CTGCATAAAGC-TTGATT
*
955592 AAAGAATTGAAGGTTACTACATCAAGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGT
127 AAAGAATTGAAGGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGT
955657 CGCTTCTGTCCATTTATTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTG
192 CGCTTCTGTCCATTTATTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTG
*
955722 GTTTTACATTTCTTTGACACATTAATTCCAACATGGAATTGGCTTCTTCGGTTCTCCTTTCCTTG
257 GTTTTACATTTCTTTCACACATTAATTCCAACATGGAATTGGCTTCTTCGGTTCTCCTTTCCTTG
** * *
955787 CATAAAGCATTGATAAAAGAATTGAAAGTTACTACATCAGGAACGACTCCTTCATTCATCATTGT
322 CATAAAGCATCAATAAAAGAATTGAAAGTCACTACATCAGGAACGACTCCTTCATTCATCATTCT
* *
955852 ATGTAGCAAGCTTGTCGCTTCTTCCCAGTTC
387 ATGTAGCAACCTTGTAGCTTCTTCCCAGTTC
*
955883 CCTGAATGACAAAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACATTTCTTTG
1 CCTGAATG-CACAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACATTTCTTTG
* * * * * *
955948 ACACATTAGTTCCAACATGGTATTTGCTGCTTCAAAT-CTTTTTTCCCTGCATAAAGCATCGATT
65 ACACATTAGTTCCAACATAGTATTGGCTTCTTC-AGTCCTCTTTT-CCTGCATAAAGC-TTGATT
* * *
956012 AAAGAATTGAAGGTTACTACATTAGGATGGACTCCTTCATTCATCATTCTATTAAGCAAGCTTGT
127 AAAGAATTGAAGGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGT
*
956077 CCCTTCTGTCCATTTATTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTG
192 CGCTTCTGTCCATTTATTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTG
*
956142 GTTTTACATTTCTTTCACACATTAATTCCAACATGGTATTGGCTTCTTCGGTTCTCCTTTCCTTG
257 GTTTTACATTTCTTTCACACATTAATTCCAACATGGAATTGGCTTCTTCGGTTCTCCTTTCCTTG
* * ** *
956207 CATAAAGCATCAATTAAAGAATTGAAAGTCACTACATTAGGATGGATTCCTTCATTCATCATTCT
322 CATAAAGCATCAATAAAAGAATTGAAAGTCACTACATCAGGAACGACTCCTTCATTCATCATTCT
*
956272 ATCG-AGCAACCTTGTAGCTTCTTCCCATTTC
387 AT-GTAGCAACCTTGTAGCTTCTTCCCAGTTC
*
956303 CCTGAACTGCACAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACGTTTCTTTG
1 CCTGAA-TGCACAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACATTTCTTTG
*
956368 ACACATTAGTTCCAACATAGTATTGGCTTCTTCGGTCCTCTTTTCCTGGCATAAAGCTTGTATTA
65 ACACATTAGTTCCAACATAGTATTGGCTTCTTCAGTCCTCTTTTCCT-GCATAAAGCTTG-ATTA
* * * * * * *
956433 AAGAACTGAAAGTCACAACATCAGGATGAACTCCTTCATTCATCATTCTATCGAGCAACCTTGTA
128 AAGAATTGAAGGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGTC
956498 GCTTCT-TCCCATTT
193 GCTTCTGT-CCATTT
956512 CCCTGAACGA
Statistics
Matches: 558, Mismatches: 61, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
419 9 0.02
420 542 0.97
421 7 0.01
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (417 bp):
CCTGAATGCACAATCCATGAATCAAAGAATTGTAGGTGACAACGTTTGGTTTTACATTTCTTTGA
CACATTAGTTCCAACATAGTATTGGCTTCTTCAGTCCTCTTTTCCTGCATAAAGCTTGATTAAAG
AATTGAAGGTTACTACATCAGGATGAACTCCTTCATTCATCATTCTATTGAGCAAGCTTGTCGCT
TCTGTCCATTTATTTGAACTGCACAATCCATGTATTAAACAGCTGTAGGTGACAACATCTGGTTT
TACATTTCTTTCACACATTAATTCCAACATGGAATTGGCTTCTTCGGTTCTCCTTTCCTTGCATA
AAGCATCAATAAAAGAATTGAAAGTCACTACATCAGGAACGACTCCTTCATTCATCATTCTATGT
AGCAACCTTGTAGCTTCTTCCCAGTTC
Found at i:961193 original size:211 final size:210
Alignment explanation
Indices: 960718--961540 Score: 1070
Period size: 211 Copynumber: 3.9 Consensus size: 210
