Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008592.1 Hibiscus syriacus cultivar Beakdansim tig00111541_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: 876692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 4
Found at i:4129 original size:33 final size:33
Alignment explanation
Indices: 4087--4151 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4077 AAGTCACCCT
4087 TTACCTAAATTTTATGTAATAAAATATATATAC
1 TTACCTAAATTTTATGTAATAAAATATATATAC
*
4120 TTACCTAAATTTTATGTAATAATATATATATA
1 TTACCTAAATTTTATGTAATAAAATATATATA
4152 TATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (33 bp):
TTACCTAAATTTTATGTAATAAAATATATATAC
Found at i:4148 original size:2 final size:2
Alignment explanation
Indices: 4141--4171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4131 TTATGTAATA
4141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4172 AAGTGATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10586 original size:16 final size:17
Alignment explanation
Indices: 10551--10588 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
10541 TAAACTTTTA
*
10551 ATTTTATAATTAATATT
1 ATTTTAAAATTAATATT
*
10568 ATTTTAAAATTTA-ATT
1 ATTTTAAAATTAATATT
10584 ATTTT
1 ATTTT
10589 TACATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAAAATTAATATT
Found at i:20875 original size:16 final size:16
Alignment explanation
Indices: 20834--20875 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
20824 TTAAACAAGT
*
20834 GACCGGTTAAAATTTA
1 GACCGGTTATAATTTA
20850 GACCGGTTATAATTTA
1 GACCGGTTATAATTTA
20866 GACCGGTTAT
1 GACCGGTTAT
20876 GTTATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (16 bp):
GACCGGTTATAATTTA
Found at i:20937 original size:23 final size:23
Alignment explanation
Indices: 20911--20958 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20901 ATAAAGTACA
*
20911 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
20934 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
20957 AT
1 AT
20959 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:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:21363 original size:21 final size:20
Alignment explanation
Indices: 21333--21386 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
21323 GATAGACACT
*
21333 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
21354 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
21377 TTACATTATA
1 TTACATTATA
21387 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:21374 original size:23 final size:23
Alignment explanation
Indices: 21348--21410 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
21338 ATATAACCAT
21348 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
21371 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
21394 TACCTATTACATCATAT
1 TACCTATTACATTATAT
21411 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:24274 original size:184 final size:184
Alignment explanation
Indices: 23965--24818 Score: 1586
Period size: 184 Copynumber: 4.7 Consensus size: 184
23955 TTTTAAATGG
** *
23965 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACCGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
24030 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
24095 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
** *
24149 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACCGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
24214 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
24279 GATGTGTAAAATGTCGACAC-TTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
24332 TATGGACATAAAGTACCGACACAATATTAAAAA-TGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
24396 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
24461 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
24515 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
24580 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
24645 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
24699 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
24764 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
24819 ATGTTGAAAG
Statistics
Matches: 658, Mismatches: 10, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
182 112 0.17
183 128 0.19
184 418 0.64
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
Found at i:26187 original size:3 final size:3
Alignment explanation
Indices: 26179--26229 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
26169 ACTTGTTTGG
* * * *
26179 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
26227 ATC
1 ATC
26230 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:26196 original size:12 final size:12
Alignment explanation
Indices: 26179--26241 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
26169 ACTTGTTTGG
26179 ATCATCATCTTC
1 ATCATCATCTTC
*
26191 ATCATCATCGTC
1 ATCATCATCTTC
*
26203 ATCATCATCATC
1 ATCATCATCTTC
*
26215 ATCGTCATCTTC
1 ATCATCATCTTC
* *
26227 ATCGTCAGCTTC
1 ATCATCATCTTC
26239 ATC
1 ATC
26242 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:26240 original size:18 final size:18
Alignment explanation
Indices: 26183--26244 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
26173 GTTTGGATCA
26183 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
26201 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
26219 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
26237 TCATCTTC
1 TCATCTTC
26245 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:26244 original size:6 final size:6
Alignment explanation
Indices: 26183--26244 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
26173 GTTTGGATCA
* * * * * *
26183 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
26231 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
26245 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:28573 original size:199 final size:200
Alignment explanation
Indices: 27701--29120 Score: 2552
Period size: 199 Copynumber: 7.1 Consensus size: 200
27691 TTTAAATTAG
* *
27701 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
27766 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
27831 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-A
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
27895 AAAAA
196 AAAAA
27900 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
27965 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ***
28030 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
28092 AAAAA
196 AAAAA
28097 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
28162 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
28227 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
*
28290 TAAAA
196 AAAAA
28295 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
28360 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
28425 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
28489 AAAAA
196 AAAAA
28494 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
28559 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
28624 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
28689 AAAAA
196 AAAAA
28694 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
28759 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
28824 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
28887 AAAAA
196 AAAAA
28892 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
28957 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
29022 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
*
29087 TAAAA
196 AAAAA
*
29092 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
29121 TGACCCTTAA
Statistics
Matches: 1167, Mismatches: 46, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
196 4 0.00
197 196 0.17
198 334 0.29
199 429 0.37
200 204 0.17
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAA
Found at i:29227 original size:37 final size:38
Alignment explanation
Indices: 29186--29265 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
29176 TCTCATTCAT
*
29186 AATTAT-ATTCACATAAAAAAATATAAATCGTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
** * * *
29223 AATTATAAATCGTATACAAAATTATAAATCTTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
29261 AATTA
1 AATTA
29266 ACTCGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTATAAATCACATAAAAAAATATAAATCGTATACAA
Found at i:29229 original size:19 final size:19
Alignment explanation
Indices: 29202--29265 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
29192 ATTCACATAA
*
29202 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
29221 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
29240 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
29259 AAAATTA
1 AAAATTA
29266 ACTCGACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:31093 original size:33 final size:33
Alignment explanation
