Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009071.1 Hibiscus syriacus cultivar Beakdansim tig00112501_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: 822590
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:1119 original size:25 final size:25
Alignment explanation
Indices: 1091--1233 Score: 259
Period size: 25 Copynumber: 5.7 Consensus size: 25
1081 GGGATTAGTG
*
1091 TTGAAACCCTAAATTGATTTAGGGT
1 TTGAAACCCTAAACTGATTTAGGGT
*
1116 TTGAAACCCTAAATTGATTTAGGGT
1 TTGAAACCCTAAACTGATTTAGGGT
1141 TTGAAACCCTAAACTGATTTAGGGT
1 TTGAAACCCTAAACTGATTTAGGGT
1166 TTGAAACCCTAAACTGATTTAGGGT
1 TTGAAACCCTAAACTGATTTAGGGT
1191 TTGAAACCCTAAACTGATTTAGGGT
1 TTGAAACCCTAAACTGATTTAGGGT
*
1216 TTGAAACCCTAATCTGAT
1 TTGAAACCCTAAACTGAT
1234 GGGTTGTTGG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 116 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (25 bp):
TTGAAACCCTAAACTGATTTAGGGT
Found at i:1371 original size:3 final size:3
Alignment explanation
Indices: 1363--1423 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
1353 GCAAAAATTG
*
1363 TAA TAA TAAA TAA TAA TAA -AA TAA TAA T-A TAA TGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1407 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
1424 CGGAAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 6 0.12
3 43 0.83
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2984 original size:14 final size:15
Alignment explanation
Indices: 2955--2987 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2945 GACAAAACAC
2955 TATAATAAACACTAA
1 TATAATAAACACTAA
*
2970 TATAA-AAATACTAA
1 TATAATAAACACTAA
2984 TATA
1 TATA
2988 CTCTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAATAAACACTAA
Found at i:6975 original size:13 final size:15
Alignment explanation
Indices: 6939--6977 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6929 ATAAAAGCTT
*
6939 CATTTAAAATTGTCG
1 CATTTAAACTTGTCG
6954 CATTTAAACTTGTC-
1 CATTTAAACTTGTCG
6968 CA-TTAAACTT
1 CATTTAAACTT
6978 TAGGTACCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.35
14 2 0.09
15 13 0.57
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (15 bp):
CATTTAAACTTGTCG
Found at i:8342 original size:28 final size:27
Alignment explanation
Indices: 8301--8357 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
8291 CTATTTTTTC
* * *
8301 TTTTCTCTTCTCATCTTCTTTCTTTAT
1 TTTTCTCCTCTCATCTTCTCTCTCTAT
*
8328 TTTTCTTCCTCTCATTTTCTCTCTCTAT
1 TTTTC-TCCTCTCATCTTCTCTCTCTAT
8356 TT
1 TT
8358 CTTTCACTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTCTCCTCTCATCTTCTCTCTCTAT
Found at i:15298 original size:23 final size:23
Alignment explanation
Indices: 15272--15319 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
15262 ATAAAGTACA
*
15272 ATAACATACTAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
15295 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
15318 AT
1 AT
15320 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:15564 original size:30 final size:29
Alignment explanation
Indices: 15524--15590 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
15514 TCATTTGCAC
* * *
15524 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
15554 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
15583 AATAATAT
1 AA-AATAT
15591 ATCGTAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:15770 original size:23 final size:23
Alignment explanation
Indices: 15744--15806 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
15734 ATATAACCAC
15744 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
15767 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
15790 TACCTATTACATCATAT
1 TACCTATTACATTATAT
15807 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:16266 original size:33 final size:34
Alignment explanation
Indices: 16227--16291 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
16217 AAGTTGTAGA
*
16227 TTTTGATTTCC-TTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
16260 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
16292 CTTTGGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
Found at i:16301 original size:33 final size:33
Alignment explanation
Indices: 16231--16301 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 33
16221 TGTAGATTTT
* * *
16231 GATTTCCTTTGCTTGGCATCATATGAGATTTTT
1 GATTTCCTTTGCTTGGCACCATATGAGACTTTG
16264 GATTTCCTTTTGCTTGGCACCATATGAG-CTTTG
1 GATTTCC-TTTGCTTGGCACCATATGAGACTTTG
16297 GATTT
1 GATTT
16302 TGATGAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 15 0.44
34 19 0.56
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (33 bp):
GATTTCCTTTGCTTGGCACCATATGAGACTTTG
Found at i:16587 original size:18 final size:18
Alignment explanation
Indices: 16564--16600 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16554 CGAAATATAT
16564 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
16582 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
16600 A
1 A
16601 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:17065 original size:23 final size:23
Alignment explanation
Indices: 17039--17101 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
17029 ATATAACCAC
17039 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
17062 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
17085 TACCTATTACATCATAT
1 TACCTATTACATTATAT
17102 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:17142 original size:21 final size:22
Alignment explanation
Indices: 17117--17166 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17107 CCTATTATAT
17117 TAAAAGTG-TCCATACTTTTTA
1 TAAAAGTGATCCATACTTTTTA
* *
17138 TAAAAAG-GATCGATACTTTTTT
1 T-AAAAGTGATCCATACTTTTTA
17160 TAAAAGT
1 TAAAAGT
17167 TATGTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (22 bp):
TAAAAGTGATCCATACTTTTTA
Found at i:17502 original size:25 final size:24
Alignment explanation
Indices: 17440--17504 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
17430 CACTCAAAAG
*
17440 ATGTATATACCTAAATATGTAGTA
1 ATGTACATACCTAAATATGTAGTA
***
17464 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAG-TA
*
17489 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
17505 TTAATGATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (24 bp):
ATGTACATACCTAAATATGTAGTA
Found at i:20284 original size:184 final size:183
Alignment explanation
Indices: 19971--20644 Score: 1181
Period size: 183 Copynumber: 3.7 Consensus size: 183
19961 TTAAAATTAC
*
19971 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * *
20035 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
* * *
20100 TATATTAAAAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 TATATT-ACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
20155 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
20219 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
20284 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
20338 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
20403 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
20468 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
20521 CGACACTTTTTAACAATGTATCGACACATTTTTCTCCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
20586 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
20645 ATATGTTGAA
Statistics
Matches: 474, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
183 341 0.72
184 133 0.28
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:22121 original size:3 final size:3
Alignment explanation
Indices: 22113--22193 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
22103 ACTTGTTTGG
* * * **
22113 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
22161 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
22194 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:22130 original size:12 final size:12
Alignment explanation
Indices: 22117--22205 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
22107 GTTTGGATCA
* *
22117 TCATCTTCATCA
1 TCATCGTCATCT
* *
22129 TCATCATCATCA
1 TCATCGTCATCT
* *
22141 TCGTCATCATCT
1 TCATCGTCATCT
* *
22153 TCATCGCCAGCT
1 TCATCGTCATCT
*
22165 TCATCGTCATCA
1 TCATCGTCATCT
22177 TCATCGTCATCT
1 TCATCGTCATCT
*
22189 TCATCGTCAGCT
1 TCATCGTCATCT
22201 TCATC
1 TCATC
22206 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:22136 original size:18 final size:18
Alignment explanation
Indices: 22117--22208 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
22107 GTTTGGATCA
* *
