Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold265
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: 864291
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 6 of 6
Found at i:691351 original size:66 final size:63
Alignment explanation
Indices: 691229--691364 Score: 184
Period size: 63 Copynumber: 2.1 Consensus size: 63
691219 AGAAGATTCA
* * * * *
691229 TCATTATTAGCTACTGTCACTACTATAACCCATCTCTAGAGTCATATTGATGATATATTGTTC
1 TCATCATTAGCTACTGTCACTACTATAACCCATATCTACAGTCATATTGATAATATATCGTTC
691292 TCATCATTAGCTACTGTCACTACTATAACCCATATCAATATTCA-TCATATTGATAATATATCGT
1 TCATCATTAGCTACTGTCACTACTATAACCCATATC--TA--CAGTCATATTGATAATATATCGT
691356 TC
62 TC
691358 TCATCAT
1 TCATCAT
691365 CCTTGCTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
63 34 0.53
65 2 0.03
66 27 0.42
67 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (63 bp):
TCATCATTAGCTACTGTCACTACTATAACCCATATCTACAGTCATATTGATAATATATCGTTC
Found at i:693670 original size:29 final size:29
Alignment explanation
Indices: 693625--693683 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
693615 TAAATAATTT
* *
693625 AAAATTTTATATAATATTGAATTATTATAA
1 AAAATTATATATAATA-TGAAATATTATAA
*
693655 AAAATTATATA-AATATGAAATATTTTAA
1 AAAATTATATATAATATGAAATATTATAA
693683 A
1 A
693684 TATAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 4 0.15
30 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAATTATATATAATATGAAATATTATAA
Found at i:693886 original size:24 final size:24
Alignment explanation
Indices: 693858--693910 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
693848 AATTTATGTT
*
693858 TTTATTGTTTT-TATTTTATAAATA
1 TTTATAGTTTTCT-TTTTATAAATA
* *
693882 TTTATAGTTTTCTTTTTTTTAATA
1 TTTATAGTTTTCTTTTTATAAATA
693906 TTTAT
1 TTTAT
693911 GTAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTATAGTTTTCTTTTTATAAATA
Found at i:694304 original size:32 final size:33
Alignment explanation
Indices: 694241--694304 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
694231 ATATTTTAAT
* *
694241 TAAAATAATATAAATATTATTTAAATTTAATTA
1 TAAAATAATATAAATATTATATAAATGTAATTA
694274 TAAAAT-ATATAAATATTAATATAAA-GTAATT
1 TAAAATAATATAAATATT-ATATAAATGTAATT
694305 TTTTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (33 bp):
TAAAATAATATAAATATTATATAAATGTAATTA
Found at i:694396 original size:21 final size:22
Alignment explanation
Indices: 694359--694399 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
694349 ATCATCTAAA
694359 TTTAAATTTAAAATTTAATTTT
1 TTTAAATTTAAAATTTAATTTT
*
694381 TTTAAA-TTATAATTTAATT
1 TTTAAATTTAAAATTTAATT
694400 GGACTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTAAATTTAAAATTTAATTTT
Found at i:697064 original size:25 final size:25
Alignment explanation
Indices: 697036--697086 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
697026 AATTTTAAAA
*
697036 TTAAATTTGATATTCA-TTTATATAT
1 TTAAATTTGAT-TTAATTTTATATAT
* *
697061 TTAATTTTTATTTAATTTTATATAT
1 TTAAATTTGATTTAATTTTATATAT
697086 T
1 T
697087 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTAAATTTGATTTAATTTTATATAT
Found at i:697181 original size:14 final size:14
Alignment explanation
Indices: 697162--697188 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
697152 TCGAATGAAA
697162 ATTTGAATAATAAT
1 ATTTGAATAATAAT
697176 ATTTGAATAATAA
1 ATTTGAATAATAA
697189 ATAAGTAAAT
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTTGAATAATAAT
Found at i:697276 original size:2 final size:2
Alignment explanation
Indices: 697271--697300 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
697261 TATATATTGG
697271 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
697301 GTAATAATGT
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:702826 original size:5 final size:5
Alignment explanation
Indices: 702816--702844 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
702806 ATTTGACGAC
702816 TGCCT TGCCT TGCCT TGCCT TGCCT TGCC
1 TGCCT TGCCT TGCCT TGCCT TGCCT TGCC
702845 CGCTCAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.41, G:0.21, T:0.38
Consensus pattern (5 bp):
TGCCT
Found at i:704124 original size:16 final size:16
Alignment explanation
Indices: 704072--704125 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
704062 TTATAATATT
704072 ATATAAAATTT-AA-AA
1 ATAT-AAATTTAAATAA
*
704087 ATAT-ATTTTAAATAA
1 ATATAAATTTAAATAA
704102 A-ATTAAATTTAAATAA
1 ATA-TAAATTTAAATAA
704118 ATATAAAT
1 ATATAAAT
704126 AATATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 8 0.25
16 16 0.50
17 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAATTTAAATAA
Found at i:704136 original size:20 final size:20
Alignment explanation
Indices: 704095--704134 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
704085 AAATATATTT
704095 TAAATAAAATTAAATTTAAA
1 TAAATAAAATTAAATTTAAA
704115 TAAATATAAA-TAATATTTAA
1 TAAATA-AAATTAA-ATTTAA
704135 TATTATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATAAAATTAAATTTAAA
Found at i:704331 original size:16 final size:16
Alignment explanation
Indices: 704310--704360 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
704300 TCTGACCCAG
*
704310 ATTTTATATTTAAATT
1 ATTTTAAATTTAAATT
* *
704326 ATTTTAAAATTAAATC
1 ATTTTAAATTTAAATT
*
704342 ATTTAAAATTTAAATT
1 ATTTTAAATTTAAATT
704358 ATT
1 ATT
704361 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:704365 original size:16 final size:16
Alignment explanation
Indices: 704317--704374 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
704307 CAGATTTTAT
704317 ATTTAAATTATTTTAAA
1 ATTTAAATTA-TTTAAA
*
704334 A-TTAAATCATTTAAA
1 ATTTAAATTATTTAAA
*
704349 ATTTAAATTATTAAAA
1 ATTTAAATTATTTAAA
*
704365 AATT-AATTAT
1 ATTTAAATTAT
704375 AATATTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.36
16 22 0.61
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAAATTATTTAAA
Found at i:708345 original size:21 final size:21
Alignment explanation
Indices: 708321--708369 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
708311 ATATAAAATT
708321 TTATATGTA-CGATGAGTATTA
1 TTATAT-TATCGATGAGTATTA
*
708342 TTATATTATTGATGAGTATTA
1 TTATATTATCGATGAGTATTA
708363 TTATATT
1 TTATATT
708370 GTTAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (21 bp):
TTATATTATCGATGAGTATTA
Found at i:710302 original size:7 final size:7
Alignment explanation
Indices: 710287--710317 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
710277 TCTATTCTCT
*
710287 TTCAGTC
1 TTCAATC
710294 TTCAATC
1 TTCAATC
710301 TTCAATC
1 TTCAATC
710308 TTCAATC
1 TTCAATC
710315 TTC
1 TTC
710318 GTTTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.45
Consensus pattern (7 bp):
TTCAATC
Found at i:712214 original size:21 final size:21
Alignment explanation
Indices: 712188--712230 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
712178 CTTCAAGGAA
712188 TCCTAGATGCTTCAACATCCG
1 TCCTAGATGCTTCAACATCCG
712209 TCCTAGATGCTTCAACATCCG
1 TCCTAGATGCTTCAACATCCG
712230 T
1 T
712231 ATAAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (21 bp):
TCCTAGATGCTTCAACATCCG
Found at i:713769 original size:2 final size:2
Alignment explanation
Indices: 713762--713801 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
713752 GAATTCTTTT
*
713762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
713802 AAATAGGATG
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:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:715026 original size:6 final size:6
Alignment explanation
Indices: 715017--715043 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
715007 TATATATATA
715017 TATAGT TATAGT TATAGT TATAGT TAT
1 TATAGT TATAGT TATAGT TATAGT TAT
715044 CGCTCTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATAGT
Found at i:715420 original size:3 final size:3
Alignment explanation
Indices: 715412--715455 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
715402 CACTCTACAT
715412 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
715456 TTAAAACTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:715614 original size:2 final size:2
Alignment explanation
Indices: 715601--715646 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
715591 TGTTGTGTAT
* * * *
715601 AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AG AG AC AC AC CC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
715643 AC AC
1 AC AC
715647 TTACATATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.46, G:0.04, T:0.00
Consensus pattern (2 bp):
AC
Found at i:717104 original size:2 final size:2
Alignment explanation
Indices: 717097--717129 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
717087 GAGATGCATG
717097 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
717130 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:717134 original size:2 final size:2
Alignment explanation
Indices: 717129--717153 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
