Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005860.1 Hibiscus syriacus cultivar Beakdansim tig00013773_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: 375081
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:235837 original size:2 final size:2
Alignment explanation
Indices: 235830--235859 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
235820 ATCAGAAAGG
235830 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
235860 AAACAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:239813 original size:25 final size:25
Alignment explanation
Indices: 239719--239834 Score: 84
Period size: 23 Copynumber: 4.8 Consensus size: 25
239709 TCAATTTAGT
* * *
239719 AATATTTTTAATAAATTAATAA-AT
1 AATATATTTAATAAGTTAATAATAA
* * * *
239743 TATATATTT-TTAA-ATAAAAATAA
1 AATATATTTAATAAGTTAATAATAA
* *
239766 ACTATTTTTAAATTAAGTTAATAATAA
1 AATATATTT-AA-TAAGTTAATAATAA
239793 AATATATTTAATAAGTTAAT-ATAA
1 AATATATTTAATAAGTTAATAATAA
239817 AA-ATATTT--TAAGTTAATA
1 AATATATTTAATAAGTTAATA
239835 TATATAAAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
21 9 0.12
22 5 0.07
23 16 0.22
24 13 0.18
25 9 0.12
26 5 0.07
27 15 0.21
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (25 bp):
AATATATTTAATAAGTTAATAATAA
Found at i:239898 original size:18 final size:19
Alignment explanation
Indices: 239871--239909 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
239861 GGTCACATGG
*
239871 TTCTTAAATT-TTTTATTT
1 TTCTTAAATTATATTATTT
*
239889 TTCTTTAATTATATTATTT
1 TTCTTAAATTATATTATTT
239908 TT
1 TT
239910 TAAAAGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTTAAATTATATTATTT
Found at i:239956 original size:26 final size:27
Alignment explanation
Indices: 239908--239958 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
239898 TATATTATTT
*
239908 TTTAAAAGTTGTATAAAAAATATAAAA
1 TTTAAAACTTGTATAAAAAATATAAAA
* *
239935 TTTAAAACTT-TATAATATATATAA
1 TTTAAAACTTGTATAAAAAATATAA
239959 TCCACATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (27 bp):
TTTAAAACTTGTATAAAAAATATAAAA
Found at i:240180 original size:39 final size:39
Alignment explanation
Indices: 240091--240180 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
240081 TAACTTTAAT
240091 GTGAAATAATTTAAGAAATTAAGATTATAAAACGTTATG
1 GTGAAATAATTTAAGAAATTAAGATTATAAAACGTTATG
* * * * *
240130 GTGTCAA-AATTTAAGAAATTATGATTTTAGAATGTTA-G
1 GTG-AAATAATTTAAGAAATTAAGATTATAAAACGTTATG
240168 AGTGAAATAATTT
1 -GTGAAATAATTT
240181 GAGGGGTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.07
39 37 0.88
40 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (39 bp):
GTGAAATAATTTAAGAAATTAAGATTATAAAACGTTATG
Found at i:240223 original size:13 final size:14
Alignment explanation
Indices: 240205--240234 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
240195 AAAATAATAT
240205 AAAACAAAAA-CAA
1 AAAACAAAAAGCAA
240218 AAAACAAAAAGCAA
1 AAAACAAAAAGCAA
240232 AAA
1 AAA
240235 GCATATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAGCAA
Found at i:240540 original size:31 final size:31
Alignment explanation
Indices: 240498--240556 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
240488 GTCGAGGGTA
*
240498 TACCTATGTTCTAAGGAACATATGGACATTT
1 TACCTAGGTTCTAAGGAACATATGGACATTT
** *
240529 TACCTAGGTTCTTCGGAACCTATGGACA
1 TACCTAGGTTCTAAGGAACATATGGACA
240557 GTTTCCAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (31 bp):
TACCTAGGTTCTAAGGAACATATGGACATTT
Found at i:241367 original size:23 final size:23
Alignment explanation
Indices: 241341--241385 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
241331 CACCACAGCT
*
241341 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
241364 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
241386 ATATAATGAT
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:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:241634 original size:149 final size:149
Alignment explanation
Indices: 241364--241668 Score: 583
Period size: 149 Copynumber: 2.0 Consensus size: 149
241354 CGAAGTGCCC
* *
241364 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
241429 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
241494 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
*
241513 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCGCATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
241578 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
241643 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
241662 CGTAGAC
1 CGTAGAC
241669 CCTCGACTCT
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:243194 original size:21 final size:21
Alignment explanation
Indices: 243170--243214 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
243160 TCTTGTTCGT
* *
243170 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
243191 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
243212 TTG
1 TTG