22117 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
22135 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
22153 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
22171 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
22189 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
22207 TC
1 TC
22209 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:22169 original size:36 final size:36
Alignment explanation
Indices: 22129--22205 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
22119 ATCTTCATCA
*
22129 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
22165 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
22201 TCATC
1 TCATC
22206 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:22208 original size:6 final size:6
Alignment explanation
Indices: 22117--22208 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
22107 GTTTGGATCA
* * * * * * * *
22117 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
22165 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
22209 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:24190 original size:199 final size:199
Alignment explanation
Indices: 23670--24834 Score: 2100
Period size: 199 Copynumber: 5.8 Consensus size: 199
23660 TTTAAATTAG
23670 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
23735 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
23800 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
23864 AAAA
196 AAAA
* *
23868 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
23933 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
23998 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
24063 AAAA
196 AAAA
* *
24067 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
24132 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24197 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTTCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
24262 AAAA
196 AAAA
24266 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
24331 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
24396 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
24460 AAAA
196 AAAA
*
24464 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
24529 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24594 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCTTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
24659 AAAA
196 AAAA
*
24663 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
24728 CTTGTACCGGTTAGATTGAAAAATTACATATTACATATTACATTATACTTTTGGTTTTCGATGTT
66 ATTGTACCGGTTAGATTG---AA--A-A-ATTACATATTACATTATACTTTTGG-GTTCGATGAT
*
24793 TTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGG
123 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
24835 TAAATTTGCC
Statistics
Matches: 938, Mismatches: 19, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
198 382 0.41
199 478 0.51
202 2 0.00
204 1 0.00
205 1 0.00
206 25 0.03
207 49 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:24463 original size:397 final size:398
Alignment explanation
Indices: 23670--24834 Score: 2100
Period size: 397 Copynumber: 2.9 Consensus size: 398
23660 TTTAAATTAG
23670 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
23735 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
23800 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
* *
23864 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
23929 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
23994 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG
24059 AAAAAAAA
391 AAAAAAAA
* *
24067 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
24132 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24197 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTTCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
24262 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
24327 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
24392 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG
24457 -AAAAAAA
391 AAAAAAAA
*
24464 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
24529 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24594 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCTTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
24659 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* * *
24724 TAGACTTGTACCGGTTAGATTGAAAAATTACATATTACATATTACATTATACTTTTGGTTTTCGA
261 TATAATTGTACCGGTTAGATTG---AA--A-A-ATTACATATTACATTATACTTTTGG-GTTCGA
* *
24789 TGTTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGG
318 TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
24835 TAAATTTGCC
Statistics
Matches: 740, Mismatches: 19, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
397 468 0.63
398 194 0.26
400 2 0.00
402 1 0.00
403 1 0.00
404 25 0.03
405 49 0.07
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG
AAAAAAAA
Found at i:24989 original size:19 final size:19
Alignment explanation
Indices: 24943--24991 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
24933 TTATATTCAC
*
24943 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
24962 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
24981 ATACAAAATTA
1 ATACAAAATTA
24992 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:26820 original size:33 final size:33
Alignment explanation
Indices: 26783--26848 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
26773 CATCTTAATA
*
26783 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
26816 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
26849 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:26907 original size:21 final size:21
Alignment explanation
Indices: 26882--26946 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
26872 CCCCTTATGC
* *
26882 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
26903 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
26924 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
26945 CT
1 CT
26947 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:27049 original size:15 final size:15
Alignment explanation
Indices: 27029--27061 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27019 ACTCTGTTTT
*
27029 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
27044 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
27059 CCC
1 CCC
27062 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:29190 original size:17 final size:18
Alignment explanation
Indices: 29168--29210 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
29158 ATATATCCGG
29168 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
29185 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
29205 TATCAT
1 TATCAT
29211 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:29228 original size:20 final size:19
Alignment explanation
Indices: 29173--29219 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
29163 TCCGGTATCA
29173 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
29192 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
29213 TTTTACC
1 TTTTACC
29220 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:29381 original size:20 final size:20
Alignment explanation
Indices: 29354--29400 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
29344 TCCGGTAACG
29354 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
29373 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
29394 TTTTACC
1 TTTTACC
29401 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:29444 original size:181 final size:181
Alignment explanation
Indices: 29140--29612 Score: 707
Period size: 181 Copynumber: 2.6 Consensus size: 181
29130 CGTACTTACG
* * *
29140 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
29205 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTTAAAGTATCGACACATTAT
* *
29270 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
29321 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
29386 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** *
29451 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
29503 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
29567 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
29613 AATTTGGATC
Statistics
Matches: 265, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
180 5 0.02
181 161 0.61
182 98 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:30080 original size:229 final size:228
Alignment explanation
Indices: 29679--30165 Score: 875