Indices: 31056--31121 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
31046 CATCTTAATA
*
31056 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
31089 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
31122 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:33259 original size:24 final size:24
Alignment explanation
Indices: 33222--33274 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33212 CCGTTCTATC
33222 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
33246 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
33270 TATTT
1 TATTT
33275 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:33610 original size:20 final size:20
Alignment explanation
Indices: 33583--33629 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33573 ACACTTTTAA
33583 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
33602 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
33623 TTTTACC
1 TTTTACC
33630 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:43290 original size:14 final size:14
Alignment explanation
Indices: 43251--43290 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
43241 ATCTCATGAT
43251 CTATTCAAGTCGAA
1 CTATTCAAGTCGAA
*
43265 CT-TTCAAATCGAA
1 CTATTCAAGTCGAA
43278 CTATTCAAGTCGA
1 CTATTCAAGTCGA
43291 TTTCCTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (14 bp):
CTATTCAAGTCGAA
Found at i:44658 original size:31 final size:32
Alignment explanation
Indices: 44611--44671 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
44601 TGATTTTGAA
44611 AAAAATGAAAGTTTAAAAACTAAA-ACATACC
1 AAAAATGAAAGTTTAAAAACTAAATACATACC
* * *
44642 AAAACTGATAGTTTAAATACTAAATACATA
1 AAAAATGAAAGTTTAAAAACTAAATACATA
44672 ATTTACTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (32 bp):
AAAAATGAAAGTTTAAAAACTAAATACATACC
Found at i:51866 original size:4 final size:4
Alignment explanation
Indices: 51857--51888 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
51847 CAGTGAGCAA
*
51857 ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
51889 GAAGGAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:62742 original size:4 final size:4
Alignment explanation
Indices: 62735--62761 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
62725 AAAAAAAGCA
62735 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
62762 ATAAGCTACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:68612 original size:12 final size:13
Alignment explanation
Indices: 68582--68611 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
68572 ACATTAAGAT
*
68582 TTTTTATATAATA
1 TTTTTAAATAATA
68595 TTTTTAAATAATA
1 TTTTTAAATAATA
68608 TTTT
1 TTTT
68612 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTAAATAATA
Found at i:69236 original size:60 final size:60
Alignment explanation
Indices: 69124--69290 Score: 183
Period size: 60 Copynumber: 2.8 Consensus size: 60
69114 GTATATACGT
* * * *
69124 ATAGTTT-GAGATGAAATTGGAATATTCAAAAAGTTTACGGACCAATTCAGAATGAAAGTC
1 ATAGTTTAGGGATGAAATTGAAATATT-TAAAAGTTTAAGGACCAATTCAGAATGAAAGTC
* * ** * *
69184 ATGGTTTGGGGATGAAATTGAAATATTTAAAAGTTTAAGGATTAATTTAGAATGATAGTC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAAGGACCAATTCAGAATGAAAGTC
* * * * *
69244 ATAGTTTAGGGATTAATTTGAAACATTTGAAAGTTTAAAGACCAATT
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAAGGACCAATT
69291 TAAAGTGGAT
Statistics
Matches: 88, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 71 0.81
61 17 0.19
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (60 bp):
ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAAGGACCAATTCAGAATGAAAGTC
Found at i:69895 original size:18 final size:19
Alignment explanation
Indices: 69872--69909 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
69862 AAACAACCGA
*
69872 AAAAATGTCA-AAAAGTAT
1 AAAAATGTCATAAAAATAT
69890 AAAAATGTCATAAAAATAT
1 AAAAATGTCATAAAAATAT
69909 A
1 A
69910 TGAAAACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
AAAAATGTCATAAAAATAT
Found at i:74221 original size:182 final size:178
Alignment explanation
Indices: 73887--74246 Score: 652
Period size: 182 Copynumber: 2.0 Consensus size: 178
73877 TCGAAACCTT
73887 GTCAATTGAACATATGATCATCGTCTCGAATCATTGCAAATTCAAATGTTCAAAAGTTACCTTGT
1 GTCAATTGAACATATGATCATCGTCTCGAATCATTGCAAATTCAAATGTTCAAAAGTTACCTTGT
73952 GATTGATATTTTCTTTTGCAGGTAACAGATGATAACCGTCATCAGTAGAAAAAATTGCAGCAACT
66 GATTGATATTTTCTTTTGCAGGTAACAGATGATAACCGTCATCAGTAGAAAAAATTGCAGCAACT
74017 GTGACTGGAACAATCACGATAAC-GGTGTTTCTTCTGCTGACTACCAG
131 GTGACTGGAACAATCACGATAACGGGTGTTTCTTCTGCTGACTACCAG
74064 GTCAATTGAACATATGATCATCGTCTCGAATCATTGCAAATTCTCAAATGTTCAAAAAGTTACCT
1 GTCAATTGAACATATGATCATCGTCTCGAATCATTGCAAA-T-TCAAATGTTC-AAAAGTTACCT
74129 TGTGATTTGAATATTTTCTTTTGCAGGTAACAGATGATAACCGTCATCAGTAG-AAAAATTGCAG
63 TGTGA-TTG-ATATTTTCTTTTGCAGGTAACAGATGATAACCGTCATCAGTAGAAAAAATTGCAG
74193 CAACTGTGACTGGAACAATCACCGATAACGGGTGTTTCTTCTGCTGACTACCAG
126 CAACTGTGACTGGAACAATCA-CGATAACGGGTGTTTCTTCTGCTGACTACCAG
74247 TGCCTCTTCC
Statistics
Matches: 176, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
177 40 0.23
178 1 0.01
179 10 0.06
180 16 0.09
181 35 0.20
182 50 0.28
183 24 0.14
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (178 bp):
GTCAATTGAACATATGATCATCGTCTCGAATCATTGCAAATTCAAATGTTCAAAAGTTACCTTGT
GATTGATATTTTCTTTTGCAGGTAACAGATGATAACCGTCATCAGTAGAAAAAATTGCAGCAACT
GTGACTGGAACAATCACGATAACGGGTGTTTCTTCTGCTGACTACCAG
Found at i:75894 original size:12 final size:12
Alignment explanation
Indices: 75877--75901 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75867 ACGTTCAAAA
75877 GAGAACGACGTG
1 GAGAACGACGTG
75889 GAGAACGACGTG
1 GAGAACGACGTG
75901 G
1 G
75902 TTCTGTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGAACGACGTG
Found at i:76132 original size:30 final size:30
Alignment explanation
Indices: 76081--76146 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
76071 ATCATATAGT
*
76081 ATAATTGCATGAGATACTACATATTAAATA
1 ATAATTACATGAGATACTACATATTAAATA
* *
76111 ATAATTACATGTGATAGTACATATTAAATA
1 ATAATTACATGAGATACTACATATTAAATA
76141 ATAATT
1 ATAATT
76147 TCATATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (30 bp):
ATAATTACATGAGATACTACATATTAAATA
Found at i:76245 original size:18 final size:18
Alignment explanation
Indices: 76219--76254 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76209 GTAGATTACA
* *
76219 TAGTTTATATCATATAGT
1 TAGTATATACCATATAGT
76237 TAGTATATACCATATAGT
1 TAGTATATACCATATAGT
76255 CCATGTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (18 bp):
TAGTATATACCATATAGT
Found at i:76707 original size:27 final size:27
Alignment explanation
Indices: 76664--76733 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
76654 AAATTGAATG
*
76664 ACCGGTTTTTTT---ACCGGATTAAAA
1 ACCGGTTTTTTTCAAACCGGATAAAAA
76688 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTTCAAACCGGATAAAAA
*
76715 ACCGGTTTTTTGCAAACCG
1 ACCGGTTTTTTTCAAACCG
76734 AAACCGGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.29
27 29 0.71
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (27 bp):
ACCGGTTTTTTTCAAACCGGATAAAAA
Found at i:81132 original size:32 final size:31
Alignment explanation
Indices: 81094--81170 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
81084 CGGGGCTGTG
*
81094 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
81126 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
**
81157 GAACCTACCTAAGA
1 GGGCCTACCTAAGA
81171 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:82081 original size:17 final size:17
Alignment explanation
Indices: 82059--82116 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
82049 CAACGGTCAC
82059 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
82076 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
* *
82093 GGTCAACAGTCGGGTTG
1 GGTCAACGGTCGGGTCG
82110 GGTCAAC
1 GGTCAAC
82117 CCGGTTCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.16, C:0.22, G:0.43, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:82149 original size:10 final size:10
Alignment explanation
Indices: 82117--82162 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
82107 TTGGGTCAAC
82117 CCGGTTCAGA
1 CCGGTTCAGA
82127 CCGG-TCA-A
1 CCGGTTCAGA
82135 CCCGGTTCAGA
1 -CCGGTTCAGA
*
82146 CCGG-TCAAA
1 CCGGTTCAGA
82155 CCGGTTCA
1 CCGGTTCA
82163 AAACTGGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 1 0.03
9 15 0.48
10 14 0.45
11 1 0.03
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (10 bp):
CCGGTTCAGA
Found at i:82163 original size:10 final size:10
Alignment explanation
Indices: 82112--82164 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
82102 TCGGGTTGGG
*
82112 TCAACCCGGT
1 TCAAACCGGT
*
82122 TCAGACCGG-
1 TCAAACCGGT
*
82131 TCAACCCGGT
1 TCAAACCGGT
*
82141 TCAGACCGG-
1 TCAAACCGGT
82150 TCAAACCGGT
1 TCAAACCGGT
82160 TCAAA
1 TCAAA
