Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 78
Found at i:7608181 original size:21 final size:19
Alignment explanation
Indices: 7608116--7608198 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 19
7608106 CTACTTCTCA
*
7608116 TTTTCATTTTT-TTCTT-T
1 TTTTCTTTTTTCTTCTTAT
* *
7608133 TTTTGTTTTTTC-CCTT-T
1 TTTTCTTTTTTCTTCTTAT
7608150 TGTTT-TTTTTTCCTT-TTAT
1 T-TTTCTTTTTT-CTTCTTAT
7608169 TCTTCTCTTTTTTCTTCTTAT
1 T-TT-TCTTTTTTCTTCTTAT
7608190 TTTTCTTTT
1 TTTTCTTTT
7608199 CCTTTTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 20 0.38
18 6 0.11
19 10 0.19
20 6 0.11
21 11 0.21
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTCTTTTTTCTTCTTAT
Found at i:7608185 original size:12 final size:12
Alignment explanation
Indices: 7608152--7608206 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
7608142 TTCCCTTTTG
*
7608152 TTTTTTTTTC-C
1 TTTTTTCTTCTC
7608163 TTTTATTCTTCTC
1 TTTT-TTCTTCTC
7608176 TTTTTTCTTCT-
1 TTTTTTCTTCTC
*
7608187 TATTTTTCTTTTCC
1 T-TTTTTCTTCT-C
7608201 TTTTTT
1 TTTTTT
7608207 AAAAATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 5 0.14
12 21 0.57
13 10 0.27
14 1 0.03
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTCTC
Found at i:7649853 original size:30 final size:30
Alignment explanation
Indices: 7649817--7649923 Score: 124
Period size: 30 Copynumber: 3.6 Consensus size: 30
7649807 TAATACAAAT
* * *
7649817 AACAACAACAACAATAGCAATAGCATTAAC
1 AACAACAACAACAATAACAATAGTAATAAC
* * *
7649847 AACAACAATAACAGTAACAATAGTAATAAT
1 AACAACAACAACAATAACAATAGTAATAAC
* * *
7649877 AACAACAACAACGATAACAACAGTAATAGC
1 AACAACAACAACAATAACAATAGTAATAAC
*
7649907 AATAACAACAACAATAA
1 AACAACAACAACAATAA
7649924 TAAGAACAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.60, C:0.20, G:0.07, T:0.14
Consensus pattern (30 bp):
AACAACAACAACAATAACAATAGTAATAAC
Found at i:7649864 original size:6 final size:6
Alignment explanation
Indices: 7649820--7649938 Score: 58
Period size: 6 Copynumber: 19.8 Consensus size: 6
7649810 TACAAATAAC
* * * * * *
7649820 AACAAC AACAAT AGCAAT AGCATT AACAAC AACAAT AACAGT AACAAT
1 AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT
** * * * * * ** * *
7649868 AGTAAT AATAAC AACAAC AACGAT AACAAC AGTAAT AGCAAT AACAAC
1 AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT
* * *
7649916 AACAAT AATAAG AACAAA AACAA
1 AACAAT AACAAT AACAAT AACAA
7649939 CAGTGCAATG
Statistics
Matches: 84, Mismatches: 29, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 84 1.00
ACGTcount: A:0.61, C:0.18, G:0.07, T:0.13
Consensus pattern (6 bp):
AACAAT
Found at i:7649918 original size:21 final size:21
Alignment explanation
Indices: 7649892--7649942 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7649882 CAACAACGAT
* *
7649892 AACAACAGTAAT-AGCAATAAC
1 AACAACAGTAATAAG-AACAAA
*
7649913 AACAACAATAATAAGAACAAA
1 AACAACAGTAATAAGAACAAA
7649934 AACAACAGT
1 AACAACAGT
7649943 GCAATGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.63, C:0.18, G:0.08, T:0.12
Consensus pattern (21 bp):
AACAACAGTAATAAGAACAAA
Found at i:7649932 original size:36 final size:35
Alignment explanation
Indices: 7649826--7649932 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 35
7649816 TAACAACAAC
* * *
7649826 AACAATAGCAATAGCATTAACAACAACAATAACAG
1 AACAATAGTAATAGCAATAACAACAACAATAATAG
**
7649861 TAACAATAGTAAT---AATAACAACAACAACGAT--
1 -AACAATAGTAATAGCAATAACAACAACAATAATAG
*
7649892 AACAACAGTAATAGCAATAACAACAACAATAATAAG
1 AACAATAGTAATAGCAATAACAACAACAATAAT-AG
7649928 AACAA
1 AACAA
7649933 AAACAACAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
30 11 0.19
33 30 0.53
36 16 0.28
ACGTcount: A:0.60, C:0.18, G:0.07, T:0.15
Consensus pattern (35 bp):
AACAATAGTAATAGCAATAACAACAACAATAATAG
Found at i:7649977 original size:18 final size:18
Alignment explanation
Indices: 7649951--7649991 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7649941 GTGCAATGAT
* *
7649951 AACAGTAGCATCAACAAA
1 AACAATAGCAACAACAAA
*
7649969 AACAATAGCAACAACAAT
1 AACAATAGCAACAACAAA
7649987 AACAA
1 AACAA
7649992 CACAAACAAC
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:0.61, C:0.22, G:0.07, T:0.10
Consensus pattern (18 bp):
AACAATAGCAACAACAAA
Found at i:7649984 original size:12 final size:12
Alignment explanation
Indices: 7649963--7650308 Score: 78
Period size: 12 Copynumber: 28.9 Consensus size: 12
7649953 CAGTAGCATC
*
7649963 AACAAAAACAAT
1 AACAACAACAAT
*
7649975 AGCAACAACAAT
1 AACAACAACAAT
*
7649987 AACAAC-ACAAAC
1 AACAACAAC-AAT
** *
7649999 AACAGTAACAAC
1 AACAACAACAAT
7650011 AACAACAACAAT
1 AACAACAACAAT
*
7650023 AGCAA-AA-AAT
1 AACAACAACAAT
*
7650033 -A-AACAACATT
1 AACAACAACAAT
* *
7650043 AACATA-AATAGT
1 AACA-ACAACAAT
* * *
7650055 AGCTACAATAAT
1 AACAACAACAAT
* *
7650067 AAAAACAACAAC
1 AACAACAACAAT
* *
7650079 AACAATAACAAA
1 AACAACAACAAT
* *
7650091 AATAACAACAGT
1 AACAACAACAAT
*
7650103 AACAACAACAAC
1 AACAACAACAAT
* **
7650115 AATAGA-AGTAAT
1 AACA-ACAACAAT
* * *
7650127 AGCAACAATAAC
1 AACAACAACAAT
* * * *
7650139 AATAGCAGCAGT
1 AACAACAACAAT
7650151 AACAACAACAAT
1 AACAACAACAAT
* *
7650163 AATAGAAACAACAGT
1 -A-A-CAACAACAAT
*
7650178 AACAATAACAAT
1 AACAACAACAAT
* * *
7650190 AATAGCAACAGT
1 AACAACAACAAT
* * *
7650202 AAAAATAACAAA
1 AACAACAACAAT
* * *
7650214 AACAATAGCAAC
1 AACAACAACAAT
* * *
7650226 AATAATAACAGT
1 AACAACAACAAT
7650238 AACAACAAC-AT
1 AACAACAACAAT
** * *
7650249 CAGTAGCAACAAC
1 -AACAACAACAAT
* *
7650262 AACATCAACAAC
1 AACAACAACAAT
* **
7650274 AACAACAATAGC
1 AACAACAACAAT
7650286 AACAACAACAAT
1 AACAACAACAAT
*
7650298 AGCAACAACAA
1 AACAACAACAA
7650309 CATCGGTAAC
Statistics
Matches: 230, Mismatches: 89, Indels: 30
0.66 0.26 0.09
Matches are distributed among these distances:
8 2 0.01
9 2 0.01
10 5 0.02
11 8 0.03
12 196 0.85
13 7 0.03
14 2 0.01
15 8 0.03
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.11
Consensus pattern (12 bp):
AACAACAACAAT
Found at i:7649999 original size:18 final size:18
Alignment explanation
Indices: 7649962--7650335 Score: 131
Period size: 18 Copynumber: 19.5 Consensus size: 18
7649952 ACAGTAGCAT
* * *
7649962 CAACAAAAACAATAGCAA
1 CAACAATAACAACAACAA
7649980 CAACAATAACAAC-ACAAA
1 CAACAATAACAACAAC-AA
*
7649998 CAACAGTAACAACAACAA
1 CAACAATAACAACAACAA
* * *
7650016 CAACAATAGCAAAAAATAAA
1 CAACAATAAC-AACAA-CAA
* * *
7650036 CAACATTAACATAAATAGTAGCTA
1 CAACAATAAC---AACA--A-CAA
* *
7650060 CAATAATAAAAACAACAA
1 CAACAATAACAACAACAA
* *
7650078 CAACAATAACAAAAATAA
1 CAACAATAACAACAACAA
*
7650096 CAACAGTAACAACAACAA
1 CAACAATAACAACAACAA
* * *
7650114 CAATAGAAGTAATAGCAACAA
1 C-A-ACAA-TAACAACAACAA
*
7650135 TAACAATAGCAGCAGTAACAACAA
1 CAACAATA--A-C---AACAACAA
* *
7650159 CAATAATAGA-AACAACAG
1 CAACAATA-ACAACAACAA
* * * *
7650177 TAACAATAACAATAATAG
1 CAACAATAACAACAACAA
* * *
7650195 CAACAGTAAAAATAACAA
1 CAACAATAACAACAACAA
* * *
7650213 AAACAATAGCAACAATAA
1 CAACAATAACAACAACAA
* * *
7650231 TAACAGTAACAACAACAT
1 CAACAATAACAACAACAA
* *
7650249 CAGTAGCAACAACAACATCAA
1 CA--A-CAATAACAACAACAA
*
7650270 CAACAACAACAATAGCAACAA
1 CAACAATAAC-A-A-CAACAA
*
7650291 CAACAATAGCAACAACAA
1 CAACAATAACAACAACAA
* ** *
7650309 CATCGGTAACAACAAAAA
1 CAACAATAACAACAACAA
7650327 CAACAATAA
1 CAACAATAA
7650336 TATTAGCAAT
Statistics
Matches: 258, Mismatches: 74, Indels: 48
0.68 0.19 0.13
Matches are distributed among these distances:
17 2 0.01
18 159 0.62
19 14 0.05
20 17 0.07
21 39 0.15
22 4 0.02
23 1 0.00
24 22 0.09
ACGTcount: A:0.61, C:0.21, G:0.06, T:0.11
Consensus pattern (18 bp):
CAACAATAACAACAACAA
Found at i:7650040 original size:3 final size:3
Alignment explanation
Indices: 7649962--7650021 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
7649952 ACAGTAGCAT
* * * * * *
7649962 CAA CAA AAA CAA TAG CAA CAA CAA TAA CAA C-A CAAA CAA CAG TAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA C-AA CAA CAA CAA
7650007 CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA
7650022 TAGCAAAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.65, C:0.27, G:0.03, T:0.05
Consensus pattern (3 bp):
CAA
Found at i:7650088 original size:15 final size:15
Alignment explanation
Indices: 7650070--7650310 Score: 121
Period size: 15 Copynumber: 15.9 Consensus size: 15
7650060 CAATAATAAA
7650070 AACAACAACAACAAT
1 AACAACAACAACAAT
* *
7650085 AACAAAAATAACAACAGT
1 AAC---AACAACAACAAT
7650103 AACAACAACAACAAT
1 AACAACAACAACAAT
* * *
7650118 AGAAGTAATAGCAACAAT
1 --AA-CAACAACAACAAT
* * * *
7650136 AACAATAGCAGCAGT
1 AACAACAACAACAAT
*
7650151 AACAACAACAATAAT
1 AACAACAACAACAAT
* *
7650166 -A-GA-AACAACAGT
1 AACAACAACAACAAT
* *
7650178 AACAATAACAATAAT
1 AACAACAACAACAAT
* ** *
7650193 AGCAACAGTAAAAAT
1 AACAACAACAACAAT
* * **
7650208 AACAAAAACAATAGC
1 AACAACAACAACAAT
* * *
7650223 AACAATAATAACAGT
1 AACAACAACAACAAT
* *
7650238 AACAACAACATCAGT
1 AACAACAACAACAAT
*
7650253 AGCAACAACAAC-AT
1 AACAACAACAACAAT
7650267 CAACAACAACAACAAT
1 -AACAACAACAACAAT
*
7650283 AGCAACAACAACAAT
1 AACAACAACAACAAT
*
7650298 AGCAACAACAACA
1 AACAACAACAACA
7650311 TCGGTAACAA
Statistics
Matches: 170, Mismatches: 45, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
12 7 0.04
13 2 0.01
14 3 0.02
15 129 0.76
16 4 0.02
17 2 0.01
18 23 0.14
ACGTcount: A:0.61, C:0.21, G:0.07, T:0.11
Consensus pattern (15 bp):
AACAACAACAACAAT
Found at i:7650106 original size:24 final size:24
Alignment explanation
Indices: 7650059--7650215 Score: 92
Period size: 24 Copynumber: 6.5 Consensus size: 24
7650049 AATAGTAGCT
* *
7650059 ACAATAATAAAAACAACAAC---A
1 ACAATAACAAAAATAACAACAGTA
7650080 ACAATAACAAAAATAACAACAGTA
1 ACAATAACAAAAATAACAACAGTA
* * * * *
7650104 ACAACAACAACAATAGAAGTAATAGCA
1 ACAATAACAA-AA-ATAA-CAACAGTA
* *
7650131 ACAATAAC---AATAGCAGCAGTA
1 ACAATAACAAAAATAACAACAGTA
* *
7650152 ACAACAACAATAATAGAAACAACAGTA
1 ACAATAACAA-AA-A-TAACAACAGTA
* *
7650179 ACAATAACAATAATAGCAACAGTA
1 ACAATAACAAAAATAACAACAGTA
*
7650203 AAAATAACAAAAA
1 ACAATAACAAAAA
7650216 CAATAGCAAC
Statistics
Matches: 100, Mismatches: 24, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
21 29 0.29
22 2 0.02
23 1 0.01
24 30 0.30
25 4 0.04
26 5 0.05
27 29 0.29
ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12
Consensus pattern (24 bp):
ACAATAACAAAAATAACAACAGTA
Found at i:7650220 original size:27 final size:27
Alignment explanation
Indices: 7650130--7650226 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
7650120 AAGTAATAGC
* * *
7650130 AACAATAACAATAGCAGCAGTAACAAC
1 AACAAAAACAATAGCAACAGTAACAAT
*
7650157 AACAATAATAGAA-A-CAACAGTAACAAT
1 AACAA-AA-ACAATAGCAACAGTAACAAT
* *
7650184 AAC---AATAATAGCAACAGTAAAAAT
1 AACAAAAACAATAGCAACAGTAACAAT
7650208 AACAAAAACAATAGCAACA
1 AACAAAAACAATAGCAACA
7650227 ATAATAACAG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
22 3 0.05
23 2 0.04
24 15 0.27
27 31 0.55
28 2 0.04
29 3 0.05
ACGTcount: A:0.62, C:0.18, G:0.08, T:0.12
Consensus pattern (27 bp):
AACAAAAACAATAGCAACAGTAACAAT
Found at i:7650244 original size:27 final size:27
Alignment explanation
Indices: 7650150--7650245 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 27
7650140 ATAGCAGCAG
* * * * *
7650150 TAACAACAACAATAATAGAAACAACAG
1 TAACAATAACAACAATAGCAACAATAA
* *
7650177 TAACAATAACAATAATAGCAACAGTAA
1 TAACAATAACAACAATAGCAACAATAA
* * * *
7650204 AAATAACAAAAACAATAGCAACAATAA
1 TAACAATAACAACAATAGCAACAATAA
*
7650231 TAACAGTAACAACAA
1 TAACAATAACAACAA
7650246 CATCAGTAGC
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.64, C:0.17, G:0.06, T:0.14
Consensus pattern (27 bp):
TAACAATAACAACAATAGCAACAATAA
Found at i:7650291 original size:30 final size:29
Alignment explanation
Indices: 7650150--7650382 Score: 131
Period size: 30 Copynumber: 8.0 Consensus size: 29
7650140 ATAGCAGCAG
*
7650150 TAACAACAACAATAATAG--A-AACAACA
1 TAACAACAACAACAATAGCAACAACAACA
* * **
7650176 GTAACAATAACAATAATAGCAACAGTAA-A
1 -TAACAACAACAACAATAGCAACAACAACA
* * *
7650205 -AATAACAAAAACAATAGCAACAATAATAACA
1 TAACAACAACAACAATAGCAAC---AACAACA
* *
7650236 GTAACAACAACATCAGTAGCAACAACAACA
1 -TAACAACAACAACAATAGCAACAACAACA
7650266 TCAACAACAACAACAATAGCAACAACAACAA
1 T-AACAACAACAACAATAGCAACAACAAC-A
* * *
7650297 TAGCAACAACAAC-ATCGGTAACAACAA-A
1 TAACAACAACAACAAT-AGCAACAACAACA
* * * * *
7650325 -AACAACAATAATATTAGCAATAATAACA
1 TAACAACAACAACAATAGCAACAACAACA
* * * *
7650353 GTAACATCAATAATAACAGCAACAACAACA
1 -TAACAACAACAACAATAGCAACAACAACA
7650383 ATACTAATAG
Statistics
Matches: 159, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
27 50 0.31
28 3 0.02
29 5 0.03
30 81 0.51
31 3 0.02
33 17 0.11
ACGTcount: A:0.60, C:0.21, G:0.06, T:0.13
Consensus pattern (29 bp):
TAACAACAACAACAATAGCAACAACAACA
Found at i:7650323 original size:3 final size:3
Alignment explanation
Indices: 7650255--7650310 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
7650245 ACATCAGTAG
* * * * *
7650255 CAA CAA CAA CAT CAA CAA CAA CAA CAA TAG CAA CAA CAA CAA TAG CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
7650303 CAA CAA CA
1 CAA CAA CA
7650311 TCGGTAACAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.61, C:0.30, G:0.04, T:0.05
Consensus pattern (3 bp):
CAA
Found at i:7650379 original size:21 final size:21
Alignment explanation
Indices: 7650355--7650394 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7650345 TAATAACAGT
*
7650355 AACATCAATAATAACAGCAAC
1 AACAACAATAATAACAGCAAC
* *
7650376 AACAACAATACTAATAGCA
1 AACAACAATAATAACAGCA
7650395 GTAATAGCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.23, G:0.05, T:0.15
Consensus pattern (21 bp):
AACAACAATAATAACAGCAAC
Found at i:7650385 original size:18 final size:18
Alignment explanation
Indices: 7650072--7650385 Score: 78
Period size: 18 Copynumber: 17.8 Consensus size: 18
7650062 ATAATAAAAA
*
7650072 CAACAACAACAATAACAA
1 CAACAACAACAATAACAG
* * * *
7650090 AAATAACAACAGTAACAA
1 CAACAACAACAATAACAG
* *
7650108 CAACAACAATAGAAGTAATAG
1 CAACAAC-A-ACAA-TAACAG
*
7650129 CAACAATAACAATAGCAGCAG
1 CAACAACAACAATA--A-CAG
* *
7650150 TAACAACAACAATAATAG
1 CAACAACAACAATAACAG
* *
7650168 --A-AACAACAGTAACAA
1 CAACAACAACAATAACAG
* * * **
7650183 TAACAATAATAGCAACAG
1 CAACAACAACAATAACAG
* * * * *
7650201 TAAAAATAACAAAAACAA
1 CAACAACAACAATAACAG
* * *
7650219 TAGCAACAATAATAACAG
1 CAACAACAACAATAACAG
* **
7650237 TAACAACAAC-ATCAGTAG
1 CAACAACAACAAT-AACAG
*
7650255 CAACAACAAC-AT--CAA
1 CAACAACAACAATAACAG
7650270 CAACAACAACAAT---AG
1 CAACAACAACAATAACAG
* *
7650285 CAACAACAACAATAGCAA
1 CAACAACAACAATAACAG
* ** *
7650303 CAACAACATCGGTAACAA
1 CAACAACAACAATAACAG
*
7650321 CAAAAACAACAAT-A-A-
1 CAACAACAACAATAACAG
* ** * *
7650336 TATTAGCAATAATAACAG
1 CAACAACAACAATAACAG
* * *
7650354 TAACATCAATAATAACAG
1 CAACAACAACAATAACAG
7650372 CAACAACAACAATA
1 CAACAACAACAATA
7650386 CTAATAGCAG
Statistics
Matches: 218, Mismatches: 61, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
15 44 0.20
16 5 0.02
17 5 0.02
18 131 0.60
19 5 0.02
20 4 0.02
21 24 0.11
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (18 bp):
CAACAACAACAATAACAG
Found at i:7650435 original size:15 final size:15
Alignment explanation
Indices: 7650406--7650440 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7650396 TAATAGCAAT
* *
7650406 AACAATAGTTGCAAC
1 AACAATAATTACAAC
7650421 AACAATAATTACAAC
1 AACAATAATTACAAC
7650436 AACAA
1 AACAA
7650441 CAAGGAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.20, G:0.06, T:0.17
Consensus pattern (15 bp):
AACAATAATTACAAC
Found at i:7651875 original size:20 final size:20
Alignment explanation
Indices: 7651829--7651875 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
7651819 ATACAAGTAA
7651829 CTCGAGTGTCATTGATGTTT
1 CTCGAGTGTCATTGATGTTT
7651849 C-CTGAGTGTCATTGATGTTT
1 CTC-GAGTGTCATTGATGTTT
7651869 CTCGAGT
1 CTCGAGT
7651876 ATCAAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.43
Consensus pattern (20 bp):
CTCGAGTGTCATTGATGTTT
Found at i:7653783 original size:142 final size:140
Alignment explanation
Indices: 7653510--7653799 Score: 384
Period size: 142 Copynumber: 2.0 Consensus size: 140
7653500 ACATGTAACT
* *
7653510 ATTGGTATTTGAAGTGTGTCTTGTATCAGTGATAGATCTAAAGATTTGAAAATTGGTATCCAAAC
1 ATTGGTATTTGAAGTGTGTCGTGTATCAGTGATAGATCTAAAGATTTGAAAATTGGGATCCAAAC
* * * *
7653575 AATTTTTTCAAAATAATCGGGATGAACTTACTCCCGGAACTTAATGCATCAACCCCTTATATATA
66 AATTTTTTCAAAATAATCGGGATCAACTTACTCCCGAAACTTAAAGCATCAACCCC-T-TAGATA
7653640 TATATTGAAATA
129 TATATTGAAATA
* *
7653652 ATTGGTATTTGAAGTGTGT-GTGTGTCAGTGATAGATCTAAAGATTTGAAAATTGGGGTCCAAAC
1 ATTGGTATTTGAAGTGTGTCGTGTATCAGTGATAGATCTAAAGATTTGAAAATTGGGATCCAAAC
* *
7653716 AATTTTTTTCAAAATAATGGGGATCCACTTACTCCCTTAAGAAACTTAAAGCATCAACCCCTGAT
66 AA-TTTTTTCAAAATAATCGGGATCAACTTACTCCC----GAAACTTAAAGCATCAACCCCT--T
* *
7653781 ATATGTATATTGAAATA
124 AGATATATATTGAAATA
7653798 AT
1 AT
7653800 ATTATGATGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
141 43 0.33
142 49 0.37
145 1 0.01
146 39 0.30
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (140 bp):
ATTGGTATTTGAAGTGTGTCGTGTATCAGTGATAGATCTAAAGATTTGAAAATTGGGATCCAAAC
AATTTTTTCAAAATAATCGGGATCAACTTACTCCCGAAACTTAAAGCATCAACCCCTTAGATATA
TATTGAAATA
Found at i:7656472 original size:17 final size:16
Alignment explanation
Indices: 7656450--7656481 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7656440 ATTAAATTAT
7656450 AATATAAATACTAAAAC
1 AATATAAATA-TAAAAC
7656467 AATATAAATATAAAA
1 AATATAAATATAAAA
7656482 TCCTTTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AATATAAATATAAAAC
Found at i:7663284 original size:17 final size:17
Alignment explanation
Indices: 7663264--7663296 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7663254 ATAAAGTTAG
7663264 TTAATTAATTAAACTAT
1 TTAATTAATTAAACTAT
*
7663281 TTAATTTATTAAACTA
1 TTAATTAATTAAACTA
7663297 AATCTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATTAATTAAACTAT
Found at i:7664939 original size:20 final size:20
Alignment explanation
Indices: 7664901--7664940 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
7664891 GGAGTGTTTG
7664901 GTGAGGTTTTTCCTTTTATTT
1 GTGAGGTTTTT-CTTTTATTT
7664922 GTGAGGTTATTT-TTTTATT
1 GTGAGGTT-TTTCTTTTATT
7664941 ACTAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.12, C:0.05, G:0.20, T:0.62
Consensus pattern (20 bp):
GTGAGGTTTTTCTTTTATTT
Found at i:7669768 original size:34 final size:35
Alignment explanation
Indices: 7669701--7669769 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
7669691 ATTCATGCAT
*
7669701 CTAGTTCATTTAATAAAGTTAGTTTATTAATTAAA
1 CTAGTTCATTTAATAAAGTTAGTTAATTAATTAAA
* *
7669736 CTAGTTCA-TTCATCAAA-TTAGTTAATTTATTAAA
1 CTAGTTCATTTAAT-AAAGTTAGTTAATTAATTAAA
7669770 TTAACTCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 19 0.63
35 11 0.37
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (35 bp):
CTAGTTCATTTAATAAAGTTAGTTAATTAATTAAA
Found at i:7669770 original size:17 final size:17
Alignment explanation
Indices: 7669702--7669772 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
7669692 TTCATGCATC
*
7669702 TAGTTCATTTAATAAAGT
1 TAGTTCATTTATTAAA-T
* * *
7669720 TAGTTTATTAATTAAAC
1 TAGTTCATTTATTAAAT
* *
7669737 TAGTTCATTCATCAAAT
1 TAGTTCATTTATTAAAT
*
7669754 TAGTTAATTTATTAAAT
1 TAGTTCATTTATTAAAT
7669771 TA
1 TA
7669773 ACTCTTAATT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 29 0.69
18 13 0.31
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (17 bp):
TAGTTCATTTATTAAAT
Found at i:7672200 original size:11 final size:11
Alignment explanation
Indices: 7672184--7672216 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7672174 TAATGAGCCT
7672184 CTAACAACCTC
1 CTAACAACCTC
7672195 CTAACAGA-CTC
1 CTAACA-ACCTC
7672206 CTAACAACCTC
1 CTAACAACCTC
7672217 AACTGACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.18
Consensus pattern (11 bp):
CTAACAACCTC
Found at i:7674762 original size:9 final size:11
Alignment explanation
Indices: 7674727--7674774 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
7674717 TAATGAGCTT
*
7674727 CTAACAGCCTC
1 CTAACAGACTC
7674738 CTAACAGACTC
1 CTAACAGACTC
7674749 CTAACA-AC-C
1 CTAACAGACTC
*
7674758 CTAACTGACTAC
1 CTAACAGACT-C
7674770 CTAAC
1 CTAAC
7674775 CAACCTGCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 6 0.19
10 4 0.12
11 16 0.50
12 6 0.19
ACGTcount: A:0.35, C:0.40, G:0.06, T:0.19
Consensus pattern (11 bp):
CTAACAGACTC
