Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 62
Found at i:2145835 original size:17 final size:17
Alignment explanation
Indices: 2145813--2145855 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
2145803 TAATCTTAAT
2145813 GAACCCAACTGGAGGAG
1 GAACCCAACTGGAGGAG
2145830 GAACCCAACTGGAGGAG
1 GAACCCAACTGGAGGAG
2145847 GAACCCAAC
1 GAACCCAAC
2145856 AAGAAGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.28, G:0.30, T:0.05
Consensus pattern (17 bp):
GAACCCAACTGGAGGAG
Found at i:2151415 original size:13 final size:13
Alignment explanation
Indices: 2151397--2151422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2151387 AAAAAACATA
2151397 TAATCATTGTTAG
1 TAATCATTGTTAG
2151410 TAATCATTGTTAG
1 TAATCATTGTTAG
2151423 GAAACACTTC
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TAATCATTGTTAG
Found at i:2151969 original size:186 final size:187
Alignment explanation
Indices: 2151626--2151977 Score: 498
Period size: 186 Copynumber: 1.9 Consensus size: 187
2151616 TTCCATCATC
* *
2151626 AATGACTGTTCTTCATCTGTTATATATACTGTTGATTAATGGATGCCTCCAGTTTAAGGTGCCAA
1 AATGACTGTTCTTCATCTGTTATATATACTGTTGATTAATGAATGCCTCCAATTTAAGGTGCC-A
* * * *
2151691 ATAATATTGAGGCTGTTTTCAAGTGCCAATTACCATGGATAATTTTTTAAAAAGTGGTGTTTTAT
65 ATAATATTGAGGCTGTTTTCAAGTGCAAATTACCAGGGAGAATTTTTTAAAAAGTGCTGTTTTAT
* *
2151756 TCTGCATGCTTGTGTATCGGTTTAAGTTGGAATTTTTCTTGTTTCAAGTGCCAATAAT
130 TCCGCATGCTTGTGTATCAGTTTAAGTTGGAATTTTTCTTGTTTCAAGTGCCAATAAT
*
2151814 AATGACTGTTCTTCATCTGTTATATA-A-TGTTGATTAATGAATGCCTCCAATTTAAGTTGCC-A
1 AATGACTGTTCTTCATCTGTTATATATACTGTTGATTAATGAATGCCTCCAATTTAAGGTGCCAA
* * * * *
2151876 TACTATTGAGGCTGTTTTCAAGTGCAAATTTCTAGGGAGATTTGTTTTAGAAAGTGTCTGGTTTT
66 TAATATTGAGGCTGTTTTCAAGTGCAAATTACCAGGGAGAATT-TTTTAAAAAGTG-CT-GTTTT
2151941 GA-TCCGCATGCTTGTGTATCAG-TTAAGTTGGAATTTT
128 -ATTCCGCATGCTTGTGTATCAGTTTAAGTTGGAATTTT
2151978 CTCTCAGCAT
Statistics
Matches: 146, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
184 37 0.25
185 11 0.08
186 47 0.32
187 24 0.16
188 27 0.18
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (187 bp):
AATGACTGTTCTTCATCTGTTATATATACTGTTGATTAATGAATGCCTCCAATTTAAGGTGCCAA
TAATATTGAGGCTGTTTTCAAGTGCAAATTACCAGGGAGAATTTTTTAAAAAGTGCTGTTTTATT
CCGCATGCTTGTGTATCAGTTTAAGTTGGAATTTTTCTTGTTTCAAGTGCCAATAAT
Found at i:2153826 original size:19 final size:19
Alignment explanation
Indices: 2153802--2153853 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2153792 AATGCATTTT
2153802 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
2153821 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
*
2153840 ATGTATCGATGCAC
1 ATGCATCGATGCAC
2153854 TCTGGCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (19 bp):
ATGCATCGATGCACCAGCC
Found at i:2153826 original size:84 final size:83
Alignment explanation
Indices: 2153736--2153898 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 83
2153726 GAATGCATTT
* * *
2153736 CATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATT
1 CATGCATCGATGCACCA-ACCATGCACCGATGCACTCAGGATATT-TCAAAACATCGAATGCATT
2153800 TTATGCATCGATGCACCAGC
64 TTATGCATCGATGCACCAGC
* * * * * *
2153820 CATGCATCGATGCACCAGCCATGTATCGATGCACTCTGGCTATTTCAAAACATCGAATGTATTTT
1 CATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTCAAAACATCGAATGCATTTT
2153885 ATGCATCGATGCAC
66 ATGCATCGATGCAC
2153899 TCTTAGTGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 33 0.48
84 34 0.49
85 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (83 bp):
CATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTCAAAACATCGAATGCATTTT
ATGCATCGATGCACCAGC
Found at i:2154280 original size:14 final size:14
Alignment explanation
Indices: 2154261--2154298 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
2154251 GTACTCAATT
2154261 GTATTCATTTTTGA
1 GTATTCATTTTTGA
2154275 GTATTCATTTTTGA
1 GTATTCATTTTTGA
2154289 GTATTC-TTTT
1 GTATTCATTTT
2154299 CTTTATTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.61
Consensus pattern (14 bp):
GTATTCATTTTTGA
Found at i:2168548 original size:177 final size:179
Alignment explanation
Indices: 2168252--2168602 Score: 620
Period size: 177 Copynumber: 2.0 Consensus size: 179
2168242 ATGTCTCTGG
2168252 AATTTGAATATGATTAACCTGAGCTGTGAAGTCTTAAAACTAGACATTAGTTTCCATAAGCAACA
1 AATTTGAATATGATTAACCTGAGCTGTGAAGTCTTAAAACTAGACATTAGTTTCCATAAGCAACA
2168317 AATTTACTAATAGGATTAGTTGTACATCGTTAACACCCTTTCTTTGAGCAATTGGTAACTCAC-T
66 AATTTACTAATAGGATTAGTTGTACATCG-TAACACCCTTTCTTTGAGCAATTGGTAACTCACAT
2168381 -CCAATTACCTTATCCAACTTACTTTGGTCACTA-TCTTTTTTTCGTTGA
130 ACCAATTACCTTATCCAACTTACTTTGGTCACTATTCTTTTTTTCGTTGA
2168429 AATTTGAATATGATTAACCTGAGCTGTGAAAGTCTTAAAACTAGACATTAGTTTCCCATAAGCAA
1 AATTTGAATATGATTAACCTGAGCTGTG-AAGTCTTAAAACTAGACATTAGTTT-CCATAAGCAA
2168494 CAAATTTACTAATAGGATTAGTTGTACATC-TAACACCCTTTCTTTGAGCAATTGGTAACTCACT
64 CAAATTTACTAATAGGATTAGTTGTACATCGTAACACCCTTTCTTTGAGCAATTGGTAACTCAC-
*
2168558 AGTATCAATTACCTTATCCAACTTACTTTGGTCACTATTCTTTTT
128 A-TACCAATTACCTTATCCAACTTACTTTGGTCACTATTCTTTTT
2168603 CTGTTGATGG
Statistics
Matches: 166, Mismatches: 1, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
177 61 0.37
178 25 0.15
179 40 0.24
180 1 0.01
181 32 0.19
182 7 0.04
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (179 bp):
AATTTGAATATGATTAACCTGAGCTGTGAAGTCTTAAAACTAGACATTAGTTTCCATAAGCAACA
AATTTACTAATAGGATTAGTTGTACATCGTAACACCCTTTCTTTGAGCAATTGGTAACTCACATA
CCAATTACCTTATCCAACTTACTTTGGTCACTATTCTTTTTTTCGTTGA
Found at i:2169531 original size:22 final size:21
Alignment explanation
Indices: 2169488--2169532 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
2169478 CATCGATGTG
* *
2169488 CACATAATTGTCCCGAATGAC
1 CACATAATTGTCCCAAAGGAC
*
2169509 CACATAATTTGTCCTAAAGGAC
1 CACATAA-TTGTCCCAAAGGAC
2169531 CA
1 CA
2169533 AATAGAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (21 bp):
CACATAATTGTCCCAAAGGAC
Found at i:2181273 original size:135 final size:135
Alignment explanation
Indices: 2181120--2181494 Score: 417
Period size: 135 Copynumber: 2.8 Consensus size: 135
2181110 GAAAATCTAT
* * * * *
2181120 TAATTTATATATATATATATATA-TAAGATATTTATTTATTTAGAAATA-TTAGAAAAT-GACTT
1 TAATTTAAAAATATATATA-AAAGTAAGATATTTATTTATTTAAAAATATTTA-AAAATAGACAT
* *
2181182 CTAGGTGCTTTAAGACAGCTCTTTTCTCAATATTAAAAAAATAAATAAATATTAATAAAACATTA
64 CCAGGTGCTTTAAGACAGC-CATTTCTCAATATT-AAAAAATAAATAAATATTAATAAAACATTA
2181247 ATCT-AAAA
127 ATCTAAAAA
2181255 TAATTTAAAAATATATATAAAAGTAAGATATTTATTTATTTAAAAATATTTAAAAATAGACATCC
1 TAATTTAAAAATATATATAAAAGTAAGATATTTATTTATTTAAAAATATTTAAAAATAGACATCC
* * * * *
2181320 AGTTGCTTTAAGACTGCCATTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCT
66 AGGTGCTTTAAGACAGCCATTTCTCAATATTAAAAAATAAATAAATATTAATAAAACATTAATCT
2181385 AAAAA
131 AAAAA
* * * * ** * *
2181390 TAATATATATATAATTTATAAAAGTAA-A-A--TATTTATTTAAAAATATCAAAAAATGGATATC
1 TAATTTAAAAAT-ATATATAAAAGTAAGATATTTATTTATTTAAAAATATTTAAAAATAGACATC
* * * *
2181451 CAGTTGCTTTAAGACTG-CACTTTCTTAATATTGAAAAATAAATA
65 CAGGTGCTTTAAGACAGCCA-TTTCTCAATATTAAAAAATAAATA
2181495 TTAAAACATG
Statistics
Matches: 214, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
131 2 0.01
132 69 0.32
134 35 0.16
135 72 0.34
136 36 0.17
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (135 bp):
TAATTTAAAAATATATATAAAAGTAAGATATTTATTTATTTAAAAATATTTAAAAATAGACATCC
AGGTGCTTTAAGACAGCCATTTCTCAATATTAAAAAATAAATAAATATTAATAAAACATTAATCT
AAAAA
Found at i:2181462 original size:132 final size:132
Alignment explanation
Indices: 2181130--2181494 Score: 436
Period size: 132 Copynumber: 2.7 Consensus size: 132
2181120 TAATTTATAT
* * * * *
2181130 ATATATATATATA-TAAGATATTTATTTATTTAGAAATATTAGAAAATGACT-TCTAGGTGCTTT
1 ATATATATA-AAAGTAAGATA-TTATTTATTTAAAAATATTAAAAAATGA-TATCCAGTTGCTTT
* * * *
2181193 AAGACAGCTCTTTTCTCAATATTAAAAAAATAAATAAATATTAATAAAACATTAATCTAAAATAA
63 AAGACTGC-CATTTCTTAATATT-GAAAAATAAATAAATATTAATAAAACATTAATCTAAAATAA
*
2181258 TTTAAAA
126 TATAAAA
* *
2181265 ATATATATAAAAGTAAGATATTTATTTATTTAAAAATATTTAAAAATAGACATCCAGTTGCTTTA
1 ATATATATAAAAGTAAGATA-TTATTTATTTAAAAATATTAAAAAAT-GATATCCAGTTGCTTTA
*
2181330 AGACTGCCATTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCTAAAAATAATA
64 AGACTGCCATTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTAATCT-AAAATAATA
* *
2181395 TATAT
128 TAAAA
* *
2181400 ATAATTTATAAAAGTAA-A-A-TATTTATTTAAAAATATCAAAAAATGGATATCCAGTTGCTTTA
1 AT-ATATATAAAAGTAAGATATTATTTATTTAAAAATATTAAAAAAT-GATATCCAGTTGCTTTA
2181462 AGACTG-CACTTTCTTAATATTGAAAAATAAATA
64 AGACTGCCA-TTTCTTAATATTGAAAAATAAATA
2181495 TTAAAACATG
Statistics
Matches: 204, Mismatches: 20, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
131 2 0.01
132 69 0.34
134 35 0.17
135 66 0.32
136 32 0.16
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (132 bp):
ATATATATAAAAGTAAGATATTATTTATTTAAAAATATTAAAAAATGATATCCAGTTGCTTTAAG
ACTGCCATTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTAATCTAAAATAATATAA
AA
Found at i:2181514 original size:122 final size:129
Alignment explanation
Indices: 2181152--2181539 Score: 368
Period size: 132 Copynumber: 3.0 Consensus size: 129
2181142 ATAAGATATT
* * * * * * * * *
2181152 TATTTATTTAGAAATATTAGAAAAT-GACTTCTAGGTGCTTTAAGACAGCTCTTTTCTCAATATT
1 TATTTATTTAAAAATATCAAAAAATAGACATCCAGTTGCTTTAAGACTGC-CATTTCTTAATATT
* * * * *
2181216 AAAAAAATAAATAAATATTAATAAAACATTAATCT-AAAATAATTTAAAAAT-ATATATAAAAGT
65 ---GAAATAAATAAATATT-ATAAAACATTGATCTAAAAATAATATAAAAGTAATTTATAAAAGT
2181279 AAGATA
126 AA-A-A
**
2181285 TTTATTTATTTAAAAATATTTAAAAATAGACATCCAGTTGCTTTAAGACTGCCATTTCTTAATAT
1 --TATTTATTTAAAAATATCAAAAAATAGACATCCAGTTGCTTTAAGACTGCCATTTCTTAATAT
* *
2181350 TGAAAAATAAATAAATATTAATAAAACATTTATCTAAAAATAATATATATA-TAATTTATAAAAG
64 TG--AAATAAATAAATATT-ATAAAACATTGATCTAAAAATAATATA-AAAGTAATTTATAAAAG
2181414 TAAAA
125 TAAAA
* *
2181419 TATTTATTTAAAAATATCAAAAAATGGATATCCAGTTGCTTTAAGACTG-CACTTTCTTAATATT
1 TATTTATTTAAAAATATCAAAAAATAGACATCCAGTTGCTTTAAGACTGCCA-TTTCTTAATATT
* *
2181483 G-AA-AAATAAATA-T-TAAAACA-TGAT-T-AAAATAATTTAAAAGTAATTTATAAAATTAAA
65 GAAATAAATAAATATTATAAAACATTGATCTAAAAATAATATAAAAGTAATTTATAAAAGTAAA
2181540 TTTATAAATA
Statistics
Matches: 223, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
121 2 0.01
122 26 0.12
123 1 0.00
124 3 0.01
125 7 0.03
127 1 0.00
128 9 0.04
129 2 0.01
131 2 0.01
132 58 0.26
134 31 0.14
135 46 0.21
136 35 0.16
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (129 bp):
TATTTATTTAAAAATATCAAAAAATAGACATCCAGTTGCTTTAAGACTGCCATTTCTTAATATTG
AAATAAATAAATATTATAAAACATTGATCTAAAAATAATATAAAAGTAATTTATAAAAGTAAAA
Found at i:2182970 original size:3 final size:3
Alignment explanation
Indices: 2182964--2183046 Score: 75
Period size: 3 Copynumber: 29.0 Consensus size: 3
2182954 TATTTATTAT
* * * * *
2182964 TAA TAA TAA TAT TAA TAA TAC TTA TAA TAA TTA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2183012 T-A TAA TAA TCA -AA TAA -AA TAA T-A TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2183047 AAAAACAAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