717119 TCTCTCTCTC
717129 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
717154 TGTATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:717976 original size:2 final size:2
Alignment explanation
Indices: 717969--718000 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
717959 TTTCTTATCA
717969 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
718001 GTGTTAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:719609 original size:18 final size:17
Alignment explanation
Indices: 719562--719639 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 17
719552 TATATTATAA
719562 TTATATTTA-A-AATATT
1 TTATATTTATATAA-ATT
719578 TTATATTTATATAAATT
1 TTATATTTATATAAATT
719595 TTAATATATTA-AT-AA-T
1 TT-ATAT-TTATATAAATT
*
719611 TTA-AATTATATAAAATT
1 TTATATTTATAT-AAATT
* *
719628 ATATATGTATAT
1 TTATATTTATAT
719640 GTTAAATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
13 3 0.06
14 3 0.06
15 1 0.02
16 14 0.29
17 11 0.22
18 14 0.29
19 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:721779 original size:2 final size:2
Alignment explanation
Indices: 721772--721799 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
721762 AATTAAAAAG
721772 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
721800 TGCAATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:722927 original size:16 final size:16
Alignment explanation
Indices: 722907--722945 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
722897 GATTACAATA
722907 AAAAAATATTATTAAAC
1 AAAAAA-ATTATTAAAC
* *
722924 AAAAAAATTGTTAATC
1 AAAAAAATTATTAAAC
722940 AAAAAA
1 AAAAAA
722946 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAAAATTATTAAAC
Found at i:725253 original size:30 final size:30
Alignment explanation
Indices: 725196--725253 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
725186 ATAATCTTAA
* **
725196 ATTAGTGTTTGTTTTAGTCTTAGCTAGATT
1 ATTAGTGTTTATTTTAGTCCAAGCTAGATT
725226 ATTAGTGTTTATTTTA-TCCAAGACTAGA
1 ATTAGTGTTTATTTTAGTCCAAG-CTAGA
725254 CTACTAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (30 bp):
ATTAGTGTTTATTTTAGTCCAAGCTAGATT
Found at i:725718 original size:3 final size:3
Alignment explanation
Indices: 725705--725748 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
725695 TCAATATGTT
*
725705 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
725749 TATTTTTAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:727881 original size:22 final size:24
Alignment explanation
Indices: 727832--727881 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
727822 TCCAAACTGA
727832 GTTTTTTGTTTCTATTCTTTTTCT
1 GTTTTTTGTTTCTATTCTTTTTCT
727856 -TTTTTT-TTTC-ATTCTTTATT-T
1 GTTTTTTGTTTCTATTCTTT-TTCT
727877 GTTTT
1 GTTTT
727882 GATACTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.78
Consensus pattern (24 bp):
GTTTTTTGTTTCTATTCTTTTTCT
Found at i:728770 original size:41 final size:40
Alignment explanation
Indices: 728694--728775 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
728684 TTTTTTTTCT
* *
728694 AGAGTCAGGCACATTGTTACAAAAGCTAGGCAAACATGAC
1 AGAGTCAAGCACATTATTACAAAAGCTAGGCAAACATGAC
* *
728734 AGAGTCAAGCACATTTATTACAAGAGCTAGGTAAACATGAC
1 AGAGTCAAGCACA-TTATTACAAAAGCTAGGCAAACATGAC
728775 A
1 A
728776 CATACGCTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 12 0.32
41 25 0.68
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (40 bp):
AGAGTCAAGCACATTATTACAAAAGCTAGGCAAACATGAC
Found at i:731200 original size:28 final size:28
Alignment explanation
Indices: 731157--731210 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
731147 TATGACATGG
**
731157 AAAAAATAACTAAAACATGACACAAAAC
1 AAAAAATAACTAAAACACAACACAAAAC
731185 AAAAAATAAC-ACAAACACAACACAAA
1 AAAAAATAACTA-AAACACAACACAAA
731211 TACACAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.70, C:0.20, G:0.02, T:0.07
Consensus pattern (28 bp):
AAAAAATAACTAAAACACAACACAAAAC
Found at i:733784 original size:13 final size:14
Alignment explanation
Indices: 733754--733786 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
733744 CTTATTTTTA
733754 TTATTAAATAATTT
1 TTATTAAATAATTT
733768 TTATTAAATAA-TT
1 TTATTAAATAATTT
733781 TTATTA
1 TTATTA
733787 TGTGATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATTAAATAATTT
Found at i:734787 original size:33 final size:35
Alignment explanation
Indices: 734736--734805 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
734726 CAGAAATTAT
* *
734736 AAATATTTTATTATATT-AA-AATTATATAATTTA
1 AAATATTTTATTAAATTAAATAAATATATAATTTA
734769 AAAT-TTTTAATTAAATTAAATAAATATATAATTTA
1 AAATATTTT-ATTAAATTAAATAAATATATAATTTA
734804 AA
1 AA
734806 GTAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 4 0.12
33 11 0.34
34 2 0.06
35 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
AAATATTTTATTAAATTAAATAAATATATAATTTA
Found at i:735368 original size:2 final size:2
Alignment explanation
Indices: 735361--735387 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
735351 GATCAAACTC
735361 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 A
735388 AACAACAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:736779 original size:16 final size:16
Alignment explanation
Indices: 736760--736817 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
736750 TCAATATATT
736760 ATTTTAAATATATCAA
1 ATTTTAAATATATCAA
* **
736776 ATTTTAAATATTTTTA
1 ATTTTAAATATATCAA
* *
736792 A-TTTATATATAACAA
1 ATTTTAAATATATCAA
736807 ATTTTAAATAT
1 ATTTTAAATAT
736818 GAAATAAGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 10 0.31
16 22 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAAATATATCAA
Found at i:736970 original size:16 final size:16
Alignment explanation
Indices: 736951--737032 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 16
736941 TGATTATCAA
736951 ATTTATAAGTAATTAT
1 ATTTATAAGTAATTAT
* * *
736967 ATTTA-ATATTTATTAA
1 ATTTATA-AGTAATTAT
* *
736983 ATTTATAAATAATTTT
1 ATTTATAAGTAATTAT
* * * *
736999 ATTTAAAATTTATTAA
1 ATTTATAAGTAATTAT
*
737015 ATTTATGAGTAATTAT
1 ATTTATAAGTAATTAT
737031 AT
1 AT
737033 CTAATTTATT
Statistics
Matches: 47, Mismatches: 17, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
15 1 0.02
16 45 0.96
17 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
ATTTATAAGTAATTAT
Found at i:736972 original size:32 final size:32
Alignment explanation
Indices: 736936--737050 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 32
736926 AAGCTAAAAC
*
736936 TTTAATGA-TTATCAAATTTATAAGTAATTATA
1 TTTAAT-ATTTATTAAATTTATAAGTAATTATA
* *
736968 TTTAATATTTATTAAATTTATAAATAATTTTA
1 TTTAATATTTATTAAATTTATAAGTAATTATA
* *
737000 TTTAAAATTTATTAAATTTATGAGTAATTATA
1 TTTAATATTTATTAAATTTATAAGTAATTATA
*
737032 TCT-A-ATTTATTAAATTTAT
1 TTTAATATTTATTAAATTTAT
737051 GATTAATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 15 0.20
31 2 0.03
32 57 0.77
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTAATATTTATTAAATTTATAAGTAATTATA
Found at i:737017 original size:64 final size:63
Alignment explanation
Indices: 736944--737066 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 63
736934 ACTTTAATGA
*
736944 TTATCAAATTTATAAGTAATTATATTTAATATTTATTAAATTTATAAATAATTTT-ATTTAAAAT
1 TTATCAAATTTATAAGTAATTATATCT-A-ATTTATTAAATTTATAAATAATTTTAATTTAAAAT
* * * *
737008 TTATTAAATTTATGAGTAATTATATCTAATTTATTAAATTTATGATTAATTTTAATTTA
1 TTATCAAATTTATAAGTAATTATATCTAATTTATTAAATTTATAAATAATTTTAATTTA
737067 TTTTTTAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
62 23 0.43
63 6 0.11
64 24 0.45
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (63 bp):
TTATCAAATTTATAAGTAATTATATCTAATTTATTAAATTTATAAATAATTTTAATTTAAAAT
Found at i:737075 original size:30 final size:29
Alignment explanation
Indices: 736973--737075 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 29
736963 TTATATTTAA
*
736973 TATTTATTAAATTTATAAATAATTTTATT
1 TATTTATTAAATTTATGAATAATTTTATT
* *
737002 TAAAATTTATTAAATTTATGAGTAATTATATCT
1 T---ATTTATTAAATTTATGAATAATTTTAT-T
* *
737035 AATTTATTAAATTTATGATTAATTTTAATT
1 TATTTATTAAATTTATGAATAATTTT-ATT
*
737065 TATTTTTTAAA
1 TATTTATTAAA
737076 ATTTTATGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.02
30 33 0.54
31 2 0.03
32 24 0.39
33 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTTATTAAATTTATGAATAATTTTATT
Found at i:738552 original size:17 final size:17
Alignment explanation
Indices: 738530--738567 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
738520 TTAAACAATT
*
738530 AAATAAA-AAGAATGAAA
1 AAATAAATAAAAAT-AAA
738547 AAATAAATAAAAATAAA
1 AAATAAATAAAAATAAA
738564 AAAT
1 AAAT
738568 TTATCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAAATAAAAATAAA
Found at i:739121 original size:22 final size:22
Alignment explanation
Indices: 739096--739137 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
739086 TATTTTTATT
* *
739096 TAAATTTTATTATAAAAATATA