960708 TTGGCCTGAT
**
960718 TTGCACAATCCATGTATTAAACAACTGA-AGGTGACAATGTTGGGTTTTACATTTCTCTGACTCA
1 TTGCACAATCCATGTATTAAACAACT-ATAGGTGACAATGTCAGGTTTTACATTTCTCTGACTCA
* * **
960782 TCATTTCCAACATGATAATGGCTTCTTCAAT-C-CTCTTTTCCTCACATAAAGCATCGATTAAAG
65 TCACTTCCAACATGGTAATGGCTTCTTC--TGCTCTCTTTTCCTTGCATAAAGCATCGATTAAAG
*
960845 AACTGAAAGTCACAACATCAGGATGGACACCTTCATTCATCATCCTACCGAGCAAGCTTGTTGCT
128 AACTGAAAGTCACAACATCAGGATGGACTCCTTCATTCATCATCCTACCGAGCAAGCTTGTTGCT
*
960910 TATGTCCATTTATTTGAA
193 TCTGTCCATTTATTTGAA
* *
960928 TTGCACAATCCATGTATTAAACAACTGTAGGTGACAATGTCAGGTTTTACATTTCTTTGACTCAT
1 TTGCACAATCCATGTATTAAACAACTATAGGTGACAATGTCAGGTTTTACATTTCTCTGACTCAT
* * * *
960993 TACTTCCAATAAGGTAATGGCTTCTTCTGCTCTCTTTTCCTTGCATAAAACATCGATTAAAGAAC
66 CACTTCCAACATGGTAATGGCTTCTTCTGCTCTCTTTTCCTTGCATAAAGCATCGATTAAAGAAC
* * * * *
961058 TGAAAGTCACAACATCAGGATGGATTCCTTCAATTCGTCATCCTACCAAGCAGGCTTGTCGCTTC
131 TGAAAGTCACAACATCAGGATGGACTCCTTC-ATTCATCATCCTACCGAGCAAGCTTGTTGCTTC
961123 TGTCCATTTATTTGAA
195 TGTCCATTTATTTGAA
*
961139 TTGCACAATCCATGTATTAAACAACTATAGGTGACAATGTCAGGTTTTACATTTCTTTGACTCAT
1 TTGCACAATCCATGTATTAAACAACTATAGGTGACAATGTCAGGTTTTACATTTCTCTGACTCAT
* * * * *
961204 CAGC-TCCAACATGGAAATGACTTATTCTGTTCTCTTTTCCTTGCATAAAGCATCAATTAAAGAA
66 CA-CTTCCAACATGGTAATGGCTTCTTCTGCTCTCTTTTCCTTGCATAAAGCATCGATTAAAGAA
* * * * * * *
961268 TTGAAAGTCACTACATTAGGATGGATTCCTT--TTCATCATTCTATCGAGCAAG-TTTTTGCTTC
130 CTGAAAGTCACAACATCAGGATGGACTCCTTCATTCATCATCCTACCGAGCAAGCTTGTTGCTTC
* **
961330 TATCCATTTACCTGAA
195 TGTCCATTTATTTGAA
* * * * * * *
961346 CTGCACAATCTATGTATTAAACAACTGTAGTTGACAATATCCGGTTTTACATTTCTCGGACTCAT
1 TTGCACAATCCATGTATTAAACAACTATAGGTGACAATGTCAGGTTTTACATTTCTCTGACTCAT
* * * *
961411 CAGTTCCAACATGGTAATGGCTTCTTC-GGTCCTCTTTTCCTGGCATAAAGC-TTGTATTAAAGA
66 CACTTCCAACATGGTAATGGCTTCTTCTGCT-CTCTTTTCCTTGCATAAAGCATCG-ATTAAAGA
* * * *
961474 ACTGAAAGTCACAACATCAAGATGAACTCCTTCATTCATCATTCTATCGAGCAAGCTTGTTGCTT
129 ACTGAAAGTCACAACATCAGGATGGACTCCTTCATTCATCATCCTACCGAGCAAGCTTGTTGCTT
961539 CT
194 CT
961541 TCCCATCGAC
Statistics
Matches: 537, Mismatches: 65, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
206 3 0.01
207 153 0.28
208 17 0.03
209 22 0.04
210 152 0.28
211 189 0.35
212 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (210 bp):
TTGCACAATCCATGTATTAAACAACTATAGGTGACAATGTCAGGTTTTACATTTCTCTGACTCAT
CACTTCCAACATGGTAATGGCTTCTTCTGCTCTCTTTTCCTTGCATAAAGCATCGATTAAAGAAC
TGAAAGTCACAACATCAGGATGGACTCCTTCATTCATCATCCTACCGAGCAAGCTTGTTGCTTCT
GTCCATTTATTTGAA
Found at i:967367 original size:31 final size:31
Alignment explanation
Indices: 967332--967390 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
967322 TGAAGTATAC
967332 GGACTAAATC-CCTAAGTTGAGTATAATACAA
1 GGACTAAATCACC-AAGTTGAGTATAATACAA
*
967363 GGACTAAATCAGCAAGTTGAGTATAATA
1 GGACTAAATCACCAAGTTGAGTATAATA
967391 TAGAGATGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (31 bp):
GGACTAAATCACCAAGTTGAGTATAATACAA
Found at i:973040 original size:6 final size:6
Alignment explanation
Indices: 973029--973341 Score: 612
Period size: 6 Copynumber: 52.5 Consensus size: 6
