Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_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: 2373650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2109860 original size:42 final size:42
Alignment explanation
Indices: 2109801--2110092 Score: 491
Period size: 42 Copynumber: 7.0 Consensus size: 42
2109791 GAAGTATTAT
2109801 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
* *
2109843 CAGGTTCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
2109885 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
*
2109927 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAATTTAC
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
2109969 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
*
2110011 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
*
2110053 CAGGTCCCTTTGCTGTGTGC-AAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCGAAGG-TAAGCCTTACAGTTT
2110093 TCCTAGGCTC
Statistics
Matches: 238, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
41 6 0.03
42 230 0.97
43 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (42 bp):
CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
Found at i:2109942 original size:84 final size:84
Alignment explanation
Indices: 2109801--2110131 Score: 524
Period size: 84 Copynumber: 3.9 Consensus size: 84
2109791 GAAGTATTAT
*
2109801 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTTCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
2109866 GGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCC
2109885 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGC-AA
* *
2109950 -GGTAAGCCTTACAATTTAC
65 GGGTAAGCCTTACAGTTTCC
2109969 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
2110034 GGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCC
* * * *
2110053 CAGGTCCCTTTGCTGTGTGC-AAGGATAAACCTTACAGTTTTCCTAGG-CTCCTCTGCTTTGTGC
1 CAGGTCCCTTTGCTGTGTGCGAAGG-TAAGCCTTACAGTTTACC-AGGTC-CCTTTGCTGTGTGC
*
2110116 ATGGGTTAAGCCTTAC
63 AAGGG-TAAGCCTTAC
2110132 TGGTGTATAG
Statistics
Matches: 231, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
83 6 0.03
84 194 0.84
85 21 0.09
86 10 0.04
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.32
Consensus pattern (84 bp):
CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
GGTAAGCCTTACAGTTTCC
Found at i:2110026 original size:126 final size:126
Alignment explanation
Indices: 2109801--2110131 Score: 490
Period size: 126 Copynumber: 2.6 Consensus size: 126
2109791 GAAGTATTAT
* *
2109801 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTTCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAATTTACCAGGTCCCTTTGCTGTGTGCAAG
*
2109866 GGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
66 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTAC
2109927 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAATTTACCAGGTCCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAATTTACCAGGTCCCTTTGCTGTGTGC-AA
*
2109992 -GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
65 GGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTAC
* * * * *
2110053 CAGGTCCCTTTGCTGTGTGC-AAGGATAAACCTTACAGTTTTCCTAGG-CTCCTCTGCTTTGTGC
1 CAGGTCCCTTTGCTGTGTGCGAAGG-TAAGCCTTACAATTTACC-AGGTC-CCTTTGCTGTGTGC
*
2110116 ATGGGTTAAGCCTTAC
63 AAGGG-TAAGCCTTAC
2110132 TGGTGTATAG
Statistics
Matches: 188, Mismatches: 10, Indels: 12
0.90 0.05 0.06
Matches are distributed among these distances:
125 6 0.03
126 153 0.81
127 19 0.10
128 10 0.05
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.32
Consensus pattern (126 bp):
CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAATTTACCAGGTCCCTTTGCTGTGTGCAAG
GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTAC
Found at i:2116027 original size:11 final size:11
Alignment explanation
Indices: 2116002--2116038 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
2115992 GGAATCTGAA
2116002 AACCGG-TTT-
1 AACCGGTTTTG
2116011 AACCGGTTTTG
1 AACCGGTTTTG
2116022 AACCGGTTTTG
1 AACCGGTTTTG
2116033 -ACCGGT
1 AACCGGT
2116039 CACGACCCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 6 0.23
10 9 0.35
11 11 0.42
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:2116132 original size:29 final size:30
Alignment explanation
Indices: 2116090--2116167 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
2116080 CCCGTTGACC
* * *
2116090 GGTGCTATTCTGGGAATTTATTCG-ATTTT
1 GGTGCTATTTTGGGAATTTATTCGAAATTG
* *
2116119 GGTGCTATTTTGGGAATTAATTTGAAATTG
1 GGTGCTATTTTGGGAATTTATTCGAAATTG
*
2116149 GGTGCTATTTTGGTAATTT
1 GGTGCTATTTTGGGAATTT
2116168 TTGAGAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 21 0.51
30 20 0.49
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTTATTCGAAATTG
Found at i:2116194 original size:39 final size:40
Alignment explanation
Indices: 2116126--2116205 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
2116116 TTTGGTGCTA
* * * *
2116126 TTTTGGGAATTAATTTGAAATTGGGTGCTATTTTGGTAAT
1 TTTTGAGAATTAATTCGAAATTGGATGCTATTTTGGGAAT
2116166 TTTTGAGAATTAATTCGAAATT-GATGCTATTTTGGGAAT
1 TTTTGAGAATTAATTCGAAATTGGATGCTATTTTGGGAAT
2116205 T
1 T
2116206 AATTCAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.44
40 20 0.56
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.46
Consensus pattern (40 bp):
TTTTGAGAATTAATTCGAAATTGGATGCTATTTTGGGAAT
Found at i:2116226 original size:26 final size:29
Alignment explanation
Indices: 2116166--2116226 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
2116156 TTTTGGTAAT
* *
2116166 TTTTGAGAATTAATTCGAAATTGATGCTA
1 TTTTGGGAATTAATTCGAAATAGATGCTA
2116195 TTTTGGGAATTAATTC-AAA-AG-TGCTA
1 TTTTGGGAATTAATTCGAAATAGATGCTA
2116221 TTTTGG
1 TTTTGG
2116227 CTATTTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 1 0.03
28 3 0.10
29 15 0.50
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.43
Consensus pattern (29 bp):
TTTTGGGAATTAATTCGAAATAGATGCTA
Found at i:2117245 original size:42 final size:41
Alignment explanation
Indices: 2117186--2117393 Score: 308
Period size: 42 Copynumber: 5.0 Consensus size: 41
2117176 GAAGTATTAT
*
2117186 CAGGTCCCTTTGCTGTGTGCGGAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
*
2117228 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTAC
**
2117270 CAGACCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
* *
2117312 CAGGTCCCTTTGCTGTATGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTAC
*
2117354 CAGGTCCCTTTGCTGTGTGCAAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAGTTT
2117394 TCCTAGGCTC
Statistics
Matches: 151, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
41 5 0.03
42 144 0.95
43 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTAC
Found at i:2117333 original size:84 final size:84
Alignment explanation
Indices: 2117191--2117393 Score: 345
Period size: 84 Copynumber: 2.4 Consensus size: 84
2117181 ATTATCAGGT
* *
2117191 CCCTTTGCTGTGTGCGGAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAA
1 CCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTATGCAAGGGTAA
2117256 GCCTTACAGTTTCCCAGAC
66 GCCTTACAGTTTCCCAGAC
2117275 CCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTATGCAAGGGTAA
1 CCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTATGCAAGGGTAA
**
2117340 GCCTTACAGTTTCCCAGGT
66 GCCTTACAGTTTCCCAGAC
*
2117359 CCCTTTGCTGTGTGC-AAGGATAAACCTTACAGTTT
1 CCCTTTGCTGTGTGCGAAGG-TAAGCCTTACAGTTT
2117394 TCCTAGGCTC
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
83 4 0.04
84 109 0.96
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (84 bp):
CCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTATGCAAGGGTAA
GCCTTACAGTTTCCCAGAC
Found at i:2118828 original size:40 final size:40
Alignment explanation
Indices: 2118751--2118844 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
2118741 CGTTTGTGTA
* *
2118751 AAAACGCCACTA-AAATCTCACACTATACTGGCATTTTATT
1 AAAACGCCGCTATAAATCTCACACTATACTGGCATTTTA-G
*
2118791 AAAACGCCGCTATAAA-CTCATCA-T-TACTGGCGCTTTTAG
1 AAAACGCCGCTATAAATCTCA-CACTATACTGGC-ATTTTAG
2118830 AGAAACGCCGCTATA
1 A-AAACGCCGCTATA
2118845 GACTTGTACA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
39 8 0.17
40 34 0.72
41 5 0.11
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.27
Consensus pattern (40 bp):
AAAACGCCGCTATAAATCTCACACTATACTGGCATTTTAG
Found at i:2119039 original size:166 final size:164
Alignment explanation
Indices: 2118752--2119090 Score: 491
Period size: 166 Copynumber: 2.1 Consensus size: 164
2118742 GTTTGTGTAA
* *
2118752 AAACGCCACTAAAATCTCACACTATACTGGCATTTTATTAAAACGCCGCTATAAACTCATCATTA
1 AAACGCCGCTAAAATCTCACACTATACTAGCATTTTATTAAAACGCCGCTATAAACTCATCATTA
* * * *
2118817 CTGGCGCTTTTAGAGAAACGCCGCTATAGACTTGTACAATAGTGGCGTTTGTTATAAAAATGCCG
66 CTGGCACTTTTAGAGAAACGCCGCTATAGACTTGTACAATAGCGGCATTTGTTATAAAAACGCCG
*
2118882 TAAAATCAAGTACATTAGTGGCATTTTTTCATGT
131 CAAAATCAAGTACATTAGTGGCATTTTTTCATGT
** ***
2118916 AAACGCCGCTAAAATCTCGTACTATACTATTGTTTTATTAAAAACGCCGCTATAAACTCATGCAT
1 AAACGCCGCTAAAATCTCACACTATACTAGCATTTTATT-AAAACGCCGCTATAAACTCAT-CAT
* * *
2118981 TACTGGCACTTTT-GGGAAAACGCTGCTATAGACTTGTACATTAGCGGCATTTGTTATAAAAACG
64 TACTGGCACTTTTAGAG-AAACGCCGCTATAGACTTGTACAATAGCGGCATTTGTTATAAAAACG
*
2119045 CCGCAAAATCACGTACATTAGTGGCATTTTTTCATGT
128 CCGCAAAATCAAGTACATTAGTGGCATTTTTTCATGT
*
2119082 AAATGCCGC
1 AAACGCCGC
2119091 GAAAGAATAA
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
164 32 0.21
165 23 0.15
166 100 0.65
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (164 bp):
AAACGCCGCTAAAATCTCACACTATACTAGCATTTTATTAAAACGCCGCTATAAACTCATCATTA
CTGGCACTTTTAGAGAAACGCCGCTATAGACTTGTACAATAGCGGCATTTGTTATAAAAACGCCG
CAAAATCAAGTACATTAGTGGCATTTTTTCATGT
Found at i:2119656 original size:19 final size:19
Alignment explanation
Indices: 2119632--2119698 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
2119622 AGGAGTCAGA
*
2119632 GAAGAAGCTGCCTAGTTTC
1 GAAGAAACTGCCTAGTTTC
2119651 GAAGAAACTGCCTAGTTTC
1 GAAGAAACTGCCTAGTTTC
2119670 GAAGAAACTGCCTAGTTTC
1 GAAGAAACTGCCTAGTTTC
2119689 GAAGAAACTG
1 GAAGAAACTG
2119699 AGAGAGAAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (19 bp):
GAAGAAACTGCCTAGTTTC
Found at i:2123884 original size:17 final size:16
Alignment explanation
Indices: 2123843--2123888 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
2123833 AAAATAAGGC
2123843 AAGTAATA-AAAAATA
1 AAGTAATATAAAAATA
*
2123858 AAG-AAGATAAAAATA
1 AAGTAATATAAAAATA
2123873 AAGTATATATAAAAAT
1 AAGTA-ATATAAAAAT
2123889 GAATAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 3 0.12
15 13 0.50
16 1 0.04
17 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (16 bp):
AAGTAATATAAAAATA
Found at i:2123905 original size:19 final size:17
Alignment explanation
Indices: 2123851--2123905 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 17
2123841 GCAAGTAATA
*
2123851 AAAAATAAAG-A-AGAT
1 AAAAATAAAGAATAAAT
* *
2123866 AAAAATAAAGTATATAT
1 AAAAATAAAGAATAAAT
2123883 AAAAATGAATAGAATAAAT
1 AAAAAT-AA-AGAATAAAT
2123902 AAAA
1 AAAA
2123906 TAAGTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 10 0.30
16 1 0.03
17 9 0.27
18 2 0.06
19 11 0.33
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AAAAATAAAGAATAAAT
Found at i:2124084 original size:24 final size:23
Alignment explanation
Indices: 2124037--2124081 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2124027 TAAAAATAGA
*
2124037 AAATAAAAATAAAATAGATAAAT
1 AAATAAAAATAAAAAAGATAAAT
2124060 AAATAAAATATAAAAAAG-TAAA
1 AAATAAAA-ATAAAAAAGATAAA
2124082 ATATATATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATAAAAATAAAAAAGATAAAT
Found at i:2124087 original size:17 final size:16