Found at i:7674762 original size:20 final size:22
Alignment explanation
Indices: 7674737--7674779 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
7674727 CTAACAGCCT
7674737 CCTAACAGACT-CCTAA-CAAC
1 CCTAACAGACTACCTAACCAAC
*
7674757 CCTAACTGACTACCTAACCAAC
1 CCTAACAGACTACCTAACCAAC
7674779 C
1 C
7674780 TGCGCAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.37, C:0.42, G:0.05, T:0.16
Consensus pattern (22 bp):
CCTAACAGACTACCTAACCAAC
Found at i:7678694 original size:7 final size:7
Alignment explanation
Indices: 7678682--7678792 Score: 66
Period size: 7 Copynumber: 15.9 Consensus size: 7
7678672 TATGTGATAA
7678682 GGTTTAG
1 GGTTTAG
7678689 GGTTTAG
1 GGTTTAG
7678696 GGTTTAG
1 GGTTTAG
*
7678703 AGTTTATG
1 GGTTTA-G
* * *
7678711 TGATGA-
1 GGTTTAG
* *
7678717 GATTTAA
1 GGTTTAG
*
7678724 GGTTTAA
1 GGTTTAG
7678731 GGTTTAG
1 GGTTTAG
7678738 GGTTTA-
1 GGTTTAG
** *
7678744 TATAATAGG
1 GGT-TTA-G
*
7678753 GGTTAAG
1 GGTTTAG
7678760 GG-TTAG
1 GGTTTAG
*
7678766 GGTTAAG
1 GGTTTAG
7678773 GGTTTAG
1 GGTTTAG
7678780 GGTTTAG
1 GGTTTAG
7678787 GGTTTA
1 GGTTTA
7678793 AGTTATGTAC
Statistics
Matches: 78, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
6 8 0.10
7 64 0.82
8 5 0.06
9 1 0.01
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:7678728 original size:35 final size:35
Alignment explanation
Indices: 7678670--7678744 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
7678660 ATTCCTTCTA
* * *
7678670 TTTATGTGATAAGGTTTAGGGTTTAGGGTTTAGAG
1 TTTATGTGATAAGATTTAAGGTTTAAGGTTTAGAG
* *
7678705 TTTATGTGATGAGATTTAAGGTTTAAGGTTTAGGG
1 TTTATGTGATAAGATTTAAGGTTTAAGGTTTAGAG
7678740 TTTAT
1 TTTAT
7678745 ATAATAGGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (35 bp):
TTTATGTGATAAGATTTAAGGTTTAAGGTTTAGAG
Found at i:7678770 original size:13 final size:13
Alignment explanation
Indices: 7678752--7678790 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
7678742 TATATAATAG
7678752 GGGTTAAGGGTTA
1 GGGTTAAGGGTTA
7678765 GGGTTAAGGGTTTA
1 GGGTTAAGGG-TTA
*
7678779 GGGTTTAGGGTT
1 GGGTTAAGGGTT
7678791 TAAGTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (13 bp):
GGGTTAAGGGTTA
Found at i:7689429 original size:15 final size:16
Alignment explanation
Indices: 7689392--7689426 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7689382 TGAACCCAAT
7689392 TTTTCTTATTTTTTCC
1 TTTTCTTATTTTTTCC
*
7689408 TTTTCTTATTTTTTTC
1 TTTTCTTATTTTTTCC
7689424 TTT
1 TTT
7689427 CTTCAGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTATTTTTTCC
Found at i:7710725 original size:3 final size:3
Alignment explanation
Indices: 7710717--7710800 Score: 84
Period size: 3 Copynumber: 28.0 Consensus size: 3
7710707 CCGATCTTAC
* * *
7710717 TTA TTA TTA TTA -TA TTA TTA TATA TAA TTA TATA TTA -CA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA
*
7710762 TTA TTA -TA TATA TTA TTA TTA ATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7710801 AATAATACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
2 5 0.07
3 53 0.79
4 9 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:7712268 original size:21 final size:20
Alignment explanation
Indices: 7712244--7712296 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
7712234 TTAATAACTA
*
7712244 TATTATGATATTTTTAAATTT
1 TATTATG-TATTTTTAAATAT
7712265 TATTAT-TATTTTT-AATAT
1 TATTATGTATTTTTAAATAT
7712283 TATT-TGTATTTTTA
1 TATTATGTATTTTTA
7712297 GTACATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 1 0.03
18 15 0.52
19 7 0.24
21 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TATTATGTATTTTTAAATAT
Found at i:7712292 original size:18 final size:18
Alignment explanation
Indices: 7712212--7712296 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
7712202 AATAAGGGCC
*
7712212 ATTACTTTTAATATT-TT
1 ATTATTTTTAATATTATT
* *
7712229 ATAATTTAATAACTA-TATT
1 ATTATTT-TTAA-TATTATT
*
7712248 ATGATATTTTTAAATTTTATT
1 AT--TATTTTT-AATATTATT
7712269 ATTATTTTTAATATTATT
1 ATTATTTTTAATATTATT
7712287 -TGTATTTTTA
1 AT-TATTTTTA
7712297 GTACATAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
17 6 0.11
18 20 0.38
19 13 0.25
20 2 0.04
21 12 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTATTTTTAATATTATT
Found at i:7712381 original size:26 final size:27
Alignment explanation
Indices: 7712332--7712382 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
7712322 TTAATAACCT
* * *
7712332 ATTATTTTGATATTTTTATTTTTAATC
1 ATTATTTTGATATATGTATATTTAATC
7712359 ATTATTTT-ATATATGTATATTTAA
1 ATTATTTTGATATATGTATATTTAA
7712383 GTTATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTATTTTGATATATGTATATTTAATC
Found at i:7713665 original size:3 final size:3
Alignment explanation
Indices: 7713657--7713742 Score: 72
Period size: 3 Copynumber: 29.0 Consensus size: 3
7713647 CCGATCTTAC
* *
7713657 TTA TTA TTA -TA TTA TTA TTA TTA TATA TAA TTA TATA TTA -CA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA
* * *
7713701 CTA TTA TTA -TA TATA TTA TTA TTA ATA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7713743 AATAATACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
2 6 0.09
3 51 0.77
4 9 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:7719837 original size:2 final size:2
Alignment explanation
Indices: 7719830--7719861 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7719820 TGCATGTAAG
7719830 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
7719862 CAAATGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7720960 original size:11 final size:12
Alignment explanation
Indices: 7720935--7720963 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7720925 AGAAATGCTT
7720935 AAAATTTAATAA
1 AAAATTTAATAA
7720947 AAAATTTAATAA
1 AAAATTTAATAA
7720959 AAAAT
1 AAAAT
7720964 CGAAGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTTAATAA
Found at i:7721094 original size:3 final size:3
Alignment explanation
Indices: 7721086--7721148 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
7721076 CCGGAGATAG
7721086 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7721134 TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TT
7721149 TTTGTGACAG
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7725165 original size:16 final size:16
Alignment explanation
Indices: 7725144--7725176 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7725134 ATTATAGTAA
7725144 TTGGAATGTGTGATTG
1 TTGGAATGTGTGATTG
7725160 TTGGAATGTGTGATTG
1 TTGGAATGTGTGATTG
7725176 T
1 T
7725177 GTAGATATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (16 bp):
TTGGAATGTGTGATTG
Found at i:7726168 original size:15 final size:17
Alignment explanation
Indices: 7726140--7726175 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
7726130 AGATATGATC
7726140 TATGTGATTACATG-TA
1 TATGTGATTACATGTTA
7726156 TATGTGA-TACATGTTA
1 TATGTGATTACATGTTA
7726172 TATG
1 TATG
7726176 ATATGAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
TATGTGATTACATGTTA
Found at i:7726393 original size:32 final size:32
Alignment explanation
Indices: 7726303--7726382 Score: 128
Period size: 31 Copynumber: 2.5 Consensus size: 32
7726293 AGAGTCGAGG
7726303 GTTACCTATG-TCTTTCGAGACATATGGACAGT
1 GTTACCTATGTTCTTT-GAGACATATGGACAGT
*
7726335 -TTACCTATGTCCTTTGAGACATATGGACAGT
1 GTTACCTATGTTCTTTGAGACATATGGACAGT
7726366 GTTACCTATGTTCTTTG
1 GTTACCTATGTTCTTTG
7726383 GAATATATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 25 0.57
32 19 0.43
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (32 bp):
GTTACCTATGTTCTTTGAGACATATGGACAGT
Found at i:7727414 original size:94 final size:95
Alignment explanation
Indices: 7727246--7727438 Score: 282
Period size: 94 Copynumber: 2.0 Consensus size: 95
7727236 CTGATGTGAA
* * *
7727246 TATCGATACTAAGAGAAAGGTATCGATATCAAAGATTCCAGAAGGTAGAAATGGTATCGATACTG
1 TATCGATACTAAGAGAAAGGTATCGATACCAAAGATTCCAGAAGATAGAAATGGTATCGATACTA
* *
7727311 AAAGGGAGTATCT-GTACCATAGTATAGAAG
66 AAAGAGAGTA-CTGGTACCATAATATAGAAG
** *
7727341 TATCGATACTAAGAGAAAGGTATCGATACCATGGA-TCCAGAATATAGAAATGGTATCGATACTA
1 TATCGATACTAAGAGAAAGGTATCGATACCAAAGATTCCAGAAGATAGAAATGGTATCGATACTA
*
7727405 AAAGAGAGTACTGGTACCATAATATATAAG
66 AAAGAGAGTACTGGTACCATAATATAGAAG
7727435 TATC
1 TATC
7727439 CATAACATGG
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
93 2 0.02
94 54 0.61
95 32 0.36
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (95 bp):
TATCGATACTAAGAGAAAGGTATCGATACCAAAGATTCCAGAAGATAGAAATGGTATCGATACTA
AAAGAGAGTACTGGTACCATAATATAGAAG
Found at i:7728034 original size:54 final size:54
Alignment explanation
Indices: 7727774--7728017 Score: 355
Period size: 54 Copynumber: 4.5 Consensus size: 54
7727764 TATGTATTGT
* *
7727774 AATTTTCGTATTGGCACTATGTGTGCAACCTAAGAAATTTATAATAAGTTTATG
1 AATTTTCGTATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
* * * * *
7727828 AATTTTTGTATTTGCACTATATGCGCAACCTAAGAAATTCATAATAAGTTTATG
1 AATTTTCGTATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
*
7727882 AATTTAT-GTATTGGTACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
1 AATTT-TCGTATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
* * * *
7727936 AATTTCCATAATGACACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
1 AATTTTCGTATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
*
7727990 AATTTTCATATTGGCACTGTGTGTGCAA
1 AATTTTCGTATTGGCACTGTGTGTGCAA
7728018 ACCATAGAGT
Statistics
Matches: 170, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
54 169 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (54 bp):
AATTTTCGTATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
Found at i:7733269 original size:30 final size:31
Alignment explanation
Indices: 7733203--7733279 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
7733193 TCAACGAATC
7733203 AAATAAAAATATTTCAGTTAAAATTAATAGTA
1 AAAT-AAAATATTTCAGTTAAAATTAATAGTA
*
7733235 AAATAAAAT-TTT-AGTTACAATTAA-AGGATA
1 AAATAAAATATTTCAGTTAAAATTAATA-G-TA
*
7733265 AAATAAGATATTTCA
1 AAATAAAATATTTCA
7733280 TATTGATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 1 0.03
29 12 0.31
30 13 0.33
31 8 0.21
32 5 0.13
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.34