973019 GTGTTACGTT
973029 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
973077 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
973125 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
973173 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
973221 --TATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
973267 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
973315 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
973342 GTTCCAACAG
Statistics
Matches: 305, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.01
6 301 0.99
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:975455 original size:21 final size:21
Alignment explanation
Indices: 975429--975468 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
975419 GTCAAAATCC
*
975429 GTTAATTTCGAGTTAAACTCT
1 GTTAATTTCAAGTTAAACTCT
975450 GTTAATTTCAAGTTAAACT
1 GTTAATTTCAAGTTAAACT
975469 GTCATCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (21 bp):
GTTAATTTCAAGTTAAACTCT
Found at i:981471 original size:27 final size:27
Alignment explanation
Indices: 981437--981493 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
981427 TAAAAAAAAC
981437 AAAGAACAAAAATAAAA-AAGA-AAAGA
1 AAAGAACAAAAATAAAATAA-ACAAAGA
981463 AAAGAAACAAAAATAAAATAAACAAAGA
1 AAAG-AACAAAAATAAAATAAACAAAGA
981491 AAA
1 AAA
981494 AGGAACAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 4 0.14
27 14 0.50
28 10 0.36
ACGTcount: A:0.81, C:0.05, G:0.09, T:0.05
Consensus pattern (27 bp):
AAAGAACAAAAATAAAATAAACAAAGA
Found at i:982957 original size:113 final size:113
Alignment explanation
Indices: 982758--983058 Score: 417
Period size: 113 Copynumber: 2.7 Consensus size: 113
982748 GTTTCATTCA
* * * *
982758 AATTCAAAGCTCAACTTCACAATGAATGAGCCAT-CTACGATTTTAACTTCACGATGAAGGATAT
1 AATTCAAAGCTCAACTTCACAACGAATAAGCCATCCT-TGATTTTAACTTCACGACGAAGGATAT
* *
982822 CATGCCCACAACCAAAGGTTGGATTTCAACTTCACGACGAAAGATATCT
65 CATGCCCACAACCAAAGATTGGATTTCAACTTCACGACGAAAGATATCC
* *
982871 AATTCAAAGCTCAAATTCACAACGAATAAGCCATCCTTGATTTTAACTTCACGACGTAGGATATC
1 AATTCAAAGCTCAACTTCACAACGAATAAGCCATCCTTGATTTTAACTTCACGACGAAGGATATC
* * *
982936 GTGCCCACAACCAAAGATTGGATTTCAATTTCACGACGAATGATATCC
66 ATGCCCACAACCAAAGATTGGATTTCAACTTCACGACGAAAGATATCC
** * * * *
982984 AATTTGAAGCTCAACTTCACAAC-AAAAGAGCCATCCATAATTTCAACTTCACGACGAAGGATAT
1 AATTCAAAGCTCAACTTCACAACGAATA-AGCCATCCTTGATTTTAACTTCACGACGAAGGATAT
983048 CATGCCCACAA
65 CATGCCCACAA
983059 GCAGCAATAC
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
112 3 0.02
113 161 0.97
114 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (113 bp):
AATTCAAAGCTCAACTTCACAACGAATAAGCCATCCTTGATTTTAACTTCACGACGAAGGATATC
ATGCCCACAACCAAAGATTGGATTTCAACTTCACGACGAAAGATATCC
Found at i:983219 original size:46 final size:45
Alignment explanation
Indices: 983167--983496 Score: 174
Period size: 46 Copynumber: 7.6 Consensus size: 45
983157 AATCAGCCGC
* * * * *
983167 CCTCATCACGTAGGAACTGTGTTATCACCCTTAGATGGCCTGACAT
1 CCTCATCGCGTAGGAACCGTGTCATCACCC-TAGATGGCCTAACGT
* ** * **
983213 CCTCATCGCGTAGAAACCGCATCATCA-CCT-GA---CCTGATTT