82165 ACTGGTCAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 15 0.44
10 19 0.56
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:82179 original size:19 final size:19
Alignment explanation
Indices: 82110--82162 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
82100 AGTCGGGTTG
82110 GGTCAACCCGGTTCAGACC
1 GGTCAACCCGGTTCAGACC
82129 GGTCAACCCGGTTCAGACC
1 GGTCAACCCGGTTCAGACC
*
82148 GGTCAAACCGGTTCA
1 GGTCAACCCGGTTCA
82163 AAACTGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (19 bp):
GGTCAACCCGGTTCAGACC
Found at i:89396 original size:6 final size:7
Alignment explanation
Indices: 89374--89403 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
89364 TTCAAAGAAA
89374 GTCAACG
1 GTCAACG
89381 GTCAACG
1 GTCAACG
89388 GTC-ACG
1 GTCAACG
89394 GTCAACG
1 GTCAACG
89401 GTC
1 GTC
89404 GGGTCATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:89396 original size:13 final size:13
Alignment explanation
Indices: 89378--89403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89368 AAGAAAGTCA
89378 ACGGTCAACGGTC
1 ACGGTCAACGGTC
89391 ACGGTCAACGGTC
1 ACGGTCAACGGTC
89404 GGGTCATGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:89431 original size:17 final size:17
Alignment explanation
Indices: 89387--89432 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
89377 AACGGTCAAC
*
89387 GGTCACGGTCAACGGTCG
1 GGTCA-GGTCAACAGTCG
*
89405 GGTCATGTCAACAGTCG
1 GGTCAGGTCAACAGTCG
*
89422 GGTCGGGTCAA
1 GGTCAGGTCAA
89433 TCCTGTTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.20, C:0.24, G:0.37, T:0.20
Consensus pattern (17 bp):
GGTCAGGTCAACAGTCG
Found at i:92317 original size:21 final size:20
Alignment explanation
Indices: 92293--92352 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
92283 AAAAGTTAAC
92293 TAATCTATTATTTTTAATAAA
1 TAAT-TATTATTTTTAATAAA
* * * *
92314 TAATAAAATATTATTAATTAA
1 TAAT-TATTATTTTTAATAAA
92335 TAA-TATTA-TTTTAATAAA
1 TAATTATTATTTTTAATAAA
92353 AAAACAAACC
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
18 8 0.27
19 3 0.10
21 19 0.63
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATTATTATTTTTAATAAA
Found at i:92484 original size:54 final size:53
Alignment explanation
Indices: 92380--92482 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
92370 AATATCCTCC
* *
92380 TATAATATTAGTAATTTTTATTTTTAGTTAAAAAAATAAGATAAAATTTTATA
1 TATAATATTAGTAAATTTTACTTTTAGTTAAAAAAATAAGATAAAATTTTATA
* *
92433 TATAATATTAGTAAATTTTACTTTTAGTTAAAAAAATAAGGTAAATTTTT
1 TATAATATTAGTAAATTTTACTTTTAGTTAAAAAAATAAGATAAAATTTT
92483 TAACGAACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.47
Consensus pattern (53 bp):
TATAATATTAGTAAATTTTACTTTTAGTTAAAAAAATAAGATAAAATTTTATA
Found at i:94020 original size:2 final size:2
Alignment explanation
Indices: 94013--94053 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94003 AATACCATCA
94013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94054 AGCCATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:99027 original size:30 final size:30
Alignment explanation
Indices: 98976--99041 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
98966 ATCATATAGT
*
98976 ATAATTGCATGAGATACTACATATTAAATA
1 ATAATTACATGAGATACTACATATTAAATA
*
99006 ATAATTACATGTA-ATAGTACATATTAAATA
1 ATAATTACATG-AGATACTACATATTAAATA
99036 ATAATT
1 ATAATT
99042 TCATATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (30 bp):
ATAATTACATGAGATACTACATATTAAATA
Found at i:100532 original size:65 final size:64
Alignment explanation
Indices: 100393--100552 Score: 259
Period size: 65 Copynumber: 2.5 Consensus size: 64
100383 TGCACTAAGA
* * * *
100393 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAATAGCCTGAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAATAACCTGAGTGCATCGATGCATGGTAT
100457 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAA-AACCATGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AATAACC-TGAGTGCATCGATGCATGGTA
100521 T
64 T
100522 GTGCATCGATGCATCAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
100553 CAATTAATTC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
64 36 0.40
65 54 0.60
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAATAACCTGAGTGCATCGATGCATGGTAT
Found at i:100592 original size:65 final size:64
Alignment explanation
Indices: 100393--100600 Score: 246
Period size: 65 Copynumber: 3.2 Consensus size: 64
100383 TGCACTAAGA
*
100393 GTGCATCGATGCATAAAATGCATTCGATGTTT--TGAAATAGCC-TGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAT-AAA-A-CCATGAGTGCATCGATGCATGGT
*
100455 CT
63 AT
100457 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAACCATGAGTGCATCGATGCATGGTAT
* ** * *
100522 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATTAATTCATCG-GTGCATCGATGCATAGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAACCAT-GAGTGCATCGATGCATGGTA
100585 T
64 T
*
100586 GATGCATCGGTGCAT
1 G-TGCATCGATGCAT
100601 GCCTTTGAAT
Statistics
Matches: 129, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
63 3 0.02
64 55 0.43
65 67 0.52
66 3 0.02
67 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAACCATGAGTGCATCGATGCATGGTAT
Found at i:107477 original size:117 final size:117
Alignment explanation
Indices: 107262--107478 Score: 267
Period size: 117 Copynumber: 1.9 Consensus size: 117
107252 AATTCAGAAT
* * *
107262 TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGAGTTCATTT
1 TTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCATTCTTCAACAGTTCATTT
* *
107327 TGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGAAAA
66 TGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAA
* * * * *
107379 TTTCTTTTTCAA-AGTTTGCAGATTTTAGTTTTGAAAGCTCTAAATCATTTTTCAACATTTCATT
1 TTTCTTTTTCAATACTTT-CAAATTTCAGTTTTGAAAGCTCTAAATCATTCTTCAACAGTTCATT
* * * **
107443 TTGTTTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
65 TTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
107479 ATCATTTTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
116 4 0.05
117 75 0.90
118 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (117 bp):
TTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCATTCTTCAACAGTTCATTT
TGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAA
Found at i:108880 original size:56 final size:57
Alignment explanation
Indices: 108814--108932 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
108804 AGTGCATCGA
* * *
108814 TGCATAAAATGCATTCGATGTTTTGA-AATAA-CCTGAGTGCATCGATGCATGGTCTG
1 TGCATCAAATGCATTCGATGTTTTGATAA-AACCCTGAGTGCATCAATGCATGGTATG
*
108870 TGCATCAAATGCATTCGATGTTTTTATAAAACCCTGAGTGCATCAATGCATGGTATG
1 TGCATCAAATGCATTCGATGTTTTGATAAAACCCTGAGTGCATCAATGCATGGTATG
108927 TGCATC
1 TGCATC
108933 GATGCATCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 26 0.46
57 31 0.54
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (57 bp):
TGCATCAAATGCATTCGATGTTTTGATAAAACCCTGAGTGCATCAATGCATGGTATG
Found at i:108975 original size:28 final size:29
Alignment explanation
Indices: 108944--109004 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
108934 ATGCATCAAA
** *
108944 TGCATTCGATGTTTAA-TTAATTCATCGG
1 TGCATTCGATGCATAATTTAATGCATCGG
*
108972 TGCA-TCGATGCATAATTTGATGCATCGG
1 TGCATTCGATGCATAATTTAATGCATCGG
109000 TGCAT
1 TGCAT
109005 GCCTTTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (29 bp):
TGCATTCGATGCATAATTTAATGCATCGG
Found at i:108996 original size:65 final size:65
Alignment explanation
Indices: 108870--109004 Score: 148
Period size: 65 Copynumber: 2.1 Consensus size: 65
108860 GCATGGTCTG
* * **
108870 TGCATCAAATGCATTCGATGTTTTTATAAAACCCTGAGTGCATCAATGCATGGTATGTGCATCGA
1 TGCATCAAATGCATTCGATGTTTTAATAAAACCATGAGTGCATCAATGCATAATATGTGCATCGA
* ** * *
108935 TGCATCAAATGCATTCGATG-TTTAATTAATTCATCG-GTGCATCGATGCATAATTTGATGCATC
1 TGCATCAAATGCATTCGATGTTTTAATAAAACCAT-GAGTGCATCAATGCATAATATG-TGCATC
*
108998 GG
64 GA
109000 TGCAT
1 TGCAT
109005 GCCTTTGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
64 25 0.43
65 33 0.57
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (65 bp):
TGCATCAAATGCATTCGATGTTTTAATAAAACCATGAGTGCATCAATGCATAATATGTGCATCGA
Found at i:115030 original size:41 final size:38
Alignment explanation
Indices: 114964--115071 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 38
114954 AAATAAATCT
*
114964 AAATAATAA-TAATTATT-TTTTTAATAAATAATAAAA
1 AAATATTAACTAATTATTATTTTTAATAAATAATAAAA
115000 AAATAAGTTAACTAATCTATTATTTTTAATAAATAATAAAA
1 AAAT-A-TTAACTAAT-TATTATTTTTAATAAATAATAAAA
* *
115041 TAATATTAATTAATAATATTA-TTTTAATAAA
1 AAATATTAACTAAT--TATTATTTTTAATAAA
115072 AAAAACCCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
36 4 0.06
37 1 0.02
38 3 0.05
39 22 0.35
40 10 0.16
41 22 0.35
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (38 bp):
AAATATTAACTAATTATTATTTTTAATAAATAATAAAA
Found at i:120117 original size:20 final size:20
Alignment explanation