Consensus pattern (31 bp):
AAATAAAATATTTCAGTTAAAATTAATAGTA
Found at i:7734225 original size:10 final size:10
Alignment explanation
Indices: 7734205--7734235 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
7734195 GAAATTAATA
7734205 AAATAATATTT
1 AAAT-ATATTT
7734216 AAATATATTT
1 AAATATATTT
7734226 AAATATATTT
1 AAATATATTT
7734236 TCTTTTCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATATATTT
Found at i:7737863 original size:25 final size:24
Alignment explanation
Indices: 7737835--7737905 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
7737825 ACTCAAAAAA
* *
7737835 AAAATTAGAAGTTCGATTGAAGCCT
1 AAAATTAG-AGCTCAATTGAAGCCT
*
7737860 AAAATTTGAGCTCAATTGAAGCCT
1 AAAATTAGAGCTCAATTGAAGCCT
*
7737884 AAAATTTGAGCTCAATTGAAGC
1 AAAATTAGAGCTCAATTGAAGC
7737906 GAAAGAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 36 0.84
25 7 0.16
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (24 bp):
AAAATTAGAGCTCAATTGAAGCCT
Found at i:7737879 original size:24 final size:24
Alignment explanation
Indices: 7737850--7737905 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
7737840 TAGAAGTTCG
7737850 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
7737874 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
7737898 ATTGAAGC
1 ATTGAAGC
7737906 GAAAGAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:7739491 original size:17 final size:17
Alignment explanation
Indices: 7739453--7739489 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7739443 TTAGCCCAAA
*
7739453 ATTTATTTTTTAATTAT
1 ATTTATTATTTAATTAT
7739470 ATTTATTATTTAA-TAT
1 ATTTATTATTTAATTAT
7739486 ATTT
1 ATTT
7739490 TACCTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTATTATTTAATTAT
Found at i:7749782 original size:2 final size:2
Alignment explanation
Indices: 7749775--7749808 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7749765 GTGCATTGAG
7749775 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
7749809 GATACTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7750079 original size:55 final size:57
Alignment explanation
Indices: 7749986--7750101 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 57
7749976 GTTTGAGCAT
* *
7749986 TTAGCATGTGTCTGACGTTACTTATGTAATGGTGGTGCTACTAACAGATGCGTTATAC
1 TTAGCATGTGTCTGACGTTA-TTATGTAATGGTAGTGCTACTAACAGATGCATTATAC
* * * *
7750044 TTAGTATGTGTCTGACG-T-TTATGTGATGGTAGTGCTACTAGCAGCTGCATTATAC
1 TTAGCATGTGTCTGACGTTATTATGTAATGGTAGTGCTACTAACAGATGCATTATAC
7750099 TTA
1 TTA
7750102 TAGCACTTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
55 35 0.67
57 1 0.02
58 16 0.31
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (57 bp):
TTAGCATGTGTCTGACGTTATTATGTAATGGTAGTGCTACTAACAGATGCATTATAC
Found at i:7750138 original size:57 final size:55
Alignment explanation
Indices: 7750008--7750140 Score: 142
Period size: 55 Copynumber: 2.4 Consensus size: 55
7749998 TGACGTTACT
* * * * * *
7750008 TATGTAATGGTGGTGCTACTAACAGATGCGTTATACTTAGTATGTGTCTGACGTT
1 TATGTGATGGTGGTGCTACTAACAGATGCATTATACTTAGCATGTGTATGACATC
* * *
7750063 TATGTGATGGTAGTGCTACTAGCAGCTGCATTATACTTATAGCACT-TGTATGACATC
1 TATGTGATGGTGGTGCTACTAACAGATGCATTATAC-T-TAGCA-TGTGTATGACATC
*
7750120 TGTGTGATGGTGGTGCTACTA
1 TATGTGATGGTGGTGCTACTA
7750141 TATGAAACTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
55 31 0.48
56 1 0.02
57 31 0.48
58 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (55 bp):
TATGTGATGGTGGTGCTACTAACAGATGCATTATACTTAGCATGTGTATGACATC
Found at i:7750174 original size:48 final size:48
Alignment explanation
Indices: 7750113--7750233 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 48
7750103 AGCACTTGTA
* *
7750113 TGACATCTGTGTGATGGTGGTGCTACTATATGAAACTTAACACGTGTC
1 TGACGTCTGTGTGACGGTGGTGCTACTATATGAAACTTAACACGTGTC
* * * ** **
7750161 TGACGTCTGTGTGACAGTGGCGTTACTATATGGTACTTTGCACGTGTC
1 TGACGTCTGTGTGACGGTGGTGCTACTATATGAAACTTAACACGTGTC
* * *
7750209 TAACGTTTGTGTGACGATGGTGCTA
1 TGACGTCTGTGTGACGGTGGTGCTA
7750234 AAGTACGAGG
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (48 bp):
TGACGTCTGTGTGACGGTGGTGCTACTATATGAAACTTAACACGTGTC
Found at i:7750506 original size:30 final size:31
Alignment explanation
Indices: 7750411--7750548 Score: 91
Period size: 30 Copynumber: 4.7 Consensus size: 31
7750401 TTTACATTGG
* * *
7750411 GCTATGAAATGAA--AAAGTGAATAATATAT
1 GCTATGAAATGAATTGAAGTGAATGATACAT
*
7750440 TCTATGAAATG-A---AAGTGAATGATACA-
1 GCTATGAAATGAATTGAAGTGAATGATACAT
* *
7750466 GACTACGAAATGAATTTAA-TGAATGATACAT
1 G-CTATGAAATGAATTGAAGTGAATGATACAT
* * *
7750497 GCTATGAAAT-AAATGAAGTGGATGGA-AAAT
1 GCTATGAAATGAATTGAAGTGAAT-GATACAT
*
7750527 GCTATGAAATGAA-TAAAGTGAA
1 GCTATGAAATGAATTGAAGTGAA
7750549 AGGTACAGGT
Statistics
Matches: 88, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
27 21 0.24
28 2 0.02
29 15 0.17
30 43 0.49
31 7 0.08
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (31 bp):
GCTATGAAATGAATTGAAGTGAATGATACAT
Found at i:7751681 original size:25 final size:25
Alignment explanation
Indices: 7751649--7751731 Score: 157
Period size: 25 Copynumber: 3.3 Consensus size: 25
7751639 AGCATTACAA
7751649 AACAGACTCTAACAAACATTAGCTT
1 AACAGACTCTAACAAACATTAGCTT
*
7751674 AATAGACTCTAACAAACATTAGCTT
1 AACAGACTCTAACAAACATTAGCTT
7751699 AACAGACTCTAACAAACATTAGCTT
1 AACAGACTCTAACAAACATTAGCTT
7751724 AACAGACT
1 AACAGACT
7751732 AACTGCTGGC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (25 bp):
AACAGACTCTAACAAACATTAGCTT
Found at i:7754721 original size:61 final size:61
Alignment explanation
Indices: 7754642--7754776 Score: 207
Period size: 61 Copynumber: 2.2 Consensus size: 61
7754632 AAAAATTTTA
* * * *
7754642 AGTTATTCGAGTCCTATTTTGCAACTCGGATTTGAATTGAAATTTTTTTCAAGTCAAGTCG
1 AGTTATTCGAGTCATATTTTACAACTCGAAGTTGAATTGAAATTTTTTTCAAGTCAAGTCG
* * *
7754703 AGTTATTTGAGTCATATTTTATAACTCGAAGTTGAATTGAAATTTTTTTCAAGTCAAGTCT
1 AGTTATTCGAGTCATATTTTACAACTCGAAGTTGAATTGAAATTTTTTTCAAGTCAAGTCG
7754764 AGTTATTCGAGTC
1 AGTTATTCGAGTC
7754777 GAGTTGTTAG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (61 bp):
AGTTATTCGAGTCATATTTTACAACTCGAAGTTGAATTGAAATTTTTTTCAAGTCAAGTCG
Found at i:7755502 original size:27 final size:27
Alignment explanation
Indices: 7755423--7755504 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
7755413 AAAAACGTAC
* *
7755423 CGAGTCATTTGTGCAAGAACAAGCTAT
1 CGAGCCATTTGTGCAAGAACAAGGTAT
*
7755450 CGAGCCATTTGTGCAAGAACAGGGTAT
1 CGAGCCATTTGTGCAAGAACAAGGTAT
*
7755477 CGAGCCATTTGTGCAAGAACATGGTAT
1 CGAGCCATTTGTGCAAGAACAAGGTAT
7755504 C
1 C
7755505 TTGGACTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (27 bp):
CGAGCCATTTGTGCAAGAACAAGGTAT
Found at i:7757403 original size:3 final size:3
Alignment explanation
Indices: 7757395--7757441 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
7757385 TAAATTTTAA
*
7757395 ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT A-T ATAT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT
7757441 A
1 A
7757442 AATATTACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7757924 original size:2 final size:2
Alignment explanation
Indices: 7757917--7757959 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7757907 CAAGAGCAAA
7757917 AT 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 AT
7757959 A
1 A
7757960 CCAAACATCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7758907 original size:12 final size:12
Alignment explanation
Indices: 7758877--7758914 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7758867 ATTACTTTTA
7758877 TATTTTAATTAT
1 TATTTTAATTAT
**
7758889 TGCTTTAATTAT
1 TATTTTAATTAT
7758901 TATTTT-ATTAT
1 TATTTTAATTAT
7758912 TAT
1 TAT
7758915 CTTAGTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:7758935 original size:2 final size:2
Alignment explanation
Indices: 7758928--7758959 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7758918 AGTCACATAA
7758928 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
7758960 TTTATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7759097 original size:31 final size:31
Alignment explanation
Indices: 7759056--7759116 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7759046 ATAATTAAAT
*
7759056 ATTATAAAAATTATAATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATAGTTTTATTTAA
* * *
7759087 ATTATTAAAATTTTAATATATTTTTATTTA
1 ATTATAAAAATTATAATATAGTTTTATTTA
7759117 TTAATATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATAAAAATTATAATATAGTTTTATTTAA
Found at i:7762228 original size:7 final size:7
Alignment explanation
Indices: 7762193--7762234 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
7762183 TTTTCATACA
7762193 TGCATTT
1 TGCATTT
7762200 T-CATTT
1 TGCATTT
7762206 TGCATCTT
1 TGCAT-TT
7762214 TGCATTT
1 TGCATTT
*
7762221 TTCATTT
1 TGCATTT
7762228 TGCATTT
1 TGCATTT
7762235 ATATTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.60
Consensus pattern (7 bp):
TGCATTT
Found at i:7762259 original size:20 final size:20
Alignment explanation
Indices: 7762197--7762259 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
7762187 CATACATGCA
*
7762197 TTTTCATTTTGCATCTTTGCAT
1 TTTTCATTTTGCA--TTTGTAT
*
7762219 TTTTCATTTTGCATTTATAT
1 TTTTCATTTTGCATTTGTAT
*
7762239 TTTT-ATGTTTGCTTTTGTAT
1 TTTTCAT-TTTGCATTTGTAT
7762259 T
1 T
7762260 GCACAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.06
20 21 0.58
22 13 0.36
ACGTcount: A:0.14, C:0.11, G:0.10, T:0.65
Consensus pattern (20 bp):
TTTTCATTTTGCATTTGTAT
Found at i:7765443 original size:20 final size:19
Alignment explanation
Indices: 7765418--7765469 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 19
7765408 CAAAGACATC
7765418 AAAGAAAGAAAAAAACAGAA
1 AAAGAAAGAAAAAAA-AGAA
*
7765438 AAAGAAA-AAAAGAAAG-A
1 AAAGAAAGAAAAAAAAGAA
7765455 AAA-AAAGAAAAAAAA
1 AAAGAAAGAAAAAAAA
7765470 AGGAAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 2 0.07
19 6 0.21
20 7 0.24
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAAAAAGAA
Found at i:7765447 original size:8 final size:8
Alignment explanation
Indices: 7765422--7765484 Score: 58
Period size: 8 Copynumber: 8.1 Consensus size: 8
7765412 GACATCAAAG
7765422 AAAGAAAA
1 AAAGAAAA