1 TAAATATTAATATAAAAATATA
739118 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
739138 ATATTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:746993 original size:2 final size:2
Alignment explanation
Indices: 746986--747014 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
746976 AAATTAAAAC
746986 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 A
747015 AGCCATTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:747959 original size:21 final size:21
Alignment explanation
Indices: 747933--747982 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
747923 ATATAAAAAA
747933 AATCCAAGTCTTAATATAT-AT
1 AATCCAAG-CTTAATATATCAT
* *
747954 AATCCAAAGCTTCATATTTCAT
1 AATCC-AAGCTTAATATATCAT
747976 AATCCAA
1 AATCCAA
747983 CCTACCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.34
Consensus pattern (21 bp):
AATCCAAGCTTAATATATCAT
Found at i:751714 original size:82 final size:84
Alignment explanation
Indices: 751562--751728 Score: 311
Period size: 82 Copynumber: 2.0 Consensus size: 84
751552 TATGGCTCAG
*
751562 ATTAGAATGCCCTAAAAGTTTATAAAACTCTAAATATATTAATGCCACGTGAATTCCTTATAGTT
1 ATTAGAATGCCCTAAAAGATTATAAAACTCTAAATATATTAATGCCACGTGAATTCCTTATAGTT
751627 TCTTGAATTAAAACTAACC
66 TCTTGAATTAAAACTAACC
751646 ATTAGAATGCCCTAAAAGATTATAAAACTCT-AA-ATATTAATGCCACGTGAATTCCTTATAGTT
1 ATTAGAATGCCCTAAAAGATTATAAAACTCTAAATATATTAATGCCACGTGAATTCCTTATAGTT
751709 TCTTGAATTAAAACTAACC
66 TCTTGAATTAAAACTAACC
751728 A
1 A
751729 CTTAACCTTT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
82 50 0.61
83 2 0.02
84 30 0.37
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (84 bp):
ATTAGAATGCCCTAAAAGATTATAAAACTCTAAATATATTAATGCCACGTGAATTCCTTATAGTT
TCTTGAATTAAAACTAACC
Found at i:753367 original size:6 final size:6
Alignment explanation
Indices: 753356--753382 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
753346 AAACAACAAG
753356 AAGAAC AAGAAC AAGAAC AAGAAC AAG
1 AAGAAC AAGAAC AAGAAC AAGAAC AAG
753383 GCTTCGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.15, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:754524 original size:25 final size:25
Alignment explanation
Indices: 754491--754572 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
754481 TTTTTAAAAA
*
754491 ATATATATTTGATAAAATATATAAT
1 ATATTTATTTGATAAAATATATAAT
* *
754516 ATATTTATTT-ATATAATTTA-AAT
1 ATATTTATTTGATAAAATATATAAT
*
754539 -TTTTTATTTGATATAAA-AT-TAAT
1 ATATTTATTTGATA-AAATATATAAT
754562 ATATTTTATTT
1 ATA-TTTATTT
754573 ATTTTTTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
22 8 0.18
23 10 0.22
24 11 0.24
25 16 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATATTTATTTGATAAAATATATAAT
Found at i:756312 original size:18 final size:17
Alignment explanation
Indices: 756271--756325 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
756261 TGATACATTT
756271 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
*
756287 T-GAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
756302 TCAAAATTTATATAAATA
1 T-AAAATTTATATAAATA
756320 TAAAAT
1 TAAAAT
756326 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
16 1 0.03
17 7 0.23
18 8 0.26
19 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:757735 original size:19 final size:20
Alignment explanation
Indices: 757700--757737 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
757690 GTACAACCAT
*
757700 TAGTATATTTCAGGAAAAGC
1 TAGTAGATTTCAGGAAAAGC
757720 TAGTAGATTT-AGGAAAAG
1 TAGTAGATTTCAGGAAAAG
757738 AAAAACTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (20 bp):
TAGTAGATTTCAGGAAAAGC
Found at i:759372 original size:18 final size:18
Alignment explanation
Indices: 759326--759366 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
759316 TTTGACATAA
759326 TTTATATATAAAATAAAT
1 TTTATATATAAAATAAAT
*
759344 TTTATATATAATATAAAT
1 TTTATATATAAAATAAAT
759362 TTTAT
1 TTTAT
759367 TAATAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATAAAATAAAT
Found at i:759594 original size:20 final size:19
Alignment explanation
Indices: 759564--759601 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
759554 ATAATTTTAT
*
759564 AAATTATTTAATTTATAAA
1 AAATTATTTAAATTATAAA
759583 AAATTAATTTAAATTATAA
1 AAATT-ATTTAAATTATAA
759602 TATATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTATTTAAATTATAAA
Found at i:759724 original size:19 final size:19
Alignment explanation
Indices: 759671--759738 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
759661 AAAGTGAAAA
*
759671 TTTA-ATTTTTTTAAAAAAT
1 TTTATATTTTTTT-AAATAT
* *
759690 TATATGTTTTAATTTAAATAT
1 TTTATATTTT--TTTAAATAT
*
759711 TTTATATTTTTTTAAATAA
1 TTTATATTTTTTTAAATAT
*
759730 ATTATATTT
1 TTTATATTT
759739 AAAAATTACG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 19 0.49
20 4 0.10
21 13 0.33
22 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTATATTTTTTTAAATAT
Found at i:763097 original size:2 final size:2
Alignment explanation
Indices: 763092--763141 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
763082 TGTGTGTGCC
763092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
763134 TA TA TA TA
1 TA TA TA TA
763142 AATTGCATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:767940 original size:5 final size:5
Alignment explanation
Indices: 767930--767957 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
767920 ATTAGCAATA
767930 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
767958 GAATAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:769100 original size:16 final size:15
Alignment explanation
Indices: 769079--769108 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
769069 AGTATTCTAT
769079 AAATTATAATATTTTA
1 AAATTATAAT-TTTTA
769095 AAATTATAATTTTT
1 AAATTATAATTTTT
769109 CTTAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTATAATTTTTA
Found at i:769577 original size:2 final size:2
Alignment explanation
Indices: 769570--769601 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
769560 ATTTCAAACT
769570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
769602 AAAATCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:774097 original size:23 final size:24
Alignment explanation
Indices: 774045--774106 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 24
774035 TATATAAATT
* *
774045 TTATATATTATTAATAAATTAAATAA
1 TTAT-TATT-TTATTAAAATAAATAA
774071 -TATTATTTTATTAAAATAAA-AA
1 TTATTATTTTATTAAAATAAATAA
774093 TTATTTATATTTAT
1 TTA-TTAT-TTTAT
774107 ATTTAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 13 0.42
24 8 0.26
25 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTATTATTTTATTAAAATAAATAA
Found at i:774295 original size:20 final size:20
Alignment explanation
Indices: 774270--774340 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
774260 TTTGCCTACT
774270 CAAAACAACTTTGATCAATC
1 CAAAACAACTTTGATCAATC
* *
774290 CAAAACAA-TTTAACTTGC-CTAC
1 CAAAACAACTTTGA--T-CAAT-C
774312 TCAAAACAACTTTGATCAATC
1 -CAAAACAACTTTGATCAATC
774333 CAAAACAA
1 CAAAACAA
774341 TTTAACTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
19 4 0.10
20 16 0.40
21 4 0.10
22 4 0.10
23 8 0.20
24 4 0.10
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.24
Consensus pattern (20 bp):
CAAAACAACTTTGATCAATC
Found at i:774301 original size:43 final size:43
Alignment explanation
Indices: 774252--774351 Score: 191
Period size: 43 Copynumber: 2.3 Consensus size: 43
774242 GAAACTCGCT
*
774252 CAATTTAATTTGCCTACTCAAAACAACTTTGATCAATCCAAAA
1 CAATTTAACTTGCCTACTCAAAACAACTTTGATCAATCCAAAA
774295 CAATTTAACTTGCCTACTCAAAACAACTTTGATCAATCCAAAA
1 CAATTTAACTTGCCTACTCAAAACAACTTTGATCAATCCAAAA
774338 CAATTTAACTTGCC
1 CAATTTAACTTGCC
774352 ATTGCTATGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (43 bp):
CAATTTAACTTGCCTACTCAAAACAACTTTGATCAATCCAAAA
Found at i:775135 original size:16 final size:17
Alignment explanation
Indices: 775095--775137 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
775085 GTCTCACTTA
*
775095 AATATAAAATTATAAAT
1 AATATAAAATTACAAAT
* *
775112 AATTTAAAATT-CAATT
1 AATATAAAATTACAAAT
775128 AATATAAAAT
1 AATATAAAAT
775138 AATACTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATAAAATTACAAAT
Found at i:777033 original size:142 final size:142
Alignment explanation
Indices: 776772--777087 Score: 517
Period size: 142 Copynumber: 2.2 Consensus size: 142
776762 CTTTGAATGC
** *
776772 ATTTATTGTCTGCTATTTTGTGTATTTATTACCTGAAAAATGTAGACTTAAACTAAGCTATGCTA
1 ATTTATTGTCTATTATTTTGTGTATTTATTACCTAAAAAATGTAGACTTAAACTAAGCTATGCTA
* *
776837 TGCCAATGTAACGTTAATGTTACCATATTTGACTCCTTTTTCTTTTTTCATTTTATGACAGTGTT
66 TGCCAATGTAACGTTAATGTTACCATATTTGACTCCTTTTTCTTTTTTCATTTTATGACAATGCT
776902 GTTAATGTTAAT
131 GTTAATGTTAAT
* *
776914 ATTTATTGTCTATTATTTTGTGTATTGATTACGTAAAAAATGTAGACTTAAACTAAGCTATGCTA
1 ATTTATTGTCTATTATTTTGTGTATTTATTACCTAAAAAATGTAGACTTAAACTAAGCTATGCTA