Period size: 229 Copynumber: 2.1 Consensus size: 228
29669 ACCTACTTTT
*
29679 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTTA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
29744 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
29809 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
29874 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAATAAATATATTTTC-ACAGTGAA
*
29908 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
* *
29973 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
30038 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
30103 TAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
*
30136 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
30166 GATAATTTAC
Statistics
Matches: 248, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
228 37 0.15
229 211 0.85
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:31020 original size:14 final size:15
Alignment explanation
Indices: 31001--31038 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
30991 TTTATGATTG
31001 TTTAAATTT-CTATA
1 TTTAAATTTACTATA
*
31015 TTTAAATTTATTATA
1 TTTAAATTTACTATA
31030 TATTAAATT
1 T-TTAAATT
31039 CATTTGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 5 0.24
16 7 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATTTACTATA
Found at i:31644 original size:14 final size:14
Alignment explanation
Indices: 31627--31658 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31617 TTATAAAATT
*
31627 TAAATTTTAAAAAG
1 TAAATTCTAAAAAG
31641 TAAATTCTAAAAAG
1 TAAATTCTAAAAAG
31655 TAAA
1 TAAA
31659 CTAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (14 bp):
TAAATTCTAAAAAG
Found at i:32205 original size:37 final size:37
Alignment explanation
Indices: 32129--32205 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
32119 TTTTTATATT
*
32129 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
32166 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
32203 TTT
1 TTT
32206 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:32368 original size:18 final size:19
Alignment explanation
Indices: 32345--32381 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
32335 ACAGTAATCC
32345 TATTCC-CTGATAATCTTT
1 TATTCCACTGATAATCTTT
32363 TATTCCTACTGATAATCTT
1 TATTCC-ACTGATAATCTT
32382 ACATTCTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (19 bp):
TATTCCACTGATAATCTTT
Found at i:37070 original size:30 final size:30
Alignment explanation
Indices: 37036--37136 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
37026 AAGTCAACGG
37036 GTTGACTCGGTTCAAGTTGATTCAAGGCGA
1 GTTGACTCGGTTCAAGTTGATTCAAGGCGA
37066 GTTGACTCGGTTCAAGTTGATTCAAGGCG-
1 GTTGACTCGGTTCAAGTTGATTCAAGGCGA
** * *
37095 GTTGACTCGGTT-TGGTTTGACTCAATGCGA
1 GTTGACTCGGTTCAAG-TTGATTCAAGGCGA
37125 GTTGACTCGGTT
1 GTTGACTCGGTT
37137 TGAGTTGACT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
28 1 0.02
29 23 0.35
30 41 0.63
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (30 bp):
GTTGACTCGGTTCAAGTTGATTCAAGGCGA
Found at i:37137 original size:30 final size:29
Alignment explanation
Indices: 37036--37148 Score: 120
Period size: 30 Copynumber: 3.8 Consensus size: 29
37026 AAGTCAACGG
** *
37036 GTTGACTCGGTTCAAGTTGATTCAAGGCGA
1 GTTGACTCGGTT-TGGTTGACTCAAGGCGA
** *
37066 GTTGACTCGGTTCAAGTTGATTCAAGGCG-
1 GTTGACTCGGTT-TGGTTGACTCAAGGCGA
*
37095 GTTGACTCGGTTTGGTTTGACTCAATGCGA
1 GTTGACTCGGTTTGG-TTGACTCAAGGCGA
37125 GTTGACTCGGTTTGAGTTGACTCA
1 GTTGACTCGGTTTG-GTTGACTCA
37149 TTTTGTACCG
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
28 1 0.01
29 23 0.30
30 51 0.67
31 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (29 bp):
GTTGACTCGGTTTGGTTGACTCAAGGCGA
Found at i:37141 original size:15 final size:15
Alignment explanation
Indices: 37095--37147 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
37085 ATTCAAGGCG
37095 GTTGACTCGGTTTG-
1 GTTGACTCGGTTTGA
** **
37109 GTTTGACTCAATGCGA
1 G-TTGACTCGGTTTGA
37125 GTTGACTCGGTTTGA
1 GTTGACTCGGTTTGA
37140 GTTGACTC
1 GTTGACTC
37148 ATTTTGTACC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
14 1 0.03
15 27 0.93
16 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (15 bp):
GTTGACTCGGTTTGA
Found at i:38540 original size:24 final size:23
Alignment explanation
Indices: 38507--38554 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
38497 TACCATGTGT
* *
38507 AAATGATTATTTTCTCTGATTTG
1 AAATGATTATTTACTCTAATTTG
38530 AAATGTATTATTTACTCTAATTTG
1 AAATG-ATTATTTACTCTAATTTG
38554 A
1 A
38555 CCATCGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (23 bp):
AAATGATTATTTACTCTAATTTG
Found at i:39796 original size:31 final size:30
Alignment explanation
Indices: 39758--39919 Score: 198
Period size: 31 Copynumber: 5.2 Consensus size: 30
39748 GCTAGTATAA
39758 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAA-AACATAGG
* *
39789 TAATCTGTTCATATATCCCGAATAACATAGG
1 TAATCTGTCCATATGTCCCGAA-AACATAGG
** *
39820 TAAAATGTCTATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAA-AACATAGG
*
39851 TAATCCTGTCCATATGTCTCGAAAGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAA-ACATAGG
*
39883 TAATACTGTCCATATGCCCCGAAAGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAA-ACATAGG
39915 TAATC
1 TAATC
39920 CCTCAACTCT
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
31 58 0.51
32 55 0.49
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (30 bp):
TAATCTGTCCATATGTCCCGAAAACATAGG
Found at i:39880 original size:32 final size:31
Alignment explanation
Indices: 39758--39919 Score: 195
Period size: 32 Copynumber: 5.2 Consensus size: 31
39748 GCTAGTATAA
39758 TAATCTGTCCATATGTCCCG-AAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGG
* *
39789 TAATCTGTTCATATATCCCGAATA-ACATAGG
1 TAATCTGTCCATATGTCCCGAA-AGACATAGG
** *
39820 TAAAATGTCTATATGTCCCG-AAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAAG-ACATAGG
*
39851 TAATCCTGTCCATATGTCTCGAAAGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGG
*
39883 TAATACTGTCCATATGCCCCGAAAGACATAGG
1 TAAT-CTGTCCATATGTCCCGAAAGACATAGG
39915 TAATC
1 TAATC
39920 CCTCAACTCT
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 51 0.46
32 54 0.49
33 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCCGAAAGACATAGG
Found at i:40043 original size:16 final size:17
Alignment explanation
Indices: 40012--40044 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40002 TCACATGCAC
*
40012 ATTTCACTATTCATATG
1 ATTTCACTAATCATATG
40029 ATTTCA-TAATCATATG
1 ATTTCACTAATCATATG
40045 TCACTTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (17 bp):
ATTTCACTAATCATATG
Found at i:41317 original size:14 final size:16
Alignment explanation
Indices: 41297--41331 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
41287 TTCACGGTTG
41297 GAGAAGAAGAA-ATGA
1 GAGAAGAAGAAGATGA
41312 -AGAAGAAGAAGATGA
1 GAGAAGAAGAAGATGA
41327 GAGAA
1 GAGAA
41332 TTATGTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.56
15 4 0.22
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (16 bp):
GAGAAGAAGAAGATGA
Found at i:47858 original size:21 final size:21
Alignment explanation
Indices: 47832--47875 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47822 GGAAGCCATT
*
47832 GATGAAAGATTTAAACTTTGG
1 GATGAAAGATTGAAACTTTGG
*
47853 GATGAAAGATTGGAACTTTGG
1 GATGAAAGATTGAAACTTTGG
47874 GA
1 GA
47876 AGATGAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.30
Consensus pattern (21 bp):
GATGAAAGATTGAAACTTTGG
Found at i:48213 original size:75 final size:77
Alignment explanation
Indices: 48074--48223 Score: 184
Period size: 75 Copynumber: 2.0 Consensus size: 77
48064 AAAGATGTTA
* *
48074 ATAATATTTGATTTGAATTTAATATTTTTCTAGACTTAATATTATGGTTCAAGTCTTAAGATTTG
1 ATAATATTTGATTTGAATTT-ATATTATTCTAGACTTAATATTATGGTTCAAGTATTAAGATTTG
48139 ACACTTTAATATT
65 ACACTTTAATATT
* *
48152 ATAAT-TTT-ATTATGAATTT-TATTATTCTAGAGTTAATATTATGGTTTGAA-TATTGAA-ATT
1 ATAATATTTGATT-TGAATTTATATTATTCTAGACTTAATATTATGG-TTCAAGTATT-AAGATT
*
48212 TGACATTTTAAT
63 TGACACTTTAAT
48224 GTTGTTGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
75 40 0.62
76 9 0.14
77 10 0.16
78 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (77 bp):
ATAATATTTGATTTGAATTTATATTATTCTAGACTTAATATTATGGTTCAAGTATTAAGATTTGA
CACTTTAATATT
Found at i:48304 original size:19 final size:20
Alignment explanation
Indices: 48280--48325 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
48270 GTTTGAGTCT
48280 TGATTTTTGACAT-TATTTA
1 TGATTTTTGACATATATTTA