Alignment explanation
Indices: 2124041--2124088 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
2124031 AATAGAAAAT
*
2124041 AAAAATAAAATAGATA
1 AAAAATAAAATATATA
2124057 AATAAATAAAATATA-A
1 AA-AAATAAAATATATA
*
2124073 AAAAGTAAAATATATA
1 AAAAATAAAATATATA
2124089 TGCATATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.39
16 6 0.21
17 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (16 bp):
AAAAATAAAATATATA
Found at i:2124119 original size:24 final size:23
Alignment explanation
Indices: 2124067--2124120 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2124057 AATAAATAAA
*
2124067 ATATAAAAAAGTAAAATATATAT
1 ATATATAAAAGTAAAATATATAT
** *
2124090 GCATATAACAGTAAAATAATATAT
1 ATATATAAAAGTAAAAT-ATATAT
2124114 ATATATA
1 ATATATA
2124121 TATATATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (23 bp):
ATATATAAAAGTAAAATATATAT
Found at i:2124186 original size:12 final size:12
Alignment explanation
Indices: 2124169--2124194 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2124159 AAATATACAT
2124169 ATAGGAAATAAA
1 ATAGGAAATAAA
2124181 ATAGGAAATAAA
1 ATAGGAAATAAA
2124193 AT
1 AT
2124195 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.19
Consensus pattern (12 bp):
ATAGGAAATAAA
Found at i:2124241 original size:12 final size:13
Alignment explanation
Indices: 2124187--2124241 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
2124177 TAAAATAGGA
2124187 AATAAAATTATAT
1 AATAAAATTATAT
2124200 ATATAATAA-TACTAAT
1 A-ATAA-AATTA-T-AT
2124216 AATAAAA-TATAT
1 AATAAAATTATAT
2124228 AATAAAATTA-AT
1 AATAAAATTATAT
2124240 AA
1 AA
2124242 AACACTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 13 0.35
13 4 0.11
14 10 0.27
15 7 0.19
16 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAAATTATAT
Found at i:2124251 original size:26 final size:25
Alignment explanation
Indices: 2124196--2124254 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
2124186 AAATAAAATT
*
2124196 ATATATATAATAATACTAATAATAA
1 ATATATATAATAAAACTAATAATAA
*
2124221 A-ATATATAATAAAATTAATAA-AA
1 ATATATATAATAAAACTAATAATAA
2124244 CACTATATATA
1 -A-TATATATA
2124255 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 19 0.66
25 1 0.03
26 7 0.24
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATATATAATAAAACTAATAATAA
Found at i:2126156 original size:109 final size:108
Alignment explanation
Indices: 2125963--2126217 Score: 370
Period size: 109 Copynumber: 2.4 Consensus size: 108
2125953 TGTTTCGAGA
* * *
2125963 CCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTG-AAAATTGGGAAATTGTTTGTTGACAACC
1 CCAACATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAAACTGAGAAATTGTTTGTTGACAACC
2126027 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTG-CCTGAGT
66 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCCTGAGT
* * *
2126069 CTAACATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGAGAAGTTGTTTGTTGACAA
1 CCAACATCCTTCGATGTGAAGTTGAAATTGGCTCTGAA--AAACTGAGAAATTGTTTGTTGACAA
* * * *
2126134 CCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGT
64 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCCTGAGT
* *
2126179 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA
1 CCAACATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAA
2126218 TTGGGAAGCC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
106 33 0.25
107 1 0.01
108 1 0.01
109 56 0.43
110 40 0.31
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (108 bp):
CCAACATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAAACTGAGAAATTGTTTGTTGACAACC
AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCCTGAGT
Found at i:2137754 original size:16 final size:15
Alignment explanation
Indices: 2137732--2137785 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
2137722 TAAGGCAAGT
2137732 AATAAAAAATAAATA
1 AATAAAAAATAAATA
2137747 AGAT-AAAAATAAAGTA
1 A-ATAAAAAATAAA-TA
*
2137763 AATATAAAAATGAATA
1 AATA-AAAAATAAATA
2137779 GAATAAA
1 -AATAAA
2137786 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 12 0.36
16 9 0.27
17 12 0.36
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAAAAAATAAATA
Found at i:2137933 original size:12 final size:12
Alignment explanation
Indices: 2137908--2137971 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 12
2137898 GATAAAAGAC
*
2137908 AAAAATATAGAAT
1 AAAAATA-AAAAT
2137921 AAAAATAAAAAT
1 AAAAATAAAAAT
2137933 AAAAAT-AAAAT
1 AAAAATAAAAAT
2137944 AGATAAATAAATAAAT
1 A-A-AAAT-AA-AAAT
2137960 AAAATATAAAAA
1 AAAA-ATAAAAA
2137972 AGTGAAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
11 6 0.14
12 11 0.25
13 14 0.32
14 4 0.09
15 4 0.09
16 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:2137968 original size:28 final size:24
Alignment explanation
Indices: 2137909--2137970 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 24
2137899 ATAAAAGACA
*
2137909 AAAATATAGAATAAAAATAAAAAT
1 AAAATATAAAATAAAAATAAAAAT
2137933 AAAA-ATAAAATAGATAAATAAATAAAT
1 AAAATATAAAATA-A-AAAT-AA-AAAT
2137960 AAAATATAAAA
1 AAAATATAAAA
2137971 AAGTGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.22
24 5 0.16
25 4 0.12
26 2 0.06
27 8 0.25
28 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAATATAAAATAAAAATAAAAAT
Found at i:2138180 original size:16 final size:15
Alignment explanation
Indices: 2138152--2138206 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
2138142 ATTTATATAT
*
2138152 AAAAAATAA-TAATA
1 AAAAAACAAGTAATA
*
2138166 AGAAAAACATGTAATTA
1 A-AAAAACAAGTAA-TA
*
2138183 AAAAAACAAGTAATT
1 AAAAAACAAGTAATA
2138198 AAAAAACAA
1 AAAAAACAA
2138207 TCAAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.03
15 16 0.47
16 14 0.41
17 3 0.09
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAAACAAGTAATA
Found at i:2138206 original size:15 final size:16
Alignment explanation
Indices: 2138168--2138203 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2138158 TAATAATAAG
*
2138168 AAAAACATGTAATTAA
1 AAAAACAAGTAATTAA
2138184 AAAAACAAGTAATTAA
1 AAAAACAAGTAATTAA
2138200 AAAA
1 AAAA
2138204 CAATCAAAAT
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:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAACAAGTAATTAA
Found at i:2139316 original size:22 final size:22
Alignment explanation
Indices: 2139290--2139342 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
2139280 TTAATAAAAT
2139290 AATATTATTTATACAATATATA
1 AATATTATTTATACAATATATA
* * * *
2139312 TATATGATATATATAATATATA
1 AATATTATTTATACAATATATA
2139334 AATA-TATTT
1 AATATTATTT
2139343 GTTTATTCGG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
AATATTATTTATACAATATATA
Found at i:2140808 original size:7 final size:7
Alignment explanation
Indices: 2140796--2140848 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
2140786 AATTGTCAAA
2140796 GTCAATG
1 GTCAATG
2140803 GTCAATG
1 GTCAATG
** **
2140810 ACCAACA
1 GTCAATG
2140817 GTCAATG
1 GTCAATG
*
2140824 GTCAA-A
1 GTCAATG
2140830 GTCAATG
1 GTCAATG
2140837 GTCAATG
1 GTCAATG
2140844 GTCAA
1 GTCAA
2140849 CCAGTTCGAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (7 bp):
GTCAATG
Found at i:2140834 original size:13 final size:13
Alignment explanation
Indices: 2140816--2140841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2140806 AATGACCAAC
2140816 AGTCAATGGTCAA
1 AGTCAATGGTCAA
2140829 AGTCAATGGTCAA
1 AGTCAATGGTCAA
2140842 TGGTCAACCA
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:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
AGTCAATGGTCAA
Found at i:2142528 original size:287 final size:285
Alignment explanation
Indices: 2142000--2142574 Score: 740
Period size: 287 Copynumber: 2.0 Consensus size: 285
2141990 GCAAAAATTT
* * * *
2142000 AAATAAAAATAATTATGGGTTAATTTTGATATAAATATAATTTTAAGGACTAATTGAACAAACAT
1 AAATAAAAATAATCATAGGTTAATTTAGATAAAAATATAATTTTAAGGACTAATTGAACAAACAT
* * * *
2142065 GAAATTACAAACTGAAATTTAAATAAATCAAACAACACGCAAGGATCAAATTGAAACAATTATAA
66 GAAATTAAAAACTGAAATTTAAATAAATCAAACAACACACAAGGACCAAATCGAAACAATTATAA
* * * *
2142130 AATGTAAAGATGAAATTAATATCAAAATGACTAAATTGCATTAATTTTAAAAGTTGGTGAATAAA
131 AATGTAAAGATAAAATTAATATCAAAATGACTAAATTACATTAATTTGAAAAGTTGGTGAACAAA
* *
2142195 AGTTTATAGGGTTCAAAGATTATGATATAATTTATAGGGTTTGAAATGAAA-TTTATGATGTTAT
196 AGTTTATAGAGTTCAAAGATTATGATATAATTTATAGGGTTTGAAAT-AAAGTTTATGATGTGAT
* *
2142259 TTTTAGGGCTTGGAATAAAATACAAA
260 TTATAGGACTTGGAATAAAATACAAA
* * * *
2142285 AAATAAAAATAATCCTAGGTTAATTTCAGATAAAAATATACTTTTAAGGATTAAATTGAA-AACC
1 AAATAAAAATAATCATAGGTTAATTT-AGATAAAAATATAATTTTAAGGACT-AATTGAACAAAC
* * * * * * * *
2142349 ATGAAATTAAAAAGTGAACTTTAAATAAATTAAAGAACATACAGGGACCAAATCGAAATAATTGT
64 ATGAAATTAAAAACTGAAATTTAAATAAATCAAACAACACACAAGGACCAAATCGAAACAATTAT
* * * * *
2142414 AAAATGTAAAGCTAAAATTAATATTAAAATAGACTAAATTACATTCATTTGAAAATTTGGTTAAC
129 AAAATGTAAAGATAAAATTAATATCAAAAT-GACTAAATTACATTAATTTGAAAAGTTGGTGAAC
*** *
2142479 AAAAGTTTATAGAGTTTGGAGATTATGATATAATTTATAGGGTTTGAAATAAAGTTTATGTTGTG
193 AAAAGTTTATAGAGTTCAAAGATTATGATATAATTTATAGGGTTTGAAATAAAGTTTATGATGTG
* * *
2142544 ATTTATAGGATTTGGAGTAAATTACAAA
258 ATTTATAGGACTTGGAATAAAATACAAA
2142572 AAA
1 AAA
2142575 CACACACACA
Statistics
Matches: 246, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
285 23 0.09
286 107 0.43
287 116 0.47
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (285 bp):
AAATAAAAATAATCATAGGTTAATTTAGATAAAAATATAATTTTAAGGACTAATTGAACAAACAT
GAAATTAAAAACTGAAATTTAAATAAATCAAACAACACACAAGGACCAAATCGAAACAATTATAA
AATGTAAAGATAAAATTAATATCAAAATGACTAAATTACATTAATTTGAAAAGTTGGTGAACAAA
AGTTTATAGAGTTCAAAGATTATGATATAATTTATAGGGTTTGAAATAAAGTTTATGATGTGATT
TATAGGACTTGGAATAAAATACAAA
Found at i:2142600 original size:14 final size:14
Alignment explanation
Indices: 2142581--2142611 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2142571 AAAACACACA
2142581 CACACGCACGCACG
1 CACACGCACGCACG
2142595 CACACGCACGCACG
1 CACACGCACGCACG
2142609 CAC
1 CAC
2142612 GCATATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.52, G:0.19, T:0.00
Consensus pattern (14 bp):
CACACGCACGCACG
Found at i:2142604 original size:4 final size:4
Alignment explanation
Indices: 2142583--2142614 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2142573 AACACACACA
2142583 CACG CACG CACG CA-- CACG CACG CACG CACG CA
1 CACG CACG CACG CACG CACG CACG CACG CACG CA
2142615 TATGTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.08
4 24 0.92
ACGTcount: A:0.28, C:0.50, G:0.22, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:2142604 original size:18 final size:18
Alignment explanation
Indices: 2142577--2142614 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2142567 ACAAAAAACA
2142577 CACACACACGCACGCACG
1 CACACACACGCACGCACG
*
2142595 CACACGCACGCACGCACG
1 CACACACACGCACGCACG
2142613 CA
1 CA
2142615 TATGTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (18 bp):
CACACACACGCACGCACG
Found at i:2142759 original size:22 final size:21
Alignment explanation
Indices: 2142710--2142760 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2142700 GTTATTTATC
*
2142710 TTCAAAATTATTGTTAAAATA
1 TTCAAAATTATAGTTAAAATA
* *
2142731 TTAAAAATTATAGTTAGTAATA
1 TTCAAAATTATAGTTA-AAATA
2142753 TTCAAAAT
1 TTCAAAAT
2142761 AATATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (21 bp):
TTCAAAATTATAGTTAAAATA
Found at i:2149816 original size:22 final size:22
Alignment explanation
Indices: 2149787--2149847 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
2149777 GATACTATAT
*
2149787 GAACAATATCGATACTACGCAA
1 GAACAATATCGATACTAAGCAA
*
2149809 TAACAATATCGATACTAAGCAA
1 GAACAATATCGATACTAAGCAA
*
