Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 29
Found at i:2115938 original size:24 final size:22
Alignment explanation
Indices: 2115875--2115939 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
2115865 TTCCCCATGA
*
2115875 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
2115895 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
2115918 ATGTGCATCGATGCACTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
2115940 TGCATCAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:2124522 original size:10 final size:10
Alignment explanation
Indices: 2124507--2124562 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
2124497 AATGTAGATG
2124507 AACGAACATA
1 AACGAACATA
2124517 AACGAACGGATGTA
1 AACGAAC--A--TA
2124531 AACGAACATA
1 AACGAACATA
* *
2124541 AACAAACGTA
1 AACGAACATA
2124551 AACGAACATA
1 AACGAACATA
2124561 AA
1 AA
2124563 TGAAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 27 0.71
12 2 0.05
14 9 0.24
ACGTcount: A:0.57, C:0.18, G:0.14, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Found at i:2124776 original size:24 final size:24
Alignment explanation
Indices: 2124749--2124798 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2124739 AACATAAATG
*
2124749 AATGCACATAAACGAACAAACATA
1 AATGAACATAAACGAACAAACATA
* *
2124773 AATGAACATAAATGAACGAACATA
1 AATGAACATAAACGAACAAACATA
2124797 AA
1 AA
2124799 CAAACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.16, G:0.10, T:0.14
Consensus pattern (24 bp):
AATGAACATAAACGAACAAACATA
Found at i:2124798 original size:14 final size:14
Alignment explanation
Indices: 2124739--2124798 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 14
2124729 GATTGGGCTA
*
2124739 AACATAAATGAATG
1 AACATAAATGAACG
* * *
2124753 CACATAAACGAACA
1 AACATAAATGAACG
2124767 AACATAAAT----G
1 AACATAAATGAACG
2124777 AACATAAATGAACG
1 AACATAAATGAACG
2124791 AACATAAA
1 AACATAAA
2124799 CAAACATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
10 9 0.26
14 26 0.74
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:2124804 original size:24 final size:24
Alignment explanation
Indices: 2124754--2124815 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2124744 AAATGAATGC
**
2124754 ACATAAACGAACAAACATAAATGA
1 ACATAAACGAACAAACATAAACAA
* *
2124778 ACATAAATGAACGAACATAAACAA
1 ACATAAACGAACAAACATAAACAA
2124802 ACATATAACCGAAC
1 ACATA-AA-CGAAC
2124816 GTTCACGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 25 0.81
25 2 0.06
26 4 0.13
ACGTcount: A:0.60, C:0.19, G:0.08, T:0.13
Consensus pattern (24 bp):
ACATAAACGAACAAACATAAACAA
Found at i:2127443 original size:87 final size:87
Alignment explanation
Indices: 2127297--2127470 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
2127287 ATTCTATGAG
2127297 AAAGATTTGTGTTTGAGGAATTGTTAGATTACACGATCGACCGGAATCTCTAATAACAAAAAATA
1 AAAGATTTGTGTTTGAGGAATTGTTAGATTACACGATCGACCGGAATCTCTAATAACAAAAAATA
2127362 TACTGTATTCTTGAGGTGTCAT
66 TACTGTATTCTTGAGGTGTCAT
2127384 AAAGATTTGTGTTTGAGGAATTGTTAGATTACACGATCGACCGGAATCTCTAATAACAAAAAATA
1 AAAGATTTGTGTTTGAGGAATTGTTAGATTACACGATCGACCGGAATCTCTAATAACAAAAAATA
2127449 TACTGTATTCTTGAGGTGTCAT
66 TACTGTATTCTTGAGGTGTCAT
2127471 GTAATTCTGA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (87 bp):
AAAGATTTGTGTTTGAGGAATTGTTAGATTACACGATCGACCGGAATCTCTAATAACAAAAAATA
TACTGTATTCTTGAGGTGTCAT
Found at i:2127758 original size:18 final size:18
Alignment explanation
Indices: 2127735--2127773 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2127725 CAGTTAAAAT
2127735 GGTGATGGAATTTTTTAA
1 GGTGATGGAATTTTTTAA
2127753 GGTGATGGAATTTTTTAA
1 GGTGATGGAATTTTTTAA
2127771 GGT
1 GGT
2127774 CATGTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (18 bp):
GGTGATGGAATTTTTTAA
Found at i:2129421 original size:22 final size:21
Alignment explanation
Indices: 2129385--2129430 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
2129375 CCGAAAATAT
*
2129385 TAAAAAAAATGATATTTTAAA
1 TAAAAAAAATAATATTTTAAA
*
2129406 TAAAAAATAATAATATTTTAGA
1 TAAAAAA-AATAATATTTTAAA
2129428 TAA
1 TAA
2129431 TATTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAAAAAAATAATATTTTAAA
Found at i:2140331 original size:182 final size:182
Alignment explanation
Indices: 2140024--2140818 Score: 1076
Period size: 182 Copynumber: 4.4 Consensus size: 182
2140014 TGTCAATTTA
* *** * *
2140024 TGTCGATACTTTATAAAAATGTATCGATCCAC-ATCAATATAACAAAAAAAAATATGATAGAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAAT-GATATAACAGGTAAAAATATGACAAAACC
* * * * * ** * ** * * *
2140088 GATCACGAAAAGACAAAGCCGGTAAATCGCTATTGTATATATTGAAAGTGTCAATACTTTAATAT
65 GGTCTCTAAAGGACAAAACCGGTAAAGAGCGACCGGATATATTAAAAGTGTCGATACTTTAATAT
* *
2140153 AAGTATCGACATTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
* * *
2140206 TGTCGATACTTTATAAAAATGTATCGATCCATAATGATATAACAGGAAAAAATATGACAAAACTG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
* * * *
2140271 GTCTCTAAAGGACAAAACTGGTAAAGCGCTACCGGATATATTAAAAGTCTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTAAAGAGCGACCGGATATATTAAAAGTGTCGATACTTTAATATA
**
2140336 AGTATCGGTACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
* * * * *
2140388 TGTCGATACTTTATAACAATATATCAATCCACAATGATATAATAGGTAAAAATATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
* * * *
2140453 GTCTCTAGAGGACAAAACCGGTATAGAGCGACAGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTAAAGAGCGACCGGATATATTAAAAGTGTCGATACTTTAATATA
* *
2140518 AGTATGGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGTCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
* *
2140570 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
* * *
2140635 GTCTCTAAAGCACAAAACCGGTATAGAGCGACCGAATATATTGAAAA-TGTCGATACTTTAATAT
66 GTCTCTAAAGGACAAAACCGGTAAAGAGCGACCGGATATATT-AAAAGTGTCGATACTTTAATAT
* * *
2140699 AAGTATCGACAGTTAT-TGAATTTAAAAGAGAAACAGTTTTAGCGACTATAAAG
130 AAGTATCGACACTT-TGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
*
2140752 TGTCGATACTTTATAAAAATGTATCGATCCATAACT-ATATAACAGGTAAAAATATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAA-TGATATAACAGGTAAAAATATGACAAAACC
2140816 GGT
65 GGT
2140819 AAAGCGCTAC
Statistics
Matches: 548, Mismatches: 61, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
182 542 0.99
183 6 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
GTCTCTAAAGGACAAAACCGGTAAAGAGCGACCGGATATATTAAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
Found at i:2141388 original size:19 final size:19
Alignment explanation
Indices: 2141364--2141412 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2141354 AATGTATGGT
2141364 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2141383 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2141402 TAATTTTGTAT
1 TAATTTTGTAT
2141413 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2142048 original size:199 final size:199
Alignment explanation
Indices: 2141763--2142919 Score: 1564
Period size: 199 Copynumber: 5.8 Consensus size: 199
2141753 GTAAACATAT
2141763 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* ** * * * * *
2141828 GGTAATTTTGTAATATAACCGGTATAAATATATCGGATTTATGTGAGAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
* * * * *
2141893 ATCGACACTTTCTCATTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAAATGCTGAACGC
131 ATCGACACTTT-TAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACGC
**
2141958 AT-TT
195 ATAAA
* * *
2141962 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
2142027 GGTAAATTTACAATGTAACCGGTATAACTATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
* ** * * * * * *
2142092 ATCGACACGTATGGAATTTGTGTCGATACTGTTTGTCCAAAAGGAATGCCCAAAAGGGCGCACCC
131 ATCGACAC-TTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACGC
2142157 ATAAA
195 ATAAA
* * * *
2142162 GTGTCGATACATTTAATAAAAAGTGTTGATCCCAAAAACATCGAAACCCCTAATTATAATATAAT
1 GTGTCGATACATTT-ATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* ** * * * * *
2142227 AGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTGATGTGAGAATAGGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATG
* *
2142292 TGTCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACG
130 TATCGACAC-TTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACG
2142357 CATAAA
194 CATAAA
* *
2142363 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
2142428 GGTAAATTTACAAAGTAACCGATATAAATATACCAGTTTTATGTGAGAATATGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
* * *
2142493 GTCGACACTTTTGAATTTGTGTTGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACGCA
131 ATCGACACTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACGCA
2142558 TAAA
196 TAAA
* *
2142562 GTGTCGATACATTTATAAAAAGTATCGAT-CCTAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * ***
2142626 GGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGAGAAAATAGGGGAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
* * *
2142691 GTCGACACTTTTTAAATTTGTGTTGATACTTTTTG-CTCAGAATGAATGCCCAAAATGGTGAACG
131 ATCGACAC-TTTTAAATTTGTGTCGATACTTTTTGTC-CAAAATGAATGCCCAAAATGGTGAACG
2142755 CATAAA
194 CATAAA
* * *
2142761 GTTTCGATACATATATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * **
2142826 GGTAAATTTACAATGTAACCGGTATAAATTTACTGGTTTTATGAGAAAATATGTGAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
* * *
2142891 ATCAACACGTTTTAGATTTGTATCGATAC
131 ATCGACAC-TTTTAAATTTGTGTCGATAC
2142920 AATTTTAAAT
Statistics
Matches: 848, Mismatches: 104, Indels: 11
0.88 0.11 0.01
Matches are distributed among these distances:
198 97 0.11
199 340 0.40
200 239 0.28
201 172 0.20
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGT
ATCGACACTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACGCA
TAAA
Found at i:2151037 original size:11 final size:11
Alignment explanation
Indices: 2151016--2151046 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2151006 TTATTCACAA
2151016 CTTTATTTTTTT
1 CTTT-TTTTTTT
2151028 CTTTTTTTTTT
1 CTTTTTTTTTT
2151039 CTTTTTTT
1 CTTTTTTT
2151047 AACATAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:2156887 original size:3 final size:3
Alignment explanation
Indices: 2156879--2156922 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
2156869 GAAAATGACA
* * *
2156879 ATG ATG ATG ATG ACG ATG ATG ATG ATG ATA ATG ATT ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
2156923 CCAAACAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:2156922 original size:15 final size:15