* *
48299 TGATTTTTTATATATATTTA
1 TGATTTTTGACATATATTTA
*
48319 TAATTTT
1 TGATTTT
48326 AAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TGATTTTTGACATATATTTA
Found at i:48407 original size:12 final size:12
Alignment explanation
Indices: 48390--48417 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48380 TTGCCGTTTC
48390 CCGTCCCCGTAT
1 CCGTCCCCGTAT
48402 CCGTCCCCGTAT
1 CCGTCCCCGTAT
48414 CCGT
1 CCGT
48418 ATCCGTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.50, G:0.18, T:0.25
Consensus pattern (12 bp):
CCGTCCCCGTAT
Found at i:50574 original size:14 final size:15
Alignment explanation
Indices: 50518--50571 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 15
50508 TTAGGAGAAT
50518 TTTTATAATATATTTA
1 TTTTATAATA-ATTTA
50534 TCTTTATAATAAATTTA
1 T-TTTATAAT-AATTTA
*
50551 -TTTAAAATAATTTA
1 TTTTATAATAATTTA
50565 TTTTATA
1 TTTTATA
50572 TAACAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 6 0.18
15 12 0.36
16 1 0.03
17 13 0.39
18 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTATAATAATTTA
Found at i:53964 original size:34 final size:34
Alignment explanation
Indices: 53904--53970 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
53894 TTCTTGAGAG
*
53904 TTGTTTTCTCCTTTTTATCAACAGAGAA-TTGTCA
1 TTGTTTTCTCCTTGTTA-CAACAGAGAAGTTGTCA
53938 TTGTTTTCTCCTTGTTA-AATCGAGAGAAGTTGT
1 TTGTTTTCTCCTTGTTACAA-C-AGAGAAGTTGT
53971 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 2 0.07
33 1 0.03
34 22 0.76
35 4 0.14
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTGTTACAACAGAGAAGTTGTCA
Found at i:54505 original size:29 final size:30
Alignment explanation
Indices: 54436--54494 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
54426 CAATTTAAGG
54436 CAAAATGTTTTTGGACTTAAATTGAATTTA
1 CAAAATGTTTTTGGACTTAAATTGAATTTA
*
54466 CAAAATATTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTAAATTGAATTTA
54495 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTAAATTGAATTTA
Found at i:54702 original size:20 final size:20
Alignment explanation
Indices: 54673--54746 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
54663 ATGCACTTAG
*
54673 TGCATTGATGCATCCATCCA
1 TGCATCGATGCATCCATCCA
54693 TGCATCGATGCATCCATCCA
1 TGCATCGATGCATCCATCCA
54713 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCAT-CCA
*
54733 TGCATCCATGCATC
1 TGCATCGATGCATC
54747 AAGGCTGCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 1 0.02
20 50 0.98
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCATCCATCCA
Found at i:54895 original size:20 final size:22
Alignment explanation
Indices: 54857--54896 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
54847 TTTGAGTAGA
54857 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
54879 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
54897 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:63962 original size:2 final size:2
Alignment explanation
Indices: 63955--63990 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
63945 TTAAACAAAT
63955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63991 ATGAACAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66912 original size:14 final size:14
Alignment explanation
Indices: 66895--66971 Score: 57
Period size: 16 Copynumber: 5.0 Consensus size: 14
66885 AAAATAAAAT
66895 AAAATAAGTAATATA
1 AAAATAA-TAATATA
66910 AAAATAATAATA-A
1 AAAATAATAATATA
66923 ATAACGATAATAATAATA
1 A-AA--ATAATAAT-ATA
*
66941 ATAATAAATAAATATA
1 AAAAT-AAT-AATATA
*
66957 AAACTATATAATATA
1 AAAATA-ATAATATA
66972 CATTTTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
13 2 0.04
14 7 0.14
15 16 0.31
16 19 0.37
17 5 0.10
18 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (14 bp):
AAAATAATAATATA
Found at i:66920 original size:3 final size:3
Alignment explanation
Indices: 66882--66947 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
66872 TAAAACGGGA
*
66882 AAT AA- AAT AA- AAT AA- AAT AAGT AAT -AT AAA AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT
* *
66925 AAC GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
66948 ATAAATATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 8 0.16
3 37 0.73
4 6 0.12
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:66924 original size:25 final size:28
Alignment explanation
Indices: 66885--66954 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 28
66875 AACGGGAAAT
66885 AAAATAA-AATAAAATAA-G-TAAT-ATA
1 AAAATAATAAT-AAATAACGATAATAATA
66910 AAAATAATAATAAATAACGATAATAATA
1 AAAATAATAATAAATAACGATAATAATA
*
66938 ATAATAATAAATAAATA
1 AAAATAAT-AATAAATA
66955 TAAAACTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
25 13 0.33
26 4 0.10
27 4 0.10
28 10 0.26
29 8 0.21
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (28 bp):
AAAATAATAATAAATAACGATAATAATA
Found at i:67095 original size:30 final size:31
Alignment explanation
Indices: 67039--67104 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 31
67029 TCTTTTTAAA
67039 AAAAACTATATAATTTTCAAAAAAATATTTTC
1 AAAAACTATATAATTTT-AAAAAAATATTTTC
*
67071 AAAAACTATATAATTTT-TAAAAATATTTTC
1 AAAAACTATATAATTTTAAAAAAATATTTTC
67101 AAAA
1 AAAA
67105 TTATTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 16 0.48
32 17 0.52
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAAACTATATAATTTTAAAAAAATATTTTC
Found at i:67227 original size:37 final size:36
Alignment explanation
Indices: 67077--67306 Score: 212
Period size: 36 Copynumber: 6.2 Consensus size: 36
67067 TTTCAAAAAC
* * * *
67077 TATATA-ATTTTTAAAAATATTTTCAAAATTATTTAT
1 TATATATA-TTTTCAAAATGTTTTAAAAATTATATAT
*
67113 TATATATCAGTTTTCAAGAATGCTTTAAAAAATTATATAT
1 TATATAT-A-TTTTCAA-AATG-TTTTAAAAATTATATAT
**
67153 TATATA-AGTTTTCAAAAAATGATTTTAAAAACCATATAT
1 TATATATA-TTTTC--AAAATG-TTTTAAAAATTATATAT
* *
67192 TATATATTTTTTCTAAAATGTTTTAAAATTTATATAT
1 TATATATATTTTC-AAAATGTTTTAAAAATTATATAT
* * *
67229 CATATATATTTTTAAAATGTTTTCAAAATTATATAT
1 TATATATATTTTCAAAATGTTTTAAAAATTATATAT
* * * *
67265 CATATATATTTTCAAAATGTTTTCAATATTATATAA
1 TATATATATTTTCAAAATGTTTTAAAAATTATATAT
67301 TATATA
1 TATATA
67307 CATATATATT
Statistics
Matches: 163, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
36 65 0.40
37 24 0.15
38 20 0.12
39 32 0.20
40 22 0.13
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (36 bp):
TATATATATTTTCAAAATGTTTTAAAAATTATATAT
Found at i:67690 original size:22 final size:22
Alignment explanation
Indices: 67665--67706 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
67655 TTATCGACGT
* *
67665 TTGATCTTTTTAAATTTAATAA
1 TTGAACTTTATAAATTTAATAA
*
67687 TTGAACTTTATATATTTAAT
1 TTGAACTTTATAAATTTAAT
67707 TTTTTGTCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TTGAACTTTATAAATTTAATAA
Found at i:68810 original size:25 final size:25
Alignment explanation
Indices: 68776--68834 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
68766 AGCCATCTAA
68776 TTTTACATAATGTAAAACTCTTTAG
1 TTTTACATAATGTAAAACTCTTTAG
68801 TTTTACATAATGTAAAACTCTTTAG
1 TTTTACATAATGTAAAACTCTTTAG
68826 TTTTACATA
1 TTTTACATA
68835 GATTTGGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (25 bp):
TTTTACATAATGTAAAACTCTTTAG
Found at i:69290 original size:2 final size:2
Alignment explanation
Indices: 69283--69315 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
69273 TATAGAAAAC
69283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69316 TATTTTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71859 original size:3 final size:3
Alignment explanation
Indices: 71851--71877 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
71841 ACGATTTAGT
71851 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
71878 AACTTGGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:72654 original size:2 final size:2
Alignment explanation
Indices: 72647--72674 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
72637 GTGTTTTCCA
72647 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
72675 TGCATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:78825 original size:42 final size:42
Alignment explanation
Indices: 78756--78848 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
78746 TTCCTCGAAA
* *
78756 TCCCTTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTAGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
78798 TCCCGTGTTAGTTTCACGTAATTCGTTTTCTGGAAAATGTTT
1 TCCCGTGTTAGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
78840 TCCAGTGTT
1 TCCCGTGTT
78849 TGGTTAGAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.46