243215 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:246495 original size:23 final size:23
Alignment explanation
Indices: 246469--246513 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
246459 CACCACAGCT
*
246469 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
246492 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
246514 ATATAATGAT
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:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:246762 original size:149 final size:148
Alignment explanation
Indices: 246492--246795 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 148
246482 CGAAGTGCCC
* *
246492 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
246557 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
246622 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAA-CG
246641 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
246706 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
246771 CATATGTCCCTAAGAACG
131 CATATGTCCCTAAGAACG
246789 CGTAGAC
1 CGTAGAC
246796 CCTCGACTCT
Statistics
Matches: 153, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
148 9 0.06
149 144 0.94
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (148 bp):
CGTAGACTTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACG
Found at i:247269 original size:2 final size:2
Alignment explanation
Indices: 247262--247291 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
247252 TCTCTTAGAC
247262 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
247292 TCACATGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:248331 original size:21 final size:21
Alignment explanation
Indices: 248307--248351 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
248297 TCTTGTTCGT
* *
248307 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
248328 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
248349 TTG
1 TTG
248352 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:251577 original size:16 final size:16
Alignment explanation
Indices: 251556--251586 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
251546 TATATATATA
251556 TATATATGTATGTATT
1 TATATATGTATGTATT
251572 TATATATGTATGTAT
1 TATATATGTATGTAT
251587 GATAGTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TATATATGTATGTATT
Found at i:251801 original size:8 final size:8
Alignment explanation
Indices: 251790--251825 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
251780 ATAATTATTT
251790 AATTTATC
1 AATTTATC
251798 AATTTATC
1 AATTTATC
251806 AATTTATC
1 AATTTATC
* *
251814 AAATTATT
1 AATTTATC
251822 AATT
1 AATT
251826 ATTAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTATC
Found at i:258280 original size:18 final size:19
Alignment explanation
Indices: 258259--258305 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
258249 GCTAAAATTG
*
258259 GTATCGATA-CTAAGGCTA
1 GTATCGATACCTAAGGCAA
258277 GTATCGATACCCTAAGGCAA
1 GTATCGATA-CCTAAGGCAA
*
258297 GTATAGATA
1 GTATCGATA
258306 TTGACAAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
20 16 0.64
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (19 bp):
GTATCGATACCTAAGGCAA
Found at i:258567 original size:29 final size:29
Alignment explanation
Indices: 258525--258587 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
258515 CTGGGTTACT
258525 TGAGCGTATGTATATACTATTAAAATACG
1 TGAGCGTATGTATATACTATTAAAATACG
*
258554 TGAGCGTATGTATATACTATTCAAATACG
1 TGAGCGTATGTATATACTATTAAAATACG
258583 TGAGC
1 TGAGC
258588 AGAGATATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (29 bp):
TGAGCGTATGTATATACTATTAAAATACG
Found at i:260006 original size:14 final size:14
Alignment explanation
Indices: 259987--260016 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
259977 ATCCTTGATG
259987 ATTTAACGGTTCAT
1 ATTTAACGGTTCAT
260001 ATTTAACGGTTCAT
1 ATTTAACGGTTCAT
260015 AT
1 AT
260017 ATAAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (14 bp):
ATTTAACGGTTCAT
Found at i:264034 original size:150 final size:150
Alignment explanation
Indices: 263763--264062 Score: 573
Period size: 150 Copynumber: 2.0 Consensus size: 150
263753 TCATTTATAC
263763 GTTTCTAGTCATGCATAATCCAGTTATTAACTTTCATCTATTAAATTCTGAATGCAATATTATAA
1 GTTTCTAGTCATGCATAATCCAGTTATTAACTTTCATCTATTAAATTCTGAATGCAATATTATAA
* *
263828 TTTATAACTTAAAACAACTTTGAAATAGTTAAGGTTGGTCTAATTATGCTTTCCCCTTTTTTCTT
66 TTTATAACTTAAAACAACTTTGAAACAGTTAAGGTTGGTCTAATTATGCCTTCCCCTTTTTTCTT
263893 TGAACAATCATTTCCCTTAT
131 TGAACAATCATTTCCCTTAT
263913 GTTTCTAGTCATGCATAATCCAGTTATTAACTTTCATCTATTAAATTCTGAATGCAATATTATAA
1 GTTTCTAGTCATGCATAATCCAGTTATTAACTTTCATCTATTAAATTCTGAATGCAATATTATAA
*
263978 TTTATAACTTAAAACAACTTTGAAACAGTTAAGGTTGGTCTATTTATGCCTTCCCCTTTTTTCTT
66 TTTATAACTTAAAACAACTTTGAAACAGTTAAGGTTGGTCTAATTATGCCTTCCCCTTTTTTCTT
264043 TGAACAATCATTTCCCTTAT
131 TGAACAATCATTTCCCTTAT
264063 CATCCTCAGT
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (150 bp):