776979 TGCCAATGTAACGTTAATGTTACCATATTTGACTCCTTTTTCTTTTTTTC-TTTTATGACAATGC
66 TGCCAATGTAACGTTAATGTTACCATATTTGACTCCTTTTTC-TTTTTTCATTTTATGACAATGC
777043 TGTTAATGTTAAT
130 TGTTAATGTTAAT
** **
777056 ATTTATCATCTATTATTTCATGTATTTATTAC
1 ATTTATTGTCTATTATTTTGTGTATTTATTAC
777088 TTGAAAGTAT
Statistics
Matches: 161, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
142 154 0.96
143 7 0.04
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (142 bp):
ATTTATTGTCTATTATTTTGTGTATTTATTACCTAAAAAATGTAGACTTAAACTAAGCTATGCTA
TGCCAATGTAACGTTAATGTTACCATATTTGACTCCTTTTTCTTTTTTCATTTTATGACAATGCT
GTTAATGTTAAT
Found at i:778987 original size:2 final size:2
Alignment explanation
Indices: 778980--779010 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
778970 ATCATAACAA
778980 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
779011 AAGATTACAA
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:778989 original size:18 final size:17
Alignment explanation
Indices: 778956--779011 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
778946 AAATACTATT
* *
778956 TAACAAATAAACATATCA
1 TAACAAATATATATAT-A
778974 TAACAAATATATATATA
1 TAACAAATATATATATA
* *
778991 TATATATATATATATATA
1 TA-ACAAATATATATATA
779009 TAA
1 TAA
779012 AGATTACAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.12
18 29 0.88
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
TAACAAATATATATATA
Found at i:787105 original size:24 final size:24
Alignment explanation
Indices: 787077--787126 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
787067 ATCTTTAGAA
787077 ACATGTAAATAAAGAATTAATTAT
1 ACATGTAAATAAAGAATTAATTAT
787101 ACATGTAAATAAAGAATTAATTAT
1 ACATGTAAATAAAGAATTAATTAT
787125 AC
1 AC
787127 GTTAACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (24 bp):
ACATGTAAATAAAGAATTAATTAT
Found at i:787604 original size:22 final size:22
Alignment explanation
Indices: 787564--787605 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
787554 TACTGTTTTG
*
787564 TTATCAATCATATATTACTATT
1 TTATCAATCATATACTACTATT
* *
787586 TTATCAATGATTTACTACTA
1 TTATCAATCATATACTACTA
787606 ACATTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATCAATCATATACTACTATT
Found at i:789129 original size:100 final size:100
Alignment explanation
Indices: 789005--789185 Score: 249
Period size: 100 Copynumber: 1.8 Consensus size: 100
788995 TATCATGTGG
* ** * * *
789005 ACTCTGTTTTTAATATTTAATAATTTAATTAAATTAATATAATTA-CA-TATTTAAATATAAATT
1 ACTCTATTTTTAATATTTAATAATTTAAACAAATTAATAAAATTATAATTATTTAAATA-AAATA
*
789068 TTTTTATTAATTTTAAAGTAGATTTAAATGATATGA
65 ATTTTATTAATTTTAAAGTAGATTTAAATGATATGA
* *
789104 ACTCTATTTTTAAATATTTATTAATTTAAACAAATTAATAAAATTATAATTATTTAAATAATATA
1 ACTCTATTTTT-AATATTTAATAATTTAAACAAATTAATAAAATTATAATTATTTAAATAAAATA
789169 ATTTTATTAATTTTAAA
65 ATTTTATTAATTTTAAA
789186 ATTTAAAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 10 0.14
100 30 0.43
101 20 0.29
102 10 0.14
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (100 bp):
ACTCTATTTTTAATATTTAATAATTTAAACAAATTAATAAAATTATAATTATTTAAATAAAATAA
TTTTATTAATTTTAAAGTAGATTTAAATGATATGA
Found at i:789518 original size:27 final size:27
Alignment explanation
Indices: 789467--789557 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
789457 ATTTATCAAA
*
789467 ATAAATA-TAATATAAAT-TATTAATAT
1 ATAAATATTAATATAAATATA-AAATAT
789493 ATAAA-AGTTAATATAAATATAAAATATT
1 ATAAATA-TTAATATAAATATAAAATA-T
* * *
789521 TTAAATATGATTATAATATAATAAAATAT
1 ATAAATATTAATATAA-AT-ATAAAATAT
789550 ATAAATAT
1 ATAAATAT
789558 AAACAATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
25 1 0.02
26 5 0.09
27 14 0.26
28 14 0.26
29 11 0.21
30 8 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATAAATATTAATATAAATATAAAATAT
Found at i:793643 original size:15 final size:15
Alignment explanation
Indices: 793619--793663 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
793609 GGGATAGAGG
793619 AAAAAAAGAAA-AAA
1 AAAAAAAGAAAGAAA
793633 AAAAGAAAG-AAGAAA
1 AAAA-AAAGAAAGAAA
*
793648 AAGAAAAGAAAGAAA
1 AAAAAAAGAAAGAAA
793663 A
1 A
793664 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:793647 original size:18 final size:18
Alignment explanation
Indices: 793624--793661 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
793614 AGAGGAAAAA
793624 AAGAAAAAAAAAAGAAAG
1 AAGAAAAAAAAAAGAAAG
*
793642 AAGAAAAAGAAAAGAAAG
1 AAGAAAAAAAAAAGAAAG
793660 AA
1 AA
793662 AATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAAAAGAAAG
Found at i:793724 original size:23 final size:22
Alignment explanation
Indices: 793680--793725 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
793670 TAATTAATAT
* **
793680 AATATAATTTTTTAAATTTAAA
1 AATATAATTTTTAAAACATAAA
793702 AATATAAATTTTTAAAACATAAA
1 AATAT-AATTTTTAAAACATAAA
793725 A
1 A
793726 TTAGATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATTTTTAAAACATAAA
Found at i:794040 original size:23 final size:23
Alignment explanation
Indices: 794014--794071 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
794004 TGTAGTTTTT
*
794014 AAAATAATTTTTTTAATTTTGTA
1 AAAATAATTTTTTTAATTTTCTA
* *
794037 AAAA-AATGTATATTAATTTTCTA
1 AAAATAAT-TTTTTTAATTTTCTA
794060 AAAATAATTTTT
1 AAAATAATTTTT
794072 AAATATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 3 0.11
23 22 0.79
24 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AAAATAATTTTTTTAATTTTCTA
Found at i:794069 original size:14 final size:13
Alignment explanation
Indices: 794050--794083 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
794040 AAATGTATAT
794050 TAATTTTCTAAAAA
1 TAATTTT-TAAAAA
*
794064 TAATTTTTAAATA
1 TAATTTTTAAAAA
794077 TAATTTT
1 TAATTTT
794084 AAATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATTTTTAAAAA
Found at i:794085 original size:12 final size:13
Alignment explanation
Indices: 794050--794089 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
794040 AAATGTATAT
*
794050 TAATTTTCTAAAAA
1 TAATTTT-TAAATA
794064 TAATTTTTAAATA
1 TAATTTTTAAATA
794077 TAA-TTTTAAATA
1 TAATTTTTAAATA
794089 T
1 T
794090 TTTACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.40
13 8 0.32
14 7 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATTTTTAAATA
Found at i:798225 original size:2 final size:2
Alignment explanation
Indices: 798220--798266 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
798210 GGGGGGGGGT
798220 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
798262 AG AG A
1 AG AG A
798267 CCTTAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:798915 original size:20 final size:19
Alignment explanation
Indices: 798882--798919 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
798872 ATGTAATTTA
798882 TTTAAATTTAAATTTAAAT
1 TTTAAATTTAAATTTAAAT
*
798901 TTTAATATTTTAATTTAAA
1 TTTAA-ATTTAAATTTAAA
798920 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATTTAAATTTAAAT
Found at i:798928 original size:16 final size:16
Alignment explanation
Indices: 798907--798985 Score: 61
Period size: 16 Copynumber: 4.6 Consensus size: 16
798897 AAATTTTAAT
798907 ATTTTAATTTAAAATA
1 ATTTTAATTTAAAATA
798923 ATTTTAA-TTACATAATTCAA
1 ATTTTAATTTA-A-AA-T--A
* *
798943 ATATTAAATTTAAAATT
1 AT-TTTAATTTAAAATA
*
798960 ATTTTAATTCAAAATA
1 ATTTTAATTTAAAATA
*
798976 ATTTAAATTT
1 ATTTTAATTT
798986 TATTTGAGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
15 3 0.06
16 27 0.55
17 4 0.08
18 1 0.02
19 1 0.02
20 5 0.10
21 5 0.10
22 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTAATTTAAAATA
Found at i:798931 original size:6 final size:6
Alignment explanation
Indices: 798881--798919 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
798871 AATGTAATTT
*
798881 ATTTAA ATTTAA ATTTAA ATTTTAA TATTTTA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A-TTTAA -ATTTAA ATTTAA A
798920 ATAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.66
7 9 0.31
8 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:798974 original size:53 final size:50
Alignment explanation
Indices: 798886--798984 Score: 135
Period size: 53 Copynumber: 1.9 Consensus size: 50
798876 AATTTATTTA
* * * *
798886 AATTTAAATTTAAATTTTAATATTTTAATTTAAAATAATTTTAATTACAT
1 AATTCAAATTTAAATTTAAATATTTTAATTCAAAATAATTTAAATTACAT
798936 AATTCAAATATTAAATTTAAAATTATTTTAATTCAAAATAATTTAAATT
1 AATTCAAAT-TTAAATTT-AAA-TATTTTAATTCAAAATAATTTAAATT
798985 TTATTTGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 8 0.19
51 8 0.19
52 2 0.05
53 24 0.57
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (50 bp):
AATTCAAATTTAAATTTAAATATTTTAATTCAAAATAATTTAAATTACAT
Found at i:800935 original size:46 final size:47
Alignment explanation
Indices: 800835--800935 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 47
800825 TCCAAATTTG
* *
800835 TATAA-ATATATATATTTTTTTGAAAATTTTAAATTTTAAATTAAAA
1 TATAAGATAAATATATATTTTTGAAAATTTTAAATTTTAAATTAAAA
* * * *