Consensus pattern (42 bp):
TCCCGTGTTAGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
Found at i:79109 original size:22 final size:22
Alignment explanation
Indices: 79066--79124 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
79056 AATTATTAAA
*
79066 ATATTTAAAAT-ATAT-TTATT
1 ATATTTATAATAATATATTATT
79086 ATATTTATAATAATATATTATT
1 ATATTTATAATAATATATTATT
* *
79108 ATATTTTTAATATTATA
1 ATATTTATAATAATATA
79125 ATAAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 10 0.29
21 4 0.12
22 20 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTATAATAATATATTATT
Found at i:79331 original size:23 final size:23
Alignment explanation
Indices: 79305--79349 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
79295 AATAATATTT
79305 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
79328 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
79350 ATATAACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:79656 original size:14 final size:14
Alignment explanation
Indices: 79637--79681 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
79627 TCAGAAATGC
79637 AATTCATTTTCCAG
1 AATTCATTTTCCAG
**
79651 AATTCAAATTCCAG
1 AATTCATTTTCCAG
*
79665 TAATTCATTTTTCAG
1 -AATTCATTTTCCAG
79680 AA
1 AA
79682 AACAAATTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (14 bp):
AATTCATTTTCCAG
Found at i:85283 original size:7 final size:7
Alignment explanation
Indices: 85271--85302 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
85261 TTTTAAAAAT
85271 ATTTTTA
1 ATTTTTA
85278 ATTTTTA
1 ATTTTTA
85285 A-TTTTA
1 ATTTTTA
85291 A-TTTTA
1 ATTTTTA
85297 ATTTTT
1 ATTTTT
85303 TTATATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:88563 original size:32 final size:33
Alignment explanation
Indices: 88525--88597 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
88515 TCTACATGTG
*
88525 CCATGCACACCCCCAACA-CCCAACACAGGTCG
1 CCATGCACACCCCCAACACCCCAACACAGGTCA
* **
88557 CTATGCACGTCCCCAACACCCCAACACAGGTCA
1 CCATGCACACCCCCAACACCCCAACACAGGTCA
88590 CCATGCAC
1 CCATGCAC
88598 TCCCAGCGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 15 0.43
33 20 0.57
ACGTcount: A:0.30, C:0.48, G:0.12, T:0.10
Consensus pattern (33 bp):
CCATGCACACCCCCAACACCCCAACACAGGTCA
Found at i:88916 original size:26 final size:26
Alignment explanation
Indices: 88887--88944 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
88877 ATATAAAATA
*
88887 AAGAAAGGGAGAAGAGATTGCAGCAG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
* *
88913 AAGAAAAGGAGAAGAAATTGCAGCCG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
88939 -AGAAAG
1 AAGAAAG
88945 AAAGAAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.50, C:0.09, G:0.34, T:0.07
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAAATTGCAGCAG
Found at i:88966 original size:13 final size:13
Alignment explanation
Indices: 88943--88989 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
88933 CAGCCGAGAA
88943 AGAAA-GAAAGGG
1 AGAAAGGAAAGGG
*
88955 AGAAAGGAAAGGA
1 AGAAAGGAAAGGG
*
88968 AGAAGAAGAAAGGG
1 AGAA-AGGAAAGGG
88982 AGATAAGG
1 AGA-AAGG
88990 CTCTTGTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 12 0.43
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
AGAAAGGAAAGGG
Found at i:89115 original size:22 final size:21
Alignment explanation
Indices: 89090--89130 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
89080 GTTAATTAGT
*
89090 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
89112 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
89131 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:89464 original size:16 final size:16
Alignment explanation
Indices: 89432--89478 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
89422 TTTAAAAAGT
*
89432 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
89448 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
89464 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
89479 AAGTTTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:89473 original size:15 final size:14
Alignment explanation
Indices: 89453--89483 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
89443 GTTTATTAGT
89453 TTATTATATTATAAG
1 TTATTATATTA-AAG
89468 TTATTATATTAAAG
1 TTATTATATTAAAG
89482 TT
1 TT
89484 TTGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:91647 original size:14 final size:14
Alignment explanation
Indices: 91613--91674 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
91603 TTTTAGTATC
*
91613 AAATCATTATTATA
1 AAATCATTACTATA
**
91627 ATTTCATTACTATA
1 AAATCATTACTATA
91641 AAATCATTAC--T-
1 AAATCATTACTATA
* *
91652 AAATCATTAATATC
1 AAATCATTACTATA
91666 AAATCATTA
1 AAATCATTA
91675 AATATTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.23
12 1 0.03
13 1 0.03
14 28 0.72
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATCATTACTATA
Found at i:91682 original size:21 final size:21
Alignment explanation
Indices: 91651--91912 Score: 83
Period size: 21 Copynumber: 12.6 Consensus size: 21
91641 AAATCATTAC
91651 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATCAT
* *
91673 TAAATATTAATAATAAATTATTAT
1 TAAATATTAAT-ATCAA--ATCAT
*
91697 TACTAATCATTACTATCAAATCAT
1 TA--AAT-ATTAATATCAAATCAT
*
91721 TAAAAATTAATA--ATAAT--T
1 TAAATATTAATATCA-AATCAT
* * * * *
91739 TCATTATTACTAATC--ATTAC
1 TAAATATTAAT-ATCAAATCAT
91759 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATCAT
*
91781 TAAATATTAATAAT-AATTTCAT
1 TAAATATTAAT-ATCAA-ATCAT
* * *
91803 T-ATTATT-A-ATC--ATTAC
1 TAAATATTAATATCAAATCAT
*
91819 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTAATATCAAATCAT
91841 TAAATATTAATA--ATAAT--T
1 TAAATATTAATATCA-AATCAT
* * * * *
91859 TTATTATTACTAATC--ATTAC
1 TAAATATTAAT-ATCAAATCAT
91879 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATCAT
91901 TAAATATTAATA
1 TAAATATTAATA
91913 ATAATTTCAT
Statistics
Matches: 171, Mismatches: 36, Indels: 67
0.62 0.13 0.24
Matches are distributed among these distances:
16 3 0.02
17 2 0.01
18 26 0.15
19 4 0.02
20 22 0.13
21 48 0.28
22 42 0.25
24 12 0.07
26 7 0.04
27 5 0.03
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATCAAATCAT
Found at i:91714 original size:48 final size:49
Alignment explanation
Indices: 91646--91760 Score: 187
Period size: 48 Copynumber: 2.3 Consensus size: 49
91636 CTATAAAATC
* *
91646 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAAATTCATT
*
91695 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTCATT
91744 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
91761 AATCATTAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 36 0.58
49 26 0.42
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:91948 original size:21 final size:21
Alignment explanation
Indices: 91744--91948 Score: 71
Period size: 21 Copynumber: 10.2 Consensus size: 21
91734 TAATTTCATT
*
91744 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
* *
91765 ATTAAT-ATCAAATCATTAAAT-
1 ATTAATAATC--ATTACTAAATC
* * *
91786 ATTAATAATAATT--T-CATT
1 ATTAATAATCATTACTAAATC
*
91804 ATTATTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
* * *
91825 ATTACT-ATCAAATCATTAAAT-
1 ATTAATAATC--ATTACTAAATC
* * *
91846 ATTAATAATAATT--T-TATT
1 ATTAATAATCATTACTAAATC
*
91864 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
* *
91885 ATTAAT-ATCAAATCATTAAAT-
1 ATTAATAATC--ATTACTAAATC
* * *
91906 ATTAATAATAATT--T-CATT
1 ATTAATAATCATTACTAAATC
*
91924 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
91945 ATTA
1 ATTA
91949 TTATAGTTTC
Statistics
Matches: 132, Mismatches: 31, Indels: 42
0.64 0.15 0.20
Matches are distributed among these distances:
17 6 0.05
18 36 0.27
20 18 0.14
21 42 0.32
22 30 0.23
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTAATAATCATTACTAAATC
Found at i:91962 original size:60 final size:60
Alignment explanation
Indices: 91695--91948 Score: 456
Period size: 60 Copynumber: 4.2 Consensus size: 60
91685 ATAAATTATT
* *
91695 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
91754 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTATTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* *
91814 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
91874 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
91934 ATTACTAAATCATTA
1 ATTACTAAATCATTA
91949 TTATAGTTTC
Statistics
Matches: 186, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
59 6 0.03
60 180 0.97
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:92055 original size:14 final size:14