1 CCTCATCGCGTAGGAACCGTGTCATCACCCTAGATGGCCTAACGT
* **
983253 CCTCATCACGTAGGAACCGTGTCA-C-CCC-AGATAACC-AACTGT
1 CCTCATCGCGTAGGAACCGTGTCATCACCCTAGATGGCCTAAC-GT
* * *
983295 CCTCATCGCTTAGGAACTGTGTTATCACCCTTAGATGGCCTAACGT
1 CCTCATCGCGTAGGAACCGTGTCATCACCC-TAGATGGCCTAACGT
* * **
983341 CCTCATCGCGTAAGAACCGTGTCATCACCC--GA---CCTGATTT
1 CCTCATCGCGTAGGAACCGTGTCATCACCCTAGATGGCCTAACGT
* * **
983381 CCTCATCACGTAGGAACCGTGTCA-C-CGC-AGATAACC-AACTGT
1 CCTCATCGCGTAGGAACCGTGTCATCACCCTAGATGGCCTAAC-GT
* * * * * * * *
983423 CCTTATCGCGTAGGAATCGTGTTATCACCTTTAGATGACTTGACTT
1 CCTCATCGCGTAGGAACCGTGTCATCACC-CTAGATGGCCTAACGT
* *
983469 TCTCATCGCGTAAGAACCGTGTCATCAC
1 CCTCATCGCGTAGGAACCGTGTCATCAC
983497 TAGACTTGAT
Statistics
Matches: 214, Mismatches: 49, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
38 2 0.01
39 8 0.04
40 53 0.25
41 2 0.01
42 46 0.21
43 6 0.03
44 5 0.02
45 2 0.01
46 85 0.40
47 5 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
CCTCATCGCGTAGGAACCGTGTCATCACCCTAGATGGCCTAACGT
Found at i:983309 original size:42 final size:43
Alignment explanation
Indices: 983252--983444 Score: 159
Period size: 42 Copynumber: 4.5 Consensus size: 43
983242 TGACCTGATT
*
983252 TCCTCATCACGTAGGAACCGTGTCACCCCAGATAACC-AACTG
1 TCCTCATCGCGTAGGAACCGTGTCACCCCAGATAACCTAACTG
* * * **
983294 TCCTCATCGCTTAGGAACTGTGTTATCACCCTTAGATGGCCTAAC-G
1 TCCTCATCGCGTAGGAACCGTG---TCACCC-CAGATAACCTAACTG
* * *
983340 TCCTCATCGCGTAAGAACCGTGTCATCACCC-G---ACCTGA-TT
1 TCCTCATCGCGTAGGAACCGTGTCA-C-CCCAGATAACCTAACTG
* *
983380 TCCTCATCACGTAGGAACCGTGTCACCGCAGATAACC-AACTG
1 TCCTCATCGCGTAGGAACCGTGTCACCCCAGATAACCTAACTG
* *
983422 TCCTTATCGCGTAGGAATCGTGT
1 TCCTCATCGCGTAGGAACCGTGT
983445 TATCACCTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 27 0.23
41 1 0.01
42 43 0.37
43 4 0.03
44 1 0.01
45 8 0.07
46 26 0.22
47 3 0.03
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (43 bp):
TCCTCATCGCGTAGGAACCGTGTCACCCCAGATAACCTAACTG
Found at i:983344 original size:128 final size:128
Alignment explanation
Indices: 983114--983582 Score: 561
Period size: 128 Copynumber: 3.7 Consensus size: 128
983104 TATCCAACCC
* * * * * * * * *
983114 GACCTGATTTCCTCATCATGTAGGAGCCGTGTTAACTCTAGATAATCAGCCGCCCTCATCACGTA
1 GACCTGATTTCCTCATCACGTAGGAACCGTG-TCACCCCAGATAACCAACCGTCCTCATCGCGTA
**
983179 GGAACTGTGTTATCACCCTTAGATGGCCTGACATCCTCATCGCGT-AGAAACCGCATCATCACCT
65 GGAACTGTGTTATCACCCTTAGATGGCCTGACATCCTCATCGCGTAAG-AACCGTGTCATCACCT
* *
983243 GACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAACTGTCCTCATCGCTTAG
1 GACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAACCGTCCTCATCGCGTAG
* * *
983308 GAACTGTGTTATCACCCTTAGATGGCCTAACGTCCTCATCGCGTAAGAACCGTGTCATCACCC
66 GAACTGTGTTATCACCCTTAGATGGCCTGACATCCTCATCGCGTAAGAACCGTGTCATCACCT
* * *
983371 GACCTGATTTCCTCATCACGTAGGAACCGTGTCACCGCAGATAACCAACTGTCCTTATCGCGTAG
1 GACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAACCGTCCTCATCGCGTAG
* * * * *
983436 GAA-TCGTGTTATCACCTTTAGATGACTTGACTTTCTCATCGCGTAAGAACCGTGTCATCA-CT
66 GAACT-GTGTTATCACCCTTAGATGGCCTGACATCCTCATCGCGTAAGAACCGTGTCATCACCT
* * * * * *