GTTTCTAGTCATGCATAATCCAGTTATTAACTTTCATCTATTAAATTCTGAATGCAATATTATAA
TTTATAACTTAAAACAACTTTGAAACAGTTAAGGTTGGTCTAATTATGCCTTCCCCTTTTTTCTT
TGAACAATCATTTCCCTTAT
Found at i:268069 original size:30 final size:30
Alignment explanation
Indices: 268033--268091 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
268023 ATGTAAATCT
*
268033 TAATCGGGTCTTAGACATATCCTGATCCTA
1 TAATCGGGTCTTAGACATACCCTGATCCTA
*
268063 TAATCGGGTCTTAGATATACCCTGATCCT
1 TAATCGGGTCTTAGACATACCCTGATCCT
268092 GGACTGGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (30 bp):
TAATCGGGTCTTAGACATACCCTGATCCTA
Found at i:270291 original size:12 final size:12
Alignment explanation
Indices: 270274--270299 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
270264 TCATTTGATT
270274 TAAAATAAATAA
1 TAAAATAAATAA
270286 TAAAATAAATAA
1 TAAAATAAATAA
270298 TA
1 TA
270300 TTATCGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:276803 original size:20 final size:20
Alignment explanation
Indices: 276778--276826 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
276768 GTTCTCAGTA
* *
276778 GGTTCTCAGTCGGTTTTGCC
1 GGTTCTCAGTCGGTTCTACC
276798 GGTTCTCAGTCGGTTCTACC
1 GGTTCTCAGTCGGTTCTACC
276818 GGTTCTCAG
1 GGTTCTCAG
276827 CCGATTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.27, G:0.29, T:0.37
Consensus pattern (20 bp):
GGTTCTCAGTCGGTTCTACC
Found at i:276811 original size:11 final size:11
Alignment explanation
Indices: 276766--276826 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
276756 CCGGTTTTGC
276766 CGGTTCTCAGT
1 CGGTTCTCAGT
*
276777 AGGTTCTCAGT
1 CGGTTCTCAGT
* *
276788 CGGTT-T-TGC
1 CGGTTCTCAGT
276797 CGGTTCTCAGT
1 CGGTTCTCAGT
*
276808 CGGTTCT-A-C
1 CGGTTCTCAGT
276817 CGGTTCTCAG
1 CGGTTCTCAG
276827 CCGATTCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 13 0.33
10 4 0.10
11 22 0.56
ACGTcount: A:0.10, C:0.26, G:0.28, T:0.36
Consensus pattern (11 bp):
CGGTTCTCAGT
Found at i:277400 original size:23 final size:23
Alignment explanation
Indices: 277374--277417 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
277364 AATAAATTAA
277374 TAGAATATATAAATATTAAGGAT
1 TAGAATATATAAATATTAAGGAT
277397 TAGAATATATAAATATTAAGG
1 TAGAATATATAAATATTAAGG
277418 GTTAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (23 bp):
TAGAATATATAAATATTAAGGAT
Found at i:284162 original size:31 final size:31
Alignment explanation
Indices: 284127--284187 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
284117 GAACTACTCA
*
284127 CGAGCTTCAGTTCAGGA-TTTCGAGTTCGAGT
1 CGAGCTTCAGTTCAGAATTTTCGAG-TCGAGT
*
284158 CGAGCTTCATTTCAGAATTTTCGAGTCGAG
1 CGAGCTTCAGTTCAGAATTTTCGAGTCGAG
284188 CTCAGCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (31 bp):
CGAGCTTCAGTTCAGAATTTTCGAGTCGAGT
Found at i:292602 original size:31 final size:31
Alignment explanation
Indices: 292560--292618 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
292550 AATTTAAAAG
*
292560 AGTTTTGTAATACT-AAGATTTAAATAATTTT
1 AGTTTTATAATACTGAA-ATTTAAATAATTTT
292591 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTATAATACTGAAATTTAAATAAT
292619 CCATACAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTATAATACTGAAATTTAAATAATTTT
Found at i:292694 original size:22 final size:22
Alignment explanation
Indices: 292645--292693 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
292635 ATAAATTATT
**
292645 TAAAATAAATCAATCCAGATTT
1 TAAAATAAATCAATCCAGATAA
*
292667 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCAGA-TAA
292690 TAAA
1 TAAA
292694 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCAGATAA
Found at i:292697 original size:54 final size:54
Alignment explanation
Indices: 292633--293379 Score: 621
Period size: 54 Copynumber: 13.8 Consensus size: 54
292623 ACAACTACAA
*
292633 TAATAAATTATTTAAAATAAATCAATCCAGATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * ** * *
292687 TAATAAATTATTTAAAATAAATTAATCTATACAACTACAATAATAAATCAATTCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * *
292747 TAAAATAAATCGATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCTATA-
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * ** **
292798 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* * *
292853 -AACTACA--A--T--AATAAATCAATCAATATTTTAAAATAAATCAATCGATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
292901 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** * *
292955 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATGAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * *
293015 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
293067 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** *
293115 TAATAAATTATTTAAAATAAATCAATATATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
293169 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
*
293227 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATATATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