2 7 0.11
3 55 0.89
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2183636 original size:113 final size:112
Alignment explanation
Indices: 2183503--2183997 Score: 590
Period size: 107 Copynumber: 4.5 Consensus size: 112
2183493 GATAGTCGTG
* * *
2183503 CAAAA-GTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCATT-TTTAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCT-A
** *
2183566 TTATGAACTTTCTCTGGAAAAGTTGATCCATGGAGTGATGAATTCAAA
65 TTATGAACTTTCTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGAA
* * * * *
2183614 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCATTCTTCAGATGAGTTTTTCTC
1 CAAAAGG-TTGAACAAGTTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCT-
* * * * *
2183679 ATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAGTGATGAATTCGAG
64 ATTATGAACT-TTCTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGAA
*
2183728 CAAAAGGTTGAACAAGTTCTTATCATTATGAAC-TA--CTTCATTCTTCAGATGAGTTC-T-TAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCTAT
* * *
2183788 TATGAACTTTTTCTGGAAAAGTTGATCCATCTAGTGATGAATTTGAG
66 TATGAACTTTCTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGAA
*
2183835 CAAAAGGTTAAACAAGTTCTTCTCATTATGAAC---TTCTTCATTCTTCAGATGAG---TTCT-T
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCTAT
* * *
2183893 TATGAACTTTTTCTGGAAAAGTTGAT-TATCTAGTGATGAATTTGAA
66 TATGAACTTTCTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGAA
* * * *
2183939 CAAAAGGTTGAATAAGTTCTTCTCATTATAAACTTCTTTTTCATTCTTCAGATGAGTTC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTC
2183998 ACCACTTTAA
Statistics
Matches: 334, Mismatches: 35, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
104 48 0.14
105 28 0.08
106 2 0.01
107 109 0.33
108 1 0.00
109 1 0.00
110 20 0.06
111 5 0.01
112 2 0.01
113 55 0.16
114 61 0.18
115 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (112 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCTAT
TATGAACTTTCTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGAA
Found at i:2186008 original size:17 final size:18
Alignment explanation
Indices: 2185975--2186008 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2185965 TGATTATACC
2185975 ATGAAAAGCCATCCATGA
1 ATGAAAAGCCATCCATGA
*
2185993 ATGAAAA-CCATGCATG
1 ATGAAAAGCCATCCATG
2186009 TCCTGTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGAAAAGCCATCCATGA
Found at i:2191585 original size:3 final size:3
Alignment explanation
Indices: 2191579--2191673 Score: 149
Period size: 3 Copynumber: 32.3 Consensus size: 3
2191569 TATTATTATT
* *
2191579 ATA ATA ATT ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
2191627 ATC A-A ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2191673 A
1 A
2191674 AACAAAATAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
2 3 0.04
3 81 0.96
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2192182 original size:19 final size:20
Alignment explanation
Indices: 2192158--2192207 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2192148 AGTTATTTTT
* *
2192158 AGTATCGATGCTC-AGGGTG
1 AGTATCGATACTCAAGGGTC
*
2192177 AGTATCGATATTCAAGGGTC
1 AGTATCGATACTCAAGGGTC
2192197 AGTATCGATAC
1 AGTATCGATAC
2192208 CATAGTTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGTC
Found at i:2208336 original size:12 final size:12
Alignment explanation
Indices: 2208290--2208340 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2208280 ATTTCCATAT
*
2208290 TCTTCTCTTCATT
1 TCTT-TCTTCATC
*
2208303 TCTTCCTTCATTC
1 TCTTTCTTCA-TC
*
2208316 TCATT-TTCATC
1 TCTTTCTTCATC
2208327 TCTTTCTTCATC
1 TCTTTCTTCATC
2208339 TC
1 TC
2208341 CAAGTTCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 6 0.19
12 17 0.55
13 8 0.26
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (12 bp):
TCTTTCTTCATC
Found at i:2214142 original size:2 final size:2
Alignment explanation
Indices: 2214135--2214198 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
2214125 AACATCACTC
2214135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2214177 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
2214199 GGGTGAATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2219662 original size:16 final size:15
Alignment explanation
Indices: 2219633--2219719 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 15
2219623 ACGCACGTGC
2219633 GCACACACTTACATACA
1 GCACACAC--ACATACA
2219650 TGCACACACACATACA
1 -GCACACACACATACA
**
2219666 -CACACACACGCACA
1 GCACACACACATACA
* *
2219680 -CACACACGCACAC-
1 GCACACACACATACA
2219693 GCACACGCACACATACA
1 GCACA--CACACATACA
*
2219710 -CACACGCACA
1 GCACACACACA
2219720 CGCGCACGCG
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 32 0.55
16 18 0.31
18 8 0.14
ACGTcount: A:0.41, C:0.44, G:0.08, T:0.07
Consensus pattern (15 bp):
GCACACACACATACA
Found at i:2219674 original size:6 final size:6
Alignment explanation
Indices: 2219652--2219720 Score: 75
Period size: 6 Copynumber: 11.5 Consensus size: 6
2219642 TACATACATG
* * * * *
2219652 CACACA CACATA CACACA CACACG CACACA CACACG CACACG CACACG
1 CACACA CACACA CACACA CACACA CACACA CACACA CACACA CACACA
* *
2219700 CACACA TACACA CACGCA CAC
1 CACACA CACACA CACACA CAC
2219721 GCGCACGCGC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.42, C:0.48, G:0.07, T:0.03
Consensus pattern (6 bp):
CACACA
Found at i:2219678 original size:24 final size:24
Alignment explanation
Indices: 2219651--2219726 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
2219641 TTACATACAT
*
2219651 GCACACACACATACACACACACAC
1 GCACACACACACACACACACACAC
* *
2219675 GCACACACACACGCACACGCACAC
1 GCACACACACACACACACACACAC
* * *
2219699 GCACACATACACACACGCACACGC
1 GCACACACACACACACACACACAC
2219723 GCAC
1 GCAC
2219727 GCGCACGCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.39, C:0.47, G:0.11, T:0.03
Consensus pattern (24 bp):
GCACACACACACACACACACACAC
Found at i:2219715 original size:22 final size:22
Alignment explanation
Indices: 2219656--2219722 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
2219646 TACATGCACA
2219656 CACACATACACACA--CACACG
1 CACACATACACACACGCACACG
*
2219676 CACACACACACGCACACGCACACG
1 CACACATACA--CACACGCACACG
2219700 CACACATACACACACGCACACG
1 CACACATACACACACGCACACG
2219722 C
1 C
2219723 GCACGCGCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.22
22 17 0.41
24 15 0.37
ACGTcount: A:0.40, C:0.48, G:0.09, T:0.03
Consensus pattern (22 bp):
CACACATACACACACGCACACG
Found at i:2219721 original size:6 final size:6
Alignment explanation
Indices: 2219664--2219734 Score: 74
Period size: 6 Copynumber: 12.2 Consensus size: 6
2219654 CACACACATA
* * * *
2219664 CACACA CACACG CACACA CACACG CACACG CACACG CACA-- CATACA
1 CACACG CACACG CACACG CACACG CACACG CACACG CACACG CACACG
* *
2219710 CACACG CACACG CGCACG CGCACG C
1 CACACG CACACG CACACG CACACG C
2219735 GCACACGTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
4 3 0.05
6 53 0.95
ACGTcount: A:0.35, C:0.49, G:0.14, T:0.01
Consensus pattern (6 bp):
CACACG
Found at i:2219740 original size:28 final size:28
Alignment explanation
Indices: 2219652--2219728 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
2219642 TACATACATG
* * * * *
2219652 CACACACACATACACACACACACGCACA
1 CACACACGCACACGCACACGCACACACA
*
2219680 CACACACGCACACGCACACGCACACATA
1 CACACACGCACACGCACACGCACACACA
*
2219708 CACACACGCACACGCGCACGC
1 CACACACGCACACGCACACGC
2219729 GCACGCGCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.39, C:0.48, G:0.10, T:0.03
Consensus pattern (28 bp):
CACACACGCACACGCACACGCACACACA
Found at i:2220821 original size:62 final size:62
Alignment explanation
Indices: 2220752--2220875 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
2220742 GTATCCTATT
*
2220752 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAATATTTTTATAG
1 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAACATTTTTATAG
*
2220814 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATTGATGAAACATTTTTATAG
1 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAACATTTTTATAG
2220876 AATTTATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (62 bp):
GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAACATTTTTATAG
Found at i:2221836 original size:3 final size:3
Alignment explanation
Indices: 2221830--2221893 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
2221820 TCTAAAAAAA
* * * *
2221830 TAT TAT TAAT TAT TAT AAT AAT AAT AAT TAT TAT TAT TACT T-T TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
2221876 TAT TAT TAAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TA
2221894 CATTATTTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 2 0.04
3 45 0.82
4 8 0.15
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:2221861 original size:28 final size:28
Alignment explanation
Indices: 2221830--2221900 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
2221820 TCTAAAAAAA
2221830 TATTATTAATTATTATAATAATAATAAT
1 TATTATTAATTATTATAATAATAATAAT
* * * *
2221858 TATTATT-ATTACTTTTATTATTATTAAT
1 TATTATTAATTA-TTATAATAATAATAAT
2221886 TATTATTACATTATT
1 TATTATTA-ATTATT
2221901 TTGTGCAGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.11
28 26 0.72
29 2 0.06
30 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTATTAATTATTATAATAATAATAAT
Found at i:2221900 original size:18 final size:16
Alignment explanation
Indices: 2221830--2221893 Score: 78
Period size: 15 Copynumber: 4.1 Consensus size: 16
2221820 TCTAAAAAAA
2221830 TATTATTAATTATTA-
1 TATTATTAATTATTAT
* * *
2221845 TAATAATAATAATTAT
1 TATTATTAATTATTAT
*
2221861 TATTATTACTT-TTAT
1 TATTATTAATTATTAT
2221876 TATTATTAATTATTAT
1 TATTATTAATTATTAT
2221892 TA
1 TA
2221894 CATTATTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
15 26 0.67
16 13 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTAATTATTAT
Found at i:2223419 original size:29 final size:31
Alignment explanation
Indices: 2223372--2223429 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
2223362 ATTTCTAGTG
*
2223372 TCTGTATTTGTTTAAAAT-GTAGATTAGGGA
1 TCTGTATTTGTTCAAAATGGTAGATTAGGGA
* *
2223402 TCTG-ATTTGTTCATAATGGTTGATTAGG
1 TCTGTATTTGTTCAAAATGGTAGATTAGG
2223430 TCCTTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (31 bp):
TCTGTATTTGTTCAAAATGGTAGATTAGGGA
Found at i:2224520 original size:3 final size:3
Alignment explanation
Indices: 2224512--2224551 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2224502 GTGAGGCAAT
2224512 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2224552 GGAAATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2226105 original size:13 final size:13
Alignment explanation
Indices: 2226087--2226111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2226077 GTCTTCACGG
2226087 TGAAGAAGAAGAA
1 TGAAGAAGAAGAA
2226100 TGAAGAAGAAGA
1 TGAAGAAGAAGA