Alignment explanation
Indices: 2156873--2156921 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2156863 GTCAATGAAA
2156873 ATGACAATGATGATG
1 ATGACAATGATGATG
*
2156888 ATGACGATGATGATG
1 ATGACAATGATGATG
* *
2156903 ATGATAATGATTATG
1 ATGACAATGATGATG
2156918 ATGA
1 ATGA
2156922 TCCAAACAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.31
Consensus pattern (15 bp):
ATGACAATGATGATG
Found at i:2158241 original size:24 final size:25
Alignment explanation
Indices: 2158214--2158268 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
2158204 TTTCAAATTC
*
2158214 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
2158238 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
*
2158262 GTTTCAA
1 ATTTCAA
2158269 TATAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 4 0.16
24 19 0.76
25 2 0.08
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:2158276 original size:24 final size:24
Alignment explanation
Indices: 2158225--2158277 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
2158215 TTTCATATGT
* * *
2158225 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
2158249 AATTTGAGTTTGAGTTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
2158273 AATTT
1 AATTT
2158278 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2159055 original size:200 final size:200
Alignment explanation
Indices: 2158649--2160218 Score: 2265
Period size: 200 Copynumber: 7.8 Consensus size: 200
2158639 TAAAGTTTCC
* *
2158649 CATAAAGTGTCAATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGAA-AATTATAA
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACC-AATAATTATAA
* *
2158713 TGTAATA-GTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTTTGAGAAAATAGAT-ATA
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGA-A
* * * * * * * * *
2158776 GATAATGTATCGAAACTTGTGGAATTTGTGTCGATACTTTTGGTCCACAAGGAATGCCCAAAAAG
129 CATAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAT
* *
2158841 GGTGCACC
193 GGTGAACG
* *
2158849 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * *
2158914 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGTGAGAATAGGTGTACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* * * * *
2158979 TAATGTGTCGACGCTTTTGAATTTTATATCGATACTTTTTGTCCAGAATGAATGTCCAAAATGGT
131 TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
2159044 GAACG
196 GAACG
* *
2159049 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTAATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * *
2159114 GTAATAGGTAAATTTACAATGTAATCGGTATAAATATATCGGTTTTATGAGAAAATAGGGGAACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* *
2159179 TAATGTGTCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATTCCCAAAATGGT
131 TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
2159244 GAACG
196 GAACG
* *
2159249 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * * *
2159314 GTAATAGGTAAATTTACAATGTAACCTGTATAATTATACCGGTTTTATGTGAGAATAGGTGTACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* * *
2159379 TAATGTGTCGACACTTTTGAATTTTGTATCGATACTTTTTGTCCAGAATGAATGCCCAAAATAGT
131 TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
2159444 GAACG
196 GAACG
* **
2159449 CATATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAATAAATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * **
2159514 GTAATAGGTAAATTTACAATGTAATCAATATAAATATATTGGTTTTATGAGAAAATAGAG-GAAC
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAG-GTGAAC
*
2159578 ATAATGTGTCGACACATTTT-AAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATG
130 ATAATGTGTCGACAC-TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATG
2159642 GTGAACG
194 GTGAACG
* *
2159649 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCTCAAAAACATCGAAACCAATAATTACAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* *
2159714 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACTGGTTTTATGAGAAAATAGGGGAACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
*
2159779 TAATGTGTCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
131 TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
2159844 GAACG
196 GAACG
* * *
2159849 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCTAAAAACATCGAAATCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * *
2159914 GTAATAGGTAAATTTACAATGTAATCGGTATAAATGTACCGGTTTTATGAGAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* * * * *
2159979 TAACGTATCGACACGTTTT-AGATTTGTGTCGATACTTTTTTGTCCAAAATGAATG-CCAAAAGG
131 TAATGTGTCGACAC-TTTTGAAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATGCCCAAAATG
*
2160042 GTTGCACG
194 G-TGAACG
* * * *
2160050 CATAAAGTGTCGATATAGCTT-TAAAAAGAATCGATCCCAAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAA
* * * * * *
2160114 TGTAATACGTAAATTTACAATGTAATCGGTATAAATATACCGGTTTTATGAGAGAATATGTGTAC
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAAC
* * *
2160179 ATAAAGTGTCGACACTTTTGGATTTTGTGTCGATACTTTT
130 ATAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTT
2160219 AAATAACAAG
Statistics
Matches: 1241, Mismatches: 117, Indels: 24
0.90 0.08 0.02
Matches are distributed among these distances:
199 7 0.01
200 963 0.78
201 269 0.22
202 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (200 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
GAACG
Found at i:2164774 original size:199 final size:199
Alignment explanation
Indices: 2164325--2165041 Score: 785
Period size: 198 Copynumber: 3.6 Consensus size: 199
2164315 ACCTAAATAT
* *
2164325 GTGTCGATATATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * ** * * * * * *
2164388 TATGTAAATTAACAATGTAACCGGTATAAATATA-TTGATTAATTAGAAAACATGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTACTAGAAAATAGGTCATCATAAT
* * *
2164452 GTATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGT
129 GTATCGACACTTGT-TAAATTTGTGTCGATACTT-TTGTCCAAAATGAATG-TCAAACGAGGTGC
2164516 ACGCATAAA
191 ACGCATAAA
* * *
2164525 GTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATTGAAACCGATAATTATAATGTCAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * *
2164589 ATGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTACGAGAAAATAGGTCATCATAAAG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTACTAGAAAATAGGTCATCATAATG
* * *
2164654 TATTGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGTCAAACG-GGTGCATG
130 TATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGTCAAACGAGGTGCACG
2164718 CATAAA
194 CATAAA
* * * * *
2164724 GTGTTGATACATTTATTAAAAGTATCGATCCCAAAAATATTGAAACCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* ** * * *
2164789 GGTAAATTTACAATGT-ACCGATAGAAATATACC-GTTTTTTTAAAAAAATATGTC-TAAATAAT
66 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTACT-AGAAAATAGGTCAT-CATAAT
* * *
2164851 GTATCGACACTCT-TTAAGTTTGTGTCGATACTTTTTTCCAAAATGAATGTCCAACGAGGTGCAC
129 GTATCGACACT-TGTTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGTCAAACGAGGTGCAC
*
2164915 ACATAAA
193 GCATAAA
* * *
2164922 GTGTCGATACATTTA--AAATTGTATCGATCCAAAAAACATCGAAACCTATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
** * * * * *
2164985 AGGTAAATTTGTAATGTTATCGGTATAAATATATCGG-TTTACTTATAAAATAGGTCA
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTAC-TAGAAAATAGGTCA
2165042 ATATAAGCGC
Statistics
Matches: 441, Mismatches: 60, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
196 3 0.01
197 80 0.18
198 112 0.25
199 87 0.20
200 87 0.20
201 70 0.16
202 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTACTAGAAAATAGGTCATCATAATGT
ATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGTCAAACGAGGTGCACGCA
TAAA
Found at i:2166124 original size:2 final size:2
Alignment explanation
Indices: 2166113--2166205 Score: 63
Period size: 2 Copynumber: 49.5 Consensus size: 2
2166103 TTAAAAATAA
* * *
2166113 AT AT -T AT AT AT AT AT AT AT A- AA AT AT TT AT A- AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
2166152 AT A- AT AT TT AT AA AT AT AT AT A- AT AT TT AT AT AT TT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2166191 TT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
2166206 CCCGGCCCGA
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
1 6 0.09
2 62 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2166167 original size:30 final size:32
Alignment explanation
Indices: 2166112--2166205 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 32
2166102 ATTAAAAATA
*
2166112 AATA-TTATATATATATATATAAAATATTTAT
1 AATATTTATATATATATATATAAAATATATAT
*
2166143 AATATTTATATA-ATATTTAT-AAATATATAT
1 AATATTTATATATATATATATAAAATATATAT
* *
2166173 AATATTTATATATTTA-ATTTAAATATATATAT
1 AATATTTATATATATATATATAAA-ATATATAT
2166205 A
1 A
2166206 CCCGGCCCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
30 23 0.43
31 15 0.28
32 16 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AATATTTATATATATATATATAAAATATATAT
Found at i:2166183 original size:15 final size:15
Alignment explanation
Indices: 2166099--2166203 Score: 67
Period size: 15 Copynumber: 7.1 Consensus size: 15
2166089 AGTCCCGATA
*
2166099 AATATTAA-AAATA-
1 AATATTAATATATAT
2166112 AATATT-ATATATAT
1 AATATTAATATATAT
* *
2166126 ATATATAAAATATTTAT
1 A-ATAT-TAATATATAT
*
2166143 AATATTTATATA-AT
1 AATATTAATATATAT
* *
2166157 ATTTATAAATATATAT
1 A-ATATTAATATATAT
* *
2166173 AATATTTATATATTT
1 AATATTAATATATAT
2166188 AAT-TTAAATATATAT
1 AATATT-AATATATAT
2166203 A
1 A
2166204 TACCCGGCCC
Statistics
Matches: 69, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
12 1 0.01
13 10 0.14
14 6 0.09
15 37 0.54
16 7 0.10
17 8 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTAATATATAT
Found at i:2167306 original size:23 final size:23
Alignment explanation
Indices: 2167287--2167351 Score: 130
Period size: 23 Copynumber: 2.8 Consensus size: 23
2167277 ATATAATATC
2167287 ATATATTATTATAATATAATTAA
1 ATATATTATTATAATATAATTAA
2167310 ATATATTATTATAATATAATTAA
1 ATATATTATTATAATATAATTAA
2167333 ATATATTATTATAATATAA
1 ATATATTATTATAATATAA
2167352 AAATATTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATTATTATAATATAATTAA
Found at i:2167360 original size:16 final size:17
Alignment explanation
Indices: 2167339--2167376 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2167329 TTAAATATAT
2167339 TATTATAATA-TAAAAA
1 TATTATAATATTAAAAA
* *
2167355 TATTATATTATTAAAAT
1 TATTATAATATTAAAAA
2167372 TATTA