983498 AGACTTGATCTCCTCATCA-GTA-GAAGCAGTGCCAACCCCAGATAACCAGCCGTCCTCATTGCG
1 -GACCTGATTTCCTCATCACGTAGGAA-CCGTGTC-ACCCCAGATAACCAACCGTCCTCATCGCG
* *
983561 TAGGAACCGAGTTATCACCCTT
63 TAGGAACTGTGTTATCACCCTT
983583 CCTAAAGATG
Statistics
Matches: 296, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
126 3 0.01
127 10 0.03
128 252 0.85
129 31 0.10
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (128 bp):
GACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAACCGTCCTCATCGCGTAG
GAACTGTGTTATCACCCTTAGATGGCCTGACATCCTCATCGCGTAAGAACCGTGTCATCACCT
Found at i:983398 original size:40 final size:41
Alignment explanation
Indices: 983167--983404 Score: 135
Period size: 40 Copynumber: 5.6 Consensus size: 41
983157 AATCAGCCGC
* * **
983167 CCTCATCACGTAGGAACTGTGTTATCACCCTTAGATGGCCTGACAT
1 CCTCATCACGTAGGAACCGTGTCATCACCC-T-GA---CCTGATGT
* * ** *
983213 CCTCATCGCGTAGAAACCGCATCATCA-CCTGACCTGATTT
1 CCTCATCACGTAGGAACCGTGTCATCACCCTGACCTGATGT
* *
983253 CCTCATCACGTAGGAACCGTGTCA-C-CCCAGATAACC-AACTGT
1 CCTCATCACGTAGGAACCGTGTCATCACCC---TGACCTGA-TGT
* * * * * *
983295 CCTCATCGCTTAGGAACTGTGTTATCACCCTTAGATGGCCTAACGT
1 CCTCATCACGTAGGAACCGTGTCATCACCC-T-GA---CCTGATGT
* * *
983341 CCTCATCGCGTAAGAACCGTGTCATCACCC-GACCTGATTT
1 CCTCATCACGTAGGAACCGTGTCATCACCCTGACCTGATGT
983381 CCTCATCACGTAGGAACCGTGTCA
1 CCTCATCACGTAGGAACCGTGTCA
983405 CCGCAGATAA
Statistics
Matches: 149, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
39 3 0.02
40 53 0.36
41 1 0.01
42 27 0.18
43 6 0.04
44 4 0.03
45 2 0.01
46 51 0.34
47 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.25
Consensus pattern (41 bp):
CCTCATCACGTAGGAACCGTGTCATCACCCTGACCTGATGT
Found at i:983874 original size:3 final size:3
Alignment explanation
Indices: 983861--983891 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
983851 TTTTTAAAAA
*
983861 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
983892 TAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:984018 original size:17 final size:18
Alignment explanation
Indices: 983987--984020 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
983977 TTAAAATAAC
983987 CTATCACTAACCCATTAT
1 CTATCACTAACCCATTAT
984005 CTATCACT-ACCCATTA
1 CTATCACTAACCCATTA
984021 AATAAATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (18 bp):
CTATCACTAACCCATTAT
Found at i:989739 original size:5 final size:5
Alignment explanation
Indices: 989726--989759 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
989716 CAAAGAACCA
*
989726 AAAAA AAAAG AAAAG AAAAGG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAA
989760 TATCAGTGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:991513 original size:2 final size:2
Alignment explanation
Indices: 991506--991535 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
991496 TTTCAATGGC
991506 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
991536 TAACTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1002242 original size:209 final size:206
Alignment explanation
Indices: 1001610--1002255 Score: 687
Period size: 210 Copynumber: 3.1 Consensus size: 206
1001600 GGCGACGGGA
* * *