2149831 GAACAATATTGATACTA
1 GAACAATATCGATACTA
2149848 TATGAACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (22 bp):
GAACAATATCGATACTAAGCAA
Found at i:2153570 original size:46 final size:46
Alignment explanation
Indices: 2153514--2153621 Score: 173
Period size: 46 Copynumber: 2.3 Consensus size: 46
2153504 GCGTAGAATT
2153514 TGTCCCGTAGGACCACTATATAC-CATAGGACCACATAGAACACATA
1 TGTCCCGTAGGACCACTATAT-CTCATAGGACCACATAGAACACATA
* *
2153560 TGTCCCGTAGGACCACTATGTCTCGTAGGACCACATAGAACACATA
1 TGTCCCGTAGGACCACTATATCTCATAGGACCACATAGAACACATA
*
2153606 TGTCCCGTAGAACCAC
1 TGTCCCGTAGGACCAC
2153622 GTAGAACACA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 1 0.02
46 57 0.98
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (46 bp):
TGTCCCGTAGGACCACTATATCTCATAGGACCACATAGAACACATA
Found at i:2153581 original size:18 final size:18
Alignment explanation
Indices: 2153558--2153593 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2153548 ATAGAACACA
2153558 TATGTCCCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
*
2153576 TATGTCTCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
2153594 ATAGAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (18 bp):
TATGTCCCGTAGGACCAC
Found at i:2153620 original size:28 final size:28
Alignment explanation
Indices: 2153576--2153642 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
2153566 GTAGGACCAC
* *
2153576 TATGTCTCGTAGGACCACATAGAACACA
1 TATGTCCCGTAGAACCACATAGAACACA
*
2153604 TATGTCCCGTAGAACCACGTAGAACACA
1 TATGTCCCGTAGAACCACATAGAACACA
*
2153632 TATATCCCGTA
1 TATGTCCCGTA
2153643 TGACCACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (28 bp):
TATGTCCCGTAGAACCACATAGAACACA
Found at i:2153648 original size:28 final size:27
Alignment explanation
Indices: 2153583--2153649 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
2153573 CACTATGTCT
*
2153583 CGTAGGACCACATAGAACACATATGTCC
1 CGTA-GACCACATAGAACACATATATCC
*
2153611 CGTAGAACCACGTAGAACACATATATCC
1 CGTAG-ACCACATAGAACACATATATCC
2153639 CGTATGACCAC
1 CGTA-GACCAC
2153650 TATGTCTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 33 0.94
29 1 0.03
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (27 bp):
CGTAGACCACATAGAACACATATATCC
Found at i:2154207 original size:25 final size:25
Alignment explanation
Indices: 2154179--2154228 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2154169 TTTAGCACCA
*
2154179 TATCACTACATGTTTATGCTTCAGT
1 TATCACTACATGTTTACGCTTCAGT
*
2154204 TATCACTATATGTTTACGCTTCAGT
1 TATCACTACATGTTTACGCTTCAGT
2154229 ACCCTTGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (25 bp):
TATCACTACATGTTTACGCTTCAGT
Found at i:2157396 original size:14 final size:14
Alignment explanation
Indices: 2157355--2157390 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2157345 TGAGTCATTA
*
2157355 ATATTCATTCACAT
1 ATATTCATTAACAT
*
2157369 ATATACATTAACAT
1 ATATTCATTAACAT
2157383 ATATTCAT
1 ATATTCAT
2157391 GTACATCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTCATTAACAT
Found at i:2157690 original size:46 final size:46
Alignment explanation
Indices: 2157633--2157765 Score: 230
Period size: 46 Copynumber: 2.9 Consensus size: 46
2157623 GCGTAGAATT
* * *
2157633 TGTCCCATAGGACCACTATGTACCATAGGACCATGTAGAACACATA
1 TGTCCCGTAGGACCACTATGTCCCATAGGACCACGTAGAACACATA
*
2157679 TGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACATA
1 TGTCCCGTAGGACCACTATGTCCCATAGGACCACGTAGAACACATA
2157725 TGTCCCGTAGGACCACTATGTCCCATAGGACCACGTAGAAC
1 TGTCCCGTAGGACCACTATGTCCCATAGGACCACGTAGAAC
2157766 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
TGTCCCGTAGGACCACTATGTCCCATAGGACCACGTAGAACACATA
Found at i:2157698 original size:18 final size:18
Alignment explanation
Indices: 2157677--2157758 Score: 74
Period size: 18 Copynumber: 5.0 Consensus size: 18
2157667 GTAGAACACA
2157677 TATGTCCCGTAGGACCAC
1 TATGTCCCGTAGGACCAC
2157695 TATGTCCCGTAGGA-C-C
1 TATGTCCCGTAGGACCAC
*
2157711 -A-----CGTA-GAACAC
1 TATGTCCCGTAGGACCAC
2157722 ATATGTCCCGTAGGACCAC
1 -TATGTCCCGTAGGACCAC
*
2157741 TATGTCCCATAGGACCAC
1 TATGTCCCGTAGGACCAC
2157759 GTAGAACCCT
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
11 1 0.02
13 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 35 0.67
19 5 0.10
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TATGTCCCGTAGGACCAC
Found at i:2158289 original size:25 final size:25
Alignment explanation
Indices: 2158261--2158310 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2158251 TTTAGCACCA
* *
2158261 TATCACTACATGTTTATGCTTCAGT
1 TATCACTACATATTTACGCTTCAGT
*
2158286 TATCACTATATATTTACGCTTCAGT
1 TATCACTACATATTTACGCTTCAGT
2158311 ACCCTTGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (25 bp):
TATCACTACATATTTACGCTTCAGT
Found at i:2159611 original size:20 final size:19
Alignment explanation
Indices: 2159586--2159623 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2159576 AAATATGGGC
*
2159586 ACAATATCGATACTGATAGA
1 ACAATACCGATACT-ATAGA
2159606 ACAATACCGATACTATAG
1 ACAATACCGATACTATAG
2159624 GATAAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATACCGATACTATAGA
Found at i:2160221 original size:55 final size:55
Alignment explanation
Indices: 2160137--2160574 Score: 680
Period size: 55 Copynumber: 8.0 Consensus size: 55
2160127 TAGTGCACAA
* *
2160137 AAACTTAACAAATTCATACTAAGTGGATGAATTTCAGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* **
2160192 AAACTTAATAAATTCATACTAAGTGGATGAATTTCCGTATGGATACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
2160247 AAAATTAAGAAATTCATAATAAGTTGATGAATTTCCGTATGGCCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* **
2160302 AAACTTAGGAAATTCATACTAAGTGGATGAATTTTTGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
*
2160357 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
2160412 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATATGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
*
2160467 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACAATAT-TGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * **
2160521 AAAGTTAAGAAAATCATACTAAGTGGATGAATTTCTATATGGGCACTATATGTG
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTG
2160575 CAAAACTAGG
Statistics
Matches: 353, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
54 49 0.14
55 304 0.86
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:2162733 original size:52 final size:52
Alignment explanation
Indices: 2162677--2162791 Score: 203
Period size: 52 Copynumber: 2.2 Consensus size: 52
2162667 AATTATGGGC
2162677 ACCTCTAGTTGAGTGTTTTATCTCTTATTTTTTACTAGAGTCAGTTTCAGGA
1 ACCTCTAGTTGAGTGTTTTATCTCTTATTTTTTACTAGAGTCAGTTTCAGGA
* * *
2162729 ACCTCTAGTCGAGTGTTTTATCTCTTATTTTTTACTAGAGTTAGTTTCAGGC
1 ACCTCTAGTTGAGTGTTTTATCTCTTATTTTTTACTAGAGTCAGTTTCAGGA
2162781 ACCTCTAGTTG
1 ACCTCTAGTTG
2162792 TGAAAATGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (52 bp):
ACCTCTAGTTGAGTGTTTTATCTCTTATTTTTTACTAGAGTCAGTTTCAGGA
Found at i:2173459 original size:64 final size:65
Alignment explanation
Indices: 2173345--2173473 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 65
2173335 ATTATGGTCT
2173345 TTACAAAGGAAGGATTTTTATCTTCCCTTTTATGGGATATAAAACACGTGGAATAGAAGGGAAAA
1 TTACAAAGGAAGGATTTTTATCTTCCCTTTTATGGGATATAAAACACGTGGAATAGAAGGGAAAA
2173410 TTACAAAGGAAGGATTTTTATCTT-CCTTTTATGGGATATAAAACACGTGGAATAGAAGGGAAAA
1 TTACAAAGGAAGGATTTTTATCTTCCCTTTTATGGGATATAAAACACGTGGAATAGAAGGGAAAA
2173474 GTGTGGAAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 40 0.62
65 24 0.38
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (65 bp):
TTACAAAGGAAGGATTTTTATCTTCCCTTTTATGGGATATAAAACACGTGGAATAGAAGGGAAAA
Found at i:2174765 original size:23 final size:23
Alignment explanation
Indices: 2174735--2174778 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2174725 GTTAAGGGTT
2174735 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
*
2174758 CTATGTGGTCCTTTGGGACAA
1 CTATGTGGTCCTTCGGGACAA
2174779 TTATGTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:2174785 original size:21 final size:22
Alignment explanation
Indices: 2174735--2174793 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
2174725 GTTAAGGGTT
2174735 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGAC-AAA
*
2174758 CTATGTGGTCCTTTGGGAC-AA
1 CTATGTGGTCCTTCGGGACAAA
* *
2174779 TTATGTGGTACTTCG
1 CTATGTGGTCCTTCG
2174794 ATATAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.44
23 18 0.56
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAA
Found at i:2176743 original size:53 final size:52
Alignment explanation
Indices: 2176675--2176893 Score: 246
Period size: 53 Copynumber: 4.1 Consensus size: 52
2176665 TTTGAGATAC
* * * *
2176675 ACACGTAGTGCCTATACGGTCGTTCATCAACATAGGATGAATTTCGTGGGTTGT
1 ACACTTAGT-CCTATACGGTCGTTCATAAACATATGATGAATTTCATGGGTT-T
* *
2176729 ACACTT-GTACCTATACGGTCATTCATAAACATATTATGAATTTCATGGG-TT
1 ACACTTAGT-CCTATACGGTCGTTCATAAACATATGATGAATTTCATGGGTTT
* * *
2176780 ACACATTAGTGTCTATACGGTCGTTCATAAACATATTATGAGTTTCATGGGTTT
1 ACAC-TTAGT-CCTATACGGTCGTTCATAAACATATGATGAATTTCATGGGTTT
* * *
2176834 CACACTTAGTGCTATACGGT-GTTCATCAACATATGATGAATTTCGTGGGTTAT
1 -ACACTTAGTCCTATACGGTCGTTCATAAACATATGATGAATTTCATGGGTT-T
2176887 ACACTTA
1 ACACTTA
2176894 TCATAATGAA
Statistics
Matches: 144, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
51 5 0.03
52 37 0.26
53 86 0.60
54 12 0.08
55 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
ACACTTAGTCCTATACGGTCGTTCATAAACATATGATGAATTTCATGGGTTT
Found at i:2178238 original size:18 final size:18
Alignment explanation
Indices: 2178175--2178243 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
2178165 TGTCAAAATG
2178175 GTATCGATACTGAAAGGAA
1 GTATCGATACTGAAA-GAA
* *
2178194 GTATCGATACCATAGTATAGTA
1 GTATCGATA-C-T-G-AAAGAA
*
2178216 GTATCGATACTGAGAGAA
1 GTATCGATACTGAAAGAA
2178234 GTATCGATAC
1 GTATCGATAC
2178244 CATGCCACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
18 14 0.33
19 10 0.24
20 2 0.05
21 2 0.05
22 12 0.29
23 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATCGATACTGAAAGAA
Found at i:2178301 original size:93 final size:92
Alignment explanation
Indices: 2178139--2178318 Score: 220
Period size: 93 Copynumber: 1.9 Consensus size: 92
2178129 CTAACAAAGG
* *
2178139 GAAGTATCGATACCATGGATCCATAATGTCAAAATGGTATCGATACTGAAAGGAAGTATCGATAC
1 GAAGTATCGATACCATGCATCCATAATATCAAAATGGTATCGATACTGAAAGGAAGTATCGATAC
* **
2178204 CATAGTATAGTAGTATCGATACTGAGA
66 CATAGCATAAAAGTATCGATACTGAGA
** * **
2178231 GAAGTATCGATACCATGCCA-CACATAATATGGAAATGGTATCGATATTGAAAGGGGGTATC-AG
1 GAAGTATCGATACCATG-CATC-CATAATATCAAAATGGTATCGATACTGAAAGGAAGTATCGA-
*
2178294 TATCATAGCATAAAAGTATCGATAC
63 TACCATAGCATAAAAGTATCGATAC
2178319 GAGGGTAGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
92 19 0.26
93 55 0.74
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (92 bp):
GAAGTATCGATACCATGCATCCATAATATCAAAATGGTATCGATACTGAAAGGAAGTATCGATAC
CATAGCATAAAAGTATCGATACTGAGA
Found at i:2178699 original size:34 final size:34
Alignment explanation
Indices: 2178653--2178730 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
2178643 TATATGAACG
* *
2178653 AATGCATTAAGGCATGAAAAGATGCCACAACTAA
1 AATGCATGAAGGCATGAAAAGATGCAACAACTAA
* * *
2178687 AATGCATGAAGGCATGAAAGGATGTAATAACTAA
1 AATGCATGAAGGCATGAAAAGATGCAACAACTAA
2178721 AATGCATGAA
1 AATGCATGAA
2178731 CATATGCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (34 bp):
AATGCATGAAGGCATGAAAAGATGCAACAACTAA
Found at i:2178781 original size:26 final size:25
Alignment explanation
Indices: 2178752--2179057 Score: 105
Period size: 26 Copynumber: 13.2 Consensus size: 25