* *
7765430 AAACAGAA
1 AAAGAAAA
7765438 AAAGAAAA
1 AAAGAAAA
*
7765446 AAAGAAAG
1 AAAGAAAA
7765454 AAA-AAAA
1 AAAGAAAA
*
7765461 GAA-AAAA
1 AAAGAAAA
*
7765468 AAAGGAAA
1 AAAGAAAA
*
7765476 AAGGAAAA
1 AAAGAAAA
7765484 A
1 A
7765485 GGGAGAAATT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
7 11 0.26
8 32 0.74
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:7765475 original size:11 final size:10
Alignment explanation
Indices: 7765418--7765477 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
7765408 CAAAGACATC
7765418 AAAGAAAGAAA
1 AAAGAAA-AAA
* *
7765429 AAA-ACAGAA
1 AAAGAAAAAA
7765438 AAAGAAAAAA
1 AAAGAAAAAA
*
7765448 AGAA-AGAAAA
1 A-AAGAAAAAA
7765458 AAAGAAAAAA
1 AAAGAAAAAA
7765468 AAAGGAAAAA
1 AAA-GAAAAA
7765478 GGAAAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 7 0.18
10 21 0.54
11 11 0.28
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:7765476 original size:28 final size:28
Alignment explanation
Indices: 7765418--7765470 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
7765408 CAAAGACATC
*
7765418 AAAGAAAGAAAAAAACAGAAAAAGAAAA
1 AAAGAAAGAAAAAAACAGAAAAAAAAAA
7765446 AAAGAAAG-AAAAAA-AGAAAAAAAAA
1 AAAGAAAGAAAAAAACAGAAAAAAAAA
7765471 GGAAAAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.42
27 6 0.25
28 8 0.33
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (28 bp):
AAAGAAAGAAAAAAACAGAAAAAAAAAA
Found at i:7765477 original size:20 final size:20
Alignment explanation
Indices: 7765418--7765477 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
7765408 CAAAGACATC
* *
7765418 AAAGAAAGAAAA-AAACAGAA
1 AAAGAAA-AAAAGAAAGAAAA
7765438 AAAGAAAAAAAGAAAGAAAA
1 AAAGAAAAAAAGAAAGAAAA
*
7765458 AAAGAAAAAAA-AAGGAAAA
1 AAAGAAAAAAAGAAAGAAAA
7765477 A
1 A
7765478 GGAAAAAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 12 0.33
20 24 0.67
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAAGAAAGAAAA
Found at i:7766213 original size:29 final size:29
Alignment explanation
Indices: 7766178--7766236 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
7766168 ATTAAACTCA
*
7766178 TTGTTTATGATTTGATTATATTGTGAACC
1 TTGTTTATGATTCGATTATATTGTGAACC
7766207 TTGTTTATGATTCGATTATATTGTGAACC
1 TTGTTTATGATTCGATTATATTGTGAACC
7766236 T
1 T
7766237 GAAAGGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (29 bp):
TTGTTTATGATTCGATTATATTGTGAACC
Found at i:7769058 original size:11 final size:11
Alignment explanation
Indices: 7769042--7769079 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7769032 CAGCCAAGAA
7769042 TTTCATGTGCG
1 TTTCATGTGCG
7769053 TTTCATGT--G
1 TTTCATGTGCG
7769062 TTATCATGTGCG
1 TT-TCATGTGCG
7769074 TTTCAT
1 TTTCAT
7769080 CCCCAGCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (11 bp):
TTTCATGTGCG
Found at i:7770668 original size:165 final size:163
Alignment explanation
Indices: 7770396--7770715 Score: 525
Period size: 165 Copynumber: 1.9 Consensus size: 163
7770386 AGAATGAGCA
* * *
7770396 TTATCTTGAGATTGGGGCATGTTACCCAATCAATATGTTATTTAAAAAACATAATGAGAAAATGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTATTT-AAAAACATAATGAGAAAACGA
* * **
7770461 TTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
65 TTTCCAAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
7770526 TTAGTTTTTTACTTAGTAAACTATTTCTAACAACC
130 TTAGTTTTTTACTTAGTAAAC-ATTTCTAACAACC
*
7770561 TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTATCTT-GAAACATAATGAGAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTAT-TTAAAAACATAATGAGAAAACGA
7770625 TTTCCAAAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
65 TTTCCAAAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
7770690 CTTAGTTTTTTACTTAGTAAACATTT
129 CTTAGTTTTTTACTTAGTAAACATTT
7770716 TCCCTCGAAA
Statistics
Matches: 145, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
164 47 0.32
165 96 0.66
166 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (163 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTATTTAAAAACATAATGAGAAAACGAT
TTCCAAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
TAGTTTTTTACTTAGTAAACATTTCTAACAACC
Found at i:7771180 original size:73 final size:73
Alignment explanation
Indices: 7770714--7771163 Score: 837
Period size: 73 Copynumber: 6.2 Consensus size: 73
7770704 TAGTAAACAT
* * *
7770714 TTTCCCTCGAAATAGCAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTTATCTCGCT
1 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
7770779 CGAGACAG
66 CGAGACAG
7770787 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
1 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
7770852 CGAGACAG
66 CGAGACAG
*
7770860 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTTGTCTCGCT
1 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
7770925 CGAGACAG
66 CGAGACAG
7770933 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
1 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
7770998 CGAGACAG
66 CGAGACAG
7771006 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
1 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
7771071 CGAGACAG
66 CGAGACAG
* *
7771079 TTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTCCTTAAAACAAAATTTGTCTCGCT
1 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
*
7771144 CGAGATAG
66 CGAGACAG
7771152 TTTCACTCGAAA
1 TTTCACTCGAAA
7771164 CATAAATTTT
Statistics
Matches: 368, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 368 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (73 bp):
TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCT
CGAGACAG
Found at i:7771280 original size:45 final size:45
Alignment explanation
Indices: 7771229--7771509 Score: 483
Period size: 45 Copynumber: 6.3 Consensus size: 45
7771219 GGAGCTTTTT
*
7771229 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
7771274 TGATGTTTTCAAAACCTT-GAGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
*
7771318 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
*
7771363 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
*
7771408 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
* *
7771453 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCTCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
* *
7771498 TTATATTTTCAA
1 TGATGTTTTCAA
7771510 CATTTCCATC
Statistics
Matches: 224, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
44 43 0.19
45 181 0.81
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGAGTCATCTATAAGCCCTTCAGTGCA
Found at i:7771650 original size:3 final size:3
Alignment explanation
Indices: 7771642--7771686 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
7771632 TAAATTTAAA
*
7771642 ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATAT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT A
7771687 AATATTACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7773112 original size:12 final size:12
Alignment explanation
Indices: 7773082--7773119 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7773072 ATTACTTTTA
7773082 TATTTTAATTAT
1 TATTTTAATTAT
**
7773094 TGCTTTAATTAT
1 TATTTTAATTAT
7773106 TATTTT-ATTAT
1 TATTTTAATTAT
7773117 TAT
1 TAT
7773120 CTTAGTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:7773287 original size:31 final size:31
Alignment explanation
Indices: 7773246--7773306 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7773236 ATAATTAAAT
*
7773246 ATTATAAAAATTATAATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATAGTTTTATTTAA
* * *
7773277 ATTATTAAAATTTTAATATATTTTTATTTA
1 ATTATAAAAATTATAATATAGTTTTATTTA
7773307 TTAATATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATAAAAATTATAATATAGTTTTATTTAA
Found at i:7773420 original size:17 final size:18
Alignment explanation
Indices: 7773388--7773422 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7773378 TCTTACTATA
*
7773388 TTAAAATAAATTTTTGTC
1 TTAAAATAAATGTTTGTC
7773406 TTAAAA-AAATGTTTGTC
1 TTAAAATAAATGTTTGTC
7773423 ATTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (18 bp):
TTAAAATAAATGTTTGTC
Found at i:7779939 original size:17 final size:17
Alignment explanation
Indices: 7779911--7779951 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
7779901 CTTATTCTCG
*
7779911 TCCTGCCGGTAATCCTAT
1 TCCTG-CGGTAATCATAT
7779929 TCCTGCGGTAATCATAT
1 TCCTGCGGTAATCATAT
7779946 TCCTGC
1 TCCTGC
7779952 TAAACGGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (17 bp):
TCCTGCGGTAATCATAT
Found at i:7780535 original size:15 final size:15
Alignment explanation
Indices: 7780515--7780715 Score: 323
Period size: 15 Copynumber: 13.5 Consensus size: 15
7780505 TAATAAGGTT
7780515 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
7780530 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
7780545 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
7780560 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
7780575 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
7780590 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
7780605 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
7780620 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
7780635 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
7780650 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
7780665 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
7780680 AATTATTATAAAATA
1 ATTTATTTTAAAATA
*
7780695 AATTATTTT-AAATA
1 ATTTATTTTAAAATA
7780709 ATTTATT
1 ATTTATT
7780716 AGTATGGATT
Statistics
Matches: 174, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
14 11 0.06
15 163 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:7780738 original size:32 final size:32
Alignment explanation
Indices: 7780697--7781044 Score: 195
Period size: 32 Copynumber: 11.3 Consensus size: 32
7780687 ATAAAATAAA
7780697 TTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
7780729 TTA-TTT---TAA---A--A-TATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
7780751 TTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
* *
7780783 TTATTTTAAAATATGGATTTATTTATTATTGTAGTTGTAT
1 TTATTTT-AAATA---ATTTA-TTAGTA-TGGA-TTG-AT
** * * * *
7780823 GGATTGA-TTTATTTTAAATAATTTATTA-GTA-TGAAT