2226112 GAAATCTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
TGAAGAAGAAGAA
Found at i:2227450 original size:15 final size:14
Alignment explanation
Indices: 2227417--2227459 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
2227407 GGATCAATGT
2227417 TTTTGCATA-TGCA
1 TTTTGCATATTGCA
2227430 -TTTGCATATTTGCA
1 TTTTGCATA-TTGCA
2227444 TTTTGCATA-TGCA
1 TTTTGCATATTGCA
2227457 TTT
1 TTT
2227460 CTTTTAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 4 0.15
15 8 0.30
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTGCATATTGCA
Found at i:2229935 original size:37 final size:37
Alignment explanation
Indices: 2229884--2229974 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 37
2229874 TCTGAGATTG
**
2229884 TTTCTCTTGAAACAAAGTGTCGTCCCACTAGAGACAGT
1 TTTCTCTAAAAACAAA-TGTCGTCCCACTAGAGACAGT
* * * * *
2229922 TTTCT-TAAAAACAAATTTTGTCTCGCTTGAGACAGT
1 TTTCTCTAAAAACAAATGTCGTCCCACTAGAGACAGT
*
2229958 TTTCTCTAAAATCAAAT
1 TTTCTCTAAAAACAAAT
2229975 TTTGTCTCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 21 0.48
37 18 0.41
38 5 0.11
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (37 bp):
TTTCTCTAAAAACAAATGTCGTCCCACTAGAGACAGT
Found at i:2229956 original size:36 final size:37
Alignment explanation
Indices: 2229914--2229998 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
2229904 CGTCCCACTA
2229914 GAGACAGTTTTCT-TAAAAACAAATTTTGTCTCGCTT
1 GAGACAGTTTTCTCTAAAAACAAATTTTGTCTCGCTT
*
2229950 GAGACAGTTTTCTCTAAAATCAAATTTTGTCTCGCTT
1 GAGACAGTTTTCTCTAAAAACAAATTTTGTCTCGCTT
*
2229987 GAGACATTTTTC
1 GAGACAGTTTTC
2229999 CTTTGAGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 13 0.28
37 33 0.72
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (37 bp):
GAGACAGTTTTCTCTAAAAACAAATTTTGTCTCGCTT
Found at i:2230120 original size:102 final size:103
Alignment explanation
Indices: 2229930--2230168 Score: 315
Period size: 102 Copynumber: 2.3 Consensus size: 103
2229920 GTTTTCTTAA
* * *
2229930 AAACAAATTTTGTCTCGCTTGAGACAGTTTTCTCTAAAATCAAATTTTGTCTCGCTTGAGACATT
1 AAACAAATTTTGTCTCACTTGAGACAGTTTTCTCTAAAATCAAATTTTGTCTCCCTTGAGACATG
* *
2229995 TTTCCTTTGAGATACAAATTTTGAGTTTGTTTCACTTG
66 TTTCCTTTGAAACACAAATTTTGAGTTTGTTTCACTTG
* * * *
2230033 AAACAAAGTTTATCTCACTTGAGATTATTTTTCTC-AAAA-CAAATTTTGTCTCCCTTGAGACA-
1 AAACAAATTTTGTCTCACTTGAGA-CAGTTTTCTCTAAAATCAAATTTTGTCTCCCTTGAGACAT
* *
2230095 GTTTCTTTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
65 GTTTCCTTTGAAACACAAAT-TTTGAGTTTGTTTCACTTG
* *
2230135 AAACAAATTTTGTCTCCCTTGAGACA-ATTTCTCT
1 AAACAAATTTTGTCTCACTTGAGACAGTTTTCTCT
2230169 TGAAAGACAA
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
100 6 0.05
101 17 0.15
102 61 0.52
103 25 0.21
104 8 0.07
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.42
Consensus pattern (103 bp):
AAACAAATTTTGTCTCACTTGAGACAGTTTTCTCTAAAATCAAATTTTGTCTCCCTTGAGACATG
TTTCCTTTGAAACACAAATTTTGAGTTTGTTTCACTTG
Found at i:2230121 original size:66 final size:66
Alignment explanation
Indices: 2230051--2230440 Score: 500
Period size: 66 Copynumber: 5.9 Consensus size: 66
2230041 TTTATCTCAC
* * ** *
2230051 TTGAGATTATTTTTCTCAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGAAACACAAATC
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
2230116 T
66 T
* * * *
2230117 TTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAAGACAAATA
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
2230182 T
66 T
* * *** *
2230183 TTGAGCA-TGTTTATATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGTTTCACAGAT
1 TTGAG-ATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAT
2230247 CT
65 CT
* *
2230249 TTGAG-TCTGTTTCTCTTGAAACAAATTTTGTCTCCATTGAGACAGTTTATCTTGAAACACAAAT
1 TTGAGAT-TGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAT
2230313 CT
65 CT
* * * *
2230315 TTGAGTTTGTTTCTCTTGAAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACACAAATC
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
2230380 T
66 T
* *
2230381 TTGA-ATT-TAATTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGGCAGTTTCTCTTGAAACA
1 TTGAGATTGT--TTCTCTTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2230441 AATCCCTAAA
Statistics
Matches: 279, Mismatches: 38, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
64 1 0.00
65 2 0.01
66 245 0.88
67 31 0.11
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (66 bp):
TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
T
Found at i:2230155 original size:21 final size:21
Alignment explanation
Indices: 2230122--2230161 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2230112 AATCTTTGAG
* *
2230122 TTTGTTTCTCTTGAAACAAAT
1 TTTGTCTCCCTTGAAACAAAT
*
2230143 TTTGTCTCCCTTGAGACAA
1 TTTGTCTCCCTTGAAACAA
2230162 TTTCTCTTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTGTCTCCCTTGAAACAAAT
Found at i:2230292 original size:198 final size:198
Alignment explanation
Indices: 2230069--2230435 Score: 578
Period size: 198 Copynumber: 1.8 Consensus size: 198
2230059 ATTTTTCTCA
* * *
2230069 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGAAACACAAATCTTTGAGTTTGTTTCTCTT
1 AAACAAATTTTGTCTCCATTGAGACAGTTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTT
* * *
2230134 GAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAAGACAAATATTTGAGCATGTTTA-T-
66 GAAACAAATGTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAATATTTGA--AT-TTAATTC
2230197 ATTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTCTTGTTTCACAGATCTTTGAGTCTGTTT
128 ATTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGTTTCACAGATCTTTGAGTCTGTTT
2230261 CTCTTG
193 CTCTTG
2230267 AAACAAATTTTGTCTCCATTGAGACAGTTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTT
1 AAACAAATTTTGTCTCCATTGAGACAGTTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTT
* * * *
2230332 GAAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACACAAATCTTTGAATTTAATTCCCT
66 GAAACAAATGTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAATATTTGAATTTAATT-CAT
*
2230397 TGAAACAAAGTTTTGTCTCCCTTGAGGCAGTTTCTCTTG
130 TGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTG
2230436 AAACAAATCC
Statistics
Matches: 154, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
195 3 0.02
196 3 0.02
198 120 0.78
199 28 0.18
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (198 bp):
AAACAAATTTTGTCTCCATTGAGACAGTTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTT
GAAACAAATGTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAATATTTGAATTTAATTCATT
GAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGTTTCACAGATCTTTGAGTCTGTTTCTC
TTG
Found at i:2230364 original size:102 final size:101
Alignment explanation
Indices: 2229930--2230373 Score: 300
Period size: 102 Copynumber: 4.4 Consensus size: 101
2229920 GTTTTCTTAA
* * * *
2229930 AAACAAATTTTGTCTCGCTTGAGACAGTTTTCTC-TAAAATCAAATTTTGTCTCGCTTGAGACA-
1 AAACAAATGTTGTCTCCCTTGAGATA-TTTTCTCTTGAAA-CAAATTTTGTCTC-CTTGAGACAG
* * * *
2229993 TTTTTCCTTTGAGATACAAAT-TTTGAGTTTGTTTCACTTG
63 TTTAT-C-TTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
* * **
2230033 AAACAAA-GTTTATCTCACTTGAGATTATTTT-TCTCAAAACAAATTTTGTCTCCCTTGAGACAG
1 AAACAAATG-TTGTCTCCCTTGAGA-TATTTTCTCTTGAAACAAATTTTGTCT-CCTTGAGACAG
* *
2230096 TTTCTTTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
63 TTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
* * * *
2230135 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAAGACAAA-----TAT--TTGAG-CATG
1 AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTG-AA-ACAAATTTTGTCTCCTTGAGACA-G
* * ***
2230192 TTTATATTGAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTG
63 TTTATCTTGAAACACAA----ATCT---TTGAGTTTGTTTCTCTTG
*** * * *
2230237 TTTCACA-G--ATCT---TTGAG-TCTGTTTCTCTTGAAACAAATTTTGTCTCCATTGAGACAGT
1 AAACAAATGTTGTCTCCCTTGAGATAT-TTTCTCTTGAAACAAATTTTGTCTCC-TTGAGACAGT
2230295 TTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
64 TTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
2230333 AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACA
1 AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACA
2230374 CAAATCTTTG
Statistics
Matches: 260, Mismatches: 45, Indels: 73
0.69 0.12 0.19
Matches are distributed among these distances:
94 5 0.02
95 6 0.02
96 50 0.19
97 1 0.00
99 16 0.06
101 15 0.06
102 120 0.46
103 41 0.16
104 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (101 bp):
AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACAAATTTTGTCTCCTTGAGACAGTTT
ATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
Found at i:2230683 original size:131 final size:131
Alignment explanation
Indices: 2230442--2230801 Score: 357
Period size: 131 Copynumber: 2.7 Consensus size: 131
2230432 CTTGAAACAA
** * * *
2230442 ATCCCTAAAGATGGTCTGTCATCCTCATCGCGTAGGAACTGTGTCATCCACCGACTAGATCTTCT
1 ATCCCTAAAGATGGTCTACCATCCTCATCACATAGGAACTGTGTCATCCACCGACTAGATCTCCT
* * * * *
2230507 CATCGCGTAGGAGCCTTGTCACCCTTAGATAACCAGCCGTTCTCATCACGTAGGAACCATGTTAT
66 CATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTAT
2230572 C
131 C
* *
2230573 ATCCCTAAAGATGG-CATACCATCCTCATCACATAGGAACTGTGTCTTCCACTGACTAGA-CATC
1 ATCCCTAAAGATGGTC-TACCATCCTCATCACATAGGAACTGTGTCATCCACCGACTAGATC-TC
* ** *
2230636 CTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATTGCGTAGGAACCGTGTT
64 CTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCATGTT
2230701 ATC
129 ATC
* * * ** * ** * *
2230704 ACCCTCCCTAAAGAT-GTCCAAGACGTCCTCATTTCGTAGGAACAATGTCATCCCCCGACCAGAT
1 A---TCCCTAAAGATGGT-CTA-CCATCCTCATCACATAGGAACTGTGTCATCCACCGACTAGAT
* * * * *
2230768 ATCCTCATCACATAGGAGCTGTATCACCCTTAGA
61 CTCCTCATCACGTAGGAGCCGTGTCACCCCTAGA
2230802 CGACCAAAAC
Statistics
Matches: 187, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
130 2 0.01
131 112 0.60
133 1 0.01
134 12 0.06
135 60 0.32
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (131 bp):
ATCCCTAAAGATGGTCTACCATCCTCATCACATAGGAACTGTGTCATCCACCGACTAGATCTCCT
CATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTAT
C
Found at i:2231345 original size:21 final size:21
Alignment explanation
Indices: 2231320--2231363 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2231310 ACCCAAATAT
2231320 CAACCATAAAT-AAAAGGGGAG
1 CAACCA-AAATGAAAAGGGGAG
* *
2231341 CAACCAGATTGAAAAGGGGAG
1 CAACCAAAATGAAAAGGGGAG
2231362 CA
1 CA
2231364 TTCAGTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.48, C:0.16, G:0.27, T:0.09
Consensus pattern (21 bp):
CAACCAAAATGAAAAGGGGAG
Found at i:2235441 original size:20 final size:20
Alignment explanation
Indices: 2235418--2235463 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2235408 ATTTTTTTTC
2235418 CGCAACGCGAATATGTAAAT
1 CGCAACGCGAATATGTAAAT
* * *
2235438 CGCAACGTGAATTTGTAATT
1 CGCAACGCGAATATGTAAAT
2235458 CGCAAC
1 CGCAAC
2235464 ACATAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
CGCAACGCGAATATGTAAAT
Found at i:2235680 original size:22 final size:22