2178742 AGACATGAAT
*
2178752 GATGCCATAACTAAAATGCATGAACG
1 GATG-CATAACTAAAATGCATGAAAG
* *
2178778 GATGCAT---T--AAGGCTTGAAAG
1 GATGCATAACTAAAATGCATGAAAG
*
2178798 GATGTCATAACTAAAATGCATGAATG
1 GATG-CATAACTAAAATGCATGAAAG
** * * *
2178824 GATG--T-A-T-TGAGGAATGAAAT
1 GATGCATAACTAAAATGCATGAAAG
* * *
2178844 GATGCCATATCTAAAATGAATGAATG
1 GATG-CATAACTAAAATGCATGAAAG
*
2178870 GATGCAT---T--AAGGCATGAAAG
1 GATGCATAACTAAAATGCATGAAAG
* **
2178890 GATGCCATAAATAAAATGCATGAATT
1 GATG-CATAACTAAAATGCATGAAAG
* *
2178916 AATGCAT---T--AAGGCATGAAAG
1 GATGCATAACTAAAATGCATGAAAG
*
2178936 GATGCCATAACTAAAATGCATGAATG
1 GATG-CATAACTAAAATGCATGAAAG
*
2178962 GATGCAT---T--AAGGCATGAAAG
1 GATGCATAACTAAAATGCATGAAAG
*
2178982 GATGCCATAACTAAAATGCATGAACG
1 GATG-CATAACTAAAATGCATGAAAG
* * *
2179008 AATGCAT---T--AAGGCGTGAAAG
1 GATGCATAACTAAAATGCATGAAAG
* *
2179028 GATGTCATAACTAAAATGTATGAACG
1 GATG-CATAACTAAAATGCATGAAAG
2179054 GATG
1 GATG
2179058 TATTAAGGCA
Statistics
Matches: 200, Mismatches: 44, Indels: 72
0.63 0.14 0.23
Matches are distributed among these distances:
20 75 0.38
21 16 0.08
22 6 0.03
23 2 0.01
24 5 0.03
25 16 0.08
26 80 0.40
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (25 bp):
GATGCATAACTAAAATGCATGAAAG
Found at i:2178892 original size:20 final size:20
Alignment explanation
Indices: 2178863--2178986 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 20
2178853 TCTAAAATGA
*
2178863 ATGAATGGATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
*
2178883 ATGAAAGGATGCCATAAATAAAATGC
1 ATGAAAGGATG-CAT---T--AAGGC
***
2178909 ATGAATTAATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
*
2178929 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATG-CAT---T--AAGGC
*
2178955 ATGAATGGATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
2178975 ATGAAAGGATGC
1 ATGAAAGGATGC
2178987 CATAACTAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
20 37 0.47
21 6 0.08
22 2 0.03
24 2 0.03
25 6 0.08
26 26 0.33
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (20 bp):
ATGAAAGGATGCATTAAGGC
Found at i:2179098 original size:46 final size:46
Alignment explanation
Indices: 2178688--2179090 Score: 529
Period size: 46 Copynumber: 8.8 Consensus size: 46
2178678 CACAACTAAA
* ** **
2178688 ATGCATGAAGGCATGAAAGGATGTAATAACTAAAATGCATGAACAT
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
* *
2178734 ATGCATTAAGACATG-AATGATGCCATAACTAAAATGCATGAACGG
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
* * *
2178779 ATGCATTAAGGCTTGAAAGGATGTCATAACTAAAATGCATGAATGG
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
* * * * * * *
2178825 ATGTATTGAGGAATGAAATGATGCCATATCTAAAATGAATGAATGG
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
* ***
2178871 ATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAATTA
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
*
2178917 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGG
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
*
2178963 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGA
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
* * *
2179009 ATGCATTAAGGCGTGAAAGGATGTCATAACTAAAATGTATGAACGG
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
* * * *
2179055 ATGTATTAAGGCATGAAAAGAGGCCATAACTGAAAT
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
2179091 TAATGAACAA
Statistics
Matches: 312, Mismatches: 44, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 38 0.12
46 274 0.88
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG
Found at i:2184736 original size:22 final size:21
Alignment explanation
Indices: 2184697--2184737 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2184687 TGGTATCGAT
* *
2184697 ACTAATGGGGTATTGATACTA
1 ACTAATGGAGTATCGATACTA
2184718 ACTAATGGAAGTATCGATAC
1 ACTAATGG-AGTATCGATAC
2184738 CATGGATCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTAATGGAGTATCGATACTA
Found at i:2185780 original size:46 final size:46
Alignment explanation
Indices: 2185235--2185766 Score: 778
Period size: 46 Copynumber: 11.6 Consensus size: 46
2185225 ACTATGTTAT
* *** * *
2185235 CATTAAGGCATGAAATGATATAATAACTAAAATTCATGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2185281 CATTAAGCCCTGAAAGGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
2185327 CATTAAGGCATGAAATGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2185373 CATTAAGGCATGAAAGGATGTCGA-AACTAAAATACATGAACCGATG
1 CATTAAGGCATGAAAGGATG-CCATAACTAAAATGCATGAACGGATG
* *
2185419 CATTAAGGCATGAAAGGATGTCACAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2185465 CATTAAGGCAAGAAAGGATGTCACAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
2185511 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
2185557 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2185603 CATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2185649 CATTAAGGCATGAAAGGATGCCACAACTAAAATGTATTAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2185695 TATTAAGGCATGAAAGGATGTCATAACTAAAATGTATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2185741 TAATAAGGCATGAAAAGAGGCCATAA
1 CATTAAGGCATGAAAGGATGCCATAA
2185767 TTGAAATTAA
Statistics
Matches: 448, Mismatches: 36, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 445 0.99
47 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
Found at i:2187720 original size:81 final size:81
Alignment explanation
Indices: 2187613--2188887 Score: 1693
Period size: 81 Copynumber: 15.8 Consensus size: 81
2187603 TATTCCAAAT
** * * *
2187613 TAAAAGATTAATAGCCTAACTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
2187678 GTTAAATACCTTCGAG
66 GTTAAATACCTTTGAG
* * * * * *
2187694 TAAAAGATTAATGGCCTAGTTGTGCATTTGATAGAAATGTGTTAATCATGTCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
2187759 GTTAAATACC-TTGTG
66 GTTAAATACCTTTGAG
* * ** * * * *
2187774 TAAAAGATTAATAGCCTAGTTGTCCATTTGGCAGAAATATGGCAAATATTCTAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2187839 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* ** * ** * *
2187855 TAAACGATTAATAGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTACACAAGTTAGATTAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2187920 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
2187936 TAAAAGATTAATGGCCTAGTTGTGCATTTGACATAAAGGTGTCAATCATGACAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188001 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
2188017 TAGAAGATTAATAGCCTAGTTGTGCATTGGGA-AGAAA--TATCAATTATACCAGTTAGACGAAA
1 TAAAAGATTAATAGCCTAGTTGTGCATT-TGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
2188079 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* ** * * *
2188096 TAAAAGATTAATAGTCTAACTGTGCATATGACAGAAAGCT-TCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188160 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
2188176 TAAAAGATTAATGGCCTAGTTGTTCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAT
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188241 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
2188257 TAAAAGATTAAAAGCCTAGATGTGCATTTGGA-AG-AATGTGTCAATTATGCCAGCTAGATGAAA
1 TAAAAGATTAATAGCCTAGTTGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
2188320 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
** * * * *
2188337 TAAAAGATTAATAGCCTAGTTGTGCATTTGGTAGAAAGGTGTTAATTAAGCTAGTCAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
2188402 GTTAAGTACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
2188418 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188483 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * ** **
2188499 TAAAAGATTAATGGCCTAGCTCTGCATTTGATAGAAAGGTGTCAATCGTGGAAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
2188564 GTTAAATACCTTTGAT
66 GTTAAATACCTTTGAG
* * * * *
2188580 TAAAAGATTAATAGCCTAGCTGTGCATTTGGCATAAAGGTATCAATTATGCCAGTTAGATGAATG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
2188645 GTTAATTACCTTTGAG
66 GTTAAATACCTTTGAG
*
2188661 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188726 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
2188742 -AAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTAAGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188806 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * *
2188822 TAAAAGATTAATGGCATAGTTGTGTATTGGACAGGAAGGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
2188887 G
66 G
2188888 CTATATGCTT
Statistics
Matches: 1039, Mismatches: 145, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.00
79 66 0.06
80 287 0.28
81 680 0.65
82 4 0.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:2187881 original size:161 final size:162
Alignment explanation
Indices: 2187613--2188887 Score: 1731
Period size: 161 Copynumber: 7.9 Consensus size: 162
2187603 TATTCCAAAT
* * *
2187613 TAAAAGATTAATAGCCTAACTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
2187678 GTTAAATACCTTCGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGATAGAAATGTGTTAATCAT
66 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCAT
* *
2187743 GTCAGTTAGATGAAAGGTTAAATACC-TTGTG
131 GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * * * * * * *
2187774 TAAAAGATTAATAGCCTAGTTGTCCATTTGGCAGAAATATGGCAAATATTCTAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* ** * *
2187839 GTTAAATACCTTTGAGTAAACGATTAATAGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTAC
66 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCAT
* * *
2187904 ACAAGTTAGATTAAAGGTTAAATACCTTTGAG
131 GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * * * * *
2187936 TAAAAGATTAATGGCCTAGTTGTGCATTTGACATAAAGGTGTCAATCATGACAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
2188001 GTTAAATACCTTTGAGTAGAAGATTAATAGCCTAGTTGTGCATTGGGA-AGAAA--TATCAATTA
66 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATT-TGATAGAAAGGTGTCAATCA
* *
2188063 TACCAGTTAGACGAAAGGTTAAATACCTTTGAG
130 TGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * * *
2188096 TAAAAGATTAATAGTCTAACTGTGCATATGACAGAAA-GCT-TCAATTATACCAGTTAGATGAAA
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAA
* * *
2188159 GGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTTCATTTGACAGAAAGGTGTCAATCA
65 GGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCA
*
2188224 TGCCAGTTAGATGAAATGTTAAATACCTTTGAG
130 TGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * *
2188257 TAAAAGATTAAAAGCCTAGATGTGCATTTGGA-AG-AATGTGTCAATTATGCCAGCTAGATGAAA
1 TAAAAGATTAATAGCCTAGCTGTGCATTT-GACAGAAATGTGTCAATTATGCCAGTTAGATGAAA
* * *
2188320 GGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGGTAGAAAGGTGTTAATTA
65 GGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCA
* * * *
2188385 AGCTAGTCAGATGAAAGGTTAAGTACCTTTGAG
130 TGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
*
2188418 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
2188483 GTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTCTGCATTTGATAGAAAGGTGTCAATCGT
66 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCAT
** *
2188548 GGAAGTTAGATGAAAGGTTAAATACCTTTGAT
131 GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * * * *
2188580 TAAAAGATTAATAGCCTAGCTGTGCATTTGGCATAAAGGTATCAATTATGCCAGTTAGATGAATG
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
2188645 GTTAATTACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTAC
66 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCAT
2188710 GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
131 GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* *