293281 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
293335 TAATAAAATATTTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAAT
293380 TATTTAAAAA
Statistics
Matches: 564, Mismatches: 75, Indels: 107
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
45 1 0.00
47 5 0.01
48 58 0.10
49 12 0.02
50 13 0.02
51 2 0.00
52 2 0.00
53 2 0.00
54 284 0.50
55 46 0.08
56 2 0.00
57 12 0.02
58 75 0.13
59 2 0.00
60 2 0.00
62 26 0.05
63 12 0.02
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:292738 original size:80 final size:80
Alignment explanation
Indices: 292648--292797 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
292638 AATTATTTAA
*
292648 AATAAATCAATCCAGATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCCAGATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
292713 CTATACAACTACAAT
66 CTATACAACTACAAT
* * * *
292728 AATAAATCAATTCATATTTTAAAATAAATCGATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCAGATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
292793 CTATA
66 CTATA
292798 TTTTAAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (80 bp):
AATAAATCAATCCAGATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CTATACAACTACAAT
Found at i:292784 original size:32 final size:32
Alignment explanation
Indices: 292745--293417 Score: 245
Period size: 32 Copynumber: 23.2 Consensus size: 32
292735 CAATTCATAT
* *
292745 TTTAAAATAAATCGATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
292777 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
292799 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
292831 TTTAAAATAAATCAATCCATAC-AACTACAA-TA
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTA
* * ** *
292863 -AT-AAATCAATCAAT--ATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATACT--AATAAAT-TA
* * * ** * * *
292894 TCGATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACT-AATAAAT---TA
*
292932 TTTTAAAATAAATCAATACATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
*
292965 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
292995 --T--AATAAATGAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293020 -------TAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293045 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
293075 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
293093 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
293125 TTTAAAATAAATC-A---ATA-T-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293147 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293179 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
293209 --T--AATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
293237 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293259 TTTAAAATATATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
293291 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293313 TTTAAAATAAATCAATCCATACTAATAAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
293345 TTTTAAAATAAATCAATCCATATTTTATAATAAATTA
1 -TTTAAAATAAATCAATCCATA----CTAATAAATTA
*
293382 TTTAAAAATAAAT-AAT-C-T--TATTAAATTA
1 TTT-AAAATAAATCAATCCATACTAATAAATTA
293410 TTTAAAAT
1 TTTAAAAT
293418 TATTTTAATA
Statistics
Matches: 499, Mismatches: 42, Indels: 205
0.67 0.06 0.27
Matches are distributed among these distances:
20 1 0.00
22 83 0.17
23 14 0.03
24 6 0.01
25 6 0.01
26 65 0.13
27 13 0.03
28 33 0.07
29 2 0.00
30 21 0.04
31 20 0.04
32 143 0.29
33 25 0.05
34 3 0.01
35 3 0.01
36 32 0.06
37 27 0.05
38 1 0.00
39 1 0.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:292784 original size:134 final size:134
Alignment explanation
Indices: 292633--293257 Score: 858
Period size: 134 Copynumber: 4.6 Consensus size: 134
292623 ACAACTACAA
*
292633 TAATAAATTATTTAAAATAAATCAATCCAGATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * *
292698 TTAAAATAAATTAATCTATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCGAT-T
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATCT
292762 CATAC
131 -ATAC
*
292767 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
292832 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAA-TCAATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTC-ATATTTTAAAATAAATCAATC
*
292896 GATAC
130 TATAC
*
292901 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
292966 TTAAAATAAATCAATCCATACAACTACAATAATAAATGAATCCATATTTTAAAATAAATCAATCT
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATCT
293031 ATAC
131 ATAC
*** * * * *
293035 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
*
293093 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATAT-ATATTTTAAAATA
65 TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAAT-TCATATTTTAAAATA
293156 AATCAATCTATAC
122 AATCAATCTATAC
* **
293169 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAATAAA
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
293234 TTATTTAAAATAAATCAATCCATA