1 TATTA
2167377 ATAAATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATAATATTAAAAA
Found at i:2176738 original size:13 final size:13
Alignment explanation
Indices: 2176708--2176752 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
2176698 TTTAATATTT
2176708 ATCGGGTCGGGT-
1 ATCGGGTCGGGTA
*
2176720 ATCGGGCCGGGTA
1 ATCGGGTCGGGTA
*
2176733 ATCGGGTCGAGTA
1 ATCGGGTCGGGTA
2176746 ATCGGGT
1 ATCGGGT
2176753 AATCGAGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.16, C:0.18, G:0.44, T:0.22
Consensus pattern (13 bp):
ATCGGGTCGGGTA
Found at i:2179910 original size:20 final size:20
Alignment explanation
Indices: 2179882--2179921 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2179872 AAACATTTTG
*
2179882 TATATTTATATTT-TTTTTCT
1 TATAATTAT-TTTATTTTTCT
2179902 TATAATTATTTTATTTTTCT
1 TATAATTATTTTATTTTTCT
2179922 AAATTCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TATAATTATTTTATTTTTCT
Found at i:2180712 original size:20 final size:20
Alignment explanation
Indices: 2180683--2180724 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2180673 TCCAAATTCA
2180683 CAACGCAAATCTGTAAATCG
1 CAACGCAAATCTGTAAATCG
* *
2180703 CAACGTAAATTTGTAAATCG
1 CAACGCAAATCTGTAAATCG
2180723 CA
1 CA
2180725 CCACATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (20 bp):
CAACGCAAATCTGTAAATCG
Found at i:2180743 original size:20 final size:20
Alignment explanation
Indices: 2180720--2180867 Score: 108
Period size: 20 Copynumber: 7.3 Consensus size: 20
2180710 AATTTGTAAA
*
2180720 TCGCACCACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
* *
2180740 TCGCAACACAGAAGTTAAAT
1 TCGCAACACATAAGTCAAAT
*
2180760 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
*
2180780 TCGCAACAC-TGAAGTCAAGT
1 TCGCAACACAT-AAGTCAAAT
* * **
2180800 TCACAACGCGAATCTGT-AAA-
1 TCGCAACAC--ATAAGTCAAAT
*
2180820 TCGCAACACAGAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
2180840 TCGCAACAC-TGAATTTCAAAT
1 TCGCAACACAT-AA-GTCAAAT
2180861 TCGCAAC
1 TCGCAAC
2180868 TCGATTTTCG
Statistics
Matches: 98, Mismatches: 20, Indels: 19
0.72 0.15 0.14
Matches are distributed among these distances:
18 4 0.04
19 3 0.03
20 72 0.73
21 16 0.16
22 2 0.02
23 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:2180764 original size:40 final size:40
Alignment explanation
Indices: 2180720--2180867 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 40
2180710 AATTTGTAAA
* *
2180720 TCGCACCACATAAGTCAAATTCGCAACACAGAAGTTAAAT
1 TCGCAACACATAAGTCAAATTCGCAACACAGAAGTCAAAT
* * *
2180760 TCGCAACGCGAT-AGTCAAATTCGCAACACTGAAGTCAAGT
1 TCGCAACAC-ATAAGTCAAATTCGCAACACAGAAGTCAAAT
* * **
2180800 TCACAACGCGAATCTGT-AAA-TCGCAACACAGAAGTCAAAT
1 TCGCAACAC--ATAAGTCAAATTCGCAACACAGAAGTCAAAT
*
2180840 TCGCAACAC-TGAATTTCAAATTCGCAAC
1 TCGCAACACAT-AA-GTCAAATTCGCAAC
2180868 TCGATTTTCG
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
37 1 0.01
39 1 0.01
40 68 0.79
41 14 0.16
42 2 0.02
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (40 bp):
TCGCAACACATAAGTCAAATTCGCAACACAGAAGTCAAAT
Found at i:2180784 original size:60 final size:60
Alignment explanation
Indices: 2180731--2180867 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
2180721 CGCACCACAT
* *
2180731 AAGTCAAATTCGCAACACAGAA-GT-TAAATTCGCAACGC-GATAGTCAAATTCGCAACACTG
1 AAGTCAAATTCGCAACAC-GAATCTGTAAA-TCGCAACACAGA-AGTCAAATTCGCAACACTG
* * *
2180791 AAGTCAAGTTCACAACGCGAATCTGTAAATCGCAACACAGAAGTCAAATTCGCAACACTG
1 AAGTCAAATTCGCAACACGAATCTGTAAATCGCAACACAGAAGTCAAATTCGCAACACTG
*
2180851 AATTTCAAATTCGCAAC
1 AA-GTCAAATTCGCAAC
2180868 TCGATTTTCG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 3 0.05
60 45 0.69
61 17 0.26
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.20
Consensus pattern (60 bp):
AAGTCAAATTCGCAACACGAATCTGTAAATCGCAACACAGAAGTCAAATTCGCAACACTG
Found at i:2181087 original size:16 final size:16
Alignment explanation
Indices: 2181066--2181099 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2181056 CCATCTCTAA
*
2181066 TTATTTTTACATAATT
1 TTATTTCTACATAATT
*
2181082 TTATTTCTATATAATT
1 TTATTTCTACATAATT
2181098 TT
1 TT
2181100 TCAATGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTCTACATAATT
Found at i:2181905 original size:24 final size:24
Alignment explanation
Indices: 2181854--2181907 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2181844 GTATTTGAAA
*
2181854 TTTGATCTTGGTCAAAACCCGGAC
1 TTTGATCTTGGTCAAAACCCAGAC
* * *
2181878 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAAAACCCAGAC
2181902 TTTGAT
1 TTTGAT
2181908 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAAAACCCAGAC
Found at i:2184198 original size:18 final size:18
Alignment explanation
Indices: 2184175--2184210 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2184165 AAGCAAAAGG
*
2184175 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
2184193 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2184211 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2185594 original size:22 final size:22
Alignment explanation
Indices: 2185563--2185608 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2185553 GATGGAAATA
2185563 GACGGATTTCACCAGAGATGGG
1 GACGGATTTCACCAGAGATGGG
* ** *
2185585 GACGGGTTTCGTCGGAGATGGG
1 GACGGATTTCACCAGAGATGGG
2185607 GA
1 GA
2185609 TAGATGTCGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCAGAGATGGG
Found at i:2185798 original size:20 final size:20
Alignment explanation
Indices: 2185773--2185836 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
2185763 TAAATGCGCT
2185773 TTGCAAATTTG-TTTTTGTTG
1 TTGCAAATTTGATTTTT-TTG
2185793 TTGCAAATTTGATTTTTTTG
1 TTGCAAATTTGATTTTTTTG
** * *
2185813 TTGTGAATTTGACTTTTGTG
1 TTGCAAATTTGATTTTTTTG
2185833 TTGC
1 TTGC
2185837 GATTTACAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
20 33 0.87
21 5 0.13
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.58
Consensus pattern (20 bp):
TTGCAAATTTGATTTTTTTG
Found at i:2186005 original size:2 final size:2
Alignment explanation
Indices: 2185998--2186032 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2185988 TCATTAAGAT
2185998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2186033 TTAACTCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2188497 original size:21 final size:23
Alignment explanation
Indices: 2188447--2188498 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
2188437 TTAATTTCAA
*
2188447 ATAATTTTAATCTAAAATATTAT
1 ATAAATTTAATCTAAAATATTAT
*
2188470 -TATATTTAAT-TAAAA-ATTAT
1 ATAAATTTAATCTAAAATATTAT
2188490 ATAAATTTA
1 ATAAATTTA
2188499 TAACATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 5 0.20
21 12 0.48
22 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATTTAATCTAAAATATTAT
Found at i:2192083 original size:81 final size:82
Alignment explanation
Indices: 2191915--2193192 Score: 913
Period size: 81 Copynumber: 15.8 Consensus size: 82
2191905 GGCTTGCTAT
* * * *
2191915 AGGAGAATACTTCTTTTCCTCTGCATCATCCACTCCA--T-AGCTCGGCTTGTATGTACTTTCAA
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACT-CATGTAACCT-GGCTTGTATTTACTTTCAA
* * * ***
2191977 GGAGGGAAATGTAAGAAGA
64 GGCGTGCAATACGAGAAGA
** * * *
2191996 CTGAGAAGA-TCTCTTGTCCTCTGCTTCATCCA-TGATGTAACCTGGTTTGTATTTACTTTCAAG
1 AGGAGAAGACT-TCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAG
*
2192059 GCGTGCAATACGAGATGA
65 GCGTGCAATACGAGAAGA
* * * * * * *
2192077 AAGAGAAGGCTTCTTTTCCTCTGCATCATCCACTC-CGTAAGCC-GACTCGTATTTGCTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACTCATGTAA-CCTGGCTTGTATTTACTTTCAAG
*
2192140 GCGTGCAATACGAGATGA
65 GCGTGCAATACGAGAAGA
* * * * * *
2192158 AAGAGAAGACTTCTTTTCCTCTGCATCATCCACTC-CGTAAGCC-GACTCGTATTTGCTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACTCATGTAA-CCTGGCTTGTATTTACTTTCAAG
* *
2192221 GCGTGCAATTCGAGATGA
65 GCGTGCAATACGAGAAGA
* * * * * *
2192239 AAGAGAAGACTTCTTTTCCTCTGCATCATCCACTC-CGTAAGCC-GACTCGTATTTGCTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACTCATGTAA-CCTGGCTTGTATTTACTTTCAAG
*
2192302 GCGTGCAATACGAGAGGA
65 GCGTGCAATACGAGAAGA
* * * *
2192320 AGGAGAAGACTTCTTTTGCTCTGCATCATCCACTCCA--TAACCCGGCTTGTATGTACTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACT-CATGTAACCTGGCTTGTATTTACTTTCAAG
* * ***
2192383 GCGGGAAATGTAAGAAGA
65 GCGTGCAATACGAGAAGA
** * * * *
2192401 CTGAGAAGA-TCTCTTGTCCTCTGCTTCATCCA-TGATGTAACCTGGTTTGTATTTTCTTTCAAG
1 AGGAGAAGACT-TCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAG
*
2192464 GCGTGCAATACTA-AAGGA
65 GCGTGCAATACGAGAA-GA
* **
2192482 AGGAGAAGACTTCTTTTGCC-CTGCATT-ATCCACTCCA--TAACCCGGCTTGTACGTACTTTCA
1 AGGAGAAGACTTCTTTT-CCTCTGC-TTCATCCACT-CATGTAACCTGGCTTGTATTTACTTTCA
* * ***
2192543 AGGCGGGAAATGTAAGAAGA
63 AGGCGTGCAATACGAGAAGA
* * * * * * *
2192563 CCGG-GAAGA-TCTCTTGTCCTCTGTTTCGTCCA-TTATGTAACCTGGTTTGTATTTGCTTTCAA
1 -AGGAGAAGACT-TCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAA
*
2192625 GGCGTGCAATACGAGAGGA
64 GGCGTGCAATACGAGAAGA
* * * *
2192644 AGGAGAAGACTTCTTTTGCTCTGCATCATCCACTCCA--TAACCCGGCTTGTATGTACTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACT-CATGTAACCTGGCTTGTATTTACTTTCAAG
* * ***
2192707 GCGGGAAATGTAAGAAGA
65 GCGTGCAATACGAGAAGA
** * * * * * *
2192725 CTGAGAA-AATCTCTTGTCCTCTGCTTCATCCA-TTATGTAGCCTGGTTTGTATTTGCTTTCAAG
1 AGGAGAAGACT-TCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAG
* *
2192788 GCGTGCAATACGTGAGGA
65 GCGTGCAATACGAGAAGA
* * * *
2192806 AGGAGAAGACTTCTTTTGCTCTGCATCATCCACTCCA--TAACCCGGCTTGTATGTACTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACT-CATGTAACCTGGCTTGTATTTACTTTCAAG
* * ***
2192869 GCGGGAAATGTAAGAAGA
65 GCGTGCAATACGAGAAGA
** * * * * *
2192887 CTGAGAAGA-TCTCTTGTCCTCCGCTTCATCCA-TGATGTAACCTGGTTTGTATTTGCTTTCAAG
1 AGGAGAAGACT-TCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAG
* *
2192950 GCGTGCAATACTAGAGGA
65 GCGTGCAATACGAGAAGA
* * * **
2192968 AGGAGAAGACATCTTTTCCTCTGCATT-AGCCACTCCA--TAACCCGGCTTGTATGCACTTTCAA
1 AGGAGAAGACTTCTTTTCCTCTGC-TTCATCCACT-CATGTAACCTGGCTTGTATTTACTTTCAA
* * **
2193030 GGCGGGAAATATAAGAAGA
64 GGCGTGCAATACGAGAAGA
** * * * * * *
2193049 TTGAGAAGAAC-TCTTGTCCTCTGCTTCAT-CAATTATGTAACCTGGTTTGTATTTGCTTTCGAG
1 AGGAGAAG-ACTTCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAG
* *
2193112 GTGTGCAATACGAGAAGC
65 GCGTGCAATACGAGAAGA
* * **
2193130 AGGAGAAGACTTCTTTTGCTCTG-TATCATCCAC-CATATAACCTGGCTTGTACATACTTTCAAG