2188742 -AAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTAAGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * * * * *
2188806 GTTAAATACCTTTGAGTAAAAGATTAATGGCATAGTTGTGTATTGGACAGGAAGGTGTCAATCAT
66 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCAT
*
2188871 GCAAGTTAGATGAAAGG
131 GCCAGTTAGATGAAAGG
2188888 CTATATGCTT
Statistics
Matches: 972, Mismatches: 131, Indels: 22
0.86 0.12 0.02
Matches are distributed among these distances:
158 2 0.00
159 68 0.07
160 74 0.08
161 465 0.48
162 361 0.37
163 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (162 bp):
TAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCAT
GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
Found at i:2194224 original size:81 final size:81
Alignment explanation
Indices: 2194082--2194360 Score: 378
Period size: 81 Copynumber: 3.4 Consensus size: 81
2194072 AACTATTCCA
* * * * * * *
2194082 AAAATATTAATAGCCTAACTGTGCATTAGACAGAAATGTGTCAATTACGCCACTTATATGAAATG
1 AAAAGATTAATAGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGG
2194147 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* ** * *
2194163 AAAAGATTAATGGCCTAGTTGTACATTTGACAGAAATGTGTCAATCATGTCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGG
2194228 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* ** * * *
2194244 AAAAGACTAATAGCCTAGTTGTTCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGG
*
2194309 TTAAATACCATTGAGT
66 TTAAATACCTTTGAGT
*
2194325 AAAATATTAATAGCCTAACTGTGCATTTGACAGAAA
1 AAAAGATTAATAGCCTAACTGTGCATTTGACAGAAA
2194361 GGTTAAATAC
Statistics
Matches: 173, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 173 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (81 bp):
AAAAGATTAATAGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:2194388 original size:54 final size:54
Alignment explanation
Indices: 2194303--2194417 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 54
2194293 TCAGTTAGAT
*
2194303 GAAAGGTTAAATACCATTGAGTAAAATATTAATAGCCTAACTGTGCATTTGACA
1 GAAAGGTTAAATACCATTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACA
* **
2194357 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACA
1 GAAAGGTTAAATACCATTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACA
*
2194411 TAAAGGT
1 GAAAGGT
2194418 GTCAATCATG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.30
Consensus pattern (54 bp):
GAAAGGTTAAATACCATTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACA
Found at i:2194469 original size:135 final size:135
Alignment explanation
Indices: 2194222--2194474 Score: 416
Period size: 135 Copynumber: 1.9 Consensus size: 135
2194212 TCAGTTAGAT
* *
2194222 GAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGTTGTTCATTTGGCAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCA
* * * *
2194287 ATTATGTCAGTTAGATGAAAGGTTAAATACCATTGAGTAAAATATTAATAGCCTAACTGTGCATT
66 ATCATGCCAGTTAGAAGAAAGGTTAAATACCATTGAGTAAAAGATTAATAGCCTAACTGTGCATT
2194352 TGACA
131 TGACA
* *
2194357 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACATAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCA
* *
2194422 ATCATGCCAGTTAGAAGAAAGGTTAAATACCTTTGAGTAAAGGATTAATAGCC
66 ATCATGCCAGTTAGAAGAAAGGTTAAATACCATTGAGTAAAAGATTAATAGCC
2194475 AAGTTGTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
135 108 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (135 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCA
ATCATGCCAGTTAGAAGAAAGGTTAAATACCATTGAGTAAAAGATTAATAGCCTAACTGTGCATT
TGACA
Found at i:2194664 original size:161 final size:162
Alignment explanation
Indices: 2194357--2195171 Score: 1167
Period size: 161 Copynumber: 5.1 Consensus size: 162
2194347 GCATTTGACA
** *
2194357 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACATAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACAGAAAGGTGTCA
* * * * *
2194422 ATCATGCCAGTTAGAAGAAAGGTTAAATACCTTTGAGTAAAGGATTAATAGCCAAGTTGTACATT
66 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATT
* *
2194487 TG-GAGAAA-GTTGTCAATTATGCCAGTTAGAT
131 TGACAGAAATG-TGTCAATCATGCCAGTTAGAT
*
2194518 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGATAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACAGAAAGGTGTCA
* *
2194583 ATTATGCCAGTTAGATGAAA-GTTAAATACCTTTGATTAAAAGATTAATAGCCTA-TCTGTACAT
66 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGT-TGTGCAT
* * *
2194646 TTGACAGAAAGGTGTCAATTACGCCAGTTAGAT
130 TTGACAGAAATGTGTCAATCATGCCAGTTAGAT
* * * * *
2194679 AAAAGGTTAAATAACTTTGAG-AAAATATTAATAGCCTAATTGTGCATTTGACAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACAGAAAGGTGTCA
* * * * * *
2194743 ATTACGCCAATTATATGAAAGGTTAAATACCTCTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
66 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATT
2194808 TGACAGAAATGTGTCAATCATGCCAGTTAGAT
131 TGACAGAAATGTGTCAATCATGCCAGTTAGAT
* * *
2194840 GAAAGGTTAAACAGCTATGAGTAAAAGATTAATAGCCTAGA-TGTGCATTTGACAGAAAGGTGTC
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTA-ACTGTGCATTTGACAGAAAGGTGTC
*
2194904 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAA-GGCCTAGTTGTGCAT
65 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCAT
2194968 TTGACAGAAATGTGTCAATCATGCCAGTTAGAT
130 TTGACAGAAATGTGTCAATCATGCCAGTTAGAT
* * * *
2195001 GAAAGGTTAAACACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGAAAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACAGAAAGGTGTCA
* * * *
2195066 ATTACGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCATAGTTGTGTATT
66 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATT
* * * *
2195131 GGAAAGGAATGTGTCAATCATGCAAGTTAGAT
131 TGACAGAAATGTGTCAATCATGCCAGTTAGAT
2195163 GAAAGGTTA
1 GAAAGGTTA
2195172 TATGCTTTTG
Statistics
Matches: 593, Mismatches: 52, Indels: 17
0.90 0.08 0.03
Matches are distributed among these distances:
159 1 0.00
160 97 0.16
161 359 0.61
162 135 0.23
163 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (162 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGACAGAAAGGTGTCA
ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATT
TGACAGAAATGTGTCAATCATGCCAGTTAGAT
Found at i:2195182 original size:81 final size:81
Alignment explanation
Indices: 2194357--2195171 Score: 1156
Period size: 81 Copynumber: 10.1 Consensus size: 81
2194347 GCATTTGACA
* *
2194357 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACATAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
* *
2194422 ATCATGCCAGTTAGAA
66 ATTATGCCAGTTAGAT
* * * *
2194438 GAAAGGTTAAATACCTTTGAGTAAAGGATTAATAGCCAAGTTGTACATTTG-GAGAAA-GTTGTC
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATG-TGTC
2194501 AATTATGCCAGTTAGAT
65 AATTATGCCAGTTAGAT
** * *
2194518 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAACTGTGCATTTGATAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
2194583 ATTATGCCAGTTAGAT
66 ATTATGCCAGTTAGAT
* * *
2194599 GAAA-GTTAAATACCTTTGATTAAAAGATTAATAGCCTA-TCTGTACATTTGACAGAAAGGTGTC
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGT-TGTGCATTTGACAGAAATGTGTC
*
2194662 AATTACGCCAGTTAGAT
65 AATTATGCCAGTTAGAT
* * * *
2194679 AAAAGGTTAAATAACTTTGAG-AAAATATTAATAGCCTAATTGTGCATTTGACAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
* * *
2194743 ATTACGCCAATTATAT
66 ATTATGCCAGTTAGAT
* * *
2194759 GAAAGGTTAAATACCTCTGAGTAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
*
2194824 ATCATGCCAGTTAGAT
66 ATTATGCCAGTTAGAT
* * * * *
2194840 GAAAGGTTAAACAGCTATGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
2194905 ATTATGCCAGTTAGAT
66 ATTATGCCAGTTAGAT
*
2194921 GAAAGGTTAAATACCTTTGAGTAAAAGATTAA-GGCCTAGTTGTGCATTTGACAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
*
2194985 ATCATGCCAGTTAGAT
66 ATTATGCCAGTTAGAT
* * *
2195001 GAAAGGTTAAACACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGAAAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
*
2195066 ATTACGCCAGTTAGAT
66 ATTATGCCAGTTAGAT
* * * * * *
2195082 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCATAGTTGTGTATTGGAAAGGAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
* *
2195147 ATCATGCAAGTTAGAT
66 ATTATGCCAGTTAGAT
2195163 GAAAGGTTA
1 GAAAGGTTA
2195172 TATGCTTTTG
Statistics
Matches: 659, Mismatches: 67, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.00
80 287 0.44
81 370 0.56
82 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (81 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCA
ATTATGCCAGTTAGAT
Found at i:2196005 original size:23 final size:23
Alignment explanation
Indices: 2195979--2196028 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2195969 GCGGTCGTTC
*
2195979 GGGACAATTCTACGTGGTCCTTT
1 GGGACAATACTACGTGGTCCTTT
** *
2196002 GGGACAATACTATTTGTTCCTTT
1 GGGACAATACTACGTGGTCCTTT
2196025 GGGA
1 GGGA
2196029 ATTTTCTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (23 bp):
GGGACAATACTACGTGGTCCTTT
Found at i:2200712 original size:14 final size:14
Alignment explanation
Indices: 2200693--2200731 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
2200683 TTATGTGAAC
2200693 ATGTGATATAAACT
1 ATGTGATATAAACT
2200707 ATGTGATATTAAACT
1 ATGTGATA-TAAACT
2200722 ATGTGA-ATAA
1 ATGTGATATAA
2200732 CTGAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 12 0.50
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (14 bp):
ATGTGATATAAACT
Found at i:2200713 original size:75 final size:77
Alignment explanation
Indices: 2200594--2200765 Score: 190
Period size: 75 Copynumber: 2.3 Consensus size: 77
2200584 TATGTGTTAC
* * * ** * *
2200594 ATGATCTATGTGGATATAAGAGAA-AAATGATATAAGCTATGTGATACTGAACTACGTGAACATA
1 ATGATCTATGTTGATATATGTGAACATGTGATATAAACTATGTGATACTAAACTACGTGAACA-A
*
2200658 -TGAAAATATGAT
65 CTGAAAATATGAA
* * *
2200670 ATGATCTATG-TGAT-TATGTGAACATGTGATATAAACTATGTGATATTAAACTATGTGAATAAC
1 ATGATCTATGTTGATATATGTGAACATGTGATATAAACTATGTGATACTAAACTACGTGAACAAC
*
2200733 TGAAAATGTGAA
66 TGAAAATATGAA
*
2200745 ATGGTCTATGTTGATATATGT
1 ATGATCTATGTTGATATATGT
2200766 TTATGTGATA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
74 7 0.09
75 53 0.67
76 14 0.18
77 5 0.06
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.34
Consensus pattern (77 bp):
ATGATCTATGTTGATATATGTGAACATGTGATATAAACTATGTGATACTAAACTACGTGAACAAC
TGAAAATATGAA
Found at i:2200721 original size:15 final size:15
Alignment explanation
Indices: 2200675--2200727 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
2200665 ATGATATGAT
*
2200675 CTATGTGATTATGTGAA
1 CTATGTGA-TAT-TAAA
2200692 C-ATGTGATA-TAAA
1 CTATGTGATATTAAA
2200705 CTATGTGATATTAAA
1 CTATGTGATATTAAA
2200720 CTATGTGA
1 CTATGTGA
2200728 ATAACTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.12
14 8 0.24
15 14 0.42
16 6 0.18
17 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (15 bp):
CTATGTGATATTAAA
Found at i:2200772 original size:75 final size:74
Alignment explanation
Indices: 2200621--2200787 Score: 176
Period size: 75 Copynumber: 2.2 Consensus size: 74
2200611 AAGAGAAAAA
* * *
2200621 TGATATAAGCTATGTGATACTGAACTACGTGAACATATGAAAATATGATATGATCTATGTGATTA
1 TGATATAAACTATGTGATACTAAACTACGTGAACATATGAAAATATGAAATGATCTATGTGATTA
2200686 TGTGAACATG
66 TGT-AACATG
* * * * *
2200696 TGATATAAACTATGTGATATTAAACTATGTGAATA-ACTGAAAATGTGAAATGGTCTATGTTGAT
1 TGATATAAACTATGTGATACTAAACTACGTGAACATA-TGAAAATATGAAATGATCTATG-TGAT
**
2200760 ATATGT-TTATG
64 -TATGTAACATG
* *
2200771 TGATACAAACTAAGTGA
1 TGATATAAACTATGTGA
2200788 AATGTGTAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
74 1 0.01
75 67 0.87
76 4 0.05
77 5 0.06
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (74 bp):
TGATATAAACTATGTGATACTAAACTACGTGAACATATGAAAATATGAAATGATCTATGTGATTA