Alignment explanation
Indices: 92022--92070 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
92012 TTCAAGTCGT
*
92022 AAATCATTACTATC
1 AAATCATTAATATC
* *
92036 AAATTATT-GT-T-
1 AAATCATTAATATC
92047 AAATCATTAATATC
1 AAATCATTAATATC
92061 AAATCATTAA
1 AAATCATTAA
92071 ATATTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 7 0.25
12 2 0.07
13 2 0.07
14 17 0.61
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:92103 original size:48 final size:48
Alignment explanation
Indices: 92036--92152 Score: 175
Period size: 48 Copynumber: 2.5 Consensus size: 48
92026 CATTACTATC
* *
92036 AAATTATTGTTA--AATCATTAATATCAAATCATTAAATATTAATAAT
1 AAATTATTATTACTAATCATTAATATCAAATCATTAAAAATTAATAAT
*
92082 AAATTATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAAT
1 AAATTATTATTACTAATCATTAATATCAAATCATTAAAAATTAATAAT
*
92130 AATTTCATTATTACTAATCATTA
1 AAATT-ATTATTACTAATCATTA
92153 CTAAATCATT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
46 11 0.17
48 36 0.56
49 17 0.27
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (48 bp):
AAATTATTATTACTAATCATTAATATCAAATCATTAAAAATTAATAAT
Found at i:92169 original size:60 final size:60
Alignment explanation
Indices: 92090--92283 Score: 354
Period size: 60 Copynumber: 3.2 Consensus size: 60
92080 ATAAATTATT
* *
92090 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
92149 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
92209 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
92269 ATTACTAATTCATTA
1 ATTACTAAATCATTA
92284 TTATAATTTC
Statistics
Matches: 131, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
59 6 0.05
60 125 0.95
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:92277 original size:25 final size:24
Alignment explanation
Indices: 92253--92300 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
92243 TAATAATAAT
92253 TTCATTATTACTAA-TCATTACTAA
1 TTCATTATTA-TAATTCATTACTAA
92277 TTCATTATTATAATTTCATTACTA
1 TTCATTATTATAA-TTCATTACTA
92301 GTTATGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 10 0.45
25 9 0.41
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (24 bp):
TTCATTATTATAATTCATTACTAA
Found at i:92371 original size:335 final size:335
Alignment explanation
Indices: 91692--92941 Score: 2114
Period size: 335 Copynumber: 3.7 Consensus size: 335
91682 ATAATAAATT
* *
91692 ATTATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
1 ATTATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-A----A--ATTA-T--T-AT
* * *
91756 TACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTATTAATCATTACTA
55 TACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTA
* *
91821 AATCATTACTATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCA
119 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCA
91886 TTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATT
184 TTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATT
* *
91951 ATAGTTTCATTACTAGTTATGTAACGAAAATATGATTAATTGAACCAAACATTGTTCATTGTTCA
249 ATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTGTTCA
92016 AGTCGTAAATCATTACTATCAA
314 AGTCGTAAATCATTACTATCAA
**
92038 ATTATTGTTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
1 ATTATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
92103 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
66 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
92168 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
131 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
*
92233 CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAATTCATTATTATAATTTCATTA
196 CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTATAATTTCATTA
92298 CTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTGTTCAAGTCGTAAATCA
261 CTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTGTTCAAGTCGTAAATCA
92363 TTACTATCAA
326 TTACTATCAA
*
92373 ATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
1 ATTATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
92438 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
66 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
92503 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
131 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
92568 CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTATAATTTCATTA
196 CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTATAATTTCATTA
* *
92633 CTAGTTA--T---G------TGGTTAATTGAACCAAACATTGTTCATTGTTTAAGTCATAAATCA
261 CTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTGTTCAAGTCGTAAATCA
*
92687 TTAATATCAA
326 TTACTATCAA
*
92697 A-TAATACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
1 ATTATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
*
92761 ACTATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATAT
66 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
*
92826 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAAT
131 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
*
92891 CATTAAATATTAATAATAATTTCATCATTACTAATCATTACTAAATC-TTAT
196 CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAT
92942 AAATACATAG
Statistics
Matches: 879, Mismatches: 24, Indels: 26
0.95 0.03 0.03
Matches are distributed among these distances:
322 4 0.00
323 235 0.27
324 53 0.06
330 1 0.00
333 1 0.00
335 532 0.61
336 6 0.01
337 1 0.00
339 1 0.00
340 4 0.00
342 1 0.00
346 8 0.01
347 32 0.04
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (335 bp):
ATTATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATT
ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAAT
CATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTATAATTTCATTA
CTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTGTTCAAGTCGTAAATCA
TTACTATCAA
Found at i:92376 original size:14 final size:14
Alignment explanation
Indices: 92357--92404 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
92347 TTCAAGTCGT
92357 AAATCATTACTATC
1 AAATCATTACTATC
92371 AAATCATTAC--T-
1 AAATCATTACTATC
*
92382 AAATCATTAATATC
1 AAATCATTACTATC
92396 AAATCATTA
1 AAATCATTA
92405 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:92438 original size:48 final size:49
Alignment explanation
Indices: 92376--92487 Score: 181
Period size: 48 Copynumber: 2.3 Consensus size: 49
92366 CTATCAAATC
*
92376 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
92425 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
92474 ATTACTAATCATTA
1 ATTACTAATCATTA
92488 CTAAATCATT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 36 0.61
49 23 0.39
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:92504 original size:60 final size:60
Alignment explanation
Indices: 92425--92618 Score: 363
Period size: 60 Copynumber: 3.2 Consensus size: 60
92415 ATAAATTATT
* *
92425 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
92484 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
92544 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
92604 ATTACTAAATCATTA
1 ATTACTAAATCATTA
92619 TTATAATTTC
Statistics
Matches: 132, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
59 6 0.05
60 126 0.95
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:92618 original size:21 final size:21
Alignment explanation
Indices: 92474--92618 Score: 67
Period size: 21 Copynumber: 7.2 Consensus size: 21
92464 TAATTTCATT
*
92474 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
* *
92495 ATTAAT-ATCAAATCATTAAAT-
1 ATTAATAATC--ATTACTAAATC
* * *
92516 ATTAATAATAATT--T-CATT
1 ATTAATAATCATTACTAAATC
*
92534 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
* *
92555 ATTAAT-ATCAAATCATTAAAT-
1 ATTAATAATC--ATTACTAAATC
* * *
92576 ATTAATAATAATT--T-CATT
1 ATTAATAATCATTACTAAATC
*
92594 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
92615 ATTA
1 ATTA
92619 TTATAATTTC
Statistics
Matches: 90, Mismatches: 20, Indels: 28
0.65 0.14 0.20
Matches are distributed among these distances:
17 4 0.04
18 24 0.27
20 12 0.13
21 30 0.33
22 20 0.22
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAATAATCATTACTAAATC
Found at i:92707 original size:24 final size:22
Alignment explanation
Indices: 92680--92785 Score: 83
Period size: 24 Copynumber: 4.6 Consensus size: 22
92670 GTTTAAGTCA
92680 TAAATCATTAATATCAAATAAT
1 TAAATCATTAATATCAAATAAT
*
92702 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATAAT
92726 TAAAT-ATTAATAAT-AAATTATTAT
1 TAAATCATTAAT-ATCAAA-TA--AT
* *
92750 TACTAATCATTACTATCAAATCAT