1 ---TT-ATTTTA-AATAATTTA-TTAGTATGGATTG-AT
* *
7780859 TGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 T--TAT-TT-TAAATAATTTATTAGTATGGATTGAT
7780895 TTATTTT--A-AA---A-TA-T--GGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
7780917 TTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
7780949 TTA-TTT---TAA---A--A-TATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
7780971 TTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
*
7781003 TTATTTTAAATAATTTATTTGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGAT
7781035 TTATTTTAAA
1 TTATTTTAAA
7781045 ATATTGATTA
Statistics
Matches: 249, Mismatches: 17, Indels: 100
0.68 0.05 0.27
Matches are distributed among these distances:
22 42 0.17
23 8 0.03
24 2 0.01
25 6 0.02
26 7 0.03
28 7 0.03
29 6 0.02
30 2 0.01
31 8 0.03
32 85 0.34
33 8 0.03
34 2 0.01
35 6 0.02
36 21 0.08
37 9 0.04
38 6 0.02
39 3 0.01
40 12 0.05
42 1 0.00
43 7 0.03
44 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
TTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:7780743 original size:22 final size:22
Alignment explanation
Indices: 7780718--7780760 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7780708 AATTTATTAG
7780718 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7780740 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7780761 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7780762 original size:54 final size:54
Alignment explanation
Indices: 7780697--7781667 Score: 705
Period size: 54 Copynumber: 18.1 Consensus size: 54
7780687 ATAAAATAAA
7780697 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
7780751 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTTAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
7780805 TTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTGAT
*
7780863 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
7780917 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
7780971 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTTAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * ** * * * * * *
7781021 TTGTATGGATTGATTTATTTTAAAATATTGATTAATTTATTTTAAAATATAGATTGAT
1 TTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTGAT
7781079 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
7781133 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* **
7781187 TTA--TT--AT--TGTAGTTA-TATGGATTGATTTATTTT-AAATAATTTATTAGTAT
1 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-AT
** * ** * * * * *
7781237 GGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTGTTAGTATGGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AATATG---G-ATTGAT
* * *
7781295 TGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTT--AA-AT--A---AT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
7781335 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AAATA---ATTTATT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA-T
* * * * * * * * *
7781386 TCTATGGATTGATTTATTT-TAAAATATTGATTAATTTCTTTTAAAATATGGATTGAT
1 T-TAT--TTTAAATAATTTAT-TAGTATGGATTGATTTATTTTAAAATATGGATTGAT
7781443 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
7781497 TTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTTA-
1 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * * * *
7781540 TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAATTAATTTATTAGTATGTAT
1 TTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAA--AA--TA-T-G---G-AT
7781605 TGAT
51 TGAT
* * *
7781609 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATAAGGATTGAA
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
7781663 TTATT
1 TTATT
7781668 ATTGTAGTTG
Statistics
Matches: 742, Mismatches: 84, Indels: 182
0.74 0.08 0.18
Matches are distributed among these distances:
40 4 0.01
41 3 0.00
43 6 0.01
44 4 0.01
45 4 0.01
46 19 0.03
47 12 0.02
48 72 0.10
49 11 0.01
50 33 0.04
51 5 0.01
52 13 0.02
53 9 0.01
54 396 0.53
55 17 0.02
56 8 0.01
57 8 0.01
58 36 0.05
59 4 0.01
60 8 0.01
62 6 0.01
63 4 0.01
64 41 0.06
66 2 0.00
68 14 0.02
69 3 0.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
Found at i:7780848 original size:14 final size:14
Alignment explanation
Indices: 7780829--7780881 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
7780819 GTATGGATTG
7780829 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
7780843 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
7780861 ATTTATTTTAAATA
1 ATTTATTTTAAATA
7780875 ATTTATT
1 ATTTATT
7780882 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:7780866 original size:18 final size:18
Alignment explanation
Indices: 7780843--7780899 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
7780833 ATTTTAAATA
7780843 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
7780861 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
7780875 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
7780893 ATTTATT
1 ATTTATT
7780900 TTAAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 1 0.03
18 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:7780909 original size:22 final size:22
Alignment explanation
Indices: 7780884--7780926 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7780874 AATTTATTAG
7780884 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
7780906 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
7780927 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:7780963 original size:22 final size:22
Alignment explanation
Indices: 7780938--7780980 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7780928 AATTTATTAG
7780938 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7780960 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7780981 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7781053 original size:22 final size:22
Alignment explanation
Indices: 7781028--7781142 Score: 104
Period size: 22 Copynumber: 4.8 Consensus size: 22
7781018 TATTTGTATG
*
7781028 GATTGATTTATTTTAAAATATT
1 GATTGATTTATTTTAAAATATA
*
7781050 GATTAATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
7781072 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
* *
7781099 GTATGGATTGATTTATTTTAAAATATG
1 G-ATTGA-T---TTATTTTAAAATATA
7781126 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
7781143 TAATTTATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
22 43 0.56
23 2 0.03
24 2 0.03
25 1 0.01
26 6 0.08
27 5 0.06
28 6 0.08
29 1 0.01
30 2 0.03
31 2 0.03
32 7 0.09
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:7781113 original size:32 final size:32
Alignment explanation
Indices: 7781072--7781174 Score: 136
Period size: 32 Copynumber: 3.5 Consensus size: 32
7781062 TTAAAATATA
7781072 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
7781104 GATTGATTTA-TTT---TAA---A--A-TATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
7781126 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
7781158 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
7781175 ATATGGATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
22 14 0.23
23 4 0.07
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.07
32 31 0.51
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:7781179 original size:22 final size:22
Alignment explanation
Indices: 7781154--7781222 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 22
7781144 AATTTATTAG
7781154 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
**
7781176 TATGGATTGATTTATTATTGTAGTTA
1 TATGGATTGATTTA-T-TT-TA-AAA
7781202 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7781223 TAATTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 14 0.36
23 3 0.08
24 4 0.10
25 3 0.08
26 15 0.38
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7781218 original size:80 final size:79
Alignment explanation
Indices: 7781100--7781747 Score: 771
Period size: 80 Copynumber: 8.2 Consensus size: 79
7781090 AATTTATTAG
**
7781100 TATGGATTGATTTA-T-TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTATTTAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
7781162 GATTTATTTTAAAA
66 GATTTATTTTAAAA
7781176 TATGGATTGATTTATTATTGTAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTATT-TAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
7781241 TGATTTATTTTAAAA
65 TGATTTATTTTAAAA
*
7781256 TATGGATTGATTTATTTTAAATAATTTGTTAGTATGGATTGATTTA-TTT---TAA---A--A-T
1 TATGGATTGATTTA--TT--AT--TTAGTTA-TATGGATTGATTTATTTTAAATAATTTATTAGT
7781311 ATGGATTGATTTATTTT-AAA
59 ATGGATTGATTTATTTTAAAA
* * * * **
7781331 TA---ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTTCTATGG
1 TATGGATTGA-TTT--ATTATTTAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGG
7781393 ATTGATTTATTTTAAAA
63 ATTGATTTATTTTAAAA
* * * **
7781410 TATTGATTAATTT-CT-TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTATTTAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
7781472 GATTTATTTTAAAA
66 GATTTATTTTAAAA
* *
7781486 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAAT
1 TATGGATTGATTTATTATT-TAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
7781551 TGATTTATTTTAAAA
65 TGATTTATTTTAAAA
* *
7781566 TATGGATTGATTTATTTTAATTAATTTA-TTAGTATGTATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTG----A-TTT-ATT-ATTTAGTTA-TATGGATTGATTTATTTTAAATAATTTATTAG
7781630 TATGGATTGATTTATTTTAAAA
58 TATGGATTGATTTATTTTAAAA
* * *
7781652 TAAGGATTGAATTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTATT-TAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
7781717 TGATTTATTTTAAAA
65 TGATTTATTTTAAAA
7781732 TATGGATTGATTTATT
1 TATGGATTGATTTATT
7781748 TTAAATAATT
Statistics
Matches: 495, Mismatches: 35, Indels: 80
0.81 0.06 0.13
Matches are distributed among these distances:
68 14 0.03
69 7 0.01
71 2 0.00
72 7 0.01
73 4 0.01
75 7 0.01
76 95 0.19
77 7 0.01
78 22 0.04
79 13 0.03
80 202 0.41
81 7 0.01
82 10 0.02
84 3 0.01
85 13 0.03
86 79 0.16
87 3 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (79 bp):
TATGGATTGATTTATTATTTAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
GATTTATTTTAAAA
Found at i:7781238 original size:32 final size:32