TGTAACATG
Found at i:2200933 original size:23 final size:22
Alignment explanation
Indices: 2200863--2200936 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
2200853 CAGTCGAGGG
* *
2200863 TTCTACGCGGTCCTTCGGAATAA
1 TTCTACGCGGTCTTTCGG-ATAT
* * **
2200886 TTCTACGTGGTCCTTTGGGGCAT
1 TTCTACGCGGT-CTTTCGGATAT
2200909 TTCTACGCGGTCTTTCGAGATAT
1 TTCTACGCGGTCTTTCG-GATAT
2200932 TTCTA
1 TTCTA
2200937 TCTGGCACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
22 5 0.13
23 29 0.74
24 5 0.13
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (22 bp):
TTCTACGCGGTCTTTCGGATAT
Found at i:2201085 original size:12 final size:12
Alignment explanation
Indices: 2201065--2201161 Score: 65
Period size: 12 Copynumber: 8.3 Consensus size: 12
2201055 AATGAACTGT
2201065 GATAATGATAAG
1 GATAATGATAAG
* *
2201077 GATAGTGATAAT
1 GATAATGATAAG
***
2201089 GATAATGATGTT
1 GATAATGATAAG
*
2201101 GATAATGATAAT
1 GATAATGATAAG
* * *
2201113 GATATTGATGAT
1 GATAATGATAAG
* *
2201125 GATGATGATAAT
1 GATAATGATAAG
2201137 GATAATGAT---
1 GATAATGATAAG
*
2201146 GATGATGATAAG
1 GATAATGATAAG
2201158 GATA
1 GATA
2201162 TATATGTGCA
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
9 8 0.12
12 59 0.88
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (12 bp):
GATAATGATAAG
Found at i:2201152 original size:24 final size:24
Alignment explanation
Indices: 2201064--2201154 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
2201054 TAATGAACTG
* *
2201064 TGATAATGATAAGGAT-AGTGATAA
1 TGATAATGATGATGATGA-TGATAA
* *
2201088 TGATAATGATGTTGATAATGATAA
1 TGATAATGATGATGATGATGATAA
*
2201112 TGATATTGATGATGATGATGATAA
1 TGATAATGATGATGATGATGATAA
2201136 TGATAATGATGATGATGAT
1 TGATAATGATGATGATGAT
2201155 AAGGATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 58 0.98
25 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (24 bp):
TGATAATGATGATGATGATGATAA
Found at i:2201154 original size:6 final size:6
Alignment explanation
Indices: 2201064--2201151 Score: 104
Period size: 6 Copynumber: 14.7 Consensus size: 6
2201054 TAATGAACTG
* * **
2201064 TGATAA TGATAA GGATAG TGATAA TGATAA TGATGT TGATAA TGATAA
1 TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA
* * * *
2201112 TGATAT TGATGA TGATGA TGATAA TGATAA TGATGA TGAT
1 TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGAT
2201152 GATAAGGATA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (6 bp):
TGATAA
Found at i:2203853 original size:32 final size:32
Alignment explanation
Indices: 2203783--2203856 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
2203773 CCTAAGGTGA
* *
2203783 CCCTTGGGTAGGCTCTGAGGCCCCGAGAAACT
1 CCCTTGGGTAGGCTCTCAGGCCCCAAGAAACT
** * *
2203815 TTCTTGGTTAGGCTCTCAGGCCCCAAGACACT
1 CCCTTGGGTAGGCTCTCAGGCCCCAAGAAACT
2203847 CCCTTGGGTA
1 CCCTTGGGTA
2203857 AATCATGGGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.24
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTCAGGCCCCAAGAAACT
Found at i:2203938 original size:24 final size:22
Alignment explanation
Indices: 2203903--2203947 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
2203893 ATTCATGTGA
2203903 TTTAAATAACTACAT-GATCATT
1 TTTAAATAACTAC-TGGATCATT
2203925 TTTACAATATACTACTGGATCAT
1 TTTA-AATA-ACTACTGGATCAT
2203948 GATTTTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (22 bp):
TTTAAATAACTACTGGATCATT
Found at i:2205856 original size:2 final size:2
Alignment explanation
Indices: 2205851--2205888 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2205841 ATATACAAAC
2205851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2205889 CAAATGTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2208009 original size:24 final size:24
Alignment explanation
Indices: 2207975--2208028 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2207965 CTCACGATTG
2207975 GAAACACAAGCCATAAAGGCTTAA
1 GAAACACAAGCCATAAAGGCTTAA
*
2207999 GCAACACAAGCCATAAAGGCTTAA
1 GAAACACAAGCCATAAAGGCTTAA
2208023 GAAACA
1 GAAACA
2208029 AAGAGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.11
Consensus pattern (24 bp):
GAAACACAAGCCATAAAGGCTTAA
Found at i:2217879 original size:21 final size:19
Alignment explanation
Indices: 2217830--2217879 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 19
2217820 AAGATAATTT
*
2217830 TAAAAAATTTATAATTTTA
1 TAAAAAAATTATAATTTTA
*
2217849 AAAAATAAATTATAATTTTTTA
1 TAAAA-AAATTATAA--TTTTA
2217871 TAAAAAAAT
1 TAAAAAAAT
2217880 ATTTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 4 0.16
22 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAAAATTATAATTTTA
Found at i:2218815 original size:2 final size:2
Alignment explanation
Indices: 2218810--2218834 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2218800 TATATAAAAT
2218810 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2218835 CAACGAGTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2226177 original size:20 final size:21
Alignment explanation
Indices: 2226152--2226244 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
2226142 TTTTCCCAAT
*
2226152 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2226172 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2226193 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* * **
2226213 TCGTAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2226234 TCGCAATGCGA
1 TCGCAATGCGA
2226245 TACTTACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2226197 original size:41 final size:41
Alignment explanation
Indices: 2226152--2226244 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
2226142 TTTTCCCAAT
2226152 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
2226193 TCGCAATGCGAATAAGTAAATCGTAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2226234 TCGCAATGCGA
1 TCGCAATGCGA
2226245 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2226258 original size:20 final size:20
Alignment explanation
Indices: 2226233--2226346 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
2226223 AATTGGGAAA
*
2226233 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
*
2226253 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
2226273 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
2226294 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
2226314 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
2226334 TTCGCAACGCGAT
1 ATCGCAACGCGAT
2226347 TTACATAGCG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 66 0.82
21 14 0.17
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:2226295 original size:61 final size:61
Alignment explanation
Indices: 2226230--2226346 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
2226220 GCGAATTGGG
* * * * *
2226230 AAAATCGCAATGCGATACTTACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAA
* *
2226291 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATACTGACTATCGCAACGCGAT
2226347 TTACATAGCG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAA
Found at i:2226900 original size:19 final size:19
Alignment explanation
Indices: 2226862--2226917 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2226852 TTCGAGAATG
2226862 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
2226882 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
2226901 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
2226918 CCAAAATCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2226971 original size:19 final size:19
Alignment explanation
Indices: 2226929--2227011 Score: 134
Period size: 18 Copynumber: 4.4 Consensus size: 19
2226919 CAAAATCACA
2226929 TTGCGATTTTCATTTCGC-
1 TTGCGATTTTCATTTCGCG
2226947 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
2226966 TTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGC-G
2226986 TTGCGATTTTCA-TTCGCG
1 TTGCGATTTTCATTTCGCG
2227004 TTGCGATT
1 TTGCGATT
2227012 GTCTGGTCGC
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
18 27 0.44
19 22 0.36
20 12 0.20
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:2227022 original size:38 final size:39
Alignment explanation
Indices: 2226947--2227022 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
2226937 TTCATTTCGC
* **
2226947 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
2226986 TTGCGATTTTCA-TTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
2227023 ATAGTCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 19 0.58
39 14 0.42
ACGTcount: A:0.09, C:0.20, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:2227040 original size:33 final size:33
Alignment explanation
Indices: 2226998--2227066 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2226988 GCGATTTTCA
* *
2226998 TTCGCGTTGCGATTGTCTGGTCGCGATAGTCAT
1 TTCGCGTTGCGATTCTCTCGTCGCGATAGTCAT
*
2227031 TTCGCGTTGCGATTCTCTCGTTGCGATAGTCAT
1 TTCGCGTTGCGATTCTCTCGTCGCGATAGTCAT
2227064 TTC
1 TTC
2227067 TTCGTTCGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.39
Consensus pattern (33 bp):
TTCGCGTTGCGATTCTCTCGTCGCGATAGTCAT
Found at i:2230516 original size:13 final size:14
Alignment explanation
Indices: 2230508--2230544 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2230498 TATTGTTTAA
2230508 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
2230522 GTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2230536 TTGATTTGT
1 TTGATTTGT
2230545 TTAATTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2232981 original size:12 final size:12
Alignment explanation
Indices: 2232964--2232988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2232954 TCTTCGGGGA
2232964 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2232976 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2232988 C
1 C
2232989 AGGATATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2233194 original size:23 final size:23
Alignment explanation
Indices: 2233161--2233212 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
2233151 CTGAAACATC
* *
2233161 ATCAAAATCCGTGTATGACCAAT
1 ATCAAAATCCGGGTATGACCAAG
*
2233184 ATCAAAGTCCGGGTATGACCAAG
1 ATCAAAATCCGGGTATGACCAAG
2233207 ATCAAA
1 ATCAAA
2233213 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (23 bp):
ATCAAAATCCGGGTATGACCAAG
Found at i:2234340 original size:19 final size:19
Alignment explanation
Indices: 2234286--2234436 Score: 184
Period size: 19 Copynumber: 8.6 Consensus size: 19
2234276 GAAATGAAAA
2234286 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
2234302 TCG--TTGCGA-TTTCA-T
1 TCGCATTGCGATTTTCATT
2234317 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2234336 TCGCATTGTGATTTTC---
1 TCGCATTGCGATTTTCATT
2234352 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2234369 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2234388 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2234407 TCGCATTGCGA-TTCCATT
1 TCGCATTGCGATTTTCATT
*
2234425 TCGCGTTGCGAT
1 TCGCATTGCGAT
2234437 AATCGTTTTG
Statistics
Matches: 119, Mismatches: 4, Indels: 21
0.83 0.03 0.15
Matches are distributed among these distances:
13 4 0.03
14 16 0.13
15 3 0.03
16 6 0.05
17 9 0.08
18 21 0.18
19 60 0.50
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2234363 original size:33 final size:35
Alignment explanation
Indices: 2234305--2234419 Score: 155
Period size: 33 Copynumber: 3.2 Consensus size: 35
2234295 GATTTTCTCG
2234305 TTGCGA-TTTCATTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTC-TTCG-ATTGCGATTTTCATTTCGCA
*
2234341 TTGTGATTTTC-TCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCTTCGATTGCGATTTTCATTTCGCA
2234374 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTC--TTCG-ATTGCGATTTTCATTTCGCA