Alignment explanation
Indices: 2235633--2235680 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2235623 CTCTCTACGG
* * *
2235633 CGACATCCATCCCCATTTCTGG
1 CGACATCCATCCCCATATCCGA
2235655 CGACATCCATCCCCATATCCGA
1 CGACATCCATCCCCATATCCGA
2235677 CGAC
1 CGAC
2235681 CCCCCTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (22 bp):
CGACATCCATCCCCATATCCGA
Found at i:2236032 original size:20 final size:20
Alignment explanation
Indices: 2236009--2236059 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2235999 TTTGAAACTT
2236009 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
2236029 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
2236049 AAAATCGCAAC
1 AAATTCGCAAC
2236060 GCGATTTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:2236145 original size:20 final size:20
Alignment explanation
Indices: 2236060--2236139 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
2236050 AAATCGCAAC
*
2236060 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
2236079 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
2236099 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
2236119 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
2236139 G
1 G
2236140 AAATTTAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
19 8 0.14
20 50 0.86
ACGTcount: A:0.10, C:0.17, G:0.23, T:0.50
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:2237755 original size:14 final size:14
Alignment explanation
Indices: 2237736--2237765 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2237726 AATTTTCATT
2237736 AATAAGTTTAAATG
1 AATAAGTTTAAATG
*
2237750 AATAAGTTTACATG
1 AATAAGTTTAAATG
2237764 AA
1 AA
2237766 ATGAAGAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.33
Consensus pattern (14 bp):
AATAAGTTTAAATG
Found at i:2237782 original size:81 final size:82
Alignment explanation
Indices: 2237637--2237788 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 82
2237627 CAATAAACTG
* * *
2237637 TTCATTTAATTTTCATTAAATAAGTTTACATGAAATAAGTTTATAGATTATGACAACTCCAGATT
1 TTCATTTAATTTTCATTAAATAAGTTTAAATGAAATAAGTTTACAGATAATGACAACTCCAGATT
2237702 GAATAAATGTATGACAA
66 GAATAAATGTATGACAA
*
2237719 TTCATTTAATTTTCATT-AATAAGTTTAAATG-AATAAGTTTACATGA-AATGA-AGAGTCCAAG
1 TTCATTTAATTTTCATTAAATAAGTTTAAATGAAATAAGTTTACA-GATAATGACA-ACTCC-AG
2237780 ATTGAATAA
63 ATTGAATAA
2237789 GAACAAAATC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
79 1 0.02
80 19 0.30
81 26 0.41
82 17 0.27
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (82 bp):
TTCATTTAATTTTCATTAAATAAGTTTAAATGAAATAAGTTTACAGATAATGACAACTCCAGATT
GAATAAATGTATGACAA
Found at i:2238566 original size:23 final size:24
Alignment explanation
Indices: 2238536--2238582 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
2238526 TCTCAACATG
2238536 CTCAATTAAAGTAAAT-AAACCTT
1 CTCAATTAAAGTAAATAAAACCTT
2238559 CTCAATTAAAGTAAATAAAACCTT
1 CTCAATTAAAGTAAATAAAACCTT
2238583 GGAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (24 bp):
CTCAATTAAAGTAAATAAAACCTT
Found at i:2239422 original size:43 final size:42
Alignment explanation
Indices: 2239375--2239538 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
2239365 ATAGGTCAAG
* *
2239375 ATCTATTGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCGAT
1 ATCTATAGCGGCGTTTTTTGAAAAAACGCCGCAAAAGGTC-AT
* * * *
2239418 ATCTATAAC-G-G-TTTCTGAAAAAAAAGCCGCAAAAAGTCAT
1 ATCTATAGCGGCGTTTTTTG-AAAAAACGCCGCAAAAGGTCAT
* * *
2239458 GATCTATAGCGGCGTTTCTAGAAAAAACGCCGCAAAAGGTCAG
1 -ATCTATAGCGGCGTTTTTTGAAAAAACGCCGCAAAAGGTCAT
* * *
2239501 ATCTATAGCGGCATTTTTGGATACAAACGCCGCAAAAG
1 ATCTATAGCGGCGTTTTTTGA-AAAAACGCCGCAAAAG
2239539 AGCAGCCTAT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
40 7 0.07
41 26 0.27
42 20 0.20
43 42 0.43
44 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTTGAAAAAACGCCGCAAAAGGTCAT
Found at i:2239463 original size:41 final size:43
Alignment explanation
Indices: 2239339--2239512 Score: 144
Period size: 43 Copynumber: 4.1 Consensus size: 43
2239329 CTAAAGTTAG
* * * * **
2239339 CGGCGTTT-GAGAACAAAAATGCCACAATAGGTCAAGATCTATTG
1 CGGCGTTTCTAGAA-AAAAA-GCCGCAAAAGGTCATGATCTATAA
* * * *
2239383 CGGCGTTTTTTGAACAAACGCCGCAAAAGGTCGAT-ATCTATAA
1 CGGCGTTTCTAGAAAAAAAGCCGCAAAAGGTC-ATGATCTATAA
* *
2239426 C-G-GTTTCT-GAAAAAAAAGCCGCAAAAAGTCATGATCTATAG
1 CGGCGTTTCTAG-AAAAAAAGCCGCAAAAGGTCATGATCTATAA
* *
2239467 CGGCGTTTCTAGAAAAAACGCCGCAAAAGGTCA-GATCTATAG
1 CGGCGTTTCTAGAAAAAAAGCCGCAAAAGGTCATGATCTATAA
2239509 CGGC
1 CGGC
2239513 ATTTTTGGAT
Statistics
Matches: 107, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
40 3 0.03
41 30 0.28
42 15 0.14
43 43 0.40
44 13 0.12
45 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (43 bp):
CGGCGTTTCTAGAAAAAAAGCCGCAAAAGGTCATGATCTATAA
Found at i:2239612 original size:41 final size:42
Alignment explanation
Indices: 2239549--2239655 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 42
2239539 AGCAGCCTAT
* * *
2239549 AGGTAAGACCTATAACGACGTTTTGAACACAAACGCCG-CAA
1 AGGTCAGACCTATAACGGCGTTTTGAACACAAACGCCGTAAA
*
2239590 AGGTCAGACCTATAGCGGCGTTTTTGAACACAAACGCCGTAAA
1 AGGTCAGACCTATAACGGCG-TTTTGAACACAAACGCCGTAAA
* *
2239633 AAGTCAGACCTATAACGGGGTTT
1 AGGTCAGACCTATAACGGCGTTT
2239656 GTGGATACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
41 17 0.30
42 21 0.37
43 19 0.33
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (42 bp):
AGGTCAGACCTATAACGGCGTTTTGAACACAAACGCCGTAAA
Found at i:2239625 original size:42 final size:43
Alignment explanation
Indices: 2239549--2239655 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
2239539 AGCAGCCTAT
* * *
2239549 AGGTAAGACCTATAACGACG-TTTTGAACACAAACGCCG-CAA
1 AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGTAAA
*
2239590 AGGTCAGACCTATAGCGGCGTTTTTGAACACAAACGCCGTAAA
1 AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGTAAA
* *
2239633 AAGTCAGACCTATAACGGGGTTT
1 AGGTCAGACCTATAACGGCGTTT
2239656 GTGGATACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 17 0.30
42 18 0.32
43 22 0.39
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (43 bp):
AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGTAAA
Found at i:2241255 original size:82 final size:83
Alignment explanation
Indices: 2241114--2241276 Score: 211
Period size: 82 Copynumber: 2.0 Consensus size: 83
2241104 TAATACTTCA
* * * *
2241114 AAATGTTAACTTCTGCAAGACTCCAGCACAAAACCCATAGACAATGACTACAAACTTCCTTTTGA
1 AAATGTAAACTCCTGCAAGACTCCAGCACAAAACCCACAGACAATGACTACAAACTTCCTTTTAA
2241179 A-TTAGCATATCCAAATC
66 ACTTAGCATATCCAAATC
* * ** ** *
2241196 AAATGTAAACTCCTGCAAGATTCCAGCACAAAACCCACAGGCTCTGGTTACAAATTTCCTTTTAA
1 AAATGTAAACTCCTGCAAGACTCCAGCACAAAACCCACAGACAATGACTACAAACTTCCTTTTAA
2241261 ATCTTAGCATATCCAA
66 A-CTTAGCATATCCAA
2241277 CTCTAGTTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
82 55 0.81
84 13 0.19
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.26
Consensus pattern (83 bp):
AAATGTAAACTCCTGCAAGACTCCAGCACAAAACCCACAGACAATGACTACAAACTTCCTTTTAA
ACTTAGCATATCCAAATC
Found at i:2243136 original size:41 final size:41
Alignment explanation
Indices: 2242999--2243343 Score: 342
Period size: 41 Copynumber: 8.4 Consensus size: 41
2242989 TTTTGGTATT
* * *
2242999 AAAACGCCACTAAAGTACGCGTCTATAGCGGCGTTTGTAT-
1 AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* *
2243039 AAAA--CCACTAAAGTACGAGTCTATAGCGGTGTTTG-GTA
1 AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* *
2243077 TTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTGTA
1 --AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* ** *
2243120 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGAAATT
1 AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTG-TGTA
* * *
2243162 AAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTATGTA
1 AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* *
2243203 AAAACGCCACTAAAATATGAGTCTATAGCGGTGTTTGTGTA
1 AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* * *
2243244 AAAACGCCACTACAA-TACT-AGTTTATAGCGGCTTTTGTATA
1 AAAACGCCACTA-AAGTA-TGAGTCTATAGCGGCGTTTGTGTA
** * * * * * *
2243285 AAAACGCCACTTCAGTACGATTATTTAGCGGCGTTTTTATA
1 AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* *
2243326 CAAACACCACTAAAGTAT
1 AAAACGCCACTAAAGTAT
2243344 AGTATTTTGC
Statistics
Matches: 252, Mismatches: 42, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
37 1 0.00
38 29 0.12
40 9 0.04
41 146 0.58
42 64 0.25
43 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (41 bp):
AAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTGTA
Found at i:2243168 original size:83 final size:82
Alignment explanation
Indices: 2242994--2243343 Score: 390
Period size: 83 Copynumber: 4.3 Consensus size: 82
2242984 ATGGCTTTTG
* * *
2242994 GTATTAAAACGCCACTAAAGTACGCGTCTATAGCGGCGTTTGTAT-AAAA--CCACTAAAGTACG
1 GTATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG
*
2243056 AGTCTATAGCGGTGTTT
66 AGTCTATAGCGGCGTTT
*
2243073 GGTATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTAC
1 -GTATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
2243138 GAGTCTATAGCGGCGTTT
65 GAGTCTATAGCGGCGTTT
* * * * *
2243156 GAAATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTATGTAAAAACGCCACTAAAATAT
1 G-TATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
*
2243221 GAGTCTATAGCGGTGTTT
65 GAGTCTATAGCGGCGTTT
* * * * **
2243239 GTGTAAAAACGCCACTACAA-TACTAGT-T-TATAGCGGCTTTTGTATAAAAACGCCACTTCAGT
1 GTATTAAAACGCCAC-AAAAGTA-T-GTGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGT
* * *
2243301 ACGATTATTTAGCGGCGTTT
63 ACGAGTCTATAGCGGCGTTT
* * *
2243321 TTA-TACAAACACCACTAAAGTAT
1 GTATTA-AAACGCCACAAAAGTAT
2243344 AGTATTTTGC
Statistics
Matches: 230, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
80 41 0.18
81 8 0.03
82 68 0.30
83 111 0.48
84 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (82 bp):
GTATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG
AGTCTATAGCGGCGTTT
Found at i:2243249 original size:124 final size:123
Alignment explanation
Indices: 2242999--2243343 Score: 389
Period size: 124 Copynumber: 2.8 Consensus size: 123
2242989 TTTTGGTATT
* *
2242999 AAAACGCCACTAAAGTACGCGTCTATAGCGGCGTTTGTA-TAAAA--CCACTAAAGTACGAGTCT
1 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAACGCCACAAAAGTACGAGTCT
* *
2243061 ATAGCGGTGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTGTA
66 ATAGCGGCGTTTGGTA-TAAAACGCCACAAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* * *
2243120 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGAAATTAAAACGCCACAAAAGTATGTGTC
1 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTG-TATTAAAACGCCACAAAAGTACGAGTC
* *
2243185 TATAGCGGCGTTTATGTA-AAAACGCCACTAAAA-TATGAGTCTATAGCGGTGTTTGTGTA
65 TATAGCGGCGTTT-GGTATAAAACGCCAC-AAAAGTATGAGTCTATAGCGGCGTTTGTGTA
* * * * *** * *
2243244 AAAACGCCACTACAA-TACTAGTTTATAGCGGCTTTTGTATAAAAACGCCACTTCAGTACGATTA