Alignment explanation
Indices: 7781202--7781308 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
7781192 ATTGTAGTTA
7781202 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
7781234 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
7781256 TATGGATTGATTTATTTTAAATAATTTGTTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
7781288 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7781309 ATATGGATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
31 4 0.06
32 35 0.55
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:7781259 original size:22 final size:22
Alignment explanation
Indices: 7781234--7781330 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
7781224 AATTTATTAG
7781234 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7781256 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
7781280 TTTGTTAGTATGGATTGATTTATTTTAAAA
1 TATG---G-ATTGA-T---TTATTTTAAAA
7781310 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7781331 TAATTTATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
22 28 0.46
23 2 0.03
24 5 0.08
25 1 0.02
26 4 0.07
27 2 0.03
28 4 0.07
29 1 0.02
30 5 0.08
31 2 0.03
32 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7781338 original size:14 final size:14
Alignment explanation
Indices: 7781319--7781386 Score: 82
Period size: 14 Copynumber: 4.6 Consensus size: 14
7781309 ATATGGATTG
7781319 ATTTATTTTAAATA
1 ATTTATTTTAAATA
7781333 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
7781347 ATTTATTTGTATGGATTG
1 ATTTATTT-TA---AATA
7781365 ATTTATTTTAAATA
1 ATTTATTTTAAATA
7781379 ATTTATTT
1 ATTTATTT
7781387 CTATGGATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 32 0.70
15 2 0.04
17 2 0.04
18 10 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:7781368 original size:18 final size:17
Alignment explanation
Indices: 7781347--7781406 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
7781337 ATTTTAAATA
7781347 ATTTATTTGTATGGATTG
1 ATTTATTT-TATGGATTG
* *
7781365 ATTTATTTTA---AATA
1 ATTTATTTTATGGATTG
7781379 ATTTATTTCTATGGATTG
1 ATTTATTT-TATGGATTG
7781397 ATTTATTTTA
1 ATTTATTTTA
7781407 AAATATTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
17 4 0.12
18 18 0.53
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTTATTTTATGGATTG
Found at i:7781374 original size:32 final size:32
Alignment explanation
Indices: 7781333--7781650 Score: 148
Period size: 32 Copynumber: 9.4 Consensus size: 32
7781323 ATTTTAAATA
7781333 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTG
*
7781365 ATTTATTTTAAATAATTTATTTCTATGGATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTG
* * * **
7781397 ATTTATTTTAAAATATTGATTAATTTCTTTTAAAATATGG
1 ATTTATTTT-AAATA---ATTTATTT-GTAT-GGAT-T-G
*
7781437 ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 A----TTTATTTTAAATAATTTATTTGTATGGATTG
** **
7781473 ATTTATTTTAAA-ATATGGA-TTG-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTTGTATGGATTG
* * * * *
7781502 ATTGTAGTTGTATGGATTGATTTATTT-TA---AATA
1 ATT-TA-TT-T-T-AAATAATTTATTTGTATGGATTG
* * *
7781535 ATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-T-AAATAATTTA-TTT---GTATGGATTG
* * *
7781575 ATTTATTTTAATTAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTG
7781607 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTG
7781639 ATTTATTTTAAA
1 ATTTATTTTAAA
7781651 ATAAGGATTG
Statistics
Matches: 222, Mismatches: 33, Indels: 62
0.70 0.10 0.20
Matches are distributed among these distances:
29 3 0.01
30 7 0.03
31 7 0.03
32 122 0.55
33 12 0.05
34 4 0.02
35 5 0.02
36 18 0.08
37 6 0.03
38 5 0.02
39 3 0.01
40 17 0.08
43 5 0.02
44 8 0.04
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTTGTATGGATTG
Found at i:7781417 original size:22 final size:22
Alignment explanation
Indices: 7781388--7781452 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
7781378 AATTTATTTC
7781388 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* * *
7781410 TATTGATTAATTTCTTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7781432 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7781453 TAATTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7781429 original size:100 final size:104
Alignment explanation
Indices: 7781256--7781754 Score: 361
Period size: 100 Copynumber: 4.7 Consensus size: 104
7781246 TATTTTAAAA
* * *
7781256 TATGGATTGATTTATTTTAAATAATTTGTTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTTAAAATATGGATTAAT
*
7781321 TTATTTT-AA-AT-A-ATTTATTTTAAATAATTTATTTG
66 TTATTTTAAATATGATATTTATTTTAAATAATTTATTAG
* *
7781356 TATGGATTGATTTATTTTAAATAATTTATTTCTATGGATTGATTTATTTTAAAATATTGATTAAT
1 TATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTTAAAATATGGATTAAT
*
7781421 TTCTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTTT-AAATAT-GA-T-ATTTATTTTAAATAATTTATTAG
* * * *** *
7781464 TATGGATTGATTTATTTT-AA-AA--TATGGA-T-T-GATTTA-TTATTGTAGTTGTATGGATTG
1 TATGGATTGATTTATTTTAAATAATTTAT-TACTATGGATTGATTTATTTTA-AAATATGGATTA
* * * * * *
7781521 ATTTATTTTAAATA--ATTTATTAGTATGAATTGATTTATTTTAAAA
64 ATTTATTTTAAATATGATAT-TTA-TTTTAAATAATTTA--TT--AG
* * *
7781566 TATGGATTGATTTATTTTAATTAATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTT--A-AA---A----T
* * * * * *
7781631 ATGGATTGATTTATTTTAAA-ATAAGGATTGA-ATT--ATTATTGTAGTT-G
56 ATGGATTAATTTATTTTAAATATGA-TATTTATTTTAAATAATT-TA-TTAG
* *
7781678 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTTAAAATATGGATTAAT
7781743 TTATTTTAAATA
66 TTATTTTAAATA
7781755 ATTTATTATT
Statistics
Matches: 319, Mismatches: 42, Indels: 73
0.74 0.10 0.17
Matches are distributed among these distances:
96 1 0.00
97 4 0.01
98 11 0.03
100 68 0.21
101 12 0.04
102 62 0.19
103 5 0.02
104 6 0.02
105 2 0.01
106 7 0.02
107 3 0.01
108 44 0.14
109 8 0.03
110 1 0.00
111 1 0.00
112 48 0.15
115 6 0.02
116 2 0.01
117 3 0.01
118 21 0.07
119 3 0.01
120 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (104 bp):
TATGGATTGATTTATTTTAAATAATTTATTACTATGGATTGATTTATTTTAAAATATGGATTAAT
TTATTTTAAATATGATATTTATTTTAAATAATTTATTAG
Found at i:7781478 original size:18 final size:18
Alignment explanation
Indices: 7781455--7781502 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
7781445 ATTTTAAATA
*
7781455 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
7781473 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
7781495 ATTTATTA
1 ATTTATTA
7781503 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:7781569 original size:22 final size:22
Alignment explanation
Indices: 7781544--7781585 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7781534 AATTTATTAG
7781544 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
7781566 TATGGATTGATTTATTTTAA
1 TATGAATTGATTTATTTTAA
7781586 TTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:7781669 original size:166 final size:166
Alignment explanation
Indices: 7780697--7781762 Score: 743
Period size: 166 Copynumber: 6.4 Consensus size: 166
7780687 ATAAAATAAA
*
7780697 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
** ** *
7780762 AATTTATTAGTATGGATTGATTTATTTTAAA-ATATGGATT--TATTTATT-ATTGTAGTTGT--
66 AATTTATTAGTATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TA-TTTTAA
* * *
7780821 -AT--GGATTGATTTATTTTAAATAATTTA-TTAGTATGAATTGAT
128 AATAAGGATTGAATTA--TT--AT--TGTAGTT-GTATGGATTGAT
7780863 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
** ** * ** * *
7780928 AATTTATTAGTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATT
66 AATTTATTAGTATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-A
* * * * *
7780990 AGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGAT
128 AATAAGGATTGAATTA--TT--AT--TGTAGTTGTATGGATTGAT
* *
7781035 TTATTTT--A-AA---A-TA-T-TG-ATTAATTTATTTTAAAATATAGATTGATTTATTTTAAAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
7781090 AATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATA
66 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-A
* * * ***
7781145 ATTTATTAGTA-TGGATTGATTTATTTTA-AAATATGGATTGAT
129 A--TA--AGGATTGAATT-A-TTATTGTAGTTGTATGGATTGAT
* * ** ** *
7781187 TTA--TT--AT--TGTAGTTA-TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTG
1 TTATTTTAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTT
** * * * *
7781243 ATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTGTTAGTATGGATTGATTTATTTTA
62 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
* * *
7781307 AAATATGGATTG-A-T-TTA---T--TT-TA---AATAAT
127 AAATAAGGATTGAATTATTATTGTAGTTGTATGGATTGAT
* *
7781335 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTTCTATGGATTGATT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT--A-AA---A----TATGGATTGATT
* *
7781400 TATTTTAAAATATTGATTAATTTCTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
56 TATTTT---A-A---A-TAA-TT-TATT--AGTATGGATTGATTTATTTTAAATAATTTATTAGT
* *
7781465 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGAT
109 ATGGATTGATTTATTTTAAAATAAGGATTGAATTATTATTGTAGTTGTATGGATTGAT
*
7781523 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAATT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
* *
7781588 AATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
66 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
7781653 AAGGATTGAATTATTATTGTAGTTGTATGGATTGAT
131 AAGGATTGAATTATTATTGTAGTTGTATGGATTGAT
*
7781689 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
7781754 AATTTATTA
66 AATTTATTA
7781763 TTGTAGTTGT
Statistics
Matches: 745, Mismatches: 69, Indels: 172
0.76 0.07 0.17
Matches are distributed among these distances:
148 7 0.01
150 5 0.01
151 2 0.00
152 17 0.02
153 15 0.02
154 29 0.04
155 9 0.01
156 37 0.05
157 20 0.03
158 9 0.01
159 2 0.00
160 6 0.01
161 6 0.01
162 66 0.09
163 5 0.01
164 8 0.01
165 6 0.01
166 291 0.39
167 4 0.01
168 4 0.01
169 4 0.01
170 5 0.01
171 2 0.00
172 45 0.06
173 3 0.00
174 1 0.00
175 1 0.00
176 64 0.09
178 19 0.03
179 3 0.00
182 2 0.00
184 2 0.00
185 4 0.01
186 1 0.00
188 41 0.06
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (166 bp):
TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
AAGGATTGAATTATTATTGTAGTTGTATGGATTGAT