800881 TCTTAGATAAATATATATTTTT-AATATTTTAAATTTTAAATTGAAA
1 TATAAGATAAATATATATTTTTGAAAATTTTAAATTTTAAATTAAAA
800927 TATAAGATA
1 TATAAGATA
800936 TAGTTAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 32 0.70
47 14 0.30
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.49
Consensus pattern (47 bp):
TATAAGATAAATATATATTTTTGAAAATTTTAAATTTTAAATTAAAA
Found at i:802099 original size:26 final size:29
Alignment explanation
Indices: 802070--802124 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
802060 GGGTATTTGT
802070 GTTTCTTGA-TTT-A-GTTGTTCAATTAA
1 GTTTCTTGAGTTTAAGGTTGTTCAATTAA
802096 GTTTCTTGAGTTTAATGGTTGTTCAATTA
1 GTTTCTTGAGTTTAA-GGTTGTTCAATTA
802125 TTTCTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.36
27 3 0.12
28 1 0.04
30 12 0.48
ACGTcount: A:0.22, C:0.07, G:0.18, T:0.53
Consensus pattern (29 bp):
GTTTCTTGAGTTTAAGGTTGTTCAATTAA
Found at i:805402 original size:74 final size:74
Alignment explanation
Indices: 805312--805451 Score: 208
Period size: 74 Copynumber: 1.9 Consensus size: 74
805302 GTGACCATCT
* **
805312 AACCTAAGTTATTTATGTAAAGAAATTCTTTTATCTATTCATAAGATGAATGAGATAAAAAGTAG
1 AACCTAAGTTAATTATGTAAAGAAATTCTTTTATCTACACATAAGATGAATGAGATAAAAAGTAG
805377 TGGCCGTTA
66 TGGCCGTTA
* * * * *
805386 AACCTAAGTTAATTATGTGAGGAAATTTTTTTATCTACACATATGATGTATGAGATAAAAAGTAG
1 AACCTAAGTTAATTATGTAAAGAAATTCTTTTATCTACACATAAGATGAATGAGATAAAAAGTAG
805451 T
66 T
805452 TCTTGTTAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (74 bp):
AACCTAAGTTAATTATGTAAAGAAATTCTTTTATCTACACATAAGATGAATGAGATAAAAAGTAG
TGGCCGTTA
Found at i:813396 original size:2 final size:2
Alignment explanation
Indices: 813389--813414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
813379 TCCCCTGCCT
813389 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
813415 CCCCCCCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:816947 original size:4 final size:4
Alignment explanation
Indices: 816938--816968 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
816928 GTAAGAGAAC
816938 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
816969 TTTGATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:817547 original size:28 final size:28
Alignment explanation
Indices: 817507--817565 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
817497 GTATGCTAAT
817507 TCCTTAGTCAGGTTCTTTGCGTTCTACC
1 TCCTTAGTCAGGTTCTTTGCGTTCTACC
817535 TCCTTAGTCAGGTTCTTTGCGTTCTACC
1 TCCTTAGTCAGGTTCTTTGCGTTCTACC
817563 TCC
1 TCC
817566 AAATTACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.10, C:0.31, G:0.17, T:0.42
Consensus pattern (28 bp):
TCCTTAGTCAGGTTCTTTGCGTTCTACC
Found at i:821065 original size:22 final size:22
Alignment explanation
Indices: 821037--821080 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
821027 ATTGTTTGAG
*
821037 TTTAAAAAAATTTAAATTTAAA
1 TTTAAAAAAATTTAAATGTAAA
*
821059 TTTAAAATAATTTAAATGTAAA
1 TTTAAAAAAATTTAAATGTAAA
821081 ATTATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTAAAAAAATTTAAATGTAAA
Found at i:821099 original size:16 final size:16
Alignment explanation
Indices: 821052--821111 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
821042 AAAAATTTAA
*
821052 ATTTAAATTTAAAATA
1 ATTTAAATTTAAAATT
*
821068 ATTTAAATGTAAAATT
1 ATTTAAATTTAAAATT
*
821084 ATTTACATTTAAAATT
1 ATTTAAATTTAAAATT
* *
821100 ATCTGAATTTAA
1 ATTTAAATTTAA
821112 GATTTGATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTAAATTTAAAATT
Found at i:822416 original size:18 final size:18
Alignment explanation
Indices: 822395--822436 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
822385 TTATAATCCA
*
822395 TTATTTAAAAAATCAATT
1 TTATATAAAAAATCAATT
* *
822413 TTATATAACAAATTAATT
1 TTATATAAAAAATCAATT
822431 TTATAT
1 TTATAT
822437 TTTCATGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATATAAAAAATCAATT
Found at i:822713 original size:16 final size:16
Alignment explanation
Indices: 822691--822727 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
822681 AACCGAACTC
*
822691 AATAATCCTAATTCAA
1 AATAATCCAAATTCAA
*
822707 TATAATCCAAATTCAA
1 AATAATCCAAATTCAA
822723 AATAA
1 AATAA
822728 CGTGAATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATCCAAATTCAA
Found at i:823696 original size:85 final size:82
Alignment explanation
Indices: 823587--823741 Score: 186
Period size: 82 Copynumber: 1.9 Consensus size: 82
823577 CTTAGTGTTC
* * * * * *
823587 TTTCAAGTTTCAAGCCTGGAGGGTTTTCCTAAGAATTCAATAAAGAGAACTTTATCAACAGCAAA
1 TTTCAAGTTTCAAACCAGGAGGG-TTCCCT-AGAATTCAATAAAGAG-ACCTTAACAACAACAAA
823652 CAACAAAGCAACTAGTGCTA
63 CAACAAAGCAACTAGTGCTA
* * *
823672 TTTCAAG-TTCAAACCAGGAGGGGTTCCCTGGAATTCGATAAATAGACCTTAACAACAACAAACA
1 TTTCAAGTTTCAAACCAGGA-GGGTTCCCTAGAATTCAATAAAGAGACCTTAACAACAACAAACA
823736 ACAAAG
65 ACAAAG
823742 AAACCAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
82 22 0.37
83 13 0.22
84 15 0.25
85 10 0.17
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (82 bp):
TTTCAAGTTTCAAACCAGGAGGGTTCCCTAGAATTCAATAAAGAGACCTTAACAACAACAAACAA
CAAAGCAACTAGTGCTA
Found at i:824951 original size:16 final size:14
Alignment explanation
Indices: 824931--824970 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
824921 CAATTTATTT
824931 TTATTTTAATTTAA
1 TTATTTTAATTTAA
*
824945 TAATATTTTATTTTAA
1 T--TATTTTAATTTAA
824961 TTATTTTAAT
1 TTATTTTAAT
824971 AAAAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTTAATTTAA
Found at i:831488 original size:20 final size:20
Alignment explanation
Indices: 831395--831485 Score: 137
Period size: 20 Copynumber: 4.5 Consensus size: 20
831385 ATTTACTTGC
831395 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
831415 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAATA
* *
831435 TTTTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
* *
831455 ATGTATCGGTATATTGAATA
1 ATGTATCGATACATTGAATA
831475 ATGTATCGATA
1 ATGTATCGATA
831486 TATCTGGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:836042 original size:3 final size:3
Alignment explanation
Indices: 836034--836082 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
836024 TAAAGAGTTT
836034 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA ATG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
836079 AGA A
1 AGA A
836083 ACAGCTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:839352 original size:20 final size:20
Alignment explanation
Indices: 839327--839366 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
839317 CTTATATACA
839327 TAGATTATTTTGCAACAGCT
1 TAGATTATTTTGCAACAGCT
*
839347 TAGATTATTTTGTAACAGCT
1 TAGATTATTTTGCAACAGCT
839367 GCTATTACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
TAGATTATTTTGCAACAGCT
Found at i:840104 original size:62 final size:63
Alignment explanation
Indices: 840003--840128 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 63
839993 AAAATCTATT
* * * *
840003 TTTTTCAAATAGTAATATTGACATAAATATTTATCATTAAAATATAAAT-ATT-TTTATATTAA
1 TTTTTCAAATACTAATATTGACATAAAGATATATCATTAAAATA-AAATCATTCATTATATTAA
* * *
840065 TTTTTCAAATACTAATATTTA-ATAACAGGTATATTATTAAAATAAAATCATTCATTATATTAA
1 TTTTTCAAATACTAATATTGACATAA-AGATATATCATTAAAATAAAATCATTCATTATATTAA
840128 T
1 T
840129 CATTTTTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
61 8 0.15
62 36 0.67
63 10 0.19
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (63 bp):
TTTTTCAAATACTAATATTGACATAAAGATATATCATTAAAATAAAATCATTCATTATATTAA
Found at i:841271 original size:18 final size:18
Alignment explanation
Indices: 841248--841284 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
841238 ATTTAAGAAC
*
841248 GATCCAATGGTGAACGAT
1 GATCCAATAGTGAACGAT
841266 GATCCAATAGTGAACGAT
1 GATCCAATAGTGAACGAT
841284 G
1 G
841285 GTCGGATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (18 bp):
GATCCAATAGTGAACGAT
Found at i:841343 original size:20 final size:20
Alignment explanation
Indices: 841320--841357 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
841310 AATTCTTCTT
841320 AGATCTA-GAAAAATCTAAAA
1 AGATCTAGGAAAAA-CTAAAA
*
841340 AGATTTAGGAAAAACTAA
1 AGATCTAGGAAAAACTAA
841358 TCATAGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (20 bp):
AGATCTAGGAAAAACTAAAA
Found at i:841514 original size:21 final size:21
Alignment explanation
Indices: 841489--841528 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
841479 AACTAGAAAA
*
841489 AAGAGAAAAGAAAGGAGGAGG
1 AAGAGAAAAGAAAAGAGGAGG
*
841510 AAGAGAGAAGAAAAGAGGA
1 AAGAGAAAAGAAAAGAGGA
841529 AAAAATGAAG
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:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (21 bp):
AAGAGAAAAGAAAAGAGGAGG
Found at i:841548 original size:15 final size:15
Alignment explanation
Indices: 841528--841598 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
841518 AGAAAAGAGG
*
841528 AAAAAATGAA-GAAA
1 AAAAAAAGAAGGAAA
841542 AAAAAAAGAAGGAAA
1 AAAAAAAGAAGGAAA