1 AAAACGCCACTA-AAGTACGAGTCTATAGCGGCGTTTGTATTAAAACGCCACAAAAGTACGAGTC
* * * *
2243308 TTTAGCGGCGTTT-TTATACAAACACCACTAAAGTAT
65 TATAGCGGCGTTTGGTATA-AAACGCCACAAAAGTAT
2243344 AGTATTTTGC
Statistics
Matches: 189, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
121 38 0.20
122 5 0.03
123 46 0.24
124 65 0.34
125 32 0.17
126 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (123 bp):
AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAACGCCACAAAAGTACGAGTCT
ATAGCGGCGTTTGGTATAAAACGCCACAAAAGTATGAGTCTATAGCGGCGTTTGTGTA
Found at i:2249216 original size:3 final size:3
Alignment explanation
Indices: 2249208--2249237 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2249198 TGTGCTATAT
*
2249208 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2249238 CTACTACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2249495 original size:3 final size:3
Alignment explanation
Indices: 2249487--2249582 Score: 156
Period size: 3 Copynumber: 32.0 Consensus size: 3
2249477 AGTATTTTAT
* * * *
2249487 TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2249535 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2249583 AATACATATA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2250030 original size:19 final size:18
Alignment explanation
Indices: 2250006--2250041 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2249996 GACAGAGAAA
2250006 AGAGAGACAGAAAATACAC
1 AGAGAGACAG-AAATACAC
*
2250025 AGAGAGAGAGAAATACA
1 AGAGAGACAGAAATACA
2250042 AAAAAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.11, G:0.25, T:0.06
Consensus pattern (18 bp):
AGAGAGACAGAAATACAC
Found at i:2250769 original size:18 final size:19
Alignment explanation
Indices: 2250733--2250770 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2250723 AATTTAGTCA
* *
2250733 TTATTTTAAATGTTTTCAT
1 TTATTTTAAATGATATCAT
2250752 TTATTTTAAAT-ATATCAT
1 TTATTTTAAATGATATCAT
2250770 T
1 T
2250771 CTAGTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATTTTAAATGATATCAT
Found at i:2251522 original size:25 final size:28
Alignment explanation
Indices: 2251478--2251531 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
2251468 TTAAAAAATC
*
2251478 AATTATAAATTGTCTCTATTAA-TTATA
1 AATTATAAATTGTCTATATTAATTTATA
2251505 AATTA-AAATT-TCTATATTAATTTATA
1 AATTATAAATTGTCTATATTAATTTATA
2251531 A
1 A
2251532 TTTTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 11 0.44
27 5 0.20
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (28 bp):
AATTATAAATTGTCTATATTAATTTATA
Found at i:2263480 original size:83 final size:83
Alignment explanation
Indices: 2263276--2263672 Score: 742
Period size: 83 Copynumber: 4.8 Consensus size: 83
2263266 AAACATTAAC
2263276 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGA
1 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-
2263341 CAGAACCAATCATTGAATT
65 CAGAACCAATCATTGAATT
*
2263360 TAAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
2263425 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
2263443 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
2263508 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
2263526 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
2263591 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* *
2263609 TAAAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TGAAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
2263673 TAAGAACTAC
Statistics
Matches: 308, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
83 244 0.79
84 64 0.21
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
TGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
AGAACCAATCATTGAATT
Found at i:2264598 original size:24 final size:23
Alignment explanation
Indices: 2264555--2264599 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2264545 ATTCATAATG
*
2264555 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
2264578 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
2264600 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:2264604 original size:113 final size:113
Alignment explanation
Indices: 2264401--2264949 Score: 850
Period size: 113 Copynumber: 4.9 Consensus size: 113
2264391 ATTCAAATCT
* * *
2264401 ATCATTTGATGGATTATTTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAATGAA
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
2264466 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
* *
2264514 ATCACTTGATGGATTATTTTTGCCAGAGAAGATTCATAATGAGAAGAATTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
2264579 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
*
2264627 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATTTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* ** *
2264692 GAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
* ***
2264740 ATCACTTGATGAATTAGCCTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
2264805 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
* * ** * *
2264853 ATCAATTGATGGATCAACATTT-CCAGA-AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
1 ATCACTTGATGGAT-TATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
2264916 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAAC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
2264950 TTTCTGCATA
Statistics
Matches: 402, Mismatches: 33, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
112 67 0.17
113 332 0.83
114 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
Found at i:2265292 original size:3 final size:3
Alignment explanation
Indices: 2265275--2265369 Score: 120
Period size: 3 Copynumber: 31.7 Consensus size: 3
2265265 TTTTTACCCA
* * *
2265275 TAT TAT T-T TATT TAT TAT TAT AAT TAT AAT TAT AAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2265320 TAT AAT TAT TAT AAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2265368 TA
1 TA
2265370 AATACATATA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.03
3 73 0.94
4 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2265816 original size:19 final size:19
Alignment explanation
Indices: 2265792--2265828 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2265782 GACAGAGAAA
2265792 AGAGAGACAGA-AAATACAC
1 AGAGAGA-AGAGAAATACAC
2265811 AGAGAGAAGAGAAATACA
1 AGAGAGAAGAGAAATACA
2265829 AAAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.59, C:0.11, G:0.24, T:0.05
Consensus pattern (19 bp):
AGAGAGAAGAGAAATACAC
Found at i:2267974 original size:32 final size:32
Alignment explanation
Indices: 2267933--2267998 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2267923 AGAGTAGGGA
2267933 GAGAGAGAAAAAAGAGAAAGAAGAAATGAAAC
1 GAGAGAGAAAAAAGAGAAAGAAGAAATGAAAC
2267965 GAGAGAGAAAAAAGAGAAAGAAGAAATGAAAC
1 GAGAGAGAAAAAAGAGAAAGAAGAAATGAAAC
2267997 GA
1 GA
2267999 AAGTGGGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.65, C:0.03, G:0.29, T:0.03
Consensus pattern (32 bp):
GAGAGAGAAAAAAGAGAAAGAAGAAATGAAAC
Found at i:2270988 original size:20 final size:20
Alignment explanation
Indices: 2270963--2271022 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2270953 TCGCGTCTTT
*
2270963 ACATCTTTACATTTGCATTC
1 ACATCTTTGCATTTGCATTC
2270983 ACATCTTTGCATTTGCACTT-
1 ACATCTTTGCATTTGCA-TTC
* *
2271003 TCATCTTTGCATTGGCATTC
1 ACATCTTTGCATTTGCATTC
2271023 GTATTCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (20 bp):
ACATCTTTGCATTTGCATTC
Found at i:2270989 original size:28 final size:27
Alignment explanation
Indices: 2270921--2270990 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 27
2270911 ACCTTTTGTA
* *
2270921 TTGCATTCATAT-TTTCATCTTTATAG
1 TTGCATTCACATCTTTCATCTTTACAG
* * * *
2270947 TTGCGTTCGCGTCTTTACATCTTTACAT
1 TTGCATTCACATCTTT-CATCTTTACAG
2270975 TTGCATTCACATCTTT
1 TTGCATTCACATCTTT
2270991 GCATTTGCAC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 8 0.24
27 3 0.09
28 22 0.67
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (27 bp):
TTGCATTCACATCTTTCATCTTTACAG
Found at i:2272388 original size:6 final size:6
Alignment explanation
Indices: 2272369--2272439 Score: 74
Period size: 6 Copynumber: 11.5 Consensus size: 6
2272359 TCGAGAACAA
*
2272369 AAAAAG AGAAAAG AAAAAG AAAGAA- AGAAAG AAAGAA- AGAAAAG AAAAAG
1 AAAAAG A-AAAAG AAAAAG AAA-AAG AAAAAG AAA-AAG A-AAAAG AAAAAG
*
2272419 AAAAAG AAAAAG AAAAGG AAA
1 AAAAAG AAAAAG AAAAAG AAA
2272440 GAAATCGATC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.04
6 41 0.73
7 13 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2272393 original size:4 final size:4
Alignment explanation
Indices: 2272384--2272415 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
2272374 GAGAAAAGAA
2272384 AAAG AAAG AAAG AAAG AAAG AAAG AAAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG -AAAG AAA
2272416 AAGAAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:2272419 original size:37 final size:38
Alignment explanation
Indices: 2272371--2272443 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 38
2272361 GAGAACAAAA
2272371 AAAGAGAAAAGAAAAAGAAAGAA-AGAAA-GAAAGAAAGA
1 AAAGAGAAAAGAAAAAGAAA-AAGA-AAAGGAAAGAAAGA
2272409 AAAGA-AAAAGAAAAAGAAAAAGAAAAGGAAAGAAA
1 AAAGAGAAAAGAAAAAGAAAAAGAAAAGGAAAGAAA
2272444 TCGATCAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
36 5 0.15
37 23 0.70
38 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (38 bp):
AAAGAGAAAAGAAAAAGAAAAAGAAAAGGAAAGAAAGA
Found at i:2274445 original size:57 final size:57
Alignment explanation
Indices: 2274356--2274658 Score: 359
Period size: 57 Copynumber: 5.4 Consensus size: 57
2274346 AATATGACGT
* *
2274356 CTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGATTA
1 CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTA
* * * **
2274413 CTTCAAATTAATTTTTAAAGAAGCTAAACCTGATTTTCAGCAGTTTCTTGATG-TT-
1 CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTA
* * *
2274468 -TTCAAATGAATTTTTAAAGAAGCTAAGTCTAATTTTCAAGGGTTTCTTCATG-TT-
1 CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTA
* * * *
2274522 -TTCAAATGAATTTTGAAAGAAGCTCAGCTTAATTTTCAGTGGTTTCTTGATGATTA
1 CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTA
* * * * * *
2274578 CTTCAAATTAATTTTTAAACAGGCTAAGCCTAATTTTTAGGGGTTTCCTGATGATAA
1 CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTA
*
2274635 CTGT-AAATGAATTTTTGAAGAAGC
1 CT-TCAAATGAATTTTTAAAGAAGC
2274659 CAAGTTTGAT
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
54 91 0.44
55 2 0.01
56 2 0.01
57 112 0.54
58 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (57 bp):
CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGATGATTA
Found at i:2274583 original size:111 final size:111
Alignment explanation
Indices: 2274355--2274658 Score: 339
Period size: 111 Copynumber: 2.7 Consensus size: 111
2274345 CAATATGACG
* * *
2274355 TCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGATTACTTCAAA
1 TCTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTCATGATTA-TTCAAA