1 TA--AATCATTAATATCAAATAAT
*
92774 TAAA-AATTAATA
1 TAAATCATTAATA
92786 ATAATTTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
21 15 0.22
22 10 0.15
24 29 0.43
26 6 0.09
27 8 0.12
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATATCAAATAAT
Found at i:92715 original size:14 final size:14
Alignment explanation
Indices: 92681--92728 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
92671 TTTAAGTCAT
92681 AAATCATTAATATC
1 AAATCATTAATATC
92695 -AA--A-TAATA-C
1 AAATCATTAATATC
92704 TAAATCATTAATATC
1 -AAATCATTAATATC
92719 AAATCATTAA
1 AAATCATTAA
92729 ATATTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
9 1 0.04
10 5 0.18
11 3 0.11
13 3 0.11
14 15 0.54
15 1 0.04
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:92799 original size:49 final size:48
Alignment explanation
Indices: 92701--92813 Score: 181
Period size: 48 Copynumber: 2.3 Consensus size: 48
92691 TATCAAATAA
* *
92701 TACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTAT
1 TACT-AATCATTACTATCAAATCATTAAAAATTAATAATAAATTATTAT
*
92750 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTTATTAT
1 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAA-ATTATTAT
92799 TACTAATCATTACTA
1 TACTAATCATTACTA
92814 AATCATTAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 34 0.57
49 26 0.43
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.42
Consensus pattern (48 bp):
TACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTATTAT
Found at i:92827 original size:60 final size:60
Alignment explanation
Indices: 92748--92937 Score: 337
Period size: 60 Copynumber: 3.2 Consensus size: 60
92738 ATAAATTATT
* *
92748 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
92807 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
92867 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
92927 ATTACTAAATC
1 ATTACTAAATC
92938 TTATAAATAC
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
59 6 0.05
60 119 0.95
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:92881 original size:21 final size:21
Alignment explanation
Indices: 92797--92937 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
92787 TAATTTTATT
92797 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
92818 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
92839 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
92857 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* *
92878 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * *
92899 ATTAATAATAATT--T-CATC
1 ATTACTAATCATTACTAAATC
92917 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
92938 TTATAAATAC
Statistics
Matches: 87, Mismatches: 19, Indels: 28
0.65 0.14 0.21
Matches are distributed among these distances:
17 4 0.05
18 24 0.28
20 12 0.14
21 27 0.31
22 20 0.23
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:96008 original size:20 final size:20
Alignment explanation
Indices: 95983--96052 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
95973 GCGAAGTTCG
95983 CGTTGCGATTCATTCCAAAT
1 CGTTGCGATTCATTCCAAAT
* * *
96003 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAA-AT
96022 CGCGTTGCGATTCATTCCAAAT
1 --CGTTGCGATTCATTCCAAAT
*
96044 CATTGCGAT
1 CGTTGCGAT
96053 AGGCAAAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 16 0.42
21 8 0.21
22 2 0.05
23 5 0.13
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAAAT
Found at i:96019 original size:41 final size:41
Alignment explanation
Indices: 95924--96218 Score: 455
Period size: 41 Copynumber: 7.1 Consensus size: 41
95914 GATTCGCAAC
* * *
95924 GCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
95966 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
96007 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCATT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* * *
96048 GCGATAGGCAAAGTTCGCGTTGCGATTCATTCTAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
96089 ACGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
96130 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCATT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
*
96172 GTGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
96214 GCGAT
1 GCGAT
96219 TCATTCCAAA
Statistics
Matches: 233, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 152 0.65
42 81 0.35
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (41 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
Found at i:96072 original size:21 final size:21
Alignment explanation
Indices: 96046--96155 Score: 70
Period size: 21 Copynumber: 5.3 Consensus size: 21
96036 TTCCAAATCA
*
96046 TTGCGATAGGCAAAGTTCGCG
1 TTGCGATAGGCGAAGTTCGCG
** *
96067 TTGCGATTCATTCTAA-TT--CG
1 TTGCGA-T-AGGCGAAGTTCGCG
*
96087 TTACGATAGGCGAAGTTCGCG
1 TTGCGATAGGCGAAGTTCGCG
** *
96108 TTGCGATTCATTCCAA-TT--CG
1 TTGCGA-T-AGGCGAAGTTCGCG
96128 TTGCGATAGGCGAAGTTCGCG
1 TTGCGATAGGCGAAGTTCGCG
96149 TTGCGAT
1 TTGCGAT
96156 TCATTCCAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
18 8 0.12
19 6 0.09
20 15 0.23
21 22 0.34
22 6 0.09
23 8 0.12
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGCGATAGGCGAAGTTCGCG
Found at i:96247 original size:19 final size:21
Alignment explanation
Indices: 96189--96248 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
96179 GCGAAGTTCG
* *
96189 CGTTGCGATTCATTCCAAATT
1 CGTTGCGAATCAGTCCAAATT
* *
96210 CGTTGCGATTCATTCCAAATT
1 CGTTGCGAATCAGTCCAAATT
96231 CGTTGC-AAT-AGTCCAAAT
1 CGTTGCGAATCAGTCCAAAT
96249 ATTGCATTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.22
20 2 0.05
21 27 0.73
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (21 bp):
CGTTGCGAATCAGTCCAAATT
Found at i:97771 original size:23 final size:23
Alignment explanation
Indices: 97745--97805 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
97735 CTCATATAAA
*
97745 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
97768 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
97791 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
97806 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:97992 original size:103 final size:103
Alignment explanation
Indices: 97821--98141 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
97811 TAATGTCCAT
97821 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
97886 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
97924 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
97989 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
98027 AATGACCACATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
98092 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
98130 AAGGACCACATA
1 AAGGACCACATA
98142 GACTCTCGAC
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:100281 original size:21 final size:20
Alignment explanation
Indices: 100252--100290 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
100242 TTTTTTCCAC
100252 TCTTATAAAAGGAAAAAAATA
1 TCTTAT-AAAGGAAAAAAATA
*
100273 TCTTTTAAAGGAAAAAAA
1 TCTTATAAAGGAAAAAAA
100291 CCATAATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (20 bp):
TCTTATAAAGGAAAAAAATA
Found at i:102983 original size:23 final size:23
Alignment explanation
Indices: 102957--103017 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
102947 CTCATATAAA
102957 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
102980 TGCACC-ATAGTGCCGCGTAGAAT
1 TGCACCGA-AGTGCCACATAGAAT
*
103003 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
103018 TATAATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:109294 original size:21 final size:23
Alignment explanation
Indices: 109265--109325 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
109255 TGGTGCAGAT
* *
109265 GGAATCGATCCCCCCCATG-A-G
1 GGAACCGATTCCCCCCATGAATG
**
109286 GGAACCGATTCCCCCTTTGAATG
1 GGAACCGATTCCCCCCATGAATG
109309 GGAACCGATTCCCCCCA
1 GGAACCGATTCCCCCCA
109326 CAGGGGAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 15 0.47
22 1 0.03
23 16 0.50
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.18
Consensus pattern (23 bp):
GGAACCGATTCCCCCCATGAATG
Found at i:111597 original size:11 final size:11
Alignment explanation
Indices: 111568--111600 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
111558 GGAGAGAAGT
*
111568 GTGTGTTGTAA
1 GTGTGTTTTAA
111579 GTGTGTTTTAA
1 GTGTGTTTTAA
111590 GTGTGTTTTAA
1 GTGTGTTTTAA
111601 AATGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (11 bp):
GTGTGTTTTAA
Found at i:112926 original size:103 final size:103