1 AGGAGAAGACTTCTTTTCCTCTGCT-TCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAG
2193193 ACGGGAAATG
Statistics
Matches: 940, Mismatches: 207, Indels: 100
0.75 0.17 0.08
Matches are distributed among these distances:
79 6 0.01
80 29 0.03
81 871 0.93
82 30 0.03
83 4 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (82 bp):
AGGAGAAGACTTCTTTTCCTCTGCTTCATCCACTCATGTAACCTGGCTTGTATTTACTTTCAAGG
CGTGCAATACGAGAAGA
Found at i:2192219 original size:162 final size:162
Alignment explanation
Indices: 2192125--2193206 Score: 1569
Period size: 162 Copynumber: 6.7 Consensus size: 162
2192115 AAGCCGACTC
* * *
2192125 GTATTTGCTTTCAAGGCGTGCAATACGAGATGAAAGAGAAGACTTCTTTTCCTCTGCATCATCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
* * * * * * * * * * **
2192190 CTCCGTAAGCCGACTCGTATTTGCTTTCAAGGCGTGCAAT-TCGAGATGAAAGAGAAGA-CTTCT
66 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGT-AAGAAGACTGAGAAGATC-TCT
* * * ** ** *
2192253 TTTCCTCTGCATCATCCACTCCGTAAGCC-GACTC
129 TGTCCTCTGCTTCATCCATTATGTAA-CCTGGTTT
2192287 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
2192352 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
66 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
*
2192417 TCCTCTGCTTCATCCATGATGTAACCTGGTTT
131 TCCTCTGCTTCATCCATTATGTAACCTGGTTT
* * * * *
2192449 GTATTTTCTTTCAAGGCGTGCAATACTAAAGGAAGGAGAAGACTTCTTTTGCCCTGCATTATCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
* * *
2192514 CTCCATAACCCGGCTTGTACGTACTTTCAAGGCGGGAAATGTAAGAAGACCGGGAAGATCTCTTG
66 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
* *
2192579 TCCTCTGTTTCGTCCATTATGTAACCTGGTTT
131 TCCTCTGCTTCATCCATTATGTAACCTGGTTT
2192611 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
*
2192676 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAAATCTCTTG
66 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
*
2192741 TCCTCTGCTTCATCCATTATGTAGCCTGGTTT
131 TCCTCTGCTTCATCCATTATGTAACCTGGTTT
*
2192773 GTATTTGCTTTCAAGGCGTGCAATACGTGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
2192838 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
66 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
* *
2192903 TCCTCCGCTTCATCCATGATGTAACCTGGTTT
131 TCCTCTGCTTCATCCATTATGTAACCTGGTTT
* * * * *
2192935 GTATTTGCTTTCAAGGCGTGCAATACTAGAGGAAGGAGAAGACATCTTTTCCTCTGCATTAGCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
* * * *
2193000 CTCCATAACCCGGCTTGTATGCACTTTCAAGGCGGGAAATATAAGAAGATTGAGAAGAACTCTTG
66 CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
*
2193065 TCCTCTGCTTCATCAATTATGTAACCTGGTTT
131 TCCTCTGCTTCATCCATTATGTAACCTGGTTT
* * * * *
2193097 GTATTTGCTTTCGAGGTGTGCAATACGAGAAGCAGGAGAAGACTTCTTTTGCTCTGTATCATCCA
1 GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
* * ** *
2193162 C-CATATAACCTGGCTTGTACATACTTTCAAGACGGGAAATGTAAG
66 CTC-CATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAG
2193207 TGGACGATGA
Statistics
Matches: 834, Mismatches: 82, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
161 3 0.00
162 829 0.99
163 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (162 bp):
GTATTTGCTTTCAAGGCGTGCAATACGAGAGGAAGGAGAAGACTTCTTTTGCTCTGCATCATCCA
CTCCATAACCCGGCTTGTATGTACTTTCAAGGCGGGAAATGTAAGAAGACTGAGAAGATCTCTTG
TCCTCTGCTTCATCCATTATGTAACCTGGTTT
Found at i:2194159 original size:16 final size:16
Alignment explanation
Indices: 2194134--2194164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2194124 AATTAACTTA
*
2194134 ATATTTAAATTTATGC
1 ATATTCAAATTTATGC
2194150 ATATTCAAATTTATG
1 ATATTCAAATTTATG
2194165 TGTAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
ATATTCAAATTTATGC
Found at i:2201248 original size:24 final size:24
Alignment explanation
Indices: 2201195--2201249 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
2201185 CGTTAAAATG
* *
2201195 ATGAACGAACATAAACTAATACAA
1 ATGAACGAACATAAACGAAGACAA
* * *
2201219 ACGAACGAACGTAAACGAAGATAA
1 ATGAACGAACATAAACGAAGACAA
2201243 ATGAACG
1 ATGAACG
2201250 GGCATAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (24 bp):
ATGAACGAACATAAACGAAGACAA
Found at i:2203837 original size:31 final size:32
Alignment explanation
Indices: 2203783--2203884 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
2203773 TAGGGAGTAA
2203783 TGTATAGATTACAAGTTATAGGTTTTAAAGGG
1 TGTATAGATTACAAGTTATAGGTTTTAAAGGG
2203815 TGTATAGATTACAAG-TATAGGTTTTAAAGGG
1 TGTATAGATTACAAGTTATAGGTTTTAAAGGG
2203846 TGTATAGATTACAAGTTATAGGTTTTAAAGGG
1 TGTATAGATTACAAGTTATAGGTTTTAAAGGG
*
2203878 TGCATAG
1 TGTATAG
2203885 GTTAACTTTA
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
31 31 0.46
32 37 0.54
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (32 bp):
TGTATAGATTACAAGTTATAGGTTTTAAAGGG
Found at i:2203852 original size:18 final size:18
Alignment explanation
Indices: 2203829--2203887 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
2203819 TAGATTACAA
2203829 GTATAGGTTTTAAAGGGT
1 GTATAGGTTTTAAAGGGT
*
2203847 GTATA-G-ATTACAA--GT
1 GTATAGGTTTTA-AAGGGT
2203862 -TATAGGTTTTAAAGGGT
1 GTATAGGTTTTAAAGGGT
*
2203879 GCATAGGTT
1 GTATAGGTT
2203888 AACTTTACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
14 4 0.12
15 5 0.16
16 6 0.19
17 5 0.16
18 12 0.38
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.37
Consensus pattern (18 bp):
GTATAGGTTTTAAAGGGT
Found at i:2204506 original size:69 final size:70
Alignment explanation
Indices: 2204390--2204522 Score: 155
Period size: 69 Copynumber: 1.9 Consensus size: 70
2204380 AGTAAATTTT
* * * * *
2204390 TCTAATAAAAATATTGGAAAAAATAAATTTTAAGAATAGCTACATAATAATAAATATTGAAAAAA
1 TCTAATAAAAATATT-GAAAAAAAAAATTTAAAGAATAGCTACATAATAACAAACACTGAAAAAA
2204455 TAAATC
65 TAAATC
* *
2204461 TCTAATAATAAATATT-AAAAAAAAAATTTAAAAGTATA-CT-TATAATAACAAACACTGAAAAA
1 TCTAATAA-AAATATTGAAAAAAAAAATTT-AAAGAATAGCTACATAATAACAAACACTGAAAAA
2204523 GAATTGAACC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
69 18 0.34
70 14 0.26
71 14 0.26
72 7 0.13
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (70 bp):
TCTAATAAAAATATTGAAAAAAAAAATTTAAAGAATAGCTACATAATAACAAACACTGAAAAAAT
AAATC
Found at i:2206194 original size:105 final size:103
Alignment explanation
Indices: 2205904--2206208 Score: 251
Period size: 105 Copynumber: 2.9 Consensus size: 103
2205894 ATACCATTGA
* * * * * * *
2205904 CACAATGAGAAAGCAAGGGATTGAGCCTCATGTGGTCACGTACAATATACTGATTGCTGCACTTT
1 CACAATGAGAAAGCAAGGAATTGAGCCTGATGTTGTCACGTATAATATATTGATCGATGCACTTT
* * *
2205969 GTGATAAGGGGGTGGTTCCCGAAGCTGAAGCGATTGTT
66 GTAAGAAGGGGATGGTTCCCGAAGCTGAAGCGATTGTT
* * * ** * * *
2206007 CACACGATG-GAAAAGCGAGGAATTAAG-CTCGGT-TTCGAGACGTATAGTATATTGGTGGATGC
1 CACA--ATGAG-AAAGCAAGGAATTGAGCCT-GATGTT-GTCACGTATAATATATTGATCGATGC
* * * * *
2206069 ACATTGTAAGGACGGAATGGTTCCCAAAGCTGAAG-GTATTGCTGT
61 ACTTTGTAAGAAGGGGATGGTTCCCGAAGCTGAAGCG-ATTG-T-T
* * *
2206114 CACAATGAGAAAGCTAGGCATTGAGCCTGATGTTGTCACGTATAATATATTCATCGATGCACTTT
1 CACAATGAGAAAGCAAGGAATTGAGCCTGATGTTGTCACGTATAATATATTGATCGATGCACTTT
*
2206179 GCAAGAAGGGGATGGTAT-CCGAAGCTGAAG
66 GTAAGAAGGGGATGGT-TCCCGAAGCTGAAG
2206209 ATATCTTTGC
Statistics
Matches: 152, Mismatches: 38, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
103 4 0.03
104 5 0.03
105 131 0.86
106 7 0.05
107 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (103 bp):
CACAATGAGAAAGCAAGGAATTGAGCCTGATGTTGTCACGTATAATATATTGATCGATGCACTTT
GTAAGAAGGGGATGGTTCCCGAAGCTGAAGCGATTGTT
Found at i:2206377 original size:105 final size:105
Alignment explanation
Indices: 2206114--2206388 Score: 281
Period size: 105 Copynumber: 2.6 Consensus size: 105
2206104 GTATTGCTGT
* * * *
2206114 CACAAT-GAGAAAGCTAGGCATTGAGCCTGATGTTGTCACGTATAATATATTCATCGATGCACTT
1 CACAATGGA-AAAGCAAGGCATCGAGCCTGATGTTGTCACGTATGATATATTGATCGATGCACTT
* *
2206178 TGCAAGAAGGGGATGGTATCCGAAGCTGAAGATATCTTTGC
65 TACAAGAAGGGGATGGTATCCGAAGCTGAAGATATCTTTGA
* * * * * * *
2206219 CACGATGGCAAAGCAAGGCGTCGCGCCTGATCTTGTCACGTATCG-T-TCATTGATTGGTGCACT
1 CACAATGGAAAAGCAAGGCATCGAGCCTGATGTTGTCACGTAT-GATAT-ATTGATCGATGCACT
* *
2206282 TTACAACG-AGGGGATGGTTTCCGAAGCTGAATATATGC-TTGA
64 TTACAA-GAAGGGGATGGTATCCGAAGCTGAAGATAT-CTTTGA
* * * * **
2206324 CACAATGGAAAAGCAAGGCATCGGGCCTGATGGTGTCAGGTATGATATGTTGATCCCTGCACTTT
1 CACAATGGAAAAGCAAGGCATCGAGCCTGATGTTGTCACGTATGATATATTGATCGATGCACTTT
2206389 CCAAAGCTAA
Statistics
Matches: 137, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
104 2 0.01
105 131 0.96
106 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (105 bp):
CACAATGGAAAAGCAAGGCATCGAGCCTGATGTTGTCACGTATGATATATTGATCGATGCACTTT
ACAAGAAGGGGATGGTATCCGAAGCTGAAGATATCTTTGA
Found at i:2209464 original size:6 final size:6
Alignment explanation
Indices: 2209453--2209490 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
2209443 AGTGATTTTC
2209453 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TA
2209491 CTATATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATAAT
Found at i:2209753 original size:28 final size:28
Alignment explanation
Indices: 2209719--2209776 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
2209709 ATGCCATAAG
* * *
2209719 TCAGTTTGCATTGAAAATTGAAATAATA
1 TCAGTTTGAATAGAAAATTGAAAAAATA
*
2209747 TCAGTTTGAATAGAAATTTGAAAAAATA
1 TCAGTTTGAATAGAAAATTGAAAAAATA
2209775 TC
1 TC
2209777 CAGCAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (28 bp):
TCAGTTTGAATAGAAAATTGAAAAAATA
Found at i:2213778 original size:30 final size:30
Alignment explanation
Indices: 2213742--2213809 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
2213732 TGTATCCTTA
2213742 ATTTTTTTTAAAAAATAACATTATAAAAAT
1 ATTTTTTTTAAAAAATAACATTATAAAAAT
*
2213772 ATTTTTTTTAAAAAATAACATTATAAATAT
1 ATTTTTTTTAAAAAATAACATTATAAAAAT
2213802 ATTTTTTT
1 ATTTTTTT
2213810 AATTTTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTTTTTTAAAAAATAACATTATAAAAAT
Found at i:2220110 original size:18 final size:19
Alignment explanation
Indices: 2220076--2220111 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2220066 ACATGATCAT
*
2220076 GAATTATGTAGATAACAAA
1 GAATTAAGTAGATAACAAA
2220095 GAATTAAGTA-ATAACAA
1 GAATTAAGTAGATAACAA
2220112 TAGGAAGTGA
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:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (19 bp):
GAATTAAGTAGATAACAAA
Found at i:2221095 original size:18 final size:18
Alignment explanation
Indices: 2221072--2221106 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2221062 ATTATCAGTG