62 TTATTTAAAATAAATCAATCCATA
293258 TTTTAAAATA
Statistics
Matches: 438, Mismatches: 30, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
128 25 0.06
129 3 0.01
130 2 0.00
132 3 0.01
133 3 0.01
134 356 0.81
135 6 0.01
136 1 0.00
137 4 0.01
138 9 0.02
139 1 0.00
140 2 0.00
142 1 0.00
143 1 0.00
144 21 0.05
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATCT
ATAC
Found at i:292828 original size:22 final size:22
Alignment explanation
Indices: 292779--292827 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
292769 ATAAATTATT
* **
292779 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
292801 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
292824 TAAA
1 TAAA
292828 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:292866 original size:80 final size:80
Alignment explanation
Indices: 292782--292931 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
292772 AATTATTTAA
*
292782 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
292847 CCATACAACTACAAT
66 CCATACAACTACAAT
*
292862 AATAAATCAATCAATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
292927 CCATA
66 CCATA
292932 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:292937 original size:22 final size:22
Alignment explanation
Indices: 292911--292953 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
292901 TAATAAATTA
*
292911 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
292933 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
292954 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:292962 original size:22 final size:22
Alignment explanation
Indices: 292913--292961 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
292903 ATAAATTATT
* **
292913 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
292935 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
292958 TAAA
1 TAAA
292962 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:293000 original size:80 final size:81
Alignment explanation
Indices: 292879--293311 Score: 469
Period size: 80 Copynumber: 5.3 Consensus size: 81
292869 CAATCAATAT
*
292879 TTTAAAATAAATCAATCGATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATCCATAC-AACTAAA--A--T-AAATAAATCAATCCATATTTTAAAATAA
*
292943 ATCAATACATACTAATAAATTA
60 ATCAATCCATACTAATAAATTA
* *
292965 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATGAATCCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
*
293029 CTATACTAATAAATTA
66 CCATACTAATAAATTA
*
293045 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATCCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
293109 CCATACTAATAAATTA
66 CCATACTAATAAATTA
* ** * * *
293125 TTTAAAATAAATCAAT--ATATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATA
1 TTTAAAATAAATCAATCCATACA-ACTAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATA
*
293188 AATCAATCCATAC-AACTACA--A
59 AATCAATCCATACTAA-TAAATTA
*
293209 --T--AATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAT
1 TTTAAAATAAATCAATCCATAC-AACTAAA--A--T-AAATAAATCAATCCATATTTTAAAATAA
293269 ATCAATCCATACTAATAAATTA
60 ATCAATCCATACTAATAAATTA
293291 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
293312 TTTTAAAATA
Statistics
Matches: 300, Mismatches: 22, Indels: 50
0.81 0.06 0.13
Matches are distributed among these distances:
78 4 0.01
79 5 0.02
80 184 0.61
81 8 0.03
82 9 0.03
83 2 0.01
84 6 0.02
85 7 0.02
86 75 0.25
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (81 bp):
TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATACTAATAAATTA
Found at i:293122 original size:22 final size:23
Alignment explanation
Indices: 293047--293121 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
293037 ATAAATTATT
293047 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
293069 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
293095 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
293118 TAAA
1 TAAA
293122 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:293129 original size:112 final size:108
Alignment explanation
Indices: 292633--293367 Score: 506
Period size: 112 Copynumber: 6.8 Consensus size: 108
292623 ACAACTACAA
*
292633 TAATAAATTATTTAAAATAAATCAATCCAGATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * * ** * *
292698 TTAAAATAAATTAATC-TATACAACTACAATAATAAATCAATTCATATTT
63 TTAAAATAAATCAATCATATA-TATTTTAA-AATAAATCAATCCATA--C
* *
292747 TAAAATAAATCGATT-CATACTAATAAAT---TA-TTTAAAATAAATC-A---AT-CT-AT--A-
1 T--AATAAAT--ATTAAATA--AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT
292798 T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
60 TATTTAAAATAAATCAAT-CATA-T-AT--A-T-TTTAAAATAAATCAATCCATAC
* * *
292853 -AACTACA-A-T-AATAAATCAATCAATATTTTAAAATAAATCAATCGATACTAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
* *
292914 AAAATAAATCAATC---CATATTTTAAAATAAATCAATACATAC
65 AAAATAAATCAATCATATATATTTTAAAATAAATCAATCCATAC