1001610 AGAAGCAACAAGCTTGCTCAATAGTACGATGAATGAAGGTGTCCATCATGATG-T-GACTTTCAG
1 AGAAGCAACAAGCTTGCTCAATAGGATGATGAATGAAGGTGTCCATCATGATGTTGGACTTTCAA
* *
1001673 TTCTTTAATAC-AAGCTTTATGCAAGGAAAAGAGGATTGAAGAAGCCATTACAATGTTGGAACTG
66 TTCTTTAAT-CGATGCTTTATGCAAGGAAAAGAGGATTGAAGAAGCCATTAC-ATGTTGGAAATG
* ** *
1001737 ATGAGTCAGAGAAATGTAAAGCCGGACATTGTCACCTAT-AGTTGTTGAATACATGATTTGTGCA
129 ATGAGTCAGAGAAATGTAAAACCCTACATTGTCACCT-TCAGTTGTTTAATACATGA-TTGTGCA
*
1001801 GTTCAAAGAAATGGAC
192 ATTC-AAGAAATGGAC
* ** * * * ** * *
1001817 AGAAGCAACAAACTTGCTTGATAGAAAGATGAACGAAGGAATCCATCCTAATG-TGGTAACTTTC
1 AGAAGCAACAAGCTTGCTCAATAGGATGATGAATGAAGGTGTCCATCATGATGTTGG--ACTTTC
* * ** * * *
1001881 AATTCTTTAATTGATGCTTTATGCAAGGAAAAGAGAACAGAAGAAGCCATTACCTTATTGGAAGT
64 AATTCTTTAATCGATGCTTTATGCAAGGAAAAGAGGATTGAAGAAGCCATTA-CATGTTGGAAAT
* * * * * *
1001946 AATGGGTCAAAGAAATGTAAAA-CCTGACATTGTCACCTACAGTTGTTTAATACATAAATTGTGT
128 GATGAGTCAGAGAAATGTAAAACCCT-ACATTGTCACCTTCAGTTGTTTAATACAT-GATTGTGC
*
1002010 AATTCAAATAAATGGAC
191 AATTC-AAGAAATGGAC
**
1002027 AGAAGCAACAAGCTTGCTCGGTAGGATGATGAATGAAGGTGTCCATCATGATGTTGCGACTTTCA
1 AGAAGCAACAAGCTTGCTCAATAGGATGATGAATGAAGGTGTCCATCATGATGTTG-GACTTTCA
* **
1002092 TTTC-TTAATCGATGCTTTATGTGAGGAAAAGAGGATTGAAGAAGCCATTATCATGTTGGAAATG
65 ATTCTTTAATCGATGCTTTATGCAAGGAAAAGAGGATTGAAGAAGCCATTA-CATGTTGGAAATG
* **
1002156 ATGAGTCAGAGAAATGTAAAACCCTACATTGTCACCTTCAGTTGTTTAACACATGGACGGTGCAA
129 ATGAGTCAGAGAAATGTAAAACCCTACATTGTCACCTTCAGTTGTTTAATACAT-GATTGTGCAA
* * *
1002221 ATCAGGCCAATGTGA-
193 TTCAAG-AAATG-GAC
1002236 AGAAGCAACAAGCTTGCTCA
1 AGAAGCAACAAGCTTGCTCA
1002256 GTAAGATGGT
Statistics
Matches: 359, Mismatches: 67, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
207 44 0.12
208 2 0.01
209 127 0.35
210 181 0.50
211 4 0.01
212 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (206 bp):
AGAAGCAACAAGCTTGCTCAATAGGATGATGAATGAAGGTGTCCATCATGATGTTGGACTTTCAA
TTCTTTAATCGATGCTTTATGCAAGGAAAAGAGGATTGAAGAAGCCATTACATGTTGGAAATGAT
GAGTCAGAGAAATGTAAAACCCTACATTGTCACCTTCAGTTGTTTAATACATGATTGTGCAATTC
AAGAAATGGAC
Found at i:1002771 original size:56 final size:60
Alignment explanation
Indices: 1002667--1002778 Score: 178
Period size: 62 Copynumber: 1.9 Consensus size: 60
1002657 GTACGTTGCA
1002667 GATACCGAGTATATTAATTAACATCTCATCATCTTATTATTTGTTCTTTCAGTTTTCTCATT
1 GATACCGAGTATATTAATTAACATCTCAT-ATCTTATTA-TTGTTCTTTCAGTTTTCTCATT
1002729 GATACCGAGTATATTAATTAACATCTCAT-TCTT-TTA-T-TTCTTTCAGTTTT
1 GATACCGAGTATATTAATTAACATCTCATATCTTATTATTGTTCTTTCAGTTTT
1002779 GTCACCGATA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
56 13 0.26
57 1 0.02
59 3 0.06
60 4 0.08
62 29 0.58
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (60 bp):
GATACCGAGTATATTAATTAACATCTCATATCTTATTATTGTTCTTTCAGTTTTCTCATT
Found at i:1008065 original size:210 final size:209
Alignment explanation
Indices: 1007409--1008107 Score: 841
Period size: 210 Copynumber: 3.3 Consensus size: 209
1007399 CCTGAAGTCT
* * * *
1007409 TCACCTATAATTCTTTAATTCATGTATTTTGTCATTCTGGGAGATGGGAAGAAGCAACAAGCTTG
1 TCACCTACAATTCTTTAATTCATGGATTTTGTCATTCAGGGAAATGGGAAGAAGCAACAAGCTTG