2221072 GTCCTTCGGGACATAGTA
1 GTCCTTCGGGACATAGTA
*
2221090 GTCCTTCGGGATATAGT
1 GTCCTTCGGGACATAGT
2221107 GGTCATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTA
Found at i:2225014 original size:19 final size:19
Alignment explanation
Indices: 2224976--2225018 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2224966 GATATGTTTG
* *
2224976 GGTATGTGCTATATGTTAT
1 GGTATGTGCTACATGATAT
*
2224995 GGTATGTGTTACATGATAT
1 GGTATGTGCTACATGATAT
2225014 -GTATG
1 GGTATG
2225019 AATACATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (19 bp):
GGTATGTGCTACATGATAT
Found at i:2225139 original size:18 final size:19
Alignment explanation
Indices: 2225105--2225140 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2225095 ACATGATCAT
*
2225105 GAATTATGTAGATAACAAA
1 GAATTAAGTAGATAACAAA
2225124 GAATTAAGTA-ATAACAA
1 GAATTAAGTAGATAACAA
2225141 GAGGAAGTGA
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:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (19 bp):
GAATTAAGTAGATAACAAA
Found at i:2226011 original size:20 final size:20
Alignment explanation
Indices: 2225988--2226034 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2225978 GTTATACGAT
2225988 TATGTGATAAATTGTATAAC
1 TATGTGATAAATTGTATAAC
*
2226008 TATGTGATAAATTGTGTAAC
1 TATGTGATAAATTGTATAAC
2226028 TATGTGA
1 TATGTGA
2226035 ATATGTGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (20 bp):
TATGTGATAAATTGTATAAC
Found at i:2226150 original size:18 final size:18
Alignment explanation
Indices: 2226127--2226161 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2226117 ATTATCAGTG
2226127 GTCCTTCGGGACATAGTA
1 GTCCTTCGGGACATAGTA
*
2226145 GTCCTTCGGGATATAGT
1 GTCCTTCGGGACATAGT
2226162 GGTCATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTA
Found at i:2227702 original size:23 final size:24
Alignment explanation
Indices: 2227657--2227717 Score: 97
Period size: 23 Copynumber: 2.6 Consensus size: 24
2227647 AGCTTTCAGC
*
2227657 ACCACCTTCAGCTACACGTAACAT
1 ACCACCTTCAGCTACACGCAACAT
2227681 ACCACCTTCAGCT-CACGCAACAT
1 ACCACCTTCAGCTACACGCAACAT
*
2227704 ACCAACTTCAGCTA
1 ACCACCTTCAGCTA
2227718 TATCAACTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 21 0.62
24 13 0.38
ACGTcount: A:0.33, C:0.39, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCACCTTCAGCTACACGCAACAT
Found at i:2230957 original size:85 final size:86
Alignment explanation
Indices: 2230842--2231017 Score: 291
Period size: 85 Copynumber: 2.1 Consensus size: 86
2230832 CCCAGAATAG
* * *
2230842 TAAGTGCCCAAAAGAATTAGATTTATTATTATTGTTAGAATAAAAAAGTAAACAAAGTATTATGG
1 TAAGGGCCCAAAAGAATTAGATTTATTATTATTGTTACAATAAAAAAGCAAACAAAGTATTATGG
2230907 ATCAATGGTAAAATTGAGATT
66 ATCAATGGTAAAATTGAGATT
*
2230928 TAAGGGCCCAAAA-ATTTAGATTTATTATTATTGTTACAATAAAAAAGCAAACAAAGTATTATGG
1 TAAGGGCCCAAAAGAATTAGATTTATTATTATTGTTACAATAAAAAAGCAAACAAAGTATTATGG
* *
2230992 ATTAGTGGTAAAATTGAGATT
66 ATCAATGGTAAAATTGAGATT
2231013 TAAGG
1 TAAGG
2231018 TTTTTTTTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 72 0.86
86 12 0.14
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.32
Consensus pattern (86 bp):
TAAGGGCCCAAAAGAATTAGATTTATTATTATTGTTACAATAAAAAAGCAAACAAAGTATTATGG
ATCAATGGTAAAATTGAGATT
Found at i:2239140 original size:43 final size:43
Alignment explanation
Indices: 2239083--2239377 Score: 450
Period size: 43 Copynumber: 6.9 Consensus size: 43
2239073 TGAGAACAAA
* *
2239083 AAACGCCGCAAAAGGTCGAGATATATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
2239126 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * *
2239169 AAACGCCGCAAAAGGTCAAGATTTATAGCAGCGTTTTTAGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
*
2239212 AAACGCCGCAAAAGGTCGAGATCTATAACGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
*
2239255 AAACGCCGCTAAAA-GTCGAGATTTATAGCGGCGTTTTTGGAAC
1 AAACGCCGC-AAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
2239298 AAATGCCACAAAAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
2239340 AAACGCCGCAAAAGGTTGAGATTTATAGCGGCGTTTTT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTT
2239378 CTATACAAAC
Statistics
Matches: 227, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
42 41 0.18
43 182 0.80
44 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:2239537 original size:21 final size:21
Alignment explanation
Indices: 2239513--2239573 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
2239503 TAATTAAGAC
2239513 ACAAACTTGAAATCCATAACA
1 ACAAACTTGAAATCCATAACA
2239534 ACAAACTTGAAATCCATAACA
1 ACAAACTTGAAATCCATAACA
*
2239555 AGAAACTTGAAATCCATAA
1 ACAAACTTGAAATCCATAA
2239574 TAATAAATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.20
Consensus pattern (21 bp):
ACAAACTTGAAATCCATAACA
Found at i:2245384 original size:41 final size:40
Alignment explanation
Indices: 2245317--2245679 Score: 207
Period size: 41 Copynumber: 8.9 Consensus size: 40
2245307 GTTAATGGTT
* * *
2245317 AAACGCCAATAAAGTACT-AGGTTTTAGCGGCGTTTGTCTA
1 AAACGCCACTAAAGTA-TGACGTTTTAGCGGCGTTTGTTTA
*
2245357 AAATCGTCACTAAAGTATGA-GTATTTAGCGGCGTTT-TTGAATA
1 AAA-CGCCACTAAAGTATGACGT-TTTAGCGGCGTTTGTT---TA
* * * *
2245400 AAACGCCACTAAAGTATTAGGTTTTAGTGGCGTTTATTTAA
1 AAACGCCACTAAAGTATGACGTTTTAGCGGCGTTTGTTT-A
* *** * *
2245441 AAACGCAACGGTA-TATGTACCCTATT-GCGGCGTTTGTTTAA
1 AAACGCCACTAAAGTATG-A-CGTTTTAGCGGCGTTTGTTT-A
*
2245482 AAACGCCACTAAAG-A--ACGATTCTATGGCGGCGTTTGTTTA
1 AAACGCCACTAAAGTATGACG-TT-T-TAGCGGCGTTTGTTTA
2245522 CAAACGCCACTAAAGTATGA-GTTTTAGCGGCGTTT-TTGCATA
1 -AAACGCCACTAAAGTATGACGTTTTAGCGGCGTTTGTT---TA
* * * *
2245564 AAACGCCTCTAAAGTACT-AGGTTTTAGCGGCGTTTATCTAA
1 AAACGCCACTAAAGTA-TGACGTTTTAGCGGCGTTTGT-TTA
* * * *
2245605 AAATGCCAC-AATA-TATGTACCCTATT-GCGGCATTTGTTTAA
1 AAACGCCACTAA-AGTATG-A-CGTTTTAGCGGCGTTTGTTT-A
2245646 AAACGCCACTAAAGTATGA-GTTTTAGCGGCGTTT
1 AAACGCCACTAAAGTATGACGTTTTAGCGGCGTTT
2245680 ATTGAAAAAC
Statistics
Matches: 251, Mismatches: 37, Indels: 70
0.70 0.10 0.20
Matches are distributed among these distances:
37 1 0.00
38 2 0.01
39 7 0.03
40 36 0.14
41 133 0.53
42 59 0.24
43 11 0.04
44 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (40 bp):
AAACGCCACTAAAGTATGACGTTTTAGCGGCGTTTGTTTA
Found at i:2245515 original size:82 final size:78
Alignment explanation
Indices: 2245399--2245692 Score: 250
Period size: 82 Copynumber: 3.6 Consensus size: 78
2245389 GTTTTTGAAT
* * * *
2245399 AAAACGCCACTAAAGTATTAGGTTTTAGTGGCGTTTATTTAAAAACGCAACGGTATATGTACCCT
1 AAAACGCCACTAAAGTA--CGATTTTAGCGGCGTTTATTTAAAAACGCCAC--TATATGTACCCT
2245464 ATTGCGGCGTTTGTTTA
62 ATTGCGGCGTTTGTTTA
* * * * * *** *
2245481 AAAACGCCACTAAAGAACGATTCTATGGCGGCGTTTGTTTACAAACGCCACTA-AAGTATGAGTT
1 AAAACGCCACTAAAGTACGATT-T-TAGCGGCGTTTATTTAAAAACGCCACTATATGTA-CCCTA
*
2245545 TTAGCGGCGTTT-TTGCA
63 TT-GCGGCGTTTGTT-TA
* * * *
2245562 TAAAACGCCTCTAAAGTACTAGGTTTTAGCGGCGTTTATCTAAAAATGCCACAATATATGTACCC
1 -AAAACGCCACTAAAGTAC--GATTTTAGCGGCGTTTATTTAAAAACGCCAC--TATATGTACCC
*
2245627 TATTGCGGCATTTGTTTA
61 TATTGCGGCGTTTGTTTA
* *
2245645 AAAACGCCACTAAAGTATGAGTTTTAGCGGCGTTTATTGAAAAACGCC
1 AAAACGCCACTAAAGTACGA-TTTTAGCGGCGTTTATTTAAAAACGCC
2245693 GTTAATGTTA
Statistics
Matches: 164, Mismatches: 35, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
79 4 0.02
80 11 0.07
81 35 0.21
82 90 0.55
83 10 0.06
84 10 0.06
85 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (78 bp):
AAAACGCCACTAAAGTACGATTTTAGCGGCGTTTATTTAAAAACGCCACTATATGTACCCTATTG
CGGCGTTTGTTTA
Found at i:2245589 original size:164 final size:165
Alignment explanation
Indices: 2245343--2245659 Score: 503
Period size: 164 Copynumber: 1.9 Consensus size: 165
2245333 CTAGGTTTTA
*
2245343 GCGGCGTTTGTCTAAAATCGTCACTAAAGTATGAGTATTTAGCGGCGTTTTTGAATAAAACGCCA
1 GCGGCGTTTGTCTAAAATCGCCACTAAAGTATGAGTATTTAGCGGCGTTTTTGAATAAAACGCCA
* * * ** *
2245408 CTAAAGTATTAGGTTTTAGTGGCGTTTATTTAAAAACGCAACGGTATATGTACCCTATTGCGGCG
66 CTAAAGTACTAGGTTTTAGCGGCGTTTATCTAAAAACGCAACAATATATGTACCCTATTGCGGCA
2245473 TTTGTTTAAAAACGCCACTAAAGAACGATTCTATG
131 TTTGTTTAAAAACGCCACTAAAGAACGATTCTATG
* *
2245508 GCGGCGTTTGTTTACAAA-CGCCACTAAAGTATGAGT-TTTAGCGGCGTTTTTGCATAAAACGCC
1 GCGGCGTTTGTCTA-AAATCGCCACTAAAGTATGAGTATTTAGCGGCGTTTTTGAATAAAACGCC
* * *
2245571 TCTAAAGTACTAGGTTTTAGCGGCGTTTATCTAAAAATGCCACAATATATGTACCCTATTGCGGC
65 ACTAAAGTACTAGGTTTTAGCGGCGTTTATCTAAAAACGCAACAATATATGTACCCTATTGCGGC
2245636 ATTTGTTTAAAAACGCCACTAAAG
130 ATTTGTTTAAAAACGCCACTAAAG
2245660 TATGAGTTTT
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
164 106 0.76
165 30 0.22
166 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (165 bp):
GCGGCGTTTGTCTAAAATCGCCACTAAAGTATGAGTATTTAGCGGCGTTTTTGAATAAAACGCCA
CTAAAGTACTAGGTTTTAGCGGCGTTTATCTAAAAACGCAACAATATATGTACCCTATTGCGGCA
TTTGTTTAAAAACGCCACTAAAGAACGATTCTATG
Found at i:2245606 original size:123 final size:122
Alignment explanation
Indices: 2245467--2245692 Score: 305
Period size: 123 Copynumber: 1.8 Consensus size: 122
2245457 GTACCCTATT
* * ** * *
2245467 GCGGCGTTTGTTTAAAAACGCCACTAA-AGAACG-ATTCTATGGCGGCGTTTGTTTACAAACGCC
1 GCGGCGTTTATCTAAAAACGCCAC-AATA-AACGTACCCTATGGCGGCATTTGTTTAAAAACGCC
2245530 ACTAAAGTATGAGTTTTAGCGGCGTTT-TTGCATAAAACGCCTCTAAAGTACTAGGTTTTA
64 ACTAAAGTATGAGTTTTAGCGGCGTTTATTG-A-AAAACGCCTCTAAAGTACTAGGTTTTA
* * * *
2245590 GCGGCGTTTATCTAAAAATGCCACAATATATGTACCCTATTGCGGCATTTGTTTAAAAACGCCAC
1 GCGGCGTTTATCTAAAAACGCCACAATAAACGTACCCTATGGCGGCATTTGTTTAAAAACGCCAC
2245655 TAAAGTATGAGTTTTAGCGGCGTTTATTGAAAAACGCC
66 TAAAGTATGAGTTTTAGCGGCGTTTATTGAAAAACGCC
2245693 GTTAATGTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
122 12 0.13
123 75 0.83
124 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (122 bp):
GCGGCGTTTATCTAAAAACGCCACAATAAACGTACCCTATGGCGGCATTTGTTTAAAAACGCCAC
TAAAGTATGAGTTTTAGCGGCGTTTATTGAAAAACGCCTCTAAAGTACTAGGTTTTA
Found at i:2252495 original size:3 final size:3
Alignment explanation
Indices: 2252487--2252514 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2252477 TTCACGGTTC
2252487 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2252515 GTGTTTACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2257557 original size:23 final size:23
Alignment explanation
Indices: 2257521--2257570 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2257511 AATTTATAAA
*
2257521 TTAATCGATTAATCAACTT-ATT
1 TTAATCGATGAATCAACTTGATT
*
2257543 TTAATTCGATGAATCAATTTGATT
1 TTAA-TCGATGAATCAACTTGATT