2234412 TTGCGATT
1 TTGCGATT
2234420 CCATTTCGCG
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
33 29 0.41
35 3 0.04
36 8 0.11
37 4 0.06
38 27 0.38
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (35 bp):
TTGCGATTTTCTTCGATTGCGATTTTCATTTCGCA
Found at i:2234393 original size:52 final size:50
Alignment explanation
Indices: 2234286--2234403 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 50
2234276 GAAATGAAAA
2234286 TCGCATTGCGATTTTCTCGTTGCGATTTCATTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTCATTCGCATTGCGATTTTCATT
*
2234336 TCGCATTGTGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGA-TTTCA-TTCGCATTGCGATTTTCATT
2234388 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
2234404 ATTTCGCATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 24 0.38
51 5 0.08
52 35 0.55
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (50 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTCATTCGCATTGCGATTTTCATT
Found at i:2236415 original size:19 final size:19
Alignment explanation
Indices: 2236391--2236456 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
2236381 GAAACTTAAA
2236391 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
2236410 ATCGCAACGCGGAATGGCT
1 ATCGCAACGCGAAATGACT
* **
2236429 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2236448 ATCGCAACG
1 ATCGCAACG
2236457 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2236485 original size:31 final size:31
Alignment explanation
Indices: 2236429--2236505 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
2236419 CGGAATGGCT
*
2236429 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGAC-AA
2236462 ATCGCAACGCGAAATG-AATCGCAACGACAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAA
2236492 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2236506 CACAAATCGC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
30 16 0.37
31 12 0.28
33 15 0.35
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.10
Consensus pattern (31 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAA
Found at i:2236493 original size:17 final size:16
Alignment explanation
Indices: 2236447--2236493 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
2236437 GCGAAATGAA
2236447 AATCGCAACGAC-AA-
1 AATCGCAACGACAAAT
2236461 AATCGCAACG-CGAAAT
1 AATCGCAACGAC-AAAT
2236477 GAATCGCAACGACAAAT
1 -AATCGCAACGACAAAT
2236494 CGCAACGCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 2 0.07
17 14 0.50
18 1 0.04
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (16 bp):
AATCGCAACGACAAAT
Found at i:2236494 original size:13 final size:13
Alignment explanation
Indices: 2236446--2236500 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
2236436 TGCGAAATGA
2236446 AAATCGCAACGAC
1 AAATCGCAACGAC
*
2236459 AAAATCGCAACGCGAA
1 -AAATCGCAA--CGAC
2236475 ATGAATCGCAACGAC
1 A--AATCGCAACGAC
2236490 AAATCGCAACG
1 AAATCGCAACG
2236501 CGAAACACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 10 0.29
14 9 0.26
15 5 0.14
16 3 0.09
17 8 0.23
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (13 bp):
AAATCGCAACGAC
Found at i:2236534 original size:19 final size:18
Alignment explanation
Indices: 2236512--2236574 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
2236502 GAAACACAAA
2236512 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
2236531 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
2236547 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
2236563 TCGCATTGCGAT
1 TCGCATTGCGAT
2236575 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 9 0.24
16 8 0.22
18 10 0.27
19 10 0.27
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:2236601 original size:20 final size:20
Alignment explanation
Indices: 2236558--2236603 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2236548 CGTTGCGATT
2236558 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCATTGCGATAG
* * *
2236577 CCATTTCCGCGTTGTGATAG
1 TCATTTCCGCATTGCGATAG
2236597 TCATTTC
1 TCATTTC
2236604 GTGTGCGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (20 bp):
TCATTTCCGCATTGCGATAG
Found at i:2238305 original size:20 final size:20
Alignment explanation
Indices: 2238280--2238317 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2238270 AATAGTTTCT
2238280 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
2238300 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
2238318 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2238603 original size:22 final size:22
Alignment explanation
Indices: 2238578--2238620 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2238568 GATTTAGATA
2238578 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2238600 GACGGATTTCGTCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
2238621 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2238877 original size:41 final size:41
Alignment explanation
Indices: 2238825--2238902 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
2238815 CGAAAGTCAG
* * *
2238825 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
*
2238866 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
2238903 CCCAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:2238899 original size:20 final size:20
Alignment explanation
Indices: 2238786--2238899 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
2238776 CGCTTTGAAA
2238786 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
2238806 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
2238826 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
2238846 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
2238867 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
2238887 ATCGCATTGCGAT
1 ATCGCATTGCGAT
2238900 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:2238917 original size:21 final size:21
Alignment explanation
Indices: 2238888--2238983 Score: 106
Period size: 20 Copynumber: 4.7 Consensus size: 21
2238878 ATAGTAAGTA
2238888 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2238909 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2238929 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2238950 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2238970 TCGCATTGCGATTT
1 TCGCATTGCGATTT
2238984 GGGAAAATCG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
20 32 0.53
21 28 0.47
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:2238918 original size:41 final size:41
Alignment explanation
Indices: 2238868--2238983 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
2238858 TTTTGTATTA
*
2238868 TCGCATTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGAT-GTAAGTATTCGCATTGCGATTTTCCCAAT
* **
2238909 TCGCGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATGTAAGTATTCGCATTGCGATTTTCCCAAT
* **
2238950 TCGCGTTGCGATTTACTTATTCGCATTGCGATTT
1 TCGCGTTGCGATGTAAGTATTCGCATTGCGATTT
2238984 GGGAAAATCG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 4 0.06
41 66 0.94
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATGTAAGTATTCGCATTGCGATTTTCCCAAT
Found at i:2239845 original size:27 final size:26
Alignment explanation
Indices: 2239815--2239865 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
2239805 ATATAAAATT
**
2239815 TAGTGAATAAATTAAAAGAATAAAAAA
1 TAGTGAATAAAAGAAAAGAA-AAAAAA
2239842 TAGTGAATAAAAGAAAAGAAAAAA
1 TAGTGAATAAAAGAAAAGAAAAAA
2239866 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (26 bp):
TAGTGAATAAAAGAAAAGAAAAAAAA
Found at i:2241634 original size:276 final size:276
Alignment explanation
Indices: 2241074--2241920 Score: 1074
Period size: 276 Copynumber: 3.1 Consensus size: 276
2241064 TCCAAATTAT
* * ** *
2241074 TTTTAATAAATTATTGAGTCGAATAATTAAAACAGAACCTCGAGCATAAAAACGAGGACCAAATC
1 TTTTAACAAATTATTGATTCGAATAATTAAAATGGAACCTCGAGCA-AAAAA-GAGGACCAAATT
* * * *
2241139 AAAAATTATCCTAAATTAAAGGTCTAAATATGAAATTAAGCCTAAAATGGAGGCTCTAATTATTA
64 AAAAATT-CCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTGGAGGCTCTAATTATTA
* *
2241204 ACCTATTCAATTTTAACCAATTTATTGAATCGAATAATTAAAATAGAACCTCGAGCATAAGTGAG
128 ACCTATTCAATTTTAACCAATTTATTGAATCGAATAATTAAAATGGAACCTCGAGCATAAGTGAA
* * * ** * * *
2241269 GACCAAATTAAAAATTCTCCTACATTAAAGGACTAAGTATGAAATTAGGTATATATTGGAGGCTC
193 GACCAAATTAAAAATTCCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGGCCC
* *
2241334 TAATTATTAACCTTGTTC-A
258 TAATTATTAA-CATGGTCAA
** * *
2241353 TTTTAACAAATTATCAATTCGAATAATTAATATGGATCCTCGAGCAAAAAAGAGGACCAAATTAA
1 TTTTAACAAATTATTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAAAGAGGACCAAATTAA
*
2241418 AAATTCCCTTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTGGA-GCCCTAATTATTAAC
66 AAATTCCC-TAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTGGAGGCTCTAATTATTAAC
* * * *
2241482 CTATTCAATTTTAACCAATTTATTAAATCGAATAGTTAAAATGGAACCTCGAGCATAAGCGATGA
130 CTATTCAATTTTAACCAATTTATTGAATCGAATAATTAAAATGGAACCTCGAGCATAAGTGAAGA
* * *
2241547 CCAAATTAAAAATTCCCCTATATTAAAGGTCTAACTATGAAATTAAGCCTAAAATGGAGGCCCTA
195 CCAAATTAAAAATTCCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGGCCCTA
2241612 ATTATTAACATGGTCAA
260 ATTATTAACATGGTCAA
* * ** *
2241629 TTTTAATC-AATTATTGATTCGAATAATTAAAATGGAACCTCAAACAAAAGCGAGGACTAAATTA
1 TTTTAA-CAAATTATTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAAAGAGGACCAAATTA
* *
2241693 AAAATTTCCCTAAATTAAATGACTAAGTATGAAATTAAGCCTAGAGTGGAGGCTCTAATTATTAA
65 AAAA-TTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTGGAGGCTCTAATTATTAA
* * * * *
2241758 CCTAGTCAATTTTAATCAA-TTATTGGATCGAATAATTAAAATGGAACTTCGAGCAGAAGTGAAG
129 CCTATTCAATTTTAACCAATTTATTGAATCGAATAATTAAAATGGAACCTCGAGCATAAGTGAAG
* * * * * * *
2241822 ATCAAATTAAAAATTTCCCAAAATTAAAGGACTGAGTACGAAATTAAGCCTGAACTGGA-GCCTC
194 ACCAAATTAAAAATTCCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGGCC-C
* * *
2241886 TAACTATTAACCTAGTCAA
258 TAATTATTAACATGGTCAA
* *
2241905 CTTTAATAAATTATTG
1 TTTTAACAAATTATTG
2241921 GATATTCATC
Statistics
Matches: 494, Mismatches: 67, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
275 8 0.02
276 352 0.71
277 91 0.18
278 5 0.01
279 38 0.08
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (276 bp):
TTTTAACAAATTATTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAAAGAGGACCAAATTAA
AAATTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTGGAGGCTCTAATTATTAACC
TATTCAATTTTAACCAATTTATTGAATCGAATAATTAAAATGGAACCTCGAGCATAAGTGAAGAC
CAAATTAAAAATTCCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGGCCCTAA
TTATTAACATGGTCAA
Found at i:2241920 original size:138 final size:138
Alignment explanation
Indices: 2241074--2241923 Score: 944
Period size: 138 Copynumber: 6.1 Consensus size: 138
2241064 TCCAAATTAT
** *
2241074 TTTTAATAAATTATT-GAGTCGAATAATTAAAACAGAACCTCGAGCATAAAAACGAGGACCAAAT
1 TTTTAATAAATTATTGGA-TCGAATAATTAAAATGGAACCTCGAGC--AAAAGCGAGGACCAAAT
* * * *
2241138 CAAAAATTAT-CCTAAATTAAAGGTCTAAATATGAAATTAAGCCTAAAATGGAGGCTCTAATTAT
63 TAAAAATT-TCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGCCTCTAATTAT
*
2241202 TAACCTATTCAA
127 TAACCTAGTCAA
* * * * * *
2241214 TTTTAACCAATTTATTGAATCGAATAATTAAAATAGAACCTCGAGCATAAGTGAGGACCAAATTA
1 TTTTAA-TAAATTATTGGATCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTA
* * ** * * *
2241279 AAAA-TTCTCCTACATTAAAGGACTAAGTATGAAATTAGGTATATATTGGAGGCTCTAATTATTA
65 AAAATTTC-CCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGCCTCTAATTATTA
*
2241343 ACCTTGTTC-A
129 ACCTAG-TCAA
* ** * * **
2241353 TTTTAACAAATTA-TCAATTCGAATAATTAATATGGATCCTCGAGCAAAAAAGAGGACCAAATTA
1 TTTTAATAAATTATTGGA-TCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTA
*