*** * * ** *
292955 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATGAAT-C-CAT--A-T-
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
293013 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC
62 TTTAAAATAAATCAATC-ATA-T-AT--A-T-TTTAAAATAAATCAATCCATAC
*
293067 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
*
293128 AAAATAAATC-A--ATATATATTTTAAAATAAATCAATCTATAC
65 AAAATAAATCAATCATATATATTTTAAAATAAATCAATCCATAC
* **
293169 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAATAAA
1 TAATAAA-TA-TT-AAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
* *
293234 TTATTTAAAATAAATCAATC---CATATTTTAAAATATATCAATCCATAC
59 TTATTTAAAATAAATCAATCATATATATTTTAAAATAAATCAATCCATAC
*
293281 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-
293346 TTTAAAATAAATCAATCCATAT
62 TTTAAAATAAATCAAT-CATAT
293368 TTTATAATAA
Statistics
Matches: 498, Mismatches: 49, Indels: 149
0.72 0.07 0.21
Matches are distributed among these distances:
98 6 0.01
100 4 0.01
101 3 0.01
102 93 0.19
103 12 0.02
104 11 0.02
105 6 0.01
106 37 0.07
107 8 0.02
108 91 0.18
109 28 0.06
110 5 0.01
111 12 0.02
112 160 0.32
113 2 0.00
114 4 0.01
115 1 0.00
116 14 0.03
117 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (108 bp):
TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
AAATAAATCAATCATATATATTTTAAAATAAATCAATCCATAC
Found at i:293141 original size:22 final size:22
Alignment explanation
Indices: 293116--293162 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
293106 AATCCATACT
293116 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
293138 AATATATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
293160 AAT
1 AAT
293163 CTATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:293167 original size:22 final size:22
Alignment explanation
Indices: 293125--293167 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
293115 TAATAAATTA
293125 TTTAAAATAAATCAATATATAT
1 TTTAAAATAAATCAATATATAT
*
293147 TTTAAAATAAATCAATCTATA
1 TTTAAAATAAATCAATATATA
293168 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATATATAT
Found at i:293176 original size:22 final size:22
Alignment explanation
Indices: 293127--293175 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
293117 ATAAATTATT
**
293127 TAAAATAAATCAATATATATTT
1 TAAAATAAATCAATATATATAA
*
293149 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATATATA-TAA
293172 TAAA
1 TAAA
293176 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATATATATAA
Found at i:293263 original size:22 final size:22
Alignment explanation
Indices: 293237--293279 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
293227 TAATAAATTA
293237 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
293259 TTTAAAATATATCAATCCATA
1 TTTAAAATAAATCAATCCATA
293280 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:293288 original size:22 final size:22
Alignment explanation
Indices: 293239--293287 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
293229 ATAAATTATT
**
293239 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
293261 TAAAATATATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
293284 TAAA
1 TAAA
293288 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:293317 original size:22 final size:22
Alignment explanation
Indices: 293291--293333 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
293281 TAATAAATTA
293291 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
293313 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
293334 CTAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:293390 original size:37 final size:33
Alignment explanation
Indices: 293309--293398 Score: 110
Period size: 33 Copynumber: 2.6 Consensus size: 33
293299 AAATCAATCC
*
293309 ATATTTTAAAATAAATCAATCCATACTAATAAA
1 ATATTTTAAAATAAATCAATCCATAATAATAAA
293342 ATATTTTAAAATAAATCAATCCATATTTTATAATAAA
1 ATATTTTAAAATAAATCAATCCATA----ATAATAAA
* *
293379 TTATTTAAAAATAAAT-AATC
1 ATATTTTAAAATAAATCAATC
293399 TTATTAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 25 0.50
36 4 0.08
37 21 0.42
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (33 bp):
ATATTTTAAAATAAATCAATCCATAATAATAAA
Found at i:294121 original size:2 final size:2
Alignment explanation
Indices: 294114--294143 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
294104 TAATAACCTA
294114 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
294144 TAACATTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:294926 original size:21 final size:23
Alignment explanation
Indices: 294882--294929 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
294872 CGGATAATTA
*
294882 TAAATTAGTTTAAAATGGAAGGG
1 TAAATTAGTTTAAAATGAAAGGG
294905 TAAATTA-TTTAAAAT-AAAGGG
1 TAAATTAGTTTAAAATGAAAGGG
294926 TAAA
1 TAAA
294930 CTATACTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (23 bp):
TAAATTAGTTTAAAATGAAAGGG
Found at i:295618 original size:23 final size:23
Alignment explanation