* * *
2274420 TTAATTTTTAAAGAAGCTAAACCTGATTTTCAGCAGTTTCTTGATGT
65 TGAATTTTGAAAGAAGCTAAACCTAATTTTCAGCAGTTTCTTGATGT
* *
2274467 T-TTCAAATGAATTTTTAAAGAAGCTAAGTCTAATTTTCAAGGGTTTCTTCATG-TT-TTCAAAT
1 TCTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTCATGATTATTCAAAT
* * * **
2274529 GAATTTTGAAAGAAGCTCAGCTTAATTTTCAGTGGTTTCTTGATGAT
66 GAATTTTGAAAGAAGCTAAACCTAATTTTCAGCAGTTTCTTGATG-T
* * * * * * *
2274576 TACTTCAAATTAATTTTTAAACAGGCTAAGCCTAATTTTTAGGGGTTTCCTGATGATAACTGT-A
1 T-CTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTCATGATTA-T-TCA
2274640 AATGAATTTTTG-AAGAAGC
63 AATGAA-TTTTGAAAGAAGC
2274659 CAAGTTTGAT
Statistics
Matches: 162, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
108 44 0.27
109 2 0.01
110 2 0.01
111 91 0.56
112 2 0.01
114 15 0.09
115 6 0.04
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (111 bp):
TCTTCAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTCATGATTATTCAAAT
GAATTTTGAAAGAAGCTAAACCTAATTTTCAGCAGTTTCTTGATGT
Found at i:2275324 original size:12 final size:12
Alignment explanation
Indices: 2275307--2275331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2275297 ATAAGTCAGG
2275307 ATTCAAAAGAAT
1 ATTCAAAAGAAT
2275319 ATTCAAAAGAAT
1 ATTCAAAAGAAT
2275331 A
1 A
2275332 CAATGTGACA
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:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ATTCAAAAGAAT
Found at i:2275394 original size:18 final size:18
Alignment explanation
Indices: 2275371--2275409 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2275361 CTAGGAAGAG
* *
2275371 AATGAAGACTGCTCTTGC
1 AATGAAGACTGATCATGC
2275389 AATGAAGACTGATCATGC
1 AATGAAGACTGATCATGC
2275407 AAT
1 AAT
2275410 CATTCTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (18 bp):
AATGAAGACTGATCATGC
Found at i:2275660 original size:37 final size:36
Alignment explanation
Indices: 2275560--2275660 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 36
2275550 AAATAATTTT
*
2275560 GTCCTTCTTAGGATCGTTTCTCTAGAAATTCATTTAA
1 GTCCTTCTTAGGATTGTTTCTCTAG-AATTCATTTAA
* * * ** *
2275597 GTCATTCTTAGGATTGTTTATATAGAATGTTGTTTGA
1 GTCCTTCTTAGGATTGTTTCTCTAGAAT-TCATTTAA
* *
2275634 GTCCTTCTTAGGATTGTCTCCCTAGAA
1 GTCCTTCTTAGGATTGTTTCTCTAGAA
2275661 ACCTTTTCAG
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
36 3 0.06
37 48 0.94
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.44
Consensus pattern (36 bp):
GTCCTTCTTAGGATTGTTTCTCTAGAATTCATTTAA
Found at i:2276320 original size:77 final size:77
Alignment explanation
Indices: 2276219--2276394 Score: 225
Period size: 77 Copynumber: 2.3 Consensus size: 77
2276209 GTTCGAATCT
* *
2276219 ATCACAGAAGGAGGTGGATTAACATTTCCAATGAAA-AAGTTCATAAT-G-AGAACTTGTTCAAC
1 ATCACAAAAGGAGGTGGATCAACATTTCCAAT-AAAGAAGTTCATAATAGAAGAACTTGTTCAAC
*
2276281 ATTTCA-CTCGATTTC
65 -CTT-AGCTCGA-TTC
2276296 ATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 ATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAAT-AGAAGAACTTGTTCAAC
2276361 CTTAGCTCGATTC
65 CTTAGCTCGATTC
* * *
2276374 GTCACATAAGGAGTTGGATCA
1 ATCACAAAAGGAGGTGGATCA
2276395 GTTCCAACAC
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
76 3 0.03
77 41 0.47
78 22 0.25
79 8 0.09
80 14 0.16
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (77 bp):
ATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAATAGAAGAACTTGTTCAACC
TTAGCTCGATTC
Found at i:2276453 original size:120 final size:122
Alignment explanation
Indices: 2276295--2276602 Score: 349
Period size: 120 Copynumber: 2.5 Consensus size: 122
2276285 CACTCGATTT
2276295 CATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 CATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* *
2276360 C-CTTAGCTCGATT-CGTCACATAAGGAG-TTGGATCAGTTCCAACACTACATTT-ATTC
66 CAC---GCTCGATTCCATCACATAAGGAGTTTGGATCAGTACCAACACTACATTTCATTC
* * * * *
2276416 CATCA-AAAATGAGGTGGGTCAACATTTCCATTGAAGAAGTTCATAATGAGAAGAACTTGTTTAA
1 CATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* * *
2276480 CACGCTTGATTCCATCACATAAGGAGTTTGGATCGGTACCAACAGTACATTTCATTC
66 CACGCTCGATTCCATCACATAAGGAGTTTGGATCAGTACCAACACTACATTTCATTC
* ** * *** * * *
2276537 CATCACATAAGGATATAGG-TCAACGTTTATGAGAGAATAAGTTCATAATAAGAAGAACTTGTTC
1 CATCACAAAAGGAGGT-GGATCAACATTTCCAATA-AAGAAGTTCATAATGAGAAGAACTTGTTC
2276601 AA
64 AA
2276603 TCGGATATCA
Statistics
Matches: 156, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
118 7 0.04
119 13 0.08
120 77 0.49
121 15 0.10
122 14 0.09
123 30 0.19
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (122 bp):
CATCACAAAAGGAGGTGGATCAACATTTCCAATAAAGAAGTTCATAATGAGAAGAACTTGTTCAA
CACGCTCGATTCCATCACATAAGGAGTTTGGATCAGTACCAACACTACATTTCATTC
Found at i:2276808 original size:9 final size:9
Alignment explanation
Indices: 2276796--2276827 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2276786 ATATTTTTAT
2276796 TATTACTAC
1 TATTACTAC
2276805 TATTACTAC
1 TATTACTAC
*
2276814 TACTACTAC
1 TATTACTAC
2276823 TATTA
1 TATTA
2276828 TAATTACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
TATTACTAC
Found at i:2280732 original size:23 final size:22
Alignment explanation
Indices: 2280681--2280732 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
2280671 AAGCACTAAG
2280681 AATAAAAATTAAGAATGATCCA
1 AATAAAAATTAAGAATGATCCA
*
2280703 AATAAAAATTGAGAATGATCCA
1 AATAAAAATTAAGAATGATCCA
*
2280725 TATAAAAA
1 AATAAAAA
2280733 ATTCTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.23
Consensus pattern (22 bp):
AATAAAAATTAAGAATGATCCA
Found at i:2283793 original size:33 final size:33
Alignment explanation
Indices: 2283699--2283793 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
2283689 TCTCCGAGAG
** *
2283699 GATCTTACA-GGACTTCCACTAATGCTTCGCCTA
1 GATCTTA-AGGGACTTCTGCTAATGCTTCTCCTA
* *
2283732 GATCTTATGGGGCTTCTGCTAATGCTTCTCCTA
1 GATCTTAAGGGACTTCTGCTAATGCTTCTCCTA
2283765 GATCTTAAGGGACTTCTGCTAATGCTTCT
1 GATCTTAAGGGACTTCTGCTAATGCTTCT
2283794 TTTTGAAAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (33 bp):
GATCTTAAGGGACTTCTGCTAATGCTTCTCCTA
Found at i:2289895 original size:47 final size:51
Alignment explanation
Indices: 2289802--2289936 Score: 133
Period size: 47 Copynumber: 2.8 Consensus size: 51
2289792 GAAATTCATG
* * * *
2289802 TATAATATTAATTTTATTAATAATT-T-ATTATATATCATT-AA-AATAAAAA
1 TATAATATT-ATATTATTAA-AATTATCAATAAATATAATTAAACAATAAAAA
* *
2289851 TATTATATTATATTA-T-ATATTAT-AAT-AATATAATTAAACAATAAAAA
1 TATAATATTATATTATTAAAATTATCAATAAATATAATTAAACAATAAAAA
*
2289898 TATAATATTGTATTATTAAAATTATCAATAAATATAATT
1 TATAATATTATATTATTAAAATTATCAATAAATATAATT
2289937 TAATAATTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
45 10 0.14
46 6 0.09
47 22 0.31
48 6 0.09
49 14 0.20
50 3 0.04
51 9 0.13
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (51 bp):
TATAATATTATATTATTAAAATTATCAATAAATATAATTAAACAATAAAAA
Found at i:2290352 original size:3 final size:3
Alignment explanation
Indices: 2290339--2290381 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
2290329 TTGTCCTGAC
2290339 ATT ATTT ATT ATT ATT A-T ATT ATT ATT A-T ATT ATT ATT -TT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2290382 GGTTTCAGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.17
3 27 0.75
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2290361 original size:11 final size:11
Alignment explanation
Indices: 2290339--2290381 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
2290329 TTGTCCTGAC
2290339 ATTATT-TATT
1 ATTATTATATT
2290349 ATTATTATATT
1 ATTATTATATT
2290360 ATTATTATATT
1 ATTATTATATT
*
2290371 ATTATTTTATT
1 ATTATTATATT
2290382 GGTTTCAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 6 0.19
11 25 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTATTATATT
Found at i:2292499 original size:127 final size:129
Alignment explanation
Indices: 2292288--2292620 Score: 465
Period size: 127 Copynumber: 2.6 Consensus size: 129
2292278 GATTTCGGTT
* * *
2292288 GGAGTAATAAATGACTTCTTTAAGGCATGAGAGGTCATTTATTCTCAATTGGAAATAATTAGTTA
1 GGAGTAATAAA-G-CTACTTTAAGGCATGATAGGTCATTTATTCTCAATTGGAAATAATTAGATA
* *
2292353 TTATCATTTTCTCTCGAATCAATATTG-ATTTTTAAGACGAAATAGTGATATCTCTTCATTTCGA
64 TTATCATTTTCTCTCGAATCAATATTGTA-TTTTAAGACGAAATAGTGACATCTCTTCATATCGA
*
2292417 TT
128 TC
* * *
2292419 GGAGTAA-CAA-CTACTTTAAGGCATGATATGTCATTTATTCTCGATTGGAAATAATTAGATATT
1 GGAGTAATAAAGCTACTTTAAGGCATGATAGGTCATTTATTCTCAATTGGAAATAATTAGATATT
* *
2292482 ATCGTTTTCTCTCGAATCAATATTGTATTTTAAGACGAAATAGTGGCATCTCTTCATATCGATC
66 ATCATTTTCTCTCGAATCAATATTGTATTTTAAGACGAAATAGTGACATCTCTTCATATCGATC
* * *
2292546 GGAGTAATAAATGGCTGCTTTAAGGCATGATAGGTCATTTACTCTCCATTGGAAATAATTAGATA
1 GGAGTAATAAA--GCTACTTTAAGGCATGATAGGTCATTTATTCTCAATTGGAAATAATTAGATA
*
2292611 TTATTATTTT
64 TTATCATTTT
2292621 GTTTTTTGTA
Statistics
Matches: 179, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
127 112 0.63
128 3 0.02
130 2 0.01
131 62 0.35
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (129 bp):
GGAGTAATAAAGCTACTTTAAGGCATGATAGGTCATTTATTCTCAATTGGAAATAATTAGATATT
ATCATTTTCTCTCGAATCAATATTGTATTTTAAGACGAAATAGTGACATCTCTTCATATCGATC
Found at i:2294154 original size:19 final size:19
Alignment explanation
Indices: 2294084--2294161 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 19
2294074 ATACAAAAAT
*
2294084 GGTATCGATACCATAG-GAG
1 GGTATCGATACCAT-GTAAG
2294103 GGTATCGATACCATAGTATAG
1 GGTATCGATACCAT-GTA-AG
*
2294124 TAGTATCGATACCATGTAAG
1 -GGTATCGATACCATGTAAG
* *
2294144 GGTATCAATACCAGGTAA
1 GGTATCGATACCATGTAA
2294162 CATCGATCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 31 0.61
20 2 0.04
21 5 0.10
22 13 0.25
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (19 bp):
GGTATCGATACCATGTAAG
Found at i:2294701 original size:26 final size:26
Alignment explanation
Indices: 2294663--2294728 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
2294653 GATCATTAAG
*
2294663 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAAGATGCCATAACTAAAAT
*
2294689 GCATGAAAAGATGCCATAATTAAAAT
1 GCATGAAAAGATGCCATAACTAAAAT
*
2294715 GCATGAAATGATGC
1 GCATGAAAAGATGC
2294729 ATTAAGGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (26 bp):
GCATGAAAAGATGCCATAACTAAAAT
Found at i:2294718 original size:71 final size:73
Alignment explanation
Indices: 2294631--2294775 Score: 240
Period size: 71 Copynumber: 2.0 Consensus size: 73
2294621 CTAATCGATT
*
2294631 CCATAATTAAAATGCATGAAATGAT-CATTAAGGCATGAAAGGATGCCAT-AACTAAAATGCATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAAACTAAAATGCATG
2294694 AAAAGATG
66 AAAAGATG
* *
2294702 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCGATAAACTAAAATGTATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAAACTAAAATGCATG
*
2294767 AAATGATG
66 AAAAGATG
2294775 C
1 C
2294776 ATTAAGGCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 25 0.37
72 22 0.32
73 21 0.31
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (73 bp):
CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAAACTAAAATGCATG
AAAAGATG
Found at i:2294760 original size:47 final size:45
Alignment explanation
Indices: 2294689--2294819 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 45
2294679 TAACTAAAAT
*
2294689 GCATGAAAA-GATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCAT-AAAAGGATACCATAA-TAAAATGCATGAAATGATGCATTAAG
* * *
2294735 GCATAAAAGGATGCGATAAACTAAAATGTATGAAATGATGCATTAAG
1 GCATAAAAGGATACCAT-AA-TAAAATGCATGAAATGATGCATTAAG
* * *
2294782 GCATGAAAGGATACCATAATTAAATGCATGAAAGGATG
1 GCATAAAAGGATACCATAATAAAATGCATGAAATGATG
2294820 TCATAAACTA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 20 0.27
46 13 0.18
47 41 0.55
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (45 bp):
GCATAAAAGGATACCATAATAAAATGCATGAAATGATGCATTAAG
Found at i:2296733 original size:20 final size:20
Alignment explanation
Indices: 2296708--2296754 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
2296698 ACCAAGTTGG
2296708 TTAGAACTAGAGGAATTCCT
1 TTAGAACTAGAGGAATTCCT
2296728 TTAGAACTAGAGGAATTCCT
1 TTAGAACTAGAGGAATTCCT
2296748 TTAGAAC
1 TTAGAAC
2296755 CAATTTCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
TTAGAACTAGAGGAATTCCT
Found at i:2299887 original size:269 final size:268
Alignment explanation
Indices: 2299412--2299951 Score: 980
Period size: 269 Copynumber: 2.0 Consensus size: 268
2299402 TTATCCAGAG
2299412 CAATCTAAAGATAGCATCATATCGACATAATCCTATGAATATTTAAAATAAAAGAAATAGAATAC
1 CAATCTAAAGATAGCATCATATCGACATAATCCTATGAATATTTAAAATAAAAGAAATAGAATAC
2299477 CAAGAGGAGACAAAGTTTTTAAAAGTATTGCCTTAGAAGAAGGTATTACGTTTTGGGCGAAAAGG
66 CAAGAGGAGACAAAGTTTTTAAAAGTATTGCCTTAGAAGAAGGTATTACGTTTTGGGCGAAAAGG
2299542 AAAGCTGAGTCATAGGTTCATTAGACCGTAAAATATTAAAAAGGGTTGGACCCGTAGCTTATCAG
131 AAAGCTGAGTCATAGGTTCATTAGACCGTAAAATATTAAAAAGGGTTGGACCCGTAGCTTATCAG
2299607 TTAGCTTTGCTCC-ATATGGATAAGATCC-CAATGTTTTCATGTATCAATGCTTATAAGGTAC-A
196 TTAGCTTTGCTCCAATATGGATAAGATCCACAATGTTTTCATGTATCAATGCTTATAAGGTACAA
2299669 ATCGAATC
261 ATCGAATC
2299677 CAATCTAAAGATAGCATCATATCGACATAAGTCCTATGAATATTTAAAAATAAAAGAAATAGAAT
1 CAATCTAAAGATAGCATCATATCGACATAA-TCCTATGAATATTT-AAAATAAAAGAAATAGAAT
2299742 ACCAAGAGGGAGACAAAGTATTTTAAAAGTATTGCCTTAGAAGAAGGTATTACGTTTTGGGCGAA
64 ACCAAGA-GGAGACAAAGT-TTTTAAAAGTATTGCCTTAGAAGAAGGTATTACGTTTTGGGCGAA
* *
2299807 AAGGAAAG-TGAGTCCTAGGTTCATTAGACCGTATGAATATTAAAAAGGGTTGGACCCGTAGCTT
127 AAGGAAAGCTGAGTCATAGGTTCATTAGACCGTA-AAATATTAAAAAGGGTTGGACCCGTAGCTT
2299871 ATCAGTTAGCTTTGCTCCAGATATGGATAAGATCCACAATGTTTTCATGTATCAATGCTTATAAG
191 ATCAGTTAGCTTTGCTCCA-ATATGGATAAGATCCACAATGTTTTCATGTATCAATGCTTATAAG
2299936 GTACAAATCGAATC
255 GTACAAATCGAATC
2299950 CA
1 CA
2299952 TCTCATGTTG
Statistics
Matches: 264, Mismatches: 2, Indels: 10
0.96 0.01 0.04
Matches are distributed among these distances:
265 30 0.11
266 14 0.05
267 26 0.10
268 35 0.13
269 100 0.38
271 15 0.06
272 33 0.12
273 11 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (268 bp):
CAATCTAAAGATAGCATCATATCGACATAATCCTATGAATATTTAAAATAAAAGAAATAGAATAC
CAAGAGGAGACAAAGTTTTTAAAAGTATTGCCTTAGAAGAAGGTATTACGTTTTGGGCGAAAAGG
AAAGCTGAGTCATAGGTTCATTAGACCGTAAAATATTAAAAAGGGTTGGACCCGTAGCTTATCAG
TTAGCTTTGCTCCAATATGGATAAGATCCACAATGTTTTCATGTATCAATGCTTATAAGGTACAA
ATCGAATC
Found at i:2301044 original size:20 final size:20
Alignment explanation
Indices: 2301024--2301060 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2301014 GATACTGAAG
*
2301024 GGGAA-GTATTGATACCAAA
1 GGGAATGTATCGATACCAAA
2301043 GGGAATGTATCGATACCA
1 GGGAATGTATCGATACCA
2301061 TTTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (20 bp):
GGGAATGTATCGATACCAAA
Found at i:2301706 original size:26 final size:27
Alignment explanation
Indices: 2301664--2301729 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
2301654 ATGCATTAAG
2301664 GCATGAAT-GATGCCATAAT-TAAAAT
1 GCATGAATGGATGCCATAATCTAAAAT
*
2301689 GCATGAATGGATGCCATACTCTAAAAT
1 GCATGAATGGATGCCATAATCTAAAAT
*
2301716 GCATGAAAGGATGC
1 GCATGAATGGATGC
2301730 ATTAAGGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 8 0.22
26 10 0.27
27 19 0.51
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (27 bp):
GCATGAATGGATGCCATAATCTAAAAT
Found at i:2301744 original size:20 final size:20
Alignment explanation
Indices: 2301716--2301814 Score: 101
Period size: 20 Copynumber: 4.7 Consensus size: 20
2301706 ACTCTAAAAT
2301716 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
2301736 GCATAAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
2301762 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
2301782 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
2301802 GCAT-AAAGGATGC
1 GCATGAAAGGATGC
2301815 CATAATTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
19 8 0.12
20 38 0.57
21 1 0.01
22 3 0.04
24 3 0.04
25 1 0.01
26 13 0.19
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:2301762 original size:73 final size:71
Alignment explanation
Indices: 2301639--2301906 Score: 354
Period size: 73 Copynumber: 3.8 Consensus size: 71
2301629 AATCCATAAT
* *
2301639 TAAAATGCATG-AAGGATGCATTAAGGCATGAATGATGCCATAATTAAAATGCATGAATGGATGC
1 TAAAATGCATGAAAGGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAATGGATGC
2301703 CATACTC
66 CATA-TC
2301710 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAT-GAT
1 TAAAATGCATGAAAGGATGCATTAAGGCAT-AAAGGATGCCATAATTAAAATGCATG-AATGGAT
2301774 G-C--AT-
64 GCCATATC
* * *
2301778 T--AAGGCATGAAATGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAAAGGATGC
1 TAAAATGCATGAAAGGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAATGGATGC
* *
2301841 GATAAAC
66 CAT-ATC
* *
2301848 TAAAATGCATGAAAGGATGAATTAAGTCATGAAAGGATGCCATAATTAAAATGCATGAA
1 TAAAATGCATGAAAGGATGCATTAAGGCAT-AAAGGATGCCATAATTAAAATGCATGAA
2301907 ATGATGCATT
Statistics
Matches: 174, Mismatches: 11, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
64 2 0.01
65 30 0.17
66 25 0.14
68 1 0.01
69 2 0.01
70 2 0.01
71 11 0.06
72 42 0.24
73 56 0.32
74 3 0.02
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (71 bp):
TAAAATGCATGAAAGGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAATGGATGC
CATATC
Found at i:2301765 original size:46 final size:46
Alignment explanation
Indices: 2301689--2301937 Score: 253
Period size: 46 Copynumber: 5.4 Consensus size: 46
2301679 TAATTAAAAT
* *
2301689 GCATGAATGGATGCCATACTCTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAT-TAAAATGCATGAAAGGATGCATTAAG
* *
2301736 GCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* * *
2301782 GCATGAAATGATG-C---ATT--AAGGCAT-AAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATG-C---ATT--AAG
* * *
2301827 GCATGAAAGGATGCGATAAACTAAAATGCATGAAAGGATGAATTAAG
1 GCATGAAAGGATGCCAT-AATTAAAATGCATGAAAGGATGCATTAAG
* *
2301874 TCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
*
2301920 GCATG-AATGATGCCATAA
1 GCATGAAAGGATGCCATAA
2301938 ACTAAGATAT
Statistics
Matches: 166, Mismatches: 22, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
39 7 0.04
40 7 0.04
42 3 0.02
43 3 0.02
45 27 0.16
46 66 0.40
47 34 0.20
49 3 0.02
50 2 0.01
52 6 0.04
53 8 0.05
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
Found at i:2301831 original size:138 final size:137
Alignment explanation
Indices: 2301645--2301932 Score: 477
Period size: 138 Copynumber: 2.1 Consensus size: 137
2301635 TAATTAAAAT
* * * * **
2301645 GCATGAAGGATGCATTAAGGCATGAATGATGCCATAATTAAAATGCATGAATGGATGCCATACTC
1 GCATGAATGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAAAGGATGCCATAAAC
*
2301710 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATG
66 TAAAATGCATGAAAGGATGAATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATG
2301775 CATTAAG
131 CATTAAG
*
2301782 GCATGAAATGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAAAGGATGCGATAAA
1 GCATG-AATGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAAAGGATGCCATAAA
* *
2301847 CTAAAATGCATGAAAGGATGAATTAAGTCATGAAAGGATGCCATAATTAAAATGCATGAAATGAT
65 CTAAAATGCATGAAAGGATGAATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGAT
2301912 GCATTAAG
130 GCATTAAG
2301920 GCATGAATGATGC
1 GCATGAATGATGC
2301933 CATAAACTAA
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 13 0.09
138 127 0.91
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (137 bp):
GCATGAATGATGCATTAAGGCATAAAGGATGCCATAATTAAAATGCATGAAAGGATGCCATAAAC
TAAAATGCATGAAAGGATGAATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATG
CATTAAG
Found at i:2301836 original size:26 final size:26
Alignment explanation
Indices: 2301802--2301913 Score: 130
Period size: 26 Copynumber: 4.5 Consensus size: 26
2301792 ATGCATTAAG
2301802 GCAT-AAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
* *
2301827 GCATGAAAGGATGCGATAAACTAAAAT
1 GCATGAAAGGATGCCAT-AATTAAAAT
*
2301854 GCATGAAAGGATG----AATT-AAGT
1 GCATGAAAGGATGCCATAATTAAAAT
2301875 -CATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
*
2301900 GCATGAAATGATGC
1 GCATGAAAGGATGC
2301914 ATTAAGGCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
20 12 0.16
21 3 0.04
22 3 0.04
24 4 0.05
25 7 0.10
26 23 0.32
27 21 0.29
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAATTAAAAT
Found at i:2301866 original size:118 final size:112
Alignment explanation
Indices: 2301632--2301840 Score: 298
Period size: 111 Copynumber: 1.8 Consensus size: 112
2301622 TAAATCGAAT
*
2301632 CCATAATTAAAATGCATG-AAGGATGCATTAAGGCATG-AATGATGCCATAATTAAAATGCATGA
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAATGATG-C---ATT--AAGGCAT-A
* *
2301695 ATGGATGCCATACTCTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATG
59 AAGGATGCCATAATCTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATG
*
2301749 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATGCATTAAGGCATAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCATTAAGGCATAAAGGATG
2301814 CCATAAT-TAAAATGCATGAAAGGATGC
66 CCATAATCTAAAATGCATGAAAGGATGC
2301841 GATAAACTAA
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
111 20 0.23
112 13 0.15
113 6 0.07
115 3 0.03
117 18 0.21
118 19 0.22
119 7 0.08
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (112 bp):
CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCATTAAGGCATAAAGGATG
CCATAATCTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATG
Found at i:2301952 original size:46 final size:47
Alignment explanation
Indices: 2301827--2301958 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 47
2301817 TAATTAAAAT
*
2301827 GCATGAAAGGATGCGATAAACTAAAATGCATGAAAGGATGAATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGAATTAAG
* * * *
2301874 TCATGAAAGGATGCCAT-AATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGAATTAAG
* * **
2301920 GCATG-AATGATGCCATAAACTAAGATATATGAAAGGATG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATG
2301959 TCATAATTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
45 10 0.14
46 47 0.65