* * ** * * * *
1007474 CTCGATAGGATGATGAATGAAGTTGTCCATCTTAATGTTGCGACTTTCAGTTCTTTAATACGA-G
66 CTCAATAGAATGATGAATGAAGGAGTTCATCCTAATGTAGCAACTTTCAGTTCTTTAAT-CGATG
* *
1007538 CTTTATGCAGGGAAAAGAGAACCGAAAAAGCAATT-TCCATGTTGGAACTAATGTGTCAAAGAAA
130 CTTTATGCAGGGAAAAGAGAACCGAAGAAGCCATTAT-CATGTTGGAACTAATGTGTCAAAGAAA
1007602 TGTAAAACCAGACATTG
194 TGTAAAACCA-ACATTG
* * * * * *
1007619 TGACCTACAATTCTTTGATTCATGGATTTAGTCATTTAGGAAAATGGGAAGAAGCGACAAGCTTG
1 TCACCTACAATTCTTTAATTCATGGATTTTGTCATTCAGGGAAATGGGAAGAAGCAACAAGCTTG
* * *
1007684 CTCCATACAATGATGAATGAAGGA-TTCCATCCTGATGTAGCAACTTTCAGTTCTTTAATC-AGT
66 CTCAATAGAATGATGAATGAAGGAGTT-CATCCTAATGTAGCAACTTTCAGTTCTTTAATCGA-T
* *
1007747 GCTTTATGCAGGGAAAAGAGAACCGAAGAAGCCAATACCATGTTGGAACTAATGTGTCAAAGAAA
129 GCTTTATGCAGGGAAAAGAGAACCGAAGAAGCCATTATCATGTTGGAACTAATGTGTCAAAGAAA
*
1007812 TGTAAAACCAAACGTTG
194 TGTAAAACC-AACATTG
* *
1007829 TCACCTACAATTCTTTGATTCATGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGACAAGCTTG
1 TCACCTACAATTCTTTAATTCATGGATTTTGTCATTCAGGGAAATGGGAAGAAGCAACAAGCTTG
* * *
1007894 CTCAATAGAATGATGAATGAAGGAGTTCATCCTAATGTAGTAACCTTCAATTCTTTAATCGATGC
66 CTCAATAGAATGATGAATGAAGGAGTTCATCCTAATGTAGCAACTTTCAGTTCTTTAATCGATGC
* * ** * * * * *
1007959 TTTATGCAAGGAAAAGAGGATTGAAGAAGCCATTATTATGTTGGAACTGATGGGTCAGAGAAATT
131 TTTATGCAGGGAAAAGAGAACCGAAGAAGCCATTATCATGTTGGAACTAATGTGTCAAAGAAATG
1008024 TAAAACCTAACATTG
196 TAAAACC-AACATTG
** * * * * ** **
1008039 TCACCTACTGTTGTTTAATACATGGATTGTG-CAAATCAGGCCAATATGAAGAAGCAACAAGCTT
1 TCACCTACAATTCTTTAATTCATGGATTTTGTC-ATTCAGGGAAATGGGAAGAAGCAACAAGCTT
1008103 GCTCA
65 GCTCA
1008108 GCAAGATGGT
Statistics
Matches: 421, Mismatches: 60, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
208 1 0.00
209 3 0.01
210 413 0.98
211 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (209 bp):
TCACCTACAATTCTTTAATTCATGGATTTTGTCATTCAGGGAAATGGGAAGAAGCAACAAGCTTG
CTCAATAGAATGATGAATGAAGGAGTTCATCCTAATGTAGCAACTTTCAGTTCTTTAATCGATGC
TTTATGCAGGGAAAAGAGAACCGAAGAAGCCATTATCATGTTGGAACTAATGTGTCAAAGAAATG
TAAAACCAACATTG
Found at i:1011342 original size:210 final size:208
Alignment explanation
Indices: 1011065--1011713 Score: 809
Period size: 210 Copynumber: 3.1 Consensus size: 208
1011055 GGGAATGGGA
* * * *
1011065 AGAAGCAACAAGCTTGCTGGATAGGATGATGAATGATGGAGTCCATCCTGATGTATTAACATTCA
1 AGAAGCAACAAGCTTGCTCGATAGGATGATGAATGAAGGAGT-CATCCTGATGTAGTAACTTTCA
* *
1011130 ATTATTTAATCAATGCTTTATGCAAGAAAAGTAGGATTGAAGAAGCCATTTCCATGTTGGAGCTA
65 ATTCTTTAATCAATGCTTTATGCAAGAAAAG-AGGATTGAAGAAGCCATTTCCATGTTGGAACTA
* *
1011195 ATTAGTCAGAGAAATGTAAAACCTGACGTTGTCACCTACAATTGTTTAATTCATGCATTGTGCAG
129 ATTAGTCAGAGAAATGTAAAACCTGACGTTGTAACCTACAATTGTTTAATACATGCATTGTGCAG
*
1011260 TTCAAATAAATGGAC
194 TTCAAACAAATGGAC
* * * *
1011275 AGAAGCAACAAACTTTCTCGATAGGATGATGAATGAAGGTGTCGATCCTGATGTAGTGACTTTCA
1 AGAAGCAACAAGCTTGCTCGATAGGATGATGAATGAAGGAGTC-ATCCTGATGTAGTAACTTTCA
* ** *
1011340 ATTCTTTAATCAATGCTTTATGCAAGGAAAAGAGAACAGAAGAAGCCATTTCCATGTTGAAACTA
65 ATTCTTTAATCAATGCTTTATGCAA-GAAAAGAGGATTGAAGAAGCCATTTCCATGTTGGAACTA
* * *
1011405 ATGAGTCAGAGAAATGTAAAACCTGACGTTGTAACCCACAACTGTTTAATACATGCATTGTGCAG