Indices: 120094--120142 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
120084 GATAAAAAGT
* *
120094 AAAAGTAAAAGATGAAATAG
1 AAAAGTAAAAGAAGAAAGAG
* *
120114 AAAAGTTAAGGAAGAAAGAG
1 AAAAGTAAAAGAAGAAAGAG
120134 AAAA-TAAAA
1 AAAAGTAAAA
120143 AGTTAAAAGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.12
Consensus pattern (20 bp):
AAAAGTAAAAGAAGAAAGAG
Found at i:134191 original size:23 final size:23
Alignment explanation
Indices: 134165--134373 Score: 150
Period size: 23 Copynumber: 9.3 Consensus size: 23
134155 ACAGGTAAAA
* *
134165 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
134188 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
134211 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
** * *
134234 ATATAATAAAATAAGTTA---ATT
1 ATATAATGTAAT-AGGTAGCGCTT
* * *
134255 ACTGGAAACAT-TATTA---AGCAC--
1 A-T--ATA-ATGTAATAGGTAGCGCTT
** * * *
134276 A-ATAACATATTATGTACCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
134298 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGCTT
134321 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
134344 ATATAATATAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
134367 ATATAAT
1 ATATAAT
134374 AAAATAAATT
Statistics
Matches: 147, Mismatches: 24, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
16 1 0.01
17 7 0.05
20 4 0.03
21 4 0.03
22 2 0.01
23 119 0.81
24 8 0.05
25 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:134418 original size:133 final size:133
Alignment explanation
Indices: 134165--134408 Score: 409
Period size: 133 Copynumber: 1.8 Consensus size: 133
134155 ACAGGTAAAA
* *
134165 ATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
1 ATATAATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGC
* *
134230 GCTTATATAATAAAATAAGTTAATTACTGGAAACATTATTAAGCACAATAACATATTATGTACCG
66 GCTTATATAATAAAATAAATTAATTACTGAAAACATTATTAAGCACAATAACATATTATGTACCG
134295 CTT
131 CTT
* * *
134298 ATATAATGTAATAGGTAGTGTTTATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGC
1 ATATAATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGC
134363 GCTTATATAATAAAATAAATTAATTACTGAAAACATT-TTCAAGCAC
66 GCTTATATAATAAAATAAATTAATTACTGAAAACATTATT-AAGCAC
134409 TTCAACATAT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
132 2 0.02
133 101 0.98
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (133 bp):
ATATAATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGC
GCTTATATAATAAAATAAATTAATTACTGAAAACATTATTAAGCACAATAACATATTATGTACCG
CTT
Found at i:134795 original size:23 final size:23
Alignment explanation
Indices: 134768--134814 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
134758 CATTTTATTT
*
134768 TATAAGCACTACCTATTACGTTA
1 TATAAGCACTACCTAATACGTTA
*
134791 TATAAGCACTACCTAATATGTTA
1 TATAAGCACTACCTAATACGTTA
134814 T
1 T
134815 TGTGTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (23 bp):
TATAAGCACTACCTAATACGTTA
Found at i:134964 original size:23 final size:23
Alignment explanation
Indices: 134929--134979 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
134919 CCGGTAATTA
** *
134929 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGAT
134952 ACCTATTACATTATATAAGCGAT
1 ACCTATTACATTATATAAGCGAT
134975 ACCTA
1 ACCTA
134980 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGAT
Found at i:135008 original size:87 final size:87
Alignment explanation
Indices: 134749--135010 Score: 422
Period size: 87 Copynumber: 3.0 Consensus size: 87
134739 ACAAATTAAA
* * *
134749 TAATTAACGC-ATTTTATTTTATAAGCACTACCTATTACGTTATATAAGC-ACTACCTAATATGT
1 TAATTAAC-CTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGA-TACCTAATATGT
*
134812 TATTGTGTTTGATAATGTTTCCAG
64 TATTGTGTTTGATAATGTTTCCGG
* *
134836 TAATTAACTTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTTG-TACCTAATATGTT
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAG-CGATACCTAATATGTT
134900 ATTGTGTTTGATAATGTTTCCGG
65 ATTGTGTTTGATAATGTTTCCGG
134923 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
134988 TTGTGTTTGATAATGTTTCCGG
66 TTGTGTTTGATAATGTTTCCGG
135010 T
1 T
135011 TAAATGATAT
Statistics
Matches: 163, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
86 1 0.01
87 162 0.99
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
TTGTGTTTGATAATGTTTCCGG
Found at i:135370 original size:30 final size:30
Alignment explanation
Indices: 135334--135396 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
135324 ATCATATAGT
135334 ATAATTGCACGAGATAATACATATTAAATA
1 ATAATTGCACGAGATAATACATATTAAATA
* * * *
135364 ATAATTGTATGTGATAGTACATATTAAATA
1 ATAATTGCACGAGATAATACATATTAAATA
135394 ATA
1 ATA
135397 GTTTCATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (30 bp):
ATAATTGCACGAGATAATACATATTAAATA
Found at i:135964 original size:188 final size:187
Alignment explanation
Indices: 135641--136025 Score: 731
Period size: 188 Copynumber: 2.1 Consensus size: 187
135631 TGCTCGTACT
135641 TAATG-AC-TTATTACATGCCAACACTTTATACATAACCAAAAACATACTTTATCCAATATTTTG
1 TAATGAACTTTATTACATGCCAACACTTTATACATAACCAAAAACATACTTTATCCAATATTTTG
135704 ATCTGATCTTTTGGTAAGGAAAACTGACCTGTCTTGCTCCGCATCCCTCCTTACTTTTCTCGAAA
66 ATCTGATCTTTTGGTAAGGAAAACTGACCTGTCTTGCTCCGCATCCCTCCTTACTTTTCTCGAAA
135769 CCTACGTGTGAAACAATCAC-CGCTAAGTCGAAGACTTAGTGAGGCATAACCACTTAA
131 CCTACGTGTGAAACAATCACACGCTAAGTCGAAGACTTAGTGAGGCATAACCACTT-A
135826 TAATGAACTTTATTACATGCCAACACTTTATACATAACCAAAAACATACTTTATCCAATATTTCT
1 TAATGAACTTTATTACATGCCAACACTTTATACATAACCAAAAACATACTTTATCCAATATTT-T
135891 GATCTGATCTTTTGGTAAGGAAAACTGACCTGTCTTGCTCCGCATCCCTCCTTACTTTTCTCGAA
65 GATCTGATCTTTTGGTAAGGAAAACTGACCTGTCTTGCTCCGCATCCCTCCTTACTTTTCTCGAA
135956 ACCTACGTGTGAAACAATCACACGCTAAGTCGAAGACTTAGTGAGGCATAACCACTTA
130 ACCTACGTGTGAAACAATCACACGCTAAGTCGAAGACTTAGTGAGGCATAACCACTTA
136014 TAATGAACTTTA
1 TAATGAACTTTA
136026 AAACATATAT
Statistics
Matches: 196, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
185 5 0.03
186 2 0.01
187 54 0.28
188 100 0.51
189 35 0.18
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (187 bp):
TAATGAACTTTATTACATGCCAACACTTTATACATAACCAAAAACATACTTTATCCAATATTTTG
ATCTGATCTTTTGGTAAGGAAAACTGACCTGTCTTGCTCCGCATCCCTCCTTACTTTTCTCGAAA
CCTACGTGTGAAACAATCACACGCTAAGTCGAAGACTTAGTGAGGCATAACCACTTA
Found at i:136358 original size:22 final size:22
Alignment explanation
Indices: 136341--136407 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
136331 CTCGTATAAA
136341 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
136363 TGCACCGAAGTGCCCGTAGAGT
1 TGCACCGAAGTGCCCGTAGAAT
136385 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
136407 T
1 T
136408 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:138056 original size:20 final size:20
Alignment explanation
Indices: 138012--138057 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
138002 GGAAATTCAT
* *
138012 ATTCGCTTGAAGGGGTATCG
1 ATTCCCTTGAAGGGGTACCG
* *
138032 GTTCCCTTGAATGGGTACCG
1 ATTCCCTTGAAGGGGTACCG
138052 ATTCCC
1 ATTCCC
138058 CCTTGCCCAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.30
Consensus pattern (20 bp):
ATTCCCTTGAAGGGGTACCG
Found at i:141209 original size:21 final size:22
Alignment explanation
Indices: 141157--141222 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
141147 CTCGTATAAA
141157 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
141179 TGCACCGAAGTGCCCGTAGAGT
1 TGCACCGAAGTGCCCGTAGAAT
141201 TGC-CCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
141222 T
1 T
141223 ATGTCCATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:142720 original size:20 final size:21
Alignment explanation
Indices: 142695--142736 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
142685 TTCATATTCG
* *
142695 CTTGAA-GGGTATCGGTTCCC
1 CTTGAATGGGTACCGATTCCC
142715 CTTGAATGGGTACCGATTCCC
1 CTTGAATGGGTACCGATTCCC
142736 C
1 C
142737 CTTGCCCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.29
Consensus pattern (21 bp):
CTTGAATGGGTACCGATTCCC
Found at i:146404 original size:129 final size:129
Alignment explanation
Indices: 146224--146461 Score: 327
Period size: 129 Copynumber: 1.8 Consensus size: 129
146214 AATTTGATGG
* * * *
146224 TTTTCGGGTTTGAATTTAGCAAAACGAACTTCAGAATCAGACTCAGAACGTCGAAAAACATAAAA
1 TTTTCGGGTTCGAATTTAGAAAAACCAACTTCAGAATCAGACTCAGAACGTCAAAAAACATAAAA
*
146289 TACGACTTTTCAAAAAATTTGACTTTTTGGTCAAAGTCAATGGGTTTGACTGACAATTTCGAGGC
66 TACGA-TTTTCAAAAAATTTGACTTTTTGGTCAAAGTCAACGGGTTTGACTGACAATTTCGAGGC
* * * *
146354 TTTT-GGGTTCGAATTTGGAAAAACCTACTTCAGATTCGGACTCA-AGACGTCAAAAAACATAAA
1 TTTTCGGGTTCGAATTTAGAAAAACCAACTTCAGAATCAGACTCAGA-ACGTCAAAAAACATAAA
* ** *
146417 ATATGATTTTTGAAAAATTTGACTTTTTTGTCAAAGTCAACGGGT
65 ATACGATTTTCAAAAAATTTGACTTTTTGGTCAAAGTCAACGGGT
146462 CGGGTCAACG
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
128 36 0.38
129 54 0.57
130 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (129 bp):