2257567 TTAA
1 TTAA
2257571 CTATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 13 0.54
24 7 0.29
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (23 bp):
TTAATCGATGAATCAACTTGATT
Found at i:2258387 original size:28 final size:28
Alignment explanation
Indices: 2258347--2258413 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
2258337 TCGGACCGGT
2258347 CGGTTCAACCGGGAACCGTTGCTTAGTC
1 CGGTTCAACCGGGAACCGTTGCTTAGTC
*
2258375 CGGTTCAACCGGGAACCGTTGCTTTGTC
1 CGGTTCAACCGGGAACCGTTGCTTAGTC
*
2258403 CGGTTGAACCG
1 CGGTTCAACCG
2258414 TTATTAGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.25
Consensus pattern (28 bp):
CGGTTCAACCGGGAACCGTTGCTTAGTC
Found at i:2259307 original size:2 final size:2
Alignment explanation
Indices: 2259300--2259356 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
2259290 TCCTCACCCT
2259300 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
2259342 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
2259357 GGGGTTCATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2261026 original size:30 final size:27
Alignment explanation
Indices: 2260991--2261046 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 27
2260981 AACTTTACTC
*
2260991 TCTTTTCTATTTCACTCATTGTACTTTAAA
1 TCTTTTCAATTT--CTCATTGTA-TTTAAA
2261021 TCTTTTCAATTTCTCATTGTATTTAA
1 TCTTTTCAATTTCTCATTGTATTTAA
2261047 TACATTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 5 0.20
28 9 0.36
30 11 0.44
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (27 bp):
TCTTTTCAATTTCTCATTGTATTTAAA
Found at i:2263065 original size:2 final size:2
Alignment explanation
Indices: 2263054--2263090 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2263044 TTTAATTTAG
2263054 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2263091 TAATCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2268256 original size:12 final size:12
Alignment explanation
Indices: 2268241--2268265 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2268231 ACACGTTGTG
2268241 TTTAAAAAAAAA
1 TTTAAAAAAAAA
2268253 TTTAAAAAAAAA
1 TTTAAAAAAAAA
2268265 T
1 T
2268266 AATTTTTTTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTTAAAAAAAAA
Found at i:2283966 original size:2 final size:2
Alignment explanation
Indices: 2283959--2283996 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2283949 AATTTCATTG
2283959 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2283997 TTCTTAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2285793 original size:16 final size:17
Alignment explanation
Indices: 2285772--2285815 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2285762 GTATTTGGAT
2285772 TTTTTATTTTTACTA-A
1 TTTTTATTTTTACTATA
** *
2285788 TTTTTAGATTTATTATA
1 TTTTTATTTTTACTATA
2285805 TTTTTATTTTT
1 TTTTTATTTTT
2285816 CAATTTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTTACTATA
Found at i:2285808 original size:26 final size:27
Alignment explanation
Indices: 2285751--2285808 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
2285741 GAAAACGTAT
* *
2285751 TATTTTAATAAGTATTTGGATTTTTTA
1 TATTTTAATAAGTATTTAGATTTATTA
* *
2285778 T-TTTTACTAA-TTTTTAGATTTATTA
1 TATTTTAATAAGTATTTAGATTTATTA
2285803 TATTTT
1 TATTTT
2285809 TATTTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 13 0.50
26 12 0.46
27 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (27 bp):
TATTTTAATAAGTATTTAGATTTATTA
Found at i:2291903 original size:62 final size:62
Alignment explanation
Indices: 2291772--2291903 Score: 174
Period size: 62 Copynumber: 2.1 Consensus size: 62
2291762 ATTCTTAATC
* * * * * *
2291772 ATCTACTTTCAATCTTATTTAAGGGATTTAATATACCATCTCACTAGTCCAACTCAATGTTG
1 ATCTGCTTTCAATCTTACTTAAGGAATTTAATATACCATCTCACTAATCCAACTCAATGCTA
* * * *
2291834 ATTTGCTTTCAATCTTACTTAAGGAATTTAATGTATCATCTCACTAATCCAACTCACTGCTA
1 ATCTGCTTTCAATCTTACTTAAGGAATTTAATATACCATCTCACTAATCCAACTCAATGCTA
2291896 ATCTGCTT
1 ATCTGCTT
2291904 GTAAAGTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (62 bp):
ATCTGCTTTCAATCTTACTTAAGGAATTTAATATACCATCTCACTAATCCAACTCAATGCTA
Found at i:2297019 original size:4 final size:4
Alignment explanation
Indices: 2297010--2297041 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2297000 AGAGAAAACG
2297010 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
2297042 GAAAGTTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2298782 original size:18 final size:18
Alignment explanation
Indices: 2298759--2298799 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2298749 GAGCTGGTGG
* * *
2298759 TGCTGCTCCGGTTGCTGC
1 TGCTGCACCAGTTGCAGC
2298777 TGCTGCACCAGTTGCAGC
1 TGCTGCACCAGTTGCAGC
2298795 TGCTG
1 TGCTG
2298800 ATGGAGGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.32, G:0.32, T:0.29
Consensus pattern (18 bp):
TGCTGCACCAGTTGCAGC
Found at i:2304278 original size:19 final size:20
Alignment explanation
Indices: 2304232--2304269 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2304222 ATCAACAAAA
2304232 ATATA-AAAAAATTTAAATT
1 ATATATAAAAAATTTAAATT
2304251 ATATATAAAAAA-TTAAATT
1 ATATATAAAAAATTTAAATT
2304270 TTCTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATATAAAAAATTTAAATT
Found at i:2311473 original size:186 final size:186
Alignment explanation
Indices: 2311159--2311530 Score: 744
Period size: 186 Copynumber: 2.0 Consensus size: 186
2311149 AGTCCATGTC
2311159 CAATATCTAATCAGTGATAGATATTATGTAAAATTTCGTTAATGGAATCATCTCTTTCGGTCCAT
1 CAATATCTAATCAGTGATAGATATTATGTAAAATTTCGTTAATGGAATCATCTCTTTCGGTCCAT
2311224 TTTCATATTTTAATCATTTTAGTTCGACATATACAGATGCATTCTCTTGTTTAAGGAAAAAGTTC
66 TTTCATATTTTAATCATTTTAGTTCGACATATACAGATGCATTCTCTTGTTTAAGGAAAAAGTTC
2311289 TCATCATGATTTGAAACAAATATAGCCATCTTTACCAACACAGCTGCATATCAACT
131 TCATCATGATTTGAAACAAATATAGCCATCTTTACCAACACAGCTGCATATCAACT
2311345 CAATATCTAATCAGTGATAGATATTATGTAAAATTTCGTTAATGGAATCATCTCTTTCGGTCCAT
1 CAATATCTAATCAGTGATAGATATTATGTAAAATTTCGTTAATGGAATCATCTCTTTCGGTCCAT
2311410 TTTCATATTTTAATCATTTTAGTTCGACATATACAGATGCATTCTCTTGTTTAAGGAAAAAGTTC
66 TTTCATATTTTAATCATTTTAGTTCGACATATACAGATGCATTCTCTTGTTTAAGGAAAAAGTTC
2311475 TCATCATGATTTGAAACAAATATAGCCATCTTTACCAACACAGCTGCATATCAACT
131 TCATCATGATTTGAAACAAATATAGCCATCTTTACCAACACAGCTGCATATCAACT
2311531 GTCTCCAATC
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (186 bp):
CAATATCTAATCAGTGATAGATATTATGTAAAATTTCGTTAATGGAATCATCTCTTTCGGTCCAT
TTTCATATTTTAATCATTTTAGTTCGACATATACAGATGCATTCTCTTGTTTAAGGAAAAAGTTC
TCATCATGATTTGAAACAAATATAGCCATCTTTACCAACACAGCTGCATATCAACT
Found at i:2314812 original size:2 final size:2
Alignment explanation
Indices: 2314805--2314844 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2314795 ATTTAAAATA
2314805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2314845 GATAAAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2315961 original size:64 final size:65
Alignment explanation
Indices: 2315735--2315946 Score: 243
Period size: 65 Copynumber: 3.3 Consensus size: 65
2315725 ATTCAAAGGT
* * * *
2315735 ATGCACCGATGCATCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAAACATCGAATGCA
1 ATGCATCGATGCA-CACTCCATGCATCGATGCACTC-A-GAATAT-TTTCAAAACATCGAATGCA
*
2315797 TTCC
62 TTTC
* ** * *
2315801 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTT
1 ATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTC
* **
2315866 ATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTTTC-AAACATCGAATGCATTTC
1 ATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTC
2315930 ATGCATCGATGCACACT
1 ATGCATCGATGCACACT
2315947 TGGTGCACCG
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
64 39 0.31
65 72 0.57
66 15 0.12
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTC
Found at i:2317201 original size:20 final size:20
Alignment explanation
Indices: 2317178--2317417 Score: 212
Period size: 20 Copynumber: 11.9 Consensus size: 20
2317168 GCAACACAAA
*
2317178 AGTCAAATTTGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * * *
2317198 AGTCAAATCCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
* * *
2317218 AGTCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
* **
2317238 AGTCAAATTTGCAACGATAT
1 AGTCAAATTCGCAACGCGAT
*
2317258 AGTCAAATTCGCAACACGAT
1 AGTCAAATTCGCAACGCGAT
* * * * *
2317278 TGCCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
**
2317298 AGTCAAATTCTTAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* **
2317318 AGTCAAATTCACAACGTAAT
1 AGTCAAATTCGCAACGCGAT
*
2317338 AGTCAAATTCGCAATGCGAT
1 AGTCAAATTCGCAACGCGAT
**
2317358 AGTCAAATTCGCAACATTGA-
1 AGTCAAATTCGCAAC-GCGAT
* *
2317378 ATTTCAAATTCGTAACGCGAT
1 A-GTCAAATTCGCAACGCGAT
2317399 AGTCAAATTCGCAACGCGA
1 AGTCAAATTCGCAACGCGA
2317418 AACACAATAT
Statistics
Matches: 174, Mismatches: 43, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
20 159 0.91
21 15 0.09
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:2317211 original size:40 final size:40
Alignment explanation
Indices: 2317166--2317413 Score: 264
Period size: 40 Copynumber: 6.2 Consensus size: 40
2317156 AATATATAAA
*
2317166 TCGCAACACAAAAGTCAAATTTGCAACGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
* * * *
2317206 CCGCAACACAAAAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
* * * * * *
2317246 TTGCAACGA-TATAGTCAAATTCGCAACACGATTGCCAAAT
1 TCGCAAC-ACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
**
2317286 TCGCAACACAAAAGTCAAATTCTTAACGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
* ** * *
2317326 TCACAACGTAATAGTCAAATTCGCAATGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
** ** *
2317366 TCGCAACATTGAATTTCAAATTCGTAACGCGATAGTCAAAT
1 TCGCAACA-CAAAAGTCAAATTCGCAACGCGATAGTCAAAT
2317407 TCGCAAC
1 TCGCAAC
2317414 GCGAAACACA
Statistics
Matches: 169, Mismatches: 36, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 134 0.79
41 34 0.20
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (40 bp):
TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
Found at i:2317362 original size:60 final size:61
Alignment explanation
Indices: 2317166--2317413 Score: 254
Period size: 60 Copynumber: 4.1 Consensus size: 61
2317156 AATATATAAA
* *
2317166 TCGCAACACAAAAGTCAAATT-TGCAACGCGATAGTCAAATCCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCTGCAACGCGATAGTCAAATTCGCAACACAATAGTCAAAT
** * * *
2317226 TCGCAACACAAAAGTCAAATT-TGCAACGATATAGTCAAATTCGCAACACGATTGCCAAAT