** *
841557 AAGGAAGGAAAGGAGAA
1 AAAAAAAG-AAGGA-AA
*
841574 GAAAAAAA-AGGGAAA
1 -AAAAAAAGAAGGAAA
841589 AAAAAAAGAA
1 AAAAAAAGAA
841599 AACGGTGGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
14 16 0.37
15 12 0.28
16 9 0.21
17 2 0.05
18 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (15 bp):
AAAAAAAGAAGGAAA
Found at i:841978 original size:13 final size:13
Alignment explanation
Indices: 841960--841985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
841950 ATTTATTTAT
841960 TTTTAGTTTATAC
1 TTTTAGTTTATAC
841973 TTTTAGTTTATAC
1 TTTTAGTTTATAC
841986 CATGCTTGTT
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:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTTAGTTTATAC
Found at i:842617 original size:110 final size:107
Alignment explanation
Indices: 842422--842853 Score: 320
Period size: 110 Copynumber: 3.9 Consensus size: 107
842412 TAATTGCATT
* * *
842422 AATTACGTAATATCCAAGCACCAAAGGATTGGTCCCGAAATAGATTATTGTCTAGAGTCATAAAG
1 AATTACGTAGTATTCAAGCACCAAA-GATT-GACCCGAAATAGATTATTGTCTAGAGTC-TAAAG
* * * *
842487 GGATATACGAACGCCTTTTATATAAGACAATTCATTTTTC-ACGTA
63 TGACATACGAACACCTTTTATATAAGACAATTCATTTTTCGA-ATA
842532 AATTACGTAGTATTCAAGCACCAAGAGATT-AGCCCTGAAATAGATTATTGTCTAGAGTCGTAAA
1 AATTACGTAGTATTCAAGCACCAA-AGATTGA-CCC-GAAATAGATTATTGTCTAGAGTC-TAAA
* * *
842596 GTGACGTACGAATA-CTCTTTATATAGGACAATTCATTTTTCGAATA
62 GTGACATACGAACACCT-TTTATATAAGACAATTCATTTTTCGAATA
** * * * *
842642 AATTATATAGTATTCAGGCACCAAA-AGTTGACCCCGAGATAGATCATTGTCTAGAGTCAAAAGT
1 AATTACGTAGTATTCAAGCACCAAAGA-TTGA-CCCGAAATAGATTATTGTCTAGAGTCTAAAGT
* * * * * * * *
842706 GATATATGAACGCCATTTATATAGGATAATTCATTTAATT-GTATT
64 GACATACGAACACCTTTTATATAAGACAATTCATTT--TTCGAATA
* * * * * * * *
842751 AATTACGTAG-ATTCGAGTACAAAAAAATTGACCTCAAAATATG-TCATTGTTTAGAATCATAAA
1 AATTACGTAGTATTCAAGCAC-CAAAGATTGACC-CGAAATA-GATTATTGTCTAGAGTC-TAAA
* * ** * *
842814 GTGACATATGAGCGTCTTTTATTTAAGATAATTCATTTTT
62 GTGACATACGAACACCTTTTATATAAGACAATTCATTTTT
842854 TTCATTAATT
Statistics
Matches: 263, Mismatches: 44, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
108 44 0.17
109 66 0.25
110 151 0.57
111 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (107 bp):
AATTACGTAGTATTCAAGCACCAAAGATTGACCCGAAATAGATTATTGTCTAGAGTCTAAAGTGA
CATACGAACACCTTTTATATAAGACAATTCATTTTTCGAATA
Found at i:854792 original size:19 final size:18
Alignment explanation
Indices: 854765--854876 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
854755 CTAAGATCTA
854765 AAAAAAAAAAAGCAAAGC
1 AAAAAAAAAAAGCAAAGC
854783 AAAAACAAAAAAGCAAAAAAAAAG-
1 AAAAA-AAAAAAGC------AAAGC
*
854807 ATTAAAAAAAAGAAGCAAAGA
1 A--AAAAAAAA-AAGCAAAGC
854828 AAAAACAAAAAAGCAAAGC
1 AAAAA-AAAAAAGCAAAGC
854847 AAAGCAAAAAAAAG-AAGAGC
1 AAA--AAAAAAAAGCAA-AGC
854867 AAAAAAAAAA
1 AAAAAAAAAA
854877 CTCAGATGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 30
0.72 0.01 0.28
Matches are distributed among these distances:
18 12 0.15
19 25 0.32
20 21 0.27
21 3 0.04
24 1 0.01
25 8 0.10
26 8 0.10
ACGTcount: A:0.78, C:0.09, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAGCAAAGC
Found at i:854804 original size:12 final size:12
Alignment explanation
Indices: 854778--854849 Score: 56
Period size: 13 Copynumber: 5.7 Consensus size: 12
854768 AAAAAAAAGC
854778 AAAGCAAAAACAAA
1 AAAGC-AAAA-AAA
854792 AAAGCAAAAAAA
1 AAAGCAAAAAAA
**
854804 AAGATTAAAAAAA
1 AA-AGCAAAAAAA
*
854817 AGAAGCAAAGAAA
1 A-AAGCAAAAAAA
*
854830 AAA-CAAAAAAGC
1 AAAGCAAAAAA-A
854842 AAAGCAAA
1 AAAGCAAA
854850 GCAAAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 6 0.13
12 10 0.21
13 25 0.53
14 6 0.13
ACGTcount: A:0.76, C:0.10, G:0.11, T:0.03
Consensus pattern (12 bp):
AAAGCAAAAAAA
Found at i:854859 original size:45 final size:45
Alignment explanation
Indices: 854764--854877 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
854754 CCTAAGATCT
*
854764 AAAAAAAAAA-AAGCAAAGCAAAAACAAAAAAGCAAAAAAAAAGA
1 AAAAAAAAAAGAAGCAAAGAAAAAACAAAAAAGCAAAAAAAAAGA
** **
854808 TTAAAAAAAAGAAGCAAAGAAAAAACAAAAAAGC-AAAGCAAAGCA
1 AAAAAAAAAAGAAGCAAAGAAAAAACAAAAAAGCAAAAAAAAAG-A
* *
854853 AAAAAAAGAAG-AGCAAAAAAAAAAC
1 AAAAAAAAAAGAAGCAAAGAAAAAAC
854878 TCAGATGAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 28 0.47
45 31 0.53
ACGTcount: A:0.77, C:0.10, G:0.11, T:0.02
Consensus pattern (45 bp):
AAAAAAAAAAGAAGCAAAGAAAAAACAAAAAAGCAAAAAAAAAGA
Found at i:856187 original size:21 final size:21
Alignment explanation
Indices: 856158--856197 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
856148 TCCCACCACT
*
856158 ACTACAGTACTCAATCTCCCA
1 ACTACAGTAATCAATCTCCCA
* *
856179 ACTATAGTAATTAATCTCC
1 ACTACAGTAATCAATCTCC
856198 TCAGAGCCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (21 bp):
ACTACAGTAATCAATCTCCCA
Found at i:858951 original size:24 final size:25
Alignment explanation
Indices: 858910--858960 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
858900 AAAGTTAATG
858910 ATTTAAAAAAGTTAAATCATTTAGA
1 ATTTAAAAAAGTTAAATCATTTAGA
858935 ATTTAAAAAAGTT-AATCATTTAGA
1 ATTTAAAAAAGTTAAATCATTTAGA
858959 AT
1 AT
858961 CCTTTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTTAAAAAAGTTAAATCATTTAGA
Found at i:862728 original size:21 final size:21
Alignment explanation
Indices: 862704--862770 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
862694 CAAGTTTTAA
*
862704 GTTTTAGGTTTAGAGTTTAGG
1 GTTTAAGGTTTAGAGTTTAGG
* ** *
862725 GTTTAAGGCTTCA-CCTTTCGG
1 GTTTAAGG-TTTAGAGTTTAGG
*
862746 GTTTAAGGTTTAGGGTTTAGG
1 GTTTAAGGTTTAGAGTTTAGG
862767 GTTT
1 GTTT
862771 GGGGTTTGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.16, C:0.07, G:0.31, T:0.45
Consensus pattern (21 bp):
GTTTAAGGTTTAGAGTTTAGG
Found at i:862757 original size:7 final size:7
Alignment explanation
Indices: 862744--863708 Score: 492
Period size: 7 Copynumber: 136.7 Consensus size: 7
862734 TTCACCTTTC
862744 GGGTTTA
1 GGGTTTA
*
862751 AGGTTTA
1 GGGTTTA
862758 GGGTTTA
1 GGGTTTA
*
862765 GGGTTTG
1 GGGTTTA
*
862772 GGGTTTG
1 GGGTTTA
*
862779 GGGTTTG
1 GGGTTTA
*
862786 GGGTTTG
1 GGGTTTA
*
862793 GGGTTTG
1 GGGTTTA
*
862800 GGGTTTG
1 GGGTTTA
*
862807 GGGTTTG
1 GGGTTTA
*
862814 GGGTTTG
1 GGGTTTA
*
862821 GGGTTTG
1 GGGTTTA
**
862828 GGGTTGG
1 GGGTTTA
**
862835 GGGTTGG
1 GGGTTTA
**
862842 GGGTTGG
1 GGGTTTA
**
862849 GGGTTGG
1 GGGTTTA
*
862856 GGGTTTG
1 GGGTTTA
*
862863 GGGTTTG
1 GGGTTTA
* *
862870 GGGGTTG
1 GGGTTTA
*
862877 GGGTTTG
1 GGGTTTA
* *
862884 GGGGTTG
1 GGGTTTA
*
862891 GGGTTTG
1 GGGTTTA
*
862898 GGGTTTG
1 GGGTTTA
* *
862905 GGGGTTG
1 GGGTTTA
*
862912 GGGTTTGG
1 GGGTTT-A
**
862920 GGGTTGG
1 GGGTTTA
*
862927 GGGTTTG
1 GGGTTTA
*
862934 GGGTTTG
1 GGGTTTA
*
862941 GGGTTTG
1 GGGTTTA
*
862948 GGGTTTG
1 GGGTTTA
862955 GGGTTTA
1 GGGTTTA
862962 GGGTTTA
1 GGGTTTA
*
862969 GGGTTTG
1 GGGTTTA
*
862976 GGGTTTG
1 GGGTTTA
862983 GGGTTT-
1 GGGTTTA
*
862989 GAGATTTA
1 G-GGTTTA
*
862997 GGGTTTG
1 GGGTTTA
863004 GGGTTTA
1 GGGTTTA
*
863011 GGGTTTG
1 GGGTTTA
*
863018 GGGTTTC
1 GGGTTTA
*
863025 GGGTTTC
1 GGGTTTA
*
863032 GGGTTTC
1 GGGTTTA
*
863039 GGGTTTG
1 GGGTTTA
*
863046 GGGTTTG
1 GGGTTTA
*
863053 GGGTTTT
1 GGGTTTA
*
863060 GGGTTTG
1 GGGTTTA
863067 GGGTTT-
1 GGGTTTA
* *
863073 GGGGTTG
1 GGGTTTA
863080 GGGTTTA
1 GGGTTTA
863087 CGGGTTTA
1 -GGGTTTA
* *
863095 GGATTTG
1 GGGTTTA
*
863102 GGGTTTCC
1 GGGTTT-A
*
863110 GGGTTTG
1 GGGTTTA
*
863117 GGGTTTG
1 GGGTTTA
863124 GGGTTTA
1 GGGTTTA
* *
863131 AGGTTTG
1 GGGTTTA
*
863138 GGGTTTG
1 GGGTTTA
*
863145 GGGTTTG
1 GGGTTTA
863152 GGGTTTA
1 GGGTTTA
863159 GGGTTTTA
1 GGG-TTTA
*
863167 GGGTTGTC
1 GGGTT-TA
*
863175 GGGTTTC
1 GGGTTTA
*
863182 GGGTTTTC
1 GGG-TTTA
*
863190 GGGTTTC
1 GGGTTTA
*
863197 GGGTTTC
1 GGGTTTA
*
863204 GGGTTTTCG
1 GGG-TTT-A
863213 GGGTTT-
1 GGGTTTA
*
863219 GGGTTTG
1 GGGTTTA
*
863226 GGGTTTG
1 GGGTTTA
*
863233 GGGTTTG
1 GGGTTTA
*
863240 GGGTTTG
1 GGGTTTA
*
863247 GGGTTTG
1 GGGTTTA
*
863254 GGGTTTG
1 GGGTTTA
863261 GGGTTTA
1 GGGTTTA
*
863268 GGGTTTG
1 GGGTTTA
*
863275 GGGTTTG
1 GGGTTTA
*
863282 GGGTTTG
1 GGGTTTA
*
863289 GGGTTTG
1 GGGTTTA
*
863296 GGGTTTG
1 GGGTTTA
*
863303 GGGTTTG
1 GGGTTTA
*
863310 GGGTTTG
1 GGGTTTA
*
863317 GGGTTTG
1 GGGTTTA
*
863324 GGGTTTG
1 GGGTTTA
*
863331 GGGTTTG
1 GGGTTTA
*
863338 GGGTTTG
1 GGGTTTA
*
863345 GGGTTTG
1 GGGTTTA
*
863352 GGGTTTG
1 GGGTTTA
*
863359 GGGTTTG
1 GGGTTTA
863366 GGGTTT-
1 GGGTTTA
863372 GGGTTTA
1 GGGTTTA
863379 GGGTTTA
1 GGGTTTA
863386 GGGTTTA
1 GGGTTTA
*
863393 GGGGTTTG
1 -GGGTTTA
*
863401 GGGTTTG
1 GGGTTTA
*
863408 GGGTTTG
1 GGGTTTA
*
863415 GGTTGTTTG
1 GG--GTTTA
*
863424 GGGTTTGG
1 GGGTTT-A
863432 GGGTTT-
1 GGGTTTA
*
863438 GGGTTTG
1 GGGTTTA
863445 GGGTTT-
1 GGGTTTA
863451 GGGTTT-
1 GGGTTTA
*
863457 GGGGTT-
1 GGGTTTA
*
863463 GGGTTTG
1 GGGTTTA
*
863470 GGGTTTG
1 GGGTTTA
863477 GGGTTT-
1 GGGTTTA
*
863483 GGGGTTA
1 GGGTTTA
*
863490 TGG-TTA
1 GGGTTTA
863496 GGGTTTA
1 GGGTTTA
863503 GGGTTT-