TTTTCGGGTTCGAATTTAGAAAAACCAACTTCAGAATCAGACTCAGAACGTCAAAAAACATAAAA
TACGATTTTCAAAAAATTTGACTTTTTGGTCAAAGTCAACGGGTTTGACTGACAATTTCGAGGC
Found at i:146470 original size:13 final size:13
Alignment explanation
Indices: 146452--146485 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
146442 TTTTGTCAAA
146452 GTCAACGGGTCGG
1 GTCAACGGGTCGG
146465 GTCAACGGGTCGG
1 GTCAACGGGTCGG
146478 GTCAACGG
1 GTCAACGG
146486 TTGGGTAGGG
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:0.18, C:0.24, G:0.44, T:0.15
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:150501 original size:12 final size:13
Alignment explanation
Indices: 150475--150503 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
150465 CAAAGTCAAC
150475 GGTCAACGTGTCG
1 GGTCAACGTGTCG
150488 GGTCAACG-GTCG
1 GGTCAACGTGTCG
150500 GGTC
1 GGTC
150504 GGGTCAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.24, G:0.41, T:0.21
Consensus pattern (13 bp):
GGTCAACGTGTCG
Found at i:153517 original size:19 final size:21
Alignment explanation
Indices: 153471--153518 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
153461 TCAAACTCAA
*
153471 CTTAACCCCAACCTCCTACCC
1 CTTAACCTCAACCTCCTACCC
* *
153492 CTAAACCTCAAGC-CCTA-CC
1 CTTAACCTCAACCTCCTACCC
153511 CTTAACCT
1 CTTAACCT
153519 TTAAACCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 9 0.39
20 4 0.17
21 10 0.43
ACGTcount: A:0.27, C:0.50, G:0.02, T:0.21
Consensus pattern (21 bp):
CTTAACCTCAACCTCCTACCC
Found at i:160626 original size:25 final size:25
Alignment explanation
Indices: 160586--160650 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
160576 GTAGAATTCG
*
160586 TGCCCTTGGAAGGGCTTACATGCCAT
1 TGCCCTT-AAAGGGCTTACATGCCAT
160612 TGCCCTTAAAGGGCTTACATGCCAT
1 TGCCCTTAAAGGGCTTACATGCCAT
160637 TGCCCTTAAAGGGC
1 TGCCCTTAAAGGGC
160651 ATGAGTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 31 0.82
26 7 0.18
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (25 bp):
TGCCCTTAAAGGGCTTACATGCCAT
Found at i:168983 original size:19 final size:19
Alignment explanation
Indices: 168946--168984 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
168936 TAAAAAGGAA
*
168946 ATGTATATATATATATTTT
1 ATGTATATATATACATTTT
* *
168965 ATGTATATGTATACGTTTT
1 ATGTATATATATACATTTT
168984 A
1 A
168985 CAACCATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (19 bp):
ATGTATATATATACATTTT
Found at i:172826 original size:40 final size:41
Alignment explanation
Indices: 172780--172862 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 41
172770 GGTGGTGGTG
172780 GGGGTGGTACGGGTGCTGG-TGATGAACCAGTTGC-GGGGGT
1 GGGGTGGTACGGGTGC-GGATGATGAACCAGTTGCAGGGGGT
**
172820 GGGGTGGTGGGGGTGCGGATGATGAACCAGTTGCAGGGGGT
1 GGGGTGGTACGGGTGCGGATGATGAACCAGTTGCAGGGGGT
172861 GG
1 GG
172863 CAGTGGGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
39 2 0.05
40 29 0.74
41 8 0.21
ACGTcount: A:0.13, C:0.11, G:0.55, T:0.20
Consensus pattern (41 bp):
GGGGTGGTACGGGTGCGGATGATGAACCAGTTGCAGGGGGT
Found at i:172905 original size:85 final size:84
Alignment explanation
Indices: 172737--172906 Score: 189
Period size: 85 Copynumber: 2.0 Consensus size: 84
172727 AGGAGCAGGT
* * ** * * * * *
172737 GGTGGTGGGGGTGCTGATGATGAACTAGTTGTTGGTGGTGGTGGGGGTGGTACGGGTGCTGGTGA
1 GGTGGTGGGGGTGCGGATGATGAACCAGTTGCAGGGGGTGGAGGGGGTGGCACGGGTACTGATGA
*
172802 TGAACCAGTTGCGGGGGTGG
66 TGAACCAGAT-CGGGGGTGG
**
172822 GGTGGTGGGGGTGCGGATGATGAACCAGTTGCAGGGGGTGGCAGTGGGGTGGCGGGGGTACTGAT
1 GGTGGTGGGGGTGCGGATGATGAACCAGTTGCAGGGGGTGG-AG-GGGGTGGCACGGGTACTGAT
*
172887 GATGAACCAGAT-GTGGGTGG
64 GATGAACCAGATCGGGGGTGG
172907 TGGAGGTGCT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
85 43 0.61
86 1 0.01
87 26 0.37
ACGTcount: A:0.14, C:0.09, G:0.53, T:0.24
Consensus pattern (84 bp):
GGTGGTGGGGGTGCGGATGATGAACCAGTTGCAGGGGGTGGAGGGGGTGGCACGGGTACTGATGA
TGAACCAGATCGGGGGTGG
Found at i:172919 original size:33 final size:33
Alignment explanation
Indices: 172868--172969 Score: 141
Period size: 33 Copynumber: 3.1 Consensus size: 33
172858 GGTGGCAGTG
* *
172868 GGGTGGCGGGGGTACTGATGATGAACCAGATGT
1 GGGTGGCGGGGGTGCTGATGATGAACCAGTTGT
* * * *
172901 GGGTGGTGGAGGTGCTGATAATGAACCGGTTGT
1 GGGTGGCGGGGGTGCTGATGATGAACCAGTTGT
*
172934 GGGTGGCGGGGGTGCTGATGATGAACTAGTTGT
1 GGGTGGCGGGGGTGCTGATGATGAACCAGTTGT
172967 GGG
1 GGG
172970 GGGTGGTGGT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.18, C:0.10, G:0.48, T:0.25
Consensus pattern (33 bp):
GGGTGGCGGGGGTGCTGATGATGAACCAGTTGT
Found at i:173139 original size:69 final size:70
Alignment explanation
Indices: 172983--173139 Score: 158
Period size: 69 Copynumber: 2.3 Consensus size: 70
172973 TGGTGGTGGT
* * *
172983 GGTGGTGGTGTTGATGAT-GAACTAGTTGTGGGTGGGGCTGGAGGCGTCGCTGATGATGAAACAA
1 GGTGGCGGTGTTGATGATGGAACTAGATGAGGGTGGGGCTGGAGGCGTCGCTGATGATGAAACAA
*
173047 TTGGG
66 TTGGA
* * * * * * *
173052 GGTGGCAGTGCTGGTGATGGAA-TAGATGAGGGTGGGGGTGGTGGGGGT-GCTGATGATGAAACG
1 GGTGGCGGTGTTGATGATGGAACTAGATGAGGGTGGGGCTGG-AGGCGTCGCTGATGATGAAACA
*
173115 GTTGGA
65 ATTGGA
* *
173121 TGTGGGGGTGTTGATGATG
1 GGTGGCGGTGTTGATGATG
173140 ATGAACCAGT
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
69 62 0.90
70 7 0.10
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.27
Consensus pattern (70 bp):
GGTGGCGGTGTTGATGATGGAACTAGATGAGGGTGGGGCTGGAGGCGTCGCTGATGATGAAACAA
TTGGA
Found at i:173207 original size:24 final size:24
Alignment explanation
Indices: 173180--173258 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
173170 GCATTGGTAA
173180 GGGTACTGATGATGCACCAGCTGT
1 GGGTACTGATGATGCACCAGCTGT
* * * *
173204 GGGTGA-TGGTGGTGCTAGCATTAG-TGG
1 GGGT-ACTGATGATGC-A-C--CAGCTGT
173231 GGGTACTGATGATGCACCAGCTGT
1 GGGTACTGATGATGCACCAGCTGT
173255 GGGT
1 GGGT
173259 GATGGTGGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
23 2 0.05
24 17 0.43
25 3 0.08
26 3 0.08
27 13 0.32
28 2 0.05
ACGTcount: A:0.18, C:0.15, G:0.41, T:0.27
Consensus pattern (24 bp):
GGGTACTGATGATGCACCAGCTGT
Found at i:173218 original size:51 final size:51
Alignment explanation
Indices: 173135--173317 Score: 276
Period size: 51 Copynumber: 3.6 Consensus size: 51
173125 GGGGTGTTGA
* * * * * * **
173135 TGATGATGAACCAGTTGGGGGTGATAGCGGTGCTAGCATTGGTAAGGGTAC
1 TGATGATGCACCAGCTGTGGGTGATGGTGGTGCTAGCATTAGTGGGGGTAC
173186 TGATGATGCACCAGCTGTGGGTGATGGTGGTGCTAGCATTAGTGGGGGTAC
1 TGATGATGCACCAGCTGTGGGTGATGGTGGTGCTAGCATTAGTGGGGGTAC
*
173237 TGATGATGCACCAGCTGTGGGTGATGGTGGTGCTAGCGTTAGTGGGGGTAC
1 TGATGATGCACCAGCTGTGGGTGATGGTGGTGCTAGCATTAGTGGGGGTAC
*
173288 CGATGATGCACCAGCTGTGGGTGATGGTGG
1 TGATGATGCACCAGCTGTGGGTGATGGTGG
173318 GGGGGGGGGG
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 122 1.00
ACGTcount: A:0.19, C:0.14, G:0.42, T:0.26
Consensus pattern (51 bp):
TGATGATGCACCAGCTGTGGGTGATGGTGGTGCTAGCATTAGTGGGGGTAC
Found at i:176386 original size:248 final size:241
Alignment explanation
Indices: 175923--176407 Score: 848
Period size: 248 Copynumber: 2.0 Consensus size: 241
175913 ATTTTATCCT
175923 CGTTTTATGCTGTGTTCCATTATTATTATATGAACCGATTATCATGTAAACAGGTTTGGGGATTT
1 CGTTTTATGCTGTGTTCCATTATTATTATATGAACCGATTATCATGTAAACAGGTTTGGGGATTT
175988 TGGGAAAATGCCTGAAAAGGGAAGCTTTTCCATCATAAGCTCTTCCCTTCACTTCCATTCATATA
66 TGGGAAAATGCCTGAAAAGGGAAGCTTTTCCATCATAAGCTCTTCCCTTCACTTCCATTCATATA
176053 TGCTTGCATACGTATTTGATCATGGTGTTTATAGTATTGATAGCAGGTGAGCTACAGACATACAT
131 TGCTTGCATACGTATTTGATCATGGTGTTTATAGTATTGATAGCAGGTGAGCTACAGACATACAT
*
176118 GAACATACAGTAGCATGCATATAT-TC-TACATTGGCTTTTTGAAC
196 GAACATACAGTAGCATGCATATATATCTTACATTGGATTTTTGAAC
*
176162 CGTTTTATGCTGTGTTTCCATTATTATTATATGAACCGATTATCATGTAAAAACATGTTTGGGGA
1 CGTTTTATGCTGTG-TTCCATTATTATTATATGAACCGATTATCATGT--AAACAGGTTTGGGGA
176227 TTTTGGGAAAATGCCTGAAAAGGGAAGCTTTTCCATCATAAGCTCTTCCCTTCACTTCCATTCAT
63 TTTTGGGAAAATGCCTGAAAAGGGAAGCTTTTCCATCATAAGCTCTTCCCTTCACTTCCATTC--
176292 ATATGCATGCTTGCACATACGTATTTGATCATGGTGTTTATAGTATTGATAGCAGGTGAGCTACA
126 ATAT--ATGCTTG--CATACGTATTTGATCATGGTGTTTATAGTATTGATAGCAGGTGAGCTACA
176357 GACATACATGAACATACAGTAGCATGCATATATAATCTTACATTGGATTTT
187 GACATACATGAACATACAGTAGCATGCATATAT-ATCTTACATTGGATTTT
176408 GAAACCTTTT
Statistics
Matches: 232, Mismatches: 2, Indels: 12
0.94 0.01 0.05
Matches are distributed among these distances:
239 14 0.06
240 33 0.14
242 77 0.33
244 4 0.02
246 7 0.03
248 83 0.36
250 2 0.01
251 12 0.05
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (241 bp):
CGTTTTATGCTGTGTTCCATTATTATTATATGAACCGATTATCATGTAAACAGGTTTGGGGATTT
TGGGAAAATGCCTGAAAAGGGAAGCTTTTCCATCATAAGCTCTTCCCTTCACTTCCATTCATATA
TGCTTGCATACGTATTTGATCATGGTGTTTATAGTATTGATAGCAGGTGAGCTACAGACATACAT
GAACATACAGTAGCATGCATATATATCTTACATTGGATTTTTGAAC
Found at i:181061 original size:3 final size:3
Alignment explanation
Indices: 181055--181081 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
181045 GAACTCAAAC
181055 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