47 15 0.21
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (47 bp):
GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGAATTAAG
Found at i:2309809 original size:14 final size:14
Alignment explanation
Indices: 2309787--2309820 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2309777 ATACTTCGCT
*
2309787 TGAATAAAGAAAAA
1 TGAAAAAAGAAAAA
2309801 TGAAAAAAGAAAAA
1 TGAAAAAAGAAAAA
*
2309815 AGAAAA
1 TGAAAA
2309821 GAGGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (14 bp):
TGAAAAAAGAAAAA
Found at i:2309828 original size:20 final size:17
Alignment explanation
Indices: 2309805--2309852 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 17
2309795 GAAAAATGAA
2309805 AAAAGAAAAAAGAAAAGAGG
1 AAAA-AAAAAA-AAAAGA-G
2309825 AAAAAAGGAAAAAAAAGAG
1 AAAAAA--AAAAAAAAGAG
2309844 AAAAAAAAA
1 AAAAAAAAA
2309853 GGGATTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.12
19 9 0.35
20 10 0.38
21 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAG
Found at i:2309838 original size:10 final size:11
Alignment explanation
Indices: 2309803--2309851 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
2309793 AAGAAAAATG
*
2309803 AAAAAAGAAAA
1 AAAAAAGAGAA
*
2309814 AAGAAAAGAG-G
1 AA-AAAAGAGAA
2309825 AAAAAAG-GAA
1 AAAAAAGAGAA
2309835 AAAAAAGAGAA
1 AAAAAAGAGAA
2309846 AAAAAA
1 AAAAAA
2309852 AGGGATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.03
10 12 0.38
11 13 0.41
12 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:2309847 original size:7 final size:7
Alignment explanation
Indices: 2309792--2309838 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
2309782 TCGCTTGAAT
2309792 AAAGAAA
1 AAAGAAA
*
2309799 AATGAAA
1 AAAGAAA
2309806 AAAGAAA
1 AAAGAAA
2309813 AAAGAAA
1 AAAGAAA
*
2309820 AGAGGAAA
1 A-AAGAAA
2309828 AAAGGAAA
1 AAA-GAAA
2309836 AAA
1 AAA
2309839 AAGAGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:2309850 original size:22 final size:23
Alignment explanation
Indices: 2309803--2309854 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
2309793 AAGAAAAATG
**
2309803 AAAAAA-GAAAAAAGAAAAGAGG
1 AAAAAAGGAAAAAAGAAAAGAAA
*
2309825 AAAAAAGGAAAAAA-AAGAGAAA
1 AAAAAAGGAAAAAAGAAAAGAAA
2309847 AAAAAAGG
1 AAAAAAGG
2309855 GATTCAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAAAAGGAAAAAAGAAAAGAAA
Found at i:2311377 original size:133 final size:131
Alignment explanation
Indices: 2311105--2311437 Score: 447
Period size: 133 Copynumber: 2.5 Consensus size: 131
2311095 GCAAATCGAA
* * * *
2311105 CTCGATTCAATATTCCCTGGAGAATAGTAGAATGAATCAAC-GCTTCTAGATCTGATTTTCCCTG
1 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATC-TCTAGATCTGATTTTCCCTG
* *
2311169 AAGAAGTAGCGAACATATCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGCAGTGAAGCAAGTCT
65 AAGAAGTAGCGAACAGATCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGAAGTGAAGCAAGTCT
*
2311234 TC
130 AC
* *
2311236 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCTCTATATCTGATTTTCCCTGA
1 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATCTCTAGATCTGATTTTCCCTGA
* * *
2311301 AGAAGTAGTGGAATAGATCCCCTCTTTCCAGATTTGATCTTCCCTGAGTAGAAGTGGAA-CAAGT
66 AGAAGTAG-CGAACAGAT-CCCTCTTTCCAGACTTGATCTTCCCTGAGTAGAAGT-GAAGCAAGT
2311365 CTAC
128 CTAC
* * * * * *
2311369 CTCGATTCAATTTTCCCTAAAGATCAGTGGAATTAATCAACATTTCTAGATCTGA-TTACCCTGA
1 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATCTCTAGATCTGATTTTCCCTGA
2311433 AGAAG
66 AGAAG
2311438 CATTGGAACA
Statistics
Matches: 179, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
131 65 0.36
132 20 0.11
133 91 0.51
134 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (131 bp):
CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATCTCTAGATCTGATTTTCCCTGA
AGAAGTAGCGAACAGATCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGAAGTGAAGCAAGTCTA
C
Found at i:2311649 original size:3 final size:3
Alignment explanation
Indices: 2311641--2311701 Score: 101
Period size: 3 Copynumber: 21.3 Consensus size: 3
2311631 TCATCCTGAC
2311641 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2311687 ATT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT A
2311702 GTTGCAGGCC
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:2311683 original size:28 final size:29
Alignment explanation
Indices: 2311641--2311701 Score: 115
Period size: 28 Copynumber: 2.1 Consensus size: 29
2311631 TCATCCTGAC
2311641 ATTATTATTATTATTATTATTATTATTTT
1 ATTATTATTATTATTATTATTATTATTTT
2311670 ATTATT-TTATTATTATTATTATTATTTT
1 ATTATTATTATTATTATTATTATTATTTT
2311698 ATTA
1 ATTA
2311702 GTTGCAGGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
ATTATTATTATTATTATTATTATTATTTT
Found at i:2313191 original size:61 final size:61
Alignment explanation
Indices: 2313126--2313263 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 61
2313116 ATTAAAAATG
* * *
2313126 TTCATTTTAGTCACT-TTTGCACTTTATTTTGTTTTAATTTTGACATGATGA-TTTAT-TTGTT
1 TTCATTTTAGTCACTATTTACACTTTATTTTATTTTAATTTTG-CATG-TCACTTTATGTTG-T
** *
2313187 TTCATTTTAGTC-CTATTTACGTTTTGTTTTATTTTAATTTTGCATGTCACTTTTATGTTGT
1 TTCATTTTAGTCACTATTTACACTTTATTTTATTTTAATTTTGCATGTCAC-TTTATGTTGT
2313248 TTCATTTTAGTCACTA
1 TTCATTTTAGTCACTA
2313264 ATTAGTTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
60 6 0.09
61 52 0.79
62 6 0.09
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.59
Consensus pattern (61 bp):
TTCATTTTAGTCACTATTTACACTTTATTTTATTTTAATTTTGCATGTCACTTTATGTTGT
Found at i:2313272 original size:61 final size:60
Alignment explanation
Indices: 2313152--2313294 Score: 159
Period size: 61 Copynumber: 2.4 Consensus size: 60
2313142 TTGCACTTTA
* * *
2313152 TTTTGTTTTAATTTTGACATGATGATTTATTTGTTTTCATTTTAGTCCTATTTACGTTTTG
1 TTTTATTTTAATTTTG-CATGATCATTTATTTGTTTTCATTTTAGTCCTAATTACGTTTTG
2313213 TTTTATTTTAATTTTGCATG-TCACTTTTATGTTG-TTTCATTTTAGTCACTAATTA-GTTTTG
1 TTTTATTTTAATTTTGCATGATCA--TTTAT-TTGTTTTCATTTTAGTC-CTAATTACGTTTTG
* * *
2313274 TTCTCTATTAA-TTTGCATGAT
1 TTTTATTTTAATTTTGCATGAT
2313295 ACCCTCATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
60 12 0.17
61 48 0.68
62 9 0.13
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.59
Consensus pattern (60 bp):
TTTTATTTTAATTTTGCATGATCATTTATTTGTTTTCATTTTAGTCCTAATTACGTTTTG
Found at i:2314893 original size:60 final size:60
Alignment explanation
Indices: 2314778--2314896 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
2314768 TTGGCCATGG
* * *
2314778 AATTTGAATGTTCAAAAGTTTAAGGACTAATTTAAAAGGAAAGTCATAGCCTAGGGATAA
1 AATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAGGAAAGTCATAACCTAGGGATAA
* * **
2314838 AATTAGAATATTCAAAAGTTTAAGGATTAATTTAAAATGAGAA-TCATAATTTAGGGATA
1 AATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAGGA-AAGTCATAACCTAGGGATA
2314897 TATGATACAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (60 bp):
AATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAGGAAAGTCATAACCTAGGGATAA
Found at i:2315801 original size:6 final size:6
Alignment explanation
Indices: 2315783--2315812 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2315773 TCGGGGATTT
2315783 GTTCGG G-TCGG GTTCGG GTTCGG GTTCGG G
1 GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG G
2315813 GCAAGGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GTTCGG
Found at i:2315851 original size:2 final size:2
Alignment explanation
Indices: 2315844--2315919 Score: 67
Period size: 2 Copynumber: 41.0 Consensus size: 2
2315834 CCGCCCCGAT
* *
2315844 TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TA TT TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2315884 TA T- TA TA TA TA TGA TA T- TT TA TA T- TA -A T- TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
2315920 AAATATTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
1 7 0.11
2 53 0.85
3 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (2 bp):
TA
Found at i:2315901 original size:32 final size:32
Alignment explanation
Indices: 2315843--2315919 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
2315833 CCCGCCCCGA
2315843 TTATATATATATATATATATATATATTTTATAT
1 TTAT-TATATATATATATATATATATTTTATAT
2315876 TTATTATATAT-TATATATATGATATTTTATAT
1 TTATTATATATATATATATAT-ATATTTTATAT
*
2315908 TAATTATATATA
1 TTATTATATATA
2315920 AAATATTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 9 0.22
32 28 0.68
33 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (32 bp):
TTATTATATATATATATATATATATTTTATAT
Found at i:2318014 original size:23 final size:23
Alignment explanation
Indices: 2317984--2318088 Score: 119
Period size: 23 Copynumber: 4.7 Consensus size: 23
2317974 TCGAGGGTTC
2317984 TATGTGGTCCTTCGGGATAAAAT
1 TATGTGGTCCTTCGGGATAAAAT
*
2318007 TATGTGGTCCTTCGGGA-AAAACC
1 TATGTGGTCCTTCGGGATAAAA-T
* *
2318030 TATGTGGTCCTTCGAGACAAAAT
1 TATGTGGTCCTTCGGGATAAAAT
* *
2318053 TATGTGATCATTCGGGAT--AAT
1 TATGTGGTCCTTCGGGATAAAAT
2318074 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
2318089 TGCAAATTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
20 1 0.01
21 14 0.20
22 4 0.06
23 47 0.67
24 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGATAAAAT
Found at i:2318839 original size:25 final size:24
Alignment explanation
Indices: 2318791--2318849 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
2318781 TATTTTTTTA
**
2318791 AAAAATA-AAAATTATTTTAAATT
1 AAAAATATAAAATTATTAAAAATT
*
2318814 ACAAATATAAAATTATTAAAATATT
1 AAAAATATAAAATTATTAAAA-ATT
*
2318839 AAAAATTTAAA
1 AAAAATATAAA
2318850 TATAAAACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 6 0.21
24 11 0.38
25 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAAATATAAAATTATTAAAAATT
Found at i:2319265 original size:25 final size:25
Alignment explanation
Indices: 2319237--2319285 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2319227 GTAAGTTTGA
*
2319237 CTAATCCAAAATTTGTAAGTCTTAG
1 CTAATCCAAAATTTATAAGTCTTAG
** *
2319262 CTAATTTAAATTTTATAAGTCTTA
1 CTAATCCAAAATTTATAAGTCTTA
2319286 ATTAATCAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (25 bp):
CTAATCCAAAATTTATAAGTCTTAG
Found at i:2319514 original size:18 final size:17
Alignment explanation
Indices: 2319493--2319536 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2319483 ATACTTTAAC
*
2319493 TTTTATTTTATATTTAT
1 TTTTTTTTTATATTTAT
*
2319510 TTTTTTTTGTATTTTTAT
1 TTTTTTTT-TATATTTAT
2319528 TTTTTTTTT
1 TTTTTTTTT
2319537 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTATATTTAT
Found at i:2319524 original size:7 final size:6
Alignment explanation
Indices: 2319493--2319543 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
2319483 ATACTTTAAC
* *
2319493 TTTTA- TTTTAT ATTTAT TTTT-T TTTGTAT TTTTAT TTTT-T TTTTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT
2319539 TTTTA
1 TTTTA
2319544 AAAATTAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
5 14 0.36
6 21 0.54
7 4 0.10
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTTAT
Done.