Found at i:7781735 original size:22 final size:22
Alignment explanation
Indices: 7781710--7781752 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7781700 AATTTATTAG
7781710 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7781732 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7781753 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7781749 original size:54 final size:54
Alignment explanation
Indices: 7781512--7781762 Score: 258
Period size: 54 Copynumber: 4.6 Consensus size: 54
7781502 ATTGTAGTTG
*
7781512 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
7781566 TATGGATTGATTTATTTTAATTAATTTATTAGTATGTATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * * * ***
7781619 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATAAGGATTGAATTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTG-A-T-TTATTTTA-AAA
7781678 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
7781732 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
7781763 TTGTAGTTGT
Statistics
Matches: 157, Mismatches: 28, Indels: 24
0.75 0.13 0.11
Matches are distributed among these distances:
50 17 0.11
52 2 0.01
53 5 0.03
54 87 0.55
55 8 0.05
56 2 0.01
57 7 0.04
58 9 0.06
59 2 0.01
60 2 0.01
62 16 0.10
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:7783680 original size:60 final size:60
Alignment explanation
Indices: 7783597--7783758 Score: 184
Period size: 60 Copynumber: 2.7 Consensus size: 60
7783587 TATGATATTT
** * *
7783597 ATTTTAAATTAATCCTTAAACTTTTAAATATTTTAATTTTATCTTTAAACTATGATT-CTC
1 ATTTTAAATTAATCCTTAAACTTTTAAATATTCCAATTTCATCTTCAAACTAT-ATTCCTC
* * *
7783657 ATTTTAAATTAGTCTTTAAACTTTTGAATATTCCAATTTCATCTTCAAACTATATTCCTC
1 ATTTTAAATTAATCCTTAAACTTTTAAATATTCCAATTTCATCTTCAAACTATATTCCTC
** * * * *
7783717 ATTTTAAATTGGTCC-CAAACTTTTGAATCTTTCAATTTCATC
1 ATTTTAAATTAATCCTTAAACTTTTAAATATTCCAATTTCATC
7783759 CAAATATATA
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
59 27 0.30
60 62 0.70
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (60 bp):
ATTTTAAATTAATCCTTAAACTTTTAAATATTCCAATTTCATCTTCAAACTATATTCCTC
Found at i:7784111 original size:16 final size:16
Alignment explanation
Indices: 7784087--7784119 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7784077 CAACCCAGTC
7784087 CAAACGTACTAATTTT
1 CAAACGTACTAATTTT
*
7784103 CAAATGTACTAATTTT
1 CAAACGTACTAATTTT
7784119 C
1 C
7784120 CATTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (16 bp):
CAAACGTACTAATTTT
Found at i:7786451 original size:29 final size:29
Alignment explanation
Indices: 7786417--7786525 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
7786407 TTTGGATGAA
*
7786417 TTTGGGGATGAAATTAGAATATTTAAAAG
1 TTTGGGGATGAATTTAGAATATTTAAAAG
** * * *
7786446 TTTGGGGACCAATTTAGAATGAGTGTCATAG
1 TTTGGGGATGAATTTAGAAT-A-TTTAAAAG
* * *
7786477 TTTGAGGATGAATTTGGAATGTTTAAAAG
1 TTTGGGGATGAATTTAGAATATTTAAAAG
**
7786506 TTTAAGGACT-AATTTAGAAT
1 TTTGGGGA-TGAATTTAGAAT
7786526 GAGTATCATA
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
29 38 0.62
30 2 0.03
31 21 0.34
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
TTTGGGGATGAATTTAGAATATTTAAAAG
Found at i:7786486 original size:60 final size:60
Alignment explanation
Indices: 7786415--7786579 Score: 222
Period size: 60 Copynumber: 2.8 Consensus size: 60
7786405 TATTTGGATG
* * *
7786415 AATTTGGGGATGAAATTAGAATATTTAAAAGTTTGGGGACCAATTTAGAATGAGTGTCAT
1 AATTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGACCAATTTAGAATGAGTATCAT
* * * * * *
7786475 AGTTTGAGGATGAATTTGGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGTATCAT
1 AATTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGACCAATTTAGAATGAGTATCAT
* * *
7786535 AATTTAAGGATGAAATTAGAATATTAAAAAATTTAGGGACCAATT
1 AATTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGACCAATT
7786580 AAAAATAAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 87 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (60 bp):
AATTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGACCAATTTAGAATGAGTATCAT
Found at i:7786491 original size:31 final size:31
Alignment explanation
Indices: 7786456--7786556 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
7786446 TTTGGGGACC
* *
7786456 AATTTAGAATGAGTGTCATAGTTTGAGGATG
1 AATTTAGAATGAGTATCATAGTTTAAGGATG
* * * *
7786487 AATTTGGAAT--GTTTAAAAGTTTAAGGACT-
1 AATTTAGAATGAGTATCATAGTTTAAGGA-TG
*
7786516 AATTTAGAATGAGTATCATAATTTAAGGATG
1 AATTTAGAATGAGTATCATAGTTTAAGGATG
*
7786547 AAATTAGAAT
1 AATTTAGAAT
7786557 ATTAAAAAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
29 22 0.40
30 2 0.04
31 31 0.56
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.36
Consensus pattern (31 bp):
AATTTAGAATGAGTATCATAGTTTAAGGATG
Found at i:7786526 original size:29 final size:29
Alignment explanation
Indices: 7786430--7786526 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
7786420 GGGGATGAAA
* * *
7786430 TTAGAATATTTAAAAGTTTGGGGACCAAT
1 TTAGAATGTTTAAAAGTTTGAGGACTAAT
* * *
7786459 TTAGAATGAGTGTCATAGTTTGAGGA-TGAAT
1 TTAGAAT--GTTTAAAAGTTTGAGGACT-AAT
* *
7786490 TTGGAATGTTTAAAAGTTTAAGGACTAAT
1 TTAGAATGTTTAAAAGTTTGAGGACTAAT
7786519 TTAGAATG
1 TTAGAATG
7786527 AGTATCATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 30 0.58
30 1 0.02
31 21 0.40
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
TTAGAATGTTTAAAAGTTTGAGGACTAAT
Found at i:7796237 original size:17 final size:17
Alignment explanation
Indices: 7796215--7796268 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
7796205 ATCATTGAAC
7796215 TTTATTATATCTCTAAT
1 TTTATTATATCTCTAAT
* * *
7796232 TTTATT-CAT-T-GAAC
1 TTTATTATATCTCTAAT
7796246 TTTATTATATCTCTAAT
1 TTTATTATATCTCTAAT
7796263 TTTATT
1 TTTATT
7796269 CATTGAACTT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 8 0.29
15 3 0.11
16 3 0.11
17 14 0.50
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTATTATATCTCTAAT
Found at i:7796241 original size:31 final size:31
Alignment explanation
Indices: 7796206--7796280 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
7796196 ATAAATTTCA
7796206 TCATTGAACTTTATTATATCTCTAATTTTAT
1 TCATTGAACTTTATTATATCTCTAATTTTAT
7796237 TCATTGAACTTTATTATATCTCTAATTTTAT
1 TCATTGAACTTTATTATATCTCTAATTTTAT
7796268 TCATTGAACTTTA
1 TCATTGAACTTTA
7796281 ATTTTCTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.53
Consensus pattern (31 bp):
TCATTGAACTTTATTATATCTCTAATTTTAT
Found at i:7800283 original size:21 final size:21
Alignment explanation
Indices: 7800240--7800328 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
7800230 CCACAGCTCG
*
7800240 TAATTTGCACCGAAGTG-CCACA
1 TAATTTTC-CCGAA-TGACCACA
*
7800262 TAATTTTCCCGAATGACTACA
1 TAATTTTCCCGAATGACCACA
* *
7800283 TAGGTTTGCACCGAAGTG-CCACA
1 TA-ATTTTC-CCGAA-TGACCACA
* *
7800306 TAATTGTCCCGAAGGACCACA
1 TAATTTTCCCGAATGACCACA
7800327 TA
1 TA
7800329 GAACCCTAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.06
21 23 0.43
22 14 0.26
23 11 0.21
24 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (21 bp):
TAATTTTCCCGAATGACCACA
Found at i:7800293 original size:44 final size:44
Alignment explanation
Indices: 7800243--7800329 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
7800233 CAGCTCGTAA
* * *
7800243 TTTGCACCGAAGTGCCACATAATTTTCCCGAATGACTACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
7800287 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAG
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAG
7800330 AACCCTAGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
Found at i:7800306 original size:23 final size:22
Alignment explanation
Indices: 7800240--7800310 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
7800230 CCACAGCTCG
7800240 TAATTTGCACCGAAGTGCCACA
1 TAATTTGCACCGAAGTGCCACA
* *
7800262 TAATTTTC-CCGAA-TGACTACA
1 TAATTTGCACCGAAGTG-CCACA
*
7800283 TAGGTTTGCACCGAAGTGCCACA
1 TA-ATTTGCACCGAAGTGCCACA
7800306 TAATT
1 TAATT
7800311 GTCCCGAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 13 0.33
23 11 0.28
24 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (22 bp):
TAATTTGCACCGAAGTGCCACA
Found at i:7802395 original size:21 final size:22
Alignment explanation
Indices: 7802366--7802415 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
7802356 TGGATCAGTC
7802366 TTTATCCTATCCGGATCGGTTT
1 TTTATCCTATCCGGATCGGTTT
7802388 TTTA-CCTATCCGGATCGGTTT
1 TTTATCCTATCCGGATCGGTTT
7802409 TTTATCC
1 TTTATCC
7802416 GACTTTGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (22 bp):
TTTATCCTATCCGGATCGGTTT
Found at i:7807850 original size:23 final size:22
Alignment explanation
Indices: 7807784--7807854 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
7807774 CCACAGCTCG
7807784 TAATTTGCACCGAAGTGCCACA
1 TAATTTGCACCGAAGTGCCACA
* *
7807806 TAATTTTC-CCGAA-TGACTACA
1 TAATTTGCACCGAAGTG-CCACA
*
7807827 TAGGTTTGCACCGAAGTGCCACA
1 TA-ATTTGCACCGAAGTGCCACA
7807850 TAATT
1 TAATT
7807855 GTCCCGAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 13 0.33
23 11 0.28
24 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (22 bp):
TAATTTGCACCGAAGTGCCACA
Found at i:7807870 original size:21 final size:20
Alignment explanation
Indices: 7807793--7807863 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 20
7807783 GTAATTTGCA
7807793 CCGAAGTGCCACATAATTTTC
1 CCGAAGTGCCACATAA-TTTC
* *
7807814 CCGAA-TGACTACATAGGTTTGC
1 CCGAAGTG-CCACATA-ATTT-C
7807836 ACCGAAGTGCCACATAATTGTC
1 -CCGAAGTGCCACATAATT-TC
7807858 CCGAAG
1 CCGAAG
7807864 GACCACAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 2 0.05
21 20 0.50
22 4 0.10
23 12 0.30
24 2 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
CCGAAGTGCCACATAATTTC
Found at i:7809947 original size:18 final size:19
Alignment explanation
Indices: 7809905--7809953 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
7809895 TACCATATAT
7809905 GTATCAATACTCCCTTGACAA
1 GTATCAATACTCCCTT-A-AA
7809926 GTATCAATACTCCCTT-AA
1 GTATCAATACTCCCTTAAA
*
7809944 GTATCGATAC
1 GTATCAATAC
7809954 CAAAAATAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.41
21 16 0.59
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (19 bp):
GTATCAATACTCCCTTAAA
Done.