2241417 AAAA-TTCCCTTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTGGAGCC-CTAATTATTA
65 AAAATTTCCC-TAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGCCTCTAATTATTA
*
2241480 ACCTATTCAA
129 ACCTAGTCAA
* * ** * * *
2241490 TTTTAACCAATTTATTAAATCGAATAGTTAAAATGGAACCTCGAGCATAAGCGATGACCAAATTA
1 TTTTAA-TAAATTATTGGATCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTA
* * * *
2241555 AAAATTCCCCTATATTAAAGGTCTAACTATGAAATTAAGCCTAAAATGGAGGCC-CTAATTATTA
65 AAAATTTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGA-GCCTCTAATTATTA
* *
2241619 ACATGGTCAA
129 ACCTAGTCAA
* * * *
2241629 TTTTAATCAATTATT-GATTCGAATAATTAAAATGGAACCTCAAACAAAAGCGAGGACTAAATTA
1 TTTTAATAAATTATTGGA-TCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTA
* * * *
2241693 AAAATTTCCCTAAATTAAATGACTAAGTATGAAATTAAGCCTAGAGTGGAGGCTCTAATTATTAA
65 AAAATTTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGCCTCTAATTATTAA
2241758 CCTAGTCAA
130 CCTAGTCAA
* * * * * *
2241767 TTTTAATCAATTATTGGATCGAATAATTAAAATGGAACTTCGAGCAGAAGTGAAGATCAAATTAA
1 TTTTAATAAATTATTGGATCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAA
* * * * * *
2241832 AAATTTCCCAAAATTAAAGGACTGAGTACGAAATTAAGCCTGAACTGGAGCCTCTAACTATTAAC
66 AAATTTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGCCTCTAATTATTAAC
2241897 CTAGTCAA
131 CTAGTCAA
*
2241905 CTTTAATAAATTATTGGAT
1 TTTTAATAAATTATTGGAT
2241924 ATTCATCTAA
Statistics
Matches: 604, Mismatches: 91, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
136 2 0.00
137 30 0.05
138 417 0.69
139 113 0.19
140 8 0.01
141 33 0.05
142 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (138 bp):
TTTTAATAAATTATTGGATCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAA
AAATTTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAATGGAGCCTCTAATTATTAAC
CTAGTCAA
Found at i:2243053 original size:27 final size:27
Alignment explanation
Indices: 2243006--2243068 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
2242996 AAAACAGTGA
2243006 TAAATGATTCAACACACAAGTACATTC
1 TAAATGATTCAACACACAAGTACATTC
** *
2243033 TAAATGATTCAGTACAGAAGTACATTC
1 TAAATGATTCAACACACAAGTACATTC
*
2243060 TGAATGATT
1 TAAATGATT
2243069 TAGAGCCGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (27 bp):
TAAATGATTCAACACACAAGTACATTC
Found at i:2244669 original size:6 final size:6
Alignment explanation
Indices: 2244658--2244781 Score: 91
Period size: 6 Copynumber: 21.0 Consensus size: 6
2244648 TTTATTCTAT
*
2244658 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT- TTTTTC AATTTTC TCTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC T-TTTTC
* * * * *
2244707 --TTTA TTTTTC TTTATT- TTTATC ATTTTC TCTGT- TTTTTC TTTTTC
1 TTTTTC TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
2244752 ATTTTTTC TTTTTC -CTTT- TTTTTC TTTTTC
1 --TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
2244782 CCATTATTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
4 3 0.03
5 15 0.16
6 56 0.61
7 12 0.13
8 6 0.07
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:2244677 original size:38 final size:37
Alignment explanation
Indices: 2244635--2244709 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
2244625 TTATTTTTTC
* *
2244635 TTCTTCCTCTCTTTTTATTCTATTTTTTCTTTTTCTTT
1 TTCTTCCTCTCTTTTTATTCAATTTTCTC-TTTTCTTT
** * *
2244673 TTCTTTTTCTTTTTTTTTTCAATTTTCTCTTTTCTTT
1 TTCTTCCTCTCTTTTTATTCAATTTTCTCTTTTCTTT
2244710 ATTTTTCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
37 8 0.26
38 23 0.74
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (37 bp):
TTCTTCCTCTCTTTTTATTCAATTTTCTCTTTTCTTT
Found at i:2244725 original size:35 final size:35
Alignment explanation
Indices: 2244659--2244781 Score: 109
Period size: 35 Copynumber: 3.6 Consensus size: 35
2244649 TTATTCTATT
* *
2244659 TTTTCT-TTTTCTTTTTCTTTTTCTTT-TTTTTTTCAA
1 TTTTCTCTTTTCTTTCT-TTT-TCTTTATTTTTATC-A
*
2244695 TTTTCTCTTTTCTTTATTTTTCTTTATTTTTATCA
1 TTTTCTCTTTTCTTTCTTTTTCTTTATTTTTATCA
*
2244730 TTTTCTCTGTTT-TTTCTTTTTC---ATTTTT-TCT
1 TTTTCTCT-TTTCTTTCTTTTTCTTTATTTTTATCA
*
2244761 TTTTC-CTTTTTTTTCTTTTTC
1 TTTTCTCTTTTCTTTCTTTTTC
2244782 CCATTATTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 14
0.81 0.04 0.14
Matches are distributed among these distances:
29 3 0.04
30 12 0.15
31 7 0.09
32 6 0.08
35 23 0.29
36 19 0.24
37 9 0.11
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (35 bp):
TTTTCTCTTTTCTTTCTTTTTCTTTATTTTTATCA
Found at i:2244775 original size:10 final size:9
Alignment explanation
Indices: 2244644--2244780 Score: 68
Period size: 9 Copynumber: 14.8 Consensus size: 9
2244634 CTTCTTCCTC
*
2244644 TCTTTTTAT
1 TCTTTTTTT
*
2244653 TCTATTTTT
1 TCTTTTTTT
2244662 TCTTTTTCTT
1 TCTTTTT-TT
*
2244672 T-TTCTTTT
1 TCTTTTTTT
2244680 TCTTTTTTT
1 TCTTTTTTT
**
2244689 T-TTCAATTT
1 TCTT-TTTTT
*
2244698 TC--TCTTT
1 TCTTTTTTT
2244705 TCTTTATTTT
1 TCTTT-TTTT
2244715 TCTTTATTTT
1 TCTTT-TTTT
* * *
2244725 TATCATTTTC
1 TCT-TTTTTT
*
2244735 TCTGTTTTT
1 TCTTTTTTT
2244744 TCTTTTTCATT
1 TCTTTTT--TT
2244755 T-TTTCTTTT
1 TCTTT-TTTT
2244764 TCCTTTTTTT
1 T-CTTTTTTT
2244774 TCTTTTT
1 TCTTTTT
2244781 CCCATTATTT
Statistics
Matches: 98, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
7 5 0.05
8 5 0.05
9 48 0.49
10 31 0.32
11 9 0.09
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.78
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:2244791 original size:58 final size:58
Alignment explanation
Indices: 2244682--2244791 Score: 127
Period size: 58 Copynumber: 1.9 Consensus size: 58
2244672 TTTCTTTTTC
***
2244682 TTTTTTTTTTCAATTTTCTCTTTTCTTTATTTTTCTTTATTTTTATCATTTTCTCTGT
1 TTTTTTTTTTCAATTTTCTCTTTTCTTTATTTTTCTTTATTCCCATCATTTTCTCTGT
* *
2244740 TTTTTCTTTTTC-ATTTTTTCTTTTTCCTTT-TTTTTCTTT-TTCCCATTATTTT
1 TTTTT-TTTTTCAATTTTCTC-TTTT-CTTTATTTTTCTTTATTCCCATCATTTT
2244792 ATCAATTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
58 21 0.48
59 19 0.43
60 4 0.09
ACGTcount: A:0.08, C:0.15, G:0.01, T:0.75
Consensus pattern (58 bp):
TTTTTTTTTTCAATTTTCTCTTTTCTTTATTTTTCTTTATTCCCATCATTTTCTCTGT
Found at i:2245257 original size:44 final size:44
Alignment explanation
Indices: 2245143--2245301 Score: 149
Period size: 44 Copynumber: 3.6 Consensus size: 44
2245133 ACGAATCCAA
* * ** ** * * *
2245143 CTCCTTCTGTGATAGAATTGAGTGAAATAACAATGTTGATCCAC
1 CTCCTTTTGTGATAGAATCGAGCAAAATGTCAATGCTAATCTAC
* * * * *
2245187 ATCCTTATGTGATGGAATCAAACAAAATGTCAATGCTAATCTAC
1 CTCCTTTTGTGATAGAATCGAGCAAAATGTCAATGCTAATCTAC
* *
2245231 CTCCTTTTGTGATAGAATCGAGCAAAAGGGT-GATGCTAATCTAC
1 CTCCTTTTGTGATAGAATCGAGCAAAA-TGTCAATGCTAATCTAC
*
2245275 CTCATTTTGTGATAGAATCGAGCAAAA
1 CTCCTTTTGTGATAGAATCGAGCAAAA
2245302 GGGTGATGCT
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 91 0.98
45 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (44 bp):
CTCCTTTTGTGATAGAATCGAGCAAAATGTCAATGCTAATCTAC
Found at i:2245330 original size:44 final size:44
Alignment explanation
Indices: 2245188--2245331 Score: 182
Period size: 44 Copynumber: 3.3 Consensus size: 44
2245178 TTGATCCACA
* * * * *
2245188 TCCTTATGTGATGGAATCAAACAAAA-TGTCAATGCTAATCTACC
1 TCCTTATGTGATAGAATCGAGCAAAAGGGT-GATGCTAATCTACC
*
2245232 TCCTTTTGTGATAGAATCGAGCAAAAGGGTGATGCTAATCTACC
1 TCCTTATGTGATAGAATCGAGCAAAAGGGTGATGCTAATCTACC
* * * *
2245276 TCATTTTGTGATAGAATCGAGCAAAAGGGTGATGCTAATCCAAC
1 TCCTTATGTGATAGAATCGAGCAAAAGGGTGATGCTAATCTACC
2245320 TCCTTATGTGAT
1 TCCTTATGTGAT
2245332 GAAATATAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 86 0.98
45 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCTTATGTGATAGAATCGAGCAAAAGGGTGATGCTAATCTACC
Found at i:2245345 original size:44 final size:44
Alignment explanation
Indices: 2245219--2245331 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
2245209 CAAAATGTCA
2245219 ATGCTAATCTACCTCCTTTTGTGATAGAATCGAGCAAAAGGGTG
1 ATGCTAATCTACCTCCTTTTGTGATAGAATCGAGCAAAAGGGTG
*
2245263 ATGCTAATCTACCTCATTTTGTGATAGAATCGAGCAAAAGGGTG
1 ATGCTAATCTACCTCCTTTTGTGATAGAATCGAGCAAAAGGGTG
* * *
2245307 ATGCTAATCCAACTCCTTATGTGAT
1 ATGCTAATCTACCTCCTTTTGTGAT
2245332 GAAATATAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (44 bp):
ATGCTAATCTACCTCCTTTTGTGATAGAATCGAGCAAAAGGGTG
Found at i:2246214 original size:261 final size:257
Alignment explanation
Indices: 2245708--2246736 Score: 985
Period size: 258 Copynumber: 4.0 Consensus size: 257
2245698 CTGCTCGAGA
* * * * * * * *
2245708 GTCTTATCGATGGACCGAAGGACTTGGTCACCTTGCGCAAAAGACTTACTAG-TGACTCGAAGGA
1 GTCTTATAGATGGCCCGAAGGACTT-TTCATCTTGCTCGAAAGACTTAC-AGATGACTCAAATGA
* * * * ** * **
2245772 TTTAATCATCATGCTCGAAAGACTTACTGCTGGCCTGAAGGACTTGTTAGTTTTGAAAATAGTTT
64 TTTAATCATCATGCTCGAAAGAATTAATGC-GACCCGAAGGACTTACTAATTTTGAAAATAGACT
* * * **
2245837 ACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAAAATT-ATTTTCTG-AAAATCT
128 ACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTC-AAAAATTTCATTTTC-GAAAAAGAT
* ** * *
2245900 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCACAAATATCTTATGAAAACATCTTGCCC
191 TAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTC-AA-ATCATATGAAAACATCATGCCC
*
2245965 AAAG
254 GAAG
* * *
2245969 GTCTTATAGATGGCCCGAAGGA-TTTATCATCTTGCTCGAAAGACTGACAAATTACTCAAATGAT
1 GTCTTATAGATGGCCCGAAGGACTTT-TCATCTTGCTCGAAAGACTTACAGATGACTCAAATGAT
* * * *
2246033 TTAATCATCATGCTTGAAATAATTAATGACGACCCGAAGGACTTAATAATTTTTGGAAATAGACT
65 TTAATCATCATGCTCGAAAGAATTAATG-CGACCCGAAGGACTTACTAA-TTTTGAAAATAGACT
* *
2246098 ACTAGGTAAGAAACTTTGGAAATCACTTTTTTTACTTTTCAAAAGTTTCATTTTCGAAAAAGATT
128 ACTAGGTAAGAAACTTTGGAAATCAC-TTTCTTACTTTTCAAAAATTTCATTTTCGAAAAAGATT
* * * ** *
2246163 AAATGAGAAAATTTGAAAATCGCTTTCTTATTTTTTTTCAAATCATATGAAAACATCCTGATCGG
192 AAATGAGAAACTTTGAAAATCGCTTTCTCA-TTTTTTTCAAATCATATGAAAACATCATGCCCGA
2246228 AG
256 AG
* *
2246230 GTCTTATAGATGGCCC-AGAGGACTTTTCATCTTGCTCGAAAAACTTATAGATGACT--AA-GAA
1 GTCTTATAGATGGCCCGA-AGGACTTTTCATCTTGCTCGAAAGACTTACAGATGACTCAAATG-A
* * * * * *
2246291 TTTAATCATCATGCTCGAAAGAGTTACTGATGGCTCGGAGGACTTACTAATTTTGAAAATAGTA-
64 TTTAATCATCATGCTCGAAAGAATTAATG-CGACCCGAAGGACTTACTAATTTTGAAAATAG-AC
* * * * *
2246355 TACTATGTAACAAAGTTTGGAAATCACTTTCTTATTTTTCAAAAATTTCATTTTC-AGAAATGAT
127 TACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCGA-AAAAGAT
* * * * *
2246419 TAAATAATAAACTTTGAAAATCGATTTCTTATTTTTTTCAAATGATATGAAAACATCATGCCCGA
191 TAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTCAAATCATATGAAAACATCATGCCCGA
2246484 AG
256 AG
* * * *
2246486 GTCTTATAGATGGCCTGGAA-GACTTTTCAACTTGCTCTAAAGACTTACAGATGACCCAAATGAT
1 GTCTTATAGATGGCC-CGAAGGACTTTTCATCTTGCTCGAAAGACTTACAGATGACTCAAATGAT
* * ** *
2246550 TTAATCATCATGAT-TAGAAGACTTATTAAT--GACCCGGTGGACTTACTAATTTTGGAAATA-A
65 TTAATCATCATGCTCGA-AAGA---ATTAATGCGACCCGAAGGACTTACTAATTTTGAAAATAGA
* * * * *
2246611 TCTATTAAGTAAGAAACTTTGAAAATAACTTTCTTACTTTTCAAAAATTTCATTTTCGGAAAAGA
126 -CTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCGAAAAAGA
* * * * *
2246676 TAAAATCATAAACTTT-AAAATTCGCTTTCTCA-TTTTTTCACAAGTCCTATGAAAAAATCAT
190 TTAAATGAGAAACTTTGAAAA-TCGCTTTCTCATTTTTTTCA-AA-TCATATGAAAACATCAT
2246737 AGTGGTCGGG
Statistics
Matches: 638, Mismatches: 102, Indels: 58
0.80 0.13 0.07
Matches are distributed among these distances:
256 79 0.12
257 72 0.11
258 162 0.25
259 61 0.10
260 69 0.11
261 134 0.21
262 55 0.09
263 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (257 bp):
GTCTTATAGATGGCCCGAAGGACTTTTCATCTTGCTCGAAAGACTTACAGATGACTCAAATGATT
TAATCATCATGCTCGAAAGAATTAATGCGACCCGAAGGACTTACTAATTTTGAAAATAGACTACT
AGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCGAAAAAGATTAAAT
GAGAAACTTTGAAAATCGCTTTCTCATTTTTTTCAAATCATATGAAAACATCATGCCCGAAG
Done.