Indices: 295586--295629 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
295576 ACCTTTAAAT
*
295586 TTTAATTAATTTATAATTATATG
1 TTTAACTAATTTATAATTATATG
295609 TTTAACTAATTTATAATTATA
1 TTTAACTAATTTATAATTATA
295630 CGTTGAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTAACTAATTTATAATTATATG
Found at i:318980 original size:29 final size:29
Alignment explanation
Indices: 318947--319017 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
318937 TATTGCTGAG
318947 CTCGACTCAAACTTTAAAAGTAAACTCAA
1 CTCGACTCAAACTTTAAAAGTAAACTCAA
*
318976 CTCGACTCAAACTTTAAAAGTAAGCTCAA
1 CTCGACTCAAACTTTAAAAGTAAACTCAA
319005 CTCGACTCAAACT
1 CTCGACTCAAACT
319018 CACGAACTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (29 bp):
CTCGACTCAAACTTTAAAAGTAAACTCAA
Found at i:322696 original size:18 final size:19
Alignment explanation
Indices: 322661--322697 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
322651 CACGGAATGT
322661 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
322681 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
322698 CGATTAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:323265 original size:29 final size:29
Alignment explanation
Indices: 323223--323289 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
323213 GATTACCGGA
*
323223 AATGAGAATACAGGCCAACCAAATGGGGG
1 AATGTGAATACAGGCCAACCAAATGGGGG
323252 AATGTGAATACAGGCCAACCAAATGGGGG
1 AATGTGAATACAGGCCAACCAAATGGGGG
323281 AATGTGAAT
1 AATGTGAAT
323290 TCCATTCCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.30, T:0.15
Consensus pattern (29 bp):
AATGTGAATACAGGCCAACCAAATGGGGG
Found at i:323523 original size:44 final size:41
Alignment explanation
Indices: 323464--323545 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 41
323454 TATCTCGATG
*
323464 TGATAAATTTTAATAAAAAATTTATATTTTATTAGAACTCGAGA
1 TGATAAATTTGAAT-AAAAA--TATATTTTATTAGAACTCGAGA
* *
323508 TGATAAGTTTGAATAAAAATATTTTTTATTAGAACTCG
1 TGATAAATTTGAATAAAAATATATTTTATTAGAACTCG
323546 TTTTCTCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 18 0.51
43 5 0.14
44 12 0.34
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (41 bp):
TGATAAATTTGAATAAAAATATATTTTATTAGAACTCGAGA
Found at i:331368 original size:12 final size:12
Alignment explanation
Indices: 331336--331369 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
331326 ATGAAGTAAG
331336 TTTTCTTTTCCT
1 TTTTCTTTTCCT
*
331348 TTTCCTTTTCCT
1 TTTTCTTTTCCT
*
331360 TTTTGTTTTC
1 TTTTCTTTTC
331370 TTTGATGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTCCT
Found at i:349789 original size:4 final size:4
Alignment explanation
Indices: 349780--349809 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
349770 ATGTAAAACA
349780 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
349810 CTTCTCGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:350731 original size:32 final size:31
Alignment explanation
Indices: 350676--350783 Score: 141
Period size: 32 Copynumber: 3.5 Consensus size: 31
350666 GTCTGCATGT
350676 GCCATGCACGTCCCCAACACCCCAACACAGGTC
1 GCCATGCAC-T-CCCAACACCCCAACACAGGTC
350709 GCCATGCACTCCCTAACACCCCAACACAGGTC
1 GCCATGCACTCCC-AACACCCCAACACAGGTC
* *
350741 GCAATGCACTCCCAACGA--CCTACA-AGGTC
1 GCCATGCACTCCCAAC-ACCCCAACACAGGTC
350770 GCCATGCACTCCCA
1 GCCATGCACTCCCA
350784 GTGACCTTGT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
29 18 0.26
30 5 0.07
31 6 0.09
32 32 0.46
33 9 0.13
ACGTcount: A:0.28, C:0.45, G:0.15, T:0.12
Consensus pattern (31 bp):
GCCATGCACTCCCAACACCCCAACACAGGTC
Found at i:350802 original size:29 final size:29
Alignment explanation
Indices: 350704--350783 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
350694 ACCCCAACAC
*
350704 AGGTCGCCATGCACTCCCTAAC-ACCCCAACA
1 AGGTCGCCATGCACTCCC-AACGA--CCTACA
*
350735 CAGGTCGCAATGCACTCCCAACGACCTACA
1 -AGGTCGCCATGCACTCCCAACGACCTACA
350765 AGGTCGCCATGCACTCCCA
1 AGGTCGCCATGCACTCCCA
350784 GTGACCTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 18 0.41
30 5 0.11
31 3 0.07
32 18 0.41
ACGTcount: A:0.28, C:0.42, G:0.16, T:0.14
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAACGACCTACA
Found at i:354170 original size:21 final size:21
Alignment explanation
Indices: 354146--354185 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
354136 ATTAGACATG
*
354146 GGGAATCGGTACCTCCTGGGA
1 GGGAATCGGTACCCCCTGGGA
*
354167 GGGAATCTGTACCCCCTGG
1 GGGAATCGGTACCCCCTGG
354186 ACAATCTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (21 bp):
GGGAATCGGTACCCCCTGGGA
Found at i:356142 original size:3 final size:3
Alignment explanation
Indices: 356134--356174 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
356124 TACGTCCTCA
* *
356134 TTC TTC TTC TTC TTC TTC TTC TTC TTG TTT TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
356175 CCTTTCTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:357597 original size:20 final size:20
Alignment explanation