1 GGGTTTA
863509 GTTAGGTTTA
1 G---GGTTTA
863519 GGG-TTA
1 GGGTTTA
863525 -GGTTT-
1 GGGTTTA
863530 GCGGTTTCA
1 G-GGTTT-A
**
863539 GGGTTCG
1 GGGTTTA
*
863546 GGGTTTC
1 GGGTTTA
*
863553 GGGTGT-
1 GGGTTTA
863559 -GGTTTCGA
1 GGGTTT--A
*
863567 GGGTTTC
1 GGGTTTA
863574 GGGTTTA
1 GGGTTTA
863581 GGG-TT-
1 GGGTTTA
* *
863586 CGG-TTC
1 GGGTTTA
*
863592 GGGTTTC
1 GGGTTTA
*
863599 GGGTTTC
1 GGGTTTA
863606 GGGTTTCA
1 GGGTTT-A
*
863614 GGGTTTCT
1 GGGTTT-A
863622 GGGTTTTA
1 GGG-TTTA
* *
863630 GGTTTTTT
1 GG-GTTTA
*
863638 GGGTTTTC
1 GGG-TTTA
*
863646 GGGTTTC
1 GGGTTTA
**
863653 GGGTTGC
1 GGGTTTA
*
863660 GGGTTTC
1 GGGTTTA
*
863667 GGGTTTC
1 GGGTTTA
*
863674 GGGTTTC
1 GGGTTTA
**
863681 GGGTTGC
1 GGGTTTA
*
863688 GGGTGTTC
1 GGGT-TTA
863696 GGGTTTCA
1 GGGTTT-A
863704 GGGTT
1 GGGTT
863709 CGGTTCGGTT
Statistics
Matches: 847, Mismatches: 69, Indels: 83
0.85 0.07 0.08
Matches are distributed among these distances:
5 10 0.01
6 60 0.07
7 655 0.77
8 97 0.11
9 24 0.03
10 1 0.00
ACGTcount: A:0.03, C:0.03, G:0.51, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:862763 original size:14 final size:14
Alignment explanation
Indices: 862752--863488 Score: 993
Period size: 14 Copynumber: 52.3 Consensus size: 14
862742 TCGGGTTTAA
* *
862752 GGTTTAGGGTTTAG
1 GGTTTGGGGTTTGG
862766 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
862780 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
862794 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
862808 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
*
862822 GGTTTGGGGTTGGG
1 GGTTTGGGGTTTGG
* *
862836 GGTTGGGGGTTGGG
1 GGTTTGGGGTTTGG
*
862850 GGTTGGGGGTTTGG
1 GGTTTGGGGTTTGG
*
862864 GGTTTGGGGGTTGG
1 GGTTTGGGGTTTGG
*
862878 GGTTTGGGGGTTGG
1 GGTTTGGGGTTTGG
862892 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
*
862906 GGGTTGGGGTTTGGG
1 GGTTTGGGGTTT-GG
*
862921 GGTTGGGGGTTTGG
1 GGTTTGGGGTTTGG
862935 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
*
862949 GGTTTGGGGTTTAG
1 GGTTTGGGGTTTGG
*
862963 GGTTTAGGGTTTGG
1 GGTTTGGGGTTTGG
*
862977 GGTTTGGGGTTTGA
1 GGTTTGGGGTTTGG
* *
862991 GATTTAGGGTTTGG
1 GGTTTGGGGTTTGG
*
863005 GGTTTAGGGTTTGG
1 GGTTTGGGGTTTGG
* *
863019 GGTTTCGGGTTTCG
1 GGTTTGGGGTTTGG
*
863033 GGTTTCGGGTTTGG
1 GGTTTGGGGTTTGG
*
863047 GGTTTGGGGTTTTG
1 GGTTTGGGGTTTGG
863061 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
*
863075 GG-TTGGGGTTTACG
1 GGTTTGGGGTTT-GG
* *
863089 GGTTTAGGATTTGG
1 GGTTTGGGGTTTGG
*
863103 GGTTTCCGGGTTTGG
1 GGTTT-GGGGTTTGG
**
863118 GGTTTGGGGTTTAA
1 GGTTTGGGGTTTGG
863132 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863146 GGTTTGGGGTTTAGG
1 GGTTTGGGGTTT-GG
* * *
863161 GTTTTAGGGTTGTCG
1 GGTTTGGGGTT-TGG
* *
863176 GGTTTCGGGTTTTCG
1 GGTTT-GGGGTTTGG
*
863191 GGTTTCGGGTTTCGG
1 GGTTTGGGGTTT-GG
*
863206 GTTTTCGGGGTTT-G
1 GGTTT-GGGGTTTGG
863220 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863234 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863248 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
*
863262 GGTTTAGGGTTTGG
1 GGTTTGGGGTTTGG
863276 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863290 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863304 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863318 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863332 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863346 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863360 GGTTTGGGGTTT-G
1 GGTTTGGGGTTTGG
* *
863373 GGTTTAGGGTTTAG
1 GGTTTGGGGTTTGG
863387 GGTTTAGGGGTTTGG
1 GGTTT-GGGGTTTGG
863402 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863416 GTTGTTTGGGGTTTGGG
1 G--GTTTGGGGTTT-GG
863433 GGTTT-GGGTTTGG
1 GGTTTGGGGTTTGG
863446 GGTTT-GGGTTTGG
1 GGTTTGGGGTTTGG
863459 GG-TT-GGGTTTGG
1 GGTTTGGGGTTTGG
863471 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
863485 GGTT
1 GGTT
863489 ATGGTTAGGG
Statistics
Matches: 651, Mismatches: 55, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
12 12 0.02
13 47 0.07
14 491 0.75
15 76 0.12
16 22 0.03
17 3 0.00
ACGTcount: A:0.03, C:0.02, G:0.54, T:0.42
Consensus pattern (14 bp):
GGTTTGGGGTTTGG
Found at i:862776 original size:21 final size:21
Alignment explanation
Indices: 862752--863488 Score: 993
Period size: 21 Copynumber: 34.9 Consensus size: 21
862742 TCGGGTTTAA
* *
862752 GGTTTAGGGTTTAGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
862773 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
862794 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
862815 GGTTTGGGGTTTGGGGTTGGG
1 GGTTTGGGGTTTGGGGTTTGG
* * *
862836 GGTTGGGGGTTGGGGGTTGGG
1 GGTTTGGGGTTTGGGGTTTGG
*
862857 GGTTTGGGGTTTGGGGGTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
862878 GGTTTGGGGGTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
862899 GGTTTGGGGGTTGGGGTTTGGG
1 GGTTTGGGGTTTGGGGTTT-GG
*
862921 GGTTGGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
862942 GGTTTGGGGTTTGGGGTTTAG
1 GGTTTGGGGTTTGGGGTTTGG
*
862963 GGTTTAGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
* * *
862984 GGTTTGAGATTTAGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
* *
863005 GGTTTAGGGTTTGGGGTTTCG
1 GGTTTGGGGTTTGGGGTTTGG
* *
863026 GGTTTCGGGTTTCGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
863047 GGTTTGGGGTTTTGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
863068 GGTTTGGGG-TTGGGGTTTACG
1 GGTTTGGGGTTTGGGGTTT-GG
* * *
863089 GGTTTAGGATTTGGGGTTTCCG
1 GGTTTGGGGTTTGGGGTTT-GG
**
863111 GGTTTGGGGTTTGGGGTTTAA
1 GGTTTGGGGTTTGGGGTTTGG
863132 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
* * *
863153 GGTTTAGGGTTTTAGGGTTGTCG
1 GGTTT-GGGGTTTGGGGTT-TGG
* * *
863176 GGTTTCGGGTTTTCGGGTTTCG
1 GGTTT-GGGGTTTGGGGTTTGG
*
863198 GGTTTCGGGTTTTCGGGGTTT-G
1 GGTTT-GGGGTTT-GGGGTTTGG
863220 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
863241 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
*
863262 GGTTTAGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
863283 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
863304 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
863325 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
863346 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
* *
863367 GGTTT-GGGTTTAGGGTTTAG
1 GGTTTGGGGTTTGGGGTTTGG
863387 GGTTTAGGGGTTTGGGGTTTGG
1 GGTTT-GGGGTTTGGGGTTTGG
863409 GGTTTGGGTTGTTTGGGGTTTGGG
1 GGTTTGGG--GTTTGGGGTTT-GG
863433 GGTTT-GGGTTTGGGGTTT-G
1 GGTTTGGGGTTTGGGGTTTGG
863452 GGTTTGGGG-TT-GGGTTTGG
1 GGTTTGGGGTTTGGGGTTTGG
863471 GGTTTGGGGTTTGGGGTT
1 GGTTTGGGGTTTGGGGTT
863489 ATGGTTAGGG
Statistics
Matches: 645, Mismatches: 55, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.01
19 18 0.03
20 38 0.06
21 440 0.68
22 98 0.15
23 38 0.06
24 7 0.01
ACGTcount: A:0.03, C:0.02, G:0.54, T:0.42
Consensus pattern (21 bp):
GGTTTGGGGTTTGGGGTTTGG
Found at i:863553 original size:8 final size:7
Alignment explanation
Indices: 863532--864278 Score: 515
Period size: 7 Copynumber: 103.3 Consensus size: 7
863522 TTAGGTTTGC
863532 GGTTTCAG
1 GGTTTC-G
863540 GG-TTCGG
1 GGTTTC-G
863547 GGTTTCG
1 GGTTTCG
*
863554 GGTGT--
1 GGTTTCG
863559 GGTTTCGAG
1 GGTTTC--G
863568 GGTTTCG
1 GGTTTCG
*
863575 GGTTTAG
1 GGTTTCG
863582 GG-TTC-
1 GGTTTCG
863587 GG-TTCG
1 GGTTTCG
863593 GGTTTCG
1 GGTTTCG
863600 GGTTTCG
1 GGTTTCG
863607 GGTTTCAG
1 GGTTTC-G
863615 GGTTTCTG
1 GGTTTC-G
*
863623 GGTTTTAG
1 GG-TTTCG
* *
863631 GTTTTTTG
1 G-GTTTCG
863639 GGTTTTCG
1 GG-TTTCG
863647 GGTTTCG
1 GGTTTCG
*
863654 GGTTGCG
1 GGTTTCG
863661 GGTTTCG
1 GGTTTCG
863668 GGTTTCG
1 GGTTTCG
863675 GGTTTCG
1 GGTTTCG
*
863682 GGTTGCG
1 GGTTTCG
863689 GGTGTTCG
1 GGT-TTCG
863697 GGTTTCAG
1 GGTTTC-G
863705 GG-TTC-
1 GGTTTCG
863710 GG-TTCG
1 GGTTTCG
863716 GTTTGTTTCGG
1 G---GTTTC-G
*
863727 GGTTACG
1 GGTTTCG
863734 GG-TTCG
1 GGTTTCG
863740 GGTTTTCG
1 GG-TTTCG
*
863748 GGTTCCG
1 GGTTTCG
863755 GGTTTACGG
1 GGTTT-C-G
863764 GGATTTCG
1 GG-TTTCG
863772 GGTTTC-
1 GGTTTCG
863778 GGTTTCGG
1 GGTTTC-G
863786 TCGGTGTTCG
1 --GGT-TTCG
863796 GGTTTTCG
1 GG-TTTCG
863804 GGTTTTCG
1 GG-TTTCG
863812 GGTTTCG
1 GGTTTCG
863819 GGTTTACG
1 GGTTT-CG
863827 GGTTTC-
1 GGTTTCG
863833 GGTTTACG
1 GGTTT-CG
863841 GGTTTCG
1 GGTTTCG
863848 GG-TTCG
1 GGTTTCG
863854 GGTTTCG
1 GGTTTCG
863861 GGTTTCG
1 GGTTTCG
863868 GGTTTCG
1 GGTTTCG
*
863875 GGTTTGG
1 GGTTTCG
863882 AGGTTTTCG
1 -GG-TTTCG
863891 GGTTTACG
1 GGTTT-CG
863899 GGTTTC-
1 GGTTTCG
863905 -GTTTCG
1 GGTTTCG
*
863911 GGTGTGACCG
1 GGT-T--TCG
863921 GG-TTCG
1 GGTTTCG
863927 GGTTTCG
1 GGTTTCG
863934 GGTTTCCG
1 GGTTT-CG
863942 GGTTTC-
1 GGTTTCG
863948 GGTTGTCG
1 GGTT-TCG
863956 GGTTTTCG
1 GG-TTTCG
863964 GGTTTTCG
1 GG-TTTCG
863972 GGTTT-G
1 GGTTTCG
*
863978 GG--TGG
1 GGTTTCG
863983 GGTTTCG
1 GGTTTCG
863990 GG-TTCG
1 GGTTTCG
863996 GG-TT-G
1 GGTTTCG
*
864001 GTTCGTATTAG