181082 GCTTGTTCAT
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:187807 original size:24 final size:27
Alignment explanation
Indices: 187777--187831 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
187767 ATTTGAAATT
187777 TTTTTAAA-TTTTTA-T-ATAATTTAA
1 TTTTTAAATTTTTTATTGATAATTTAA
187801 TTTTTAAATTTTTTATTGATAATTTAA
1 TTTTTAAATTTTTTATTGATAATTTAA
187828 TTTT
1 TTTT
187832 ATACTAGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 8 0.29
25 6 0.21
26 1 0.04
27 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTAAATTTTTTATTGATAATTTAA
Found at i:190138 original size:53 final size:55
Alignment explanation
Indices: 190049--190155 Score: 200
Period size: 53 Copynumber: 2.0 Consensus size: 55
190039 TTACATTATG
190049 GTACACATTTGAGGATAATAAAAATATACGATAATTTTAAATTTTAGAAGAGCGC
1 GTACACATTTGAGGATAATAAAAATATACGATAATTTTAAATTTTAGAAGAGCGC
190104 GTACACATTTGAGGAT-AT-AAAATATACGATAATTTTAAATTTTAGAAGAGCG
1 GTACACATTTGAGGATAATAAAAATATACGATAATTTTAAATTTTAGAAGAGCG
190156 ACCGCCCTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 34 0.65
54 2 0.04
55 16 0.31
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (55 bp):
GTACACATTTGAGGATAATAAAAATATACGATAATTTTAAATTTTAGAAGAGCGC
Found at i:192498 original size:14 final size:14
Alignment explanation
Indices: 192479--192505 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
192469 AATCTCCTCG
192479 GTTGAACCATGTTC
1 GTTGAACCATGTTC
192493 GTTGAACCATGTT
1 GTTGAACCATGTT
192506 GCAAGATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (14 bp):
GTTGAACCATGTTC
Found at i:192678 original size:15 final size:15
Alignment explanation
Indices: 192658--192688 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
192648 CGCAATCTCC
192658 TCGGTTGAACCATGT
1 TCGGTTGAACCATGT
192673 TCGGTTGAACCATGT
1 TCGGTTGAACCATGT
192688 T
1 T
192689 GCAAGATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (15 bp):
TCGGTTGAACCATGT
Found at i:193102 original size:62 final size:62
Alignment explanation
Indices: 193022--193146 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
193012 TCCTTTCCTT
193022 GTCATGCTTTTTATGGTGATTGTGTTCTAACTTGGTTTACCATATAGCCAAATTCTACATTTA
1 GTCATGCTTTTTATGGTGATTGTGTTCTAACTTGGTTTA-CATATAGCCAAATTCTACATTTA
193085 GTCATGC-TTTTATGGTGATTGTGTTCTAACTTGGTTTACATATAGCCAAATTCTACATTTA
1 GTCATGCTTTTTATGGTGATTGTGTTCTAACTTGGTTTACATATAGCCAAATTCTACATTTA
193146 G
1 G
193147 ATATAGACAG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 24 0.39
62 31 0.50
63 7 0.11
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (62 bp):
GTCATGCTTTTTATGGTGATTGTGTTCTAACTTGGTTTACATATAGCCAAATTCTACATTTA
Found at i:193368 original size:49 final size:49
Alignment explanation
Indices: 193306--193399 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
193296 TGGCTTTGAT
*
193306 GATCAAACTCTCTTTATCGGGATATCTGGAAGCTCAAGAGGAGACGCGA
1 GATCAAACTCTCTTTATCGGGATATCTCGAAGCTCAAGAGGAGACGCGA
*
193355 GATCGAACTCTCTTTATCGGGATATCTCGAAGCTCAAGAGGAGAC
1 GATCAAACTCTCTTTATCGGGATATCTCGAAGCTCAAGAGGAGAC
193400 TCCGAGACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (49 bp):
GATCAAACTCTCTTTATCGGGATATCTCGAAGCTCAAGAGGAGACGCGA
Found at i:200802 original size:13 final size:13
Alignment explanation
Indices: 200784--200808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
200774 TTTTATGTAT
200784 ATTGAAAATTTTC
1 ATTGAAAATTTTC
200797 ATTGAAAATTTT
1 ATTGAAAATTTT
200809 AGACAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
ATTGAAAATTTTC
Found at i:202309 original size:9 final size:9
Alignment explanation
Indices: 202264--202324 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 9
202254 ATAAAGAACG
202264 TATTTTTAA
1 TATTTTTAA
*
202273 -AATTTTAA
1 TATTTTTAA
*
202281 -A-TTATAA
1 TATTTTTAA
202288 TATTTTTAAA
1 TATTTTT-AA
*
202298 TATTTTTTA
1 TATTTTTAA
202307 TATTTTTAA
1 TATTTTTAA
202316 TAATTTTTA
1 T-ATTTTTA
202325 TCTTTAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
7 5 0.12
8 9 0.21
9 13 0.30
10 16 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTTAA
Found at i:202311 original size:19 final size:18
Alignment explanation
Indices: 202287--202325 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
202277 TTAAATTATA
*
202287 ATATTTTTAAATATTTTTT
1 ATATTTTT-AATAATTTTT
202306 ATATTTTTAATAATTTTT
1 ATATTTTTAATAATTTTT
202324 AT
1 AT
202326 CTTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATTTTTAATAATTTTT
Found at i:203432 original size:21 final size:21
Alignment explanation
Indices: 203377--203434 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
203367 ATTTACCGTG
* *
203377 ATTGCAGTCATCGCGGGCGCT
1 ATTGCGGTCATCGCGGACGCT
* *
203398 ATTACGG-CTGTCGCGGACGCT
1 ATTGCGGTC-ATCGCGGACGCT
203419 ATTGCGGTCATCGCGG
1 ATTGCGGTCATCGCGG
203435 GTAACTCGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.14, C:0.28, G:0.34, T:0.24
Consensus pattern (21 bp):
ATTGCGGTCATCGCGGACGCT
Found at i:213254 original size:84 final size:84
Alignment explanation
Indices: 213075--213461 Score: 340
Period size: 84 Copynumber: 4.7 Consensus size: 84
213065 TGCATGGGGC
* ** * * * *
213075 TATGCTGTAAATGATGTGCCTAAGAGATGAGCGTAGTCGAACTTGAAGATC-TTTGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGAT
* ***
213139 AACCCTCCTAGCCTGGCGT
66 AACCCTTCTAGCCTTAAGT
* * * * *
213158 TATACCGCAAATGATGTGCCTTGGAGCTGAACGTAGTCAAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGAT
*
213223 AACCATTCTAGCCTTAAGT
66 AACCCTTCTAGCCTTAAGT
*
213242 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAA-TCGAAGGT-TTTTAGTTGGCAG
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC-AAACTCGAAGGTCTTTT-GTTGGCAG
* *
213305 ATAACCCTTCTCGACTTAAGT
64 ATAACCCTTCTAGCCTTAAGT
* * * * * * **
213326 TATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGA
* * * ** *
213387 CAATCCTTCTCGATTTAAGC
65 TAACCCTTCTAGCCTTAAGT
* * * *
213407 TATGCTGCAAATAATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAATGTCTTTT
1 TATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTT
213462 TTTTTCAAAT
Statistics
Matches: 245, Mismatches: 49, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
80 23 0.09
81 41 0.17
83 47 0.19
84 109 0.44
85 25 0.10
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGAT
AACCCTTCTAGCCTTAAGT
Found at i:213411 original size:81 final size:80
Alignment explanation
Indices: 213298--213450 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 80
213288 AGGTTTTTAG
* * * *
213298 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGACAACCCTTCTCGACTTAAGCTATGCTGCAAATAACGTGCCCTCG-AGCTGAGCGTAA
213363 TCGAACTCGGGGGTCT
65 TCGAACTCGGGGGTCT
* * * * * *
213379 TTGGCAGACAATCCTTCTCGATTTAAGCTATGCTGCAAATAATGTGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTCGACTTAAGCTATGCTGCAAATAACGTGCCCTCGAGCTGAGCGTAAT
213444 CGAACTC
66 CGAACTC
213451 AAATGTCTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 18 0.29
81 44 0.71
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (80 bp):
TTGGCAGACAACCCTTCTCGACTTAAGCTATGCTGCAAATAACGTGCCCTCGAGCTGAGCGTAAT
CGAACTCGGGGGTCT
Found at i:213864 original size:106 final size:106
Alignment explanation
Indices: 213673--214937 Score: 2064
Period size: 106 Copynumber: 11.9 Consensus size: 106
213663 GTGAAGTTAA
* *
213673 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCG
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
213738 ATATCCTTCGCTATGAAGTTGAAATTGACTCTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
213779 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
213844 ATTTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
213885 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
213950 ATATCATTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
213991 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
214056 TTATCATTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
214097 AAATTTTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
** *
214162 ATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
214203 AAGTTGTTTGTTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
214268 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTAAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
214309 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
214374 ATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
214415 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
214480 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
214521 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCATTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
214586 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
214627 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
214692 ATATCCTTCGCT-TGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
214732 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