Indices: 357554--357635 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 20
357544 CCGTTAGACA
** *
357554 GGGGGGAATCGATATCCCCT
1 GGGGGGAATCTTTACCCCCT
*
357574 -GGGGGAATCTTTTCCCCCT
1 GGGGGGAATCTTTACCCCCT
*
357593 GGGGGGAAT-TTGTACCCTCT
1 GGGGGGAATCTT-TACCCCCT
*
357613 GGGGGGGAATCTATACCCCCT
1 -GGGGGGAATCTTTACCCCCT
357634 GG
1 GG
357636 ACAATCTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 17 0.34
20 16 0.32
21 16 0.32
22 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.34, T:0.24
Consensus pattern (20 bp):
GGGGGGAATCTTTACCCCCT
Found at i:357598 original size:21 final size:21
Alignment explanation
Indices: 357574--357635 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
357564 GATATCCCCT
*
357574 GGGGGAATCTTTTCCCCCT-G
1 GGGGGAATCTTTACCCCCTGG
*
357594 GGGGGAAT-TTGTACCCTCTGG
1 GGGGGAATCTT-TACCCCCTGG
*
357615 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTTTACCCCCTGG
357636 ACAATCTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
21 18 0.51
22 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.34, T:0.26
Consensus pattern (21 bp):
GGGGGAATCTTTACCCCCTGG
Found at i:357995 original size:32 final size:32
Alignment explanation
Indices: 357954--358046 Score: 109
Period size: 31 Copynumber: 2.9 Consensus size: 32
357944 AGTCGAGGGT
357954 TTACCTATG-TCTTTCGGGACATATGGACAGGA
1 TTACCTATGTTC-TTCGGGACATATGGACAGGA
** * *
357986 TTACCTATGTTCTAAGGAACATATGGACA-GT
1 TTACCTATGTTCTTCGGGACATATGGACAGGA
* *
358017 TTACCTAGGTTCTTCGGGACCTATGGACAG
1 TTACCTATGTTCTTCGGGACATATGGACAG
358047 TTGTCGAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
31 25 0.50
32 23 0.46
33 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (32 bp):
TTACCTATGTTCTTCGGGACATATGGACAGGA
Found at i:360692 original size:103 final size:104
Alignment explanation
Indices: 360457--360676 Score: 379
Period size: 105 Copynumber: 2.1 Consensus size: 104
360447 GTCGAGGGTC
* *
360457 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGCTGAGACGCGCAT
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGCTGAGAC-CACAT
*
360522 ACTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 ACTTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
*
360562 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGA-CACATA
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGCTGAGACCACATA
*
360626 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGA
66 CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
360665 TATGTGGTCCTT
1 TATGTGGTCCTT
360677 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 54 0.49
105 56 0.51
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (104 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGCTGAGACCACATA
CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:366461 original size:103 final size:103
Alignment explanation
Indices: 366236--366453 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
366226 GTCGAGGGTC
366236 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* **
366301 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
*
366339 CATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
366404 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
366442 TATGTGGTCCTT
1 TATGTGGTCCTT
366454 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAACATATGTATATGATTCTTAAGGAATGA
Found at i:366519 original size:23 final size:23
Alignment explanation
Indices: 366460--366537 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
366450 CCTTATGGAC
* * *
366460 ATTATTATATGGCACTATGGTGTA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
366484 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
366507 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
366530 ATTATATG
1 ATTATATG
366538 AGCTATGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:368088 original size:35 final size:35
Alignment explanation
Indices: 368041--368154 Score: 138
Period size: 35 Copynumber: 3.3 Consensus size: 35
368031 AAAATAGTCC
* * *
368041 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* *
368076 TCAATTTTATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
368111 TCAATTAAATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
368146 TTAATTTAA
1 TCAATTTAA
368155 GGTTTAGAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:369959 original size:35 final size:35
Alignment explanation
Indices: 369919--370030 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 35
369909 TCTAAACCTT
* * *
369919 AAATTGAAGTATTTTAGAATTTGAGGTTTAGAATT
1 AAATTGAATTATTTTGGAATTTGAGGTTTAGAATA
*
369954 TAATTGAATTATTTTGGAATTT-AGGGTTTAGAATA
1 AAATTGAATTATTTTGGAATTTGA-GGTTTAGAATA
* * * *
369989 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGAGGTTTAGAATA
370024 AAATTGA
1 AAATTGA
370031 GGACTGTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.02
35 65 0.98
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGAGGTTTAGAATA
Done.