1 TCGCAACACAAAAGTCAAATTCTGCAACGCGATAGTCAAATTCGCAACACAATAGTCAAAT
* * **
2317286 TCGCAACACAAAAGTCAAATTCT-TAACGCGATAGTCAAATTCACAACGTAATAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCTGCAACGCGATAGTCAAATTCGCAACACAATAGTCAAAT
** * * ** * * * *
2317346 TCGCAATGCGATAGTCAAATTC-GCAACATTGA-ATTTCAAATTCGTAACGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCTGCAAC-GCGATA-GTCAAATTCGCAACACAATAGTCAAAT
2317407 TCGCAAC
1 TCGCAAC
2317414 GCGAAACACA
Statistics
Matches: 155, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
60 124 0.80
61 31 0.20
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (61 bp):
TCGCAACACAAAAGTCAAATTCTGCAACGCGATAGTCAAATTCGCAACACAATAGTCAAAT
Found at i:2317555 original size:22 final size:22
Alignment explanation
Indices: 2317529--2317579 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2317519 CTACGGTGAC
* *
2317529 ATCCGTCCCCATCTCTGACGAA
1 ATCCGTCCCCATATCCGACGAA
*
2317551 ATCCGTCCCCATATCCGGCGAA
1 ATCCGTCCCCATATCCGACGAA
2317573 ATCCGTC
1 ATCCGTC
2317580 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATATCCGACGAA
Found at i:2318019 original size:20 final size:19
Alignment explanation
Indices: 2317984--2318037 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
2317974 AAATCGCAAC
2317984 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
2318003 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
2318023 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
2318038 AGAAACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:2319473 original size:16 final size:16
Alignment explanation
Indices: 2319432--2319476 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
2319422 CAACTATCCA
2319432 TTACAGAGGCTGACAC
1 TTACAGAGGCTGACAC
** *
2319448 CCACAAAGGCTGACAC
1 TTACAGAGGCTGACAC
2319464 TTACAGAGGCTGA
1 TTACAGAGGCTGA
2319477 GCTTGCCACT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (16 bp):
TTACAGAGGCTGACAC
Found at i:2319782 original size:21 final size:21
Alignment explanation
Indices: 2319758--2319811 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2319748 GAGTTACGTG
**
2319758 ATGAGGTCGGTACTTTGCGTC
1 ATGAGGTCAATACTTTGCGTC
2319779 ATGAGGTCAATACTTTGCGTC
1 ATGAGGTCAATACTTTGCGTC
2319800 ATGAGGTCAATA
1 ATGAGGTCAATA
2319812 TTTTACGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (21 bp):
ATGAGGTCAATACTTTGCGTC
Found at i:2319933 original size:26 final size:21
Alignment explanation
Indices: 2319899--2319953 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2319889 AATGGTACGC
* *
2319899 TACGTGGTAAGGTATCTACTT
1 TACGTGGTGAGGTATATACTT
2319920 TACGTGGTGAGGTATATACTT
1 TACGTGGTGAGGTATATACTT
2319941 TACGTGGTGAGGT
1 TACGTGGTGAGGT
2319954 TGCCGCTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (21 bp):
TACGTGGTGAGGTATATACTT
Found at i:2320074 original size:4 final size:4
Alignment explanation
Indices: 2320065--2320118 Score: 90
Period size: 4 Copynumber: 13.5 Consensus size: 4
2320055 TTTTTCGGTA
* *
2320065 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT GTAT TAAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
2320113 TTAT TT
1 TTAT TT
2320119 TCAGCGGCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:2320316 original size:21 final size:21
Alignment explanation
Indices: 2320262--2320360 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
2320252 GATGCATCTA
* **
2320262 TCATCATTCAAGATGCGTCTC
1 TCATCATTCAAGAGGCCCCTC
*
2320283 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCATTCAAGAGGCCCCTC
2320304 TCATCA-TCGAAGAGGCCCCTC
1 TCATCATTC-AAGAGGCCCCTC
* * *
2320325 CCACCATTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTC
*
2320346 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
2320361 TCCCGTCCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.05
21 57 0.90
22 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:2320371 original size:21 final size:21
Alignment explanation
Indices: 2320285--2320380 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
2320275 TGCGTCTCCT
*
2320285 ATCGTTCAAGAGGCCCCTCTC
1 ATCGTTCAAGAGGCCCCTGTC
* **
2320306 ATC-ATCGAAGAGGCCCCTCCC
1 ATCGTTC-AAGAGGCCCCTGTC
* *
2320327 ACCATTCAAGAGGCCCCTGTC
1 ATCGTTCAAGAGGCCCCTGTC
*
2320348 ATCGTTCAAGAGGTCCC-GTCC
1 ATCGTTCAAGAGGCCCCTGT-C
*
2320369 ATCGTTTAAGAG
1 ATCGTTCAAGAG
2320381 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.06
21 56 0.90
22 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTGTC
Found at i:2320380 original size:42 final size:42
Alignment explanation
Indices: 2320280--2320380 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
2320270 CAAGATGCGT
*
2320280 CTCCTATCGTTCAAGAGGCCCCTCTCATCATCGAAGAGGCCC
1 CTCCCATCGTTCAAGAGGCCCCTCTCATCATCGAAGAGGCCC
* * * *
2320322 CTCCCACCATTCAAGAGGCCCCTGTCATCGTTC-AAGAGGTCCC
1 CTCCCATCGTTCAAGAGGCCCCTCTCATC-ATCGAAGAGG-CCC
* *
2320365 GT-CCATCGTTTAAGAG
1 CTCCCATCGTTCAAGAG
2320381 CCCGATTCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
42 42 0.88
43 6 0.12
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.23
Consensus pattern (42 bp):
CTCCCATCGTTCAAGAGGCCCCTCTCATCATCGAAGAGGCCC
Found at i:2321868 original size:66 final size:65
Alignment explanation
Indices: 2321709--2321884 Score: 248
Period size: 66 Copynumber: 2.6 Consensus size: 65
2321699 TGGGGTACAC
*
2321709 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTCAATTGATGAGGAAATAA
2321773 GAATTA
60 GAATTA
* *
2321779 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTCAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTCAA-TTGATGAGGAAATAAGAATT
2321843 A
65 A
2321844 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
2321885 GTTTTAAATT
Statistics
Matches: 100, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
64 16 0.16
65 19 0.19
66 40 0.40
67 1 0.01
68 4 0.04
69 20 0.20
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTCAATTGATGAGGAAATAAGAATTA
Found at i:2322313 original size:18 final size:18
Alignment explanation
Indices: 2322290--2322325 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2322280 AAGTCGGTTG
*
2322290 TGATTGGGATTTTAATTT
1 TGATTGCGATTTTAATTT
*
2322308 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTAATTT
2322326 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:2324468 original size:24 final size:24
Alignment explanation
Indices: 2324434--2324487 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2324424 CCATCACATC
*
2324434 ATCAAAATTTGAGTATTGACTAAG
1 ATCAAAATTTGAGTATTGACCAAG
*
2324458 ATCAAAGTTTGAGTATTGACCAAG
1 ATCAAAATTTGAGTATTGACCAAG
2324482 ATCAAA
1 ATCAAA
2324488 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (24 bp):
ATCAAAATTTGAGTATTGACCAAG
Found at i:2324501 original size:24 final size:24
Alignment explanation
Indices: 2324434--2324501 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
2324424 CCATCACATC
* * * *
2324434 ATCAAAATTTGAGTATTGACTAAG
1 ATCAAAGTTTGAATACTGACCAAG
* *
2324458 ATCAAAGTTTGAGTATTGACCAAG
1 ATCAAAGTTTGAATACTGACCAAG
2324482 ATCAAA-TTTCGAATACTGAC
1 ATCAAAGTTT-GAATACTGAC
2324502 TAGTACTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 3 0.08
24 36 0.92
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (24 bp):
ATCAAAGTTTGAATACTGACCAAG
Found at i:2324634 original size:12 final size:12
Alignment explanation
Indices: 2324613--2324646 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2324603 GGTTGTGGGT
*
2324613 TTTGAGATTGTG
1 TTTGATATTGTG
2324625 TTTGATATTGTG
1 TTTGATATTGTG
*
2324637 TTTGGTATTG
1 TTTGATATTG
2324647 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:2325277 original size:14 final size:15
Alignment explanation
Indices: 2325241--2325278 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2325231 GAAATCATTG
2325241 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
2325256 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
2325271 AAAAATTA
1 AAAAATTA
2325279 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:2325476 original size:19 final size:21
Alignment explanation
Indices: 2325435--2325528 Score: 122
Period size: 21 Copynumber: 4.6 Consensus size: 21
2325425 ACTAAAACCT
* * *
2325435 GTTGCGAATTCGAAAAT-CTA
1 GTTGCGAATTTGAAATTCCGA
2325455 GTTGCGAATTTGAAATT-C-A
1 GTTGCGAATTTGAAATTCCGA
*
2325474 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTCCGA
*
2325495 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTCCGA
2325516 GTTGCGAATTTGA
1 GTTGCGAATTTGA
2325529 CTTTTGTGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.26
20 17 0.25
21 34 0.49
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCGA
Found at i:2325541 original size:20 final size:20
Alignment explanation
Indices: 2325516--2325622 Score: 142
Period size: 20 Copynumber: 5.3 Consensus size: 20
2325506 GAAATTCCGC
2325516 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * * *
2325536 GTTGCGAATTTAACTATCGC
1 GTTGCGAATTTGACTTTTGT
2325556 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
2325576 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
2325596 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
2325616 GTTGCGA
1 GTTGCGA
2325623 TTTACAAATT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:2325565 original size:40 final size:40
Alignment explanation
Indices: 2325495--2325626 Score: 205
Period size: 40 Copynumber: 3.3 Consensus size: 40
2325485 GAAATTCCGC
*
2325495 GTTGCGAATTTGAAAT-TCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTT-AACTAT-CGCGTTGCGAATTTGACTTTTGT
2325536 GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
* *
2325576 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
2325616 GTTGCG-ATTTA
1 GTTGCGAATTTA
2325627 CAAATTCGCG
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
39 4 0.05
40 70 0.81
41 12 0.14
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (40 bp):
GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
Found at i:2325620 original size:60 final size:60
Alignment explanation
Indices: 2325474--2325663 Score: 183
Period size: 60 Copynumber: 3.1 Consensus size: 60
2325464 TTGAAATTCA
* * * *
2325474 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTG-ACTT-CGCGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTATCGC
* * ** *
2325536 GTTGCGAATTTAACTATCGCGTTGCGAATTTG-ACTTTTGTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACT-TCGCGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTATCGC
* *
2325596 GTTGCGAATTTGACTTCTGTGTTGCG-ATTTACAAATT-CGCGTTGC-AATTT-ACATATTCGC
1 GTTGCGAATTTGACTTC-GCGTTGCGAATTT-GAAATTCCGCGTTGCGAATTTGAC-TA-TCGC
2325656 GTTGCGAA
1 GTTGCGAA
2325664 ATTGGAAACT
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
58 2 0.02
59 13 0.12
60 60 0.56
61 20 0.19
62 12 0.11
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (60 bp):
GTTGCGAATTTGACTTCGCGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTATCGC
Found at i:2325636 original size:40 final size:40
Alignment explanation
Indices: 2325455--2325645 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
2325445 CGAAAATCTA
* * * * *
2325455 GTTGCGAATTTGAAATTC-AGTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTCAAATTCGCGTTGCGAATTTG-ACTTCTGT
* *
2325495 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTCAAATT-CGCGTTGCGAATTTGACTTCTGT
* *
2325536 GTTGCGAATTT-AACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTCAAAT-TCGCGTTGCGAATTTGACTTCTGT
* *
2325576 GTTGCGAATTT-GACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTCAAAT-TCGCGTTGCGAATTTGACTTCTGT
2325616 GTTGCG-ATTTACAAATTCGCGTTGC-AATTT
1 GTTGCGAATTT-CAAATTCGCGTTGCGAATTT
2325646 ACATATTCGC
Statistics
Matches: 136, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 9 0.07
40 96 0.71
41 19 0.14
42 12 0.09
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (40 bp):
GTTGCGAATTTCAAATTCGCGTTGCGAATTTGACTTCTGT
Found at i:2325639 original size:20 final size:20
Alignment explanation
Indices: 2325616--2325662 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2325606 TGACTTCTGT
2325616 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* *
2325636 GTTGCAATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
2325656 GTTGCGA
1 GTTGCGA
2325663 AATTGGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:2325699 original size:20 final size:21
Alignment explanation
Indices: 2325628--2325703 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 21
2325618 TGCGATTTAC
* **
2325628 AAATTCGCGTTGC-AATTTAC
1 AAATTCGCGTTGCGAAATTGG
*
2325648 ATATTCGCGTTGCGAAATTGG
1 AAATTCGCGTTGCGAAATTGG
* *
2325669 AAACTAG-GTTGCGAAATTGG
1 AAATTCGCGTTGCGAAATTGG
*
2325689 -AGTTCGCGTTGCGAA
1 AAATTCGCGTTGCGAA
2325704 TTTGTTGGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 33 0.75
21 8 0.18
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (21 bp):
AAATTCGCGTTGCGAAATTGG
Found at i:2342769 original size:47 final size:45
Alignment explanation
Indices: 2342674--2342798 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 45
2342664 GTAAGTATGC
* *
2342674 AAATAAGCTTACGAGCTTAT-GAAT-AATGGAAAATATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
* *
2342717 AAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTAGT-TTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTA-TATTGATA
*
2342764 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
2342799 AGATTTTATA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 19 0.27
44 3 0.04
45 11 0.15
46 1 0.01
47 36 0.51
48 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:2345294 original size:24 final size:24
Alignment explanation
Indices: 2345275--2345331 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
2345265 TCTTTATCAA
*
2345275 ATAATATTGGTAGGAATTTAAAAT
1 ATAATATTAGTAGGAATTTAAAAT
2345299 ATAATATTAGTAGGAATTTGAAAGAT
1 ATAATATTAGTAGGAATTT-AAA-AT
2345325 ATAATAT
1 ATAATAT
2345332 CAAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 18 0.60
25 3 0.10
26 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (24 bp):
ATAATATTAGTAGGAATTTAAAAT
Found at i:2345452 original size:18 final size:19
Alignment explanation
Indices: 2345417--2345453 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2345407 CACGGAATGT
2345417 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2345437 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2345454 GGATTACGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2345709 original size:22 final size:21
Alignment explanation
Indices: 2345670--2345710 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2345660 ACAAAATTAA
**
2345670 AAATATAAAAAATGTTTAATG
1 AAATATAAAAAAAATTTAATG
2345691 AAATGATAAAAAAAATTTAA
1 AAAT-ATAAAAAAAATTTAA
2345711 CCCCTGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
AAATATAAAAAAAATTTAATG
Found at i:2346387 original size:17 final size:17
Alignment explanation
Indices: 2346367--2346399 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2346357 AATATAATAT
2346367 TAATA-AAAATATATTTA
1 TAATATAAAATA-ATTTA
2346384 TAATATAAAATAATTT
1 TAATATAAAATAATTT
2346400 CAACTAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATAAAATAATTTA
Found at i:2353445 original size:43 final size:46
Alignment explanation
Indices: 2353360--2353471 Score: 167
Period size: 45 Copynumber: 2.5 Consensus size: 46
2353350 ACTCTAAATT
* * * *
2353360 ATACACCCCACAACCAACAGGGGAATAAAGATCTATGAA-T-TGTG
1 ATACACCCCACGACCAATAGGGGAATAAAAACCTATGAATTGTGTG
2353404 ATACACCCCACGACCAATAGGGG-ATAAAAACCTATGAATTGTGTG
1 ATACACCCCACGACCAATAGGGGAATAAAAACCTATGAATTGTGTG
2353449 ATACACCCCACGACCAATAGGGG
1 ATACACCCCACGACCAATAGGGG
2353472 GCTATTAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 13 0.21
44 22 0.35
45 27 0.44
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (46 bp):
ATACACCCCACGACCAATAGGGGAATAAAAACCTATGAATTGTGTG
Found at i:2368080 original size:25 final size:25
Alignment explanation
Indices: 2368052--2368133 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
2368042 GAATAATAGT
2368052 ATAATTGATCTCTCTACCTATAAGG
1 ATAATTGATCTCTCTACCTATAAGG
* * *** *
2368077 ATAATTGTTAT-TC-AAGAATAATAGT
1 ATAATTGATCTCTCTACCTAT-A-AGG
2368102 ATAATTGATCTCTCTACCTATAAGG
1 ATAATTGATCTCTCTACCTATAAGG
2368127 ATAATTG
1 ATAATTG
2368134 TTATAATACT
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 29 0.71
26 3 0.07
27 3 0.07
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (25 bp):
ATAATTGATCTCTCTACCTATAAGG
Found at i:2368111 original size:50 final size:50
Alignment explanation
Indices: 2368036--2368137 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
2368026 GATCCAACTG
2368036 ATTCAAGAATAATAGTATAATTGATCTCTCTACCTATAAGGATAATTGTT
1 ATTCAAGAATAATAGTATAATTGATCTCTCTACCTATAAGGATAATTGTT
2368086 ATTCAAGAATAATAGTATAATTGATCTCTCTACCTATAAGGATAATTGTT
1 ATTCAAGAATAATAGTATAATTGATCTCTCTACCTATAAGGATAATTGTT
2368136 AT
1 AT
2368138 AATACTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (50 bp):
ATTCAAGAATAATAGTATAATTGATCTCTCTACCTATAAGGATAATTGTT
Found at i:2369014 original size:21 final size:21
Alignment explanation
Indices: 2368985--2369028 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2368975 AATTTAGTTA
2368985 ATTAATTTGTTAGTATAAATT
1 ATTAATTTGTTAGTATAAATT
* * *
2369006 ATTAGTTTGTTAGTTTAAGTT
1 ATTAATTTGTTAGTATAAATT
2369027 AT
1 AT
2369029 ATTATATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (21 bp):
ATTAATTTGTTAGTATAAATT
Found at i:2369029 original size:28 final size:28
Alignment explanation
Indices: 2368998--2369063 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
2368988 AATTTGTTAG
2368998 TATAAATTATTAGTTTGTTAGTTTAAGT
1 TATAAATTATTAGTTTGTTAGTTTAAGT
*
2369026 TAT-ATTATATTAGTTTGTTAGTTTAAGT
1 TATAAAT-TATTAGTTTGTTAGTTTAAGT
*
2369054 TATATATTAT
1 TATAAATTAT
2369064 ATTATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.91
29 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TATAAATTATTAGTTTGTTAGTTTAAGT
Found at i:2369909 original size:13 final size:13
Alignment explanation
Indices: 2369893--2369937 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
2369883 CAAATCATTA
2369893 TATTAATAATAAT
1 TATTAATAATAAT
* *
2369906 TATTAAATCATTA-
1 TATT-AATAATAAT
2369919 TATTAATAATAAT
1 TATTAATAATAAT
2369932 TATTAA
1 TATTAA
2369938 ATCATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 6 0.23
13 14 0.54
14 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTAATAATAAT
Found at i:2369913 original size:26 final size:26
Alignment explanation
Indices: 2369884--2369945 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
2369874 ATTAAATATC
2369884 AAATCATTATATTAATAATAATTATT
1 AAATCATTATATTAATAATAATTATT
2369910 AAATCATTATATTAATAATAATTATT
1 AAATCATTATATTAATAATAATTATT
2369936 AAATCATTAT
1 AAATCATTAT
2369946 TAGTAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATCATTATATTAATAATAATTATT
Found at i:2372525 original size:22 final size:22
Alignment explanation
Indices: 2372498--2372548 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2372488 AAACAACTAA
2372498 TAAACTATTCTTTAATATAACT
1 TAAACTATTCTTTAATATAACT
*
2372520 TTAACTATTCTTTAATATAACT
1 TAAACTATTCTTTAATATAACT
2372542 TAAACTA
1 TAAACTA
2372549 ATAAACGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAACTATTCTTTAATATAACT
Found at i:2372700 original size:41 final size:37
Alignment explanation
Indices: 2372644--2372757 Score: 97
Period size: 41 Copynumber: 2.9 Consensus size: 37
2372634 CTTAACTATT
2372644 TAACTAAC--ACAAACTAATTACATATTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTATATA
* *
2372680 TAACTAACAACTAACAAACTAACTAATTATTTTTATTAATATG
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TT-ATATA
* * *
2372723 TAACTATCAAACATACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATT-AATATTTTTTTAT
2372758 TTCTATATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
36 8 0.13
38 2 0.03
39 2 0.03
40 17 0.27
41 20 0.32
42 3 0.05
43 11 0.17
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (37 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTATATA
Found at i:2372791 original size:21 final size:21
Alignment explanation
Indices: 2372767--2372806 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2372757 TTTCTATATG
2372767 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
2372788 ATATAATTTAAACTAACAA
1 ATATAACTTAAACTAACAA
2372807 ACTCATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:2373053 original size:27 final size:29
Alignment explanation
Indices: 2373018--2373082 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
2373008 TATATATAAC
*
2373018 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
2373045 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
2373073 TTAATTATTT
1 TTAAATATTT
2373083 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Done.