214797 ATATCCTTCGCTGTGAAATTGAAATTGGCTCTAAAAGTGGA
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
214838 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * * *
214903 ATTTTCTTTGCTGCGAAGTTGAAATAGACTCTGAA
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
214938 TGAAATTGGA
Statistics
Matches: 1078, Mismatches: 80, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 103 0.10
106 975 0.90
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
Found at i:221480 original size:22 final size:21
Alignment explanation
Indices: 221438--221477 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
221428 GAGTTTGTTT
*
221438 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
221459 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
221478 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:224555 original size:20 final size:18
Alignment explanation
Indices: 224530--224568 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
224520 GTAAGGGAAA
224530 TATCGATACTCACTAGGTAT
1 TATCGATACT-ACTA-GTAT
224550 TATCGATACTACTAGTAT
1 TATCGATACTACTAGTAT
224568 T
1 T
224569 GCTCAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 10 0.53
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (18 bp):
TATCGATACTACTAGTAT
Found at i:226226 original size:58 final size:59
Alignment explanation
Indices: 226096--226241 Score: 170
Period size: 58 Copynumber: 2.5 Consensus size: 59
226086 CAGTTGAGGG
* * * * * *
226096 CCTCATTTTCTATCTTAATTCTTAAGGATTCCTATTTTTTTTTTAAATTTTATAAAATTAT
1 CCTCACTTTCTAACTTAATTATTAAGG--TCCCATTATTTTCTTAAATTTTATAAAATTAT
*
226157 -CTCTACTTTCTAACTTAATTATTAAGG-CCCATTATTTTCTTAAATTTTATAAAATTGT
1 CCTC-ACTTTCTAACTTAATTATTAAGGTCCCATTATTTTCTTAAATTTTATAAAATTAT
* *
226215 CCTCACTTTCTACCCTAATTATTAAGG
1 CCTCACTTTCTAACTTAATTATTAAGG
226242 ACCTCTAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 48 0.65
59 3 0.04
60 3 0.04
61 20 0.27
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (59 bp):
CCTCACTTTCTAACTTAATTATTAAGGTCCCATTATTTTCTTAAATTTTATAAAATTAT
Found at i:226283 original size:59 final size:58
Alignment explanation
Indices: 226133--226285 Score: 157
Period size: 58 Copynumber: 2.6 Consensus size: 58
226123 ATTCCTATTT
* * * * *
226133 TTTTTTTAAATTTTATAAAATTATCTCTACTTTCTAACTTAATTATTAAGGCCCATTA
1 TTTTCTTAAATGTTATAAAATTATCTTTACTTTCTAACCTAATTATTAAGGCCCAATA
* * * * *
226191 TTTTCTTAAATTTTATAAAATTGTCCTCACTTTCTACCCTAATTATTAAGGACCTCTAAT-
1 TTTTCTTAAATGTTATAAAATTATCTTTACTTTCTAACCTAATTATTAAGG-CC-C-AATA
* *
226251 TTTTCTT-AATGTTATAAAATAATCTTTGCTTTCTA
1 TTTTCTTAAATGTTATAAAATTATCTTTACTTTCTA
226286 TCTTCACAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
58 44 0.56
59 24 0.31
60 8 0.10
61 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.49
Consensus pattern (58 bp):
TTTTCTTAAATGTTATAAAATTATCTTTACTTTCTAACCTAATTATTAAGGCCCAATA
Found at i:242743 original size:60 final size:60
Alignment explanation
Indices: 242678--242806 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 60
242668 AATAGTCGAG
* * * * *
242678 TGACCATTTTATTACTTTTAATAGTC-GAGAGACTGAATAAAACAA-CTCACTACAGTCGAAA
1 TGACCATTTTATAACTTTCAATAGCCAAAG-GACTGAATAAAACAATATC-CTACAGTC-AAA
* *
242739 -GACCATTTTGTAACTTTCAATAGCCAAAGGACTTAATAAAACAATATCCTACAGTCAAA
1 TGACCATTTTATAACTTTCAATAGCCAAAGGACTGAATAAAACAATATCCTACAGTCAAA
242798 TGACCATTT
1 TGACCATTT
242807 ATGTATTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
59 3 0.05
60 51 0.88
61 4 0.07
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (60 bp):
TGACCATTTTATAACTTTCAATAGCCAAAGGACTGAATAAAACAATATCCTACAGTCAAA
Found at i:244083 original size:12 final size:12
Alignment explanation
Indices: 244066--244092 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
244056 ATCAGTTACC
244066 TGTTTGAGTTCA
1 TGTTTGAGTTCA
244078 TGTTTGAGTTCA
1 TGTTTGAGTTCA
244090 TGT
1 TGT
244093 CTCACTCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (12 bp):
TGTTTGAGTTCA
Found at i:248152 original size:6 final size:6
Alignment explanation
Indices: 248136--248169 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
248126 ATCGAATGGA
248136 CTCGA- CTCGAG CTCGAG CTCGAG CTCGA- CTCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
248170 TTCTTAACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (6 bp):
CTCGAG
Found at i:248158 original size:12 final size:11
Alignment explanation
Indices: 248136--248169 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
248126 ATCGAATGGA
248136 CTCGACTCGAG
1 CTCGACTCGAG
248147 CTCGAGCTCGAG
1 CTCGA-CTCGAG
248159 CTCGACTCGAG
1 CTCGACTCGAG
248170 TTCTTAACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (11 bp):
CTCGACTCGAG
Found at i:249134 original size:2 final size:2
Alignment explanation
Indices: 249122--249161 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
249112 AAGAAAAAGA
*
249122 AT AT AT GT 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
249162 CTGCTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:251569 original size:2 final size:2
Alignment explanation
Indices: 251562--251608 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
251552 TATGTATTTA
251562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
251605 AT AT
1 AT AT
251609 TTAATATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:255880 original size:29 final size:29
Alignment explanation
Indices: 255845--255926 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
255835 AAACTAAATT
*
255845 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
255874 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
255903 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
255927 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:260652 original size:29 final size:29
Alignment explanation
Indices: 260617--260698 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
260607 AAACTAAATT
*
260617 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
260646 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
260675 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
260699 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:263264 original size:15 final size:15
Alignment explanation
Indices: 263244--263273 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
263234 TGTAAAGGTC
263244 GATCTCGTTCGGATG
1 GATCTCGTTCGGATG
263259 GATCTCGTTCGGATG
1 GATCTCGTTCGGATG
263274 CGACAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.33, T:0.33
Consensus pattern (15 bp):
GATCTCGTTCGGATG
Found at i:264470 original size:22 final size:21
Alignment explanation
Indices: 264408--264484 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 21
264398 CGAAAATGCT
* *
264408 TTAGCATTGGTACTAAAGTGTC
1 TTAGCACTGATACTAAAGTG-C
* * **
264430 TCAGTACTGATACGGAAGTGC
1 TTAGCACTGATACTAAAGTGC
* *
264451 ATTAGCATTGATACTAAAGTACC
1 -TTAGCACTGATACTAAAGT-GC
264474 TTAGCACTGAT
1 TTAGCACTGAT
264485 GGGGACATAT
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (21 bp):
TTAGCACTGATACTAAAGTGC
Found at i:267602 original size:20 final size:20
Alignment explanation
Indices: 267579--267752 Score: 244
Period size: 20 Copynumber: 8.7 Consensus size: 20
267569 GCAAATATGA
* *
267579 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
267599 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
267619 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
267639 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
267659 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
267679 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
267699 AAATCGCAACGAC-AATACGT
1 AAATCGCAACG-CGTATCCGT
267719 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
267740 AAATCGCAACGCG
1 AAATCGCAACGCG
267753 ATTTTTAAAG
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
20 119 0.86
21 19 0.14
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:267623 original size:60 final size:60
Alignment explanation
Indices: 267500--267751 Score: 201
Period size: 60 Copynumber: 4.2 Consensus size: 60
267490 ATGACCAACA
* * * ** * *
267500 AAATCGCAACGCGAAATA--AAAATCGCAACGCGATCCCCA-GAATCGCAAATCAGTTTCC-A
1 AAATCGCAACGC-AAATACGAAAATCGCAACGCGA-ACACATAAATCGCAACGC-GTATCCGT
*
267559 AAATCGCAACGCAAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCAAATACGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
*** * * * * *
267619 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCAAATACGAAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGT
* ** * * * *
267679 ATATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCAAATACGAAAATCGCAACG-CGAACACAT-AAATCGCAACGCGTATCCGT
267740 AAATCGCAACGC
1 AAATCGCAACGC
267752 GATTTTTAAA
Statistics
Matches: 163, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
58 5 0.03
59 21 0.13
60 104 0.64
61 33 0.20
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (60 bp):
AAATCGCAACGCAAATACGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
Found at i:268171 original size:33 final size:33
Alignment explanation
Indices: 268132--268202 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
268122 TTCACTTAGA
268132 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
268165 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
268198 TTTCA
1 TTTCA
268203 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:268308 original size:21 final size:20
Alignment explanation
Indices: 268282--268388 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
268272 TGCAGAAGAG
268282 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
268303 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
268323 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
268345 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
268359 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
268378 TCGCAACGAGA
1 TCGCAACGAGA
268389 GAATCGCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.36
22 10 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:268362 original size:14 final size:14
Alignment explanation
Indices: 268343--268399 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
268333 GAAAAATGAA
268343 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
268357 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
268376 AATCGCAACGAGAG
1 AATCGCAACGAGAG
268390 AATCGCAACG
1 AATCGCAACG
268400 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:268374 original size:33 final size:33
Alignment explanation
Indices: 268336--268415 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
268326 GCAACGAGAA
268336 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
268369 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
268402 AAACCAAAATCGCA
1 AAATGAAAATCGCA
268416 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:268433 original size:19 final size:19
Alignment explanation
Indices: 268411--268538 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
268401 GAAACCAAAA
*
268411 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
268430 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
268444 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
268463 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
268477 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
268497 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
268517 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
268537 TC
1 TC
268539 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:268452 original size:14 final size:14
Alignment explanation
Indices: 268433--268489 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
268423 TTTCATTTCG
268433 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
268447 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
268466 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
268480 CGTTGCGATT
1 CGTTGCGATT
268490 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:268458 original size:33 final size:33
Alignment explanation
Indices: 268416--268538 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
268406 CAAAATCGCA
268416 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
268449 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
268482 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
268523 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
268539 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:268500 original size:21 final size:21
Alignment explanation
Indices: 268474--268538 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
268464 CGCGTTGCGA
268474 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
268495 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
268515 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
268536 TTC
1 TTC
268539 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:270571 original size:93 final size:93
Alignment explanation
Indices: 270221--270535 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
270211 TAGATTGCTT
*
270221 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
270286 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
270314 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
270379 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
270407 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
270472 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
270499 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
270536 AATACCCTGA
Statistics
Matches: 221, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 54 0.24
93 167 0.76
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:270670 original size:14 final size:14
Alignment explanation
Indices: 270651--270707 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
270641 CGAAACTTAA
270651 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
270665 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
270684 AATCGCAACGACAG
1 AATCGCAACGAGAG
270698 AATCGCAACG
1 AATCGCAACG
270708 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:270689 original size:19 final size:18
Alignment explanation
Indices: 270665--270755 Score: 63
Period size: 19 Copynumber: 5.3 Consensus size: 18
270655 GCAACGAGAG
270665 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
270684 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
270698 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
270717 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
270731 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
270750 AATCGC
1 AATCGC
270756 GTTGCGATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 25 0.42
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:270691 original size:33 final size:33
Alignment explanation
Indices: 270633--270755 Score: 183
Period size: 33 Copynumber: 3.7 Consensus size: 33
270623 TAGTTTACTT
* * *
270633 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
270667 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
270700 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
270733 TCGCAACGCGAAACCAAAATCGC
1 TCGCAACGCGAAACCAAAATCGC
270756 GTTGCGATTC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:270733 original size:14 final size:14
Alignment explanation
Indices: 270682--270740 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
270672 ACGCGAAATG
270682 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
270696 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
270715 AAAATCGCAACGAC
1 AAAATCGCAACGAC
270729 AAAATCGCAACG
1 AAAATCGCAACG
270741 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:270772 original size:14 final size:14
Alignment explanation
Indices: 270755--270844 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
270745 ACCAAAATCG
*
270755 CGTTGCGATTCTCT
1 CGTTGCGATTCTGT
*
270769 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TGT
270786 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTGT
*
270802 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TGT
270819 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTGT
270835 CGTTGCGATT
1 CGTTGCGATT
270845 TTCATTTCGC
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 22 0.35
16 14 0.23
17 14 0.23
19 12 0.19
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTGT
Found at i:270795 original size:19 final size:19
Alignment explanation
Indices: 270769--270938 Score: 144
Period size: 19 Copynumber: 9.4 Consensus size: 19
270759 GCGATTCTCT
270769 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
270788 CATTGCGA--TTC-TGT--
1 CGTTGCGATTTTCATTTCG
270802 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
270821 CATTGCGA--TTC-TGT--
1 CGTTGCGATTTTCATTTCG
270835 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
**
270854 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTCATTTCG
** **
270873 CGTTGCGATTTTGGTTTTT
1 CGTTGCGATTTTCATTTCG
*
270892 CGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
270911 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
270931 TGTTGCGA
1 CGTTGCGA
270939 AAGTAAACTA
Statistics
Matches: 120, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
14 14 0.12
16 10 0.08
17 10 0.08
19 74 0.62
20 12 0.10
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:270799 original size:33 final size:33
Alignment explanation
Indices: 270752--270863 Score: 197
Period size: 33 Copynumber: 3.4 Consensus size: 33
270742 GAAACCAAAA
* *
270752 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
270785 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
270818 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
*
270851 TCGCGTTGCGATT
1 TCGCATTGCGATT
270864 TTGGTTTCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTGTCGTTGCGATTTTCATT
Done.