1 G---GT-TTCG
864012 GGTTTCG
1 GGTTTCG
864019 GGTTTCG
1 GGTTTCG
*
864026 GGTGTCG
1 GGTTTCG
864033 GGTTTCG
1 GGTTTCG
864040 GGTTTCG
1 GGTTTCG
864047 GGTTTCG
1 GGTTTCG
864054 GGTCTTCGG
1 GGT-TTC-G
864063 GAGTTTTCG
1 G-G-TTTCG
864072 TTAGGTTTCG
1 ---GGTTTCG
*
864082 GGATGTCG
1 GG-TTTCG
864090 GGTTATCG
1 GGTT-TCG
864098 GG-TT-G
1 GGTTTCG
*
864103 GG-GTCG
1 GGTTTCG
864109 GGTTTCG
1 GGTTTCG
*
864116 GGTTGCG
1 GGTTTCG
864123 GG--TCG
1 GGTTTCG
864128 GGTTT-G
1 GGTTTCG
864134 GGTTTCG
1 GGTTTCG
864141 GGTTTCG
1 GGTTTCG
864148 GGTATTCCG
1 GGT-TT-CG
864157 GGTTT-G
1 GGTTTCG
*
864163 CG-TTCG
1 GGTTTCG
864169 GGTTTCG
1 GGTTTCG
864176 GG-TTCTG
1 GGTTTC-G
864183 GGTTTCCG
1 GGTTT-CG
864191 GGTTTTCG
1 GG-TTTCG
864199 GGTTTGCGGG
1 GGTTT-C--G
864209 TGGTTTCG
1 -GGTTTCG
864217 GGTTT--
1 GGTTTCG
*
864222 GG-ATCG
1 GGTTTCG
864228 GGTTTC-
1 GGTTTCG
864234 GG-TTCG
1 GGTTTCG
864240 CGGTTTCG
1 -GGTTTCG
864248 GGTTCTCG
1 GGTT-TCG
864256 GGTTTCG
1 GGTTTCG
864263 GGTTTCG
1 GGTTTCG
864270 GGTTTCG
1 GGTTTCG
864277 GG
1 GG
864279 GTAGCGGGTT
Statistics
Matches: 613, Mismatches: 37, Indels: 179
0.74 0.04 0.22
Matches are distributed among these distances:
4 2 0.00
5 39 0.06
6 67 0.11
7 273 0.45
8 157 0.26
9 33 0.05
10 27 0.04
11 14 0.02
12 1 0.00
ACGTcount: A:0.03, C:0.14, G:0.43, T:0.40
Consensus pattern (7 bp):
GGTTTCG
Found at i:863668 original size:21 final size:21
Alignment explanation
Indices: 862752--864278 Score: 525
Period size: 21 Copynumber: 72.4 Consensus size: 21
862742 TCGGGTTTAA
* *
862752 GGTTTAGGGTTTAGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
862773 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
862794 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* * *
862815 GGTTTGGGGTTTGGGGTTGGG
1 GGTTTCGGGTTTCGGGTTGCG
** ** *
862836 GGTTGGGGGTTGGGGGTTGGG
1 GGTTTCGGGTTTCGGGTTGCG
* *
862857 GGTTTGGGGTTTGGGGGTTG-G
1 GGTTTCGGGTTT-CGGGTTGCG
* * *
862878 GGTTTGGGGGTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* * * *
862899 GGTTTGGGGGTTGGGGTTTGGG
1 GGTTTCGGGTTTCGGG-TTGCG
** *
862921 GGTTGGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* * **
862942 GGTTTGGGGTTTGGGGTTTAG
1 GGTTTCGGGTTTCGGGTTGCG
* *
862963 GGTTTAGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
862984 GGTTT-GAGATTTAGGGTTTG-G
1 GGTTTCG-GGTTTCGGG-TTGCG
* * *
863005 GGTTTAGGGTTTGGGGTTTCG
1 GGTTTCGGGTTTCGGGTTGCG
863026 GGTTTCGGGTTTCGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863047 GGTTTGGGGTTTTGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* * *
863068 GGTTT-GGGGTTGGGGTTTACG
1 GGTTTCGGGTTTCGGG-TTGCG
* * * *
863089 GGTTTAGGATTTGGGGTTTCCG
1 GGTTTCGGGTTTCGGG-TTGCG
* * ***
863111 GGTTTGGGGTTTGGGGTTTAA
1 GGTTTCGGGTTTCGGGTTGCG
* *
863132 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863153 GGTTTAGGGTTTTAGGGTTGTCG
1 GGTTTCGGG-TTTCGGGTTG-CG
*
863176 GGTTTCGGGTTTTCGGGTTTCG
1 GGTTTCGGG-TTTCGGGTTGCG
*
863198 GGTTTCGGGTTTTCGGGGTT-TG
1 GGTTTCGGG-TTTC-GGGTTGCG
* *
863220 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863241 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863262 GGTTTAGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863283 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863304 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863325 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863346 GGTTTGGGGTTTGGGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* **
863367 GGTTT-GGGTTTAGGGTTTAG
1 GGTTTCGGGTTTCGGGTTGCG
* *
863387 GGTTTAGGGGTTTGGGGTTTG-G
1 GGTTT-CGGGTTTCGGG-TTGCG
* * *
863409 GGTTTGGGTTGTTTGGGGTTTGGG
1 GGTTTCGG--GTTTCGGG-TTGCG
* *
863433 GGTTT-GGGTTTGGGGTT-TG
1 GGTTTCGGGTTTCGGGTTGCG
*
863452 GGTTT-GGGGTT-GGGTTTG-G
1 GGTTTCGGGTTTCGGG-TTGCG
* * **
863471 GGTTTGGGGTTTGGGGTT-AT
1 GGTTTCGGGTTTCGGGTTGCG
* * **
863491 GG-TTAGGGTTTAGGGTTTGTTA
1 GGTTTCGGGTTTCGGG-TTG-CG
* * *
863513 GGTTTAGGG-TTAGGTTTGC-
1 GGTTTCGGGTTTCGGGTTGCG
*
863532 GGTTTCAGGG-TTCGGGGTTTCG
1 GGTTTC-GGGTTTC-GGGTTGCG
* *
863554 GGTGT--GGTTTCGAGGGTTTCG
1 GGTTTCGGGTTTC--GGGTTGCG
*
863575 GGTTTAGGG-TTC-GGTT-CG
1 GGTTTCGGGTTTCGGGTTGCG
*
863593 GGTTTCGGGTTTCGGGTTTCAG
1 GGTTTCGGGTTTCGGGTTGC-G
* * **
863615 GGTTTCTGGGTTTTAGGTTTTTTG
1 GGTTTC-GGG-TTTCGG-GTTGCG
863639 GGTTTTCGGGTTTCGGGTTGCG
1 GG-TTTCGGGTTTCGGGTTGCG
*
863661 GGTTTCGGGTTTCGGGTTTCG
1 GGTTTCGGGTTTCGGGTTGCG
* *
863682 GGTTGCGGGTGTTCGGGTTTCAG
1 GGTTTCGGGT-TTCGGGTTGC-G
*
863705 GG-TTC-GG-TTCGGTTTGTTTCGG
1 GGTTTCGGGTTTCGG---GTTGC-G
* *
863727 GGTTACGGG-TTCGGGTTTTCG
1 GGTTTCGGGTTTCGGG-TTGCG
* *
863748 GGTTCCGGGTTTACGGGGATTTCG
1 GGTTTCGGGTTT-C-GGG-TTGCG
863772 GGTTTC-GGTTTC-GG-T-C-
1 GGTTTCGGGTTTCGGGTTGCG
*
863788 GGTGTTCGGGTTTTCGGGTTTTCG
1 GGT-TTCGGG-TTTCGGG-TTGCG
*
863812 GGTTTCGGGTTTACGGGTTTC-
1 GGTTTCGGGTTT-CGGGTTGCG
863833 GGTTTACGGGTTTCGGGTT-CG
1 GGTTT-CGGGTTTCGGGTTGCG
*
863854 GGTTTCGGGTTTCGGGTTTCG
1 GGTTTCGGGTTTCGGGTTGCG
* *
863875 GGTTTGGAGGTTTTCGGGTTTACG
1 GGTTTCG-GG-TTTCGGG-TTGCG
863899 GGTTTC--GTTTCGGGTGTGACCG
1 GGTTTCGGGTTTCGGGT-TG--CG
*
863921 GG-TTCGGGTTTCGGGTTTCCG
1 GGTTTCGGGTTTCGGG-TTGCG
*
863942 GGTTTC-GGTTGTCGGGTTTTCG
1 GGTTTCGGGTT-TCGGG-TTGCG
863964 GGTTTTCGGGTTT-GGG-TG-G
1 GG-TTTCGGGTTTCGGGTTGCG
863983 GGTTTCGGG-TTCGGGTT---
1 GGTTTCGGGTTTCGGGTTGCG
* *
864000 GG-TTC--GTATTAGGGTTTCG
1 GGTTTCGGGT-TTCGGGTTGCG
* *
864019 GGTTTCGGGTGTCGGGTTTCG
1 GGTTTCGGGTTTCGGGTTGCG
*
864040 GGTTTCGGGTTTCGGGTCTTCGG
1 GGTTTCGGGTTTCGGGT-TGC-G
*
864063 GAGTTTTCGTTAGGTTTCGGGATGTCG
1 G-G-TTTCG---GGTTTCGGGTTG-CG
*
864090 GGTTATCGGG-TT-GGGGT-CG
1 GGTT-TCGGGTTTCGGGTTGCG
*
864109 GGTTTCGGGTTGCGGG-T-CG
1 GGTTTCGGGTTTCGGGTTGCG
*
864128 GGTTT-GGGTTTCGGGTTTCG
1 GGTTTCGGGTTTCGGGTTGCG
*
864148 GGTATTCCGGGTTT-GCGTT-CG
1 GGT-TT-CGGGTTTCGGGTTGCG
*
864169 GGTTTCGGG-TTCTGGGTTTCCG
1 GGTTTCGGGTTTC-GGG-TTGCG
864191 GGTTTTCGGGTTTGCGGG-T---
1 GG-TTTCGGGTTT-CGGGTTGCG
*
864210 GGTTTCGGGTTT--GGAT-CG
1 GGTTTCGGGTTTCGGGTTGCG
*
864228 GGTTTC-GG-TTCGCGGTTTCG
1 GGTTTCGGGTTTCG-GGTTGCG
*
864248 GGTTCTCGGGTTTCGGGTTTCG
1 GGTT-TCGGGTTTCGGGTTGCG
864270 GGTTTCGGG
1 GGTTTCGGG
864279 GTAGCGGGTT
Statistics
Matches: 1275, Mismatches: 102, Indels: 258
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.00
15 2 0.00
16 16 0.01
17 10 0.01
18 58 0.05
19 87 0.07
20 114 0.09
21 549 0.43
22 227 0.18
23 119 0.09
24 60 0.05
25 15 0.01
26 4 0.00
27 3 0.00
28 10 0.01
ACGTcount: A:0.03, C:0.07, G:0.48, T:0.41
Consensus pattern (21 bp):
GGTTTCGGGTTTCGGGTTGCG
Found at i:864118 original size:18 final size:19
Alignment explanation
Indices: 864086--864278 Score: 121
Period size: 19 Copynumber: 9.7 Consensus size: 19
864076 GTTTCGGGAT
864086 GTCGGGTTATCGGG-TTGGG
1 GTCGGGTT-TCGGGTTTGGG
864105 GTCGGGTTTCGGG-TTGCGG
1 GTCGGGTTTCGGGTTTG-GG
864124 GTCGGGTTT-GGGTTTCGGG
1 GTCGGGTTTCGGGTTT-GGG
* *
864143 TTTCGGGTATTCCGGGTTTGCG
1 -GTCGGGT-TT-CGGGTTTGGG
*
864165 TTCGGGTTTCGGGTTCTGGG
1 GTCGGGTTTCGGGTT-TGGG
*
864185 TTTCCGGGTTTTCGGGTTTGCGG
1 -GT-CGGG-TTTCGGGTTTG-GG
864208 GT--GGTTTCGGGTTT-GG
1 GTCGGGTTTCGGGTTTGGG
* *
864224 ATCGGGTTTC-GGTTCGCGG
1 GTCGGGTTTCGGGTTTG-GG
*
864243 TTTCGGGTTCTCGGGTTTCGGG
1 -GTCGGGTT-TCGGGTTT-GGG
*
864265 TTTCGGGTTTCGGG
1 -GTCGGGTTTCGGG
864279 GTAGCGGGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 38
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.02
17 4 0.03
18 27 0.18
19 33 0.23
20 19 0.13
21 18 0.12
22 24 0.16
23 18 0.12
ACGTcount: A:0.02, C:0.15, G:0.45, T:0.38
Consensus pattern (19 bp):
GTCGGGTTTCGGGTTTGGG
Found at i:864200 original size:101 final size:101
Alignment explanation
Indices: 864088--864278 Score: 241
Period size: 101 Copynumber: 1.9 Consensus size: 101
864078 TTCGGGATGT
* *
864088 CGGGTTATCGGG-TTG-GGGTCGGGTTTCGGGTTGCGGGTCGGGTTTGGGTTTCG-GGTTTCGGG
1 CGGGTTATCGGGTTTGCGGGT--GGTTTCGGGTT-CGGATCGGGTTTCGG-TTCGCGGTTTCGGG
864150 TAT-TCCGGGTTT-GCG-TTCGGGTTTCGGGTTCTGGGTTTC
62 T-TCT-CGGGTTTCGCGTTTCGGGTTTCGGGTTCTGGGTTTC
* *
864189 CGGGTTTTCGGGTTTGCGGGTGGTTTCGGGTTTGGATCGGGTTTCGGTTCGCGGTTTCGGGTTCT
1 CGGGTTATCGGGTTTGCGGGTGGTTTCGGGTTCGGATCGGGTTTCGGTTCGCGGTTTCGGGTTCT
*
864254 CGGGTTTCGGGTTTCGGGTTTCGGG
66 CGGGTTTCGCGTTTCGGGTTTCGGG
864279 GTAGCGGGTT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
99 12 0.15
100 25 0.32
101 35 0.44
102 3 0.04
103 4 0.05
ACGTcount: A:0.02, C:0.15, G:0.45, T:0.38
Consensus pattern (101 bp):
CGGGTTATCGGGTTTGCGGGTGGTTTCGGGTTCGGATCGGGTTTCGGTTCGCGGTTTCGGGTTCT
CGGGTTTCGCGTTTCGGGTTTCGGGTTCTGGGTTTC
Found at i:864286 original size:15 final size:15
Alignment explanation
Indices: 864254--864291 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
864244 TTCGGGTTCT
**
864254 CGGGTTTC-GGGTTT
1 CGGGTTTCGGGGTAG
864268 CGGGTTTCGGGGTAG
1 CGGGTTTCGGGGTAG
864283 CGGGTTTCG
1 CGGGTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.03, C:0.16, G:0.47, T:0.34
Consensus pattern (15 bp):
CGGGTTTCGGGGTAG
Done.