129 ATTAGTCAGAGAAATGTAAAACCTGACGTTGTAACCTACAATTGTTTAATACATGCATTGTGCAG
1011470 TTCAAACAAATGGAC
194 TTCAAACAAATGGAC
* * * *
1011485 AGAAGCGACAAGCTTGCTCAATAGAACGATGAATGAAGGAGTCATTCCTGATGTAGTAACTTTCA
1 AGAAGCAACAAGCTTGCTCGATAGGATGATGAATGAAGGAGTCA-TCCTGATGTAGTAACTTTCA
** * * * *
1011550 ATTCTTTAATTGACGCTTTATGCAAGAAAAAGAGGATTGAAGAAGCCATTACCATGTTTGAACTG
65 ATTCTTTAATCAATGCTTTATGCAAG-AAAAGAGGATTGAAGAAGCCATTTCCATGTTGGAACTA
* * * * * * * *
1011615 A-T-GGCTAGAAAAAATGTAAAACCTAACATTGTTACCTACACTTCTTTAATACATGGATTGTGC
129 ATTAGTC-AG-AGAAATGTAAAACCTGACGTTGTAACCTACAATTGTTTAATACATGCATTGTGC
** ** *
1011678 AAATCAGGCCAATGCGA-
192 AGTTCAAACAAATG-GAC
1011695 AGAAGCAACAAGCTTGCTC
1 AGAAGCAACAAGCTTGCTC
1011714 AGTAAGATGG
Statistics
Matches: 377, Mismatches: 55, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
208 2 0.01
209 5 0.01
210 362 0.96
211 8 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (208 bp):
AGAAGCAACAAGCTTGCTCGATAGGATGATGAATGAAGGAGTCATCCTGATGTAGTAACTTTCAA
TTCTTTAATCAATGCTTTATGCAAGAAAAGAGGATTGAAGAAGCCATTTCCATGTTGGAACTAAT
TAGTCAGAGAAATGTAAAACCTGACGTTGTAACCTACAATTGTTTAATACATGCATTGTGCAGTT
CAAACAAATGGAC
Found at i:1014064 original size:2 final size:2
Alignment explanation
Indices: 1014057--1014092 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1014047 GAATAAATAA
1014057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1014093 ATTAAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1018008 original size:21 final size:21
Alignment explanation
Indices: 1017930--1018001 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
1017920 ACATAGAATT
*
1017930 TGTCCCGAAAGACCATATATA
1 TGTCCCGAAAGACCACATATA
* * *
1017951 TGTCCTGAAGGACCACATAGA
1 TGTCCCGAAAGACCACATATA
* *
1017972 TATCCCAAAAGACCACATATA
1 TGTCCCGAAAGACCACATATA
1017993 TGTCCCGAA
1 TGTCCCGAA
1018002 GGTCCACTCC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (21 bp):
TGTCCCGAAAGACCACATATA
Found at i:1018055 original size:56 final size:56
Alignment explanation
Indices: 1017953--1018058 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 56
1017943 CATATATATG
* *
1017953 TCCTGAAGGACCACATAGATATCCCAAAAGACCACATATATGTCCCGAAGGTCCAC
1 TCCTGAAGGACCACATAGATATCCCAAAAGACCAAATATATATCCCGAAGGTCCAC
* * * * * * *
1018009 TCCTTAAGGATCACATATATATTCCAGATGACCAAATATGTATCCCGAAG
1 TCCTGAAGGACCACATAGATATCCCAAAAGACCAAATATATATCCCGAAG
1018059 AACCGCATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 41 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (56 bp):
TCCTGAAGGACCACATAGATATCCCAAAAGACCAAATATATATCCCGAAGGTCCAC
Found at i:1025470 original size:21 final size:22
Alignment explanation
Indices: 1025446--1025499 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
1025436 TTGGTACAGA
*
1025446 GGGAATCGATACCCC-TTGAAG
1 GGGAACCGATACCCCTTTGAAG
* *
1025467 GGGAACCGATTTCCCCTTTGAAT
1 GGGAACCGA-TACCCCTTTGAAG
1025490 GGGAACCGAT
1 GGGAACCGAT
1025500 TTCCCCTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 6 0.21
23 14 0.50
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (22 bp):
GGGAACCGATACCCCTTTGAAG
Done.