Alignment explanation
Indices: 112747--112951 Score: 383
Period size: 103 Copynumber: 2.0 Consensus size: 103
112737 TAACTCAACA
*
112747 CATTCCTTAAGAATCATATACATATACTAGGGATCAATTATGTGTCTCACCAGACTTCACACATG
1 CATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATG
*
112812 TTCCAAAGAATACATATATGTCCCGAAGGACCACATAT
66 TTCCAAAGAATACATATATGTCCCAAAGGACCACATAT
*
112850 CATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACGTG
1 CATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATG
112915 TTCCAAAGAATACATATATGTCCCAAAGGACCACATA
66 TTCCAAAGAATACATATATGTCCCAAAGGACCACATA
112952 GACCCTCGAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
CATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATG
TTCCAAAGAATACATATATGTCCCAAAGGACCACATAT
Found at i:115374 original size:20 final size:20
Alignment explanation
Indices: 115349--115418 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
115339 AACTTCGCCT
115349 ATCGCAACGAATTGGAATGA
1 ATCGCAACGAATTGGAATGA
* **
115369 ATCGCAATGCGAACTTCGCCT--
1 ATCGCAA--CGAA-TTGGAATGA
115390 ATCGCAACGAATTGGAATGA
1 ATCGCAACGAATTGGAATGA
115410 ATCGCAACG
1 ATCGCAACG
115419 CGAACTTCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 16 0.41
21 7 0.18
22 4 0.10
23 4 0.10
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAATTGGAATGA
Found at i:115381 original size:41 final size:41
Alignment explanation
Indices: 115305--115435 Score: 226
Period size: 41 Copynumber: 3.2 Consensus size: 41
115295 AATATTTGGA
*
115305 CTATCGCAACGAATTTGGAATGAATCGTAACGCGAACTTCGC
1 CTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
*
115347 CTATCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGC
1 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
*
115388 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGA
1 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
115429 CTATCGC
1 CTATCGC
115436 GTTGCGAATC
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
41 72 0.85
42 13 0.15
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGC
Found at i:116299 original size:28 final size:30
Alignment explanation
Indices: 116259--116320 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
116249 ATTTTTTATA
116259 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
116289 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
116317 TAAT
1 TAAT
116321 TAACTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:116862 original size:29 final size:29
Alignment explanation
Indices: 116829--116911 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
116819 TCCTAAGCTT
* * *
116829 GGTCGCCGGGACTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
***
116858 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
116887 GGTCGCTGGGAGTGCATGGCGACCT
1 GGTCGCTGGGAGTGCATGGCGACCT
116912 GTGTTGGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.14, C:0.25, G:0.40, T:0.20
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCATGGCGACCTACAA
Found at i:116940 original size:33 final size:32
Alignment explanation
Indices: 116865--116971 Score: 134
Period size: 32 Copynumber: 3.4 Consensus size: 32
116855 CAAGGTCGCT
* *
116865 GGGA-GTGCATGGCGACCT-TG-TAGGTCGCT-
1 GGGACGTGCATGGCGACCTGTGTTGGGT-GTTG
116894 GGGA-GTGCATGGCGACCTGTGTTGGGGTGTTG
1 GGGACGTGCATGGCGACCTGTGTT-GGGTGTTG
116926 GGGACGTGCATGGCGACCTGTGTTGGGTGTTG
1 GGGACGTGCATGGCGACCTGTGTTGGGTGTTG
*
116958 GGGACTTGCATGGC
1 GGGACGTGCATGGC
116972 ACATGTAGAC
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
29 18 0.26
30 2 0.03
31 3 0.04
32 28 0.40
33 19 0.27
ACGTcount: A:0.11, C:0.17, G:0.46, T:0.26
Consensus pattern (32 bp):
GGGACGTGCATGGCGACCTGTGTTGGGTGTTG
Found at i:117699 original size:23 final size:23
Alignment explanation
Indices: 117654--117699 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
117644 TATTTATTAT
* *
117654 TTTTTTAATAATATAATACTATA
1 TTTTTTAATAATATAACAATATA
**
117677 TTTTTTAATGTTATAACAATATA
1 TTTTTTAATAATATAACAATATA
117700 CCCAATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTTTAATAATATAACAATATA
Found at i:118045 original size:14 final size:14
Alignment explanation
Indices: 118001--118047 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
117991 AAAATTGTAG
*
118001 AAATAATATTTTAAT
1 AAATAATA-TTAAAT
*
118016 -AATAATATTGACAT
1 AAATAATATT-AAAT
118030 AAATAATATTAAAT
1 AAATAATATTAAAT
118044 AAAT
1 AAAT
118048 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.07
14 16 0.59
15 9 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AAATAATATTAAAT
Found at i:123644 original size:75 final size:75
Alignment explanation
Indices: 123565--123715 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
123555 AAAACTTGAG
123565 GATTATTTTAAAATGAAAGTACTAATTTAAGGATGAAATTGAAATATTCAAAATTATCAAAATAT
1 GATTATTTTAAAATGAAAGTACTAATTTAAGGATGAAATTGAAATATTCAAAATTATCAAAATAT
123630 GACACATGTC
66 GACACATGTC
123640 GATTATTTTAAAATGAAAGTACTAATTTAAGGATGAAATTGAAATATTCAAAATTATCAAAATAT
1 GATTATTTTAAAATGAAAGTACTAATTTAAGGATGAAATTGAAATATTCAAAATTATCAAAATAT
123705 GACACATGTC
66 GACACATGTC
123715 G
1 G
123716 CTTAACAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (75 bp):
GATTATTTTAAAATGAAAGTACTAATTTAAGGATGAAATTGAAATATTCAAAATTATCAAAATAT
GACACATGTC
Found at i:123835 original size:30 final size:29
Alignment explanation
Indices: 123782--123839 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
123772 GTAACGTTAG
* * *
123782 ATACCTAGATTGACAAAAATATAATTTAA
1 ATACCTAAATAGAAAAAAATATAATTTAA
123811 ATACCTAAATAGAAAAATAATATAATTTA
1 ATACCTAAATAGAAAAA-AATATAATTTA
123840 TGCGCTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (29 bp):
ATACCTAAATAGAAAAAAATATAATTTAA
Found at i:134148 original size:93 final size:93
Alignment explanation
Indices: 133986--134176 Score: 301
Period size: 93 Copynumber: 2.1 Consensus size: 93
133976 TTTGAACTGC
** * * *
133986 TAGAAAAGTCGATCAAGGAAACTTCAACAATCTCCTCTGGTCACATCGTCTTCTAGCAATTAAAA
1 TAGAAAAGTCGATCAAGGAAACCACAACAACCTCCTCTGATCACATCATCTTCTAGCAATTAAAA
134051 GTCATCCTCATCCAGGATCCATCAAATG
66 GTCATCCTCATCCAGGATCCATCAAATG
* * * *
134079 TAGAAAAGTCGATCAAGGAAACCACGACAACCTCCTCTGATCACGTCATCTTCTAGCAATTCAAT
1 TAGAAAAGTCGATCAAGGAAACCACAACAACCTCCTCTGATCACATCATCTTCTAGCAATTAAAA
134144 GTCATCCTCATCCAGGATCCATCAAATG
66 GTCATCCTCATCCAGGATCCATCAAATG
134172 TAGAA
1 TAGAA
134177 GGTCTATGCG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (93 bp):
TAGAAAAGTCGATCAAGGAAACCACAACAACCTCCTCTGATCACATCATCTTCTAGCAATTAAAA
GTCATCCTCATCCAGGATCCATCAAATG
Found at i:140133 original size:2 final size:2
Alignment explanation
Indices: 140126--140150 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
140116 AGTAATTCAT
140126 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
140151 TGAATACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:143931 original size:2 final size:2
Alignment explanation
Indices: 143924--143961 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
143914 TAATACAACT
143924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143962 GGATAAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:146446 original size:2 final size:2
Alignment explanation
Indices: 146439--146464 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
146429 ATAGAAAAAC
146439 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
146465 GTTAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:155171 original size:21 final size:22
Alignment explanation
Indices: 155142--155182 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
155132 ATGTGATCAC
*
155142 AAATTATTT-GAATTCAGTTAA
1 AAATAATTTCGAATTCAGTTAA
*
155163 AAATAATTTCTAATTCAGTT
1 AAATAATTTCGAATTCAGTT
155183 CGATCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
AAATAATTTCGAATTCAGTTAA
Found at i:155265 original size:2 final size:2
Alignment explanation
Indices: 155258--155298 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
155248 CTTGCTTTTA
* *
155258 AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT A- 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
155299 TAGTATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:163445 original size:13 final size:13
Alignment explanation
Indices: 163427--163460 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
163417 ACAAATGAAC
163427 GAACATAATAAAT
1 GAACATAATAAAT
163440 GAACATAATAAAT
1 GAACATAATAAAT
163453 GAACATAA
1 GAACATAA
163461 ACGAATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (13 bp):
GAACATAATAAAT
Done.